Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold33
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2032796
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 48244 characters in sequence are not A, C, G, or T
File 4 of 13
Found at i:543143 original size:22 final size:23
Alignment explanation
Indices: 543106--543148 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
543096 AAATCTACTT
*
543106 AATTATTTTATATATTGATTAAA
1 AATTATTTTATATATTAATTAAA
*
543129 AATTA-TTTATTTATTAATTA
1 AATTATTTTATATATTAATTA
543149 TTAAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
AATTATTTTATATATTAATTAAA
Found at i:543166 original size:25 final size:26
Alignment explanation
Indices: 543106--543171 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 26
543096 AAATCTACTT
*
543106 AATTATTTTATATATTGATTAAAAAT
1 AATTATTTTATATATTGATTAAAAAA
*
543132 TATT-TATTTAT-TAATT-ATTAAAAAA
1 AATTAT-TTTATAT-ATTGATTAAAAAA
*
543157 AATTATTTTAAATAT
1 AATTATTTTATATAT
543172 ATTATTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
25 19 0.59
26 13 0.41
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
AATTATTTTATATATTGATTAAAAAA
Found at i:544572 original size:14 final size:14
Alignment explanation
Indices: 544550--544584 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
544540 AATTTTTAAT
*
544550 TATAATTAATATAA
1 TATATTTAATATAA
544564 TATATTTAATATAA
1 TATATTTAATATAA
544578 -ATATTTA
1 TATATTTA
544585 TTTTATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TATATTTAATATAA
Found at i:544603 original size:16 final size:17
Alignment explanation
Indices: 544582--544627 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
544572 ATATAAATAT
544582 TTATTTTATATTTTA-A
1 TTATTTTATATTTTATA
* *
544598 TTATTTAATAATTTATA
1 TTATTTTATATTTTATA
544615 TTATTTTATATTT
1 TTATTTTATATTT
544628 ACACCAATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTTTATATTTTATA
Found at i:544603 original size:33 final size:34
Alignment explanation
Indices: 544561--544627 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
544551 ATAATTAATA
544561 TAATATATTTAATATAAATAT-TTATTTTATATTT
1 TAATATATTTAATA-AAATATATTATTTTATATTT
**
544595 TAAT-TATTTAATAATTTATATTATTTTATATTT
1 TAATATATTTAATAAAATATATTATTTTATATTT
544628 ACACCAATAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 4 0.13
33 22 0.73
34 4 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (34 bp):
TAATATATTTAATAAAATATATTATTTTATATTT
Found at i:544628 original size:16 final size:17
Alignment explanation
Indices: 544559--544628 Score: 63
Period size: 17 Copynumber: 4.1 Consensus size: 17
544549 TTATAATTAA
* *
544559 TATAATATATTTAATATA
1 TATAAT-TATTTTATATT
* *
544577 AATATTTATTTTATATT
1 TATAATTATTTTATATT
*
544594 T-TAATTATTTAATAATT
1 TATAATTATTTTAT-ATT
544611 TAT-ATTATTTTATATT
1 TATAATTATTTTATATT
544627 TA
1 TA
544629 CACCAATAGT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
16 15 0.36
17 22 0.52
18 5 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATAATTATTTTATATT
Found at i:548634 original size:20 final size:20
Alignment explanation
Indices: 548606--548680 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
548596 TTTTACCCAG
548606 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
548626 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
548646 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
548666 ATGTATCGATACATT
1 ATGTATCGATACATT
548681 ATGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:548666 original size:40 final size:39
Alignment explanation
Indices: 548606--548683 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
548596 TTTTACCCAG
*
548606 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
548646 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
548684 TCTTTTTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:555759 original size:15 final size:16
Alignment explanation
Indices: 555727--555774 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 16
555717 TGAAAAAGTC
555727 AAAA-GCAAAAGCACAAA
1 AAAATGCAAAAG--CAAA
555744 AAAATG-AAAAG-AAA
1 AAAATGCAAAAGCAAA
555758 AAAATGCAAAAGCAAA
1 AAAATGCAAAAGCAAA
555774 A
1 A
555775 TAAAAAGGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
14 9 0.32
15 5 0.18
16 4 0.14
17 9 0.32
18 1 0.04
ACGTcount: A:0.73, C:0.10, G:0.12, T:0.04
Consensus pattern (16 bp):
AAAATGCAAAAGCAAA
Found at i:557137 original size:55 final size:55
Alignment explanation
Indices: 557068--560421 Score: 1567
Period size: 58 Copynumber: 58.6 Consensus size: 55
557058 TGGCATTTCT
* * * *
557068 TTTTATAGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
** * *
557123 TTTTAAAGTCCACAACTCTATGGCATCCTTTTAAGTCCACAACTCCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
*
557178 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCTGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
*
557234 -TTTAAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGG-ACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
*
557287 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * * * * *
557341 TTTTAAAGTCCACGATTCAGTGGCATTTCTTTTTAAAGTCCACAACTCTGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCA--CCCTTTT-AAGTCCACAACTCCGTGGCACCC
* * * * *
557399 TTTT-AAGTCTACAACTCCGTGGCATCTTTTTAAAGTCTACAACTCCGTGGTACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
*
557454 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCTTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
* * * **
557510 TTTTAAATTCCACAACTCCGTGGCACTCTTTTAAAATCCACAACTCCGTGGCGTCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
** *
557566 TTTTAAAGTCCACAACTCCGTGGCGTCCTTTTAAAGTCCACAACTCCGTGGTACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
*
557622 TTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* *
557676 TTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
** *
557731 TTTTAAAGTCCACAACTCCGTGGCATGCTTTTAAGTCTACAACTCCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* **
557786 TTTTAAAGTCCACAACTTCGTGGCATGCTTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * *
557841 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAAGTCTGTGGCATCG
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
* * * *
557897 TTTT-AAGTCCACAACTCCGTGGTACCCTTTAAAGTCCAGAACTCCATGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* *
557951 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCTGTGGTACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
* * * * *
558007 -TTTAAAGTCCACAACTTCGTGGCACCATTTTAAAGTCCACAACTCTGTGGCATCG
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
* ** *
558062 TTTT-AAGTCCGCAACTCCGTGATACCCTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * * * *
558116 TTTTAAAGTCCACAACTCTGTAGCACCCTTTCAAGTTCACAACTTCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* * * ** * * *
558171 TTTTTAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACACAAGT-CGCTGGCAACC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAG-TC-CACAACTCCG-TGGCACCC
* * * * * * *
558229 TATTTCAAAGCCCACATAAGTCGGTGGCAACCCATTTGAAAGCCCACACAAGTCGGTGGCAACCC
1 T-TTT-AAAGTCCAC--AACTCCGTGGC-ACCC-TTT-TAAG-TC-CACAACTCCGTGGC-ACCC
* * * * * * * *
558294 ATTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
1 -TTTTAAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCACCC
* * * * * * *
558351 TTTTAAAGCCCACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAATCAGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGC-ACCC-TTT-TAAGTCCACAACTCCGTGGCACCC
* * * * * *
558409 TTTCAAAG-CTCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAATCAGTGGCACCC
1 TTTTAAAGTC-CACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
* * * * * * * *
558465 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTT--AAGTCCACA--ACTCCGTGGC-ACCC
* * ** * * * * * * *
558525 TTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAACAC
1 TTTT-AAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGC-ACCC
* * ** * * * * *
558583 TTTTCAAAGCCCACAAATTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTT-AAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCACCC
* * * ** * * *
558640 TTTCAAA-TCCCACAAGTCAGTGGCACTATTTTCAAAGCCCACATGAGTCGGTGGCAACCC
1 TTTTAAAGT-CCACAACTCCGTGGCACCCTTTT--AAGTCCACA--ACTCCGTGGC-ACCC
* * * * * * *
558700 TTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTT-AAAGTCCACAACTCCGTGGCACCCTTTT--AAGTCCACAACTCCGTGGCACCC
* * * * * * * * **
558758 TTTTAAAGCCCACACAAGT-CGCTGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAACAT
1 TTTTAAAG-TC-CACAACTCCG-TGGCACCCTTT-TAAGTCCACAACTCCGTGGC-ACCC
* * * * * * *
558817 TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG-CTCACAAGTCAGTGGCACCC
1 TTTT-AAAGTCCACAACTCCGTGGCACCCTTT-TAAGTC-CACAACTCCGTGGCACCC
* * ** * * * *
558874 TTTCAAAG-CCAACAAGTTAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCCACCC
1 TTTTAAAGTCC-ACAACTCCGTGGCACCCTTTT--AAGTCCACA--ACTCCGTGG-CACCC
* * * * * * * * ** * *
558934 TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTTGGTGGTAACAC
1 TTTT-AAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGG-CACCC
* * * * * * * *
558992 TTTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTT-AAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCACCC
* * * * * * ** *
559049 TTTCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTTAAAGTCCACA--ACTCCGTGGC-ACCCTTTT--AAGTCCACAACTCCGTGGCACCC
* * * * * * * ** *
559109 TTTTAAAGCCCACGAGTCGGTGGCAACACTTTTCAAAGCCCACAAATTAGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGC-ACCCTTTT--AAGTCCACAACTCCGTGGCACCC
* * * * * * * ** **
559167 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAATCCCACAAGTTAGTGGCACTA
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGT-CCACAACTCCGTGGCACCC
* * * * * * *
559223 TTTTCAAAGCCCACATGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAATCAGTGGCACTC
1 TTTT-AAAGTCCACA--ACTCCGTGGC-ACCCTTTT--AAGTCCACAACTCCGTGGCACCC
* * * * * * ** *
559284 TTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTT-AAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCACCC
* * * * * ** * * * *
559341 TTTCAAAGCCCACGAGTCGGTGGCAACATTTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGC-ACCCTTTT--AAGTCCACAACTCCGTGGCACCC
* * * * * ** *
559399 TTTCAAAG-CTCACAAGTCAGTGGCACCCTTTCAAAG-CCAACAAGTTAGTGGCACTC
1 TTTTAAAGTC-CACAACTCCGTGGCACCCTTT-TAAGTCC-ACAACTCCGTGGCACCC
* * * * * * *
559455 TTTTCAAAGCCCACACGAGTCGGTGGCCACCCTTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTT-AAAGTCCACA--ACTCCGTGG-CACCCTTTT--AAGTCCACAACTCCGTGGCACCC
* * * * ** * * * * *
559516 TTTCAAAGCCCACGAGTTGGTGGTAACACTTTTCAAAGCCCACAAATCAGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGG-CACCCTTTT--AAGTCCACAACTCCGTGGCACCC
* * * * * * * * *
559574 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACACGAGTCGGTGGCAACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACA--ACTCCGTGGC-ACCC
* * ** * * * * * * *
559633 TTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAACAC
1 TTTT-AAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGC-ACCC
* * ** * * * *
559691 TTTTCAAAGCCCACAAATTAGTGGCATCCTTTTAAAGCCCACAAGTCAGTGGCACCC
1 TTTT-AAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
* * ** * ** * * *
559748 TTTCAAA-TCCCACAAGTTAGTGGTACTATTTTCAAAGCCCACATGAGTCGGTGGCAACCC
1 TTTTAAAGT-CCACAACTCCGTGGCACCCTTTT--AAGTCCACA--ACTCCGTGGC-ACCC
* * * * * * *
559808 TTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTT-AAAGTCCACAACTCCGTGGCACCCTTTT--AAGTCCACAACTCCGTGGCACCC
* * * ** * * * * * *
559866 TTTCAAAGCCCACAAGTCAATGACACTCTTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTT--AAGTCCACAACTCCGTGGCACCC
* * * * * * ** *
559923 TTTCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTTAAAGTCCACA--ACTCCGTGGC-ACCCTTTT--AAGTCCACAACTCCGTGGCACCC
* * * * * * * * ** *
559983 TTTCAAAGCCCACGAGTCGGTGGCAACACTTTTCAAAGCCCACAAATTAGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGC-ACCCTTTT--AAGTCCACAACTCCGTGGCACCC
* * * * * * ** * *
560041 TTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAATCCCACAAGTTAGTGGTAACAC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGT-CCACAACTCCGTGG-CACCC
* * * * * * * *
560098 TTTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTT-AAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCACCC
* * * * * * ** *
560155 TTTCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTTAAAGTCCACA--ACTCCGTGGC-ACCCTTTT--AAGTCCACAACTCCGTGGCACCC
* * * * * * * * ** *
560215 TTTCAAAGCCCACGAGTCGGTGGCAACACTTTTCAAAGCCCACAAATTAGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGC-ACCCTTTT--AAGTCCACAACTCCGTGGCACCC
* * * * * * ** * **
560273 TTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAATCCCACAAGTTAGTGGTACTA
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGT-CCACAACTCCGTGGCACCC
* * * * * * *
560329 TTTTCAAAGCCCACATGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAATCAGTGGCACTC
1 TTTT-AAAGTCCACA--ACTCCGTGGC-ACCCTTTT--AAGTCCACAACTCCGTGGCACCC
* * *
560390 TTTTCAAAGCCCACAAGTCAGTGGCACCCTTT
1 TTTT-AAAGTCCACAACTCCGTGGCACCCTTT
560422 CAAAGCCCAC
Statistics
Matches: 2816, Mismatches: 359, Indels: 245
0.82 0.10 0.07
Matches are distributed among these distances:
53 48 0.02
54 124 0.04
55 507 0.18
56 495 0.18
57 258 0.09
58 720 0.26
59 155 0.06
60 244 0.09
61 198 0.07
62 26 0.01
63 4 0.00
64 30 0.01
65 6 0.00
66 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (55 bp):
TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
Found at i:557140 original size:28 final size:28
Alignment explanation
Indices: 557068--561045 Score: 3082
Period size: 28 Copynumber: 138.1 Consensus size: 28
557058 TGGCATTTCT
* * * * *
557068 TTTTATAGTCCACAACTCCGTGGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * *
557096 TTTT-AAGTCCATAACTCCGTGGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * *
557123 TTTTAAAGTCCACAACTCTA-TGGCATCC
1 TTTTAAAGCCCACAAGTC-AGTGGCACCC
* * * *
557151 TTTT-AAGTCCACAACTCCGTGGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * *
557178 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * *
557206 TTTTAAAGTCCACAACTCTGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * *
557234 -TTTAAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * *
557261 -TTTAAAGTCCACAACTCCGTGG-ACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * *
557287 TTTT-AAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * *
557314 TTTT-AAGTCCACAACTCCGTGGCACTC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * *
557341 TTTTAAAGTCCACGATTCAGTGGCATTTCT
1 TTTTAAAGCCCACAAGTCAGTGGCA--CCC
* * * *
557371 TTTTAAAGTCCACAACTCTGTGGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * * *
557399 TTTT-AAGTCTACAACTCCGTGGCATCT
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * *
557426 TTTTAAAGTCTACAACTCCGTGGTACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * *
557454 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * **
557482 TTTTAAAGTCCACAACTCCTTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
** * * *
557510 TTTTAAATTCCACAACTCCGTGGCACTC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
** * * **
557538 TTTTAAAATCCACAACTCCGTGGCGTCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * **
557566 TTTTAAAGTCCACAACTCCGTGGCGTCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * *
557594 TTTTAAAGTCCACAACTCCGTGGTACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * *
557622 TTTTAAAGTCCACAACTCTGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * *
557650 TTTT-AAGTCCACAACTCCGTGGCA-CC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * *
557676 TTTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * *
557704 TTTT-AAGTCCACAACTCCGTGGCACTC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * **
557731 TTTTAAAGTCCACAACTCCGTGGCATGC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * *
557759 TTTT-AAGTCTACAACTCCGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * **
557786 TTTTAAAGTCCACAACTTC-GTGGCATGC
1 TTTTAAAGCCCACAA-GTCAGTGGCACCC
* * *
557814 TTTT-AAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * *
557841 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * *
557869 TTTTAAAGTCCACAAGTCTGTGGCATCG
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * *
557897 TTTT-AAGTCCACAACTCCGTGGTACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * *
557924 -TTTAAAGTCCAGAACTCCA-TGGCACCC
1 TTTTAAAGCCCACAAGT-CAGTGGCACCC
* * *
557951 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * *
557979 TTTTAAAGTCCACAACTCTGTGGTACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * *
558007 -TTTAAAGTCCACAACTTC-GTGGCACCA
1 TTTTAAAGCCCACAA-GTCAGTGGCACCC
* * * * *
558034 TTTTAAAGTCCACAACTCTGTGGCATCG
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * **
558062 TTTT-AAGTCCGCAACTCCGTGATACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * *
558089 -TTTAAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * *
558116 TTTTAAAGTCCACAACTCTGTAGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* ** * *
558144 -TTTCAAGTTCACAACTTC-GTGGCATCC
1 TTTTAAAGCCCACAA-GTCAGTGGCACCC
* *
558171 TTTTTAAGCCCACAAGTTAGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
*
558199 TTTTAAAGCCCACACAAGTC-GCTGGCAACC
1 TTTTAAAG-CC-CACAAGTCAG-TGGCACCC
*
558229 TATTTCAAAGCCCACATAAGTCGGTGGCAACCC
1 T-TTT-AAAGCCCAC--AAGTCAGTGGC-ACCC
* *
558262 ATTTGAAAGCCCACACAAGTCGGTGGCAACCC
1 -TTTTAAAG-CC-CACAAGTCAGTGGC-ACCC
* *
558294 ATTTCAAAGCCCACAAATCAGTGGCACCC
1 -TTTTAAAGCCCACAAGTCAGTGGCACCC
*
558323 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
*
558351 TTTTAAAGCCCACAAGTCGGTGGCAACCC
1 TTTTAAAGCCCACAAGTCAGTGGC-ACCC
* *
558380 ATTTCAAAGCCCACAAATCAGTGGCACCC
1 -TTTTAAAGCCCACAAGTCAGTGGCACCC
* *
558409 TTTCAAAGCTCACAAGTCAGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
*
558437 TTTTAAAGCCCACAAATCAGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* *
558465 TTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
*
558493 TTTTCAAAGCCCACACGAGTCGGTGGCAACCC
1 TTTT-AAAGCCCACA--AGTCAGTGGC-ACCC
* *
558525 TTTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* * * *
558554 TTTCAAAGCCCACGAGTCGGTGGCAACAC
1 TTTTAAAGCCCACAAGTCAGTGGC-ACCC
* * *
558583 TTTTCAAAGCCCACAAATTAGTGGCATCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
*
558612 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * **
558640 TTTCAAATCCCACAAGTCAGTGGCACTA
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
*
558668 TTTTCAAAGCCCACATGAGTCGGTGGCAACCC
1 TTTT-AAAGCCCACA--AGTCAGTGGC-ACCC
* *
558700 TTTTCAAAGCCCACAAATCAGTGGCACTC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
558729 TTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
*
558758 TTTTAAAGCCCACACAAGTC-GCTGGCATCC
1 TTTTAAAG-CC-CACAAGTCAG-TGGCACCC
* * * **
558788 TTTCAAAGCCCACGAGTCGGTGGCAACAT
1 TTTTAAAGCCCACAAGTCAGTGGC-ACCC
*
558817 TTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* *
558846 TTTCAAAGCTCACAAGTCAGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * *
558874 TTTCAAAGCCAACAAGTTAGTGGCACTC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
*
558902 TTTTCAAAGCCCACACGAGTCGGTGGCCACCC
1 TTTT-AAAGCCCACA--AGTCAGTGG-CACCC
*
558934 TTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* * ** * *
558963 TTTCAAAGCCCACGAGTTGGTGGTAACAC
1 TTTTAAAGCCCACAAGTCAGTGG-CACCC
*
558992 TTTTCAAAGCCCACAAATCAGTGGCACCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* *
559021 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* *
559049 TTTCAAAGCCCACACGAGTCGGTGGCAACCC
1 TTTTAAAGCCCACA--AGTCAGTGGC-ACCC
* *
559080 TTTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* * *
559109 TTTTAAAGCCCACGAGTCGGTGGCAACAC
1 TTTTAAAGCCCACAAGTCAGTGGC-ACCC
* * *
559138 TTTTCAAAGCCCACAAATTAGTGGCATCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
*
559167 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * **
559195 TTTCAAATCCCACAAGTTAGTGGCACTA
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
*
559223 TTTTCAAAGCCCACATGAGTCGGTGGCAACCC
1 TTTT-AAAGCCCACA--AGTCAGTGGC-ACCC
* *
559255 TTTTCAAAGCCCACAAATCAGTGGCACTC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
559284 TTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* * *
559313 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * **
559341 TTTCAAAGCCCACGAGTCGGTGGCAACAT
1 TTTTAAAGCCCACAAGTCAGTGGC-ACCC
*
559370 TTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* *
559399 TTTCAAAGCTCACAAGTCAGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * *
559427 TTTCAAAGCCAACAAGTTAGTGGCACTC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
*
559455 TTTTCAAAGCCCACACGAGTCGGTGGCCACCC
1 TTTT-AAAGCCCACA--AGTCAGTGG-CACCC
*
559487 TTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* * ** * *
559516 TTTCAAAGCCCACGAGTTGGTGGTAACAC
1 TTTTAAAGCCCACAAGTCAGTGG-CACCC
*
559545 TTTTCAAAGCCCACAAATCAGTGGCACCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* *
559574 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* *
559602 TTTCAAAGCCCACACGAGTCGGTGGCAACCC
1 TTTTAAAGCCCACA--AGTCAGTGGC-ACCC
* *
559633 TTTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* * * *
559662 TTTCAAAGCCCACGAGTCGGTGGCAACAC
1 TTTTAAAGCCCACAAGTCAGTGGC-ACCC
* * *
559691 TTTTCAAAGCCCACAAATTAGTGGCATCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
559720 TTTTAAAGCCCACAAGTCAGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * **
559748 TTTCAAATCCCACAAGTTAGTGGTACTA
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
*
559776 TTTTCAAAGCCCACATGAGTCGGTGGCAACCC
1 TTTT-AAAGCCCACA--AGTCAGTGGC-ACCC
* *
559808 TTTTCAAAGCCCACAAATCAGTGGCACTC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
559837 TTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* * * *
559866 TTTCAAAGCCCACAAGTCAATGACACTC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
*
559894 TTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* *
559923 TTTCAAAGCCCACACGAGTCGGTGGCAACCC
1 TTTTAAAGCCCACA--AGTCAGTGGC-ACCC
* *
559954 TTTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* * * *
559983 TTTCAAAGCCCACGAGTCGGTGGCAACAC
1 TTTTAAAGCCCACAAGTCAGTGGC-ACCC
* * *
560012 TTTTCAAAGCCCACAAATTAGTGGCATCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
560041 TTTTAAAGCCCACAAGTCAGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * *
560069 TTTCAAATCCCACAAGTTAGTGGTAACAC
1 TTTTAAAGCCCACAAGTCAGTGG-CACCC
*
560098 TTTTCAAAGCCCACAAATCAGTGGCACCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* *
560127 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* *
560155 TTTCAAAGCCCACACGAGTCGGTGGCAACCC
1 TTTTAAAGCCCACA--AGTCAGTGGC-ACCC
* *
560186 TTTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* * * *
560215 TTTCAAAGCCCACGAGTCGGTGGCAACAC
1 TTTTAAAGCCCACAAGTCAGTGGC-ACCC
* * *
560244 TTTTCAAAGCCCACAAATTAGTGGCATCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
560273 TTTTAAAGCCCACAAGTCAGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* * * * **
560301 TTTCAAATCCCACAAGTTAGTGGTACTA
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
*
560329 TTTTCAAAGCCCACATGAGTCGGTGGCAACCC
1 TTTT-AAAGCCCACA--AGTCAGTGGC-ACCC
* *
560361 TTTTCAAAGCCCACAAATCAGTGGCACTC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
560390 TTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* * * *
560419 TTTCAAAGCCCACAAGTCAATGACACTC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* *
560447 TTTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* * *
560476 TTTCAAAGCCCACAAGTTAGTGGCGCCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* *
560504 TTTCAAAGCCCACGTAAGTTAGTGGCACCC
1 TTTTAAAGCCCAC--AAGTCAGTGGCACCC
* *
560534 TTTCAAAGCCCACAAGTTC-GTGGC-CTTC
1 TTTTAAAGCCCACAAG-TCAGTGGCAC-CC
*
560562 TTTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* * **
560591 TTTCAAAGCCCACAAGTTAGTGGCACTT
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
** *
560619 TTTTCAAAGCCCACACGAGTTGGTGGCAACTC
1 TTTT-AAAGCCCACA--AGTCAGTGGC-ACCC
* *
560651 TTTTCAAAGCCCATACAAGTTAGTGGCACCATTTT
1 TTTT-AAAGCCC--ACAAGTCAGTGGCACC----C
*
560686 TTTATAAAAAAGCCCACGCAAGTCGGTGGCAACCC
1 TTT-T---AAAGCCCA--CAAGTCAGTGGC-ACCC
* *
560721 TTTTCAAAGCCCACAAATCAGTGGCACTC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
560750 TTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* * * *
560779 TTTCAAAGCCCACAAGTCAATGACACTC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* *
560807 TTTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* * *
560836 TTTCAAAGCCCACAAGTTAGTGGCGCCC
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
* *
560864 TTTCAAAGCCCACGTAAGTTAGTGGCACCC
1 TTTTAAAGCCCAC--AAGTCAGTGGCACCC
* *
560894 TTTCAAAGCCCACAAGTTC-GTGGCACTC
1 TTTTAAAGCCCACAAG-TCAGTGGCACCC
*
560922 TTTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTT-AAAGCCCACAAGTCAGTGGCACCC
* * ** * **
560951 TTTCAAAACTTACAAGTTAGTGGCACTT
1 TTTTAAAGCCCACAAGTCAGTGGCACCC
** *
560979 TTTTCAAAGCCCACACGAGTTGGTGGCAACTC
1 TTTT-AAAGCCCACA--AGTCAGTGGC-ACCC
* *
561011 TTTTCAAAGCCCACACAAGTTAGTGGCACCA
1 TTTT-AAAG-CC-CACAAGTCAGTGGCACCC
561042 TTTT
1 TTTT
561046 TTTATAAAAA
Statistics
Matches: 3322, Mismatches: 480, Indels: 293
0.81 0.12 0.07
Matches are distributed among these distances:
26 36 0.01
27 387 0.12
28 1502 0.45
29 532 0.16
30 446 0.13
31 111 0.03
32 258 0.08
33 10 0.00
34 12 0.00
35 6 0.00
36 2 0.00
38 17 0.01
39 3 0.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (28 bp):
TTTTAAAGCCCACAAGTCAGTGGCACCC
Found at i:558736 original size:321 final size:312
Alignment explanation
Indices: 557114--561040 Score: 3247
Period size: 321 Copynumber: 12.4 Consensus size: 312
557104 CCATAACTCC
* * * * * * *
557114 GTGGCATCCTTTT-AAAGTCCACAACTCTA-TGGCATCCTTT-TAAGTCCACAACTCCGTGGCA-
1 GTGGCA-CCTTTTCAAAGCCCACAAGT-TAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * * * *
557175 TCCTTTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCTGTGGCACCCTTT-A
64 T-CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCA
* * * * * * * *
557238 AAGTCCACAACTCCGTGGCAC-CCTTT-AAAGTCCACAACTCCGTGG-ACCCTTTT--AAGTCCA
128 AAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCA
* * * * * * ** * * *
557298 CAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGC-ACTCTTTT-AAAGTCCACGATTCA
193 CAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAAC-CTTTTCAAAGCCCACAAGTCA
* * * * * * * * * * * *
557360 GTGGCATTTCTTTTTAAAGTCCACAACTCTGTGGCATCCTTT-TAAGTCTACAACTCC
257 GTGGCA--CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * * ** * * * * * *
557417 GTGGCATCTTTTTAAAGTCTACAACTCCGTGGTACCCTTTTAAAGTCCACAACTCCGTGGCACCC
1 GTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* * ** ** * * * * *
557482 TTTT-AAAGTCCACAACTCCTTGGCACCCTTTTAAATTCCACAACTCCGTGGCACTCTTTTAAAA
66 TTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * * * * * * ** *
557546 TCCACAACTCCGTGGC-GTCCTTTT-AAAGTCCACAACTCCGTGGCGTCCTTTT-AAAGTCCACA
131 CCCACAAGTCAGTGGCACT-CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACA
* * * * * * * * * * *
557608 ACTCCGTGGTACCCTTTTAAAGTCCACAACTCT-GTGGCACCCTTTT--AAGTCCACAACTCCGT
195 AGTCAGTGGCATCCTTTCAAAGCCCACAAGT-TAGTGGCAACCTTTTCAAAGCCCACAAGTCAGT
** * * * * * * *
557670 GGCA-CCTTTTTAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCC
259 GGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCA
* * ** ** * * * * * *
557722 GTGGCACTCTTTT-AAAGTCCACAACTCCGTGGCATGCTTT-TAAGTCTACAACTCCGTGGCACC
1 GTGGCAC-CTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * ** * * * *
557785 CTTTT-AAAGTCCACAACTTC-GTGGCATGCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAA
65 CTTTTCAAAGCCCACAA-GTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAA
* * * * * * * * *
557847 AGTCCACAACTCCGTGGCACCCTTTT-AAAGTCCACAAGTCTGTGGCATCGTTTT--AAGTCCAC
129 AGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCAC
* * * * * * * * * * * *
557909 AACTCCGTGGTACCCTTT-AAAGTCCAGAACTCCA-TGGCACCCTTTT-AAAGTCCACAACTCCG
194 AAGTCAGTGGCATCCTTTCAAAGCCCACAAGT-TAGTGGCAACCTTTTCAAAGCCCACAAGTCAG
* * * * * * *
557971 TGGCACCCTTTTAAAGTCCACAACTCTGTGGTACCCTTT-AAAGTCCACAACTTC-
258 TGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA-GTCA
* * * * * * * * * **
558025 GTGGCACCATTTT-AAAGTCCACAACTCT-GTGGCATCGTTT-TAAGTCCGCAACTCCGTGATAC
1 GTGGCACC-TTTTCAAAGCCCACAAGT-TAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * * * * * *
558087 -CCTTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCTGTAGCACCCTTTC-A
64 TCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAA
** * * *
558149 AGTTCACAACTTC-GTGGCA-TCCTTTT-TAAGCCCACAAGTTAGTGGCACCCTTTT-AAAGCCC
129 AGCCCACAA-GTCAGTGGCACT-CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAG-CC
* ** * *
558210 ACACAAGTC-GCTGGCAACCTATTTCAAAGCCCACATAAGTCGGTGGCAACCCATTTGAAAGCCC
191 -CACAAGTCAG-TGGCATCC--TTTCAAAGCCCAC--AAGTTAGTGGCAA-CCTTTTCAAAG-CC
* *
558274 ACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAG
248 -CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAG
558339 TCA
310 TCA
** *
558342 GTGGCACCCTTTT-AAAGCCCACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAATCAGTGGCA
1 GTGGCA-CCTTTTCAAAGCCCACAAGTTAGTGGC-ACCC-TTTCAAAGCCCACAAGTCAGTGGCA
* * *
558406 C-CCTTTCAAAGCTCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAATCAGTGGCACCCTTTCA
63 CTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCA
*
558470 AAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGC
128 AAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-ACCCTTTTCAAAGC
* * ** *
558535 CCACAAGTTAGTGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAACACTTTTCAAAGCCCACAAA
190 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAAC-CTTTTCAAAGCCCACAAG
* * *
558600 TTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAATCCCACAAGTCA
254 TCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCA
* ** *
558659 GTGGCACTATTTTCAAAGCCCACATGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAATCAGTGG
1 GTGGCAC-CTTTTCAAAGCCCACA--AGTTAGTGGC-ACCC-TTTCAAAGCCCACAAGTCAGTGG
*
558724 CACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACACAAGTC-GCTGGCATCC
61 CACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAG-CC-CACAAGTCAG-TGGCACCC
* * *
558788 TTTCAAAGCCCACGAGTCGGTGGCAACAT-TTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCA
123 TTTCAAAGCCCACAAGTCAGTGGC-AC-TCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCA
* * *
558851 AAGCTCACAAGTCAGTGGCACCCTTTCAAAGCCAACAAGTTAGTGGC-ACTCTTTTCAAAGCCCA
186 AAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAAC-CTTTTCAAAGCCCA
* * *
558915 CACGAGTCGGTGGCCACCCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGT
250 CA--AGTCAGTGG-CACCC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGT
**
558980 TG
311 CA
* * *
558982 GTGGTAACACTTTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-
1 GTGG-CAC-CTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
559046 TCCTTTCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTAGTGGCATCCTT
64 TCTTTTCAAAGCCCACA--AGTCAGTGGC-ACCCTTTT-AAAGCCCACAAGTCAGTGGCACCCTT
* * * * * * *
559111 TTAAAGCCCACGAGTCGGTGGCAACACTTTTCAAAGCCCACAAATTAGTGGCATCC-TTTCAAAG
125 TCAAAGCCCACAAGTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAG
* * *
559175 CCCACAAGTCAGTGGCACCCTTTCAAATCCCACAAGTTAGTGGC-ACTATTTTCAAAGCCCACAT
189 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAAC-CTTTTCAAAGCCCACA-
* * *
559239 GAGTCGGTGGCAACCCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCA
252 -AGTCAGTGGC-ACCC-TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCA
* * * *
559304 GTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAACA
1 GTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-AC-
* * *
559369 T-TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCTCACAAGTCAGTGGCACCCTTTCAA
64 TCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAA
* * *
559433 AGCCAACAAGTTAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCCACCCTTTTCAAAGCC
129 AGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGG-CACCCTTTTCAAAGCC
* * * *
559498 CACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTTGGTGGTAACACTTTTCAAAGCCCACAAAT
191 CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAAC-CTTTTCAAAGCCCACAAGT
* *
559563 CAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACACGAGTCG
255 CAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA--AGTCA
* * *
559623 GTGGCAACCCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAA
1 GTGGC-A-CCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-A
* * * *
559688 CACTTTTCAAAGCCCACAAATTAGTGGCATCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCA
63 CTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCA
* * * * *
559753 AATCCCACAAGTTAGTGGTACTATTTTCAAAGCCCACATGAGTCGGTGGCAACCCTTTTCAAAGC
128 AAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-ACCCTTTTCAAAGC
* * * *
559818 CCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGC-ACCCTTTCAAAGCCCACAAG
190 CCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTTAGTGGCAACCTTTTCAAAGCCCACAAG
* * * * *
559882 TCAATGACACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACACGAGTCG
254 TCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA--AGTCA
* * *
559944 GTGGCAACCCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAA
1 GTGGC-A-CCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-A
* * * *
560009 CACTTTTCAAAGCCCACAAATTAGTGGCATCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCA
63 CTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCA
* * * * *
560074 AATCCCACAAGTTAGTGGTAACACTTTTCAAAGCCCACAAATCAGTGGCACCC-TTTCAAAGCCC
128 AAGCCCACAAGTCAGTGG-CACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCC
**
560138 ACAAGTCAGTGGCATCCTTTCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAG
192 ACAAGTCAGTGGCATCCTTTCAAAGCCCACA--AGTTAGTGGCAA-CCTTTTCAAAGCCCACAAG
* * * * * * *
560203 TTAGTGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAACACTTTTCAAAGCCCACAAATTA
254 TCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-AC-CCTTTCAAAGCCCACAAGTCA
* * * *
560264 GTGGCATCCTTTT-AAAGCCCACAAGTCAGTGGCACCCTTTCAAATCCCACAAGTTAGTGGTACT
1 GTGGCA-CCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
560328 ATTTTCAAAGCCCACATGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAATCAGTGGCACTCTTT
65 CTTTTCAAAGCCCACA--AGTCAGTGGC-ACCCTTTT-AAAGCCCACAAGTCAGTGGCAC-CCTT
* * * *
560393 TCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAATGACACTCTTTTCAAAGC
125 TCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGC
* * *
560457 CCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGC-GCCCTTTCAAAGCCCACGTAA
190 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAACCTTTTCAAAGCCCAC--AA
* * *
560521 GTTAGTGGCACCCTTTCAAAGCCCACAAGTTC-GTGGC-CTTCTTTTCAAAGCCCACAAGTTA
253 GTCAGTGGCACCCTTTCAAAGCCCACAAG-TCAGTGGCAC--CCTTTCAAAGCCCACAAGTCA
* ** **
560582 GTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTTTTTTCAAAGCCCACACGAGTTGGTGGCA
1 GTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCCACA--AGTCAGTGGC-
* * *
560647 ACTCTTTTCAAAGCCCATACAAGTTAGTGGCACCATTTTTTTATAAAAAAGCCCACGCAAGTCGG
62 ACTCTTTTCAAAGCCC--ACAAGTCAGTGGCACC----CTTT-T---AAAGCCCA--CAAGTCAG
*
560712 TGGCAACCCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC
115 TGGC-ACCC-TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
560777 CC-TTTCAAAGCCCACAAGTCAATGACACTCTTTTCAAAGCCCACAAGTTAGTGGCATCC-TTTC
178 CCTTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTTAGTGGCAACCTTTTC
* * *
560840 AAAGCCCACAAGTTAGTGGCGCCCTTTCAAAGCCCACGTAAGTTAGTGGCACCCTTTCAAAGCCC
242 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC--AAGTCAGTGGCACCCTTTCAAAGCCC
560905 ACAAGTTC-
305 ACAAG-TCA
* ** *
560913 GTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAACTTACAAGTTAGTGGCACT
1 GTGGCAC-CTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT
* ** * *
560978 TTTTTCAAAGCCCACACGAGTTGGTGGCAACTCTTTTCAAAGCCCACACAAGTTAGTGGCACC
65 CTTTTCAAAGCCCACA--AGTCAGTGGC-ACCCTTTT-AAAG-CC-CACAAGTCAGTGGCACC
561041 ATTTTTTTAT
Statistics
Matches: 3134, Mismatches: 343, Indels: 276
0.84 0.09 0.07
Matches are distributed among these distances:
301 27 0.01
302 120 0.04
303 221 0.07
304 127 0.04
305 106 0.03
306 28 0.01
307 9 0.00
308 49 0.02
309 23 0.01
310 9 0.00
311 5 0.00
312 4 0.00
313 1 0.00
314 12 0.00
315 4 0.00
316 29 0.01
317 178 0.06
318 193 0.06
319 155 0.05
320 302 0.10
321 843 0.27
322 219 0.07
323 112 0.04
324 40 0.01
325 29 0.01
326 15 0.00
327 4 0.00
328 32 0.01
329 11 0.00
330 38 0.01
331 85 0.03
332 101 0.03
333 3 0.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.24
Consensus pattern (312 bp):
GTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC
TTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAA
GTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAACCTTTTCAAAGCCCACAAGTCAGTGG
CACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCA
Found at i:559600 original size:553 final size:550
Alignment explanation
Indices: 558176--561025 Score: 4027
Period size: 553 Copynumber: 5.1 Consensus size: 550
558166 CATCCTTTTT
* * * *
558176 AAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACACAAG-TCGCTGGCAAC-CTATTTCAAAG
1 AAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTTAG-TGGC-ACTC-CTTTCAAAG
* *
558239 CCCACATAAGTCGGTGGCAACCCATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGC
61 CCCAC--AAGTCGGTGGCAA-CC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGC
* * *
558304 CCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGT
118 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGT
* * * * * * **
558368 CGGTGGCAACCCATTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCTCACAAGTCAGTGG-
183 CGGTGGCCACCCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTTGGTGGT
* * *
558432 CACCCTTTT-AAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTT
248 AACACTTTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTT
558496 TCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAA
312 TCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAA
558561 GCCCACGAGTCGGTGGCAACACTTTTCAAAGCCCACAAATTAGTGGCATCCTTTCAAAGCCCACA
377 GCCCACGAGTCGGTGGCAACACTTTTCAAAGCCCACAAATTAGTGGCATCCTTTCAAAGCCCACA
*
558626 AGTCAGTGGCACCCTTTCAAATCCCACAAGTCAGTGGCACTATTTTCAAAGCCCACATGAGTCGG
442 AGTCAGTGGCACCCTTTCAAATCCCACAAGTTAGTGGCACTATTTTCAAAGCCCACATGAGTCGG
558691 TGGCAACCCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
507 TGGCAACCCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
* *
558735 AAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACACAAG-TCGCTGGCA-TCCTTTCAAAGCC
1 AAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTTAG-TGGCACTCCTTTCAAAGCC
* * * *
558798 CACGAGTCGGTGGCAACATTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCTCACAAGT
63 CACAAGTCGGTGGCAAC--CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGT
*
558863 CAGTGGCACCCTTTCAAAGCCAACAAGTTAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGG
126 CAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACA--AGTCGGTGG
558928 CCACCCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTTGGTGGTAACACT
189 CCACCCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTTGGTGGTAACACT
558993 TTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
254 TTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
*
559058 CCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTTAAAGCCCACG
319 CCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACG
559123 AGTCGGTGGCAACACTTTTCAAAGCCCACAAATTAGTGGCATCCTTTCAAAGCCCACAAGTCAGT
384 AGTCGGTGGCAACACTTTTCAAAGCCCACAAATTAGTGGCATCCTTTCAAAGCCCACAAGTCAGT
559188 GGCACCCTTTCAAATCCCACAAGTTAGTGGCACTATTTTCAAAGCCCACATGAGTCGGTGGCAAC
449 GGCACCCTTTCAAATCCCACAAGTTAGTGGCACTATTTTCAAAGCCCACATGAGTCGGTGGCAAC
559253 CCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
514 CCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
559290 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCAC
1 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGCCCAC
* * * *
559354 GAGTCGGTGGCAACATTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCTCACAAGTCAG
66 AAGTCGGTGGCAAC--CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAG
*
559419 TGGCACCCTTTCAAAGCCAACAAGTTAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCCA
129 TGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACA--AGTCGGTGGCCA
559484 CCCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTTGGTGGTAACACTTTT
192 CCCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTTGGTGGTAACACTTTT
559549 CAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCA
257 CAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCA
559614 CACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACGAGT
322 CACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACGAGT
*
559679 CGGTGGCAACACTTTTCAAAGCCCACAAATTAGTGGCATCCTTTTAAAGCCCACAAGTCAGTGGC
387 CGGTGGCAACACTTTTCAAAGCCCACAAATTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC
*
559744 ACCCTTTCAAATCCCACAAGTTAGTGGTACTATTTTCAAAGCCCACATGAGTCGGTGGCAACCCT
452 ACCCTTTCAAATCCCACAAGTTAGTGGCACTATTTTCAAAGCCCACATGAGTCGGTGGCAACCCT
559809 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
517 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
* * * *
559843 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGACACTCTTTTCAAAGCCCAC
1 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGCCCAC
* * * *
559908 AAGTCAGTGGCATCCTTTCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTT
66 AAGTCGGTGGCAACCTTTCAAAGCCCACA--AGTCAGTGGC-ACCC-TTTCAAAGCCCACAAGTC
* * ** * * **
559973 AGTGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAACACTTTTCAAAGCCCACAAATTAGTGG-C
127 AGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGC-ACTCTTTTCAAAGCCCACAAGTCGGTGGCC
* * * * *
560037 ATCCTTTT-AAAGCCCACAAGTCAGTGGCACCCTTTCAAATCCCACAAGTTAGTGGTAACACTTT
191 ACCCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTTGGTGGTAACACTTT
560101 TCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCC
256 TCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCC
560166 ACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACGAG
321 ACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACGAG
*
560231 TCGGTGGCAACACTTTTCAAAGCCCACAAATTAGTGGCATCCTTTTAAAGCCCACAAGTCAGTGG
386 TCGGTGGCAACACTTTTCAAAGCCCACAAATTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
*
560296 CACCCTTTCAAATCCCACAAGTTAGTGGTACTATTTTCAAAGCCCACATGAGTCGGTGGCAACCC
451 CACCCTTTCAAATCCCACAAGTTAGTGGCACTATTTTCAAAGCCCACATGAGTCGGTGGCAACCC
560361 TTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
516 TTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
* * * *
560396 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGACACTCTTTTCAAAGCCCAC
1 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGCCCAC
** * * * *
560461 AAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCGCCCTTTCAAAGCCCACGTAAGTTAG
66 AAGTCGGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC--AAGTCAG
* **
560526 TGGCACCCTTTCAAAGCCCACAAGTTCGTGGC-CTTCTTTTCAAAGCCCACAAGTTAGTGG-CAC
129 TGGCACCCTTTCAAAGCCCACAAGTTAGTGGCAC-TCTTTTCAAAGCCCACAAGTCGGTGGCCAC
* ** * *
560589 CC-TTTCAAAGCCCACAAGTTAGTGGCACTTTTTTCAAAGCCCACACGAGTTGGTGGCAACTCTT
193 CCTTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAG-CC-CACGAGTTGGTGGTAACACTT
* * * * *
560653 TTCAAAGCCCATACAAGTTAGTGGCACCATTTTTTTATAAAAAAGCCCACGCAAGTCGGTGGCAA
255 TTCAAAGCCC--ACAAATCAGTGGCACC-----CTT-T--CAAAGCCCA--CAAGTCAGTGGC-A
* * * * * *
560718 CCCTTTTCAAAGCCCACA--AATCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
307 TCC-TTTCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTAGTGGCATCCT
* ** * * *
560780 TTCAAAGCCCACAAGTCAATGAC-ACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAG
371 TTCAAAGCCCACGAGTCGGTGGCAACACTTTTCAAAGCCCACAAATTAGTGGCATCCTTTCAAAG
* * * **
560844 CCCACAAGTTAGTGGCGCCCTTTCAAAGCCCACGTAAGTTAGTGGCAC-CCTTTCAAAGCCCACA
436 CCCACAAGTCAGTGGCACCCTTTCAAATCCCAC--AAGTTAGTGGCACTATTTTCAAAGCCCACA
* * * *
560908 --AGTTC-GTGGC-ACTCTTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCA
499 TGAG-TCGGTGGCAACCCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
* ** * ** * *
560956 AAACTTACAAGTTAGTGGCACTTTTTTCAAAGCCCACACGAGTTGGTGGCAACTCTTTTCAAAGC
1 AAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACA--AGTTAGTGGC-ACTCCTTTCAAAGC
561021 CCACA
62 CCACA
561026 CAAGTTAGTG
Statistics
Matches: 2134, Mismatches: 114, Indels: 81
0.92 0.05 0.03
Matches are distributed among these distances:
549 17 0.01
550 51 0.02
551 105 0.05
552 29 0.01
553 1038 0.49
554 109 0.05
555 320 0.15
556 94 0.04
557 31 0.01
558 2 0.00
559 48 0.02
560 25 0.01
561 43 0.02
562 7 0.00
563 84 0.04
564 83 0.04
565 31 0.01
566 3 0.00
567 14 0.01
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (550 bp):
AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGCCCAC
AAGTCGGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTG
GCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCGGTGGCCACCCT
TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTTGGTGGTAACACTTTTCAAA
GCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACACG
AGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACGAGTCGGT
GGCAACACTTTTCAAAGCCCACAAATTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCC
TTTCAAATCCCACAAGTTAGTGGCACTATTTTCAAAGCCCACATGAGTCGGTGGCAACCCTTTTC
AAAGCCCACAAATCAGTGGCACTCTTTTCA
Found at i:561169 original size:45 final size:48
Alignment explanation
Indices: 561105--561224 Score: 129
Period size: 49 Copynumber: 2.5 Consensus size: 48
561095 CTGTCTGACA
* * *
561105 TCGCTAGCATTGAATCAGCATATT-GAC-ACCTTT-ATTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGACTACCTTTCATTAGCCCAATG
* * * *
561150 TCGCTGGCCTTGAATCAGCACATTGGTCTACTTTTCCCTTAGTCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGACTACCTTT-CATTAGCCCAATG
**
561199 TCGCTGGCCTTGAATTGGCACATTGG
1 TCGCTGGCCTTGAATCAGCACATTGG
561225 CAATCCTCTC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
45 21 0.34
46 2 0.03
47 5 0.08
49 34 0.55
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.33
Consensus pattern (48 bp):
TCGCTGGCCTTGAATCAGCACATTGGACTACCTTTCATTAGCCCAATG
Found at i:565871 original size:19 final size:18
Alignment explanation
Indices: 565846--565910 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
565836 ATTTCAACGA
565846 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
565864 TGTTGTATCGAT--ATAA-
1 T-TTGTATCGATACATAAG
565880 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
565896 TTTTGTATTGATACA
1 -TTTGTATCGATACA
565911 ATGTATCGCT
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
13 9 0.23
15 4 0.10
17 4 0.10
18 1 0.03
19 21 0.54
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:565884 original size:32 final size:32
Alignment explanation
Indices: 565848--565918 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
565838 TTCAACGATT
*
565848 TGTATCGATACATAAGTGTTGTATCGATATAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
565880 TGTATCGATACATAAGTTTTGTATTGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
565912 TGTATCG
1 TGTATCG
565919 CTAGGAAGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:566961 original size:20 final size:20
Alignment explanation
Indices: 566924--566962 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
566914 ACAACCTTGA
*
566924 TCATGCATTTTTACCATGTT
1 TCATGCATTTATACCATGTT
*
566944 TCATGCATTTATAGCATGT
1 TCATGCATTTATACCATGT
566963 CCAGCACCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (20 bp):
TCATGCATTTATACCATGTT
Found at i:572990 original size:8 final size:8
Alignment explanation
Indices: 572973--573020 Score: 50
Period size: 7 Copynumber: 6.5 Consensus size: 8
572963 AAGTAAACAT
572973 AAAA-AAC
1 AAAACAAC
572980 AAAACAAC
1 AAAACAAC
572988 AAAA-AAC
1 AAAACAAC
*
572995 AAAAAAAC
1 AAAACAAC
*
573003 -AAACAAA
1 AAAACAAC
573010 AAAACAA-
1 AAAACAAC
573017 AAAA
1 AAAA
573021 AATGCAAAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
7 20 0.56
8 16 0.44
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAACAAC
Found at i:572993 original size:15 final size:15
Alignment explanation
Indices: 572973--573022 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
572963 AAGTAAACAT
572973 AAAAAACAAAACAAC
1 AAAAAACAAAACAAC
*
572988 AAAAAACAAAAAAAC
1 AAAAAACAAAACAAC
573003 AAACAAA-AAAACAA-
1 AAA-AAACAAAACAAC
573017 AAAAAA
1 AAAAAA
573023 TGCAAAGGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 3 0.09
14 3 0.09
15 23 0.72
16 3 0.09
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAACAAAACAAC
Found at i:573021 original size:8 final size:8
Alignment explanation
Indices: 572967--573021 Score: 57
Period size: 8 Copynumber: 7.4 Consensus size: 8
572957 AGTCAAAAGT
572967 AAACATAAA
1 AAACA-AAA
572976 AAACAAAA
1 AAACAAAA
*
572984 CAAC-AAA
1 AAACAAAA
572991 AAACAAAA
1 AAACAAAA
572999 AAAC----
1 AAACAAAA
573003 AAACAAAA
1 AAACAAAA
573011 AAACAAAA
1 AAACAAAA
573019 AAA
1 AAA
573022 ATGCAAAGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
4 4 0.10
7 6 0.15
8 24 0.62
9 5 0.13
ACGTcount: A:0.84, C:0.15, G:0.00, T:0.02
Consensus pattern (8 bp):
AAACAAAA
Found at i:574356 original size:30 final size:31
Alignment explanation
Indices: 574294--574667 Score: 433
Period size: 31 Copynumber: 11.9 Consensus size: 31
574284 TTCAAATACC
* *
574294 TTCTT-AAAGTCCATGACTCAGTGGCAATCTC
1 TTCTTCAAAGTCCACGACTCAGTGGC-ATCTT
*
574325 TT-TTCAAAGTCCACAACTCAGTGGCATCTCT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCT-T
*
574356 TT-TCCCAAAGTCCACGACTCAGTGGCATCCTT
1 TTCT-TCAAAGTCCACGACTCAGTGGCAT-CTT
* *
574388 TTC-CCAAAGTCCACGACTCAGTGGCATTTTTT
1 TTCTTCAAAGTCCACGACTCAGTGGCA--TCTT
574420 TTCTTCAAAGTCCACGACTCAGTGGCATCTTTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATC--TT
*
574453 TTCTTCAAAGTCCACTGACTCAGTGGCAATCTC
1 TTCTTCAAAGTCCAC-GACTCAGTGGC-ATCTT
* *
574486 TTC-CCAAAGTCCACGGCTCAGTGGCATCTTTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATC--TT
574518 TTCTTCAAAGTCCACGACTCAGTGGCAT-TT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
*
574548 TGTC-TCAAAGTCCATGACTCAGTGGCAT-TT
1 T-TCTTCAAAGTCCACGACTCAGTGGCATCTT
* *
574578 TGTC-TCAAAGTCCATGACTTAGTGGCATCCTT
1 T-TCTTCAAAGTCCACGACTCAGTGGCAT-CTT
574610 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
1 TTCTTCAAAGTCCACGACTCAGTGGCATCTT
*
574641 TTCTTCAAAGTCCACGACTCCGTGGCA
1 TTCTTCAAAGTCCACGACTCAGTGGCA
574668 CCCTTTTTCC
Statistics
Matches: 305, Mismatches: 19, Indels: 38
0.84 0.05 0.10
Matches are distributed among these distances:
30 64 0.21
31 90 0.30
32 69 0.23
33 68 0.22
34 11 0.04
35 3 0.01
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.32
Consensus pattern (31 bp):
TTCTTCAAAGTCCACGACTCAGTGGCATCTT
Found at i:574378 original size:63 final size:63
Alignment explanation
Indices: 574294--574667 Score: 451
Period size: 63 Copynumber: 5.9 Consensus size: 63
574284 TTCAAATACC
* * * *
574294 TTCTTAAAGTCCATGACTCAGTGGCAATCTCTT-TTCAAAGTCCACAACTCAGTGGCATCTCTT
1 TTCTCAAAGTCCACGACTCAGTGGC-ATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTT
* * * *
574357 TTCCCAAAGTCCACGACTCAGTGGCATCCTTTTC-CCAAAGTCCACGACTCAGTGGCATTTTTT
1 TTCTCAAAGTCCACGACTCAGTGGCAT-CTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTT
574420 TTCTTCAAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACTGACTCAGTGGCAATCT
1 TTC-TCAAAGTCCACGACTCAGTGGCATC--TTTTCTTCAAAGTCCAC-GACTCAGTGGC-ATCT
574485 C--
61 CTT
* *
574486 TTCCCAAAGTCCACGGCTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCAT-T-TT
1 TTCTCAAAGTCCACGACTCAGTGGCATC--TTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTT
* * * *
574549 GTCTCAAAGTCCATGACTCAGTGGCAT-TTTGTC-TCAAAGTCCATGACTTAGTGGCATC-CTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTTT-TCTTCAAAGTCCACGACTCAGTGGCATCTCTT
*
574610 TTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCCGTGGCA
1 TTC-TCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCA
574668 CCCTTTTTCC
Statistics
Matches: 270, Mismatches: 25, Indels: 32
0.83 0.08 0.10
Matches are distributed among these distances:
60 25 0.09
61 6 0.02
62 28 0.10
63 103 0.38
64 34 0.13
65 47 0.17
66 13 0.05
67 11 0.04
68 3 0.01
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.32
Consensus pattern (63 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTT
Found at i:574506 original size:98 final size:95
Alignment explanation
Indices: 574299--574667 Score: 473
Period size: 98 Copynumber: 3.9 Consensus size: 95
574289 ATACCTTCTT
* * * * * * *
574299 AAAGTCCATGACTCAGTGGCA-ATCTCTT-TTCAAAGTCCACAACTCAGTGGCATCTCTTTTCCC
1 AAAGTCCACGACTCAGTGGCATTTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTTTCTC
574362 AAAGTCCACGACTCAGTGGCATCCTTTTCCC
66 AAAGTCCACGACTCAGTGGCAT-CTTTTCCC
574393 AAAGTCCACGACTCAGTGGCATTTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTTTCTT
1 AAAGTCCACGACTCAGTGGCATTTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTTTC-T
*
574458 CAAAGTCCACTGACTCAGTGGCAATCTCTTCCC
65 CAAAGTCCAC-GACTCAGTGGC-ATCTTTTCCC
* * *
574491 AAAGTCCACGGCTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCA--TTTTGTCTC
1 AAAGTCCACGACTCAGTGGCATTTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTTTCTC
* *
574554 AAAGTCCATGACTCAGTGGCAT-TTTGTCTC
66 AAAGTCCACGACTCAGTGGCATCTTT-TCCC
* * ** *
574584 AAAGTCCATGACTTAGTGGCA-TCCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCT-TC
1 AAAGTCCACGACTCAGTGGCATTTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTTTCTC
*
574647 AAAGTCCACGACTCCGTGGCA
66 AAAGTCCACGACTCAGTGGCA
574668 CCCTTTTTCC
Statistics
Matches: 244, Mismatches: 23, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
92 31 0.13
93 44 0.18
94 36 0.15
95 14 0.06
96 37 0.15
97 10 0.04
98 70 0.29
99 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (95 bp):
AAAGTCCACGACTCAGTGGCATTTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTTTCTC
AAAGTCCACGACTCAGTGGCATCTTTTCCC
Found at i:574720 original size:34 final size:34
Alignment explanation
Indices: 574599--574998 Score: 472
Period size: 34 Copynumber: 11.9 Consensus size: 34
574589 CCATGACTTA
** * *
574599 GTGGCATCCTT-TT-CTTCAAAGTCCACGACTCA
1 GTGGCATCCTTGTTCCTTTTAAGTCCACAACTCC
** *
574631 GTGGCAT-CTT-TT-CTTCAAAGTCCACGACTCC
1 GTGGCATCCTTGTTCCTTTTAAGTCCACAACTCC
* *
574662 GTGGCACCCTTTTTCCCTTTTAAGTCCACAACTCC
1 GTGGCATCCTTGTT-CCTTTTAAGTCCACAACTCC
* * **
574697 ATGGCATCCTTTTTCCTTTTAAGTCCACAACTTT
1 GTGGCATCCTTGTTCCTTTTAAGTCCACAACTCC
*
574731 GTGGCATCCTTGTTCCTTTTAAGTCCACAACTCT
1 GTGGCATCCTTGTTCCTTTTAAGTCCACAACTCC
*
574765 GTGGCATCCTTGTTCCTTTTAAGTCCACAACTCT
1 GTGGCATCCTTGTTCCTTTTAAGTCCACAACTCC
574799 GTGGCATCCTTGTTCCTTTTTAAGTCCACAACTCC
1 GTGGCATCCTTGTTCC-TTTTAAGTCCACAACTCC
*
574834 GTGGCATCCTTATTCCTTTTAAGTCCACAACTCC
1 GTGGCATCCTTGTTCCTTTTAAGTCCACAACTCC
* * *
574868 GTGGCATCCTTGTTCCTTTTAAGTCCATAATTCT
1 GTGGCATCCTTGTTCCTTTTAAGTCCACAACTCC
* * *
574902 GTGGCATCCTTGTTCCATTTAAGTCTACAACTCT
1 GTGGCATCCTTGTTCCTTTTAAGTCCACAACTCC
* * * *
574936 GTGGCACCCTTGTTCCTTTTAAGTCTACAGCTTC
1 GTGGCATCCTTGTTCCTTTTAAGTCCACAACTCC
* *
574970 GTGGCAT-CTT-TCTCCTATTAAGCCCACAA
1 GTGGCATCCTTGT-TCCTTTTAAGTCCACAA
574999 GTTAGTGGCA
Statistics
Matches: 330, Mismatches: 32, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
31 29 0.09
32 11 0.03
33 18 0.05
34 212 0.64
35 60 0.18
ACGTcount: A:0.19, C:0.30, G:0.14, T:0.37
Consensus pattern (34 bp):
GTGGCATCCTTGTTCCTTTTAAGTCCACAACTCC
Found at i:574820 original size:137 final size:136
Alignment explanation
Indices: 574585--575013 Score: 537
Period size: 137 Copynumber: 3.2 Consensus size: 136
574575 TTTTGTCTCA
** ** * *
574585 AAGTCCATGACTTAGTGGCATCCTT-TT-CTTCAAAGTCCACGACTCAGTGGCAT-CTT-TT-CT
1 AAGTCCACAACTTAGTGGCATCCTTGTTCCTTTTAAGTCCACAACTCTGTGGCATCCTTGTTCCT
** * * * *
574645 TCAAAGTCCACGACTCCGTGGCACCCTTTTTCCCTTTTAAGTCCACAACTCCATGGCATCCTTTT
66 TTTAAGTCCACAACTCTGTGGCACCCTTGTT-CCTTTTAAGTCCACAACTCCGTGGCATCCTTTT
574710 TCCTTTT
130 TCCTTTT
*
574717 AAGTCCACAACTTTGTGGCATCCTTGTTCCTTTTAAGTCCACAACTCTGTGGCATCCTTGTTCCT
1 AAGTCCACAACTTAGTGGCATCCTTGTTCCTTTTAAGTCCACAACTCTGTGGCATCCTTGTTCCT
* *
574782 TTTAAGTCCACAACTCTGTGGCATCCTTGTTCCTTTTTAAGTCCACAACTCCGTGGCATCCTTAT
66 TTTAAGTCCACAACTCTGTGGCACCCTTGTTCC-TTTTAAGTCCACAACTCCGTGGCATCCTTTT
574847 TCCTTTT
130 TCCTTTT
** * * *
574854 AAGTCCACAACTCCGTGGCATCCTTGTTCCTTTTAAGTCCATAATTCTGTGGCATCCTTGTTCCA
1 AAGTCCACAACTTAGTGGCATCCTTGTTCCTTTTAAGTCCACAACTCTGTGGCATCCTTGTTCCT
* * * * *
574919 TTTAAGTCTACAACTCTGTGGCACCCTTGTTCCTTTTAAGTCTACAGCTTCGTGGCAT-CTTTCT
66 TTTAAGTCCACAACTCTGTGGCACCCTTGTTCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTT
*
574983 CCTATT
131 CCTTTT
* * *
574989 AAGCCCACAAGTTAGTGGCACCCTT
1 AAGTCCACAACTTAGTGGCATCCTT
575014 TTCAAAAACC
Statistics
Matches: 258, Mismatches: 33, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
132 22 0.09
133 2 0.01
134 22 0.09
135 32 0.12
136 26 0.10
137 154 0.60
ACGTcount: A:0.19, C:0.30, G:0.14, T:0.37
Consensus pattern (136 bp):
AAGTCCACAACTTAGTGGCATCCTTGTTCCTTTTAAGTCCACAACTCTGTGGCATCCTTGTTCCT
TTTAAGTCCACAACTCTGTGGCACCCTTGTTCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTT
CCTTTT
Found at i:575226 original size:49 final size:49
Alignment explanation
Indices: 575104--575942 Score: 858
Period size: 49 Copynumber: 17.8 Consensus size: 49
575094 GGCATTTTCT
* * * *
575104 TTTAAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* *
575153 TTTTAAG-CCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTC
1 -TTTAAGTCC-AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
*
575203 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTTATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* *
575252 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* *
575295 TTTAAGTCCAATATAGCTGGCCTTGAATTAGCATATTGGCACCTCATCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT--TTATC
* *
575346 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
575389 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* *
575438 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
*
575481 TTTAAGTCCAATATAGCTGACCTTGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * *
575530 TTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA-C-----C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * * * * *
575573 TTTAAGTCCAATATCGTTGGCCTTAAATCAGTATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* *
575622 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
*
575665 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * * * *
575714 TTTAAGTCCAATGTCGTTGGCCTTGAATTAGCACATTGGCA-C-----C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * *
575757 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
** * * * * * *
575806 TTTAAACCCAATGTTGTTGGCCTTGAATCAACACATCGGCA--TTCT-TC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-TATC
* * * * * * *
575853 TTTAAGTCCAATGTCGCTGACCTTAAATCAGCACATTGACACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * * *
575902 CTTAAGTCCAATATCGTTGACCTTGAATCAGCATATTGGCA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
575943 TTTTTAACAT
Statistics
Matches: 671, Mismatches: 74, Indels: 89
0.80 0.09 0.11
Matches are distributed among these distances:
43 230 0.34
44 6 0.01
47 36 0.05
48 5 0.01
49 308 0.46
50 47 0.07
51 39 0.06
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (49 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
Found at i:575330 original size:92 final size:92
Alignment explanation
Indices: 575202--575942 Score: 1095
Period size: 92 Copynumber: 8.0 Consensus size: 92
575192 GCACCTTTTT
* *
575202 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
575267 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
575294 CTTTAAGTCCAATATAGCTGGCCTTGAATTAGCATATTGGCACCTCATCATCTTTAAGTCCAATG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT--TCATCTTTAAGTCCAATG
575359 TAGCTGGCCTTGAATCAGCACATTGGCAC
64 TAGCTGGCCTTGAATCAGCACATTGGCAC
*
575388 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
575453 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
575480 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
575545 GCTGGCCTTGAATCAACACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * * * *
575572 CTTTAAGTCCAATATCGTTGGCCTTAAATCAGTATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
575637 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
575664 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
* *
575729 GTTGGCCTTGAATTAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * ** *
575756 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAACCCAATGTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
* * *
575821 GTTGGCCTTGAATCAACACATCGGCATTC
66 GCTGGCCTTGAATCAGCACATTGGCA--C
* * * * * * * *
575850 TTCTTTAAGTCCAATGTCGCTGACCTTAAATCAGCACATTGACACCTTCATCCTTAAGTCCAATA
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
* * * *
575915 TCGTTGACCTTGAATCAGCATATTGGCA
64 TAGCTGGCCTTGAATCAGCACATTGGCA
575943 TTTTTAACAT
Statistics
Matches: 597, Mismatches: 46, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
92 430 0.72
94 91 0.15
96 76 0.13
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:575482 original size:21 final size:20
Alignment explanation
Indices: 575458--575525 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
575448 ATGTAGCTGG
575458 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCA-ATTGGCA
* *
575479 CCTTTAAGTC--CAATATAGCTGA
1 CCTTGAA-TCAGCAAT-TGGC--A
575501 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCA-ATTGGCA
575522 CCTT
1 CCTT
575526 TATCTTTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (20 bp):
CCTTGAATCAGCAATTGGCA
Found at i:575638 original size:184 final size:184
Alignment explanation
Indices: 575104--575942 Score: 1167
Period size: 184 Copynumber: 4.5 Consensus size: 184
575094 GGCATTTTCT
* * * *
575104 TTTAAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTTAAG-CCTAATAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC-TTTAAGTCC-AATGT
*
575168 CGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATATAGCTGGCCTTGAATCA
64 CGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAATATAGCTGGCCTTGAATCA
* *
575233 GCATATTGACACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
123 GCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
* * *
575295 TTTAAGTCCAATATAGCTGGCCTTGAATTAGCATATTGGCACCTCATCATCTTTAAGTCCAATGT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT--TTATCTTTAAGTCCAATGT
*
575360 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
64 CGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
*
575425 TGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
129 TGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
* * *
575481 TTTAAGTCCAATATAGCTGACCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCG
* * * * *
575546 CTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATCGTTGGCCTTAAATCAGTATATTG
66 CTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
*
575611 GCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
131 GCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
575665 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCG
* * *
575730 TTGGCCTTGAATTAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
66 CTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
* ** * * * *
575795 GCATCTTCATCTTTAAACCCAATGTTGTTGGCCTTGAATCAACACATCGGCATTCTTC
131 GCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--C--C
* * * * * * * *
575853 TTTAAGTCCAATGTCGCTGACCTTAAATCAGCACATTGACACCTTCATCCTTAAGTCCAATATCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCG
* * *
575918 TTGACCTTGAATCAGCATATTGGCA
66 CTGGCCTTGAATCAGCACATTGGCA
575943 TTTTTAACAT
Statistics
Matches: 595, Mismatches: 46, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
184 299 0.50
186 135 0.23
188 80 0.13
191 41 0.07
192 35 0.06
193 5 0.01
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (184 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTCG
CTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
GCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
Found at i:576030 original size:148 final size:145
Alignment explanation
Indices: 575179--576033 Score: 421
Period size: 141 Copynumber: 6.1 Consensus size: 145
575169 GCTGGCCTTG
* * ** * * * *
575179 AATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACA
1 AATCAGCACATTGACACCTTCATCCTTAAGTCCAATATCGCTGACCTTGAATCAGCATATTGGCA
* * * ** * * * * * *
575244 CCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--C--CTTTAAGTCCA
66 TCTTCAACTTTAAACCCAATGTCGTTGGCCTTGAATCAACACATCGGCATTCTTCTTCAAATCCA
* * * * *
575305 ATATAGCTGGCCTTG
131 ATGTCGCTGACCATA
* * * * * * * *
575320 AATTAGCATATTGGCACCTCATCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
1 AATCAGCACATTGACACCT--TCATCCTTAAGTCCAATATCGCTGACCTTGAATCAGCATATTGG
** * * * * * * *
575385 CA----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-TATCTTTAA
64 CATCTTCAACTTTAAACCCAATGTCGTTGGCCTTGAATCAACACATCGGCA--TTCT-TCTTCAA
* * * * *
575443 GTCCAATGTAGCTGGCCTTG
126 ATCCAATGTCGCTGACCATA
* *
575463 AATCAGCACATTGGCA-C--C-T--TTAAGTCCAATATAGCTGACCTTGAATCAGCATATTGGCA
1 AATCAGCACATTGACACCTTCATCCTTAAGTCCAATATCGCTGACCTTGAATCAGCATATTGGCA
* * * ** * * * * *
575522 CCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA--C--CTTTAAGTCCA
66 TCTTCAACTTTAAACCCAATGTCGTTGGCCTTGAATCAACACATCGGCATTCTTCTTCAAATCCA
* * * *
575583 ATATCGTTGGCCTTA
131 ATGTCGCTGACCATA
* * * * * * * * *
575598 AATCAGTATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 AATCAGCACATTGACACCTTCATCCTTAAGTCCAATATCGCTGACCTTGAATCAGCATATTGGCA
** * * * * * * *
575663 ----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TATCTTTAAGT
66 TCTTCAACTTTAAACCCAATGTCGTTGGCCTTGAATCAACACATCGGCA--TTCT-TCTTCAAAT
* * * *
575721 CCAATGTCGTTGGCCTTG
128 CCAATGTCGCTGACCATA
* * *
575739 AATTAGCACATTGGCA-C--C-T--TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 AATCAGCACATTGACACCTTCATCCTTAAGTCCAATATCGCTGACCTTGAATCAGCATATTGGCA
* * * *
575798 TCTTCATCTTTAAACCCAATGTTGTTGGCCTTGAATCAACACATCGGCATTCTTCTTTAAGTCCA
66 TCTTCAACTTTAAACCCAATGTCGTTGGCCTTGAATCAACACATCGGCATTCTTCTTCAAATCCA
*
575863 ATGTCGCTGACCTTA
131 ATGTCGCTGACCATA
*
575878 AATCAGCACATTGACACCTTCATCCTTAAGTCCAATATCGTTGACCTTGAATCAGCATATTGGCA
1 AATCAGCACATTGACACCTTCATCCTTAAGTCCAATATCGCTGACCTTGAATCAGCATATTGGCA
* * * *** * *
575943 TTTTTAACATTCCTAAGCCCAATGTCGTTGGCCTTTTCTCAGCACATTGGCATTCTTCTTCAAAT
66 TCTTCAAC-TT--TAAACCCAATGTCGTTGGCCTTGAATCAACACATCGGCATTCTTCTTCAAAT
** *
576008 TTAATGTCGCT-AGCCATG
128 CCAATGTCGCTGA-CCATA
576026 AATCAGCA
1 AATCAGCA
576034 TATTATCATT
Statistics
Matches: 596, Mismatches: 72, Indels: 85
0.79 0.10 0.11
Matches are distributed among these distances:
135 148 0.25
136 1 0.00
137 42 0.07
138 3 0.01
139 42 0.07
140 3 0.01
141 165 0.28
142 2 0.00
143 81 0.14
145 43 0.07
146 2 0.00
147 1 0.00
148 63 0.11
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (145 bp):
AATCAGCACATTGACACCTTCATCCTTAAGTCCAATATCGCTGACCTTGAATCAGCATATTGGCA
TCTTCAACTTTAAACCCAATGTCGTTGGCCTTGAATCAACACATCGGCATTCTTCTTCAAATCCA
ATGTCGCTGACCATA
Found at i:576807 original size:19 final size:18
Alignment explanation
Indices: 576785--576841 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
576775 GATTTGTACA
576785 GATACATAAGTGTTGTATC
1 GATACATAAGT-TTGTATC
576804 GATAC--AA---TGTATC
1 GATACATAAGTTTGTATC
576817 GATACATAAGTTTTGTATC
1 GATACATAAG-TTTGTATC
576836 GATACA
1 GATACA
576842 ATGTATCGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.34
15 2 0.06
17 2 0.06
19 17 0.53
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (18 bp):
GATACATAAGTTTGTATC
Found at i:576816 original size:13 final size:13
Alignment explanation
Indices: 576798--576822 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
576788 ACATAAGTGT
576798 TGTATCGATACAA
1 TGTATCGATACAA
576811 TGTATCGATACA
1 TGTATCGATACA
576823 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:576821 original size:32 final size:32
Alignment explanation
Indices: 576785--576849 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
576775 GATTTGTACA
576785 GATACATAAGTGTTGTATCGATACAATGTATC
1 GATACATAAGTGTTGTATCGATACAATGTATC
*
576817 GATACATAAGTTTTGTATCGATACAATGTATC
1 GATACATAAGTGTTGTATCGATACAATGTATC
576849 G
1 G
576850 CTAGGAAGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (32 bp):
GATACATAAGTGTTGTATCGATACAATGTATC
Found at i:576912 original size:13 final size:13
Alignment explanation
Indices: 576894--576918 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
576884 ATTAGTCAAA
576894 TGTATCGATACAT
1 TGTATCGATACAT
576907 TGTATCGATACA
1 TGTATCGATACA
576919 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:577882 original size:20 final size:20
Alignment explanation
Indices: 577845--577883 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
577835 ACAACCTTGA
*
577845 TCATGCATTTTTACCATGTT
1 TCATGCATTTATACCATGTT
*
577865 TCATGCATTTATAGCATGT
1 TCATGCATTTATACCATGT
577884 CCAGCACCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (20 bp):
TCATGCATTTATACCATGTT
Found at i:580590 original size:96 final size:96
Alignment explanation
Indices: 580426--580617 Score: 357
Period size: 96 Copynumber: 2.0 Consensus size: 96
580416 ATCTAATGGT
580426 AAAGTTCCCAACACCAACTAGAGTGGGATATCTTAAAACCAATCAAGCAACTGCCTAATAGTGCC
1 AAAGTTCCCAACACCAACTAGAGTGGGATATCTTAAAACCAATCAAGCAACTGCCTAATAGTGCC
*
580491 ACCTTATATCCGTTGAGCTAACAAATGAGGG
66 ACCTTATATCCGTTGAGCTAACAAATAAGGG
580522 AAAGTTCCCAACACCAACTAGAGTGGGATATCTTAAAACCAATCAAGCAACTGCCTAATAGTGCC
1 AAAGTTCCCAACACCAACTAGAGTGGGATATCTTAAAACCAATCAAGCAACTGCCTAATAGTGCC
**
580587 ACCTTATATTTGTTGAGCTAACAAATAAGGG
66 ACCTTATATCCGTTGAGCTAACAAATAAGGG
580618 GTGACATGAC
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 93 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (96 bp):
AAAGTTCCCAACACCAACTAGAGTGGGATATCTTAAAACCAATCAAGCAACTGCCTAATAGTGCC
ACCTTATATCCGTTGAGCTAACAAATAAGGG
Found at i:592709 original size:19 final size:18
Alignment explanation
Indices: 592691--592740 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
592681 AAAATTATAT
592691 TTAATAATTAAAAAAATA
1 TTAATAATTAAAAAAATA
*
592709 TTAA-AATAAAAATAAATA
1 TTAATAATTAAAA-AAATA
*
592727 AT-ATAATTAAAAAA
1 TTAATAATTAAAAAA
592741 TAAAAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 10 0.37
18 17 0.63
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
TTAATAATTAAAAAAATA
Found at i:592716 original size:20 final size:20
Alignment explanation
Indices: 592693--592783 Score: 64
Period size: 20 Copynumber: 4.5 Consensus size: 20
592683 AATTATATTT
*
592693 AATAATTAAAAAAATATTAA
1 AATAATTAAAAAAATATAAA
*
592713 AATAA-AAATAAATAATATAATTA
1 AATAATTAA-AAA-AATATAA--A
* *
592736 AA-AAAT-AAAAAATAAAAA
1 AATAATTAAAAAAATATAAA
592754 AATTAATTAAAAATAATATAAA
1 AA-TAATTAAAAA-AATATAAA
592776 AAT-ATTAA
1 AATAATTAA
592784 TATAAAAATA
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
18 3 0.05
19 2 0.04
20 22 0.39
21 14 0.25
22 12 0.21
23 3 0.05
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
AATAATTAAAAAAATATAAA
Found at i:592740 original size:26 final size:26
Alignment explanation
Indices: 592711--592791 Score: 96
Period size: 26 Copynumber: 3.1 Consensus size: 26
592701 AAAAAATATT
592711 AAAATAAAAATAAATAATA-TAATTAA
1 AAAATAAAAATAAA-AATATTAATTAA
*
592737 AAAATAAAAAATAAAAAAATTAATT-A
1 AAAAT-AAAAATAAAAATATTAATTAA
*
592763 AAAAT-AATATAAAAATATTAATATAA
1 AAAATAAAAATAAAAATATTAAT-TAA
592789 AAA
1 AAA
592792 TAATTTTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
24 15 0.31
25 1 0.02
26 18 0.38
27 14 0.29
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (26 bp):
AAAATAAAAATAAAAATATTAATTAA
Found at i:592760 original size:27 final size:26
Alignment explanation
Indices: 592711--592791 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 26
592701 AAAAAATATT
*
592711 AAAATAAAAAT-AAATAATATAATTAA
1 AAAATAAAAATAAAAAAAT-TAATTAA
592737 AAAATAAAAAATAAAAAAATTAATT-A
1 AAAAT-AAAAATAAAAAAATTAATTAA
* *
592763 AAAAT-AATATAAAAATATTAATATAA
1 AAAATAAAAATAAAAAAATTAAT-TAA
592789 AAA
1 AAA
592792 TAATTTTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
24 15 0.31
25 1 0.02
26 15 0.31
27 11 0.23
28 6 0.12
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (26 bp):
AAAATAAAAATAAAAAAATTAATTAA
Found at i:592784 original size:14 final size:14
Alignment explanation
Indices: 592747--592793 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
592737 AAAATAAAAA
*
592747 ATAAAAAAATTAAT
1 ATAAAAATATTAAT
592761 -T-AAAA-A-TAAT
1 ATAAAAATATTAAT
592771 ATAAAAATATTAAT
1 ATAAAAATATTAAT
592785 ATAAAAATA
1 ATAAAAATA
592794 ATTTTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 4 0.14
11 2 0.07
12 8 0.28
13 2 0.07
14 13 0.45
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAAAAATATTAAT
Found at i:592788 original size:19 final size:20
Alignment explanation
Indices: 592714--592788 Score: 54
Period size: 19 Copynumber: 4.0 Consensus size: 20
592704 AAATATTAAA
*
592714 ATAAAAATAAATAATATAAT
1 ATAAAAATAATTAATATAAT
*
592734 -TAAAAAATAA--AAAATAA-
1 AT-AAAAATAATTAATATAAT
* *
592751 A-AAAATTAATTAAAAATAAT
1 ATAAAAATAATT-AATATAAT
592771 ATAAAAAT-ATTAATATAA
1 ATAAAAATAATTAATATAA
592789 AAATAATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 15
0.70 0.06 0.24
Matches are distributed among these distances:
16 7 0.16
18 6 0.14
19 14 0.32
20 12 0.27
21 5 0.11
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAAAAATAATTAATATAAT
Found at i:594038 original size:17 final size:16
Alignment explanation
Indices: 594002--594107 Score: 65
Period size: 16 Copynumber: 6.7 Consensus size: 16
593992 ACAAATTTAT
* **
594002 TAATTTAAATTTAATT
1 TAATTTAAATTAAAAA
594018 TAATTTAAAATTAAAAA
1 TAATTT-AAATTAAAAA
* * *
594035 TAATTTGAAGTCAAAA
1 TAATTTAAATTAAAAA
* *
594051 TAATTTTAATT-TAAA
1 TAATTTAAATTAAAAA
* *
594066 TATATTTTAATTTAAAA
1 TA-ATTTAAATTAAAAA
**
594083 TAA-TT-AATTTTAAA
1 TAATTTAAATTAAAAA
594097 TAATTTAAATT
1 TAATTTAAATT
594108 TAAATTAAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
14 11 0.15
15 9 0.12
16 36 0.49
17 18 0.24
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (16 bp):
TAATTTAAATTAAAAA
Found at i:594072 original size:16 final size:15
Alignment explanation
Indices: 594048--594112 Score: 80
Period size: 15 Copynumber: 4.3 Consensus size: 15
594038 TTTGAAGTCA
594048 AAATAATTTTAATTT
1 AAATAATTTTAATTT
594063 AAATATATTTTAATTT
1 AAATA-ATTTTAATTT
594079 AAAATAA--TTAATTTT
1 -AAATAATTTTAA-TTT
*
594094 AAATAATTTAAATTT
1 AAATAATTTTAATTT
594109 AAAT
1 AAAT
594113 TAAATATAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
14 10 0.23
15 15 0.34
16 14 0.32
17 5 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AAATAATTTTAATTT
Found at i:594096 original size:15 final size:15
Alignment explanation
Indices: 594072--594126 Score: 51
Period size: 14 Copynumber: 3.6 Consensus size: 15
594062 TAAATATATT
594072 TTAA-TTTAAAATAA
1 TTAATTTTAAAATAA
594086 TTAATTTT-AAATAA
1 TTAATTTTAAAATAA
* *
594100 TTTAAATTTAAATTAAA
1 -TTAATTTTAAAAT-AA
594117 TATAATTTTA
1 T-TAATTTTA
594127 TTTTTAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 10 0.30
15 10 0.30
16 4 0.12
17 9 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTAATTTTAAAATAA
Found at i:594123 original size:16 final size:16
Alignment explanation
Indices: 594002--594124 Score: 72
Period size: 17 Copynumber: 7.4 Consensus size: 16
593992 ACAAATTTAT
* *
594002 TAATTTAAATTTAATT
1 TAATTTAAATTAAATA
*
594018 TAATTTAAAATTAAAAA
1 TAATTT-AAATTAAATA
* *
594035 TAATTTGAAGTCAAA-A
1 TAATTT-AAATTAAATA
*
594051 TAATTTTAATTTAAATA
1 TAA-TTTAAATTAAATA
* *
594068 TATTTTAATTTAAAATAA
1 TAATTTAAATT-AAAT-A
*
594086 TTAATTTTAAA-T-AATT
1 -TAA-TTTAAATTAAATA
594102 TAAATTTAAATTAAATA
1 T-AATTTAAATTAAATA
594119 TAATTT
1 TAATTT
594125 TATTTTTAAA
Statistics
Matches: 84, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
15 7 0.08
16 32 0.38
17 36 0.43
18 1 0.01
19 3 0.04
20 5 0.06
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (16 bp):
TAATTTAAATTAAATA
Found at i:594167 original size:18 final size:17
Alignment explanation
Indices: 594132--594170 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
594122 TTTTATTTTT
*
594132 AAAATATTAATTTAATA
1 AAAATAATAATTTAATA
594149 AAAATAATAATTATAATA
1 AAAATAATAATT-TAATA
594167 AAAA
1 AAAA
594171 ATTATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATAATAATTTAATA
Found at i:597364 original size:18 final size:17
Alignment explanation
Indices: 597325--597364 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 17
597315 ATTATTATTA
597325 GTATCATTTTTTTGTGTT
1 GTAT-ATTTTTTTGTGTT
597343 -TATATTTTTTTGTGTTT
1 GTATATTTTTTTGTG-TT
597360 GTATA
1 GTATA
597365 GTATCTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 11 0.55
17 5 0.25
18 4 0.20
ACGTcount: A:0.15, C:0.03, G:0.15, T:0.68
Consensus pattern (17 bp):
GTATATTTTTTTGTGTT
Found at i:597575 original size:22 final size:22
Alignment explanation
Indices: 597549--597607 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
597539 AATAATAATT
597549 TATATTTAAATTTAATTATAAAA
1 TATATTTAAATTTAA-TATAAAA
*
597572 -ATATATAAATATTAATATAAAA
1 TATATTTAAAT-TTAATATAAAA
*
597594 TATATATTTAATTT
1 TATAT-TTAAATTT
597608 TTTAATAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 16 0.53
23 10 0.33
24 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TATATTTAAATTTAATATAAAA
Found at i:598257 original size:19 final size:19
Alignment explanation
Indices: 598230--598271 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
598220 TTTAGTGTTC
*
598230 ATGTTAGTCTTACCTTTTT
1 ATGTCAGTCTTACCTTTTT
598249 ATGTCAGTCTTACCTTTTT
1 ATGTCAGTCTTACCTTTTT
598268 ATGT
1 ATGT
598272 TATAATTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.55
Consensus pattern (19 bp):
ATGTCAGTCTTACCTTTTT
Found at i:599023 original size:19 final size:19
Alignment explanation
Indices: 598992--599028 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
598982 AGTATATCTG
598992 TTAATATTTATATTTATTC
1 TTAATATTTATATTTATTC
599011 TTAAT-TTTCATATTTATT
1 TTAATATTT-ATATTTATT
599029 TATGAATGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (19 bp):
TTAATATTTATATTTATTC
Found at i:606551 original size:97 final size:97
Alignment explanation
Indices: 606426--606605 Score: 263
Period size: 97 Copynumber: 1.9 Consensus size: 97
606416 ACGATGACAG
* * *
606426 TTTAGGCAAAAATAAGATTTAAATCTTGACAAGTTTAAAAAT-GGAATTGGAGTATCCCCTTGAA
1 TTTAAGCAAAAATAAGAGTTAAATCTTGACAAGTTTAAAAATAGG-ATTAGAGTATCCCCTTGAA
* *
606490 AGAATGGGGTTGGAGTATCTCCAATGATGGCAA
65 AGAATAGGGTTAGAGTATCTCCAATGATGGCAA
* * * *
606523 TTTAAGCAAAAATAAGAGTTAAATCTTGACGAGTTTAAAAGTAGGGTTAGAGTATCCCCTTGGAA
1 TTTAAGCAAAAATAAGAGTTAAATCTTGACAAGTTTAAAAATAGGATTAGAGTATCCCCTTGAAA
606588 GAATAGGGTTAGAGTATC
66 GAATAGGGTTAGAGTATC
606606 CTCGTGAATA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
97 71 0.97
98 2 0.03
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (97 bp):
TTTAAGCAAAAATAAGAGTTAAATCTTGACAAGTTTAAAAATAGGATTAGAGTATCCCCTTGAAA
GAATAGGGTTAGAGTATCTCCAATGATGGCAA
Found at i:611991 original size:28 final size:28
Alignment explanation
Indices: 611938--611997 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
611928 AAACTAGCTA
* *
611938 GCACATGAATCAAAGTCCATATTAGTTG
1 GCACATGAATCAAAGTCCACACTAGTTG
*
611966 GCACATGAATCGAAG-CCTACACTAGTTG
1 GCACATGAATCAAAGTCC-ACACTAGTTG
611994 GCAC
1 GCAC
611998 TTAAGTCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (28 bp):
GCACATGAATCAAAGTCCACACTAGTTG
Found at i:612158 original size:81 final size:82
Alignment explanation
Indices: 612029--612203 Score: 246
Period size: 81 Copynumber: 2.1 Consensus size: 82
612019 TCAACATCCG
* *
612029 AGTCAAAGCCCACACTTGCTGGCACAAGTCAAAACCTACATTCATTGGCACACAAGTCTAAGCCC
1 AGTCAAAGCCCACACCTGCTGGCACAAGTCAAAACCCACATTCATTGGCACACAAGTCTAAGCCC
612094 ACATTCGCTAGCTCGTA
66 ACATTCGCTAGCTCGTA
* * * *
612111 AGTCACAG-CCACACCTGTTGGCACAAGTCAAAACCCATATTCGTTGGCACACAAGTCTAAGCCC
1 AGTCAAAGCCCACACCTGCTGGCACAAGTCAAAACCCACATTCATTGGCACACAAGTCTAAGCCC
* *
612175 ACATTTGCTAGCAT-ATA
66 ACATTCGCTAGC-TCGTA
*
612192 AGTCAATGCCCA
1 AGTCAAAGCCCA
612204 TATTACCTGG
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
81 70 0.86
82 11 0.14
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (82 bp):
AGTCAAAGCCCACACCTGCTGGCACAAGTCAAAACCCACATTCATTGGCACACAAGTCTAAGCCC
ACATTCGCTAGCTCGTA
Found at i:612175 original size:28 final size:28
Alignment explanation
Indices: 612132--612259 Score: 82
Period size: 28 Copynumber: 4.6 Consensus size: 28
612122 CACCTGTTGG
* *
612132 CACAAGTCAAAACCCATATTCGTTGGCA
1 CACAAGTCAAAGCCCATATTCGCTGGCA
* * * *
612160 CACAAGTCTAAGCCCACATTTGCTAGCA
1 CACAAGTCAAAGCCCATATTCGCTGGCA
* * *
612188 TATAAGTCAATGCCCATATTAC-CTGGCA
1 CACAAGTCAAAGCCCATATT-CGCTGGCA
* * ***
612216 TC-TAAGTCTAAGCCCATATTATTTGGCA
1 -CACAAGTCAAAGCCCATATTCGCTGGCA
612244 C-CTAAGTCAAAGCCCA
1 CAC-AAGTCAAAGCCCA
612260 CACTAGCTAT
Statistics
Matches: 76, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
27 1 0.01
28 75 0.99
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (28 bp):
CACAAGTCAAAGCCCATATTCGCTGGCA
Found at i:612273 original size:28 final size:28
Alignment explanation
Indices: 612242--612321 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 28
612232 TATTATTTGG
* *
612242 CACCTAAGTCAAAGCCCACACTAGCTAT
1 CACCTAAGTCAAAGCCCATACTAGCTAA
* * *
612270 CACCTAGGTCAAAGCCTATACTAGTTAA
1 CACCTAAGTCAAAGCCCATACTAGCTAA
* * *
612298 CATCGAAGTCAAAGCTCATACTAG
1 CACCTAAGTCAAAGCCCATACTAG
612322 TTGGTACCTC
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (28 bp):
CACCTAAGTCAAAGCCCATACTAGCTAA
Found at i:613158 original size:12 final size:12
Alignment explanation
Indices: 613141--613174 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
613131 GAGAAGAAGA
613141 GAAGAAAAAAAT
1 GAAGAAAAAAAT
*
613153 GAAGAAAGAAAT
1 GAAGAAAAAAAT
613165 -AAGAAAAAAA
1 GAAGAAAAAAA
613175 AGAAAAGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (12 bp):
GAAGAAAAAAAT
Found at i:613448 original size:3 final size:3
Alignment explanation
Indices: 613440--613486 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
613430 GTTTTGGGGA
613440 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
613487 CTACTACTAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:614721 original size:70 final size:70
Alignment explanation
Indices: 614647--614801 Score: 229
Period size: 70 Copynumber: 2.2 Consensus size: 70
614637 TTTTCACAAT
** *
614647 TTGTATCGATACATTATTCATTGTATTAATACATTCTGGGTTTTACCCATATGTATCGATAAATT
1 TTGTATCGATACATTATTCATTGTAAAAATACATTCTGGGTTTTACCCAGATGTATCGATAAATT
614712 GTTCA
66 GTTCA
* * *
614717 TTGTATCGATACATTGTTCATTGTAAAAATACATTTTGGGTTTTACCCAGATGTATCGATACATT
1 TTGTATCGATACATTATTCATTGTAAAAATACATTCTGGGTTTTACCCAGATGTATCGATAAATT
*
614782 TTTCA
66 GTTCA
* *
614787 ATATATCGATACATT
1 TTGTATCGATACATT
614802 CAGGCATTTT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 76 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (70 bp):
TTGTATCGATACATTATTCATTGTAAAAATACATTCTGGGTTTTACCCAGATGTATCGATAAATT
GTTCA
Found at i:614723 original size:20 final size:20
Alignment explanation
Indices: 614698--614741 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
614688 TTTACCCATA
614698 TGTATCGATAAATTGTTCAT
1 TGTATCGATAAATTGTTCAT
*
614718 TGTATCGATACATTGTTCAT
1 TGTATCGATAAATTGTTCAT
614738 TGTA
1 TGTA
614742 AAAATACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.45
Consensus pattern (20 bp):
TGTATCGATAAATTGTTCAT
Found at i:614748 original size:20 final size:20
Alignment explanation
Indices: 614709--614751 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
614699 GTATCGATAA
***
614709 ATTGTTCATTGTATCGATAC
1 ATTGTTCATTGTAAAAATAC
614729 ATTGTTCATTGTAAAAATAC
1 ATTGTTCATTGTAAAAATAC
614749 ATT
1 ATT
614752 TTGGGTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (20 bp):
ATTGTTCATTGTAAAAATAC
Found at i:616423 original size:79 final size:79
Alignment explanation
Indices: 616108--616424 Score: 409
Period size: 79 Copynumber: 4.0 Consensus size: 79
616098 TTTTATTTCC
* * * *
616108 GAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATACCAATTTTCCATAATCGGGGATACTCCA
1 GAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCA
616173 ACCCCGTTATTTTT
66 ACCCCGTTATTTTT
** * * * * *
616187 GAAAGGATACTCCAACCCCAGTTTTATTTTCAAGATACCAATTTTTCACAATCGGGGATACTCCA
1 GAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCA
*
616252 ACCCCGTTATTTTC
66 ACCCCGTTATTTTT
** * *
616266 GAGGGGATACTTTAACCTCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCTA
1 GAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCA
* * *
616331 GCCTCATTATTTTT
66 ACCCCGTTATTTTT
* * **
616345 GGGGGGTTACTCCAACCCCGGCATTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCA
1 GAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCA
*
616410 ACCCCGATTTTTTTT
66 ACCCCG-TTATTTTT
616425 CAAAACACCA
Statistics
Matches: 202, Mismatches: 35, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
79 195 0.97
80 7 0.03
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
GAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCA
ACCCCGTTATTTTT
Found at i:616437 original size:50 final size:51
Alignment explanation
Indices: 616352--616464 Score: 158
Period size: 50 Copynumber: 2.2 Consensus size: 51
616342 TTTGGGGGGT
*
616352 TACTCCAACCCCGGCATTATTTCCAAAACACCAATTTTTCACAATCGAGGA
1 TACTCCAACCCCGGCATTATTTCCAAAACACCAATTTTCCACAATCGAGGA
* * *
616403 TACTCCAACCCC-G-ATTTTTTTTCAAAACACCAATTTTCCACAATCGGGGA
1 TACTCCAACCCCGGCA-TTATTTCCAAAACACCAATTTTCCACAATCGAGGA
616453 TACTCCGAACCC
1 TACTCC-AACCC
616465 GTTATTTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
49 1 0.02
50 38 0.68
51 17 0.30
ACGTcount: A:0.31, C:0.33, G:0.10, T:0.27
Consensus pattern (51 bp):
TACTCCAACCCCGGCATTATTTCCAAAACACCAATTTTCCACAATCGAGGA
Found at i:616445 original size:129 final size:130
Alignment explanation
Indices: 616287--616544 Score: 322
Period size: 129 Copynumber: 2.0 Consensus size: 130
616277 TTAACCTCGG
* * * *
616287 TTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACT-CTAGCCTCATTATTTTTGGGGGG
1 TTTTATTTCCAAAACACCAATTTTCCACAATCGAGGATACTCCGAACC-CATTATTTTTGAGGGG
* ** *
616351 TTACTCCAACCCCGGCATTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCG
65 ATACTCCAACCCCAACATTATTTCCAAAACACCAATTTTCCACAATCGAGGATACTCCAACCCCG
616416 A
130 A
* * *
616417 TTTT-TTTTCAAAACACCAATTTTCCACAATCGGGGATACTCCGAACCCGTTATTTTTGAGGGGA
1 TTTTATTTCCAAAACACCAATTTTCCACAATCGAGGATACTCCGAACCCATTATTTTTGAGGGGA
** * * * * * *
616481 TACTCCAACCCCAATTTTATTTCCAAAACATCGATTTTCCACCATTGGGGATACTCTAACCCCG
66 TACTCCAACCCCAACATTATTTCCAAAACACCAATTTTCCACAATCGAGGATACTCCAACCCCG
616545 TTATTTCTGA
Statistics
Matches: 108, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
129 100 0.93
130 8 0.07
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (130 bp):
TTTTATTTCCAAAACACCAATTTTCCACAATCGAGGATACTCCGAACCCATTATTTTTGAGGGGA
TACTCCAACCCCAACATTATTTCCAAAACACCAATTTTCCACAATCGAGGATACTCCAACCCCGA
Found at i:616471 original size:208 final size:209
Alignment explanation
Indices: 616190--616572 Score: 531
Period size: 208 Copynumber: 1.8 Consensus size: 209
616180 TATTTTTGAA
* * *
616190 AGGATACTCCAACCCCAGTTTTATTTTCAAGATACCAATTTTTCACAATCGGGGATACTCCAACC
1 AGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTCCACAATCGGGGATACTCCAACC
** * ** *
616255 CCGTTATTTTCGAGGGGATACTTTAACCTCGGTTTTATTTCCAAAACACCAATTTTTCACAATCG
66 CCGTTATTTTCGAGGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCACAATCG
* * *
616320 AGGATACTCTAGCCTCATTATTTTTG-GGGGGTTACTCCAACCCCGGCATTATTTCCAAAACACC
131 AGGATACTCTAACCCCATTATTTCTGAGGGGG-TACTCCAACCCCGGCATTATTTCCAAAACACC
616384 AATTTTTCACAATCG
195 AATTTTTCACAATCG
616399 AGGATACTCCAACCCC-GATTTT-TTTTCAAAACACCAATTTTCCACAATCGGGGATACTCCGAA
1 AGGATACTCCAACCCCAG-TTTTATTTTCAAAACACCAATTTTCCACAATCGGGGATACTCC-AA
* * * *
616462 -CCCGTTATTTTTGAGGGGATACTCCAACCCCAATTTTATTTCCAAAACATCGATTTTCCACCAT
64 CCCCGTTATTTTCGAGGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCACAAT
* * * *
616526 TGGGGATACTCTAACCCCGTTATTTCTGAGGGGGTACTCCGACCCCG
129 CGAGGATACTCTAACCCCATTATTTCTGAGGGGGTACTCCAACCCCG
616573 TTTTTATCTC
Statistics
Matches: 151, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
208 124 0.82
209 27 0.18
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (209 bp):
AGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTCCACAATCGGGGATACTCCAACC
CCGTTATTTTCGAGGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTCCACAATCG
AGGATACTCTAACCCCATTATTTCTGAGGGGGTACTCCAACCCCGGCATTATTTCCAAAACACCA
ATTTTTCACAATCG
Found at i:616531 original size:79 final size:79
Alignment explanation
Indices: 616400--616587 Score: 245
Period size: 79 Copynumber: 2.4 Consensus size: 79
616390 TCACAATCGA
*
616400 GGATACTCCAACCCCGATTTT-TTTTCAAAACACCAATTTTCCACAATCGGGGATACTCCGAA-C
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACT-CGAACC
*
616463 CCGTTATTTTTGAGG
65 CCGTTATTTCTGAGG
* * * * * *
616478 GGATACTCCAACCCCAATTTTATTTCCAAAACATCGATTTTCCACCATTGGGGATACTCTAACCC
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCGAACCC
616543 CGTTATTTCTGAGG
66 CGTTATTTCTGAGG
* * * *
616557 GGGTACTCCGACCCCGTTTTTATCTCCAAAA
1 GGATACTCCAACCCCGATTTTATTTCCAAAA
616588 TATTAAAATT
Statistics
Matches: 95, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
78 23 0.24
79 72 0.76
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (79 bp):
GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCGAACCC
CGTTATTTCTGAGG
Found at i:618641 original size:4 final size:4
Alignment explanation
Indices: 618632--618662 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
618622 TTTTGAGGTT
*
618632 TTTA TTTA TTTA TTTA TTCA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
618663 CGTTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:628762 original size:16 final size:14
Alignment explanation
Indices: 628723--628796 Score: 67
Period size: 14 Copynumber: 5.1 Consensus size: 14
628713 CTTTTTTTTC
*
628723 AAAAAAAAAAACAA
1 AAAAAAAAAAAGAA
* *
628737 AATGACAAAAAAGAA
1 AA-AAAAAAAAAGAA
* *
628752 TAACAAAAAAATGAA
1 -AAAAAAAAAAAGAA
*
628767 AAAAGAAAAAAGAA
1 AAAAAAAAAAAGAA
*
628781 AAAAAAGAAAAGAA
1 AAAAAAAAAAAGAA
628795 AA
1 AA
628797 TAACCTGTTT
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
14 27 0.57
15 18 0.38
16 2 0.04
ACGTcount: A:0.82, C:0.04, G:0.09, T:0.04
Consensus pattern (14 bp):
AAAAAAAAAAAGAA
Found at i:628768 original size:22 final size:22
Alignment explanation
Indices: 628743--628800 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
628733 ACAAAATGAC
*
628743 AAAAAAGAATAACAAAAAAATG
1 AAAAAAGAATAACAAAAAAAAG
* *
628765 AAAAAAGAAAAAAGAAAAAAAAG
1 AAAAAAG-AATAACAAAAAAAAG
628788 AAAAGAA-AATAAC
1 AAAA-AAGAATAAC
628801 CTGTTTAAGC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
22 11 0.38
23 16 0.55
24 2 0.07
ACGTcount: A:0.81, C:0.03, G:0.10, T:0.05
Consensus pattern (22 bp):
AAAAAAGAATAACAAAAAAAAG
Found at i:628770 original size:8 final size:7
Alignment explanation
Indices: 628743--628796 Score: 58
Period size: 7 Copynumber: 7.6 Consensus size: 7
628733 ACAAAATGAC
628743 AAAAAAG
1 AAAAAAG
628750 AATAACAA-
1 AA-AA-AAG
*
628758 AAAAATG
1 AAAAAAG
628765 AAAAAAG
1 AAAAAAG
628772 AAAAAAG
1 AAAAAAG
628779 AAAAAA-
1 AAAAAAG
628785 AAGAAAAG
1 AA-AAAAG
628793 AAAA
1 AAAA
628797 TAACCTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
6 3 0.08
7 29 0.73
8 6 0.15
9 2 0.05
ACGTcount: A:0.83, C:0.02, G:0.11, T:0.04
Consensus pattern (7 bp):
AAAAAAG
Found at i:629842 original size:61 final size:61
Alignment explanation
Indices: 629742--630251 Score: 524
Period size: 61 Copynumber: 8.4 Consensus size: 61
629732 AACCTTTTCT
* * * *
629742 CCTTTTAGTCCTCGAAGAGCAGGATGCCTTTTCCTTTTAAAGCCTACATAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
629803 CTTTTTAGTCCTTAAAGAGCATGATGCCTTTTCCCTTTAAAGCCCACACAAGTTGCTGGTA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * ** *
629864 CCTTTCAGTTCTCAAAGAGCAAAACG-C-TTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * ***
629923 CCTTCTAATCCTCAAAGAGCAAGACTTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
629984 ACTTCTAGTCCTCAAAGAACATGACACCTTTTTCCTTTTAAAGTCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** *
630046 CCTTTCAGTCCTCAAAGAGCAGGACGCCTGCTCCTTTTAAAGCCCACATAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * ** * * * *
630107 CATTTCAGTCCTCAAAGAGCATAAC-ACGTTTCCTTTTTAAAGCTCACACGAA-CTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCC-TTTTAAAGCCCACAC-AAGTTGGTGGCA
** * * ** *
630168 TTTTTTAGTCCTCAAAGAGGAGGACGCCTTCTCCTTGCAAAGCCAACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
630229 CCTTTTAGTCCCCAAAGAACAGG
1 CCTTTTAGTCCTCAAAGAGCAGG
630252 GCGTGCTTCC
Statistics
Matches: 367, Mismatches: 75, Indels: 14
0.80 0.16 0.03
Matches are distributed among these distances:
59 48 0.13
60 7 0.02
61 251 0.68
62 61 0.17
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (61 bp):
CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:630063 original size:123 final size:120
Alignment explanation
Indices: 629768--630249 Score: 465
Period size: 123 Copynumber: 4.0 Consensus size: 120
629758 GAGCAGGATG
* * * * * *
629768 CCTTTTCCTTTTAAAGCCTACATAAGTTGGTGGCACTTTTTAGTCCTTAAAGAGCATGATGCCTT
1 CCTTTTCCTTTTAAAGCC-ACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTT
* * * * * * * *
629833 TTCCCTTTAAAGCCCACACAAGTTGCTGGTACCTT-TCAGTTCTCAAAGAGCA-AAA
65 CTCCTTTTAAAGCCCACACAAGTTGGTGGCAACTTCT-AGTCCTCAAAGAACATACA
* * * ***
629888 CGC-TTTCCTTTCAAAGCCCACACAAGTTGGTGGCACC-TTCTAATCCTCAAAGAGCAAGACTTT
1 C-CTTTTCCTTTTAAAG-CCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACGCC
*
629951 TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAACTTCTAGTCCTCAAAGAACATGACA
63 TTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAACTTCTAGTCCTCAAAGAACAT-ACA
630010 CCTTTTTCCTTTTAAAGTCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCT
1 CC-TTTTCCTTTTAAAG-CCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCT
* * * *
630075 GCTCCTTTTAAAGCCCACATAAGTTGGTGGCACATTTC-AGTCCTCAAAGAGCATA-A
64 TCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-ACTTCTAGTCCTCAAAGAACATACA
* * ** * *
630131 CACGTTTCCTTTTTAAAGCTCACACGAA-CTGGTGGCATTTTTTAGTCCTCAAAGAGGAGGACGC
1 C-CTTTTCC-TTTTAAAGC-CACAC-AAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
** * * * *
630195 CTTCTCCTTGCAAAGCCAACACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAACA
62 CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAACTTCTAGTCCTCAAAGAACA
630250 GGGCGTGCTT
Statistics
Matches: 301, Mismatches: 46, Indels: 28
0.80 0.12 0.07
Matches are distributed among these distances:
119 2 0.01
120 90 0.30
121 15 0.05
122 91 0.30
123 96 0.32
124 7 0.02
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (120 bp):
CCTTTTCCTTTTAAAGCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTC
TCCTTTTAAAGCCCACACAAGTTGGTGGCAACTTCTAGTCCTCAAAGAACATACA
Found at i:630264 original size:243 final size:243
Alignment explanation
Indices: 629772--630249 Score: 575
Period size: 243 Copynumber: 2.0 Consensus size: 243
629762 AGGATGCCTT
* * * * * * **
629772 TTCCTTTTAAAGCCTACATAAGTTGGTGGCACTTTTTAGTCCTTAAAGAGCATGATGCCTTTTCC
1 TTCCTTTTAAAGCCTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTGCTCC
* * *
629837 CTTTAAAGCCCACACAAGTTGCTGGTACCTTTCAGTTCTCAAAGAGCAAAACGCTTTCCTTTCAA
66 CTTTAAAGCCCACACAAGTTGCTGGCACATTTCAGTCCTCAAAGAGCAAAACGCTTTCCTTTCAA
* *** * **
629902 AGCCCACACAAGTTGGTGGCACCTTCTAATCCTCAAAGAGCAAGACTTTTTTTCCTTTTAAAGCC
131 AGCCCACACAAGCTGGTGGCACCTTCTAATCCTCAAAGAGCAAGACGCCTTCTCCTTGCAAAGCC
* * **
629967 CACACAAGTTGGTGGCAACTTCTAGTCCTCAAAGAACATGACACCTTT
196 AACACAAGTTGGTGGCAACTTCTAGTCCCCAAAGAACATGACACCTGC
630015 TTCCTTTTAAAGTCC-ACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTGCTC
1 TTCCTTTTAAAG-CCTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTGCTC
* * *
630079 CTTTTAAAGCCCACATAAGTTGGTGGCACATTTCAGTCCTCAAAGAGCATAACACG-TTTCCTTT
65 CCTTTAAAGCCCACACAAGTTGCTGGCACATTTCAGTCCTCAAAGAGCA-AA-ACGCTTTCC-TT
* * ** * * * *
630143 TTAAAGCTCACACGAA-CTGGTGGCATTTTTTAGTCCTCAAAGAGGAGGACGCCTTCTCCTTGCA
127 TCAAAGCCCACAC-AAGCTGGTGGCACCTTCTAATCCTCAAAGAGCAAGACGCCTTCTCCTTGCA
* *
630207 AAGCCAACACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAACA
191 AAGCCAACACAAGTTGGTGGCAACTTCTAGTCCCCAAAGAACA
630250 GGGCGTGCTT
Statistics
Matches: 197, Mismatches: 33, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
243 96 0.49
244 9 0.05
245 90 0.46
246 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (243 bp):
TTCCTTTTAAAGCCTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTGCTCC
CTTTAAAGCCCACACAAGTTGCTGGCACATTTCAGTCCTCAAAGAGCAAAACGCTTTCCTTTCAA
AGCCCACACAAGCTGGTGGCACCTTCTAATCCTCAAAGAGCAAGACGCCTTCTCCTTGCAAAGCC
AACACAAGTTGGTGGCAACTTCTAGTCCCCAAAGAACATGACACCTGC
Found at i:630348 original size:42 final size:41
Alignment explanation
Indices: 630262--630378 Score: 119
Period size: 42 Copynumber: 2.8 Consensus size: 41
630252 GCGTGCTTCC
* *
630262 TTTCCTTTTTCCTTTGTCCTCAAAGAGCAAGACACACTTTA
1 TTTCCTTTTTCCTTTGTCCTCAAAGAACAAGACACACTTAA
* *
630303 TTTCCTTTTCTCCTTTGTCCTTAAAGAACAGGACACA-TGTAA
1 TTTCCTTTT-TCCTTTGTCCTCAAAGAACAAGACACACT-TAA
* * * *
630345 TTTCTTTCTTTTCTTTTGTCCTCGAAGAGCAAGA
1 TTTC-CT-TTTTCCTTTGTCCTCAAAGAACAAGA
630379 TGTGCTCCTT
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
41 10 0.16
42 30 0.48
43 19 0.31
44 3 0.05
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.41
Consensus pattern (41 bp):
TTTCCTTTTTCCTTTGTCCTCAAAGAACAAGACACACTTAA
Found at i:630611 original size:12 final size:12
Alignment explanation
Indices: 630582--630614 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
630572 TCTACCCAAA
*
630582 AATAATAATAAT
1 AATAAAAATAAT
630594 AATAAAAATAAT
1 AATAAAAATAAT
630606 AATAAAAAT
1 AATAAAAAT
630615 TGAATGTCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AATAAAAATAAT
Found at i:631053 original size:20 final size:20
Alignment explanation
Indices: 631028--631152 Score: 124
Period size: 20 Copynumber: 5.8 Consensus size: 20
631018 TTTCCACAAT
631028 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
631048 TTGTATCGATACATTTTAGGTTTTACCCA
1 TTGTATCGATACA--TT--G--TT---CA
*
631077 GATGTATCGATACATTGTTCA
1 -TTGTATCGATACATTGTTCA
*
631098 TTGTATCGATACATTATTCA
1 TTGTATCGATACATTGTTCA
*
631118 TTATATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
631138 TTGTATTGATACATT
1 TTGTATCGATACATT
631153 CTGGGTTTTA
Statistics
Matches: 88, Mismatches: 7, Indels: 20
0.77 0.06 0.17
Matches are distributed among these distances:
20 62 0.70
21 2 0.02
22 2 0.02
24 3 0.03
26 3 0.03
28 2 0.02
29 2 0.02
30 12 0.14
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:631141 original size:90 final size:90
Alignment explanation
Indices: 631031--631199 Score: 257
Period size: 90 Copynumber: 1.9 Consensus size: 90
631021 CCACAATTTG
* *
631031 TATCGATACATTGTTCATTGTATCGATACATTTTAGGTTTTACCCAGATGTATCGATACATTGTT
1 TATCGATACATTGTTCATTGTATCGATACATTCTAGGTTTTACCCAAATGTATCGATACATTGTT
*
631096 CATTGTATCGATACATTATTCATTA
66 CAATGTATCGATACATTATTCATTA
* * * * *
631121 TATCGATACATTGTTCATTGTATTGATACATTCTGGGTTTTACCCAAATGTATTGATATATTTTT
1 TATCGATACATTGTTCATTGTATCGATACATTCTAGGTTTTACCCAAATGTATCGATACATTGTT
*
631186 TAATGTATCGATAC
66 CAATGTATCGATAC
631200 TGTGCAAGGT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 70 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (90 bp):
TATCGATACATTGTTCATTGTATCGATACATTCTAGGTTTTACCCAAATGTATCGATACATTGTT
CAATGTATCGATACATTATTCATTA
Found at i:633223 original size:2 final size:2
Alignment explanation
Indices: 633216--633244 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
633206 GAAATTTTCA
633216 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
633245 CCTATAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:634945 original size:28 final size:28
Alignment explanation
Indices: 634898--636300 Score: 784
Period size: 28 Copynumber: 49.4 Consensus size: 28
634888 CACTGATTTG
* *
634898 TGTGGGCTTTGAAAGAATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * *
634926 TGTGGGCTTTAAAAAGATGCCACTAATTT
1 TGTGGGCTTTAAAAGGATGCCACTGA-CT
*
634955 GTGTGGGCTTTGAGAAA-GATGCCACTAACT
1 -TGTGGGCTTT-A-AAAGGATGCCACTGACT
*
634985 TGTGGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTT-AAAAGGATGCCACTGACT
*
635014 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
635042 TATGGGCTTTGAAAGAATGCCACTAACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
635070 TGTGGGTTTTGAAAA-GATGCTATTGATT
1 TGTGGGCTTT-AAAAGGATGCCACTGACT
* *
635098 TGTATGGGCTTTGAGAATGATGCCACTGACT
1 TG--TGGGCTTT-AAAAGGATGCCACTGACT
* *
635129 TATGGGCTTTGAAAA-GATGCCACTGATT
1 TGTGGGCTTT-AAAAGGATGCCACTGACT
*
635157 TGTGGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTT-AAAAGGATGCCACTGACT
* *
635186 TGTGGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTT-AAAAGGATGCCACTGACT
*
635215 TGTGGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTT-AAAAGGATGCCACTGACT
* * *
635244 TGTGGGTTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* *
635272 TATGGGCTTTAAAAGGATGCCATTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * *
635300 TGTGGGCTTTGAAAGAATGCCACTGATTT
1 TGTGGGCTTTAAAAGGATGCCACTGA-CT
*
635329 GTGTGGGCTTTAAAAAGGATGCCACTCACT
1 -TGTGGGCTTT-AAAAGGATGCCACTGACT
* * *
635359 TGTGGGCTTTGAAAGAATGCCACTGATTT
1 TGTGGGCTTTAAAAGGATGCCACTGA-CT
*
635388 GTGTGGGCTTTAAAAAGGATGCCACTCACT
1 -TGTGGGCTTT-AAAAGGATGCCACTGACT
*
635418 TGTGGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTT-AAAAGGATGCCACTGACT
* * * *
635447 TGTGGGCTTTGAAATGGGTTGCCACCGAATT
1 TGTGGGCTTT-AAA-AGGATGCCACTG-ACT
* * * *
635478 GTGTGGGCTTTCAAATGGGTTACCACCGACTT
1 -TGTGGGCTTT-AAA-AGGATGCCACTGAC-T
* * * *
635510 GTGTGGGCTTTCAAATGAGTTACCACCGACTT
1 -TGTGGGCTTT-AAAAG-GATGCCACTGAC-T
* **
635542 GTGTGGGCTTTGAAATAATGCCACTGACT
1 -TGTGGGCTTTAAAAGGATGCCACTGACT
* *
635571 TGCGGGCTTAAAAAATGG-TGCCACTGACT
1 TGTGGGCTT-TAAAA-GGATGCCACTGACT
** *
635600 TGTGGGCATTGGAAAGG-TGCCATTGACT
1 TGTGGGC-TTTAAAAGGATGCCACTGACT
* *
635628 TGTGGGCTTAAAAAGGATGCCA-TGAAGT
1 TGTGGGCTTTAAAAGGATGCCACTG-ACT
** **
635656 TGTGAACTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
635684 TGTGGGCATAAAAAGGATGCCGC-GAAGT
1 TGTGGGCTTTAAAAGGATGCCACTG-ACT
* * * * *
635712 TATGGAC-TTAAAAAGATGCCACAGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* *
635739 TGTGGAC-TTAAAA-GAGTGCCAC-GAAGT
1 TGTGGGCTTTAAAAGGA-TGCCACTG-ACT
* * * * *
635766 TATGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * ** * *
635793 TGCGGACTTTAAAAAAATGCCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * * *
635821 TGTGGACTTGAAATGGATGCCACAGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
635849 TGTGGACTTAAAAAGG-TGCC-CCGAAGT
1 TGTGGGCTTTAAAAGGATGCCACTG-ACT
* * * * *
635876 TGTGGAC-TTCAAATGATGCCACAGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
** * * *
635903 TGTGAAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * * *
635930 GGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * * *
635958 TGTAGACTTT-AAAGGGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * *
635985 TGT-GGATTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * * *
636012 TGTAGACTTTAAAAGGGTGCCACGGAAT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
636040 TATGGACTTTAGAAGGATGCCA-TGGAGT
1 TGTGGGCTTTAAAAGGATGCCACT-GACT
* * *
636068 TGT-GGATTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * * * *
636095 GGTGGACCTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
636123 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * ** *
636151 TATGGACTTT-AAAGGATGTGA-TGGAGT
1 TGTGGGCTTTAAAAGGATGCCACT-GACT
* * * * * *
636178 TATGGACTTTAAAAGGGTGCTACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
636206 TGTGGACTTTAAAAAGATGCCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* *
636234 TGTGGAC-TTAAAAGGATGCCA-TAGAGT
1 TGTGGGCTTTAAAAGGATGCCACT-GACT
* * *
636261 TGTAGACTTTGAAAAGAAATGCCACTGACT
1 TGTGGGCTTT-AAAAG-GATGCCACTGACT
*
636291 TGTGGACTTT
1 TGTGGGCTTT
636301 GAAGAGGTCA
Statistics
Matches: 1140, Mismatches: 184, Indels: 100
0.80 0.13 0.07
Matches are distributed among these distances:
26 14 0.01
27 223 0.20
28 488 0.43
29 209 0.18
30 81 0.07
31 56 0.05
32 69 0.06
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTAAAAGGATGCCACTGACT
Found at i:635304 original size:230 final size:229
Alignment explanation
Indices: 634900--635690 Score: 853
Period size: 230 Copynumber: 3.4 Consensus size: 229
634890 CTGATTTGTG
* * *
634900 TGGGCTTTGAAAGAATGCCACTGACTTGTGGGCTTTAAAAAGATGCCACTAATTTGTGTGGGCTT
1 TGGGCTTTGAAAGAATGCCACTGATTTGTGGGCTTTAAAAGGATGCCACTAA-CT-TGTGGGCTT
*
634965 TGAGAAAGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGACTTGTGGGCTTTGAAAGG
64 TGAGAAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
635030 ATGCCACTGACTTATGGGCTTTGAAAGAATGCCACTAACTTGTGGGTTTTGAAA-AGATGCTATT
129 ATGCCACTGACTTATGGGCTTTAAAAGAATGCCACTAACTTGTGGGCTTTGAAAGA-ATGCCACT
* * * *
635094 GATTTGTATGGGCTTTGAGAATGATGCCACTGACTTA
193 GATTTGTATGGGCTTTAAAAAGGATGCCACTCACTTA
* *
635131 TGGGCTTTGAAA-AGATGCCACTGATTTGTGGGCTTTGAGAAGGATGCCACTGACTTGTGGGCTT
1 TGGGCTTTGAAAGA-ATGCCACTGATTTGTGGGCTTT-AAAAGGATGCCACTAACTTGTGGGCTT
*
635195 TGAGAAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGACTTGTGGGTTTTGAAAGG
64 TGAGAAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
635260 ATGCCATTGACTTATGGGCTTTAAAAGGATGCCATTGACTTGTGGGCTTTGAAAGAATGCCACTG
129 ATGCCACTGACTTATGGGCTTTAAAAGAATGCCACTAACTTGTGGGCTTTGAAAGAATGCCACTG
* *
635325 ATTTGTGTGGGCTTTAAAAAGGATGCCACTCACTTG
194 ATTTGTATGGGCTTTAAAAAGGATGCCACTCACTTA
*
635361 TGGGCTTTGAAAGAATGCCACTGATTTGTGTGGGCTTTAAAAAGGATGCCACTCACTTGTGGGCT
1 TGGGCTTTGAAAGAATGCCACTGA-TT-TGTGGGCTTT-AAAAGGATGCCACTAACTTGTGGGCT
* * * * *
635426 TTGAGAAGGATGCCACTGACTTGTGGGCTTTGA-AATGGGTTGCCACCGAATTGTGTGGGCTTTC
63 TTGAGAAGGATGCCACTAACTTGTGGGCTTTGAGAA--GGATGCCACTG-ACT-TGTGGGCTTTG
* * * * * * * **
635490 AAATGGGTTACCACCGACTTGTGTGGGCTTTCAAATGAGTTACCACCGACTTGTGTGGGCTTTGA
124 AAA--GGATGCCACTGAC-T-TATGGGCTTT-AAAAGA-ATGCCACTAAC-T-TGTGGGCTTTGA
* * * * * *
635555 AATAATGCCACTGACTTG--CGGGCTTAAAAAATGG-TGCCACTGACTTG
181 AAGAATGCCACTGATTTGTATGGGCTTTAAAAA-GGATGCCACTCACTTA
* * * * * * **
635602 TGGGCATTGGAAAG-GTGCCATTGACTTGTGGGCTTAAAAAGGATGCCA-TGAAGTTGTGAACTT
1 TGGGC-TTTGAAAGAATGCCACTGATTTGTGGGCTTTAAAAGGATGCCACT-AACTTGTGGGCTT
*
635665 TG-GAAGGATGCCACTGACTTGTGGGC
64 TGAGAAGGATGCCACTAACTTGTGGGC
635691 ATAAAAAGGA
Statistics
Matches: 484, Mismatches: 55, Indels: 36
0.84 0.10 0.06
Matches are distributed among these distances:
230 180 0.37
231 40 0.08
232 79 0.16
233 9 0.02
234 2 0.00
235 12 0.02
237 34 0.07
238 24 0.05
239 18 0.04
240 5 0.01
241 43 0.09
242 10 0.02
243 28 0.06
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.30
Consensus pattern (229 bp):
TGGGCTTTGAAAGAATGCCACTGATTTGTGGGCTTTAAAAGGATGCCACTAACTTGTGGGCTTTG
AGAAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGACTTGTGGGCTTTGAAAGGAT
GCCACTGACTTATGGGCTTTAAAAGAATGCCACTAACTTGTGGGCTTTGAAAGAATGCCACTGAT
TTGTATGGGCTTTAAAAAGGATGCCACTCACTTA
Found at i:635488 original size:32 final size:32
Alignment explanation
Indices: 635447--635557 Score: 177
Period size: 32 Copynumber: 3.5 Consensus size: 32
635437 GCCACTGACT
* * *
635447 TGTGGGCTTTGAAATGGGTTGCCACCGAATTG
1 TGTGGGCTTTCAAATGGGTTACCACCGACTTG
635479 TGTGGGCTTTCAAATGGGTTACCACCGACTTG
1 TGTGGGCTTTCAAATGGGTTACCACCGACTTG
*
635511 TGTGGGCTTTCAAATGAGTTACCACCGACTTG
1 TGTGGGCTTTCAAATGGGTTACCACCGACTTG
*
635543 TGTGGGCTTTGAAAT
1 TGTGGGCTTTCAAAT
635558 AATGCCACTG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 74 1.00
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (32 bp):
TGTGGGCTTTCAAATGGGTTACCACCGACTTG
Found at i:635696 original size:56 final size:57
Alignment explanation
Indices: 634908--635704 Score: 339
Period size: 59 Copynumber: 13.7 Consensus size: 57
634898 TGTGGGCTTT
* * * ** *
634908 GAAAGAATGCCACTGACTTGTGGGCTTTAAAAA-GATGCCACTAATTTGTGTGGGCTTTG
1 GAAAGGATGCCACTGACTTGTGGGC-TTAAAAAGGATGCCACTGA-CT-TGTGAACATTG
* * * ** *
634967 AGAAA-GATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGACTTGTGGGC-TTT
1 -GAAAGGATGCCACTGACTTGTGGGC-TTAAAAAGGATGCCACTGACTTGTGAACATTG
* ** * * *** *
635024 GAAAGGATGCCACTGACTTATGGGCTTTGAAAGAATGCCACTAACTTGTG-GGTTTT
1 GAAAGGATGCCACTGACTTGTGGGCTTAAAAAGGATGCCACTGACTTGTGAACATTG
* * * * * * * * ** *
635080 GAAAAGATGCTATTGATTTGTATGGGCTTTGAGAATGATGCCACTGACTTATGGGC-TTT
1 GAAAGGATGCCACTGACTTG--TGGGC-TTAAAAAGGATGCCACTGACTTGTGAACATTG
* * * * ** *
635139 GAAAAGATGCCACTGATTTGTGGGCTTTGAGAAGGATGCCACTGACTTGTGGGC-TTT
1 GAAAGGATGCCACTGACTTGTGGGC-TTAAAAAGGATGCCACTGACTTGTGAACATTG
* * * *** *
635196 GAGAAGGATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGACTTGTG-GGTTTT
1 GA-AAGGATGCCACTGACTTGTGGGC-TTAAAAAGGATGCCACTGACTTGTGAACATTG
* * * * ** *
635254 GAAAGGATGCCATTGACTTATGGGCTTTAAAAGGATGCCATTGACTTGTGGGC-TTT
1 GAAAGGATGCCACTGACTTGTGGGCTTAAAAAGGATGCCACTGACTTGTGAACATTG
* * * ** *
635310 GAAAGAATGCCACTGATTTGTGTGGGCTTTAAAAAGGATGCCACTCACTTGTGGGC-TTT
1 GAAAGGATGCCACTGA-CT-TGTGGGC-TTAAAAAGGATGCCACTGACTTGTGAACATTG
* * * ** *
635369 GAAAGAATGCCACTGATTTGTGTGGGCTTTAAAAAGGATGCCACTCACTTGTGGGC-TTT
1 GAAAGGATGCCACTGA-CT-TGTGGGC-TTAAAAAGGATGCCACTGACTTGTGAACATTG
** * * * ** *
635428 GAGAAGGATGCCACTGACTTGTGGGCTTTGAAATGGGTTGCCACCGAATTGTGTGGGC-TTT
1 GA-AAGGATGCCACTGACTTGTGGGC-TT-AAAAAGGATGCCACTG-ACT-TGTGAACATTG
* * * * * * * * * ** *
635489 CAAATGGGTTACCACCGACTTGTGTGGGCTTTCAAATGAGTTACCACCGACTTGTGTGGGC-TTT
1 GAAA--GGATGCCACTGAC-T-TGTGGGC-TTAAAAAG-GATGCCACTGAC-T-TGTGAACATTG
** * **
635553 GAAATAATGCCACTGACTTGCGGGCTTAAAAAATGG-TGCCACTGACTTGTGGGCATTG
1 GAAAGGATGCCACTGACTTGTGGGCTT-AAAAA-GGATGCCACTGACTTGTGAACATTG
* * *
635611 GAAAGG-TGCCATTGACTTGTGGGCTTAAAAAGGATGCCA-TGAAGTTGTGAACTTTG
1 GAAAGGATGCCACTGACTTGTGGGCTTAAAAAGGATGCCACTG-ACTTGTGAACATTG
*
635667 G-AAGGATGCCACTGACTTGTGGGCATAAAAAGGATGCC
1 GAAAGGATGCCACTGACTTGTGGGCTTAAAAAGGATGCC
635705 GCGAAGTTAT
Statistics
Matches: 619, Mismatches: 89, Indels: 62
0.80 0.12 0.08
Matches are distributed among these distances:
55 9 0.01
56 132 0.21
57 105 0.17
58 86 0.14
59 175 0.28
60 42 0.07
61 13 0.02
62 18 0.03
63 5 0.01
64 34 0.05
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (57 bp):
GAAAGGATGCCACTGACTTGTGGGCTTAAAAAGGATGCCACTGACTTGTGAACATTG
Found at i:635751 original size:55 final size:54
Alignment explanation
Indices: 635627--636299 Score: 591
Period size: 55 Copynumber: 12.2 Consensus size: 54
635617 TGCCATTGAC
* * * ** * *
635627 TTGTGGGCTTAAAAAGGATGCCATGAAGTTGTGAACTTTGGAAGGATGCCACTGAC
1 TTGTGGACTT-AAAAGGATGCCACGAAGTTGTGGAC-TTAAAAGGATGCCACGGAG
* * * * * *
635683 TTGTGGGCATAAAAAGGATGCCGCGAAGTTATGGACTTAAAAAGATGCCACAGAG
1 TTGTGGAC-TTAAAAGGATGCCACGAAGTTGTGGACTTAAAAGGATGCCACGGAG
* *
635738 TTGTGGACTTAAAA-GAGTGCCACGAAGTTATGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGA-TGCCACGAAGTTGTGGACTTAAAAGGATGCCACGGAG
* ** * * *
635792 TTGCGGACTTTAAAAAAATGCCACGGAGTTGTGGACTTGAAATGGATGCCACAGAG
1 TTGTGGAC-TTAAAAGGATGCCACGAAGTTGTGGACTT-AAAAGGATGCCACGGAG
* * * *
635848 TTGTGGACTTAAAAAGG-TGCCCCGAAGTTGTGGACTTCAAATGATGCCACAGAG
1 TTGTGGACTT-AAAAGGATGCCACGAAGTTGTGGACTTAAAAGGATGCCACGGAG
* * * * *
635902 TTGTGAACTTAAAAGGGTGCCACGGAGTGGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGATGCCACGAAGTTGTGGAC-TTAAAAGGATGCCACGGAG
* * * *
635957 TTGTAGACTTTAAAGGGTGCCAC-AGAGTTGTGGATTTAAAAGGATGCCACGGAG
1 TTGTGGACTTAAAAGGATGCCACGA-AGTTGTGGACTTAAAAGGATGCCACGGAG
* * * * *
636011 TTGTAGACTTTAAAAGGGTGCCACGGAA-TTATGGACTTTAGAAGGATGCCATGGAG
1 TTGTGGAC-TTAAAAGGATGCCAC-GAAGTTGTGGAC-TTAAAAGGATGCCACGGAG
* * * *
636067 TTGTGGATTTAAAAGGATGCCACGGAGTGGTGGACCTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGATGCCACGAAGTTGTGGA-CTTAAAAGGATGCCACGGAG
* * * * ** *
636122 TTGTGGACTTTAAAAGGGTGCCACGGAGTTATGGACTTTAAAGGATGTGATGGAG
1 TTGTGGAC-TTAAAAGGATGCCACGAAGTTGTGGACTTAAAAGGATGCCACGGAG
* * * * *
636177 TTATGGACTTTAAAAGGGTGCTACGGAGTTGTGGACTTTAAAAAGATGCCACGGAG
1 TTGTGGAC-TTAAAAGGATGCCACGAAGTTGTGGAC-TTAAAAGGATGCCACGGAG
* * * * *
636233 TTGTGGACTTAAAAGGATGCCA-TAGAGTTGTAGACTTTGAAAAGAAATGCCACTGAC
1 TTGTGGACTTAAAAGGATGCCACGA-AGTTGTGGAC-TT-AAAAG-GATGCCACGGAG
636290 TTGTGGACTT
1 TTGTGGACTT
636300 TGAAGAGGTC
Statistics
Matches: 510, Mismatches: 87, Indels: 39
0.80 0.14 0.06
Matches are distributed among these distances:
53 8 0.02
54 111 0.22
55 242 0.47
56 128 0.25
57 21 0.04
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.25
Consensus pattern (54 bp):
TTGTGGACTTAAAAGGATGCCACGAAGTTGTGGACTTAAAAGGATGCCACGGAG
Found at i:635808 original size:83 final size:83
Alignment explanation
Indices: 635627--636300 Score: 696
Period size: 83 Copynumber: 8.1 Consensus size: 83
635617 TGCCATTGAC
* * * * ** * * *
635627 TTGTGGGC-TTAAAAAGGATGCCATGAAGTTGTGAACTTTGGAAGGATGCCACTGACTTGTGGGC
1 TTGTGGACTTTAAAAA-GATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGAC
* * * * *
635691 ATAAAAAGGATGCCGCGAAG
64 TTTAAAAGGGTGCCACGGAG
* * * *
635711 TTATGGAC-TTAAAAAGATGCCACAGAGTTGTGGACTTAAAA-GAGTGCCACGAAGTTATGGAC-
1 TTGTGGACTTTAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGA-TGCCACGGAGTTGTGGACT
635773 TTAAAAGGGTGCCACGGAG
65 TTAAAAGGGTGCCACGGAG
* * * *
635792 TTGCGGACTTTAAAAAAATGCCACGGAGTTGTGGACTTGAAATGGATGCCACAGAGTTGTGGAC-
1 TTGTGGACTTTAAAAAGATGCCACGGAGTTGTGGACTT-AAAAGGATGCCACGGAGTTGTGGACT
* * *
635856 TTAAAAAGGTGCCCCGAAG
65 TTAAAAGGGTGCCACGGAG
* * * * * *
635875 TTGTGGAC-TTCAAATGATGCCACAGAGTTGTGAACTTAAAAGGGTGCCACGGAGTGGTGGACTT
1 TTGTGGACTTTAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTT
635939 TAAAAGGGTGCCACGGAG
66 TAAAAGGGTGCCACGGAG
* * * * * *
635957 TTGTAGACTTT-AAAGGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTAGACTT
1 TTGTGGACTTTAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTT
*
636021 TAAAAGGGTGCCACGGAA
66 TAAAAGGGTGCCACGGAG
* * * * * * *
636039 TTATGGACTTTAGAAGGATGCCATGGAGTTGTGGATTTAAAAGGATGCCACGGAGTGGTGGACCT
1 TTGTGGACTTTAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTT
636104 TAAAAGGGTGCCACGGAG
66 TAAAAGGGTGCCACGGAG
* * * * ** * *
636122 TTGTGGACTTTAAAAGGGTGCCACGGAGTTATGGACTTTAAAGGATGTGATGGAGTTATGGACTT
1 TTGTGGACTTTAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTT
*
636187 TAAAAGGGTGCTACGGAG
66 TAAAAGGGTGCCACGGAG
** *
636205 TTGTGGACTTTAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGATGCCATAGAGTTGTAGACTT
1 TTGTGGACTTTAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTT
** * *
636270 TGAAAAGAAATGCCACTGAC
66 T-AAAAG-GGTGCCACGGAG
636290 TTGTGGACTTT
1 TTGTGGACTTT
636301 GAAGAGGTCA
Statistics
Matches: 493, Mismatches: 88, Indels: 17
0.82 0.15 0.03
Matches are distributed among these distances:
81 44 0.09
82 163 0.33
83 248 0.50
84 20 0.04
85 18 0.04
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.25
Consensus pattern (83 bp):
TTGTGGACTTTAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTT
TAAAAGGGTGCCACGGAG
Found at i:642810 original size:10 final size:10
Alignment explanation
Indices: 642780--642813 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
642770 TGAGGATCGA
*
642780 TTTAAAAATA
1 TTTAAAAATC
642790 TTTCAAAAATC
1 TTT-AAAAATC
642801 TTTAAAAATC
1 TTTAAAAATC
642811 TTT
1 TTT
642814 TCCTAGTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (10 bp):
TTTAAAAATC
Found at i:644079 original size:8 final size:8
Alignment explanation
Indices: 644068--644099 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
644058 TTTTTACTTT
644068 TTTCTTCC
1 TTTCTTCC
644076 TTTCTTCC
1 TTTCTTCC
644084 TTTCTT-C
1 TTTCTTCC
644091 TTTCTTCC
1 TTTCTTCC
644099 T
1 T
644100 CACTTAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (8 bp):
TTTCTTCC
Found at i:644095 original size:15 final size:16
Alignment explanation
Indices: 644068--644099 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
644058 TTTTTACTTT
644068 TTTCTTCCTTTCTTCC
1 TTTCTTCCTTTCTTCC
644084 TTTCTT-CTTTCTTCC
1 TTTCTTCCTTTCTTCC
644099 T
1 T
644100 CACTTAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTCTTCCTTTCTTCC
Found at i:646354 original size:79 final size:78
Alignment explanation
Indices: 646259--646659 Score: 414
Period size: 79 Copynumber: 5.1 Consensus size: 78
646249 ATTCATGTTT
* * * * * *
646259 TTATTTCCGAAAGGATACTGCAATCTCGATTTTATTTCCAAAACATCAATTTTTCACAATCGAGG
1 TTATTTTCGAGAGGATACTCCAA-CCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
*
646324 ATACTCCAAACTCA
65 ATACTCCAAACCCA
* * *
646338 TTATTTTCGAGAGGATACTCCAACCCCAGTTTTATTTCCAAGACACCAATTTTTCACAGTCGGGG
1 TTATTTTCGAGAGGATACTCCAACCCGA-TTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
*
646403 ATACTCC-AA-CTA
65 ATACTCCAAACCCA
* * * *
646415 TGTTATTTTCGAGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCATAATCAG
1 --TTATTTTCGAGAGGATACTCCAA-CCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGG
* * * *
646480 GTATACTCTAACCCCG
63 GGATACTCCAAACCCA
* * * *
646496 TTATTTCCAAGAGGATAGTCCAACCCTAATTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
1 TTATTTTCGAGAGGATACTCCAACCC-GATTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
*
646561 ATACTCC-GACCCTA
65 ATACTCCAAACCC-A
* * * * * *
646575 TTATTTTCAAG-GGAATACTCCAACCTCGATTTTATTTCCAAAACATCGATTTTCCACCATTGGG
1 TTATTTTCGAGAGG-ATACTCCAACC-CGATTTTATTTCCAAAACACCAATTTTTCACAATCGGG
*
646639 GATACTCCAACCCCA
64 GATACTCCAAACCCA
646654 TTATTT
1 TTATTT
646660 CTGAAGGGGT
Statistics
Matches: 265, Mismatches: 46, Indels: 22
0.80 0.14 0.07
Matches are distributed among these distances:
77 1 0.00
78 13 0.05
79 242 0.91
80 8 0.03
81 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (78 bp):
TTATTTTCGAGAGGATACTCCAACCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGA
TACTCCAAACCCA
Found at i:646518 original size:158 final size:158
Alignment explanation
Indices: 646259--646660 Score: 484
Period size: 158 Copynumber: 2.5 Consensus size: 158
646249 ATTCATGTTT
* * * * *
646259 TTATTTCCGAAAGGATACTGCAATCTCGATTTTATTTCCAAAACATCAATTTTTCACAATCGAGG
1 TTATTTTCGAGAGGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTTCACAATCGAGG
* * * * *
646324 ATACTCCAAACTCATTATTTTCGAGAGGATACTCCAACCCCAGTTTTATTTCCAAGACACCAATT
66 ATACTCCAAACCCATTATTTCCAAGAGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATT
* * *
646389 TTTCACAGTCGGGGATACTCCAACTATG
131 TTTCACAATCGGGGATACTCCAACCATA
* * * *
646417 TTATTTTCGAGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCATAATC-AGG
1 TTATTTTCGAGAGGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTTCACAATCGAGG
* * * * *
646481 TATACTCTAACCCCGTTATTTCCAAGAGGATAGTCCAACCCTAATTTTATTTCCAAAACACCAAT
66 -ATACTCCAAACCCATTATTTCCAAGAGGATACTCCAACCCCAATTTTATTTCCAAAACACCAAT
* *
646546 TTTTCACAATCGGGGATACTCCGACCCTA
130 TTTTCACAATCGGGGATACTCCAACCATA
* * * * * * *
646575 TTATTTTCAAG-GGAATACTCCAACCTCGATTTTATTTCCAAAACATCGATTTTCCACCATTGGG
1 TTATTTTCGAGAGG-ATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTTCACAATCGAG
*
646639 GATACTCCAACCCCATTATTTC
65 GATACTCCAAACCCATTATTTC
646661 TGAAGGGGTA
Statistics
Matches: 204, Mismatches: 37, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
157 5 0.02
158 197 0.97
159 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (158 bp):
TTATTTTCGAGAGGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTTCACAATCGAGG
ATACTCCAAACCCATTATTTCCAAGAGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATT
TTTCACAATCGGGGATACTCCAACCATA
Found at i:650909 original size:104 final size:104
Alignment explanation
Indices: 650718--650919 Score: 298
Period size: 104 Copynumber: 1.9 Consensus size: 104
650708 CGAAATATGA
* *
650718 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTGCTTGTA
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTGCCTGCA
* **
650783 TGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
66 TGTATCAATACATAACATAGTGTATCGATACATCTGGGC
* * * *
650822 AAATTTGCTTGTATGTTTCGATACATTTCATAGTGTATCGATACATTTGGGCAAATTTGCCTGCA
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTGCCTGCA
*
650887 TGTATCAATACA-AAGATCAGTGTATCGATACAT
66 TGTATCAATACATAACAT-AGTGTATCGATACAT
650920 TTGAGTAATG
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
103 2 0.02
104 85 0.98
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (104 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTGCCTGCA
TGTATCAATACATAACATAGTGTATCGATACATCTGGGC
Found at i:650922 original size:52 final size:52
Alignment explanation
Indices: 650718--650898 Score: 299
Period size: 52 Copynumber: 3.5 Consensus size: 52
650708 CGAAATATGA
650718 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
650770 AAATTTGCTTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * * *
650822 AAATTTGCTTGTATGTTTCGATACATTTCATAGTGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
650874 AAATTTGCCTGCATGTATCAATACA
1 AAATTTGCCTGCATGTATCGATACA
650899 AAGATCAGTG
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 121 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:650932 original size:21 final size:21
Alignment explanation
Indices: 650907--650962 Score: 80
Period size: 20 Copynumber: 2.7 Consensus size: 21
650897 CAAAGATCAG
*
650907 TGTATCGATACATTTGAGT-AA
1 TGTATCGATACATTT-ACTCAA
650928 TGTATCGATACA-TTACTCAA
1 TGTATCGATACATTTACTCAA
650948 TGTATCGATACATTT
1 TGTATCGATACATTT
650963 TCTTGGCAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 2 0.06
20 16 0.50
21 14 0.44
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (21 bp):
TGTATCGATACATTTACTCAA
Found at i:651001 original size:13 final size:13
Alignment explanation
Indices: 650983--651066 Score: 51
Period size: 13 Copynumber: 5.5 Consensus size: 13
650973 AGCTTCGTAG
650983 CGATACATTGTAT
1 CGATACATTGTAT
650996 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
*
651015 TGATACATTGTAT
1 CGATACATTGTAT
651028 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
651047 CGATACATTGTAT
1 CGATACATTGTAT
651060 CGATACA
1 CGATACA
651067 ACACTTATGT
Statistics
Matches: 57, Mismatches: 2, Indels: 24
0.69 0.02 0.29
Matches are distributed among these distances:
13 25 0.44
14 1 0.02
15 2 0.04
16 8 0.14
17 2 0.04
18 1 0.02
19 18 0.32
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.35
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:651025 original size:32 final size:32
Alignment explanation
Indices: 650983--651085 Score: 188
Period size: 32 Copynumber: 3.2 Consensus size: 32
650973 AGCTTCGTAG
*
650983 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
651015 TGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
651047 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
651079 CGATACA
1 CGATACA
651086 AATCGTTGAA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 68 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:651047 original size:19 final size:19
Alignment explanation
Indices: 650991--651086 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
650981 AGCGATACAT
*
650991 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
*
651010 TGTATTGAT---ACA--T-
1 TGTATCGATACAACACTTA
651023 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
651042 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
651055 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
651074 TGTATCGATACAA
1 TGTATCGATACAA
651087 ATCGTTGAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 24
0.70 0.03 0.27
Matches are distributed among these distances:
13 17 0.27
14 2 0.03
16 11 0.18
18 2 0.03
19 30 0.48
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:651914 original size:29 final size:29
Alignment explanation
Indices: 651852--652125 Score: 331
Period size: 29 Copynumber: 9.4 Consensus size: 29
651842 GGTTGCACCA
* * *
651852 ACTTGTGTGCTTTTG-AAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGATGCCACTG
*
651880 ACTTGTGGGCTTTTGAAAAGATACCACTG
1 ACTTGTGGGCTTTTGAAAAGATGCCACTG
*
651909 ACTTGTGGGC-TTTGAAAAAGGGTGCCACTG
1 ACTTGTGGGCTTTTG-AAAA-GATGCCACTG
*
651939 ACTTGTGGGCTTTGGAAAAGATGCCACTG
1 ACTTGTGGGCTTTTGAAAAGATGCCACTG
* *
651968 ACTTGTGGGCTTTGGAAAAGGGTGCCACTG
1 ACTTGTGGGCTTTTGAAAA-GATGCCACTG
* *
651998 ACTTGTGGGCTTTTGAAAAGATACCGCTG
1 ACTTGTGGGCTTTTGAAAAGATGCCACTG
* *
652027 ACTTATGGGCTTTGGAAAAGATGCCACTG
1 ACTTGTGGGCTTTTGAAAAGATGCCACTG
** * *
652056 ACTTGTGGGCTTTT-CTAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGATGCCACTG
*
652084 ACTTGTGGGC-TTTGAAAAAAATGCCACTG
1 ACTTGTGGGCTTTTG-AAAAGATGCCACTG
652113 ACTTGTGGGCTTT
1 ACTTGTGGGCTTT
652126 AAAAGGGAAA
Statistics
Matches: 210, Mismatches: 28, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
27 3 0.01
28 38 0.18
29 115 0.55
30 51 0.24
31 3 0.01
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (29 bp):
ACTTGTGGGCTTTTGAAAAGATGCCACTG
Found at i:651942 original size:59 final size:59
Alignment explanation
Indices: 651867--652125 Score: 362
Period size: 59 Copynumber: 4.4 Consensus size: 59
651857 TGTGCTTTTG
*
651867 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGAAA
1 AAGGATGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGAAA
* * * *
651926 AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAA
1 AAGGATGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGAAA
* * * *
651985 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATACCGCTGACTTATGGGCTTTGGAA
1 AAGGATGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGAAA
** * * *
652044 AA-GATGCCACTGACTTGTGGGCTTTT-CTAGGTTGCCACTGACTTGTGGGCTTTGAAA
1 AAGGATGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGAAA
*
652101 AA-AATGCCACTGACTTGTGGGCTTT
1 AAGGATGCCACTGACTTGTGGGCTTT
652126 AAAAGGGAAA
Statistics
Matches: 182, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
57 47 0.26
58 23 0.13
59 112 0.62
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (59 bp):
AAGGATGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGAAA
Found at i:651971 original size:88 final size:87
Alignment explanation
Indices: 651872--652157 Score: 360
Period size: 88 Copynumber: 3.2 Consensus size: 87
651862 TTTTGAAGGT
* *
651872 TGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGAAAAAGGGTGCCAC
1 TGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAA-GATGCCAC
651937 TGACTTGTGGGCTTTGGAAAAGA
65 TGACTTGTGGGCTTTGGAAAAGA
* * * *
651960 TGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTG-AAAAGATACCG
1 TGCCACTGACTTGTGGGCTTTTGAAAA-GATGCCACTGACTTGTGGGC-TTTGAAAAAGATGCCA
*
652024 CTGACTTATGGGCTTTGGAAAAGA
64 CTGACTTGTGGGCTTTGGAAAAGA
** * * *
652048 TGCCACTGACTTGTGGGCTTTT-CTAGGTTGCCACTGACTTGTGGGCTTTGAAAAAAATGCCACT
1 TGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACT
*
652112 GACTTGTGGGCTTTAAAAGGGAAAGA
66 GACTTGTGGGCTTT----GGAAAAGA
* *
652138 TGCCACGGAGTTGTGGGCTT
1 TGCCACTGACTTGTGGGCTT
652158 AAAAAGGGAA
Statistics
Matches: 172, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
85 4 0.02
86 42 0.24
87 1 0.01
88 74 0.43
89 22 0.13
90 29 0.17
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.29
Consensus pattern (87 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACT
GACTTGTGGGCTTTGGAAAAGA
Found at i:652176 original size:34 final size:34
Alignment explanation
Indices: 652099--652301 Score: 223
Period size: 34 Copynumber: 6.0 Consensus size: 34
652089 TGGGCTTTGA
* * *
652099 AAAAAATGCCACTGACTTGTGGGCTTTAAAAGGG
1 AAAAGATGCCACGGAGTTGTGGGCTTTAAAAGGG
*
652133 -AAAGATGCCACGGAGTTGTGGGCTTAAAAAGGG
1 AAAAGATGCCACGGAGTTGTGGGCTTTAAAAGGG
*
652166 AAAAGATGCCACGGAGTTGTGGGCTTTGAAAA-GA
1 AAAAGATGCCACGGAGTTGTGGGCTTT-AAAAGGG
* * *
652200 AAAAGGTGCCACGGAGTTGTGAGATTTAAAAGGG
1 AAAAGATGCCACGGAGTTGTGGGCTTTAAAAGGG
** * * * *
652234 TGAAGAAGCCATGGAGTTATGGGCTTTGAAAA-GA
1 AAAAGATGCCACGGAGTTGTGGGCTTT-AAAAGGG
* *
652268 AAAAGGTGCCACGGGGTTGTGGGCTTTAAAAGGG
1 AAAAGATGCCACGGAGTTGTGGGCTTTAAAAGGG
652302 TGAGGAATGT
Statistics
Matches: 137, Mismatches: 27, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
33 37 0.27
34 92 0.67
35 8 0.06
ACGTcount: A:0.33, C:0.11, G:0.34, T:0.21
Consensus pattern (34 bp):
AAAAGATGCCACGGAGTTGTGGGCTTTAAAAGGG
Found at i:652213 original size:68 final size:68
Alignment explanation
Indices: 652099--652301 Score: 264
Period size: 68 Copynumber: 3.0 Consensus size: 68
652089 TGGGCTTTGA
* * * ** * *
652099 AAAAAATGCCACTGACTTGTGGGCTTT-AAAAGGGAAAGATGCCACGGAGTTGTGGGCTTAAAAA
1 AAAAGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
652163 GGG
66 GGG
* *
652166 AAAAGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGAGATTTAAAA
1 AAAAGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
652231 GGG
66 GGG
** * * * *
652234 TGAAGAAGCCATGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGGGTTGTGGGCTTTAAAA
1 AAAAGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
652299 GGG
66 GGG
652302 TGAGGAATGT
Statistics
Matches: 118, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
67 24 0.20
68 94 0.80
ACGTcount: A:0.33, C:0.11, G:0.34, T:0.21
Consensus pattern (68 bp):
AAAAGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
GGG
Found at i:652288 original size:102 final size:99
Alignment explanation
Indices: 652076--652299 Score: 251
Period size: 102 Copynumber: 2.3 Consensus size: 99
652066 TTTTCTAGGT
* * * * *
652076 TGCCACTGACTTGTGGGCTTTG--AA-AAAAATGCCACTGACTTGTGGGCTTTAAAAGGGAAAGA
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAATGCCACGGACTTGTGAGATTTAAAAGGGAAAGA
* * *
652138 TGCCACGGAGTTGTGGGCTTAAAAAGGGAAAAGA
66 AGCCACGGAGTTATGGGCTTAAAAAGGAAAAAGA
* *
652172 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGAGATTTAAAAGGGTGA
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAA--TGCCACGGACTTGTGAGATTTAAAAGGG-AA
* * *
652237 AGAAGCCATGGAGTTATGGGCTTTGAAAA-GAAAAAGG
63 AGAAGCCACGGAGTTATGGGC-TTAAAAAGGAAAAAGA
*
652274 TGCCACGGGGTTGTGGGCTTT-AAAAG
1 TGCCACGGAGTTGTGGGCTTTGAAAAG
652300 GGTGAGGAAT
Statistics
Matches: 107, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
96 20 0.19
98 2 0.02
99 5 0.05
101 29 0.27
102 45 0.42
103 6 0.06
ACGTcount: A:0.32, C:0.12, G:0.33, T:0.23
Consensus pattern (99 bp):
TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAATGCCACGGACTTGTGAGATTTAAAAGGGAAAGA
AGCCACGGAGTTATGGGCTTAAAAAGGAAAAAGA
Found at i:653754 original size:10 final size:9
Alignment explanation
Indices: 653737--653877 Score: 103
Period size: 9 Copynumber: 15.2 Consensus size: 9
653727 CTTTTTGTTG
653737 TTTGTTTTT
1 TTTGTTTTT
653746 TTCTGTTTTT
1 TT-TGTTTTT
*
653756 TTT-TGTTGT
1 TTTGT-TTTT
**
653765 TTT-TTTAA
1 TTTGTTTTT
* *
653773 TCTCTTTTT
1 TTTGTTTTT
653782 TTTGTTTTGT
1 TTTGTTTT-T
653792 TTTGTTTGTT
1 TTTGTTT-TT
*
653802 TTT-TTTCTG
1 TTTGTTT-TT
653811 TTT-TTTTT
1 TTTGTTTTT
*
653819 GTTGTTTTT
1 TTTGTTTTT
653828 TTTGTTTTT
1 TTTGTTTTT
653837 TTTGTCTCTTTT
1 TTTG--T-TTTT
653849 TTTGTTTTGT
1 TTTGTTTT-T
653859 TTTGTTTTT
1 TTTGTTTTT
653868 TTT-TTTTT
1 TTTGTTTTT
653876 TT
1 TT
653878 GCGAAGGACG
Statistics
Matches: 109, Mismatches: 13, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
8 15 0.14
9 53 0.49
10 31 0.28
11 2 0.02
12 8 0.07
ACGTcount: A:0.01, C:0.04, G:0.11, T:0.83
Consensus pattern (9 bp):
TTTGTTTTT
Found at i:653781 original size:1 final size:1
Alignment explanation
Indices: 653777--653877 Score: 67
Period size: 1 Copynumber: 101.0 Consensus size: 1
653767 TTTTAATCTC
* * * * * * * * * *
653777 TTTTTTTTGTTTTGTTTTGTTTGTTTTTTTTCTGTTTTTTTTGTTGTTTTTTTTGTTTTTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
653842 CTCTTTTTTTGTTTTGTTTTGTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
653878 GCGAAGGACG
Statistics
Matches: 70, Mismatches: 30, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (1 bp):
T
Found at i:653788 original size:35 final size:33
Alignment explanation
Indices: 653741--653873 Score: 162
Period size: 34 Copynumber: 3.9 Consensus size: 33
653731 TTGTTGTTTG
*
653741 TTTTTTTCTGTTTTTTTTTGTTGTTTTTTTAATCTC
1 TTTTTTT-TGTTTTGTTTTGTTGTTTTTTT--TCTC
*
653777 TTTTTTTTGTTTTGTTTTGTTTGTTTTTTTTCTG
1 TTTTTTTTGTTTTGTTTTG-TTGTTTTTTTTCTC
*
653811 TTTTTTTTGTTGTT-TTTT-TTGTTTTTTTTGTC
1 TTTTTTTTGTT-TTGTTTTGTTGTTTTTTTTCTC
*
653843 TCTTTTTTTGTTTTGTTTTGTTTTTTTTTTT
1 T-TTTTTTTGTTTTGTTTTGTTGTTTTTTTT
653874 TTTTGCGAAG
Statistics
Matches: 87, Mismatches: 5, Indels: 12
0.84 0.05 0.12
Matches are distributed among these distances:
32 15 0.17
33 14 0.16
34 28 0.32
35 13 0.15
36 17 0.20
ACGTcount: A:0.02, C:0.05, G:0.11, T:0.83
Consensus pattern (33 bp):
TTTTTTTTGTTTTGTTTTGTTGTTTTTTTTCTC
Found at i:653799 original size:4 final size:5
Alignment explanation
Indices: 653737--653874 Score: 89
Period size: 5 Copynumber: 28.6 Consensus size: 5
653727 CTTTTTGTTG
* * ** * *
653737 TTTGT TTT-T TTCTGT TTTTT TTTGT TGTTTT TTTAA TCTCT TTT-T TTTGT
1 TTTGT TTTGT TT-TGT TTTGT TTTGT T-TTGT TTTGT TTTGT TTTGT TTTGT
*
653787 TTTGT TTTG- TTTGT TTTTT TTCTGT TTT-T TTTG- -TTGT TTT-T TTTGT
1 TTTGT TTTGT TTTGT TTTGT TT-TGT TTTGT TTTGT TTTGT TTTGT TTTGT
*
653833 TTT-T TTTGT CTCTTTT TTTGT TTTGT TTTGT TTT-T TTT-T TTT
1 TTTGT TTTGT -T-TTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTT
653875 TTTGCGAAGG
Statistics
Matches: 107, Mismatches: 13, Indels: 27
0.73 0.09 0.18
Matches are distributed among these distances:
3 3 0.03
4 31 0.29
5 57 0.53
6 13 0.12
7 3 0.03
ACGTcount: A:0.01, C:0.04, G:0.12, T:0.83
Consensus pattern (5 bp):
TTTGT
Found at i:653803 original size:21 final size:20
Alignment explanation
Indices: 653734--653878 Score: 125
Period size: 21 Copynumber: 7.2 Consensus size: 20
653724 ACCCTTTTTG
653734 TTGTTTGTTTTTTTCTGTT-TT
1 TTGTTTGTTTTTTT-T-TTGTT
* **
653755 TT-TTTGTTGTTTTTTTAAT
1 TTGTTTGTTTTTTTTTTGTT
* * *
653774 CTCTTT-TTTTTGTTTTGTT
1 TTGTTTGTTTTTTTTTTGTT
*
653793 TTGTTTGTTTTTTTTCTGTT
1 TTGTTTGTTTTTTTTTTGTT
*
653813 TTTTTTGTTGTTTTTTTTGTT
1 TTGTTTGTT-TTTTTTTTGTT
* *
653834 TTTTTTGTCTCTTTTTTTGTT
1 TTGTTTGT-TTTTTTTTTGTT
*
653855 TTGTTTTGTTTTTTTTTTTTT
1 TTG-TTTGTTTTTTTTTTGTT
653876 TTG
1 TTG
653879 CGAAGGACGC
Statistics
Matches: 101, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
18 2 0.02
19 16 0.16
20 32 0.32
21 45 0.45
22 6 0.06
ACGTcount: A:0.01, C:0.04, G:0.12, T:0.82
Consensus pattern (20 bp):
TTGTTTGTTTTTTTTTTGTT
Found at i:653819 original size:59 final size:62
Alignment explanation
Indices: 653734--653877 Score: 183
Period size: 59 Copynumber: 2.4 Consensus size: 62
653724 ACCCTTTTTG
653734 TTGTTTG-TTTTTTTCTGTTTTTTTTTGTTGTTTTTTTAATCTCTTTT-T-T-TTGTTTTGTT
1 TTGTTTGTTTTTTTTCTG-TTTTTTTTGTTGTTTTTTTAATCTCTTTTGTCTCTTGTTTTGTT
** * * *
653793 TTGTTTGTTTTTTTTCTGTTTTTTTTGTTGTTTTTTTTGTTTTTTTTGTCTCTTTTTTTGTT
1 TTGTTTGTTTTTTTTCTGTTTTTTTTGTTGTTTTTTTAATCTCTTTTGTCTCTTGTTTTGTT
653855 TTGTTTTGTTTTTTTT-T-TTTTTT
1 TTG-TTTGTTTTTTTTCTGTTTTTT
653878 GCGAAGGACG
Statistics
Matches: 75, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
59 32 0.43
60 11 0.15
61 7 0.09
62 13 0.17
63 12 0.16
ACGTcount: A:0.01, C:0.04, G:0.12, T:0.83
Consensus pattern (62 bp):
TTGTTTGTTTTTTTTCTGTTTTTTTTGTTGTTTTTTTAATCTCTTTTGTCTCTTGTTTTGTT
Found at i:653872 original size:36 final size:35
Alignment explanation
Indices: 653728--653875 Score: 146
Period size: 35 Copynumber: 4.3 Consensus size: 35
653718 ATCCGAACCC
* * * *
653728 TTTTTGTTGTTTGT-TTTTTTCTGTTTTTTTTTGT
1 TTTTTTTTTTTTGTCTTTTTTTTGTTTTGTTTTGT
* ** *
653762 TGTTTTTTTAATCTCTTTTTTTTGTTTTGTTTTGT
1 TTTTTTTTTTTTGTCTTTTTTTTGTTTTGTTTTGT
*
653797 TTGTTTTTTTTCTG--TTTTTTTTG--TTGTTTT-T
1 TT-TTTTTTTTTTGTCTTTTTTTTGTTTTGTTTTGT
*
653828 TTTGTTTTTTTTGTCTCTTTTTTTGTTTTGTTTTGT
1 TTTTTTTTTTTTGTCT-TTTTTTTGTTTTGTTTTGT
653864 TTTTTTTTTTTT
1 TTTTTTTTTTTT
653876 TTGCGAAGGA
Statistics
Matches: 91, Mismatches: 15, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
30 9 0.10
31 3 0.03
32 8 0.09
33 8 0.09
34 17 0.19
35 26 0.29
36 20 0.22
ACGTcount: A:0.01, C:0.04, G:0.12, T:0.82
Consensus pattern (35 bp):
TTTTTTTTTTTTGTCTTTTTTTTGTTTTGTTTTGT
Found at i:663304 original size:13 final size:13
Alignment explanation
Indices: 663286--663311 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
663276 CAATTTTTTG
663286 TGTATCGATACAT
1 TGTATCGATACAT
663299 TGTATCGATACAT
1 TGTATCGATACAT
663312 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:663396 original size:20 final size:20
Alignment explanation
Indices: 663371--663443 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
663361 CAACTTTTTT
663371 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
663391 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
663412 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
663432 ATGTATCGATAC
1 ATGTATCGATAC
663444 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:663409 original size:41 final size:41
Alignment explanation
Indices: 663350--663443 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
663340 CTGCCAAGAA
*
663350 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
663391 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
663432 ATGTATCGATAC
1 ATGTATCGATAC
663444 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:663425 original size:21 final size:21
Alignment explanation
Indices: 663350--663425 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
663340 CTGCCAAGAA
* *
663350 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
663371 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
663391 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
663412 ATGTATCGATACAT
1 ATGTATCGATACAT
663426 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:665907 original size:13 final size:13
Alignment explanation
Indices: 665889--665927 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
665879 ATAATCACCC
*
665889 TGTATCGATACAG
1 TGTATCGATACAA
665902 TGTATCGATACAA
1 TGTATCGATACAA
665915 TGTATCGATACAA
1 TGTATCGATACAA
665928 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:665938 original size:20 final size:20
Alignment explanation
Indices: 665913--665991 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
665903 GTATCGATAC
665913 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
665933 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
665958 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
665978 CATGTATCGATACA
1 AATGTATCGATACA
665992 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:668019 original size:15 final size:15
Alignment explanation
Indices: 667999--668029 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
667989 ATTTCGTTTG
*
667999 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
668014 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
668029 G
1 G
668030 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:672109 original size:13 final size:13
Alignment explanation
Indices: 672091--672116 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
672081 CAATTTTTTG
672091 TGTATCGATACAT
1 TGTATCGATACAT
672104 TGTATCGATACAT
1 TGTATCGATACAT
672117 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:672201 original size:20 final size:20
Alignment explanation
Indices: 672176--672248 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
672166 CAACTTTTTT
672176 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
672196 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
672217 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
672237 ATGTATCGATAC
1 ATGTATCGATAC
672249 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:672214 original size:41 final size:41
Alignment explanation
Indices: 672155--672248 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
672145 CTGCCAAGAA
*
672155 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
672196 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
672237 ATGTATCGATAC
1 ATGTATCGATAC
672249 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:672230 original size:21 final size:21
Alignment explanation
Indices: 672155--672230 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
672145 CTGCCAAGAA
* *
672155 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
672176 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
672196 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
672217 ATGTATCGATACAT
1 ATGTATCGATACAT
672231 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:677854 original size:52 final size:52
Alignment explanation
Indices: 677714--677842 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
677704 CGAAATATGA
* * *
677714 AAATTTGCCTGCATGTATCGATATATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCAATACATCTGGAC
* *
677766 AAATTTGCCTGTATGTATTGATACATTTCATAGTGTATCAATACATCTGGAC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCAATACATCTGGAC
677818 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
677843 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCAATACATCTGGAC
Done.