Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 280 of 295
Found at i:89079061 original size:18 final size:20
Alignment explanation
Indices: 89079033--89079080 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
89079023 TTAGAAAAAA
*
89079033 TATAAAAAAATTTA-AATTT
1 TATATAAAAATTTAGAATTT
89079052 TAT-TAAAAA-TTAGAATTT
1 TATATAAAAATTTAGAATTT
*
89079070 TTTATAAAAAT
1 TATATAAAAAT
89079081 CATAAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 3 0.12
18 12 0.50
19 9 0.38
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TATATAAAAATTTAGAATTT
Found at i:89079124 original size:19 final size:19
Alignment explanation
Indices: 89079045--89079124 Score: 54
Period size: 19 Copynumber: 4.2 Consensus size: 19
89079035 TAAAAAAATT
*
89079045 TAAA-TTTTATTAAAAATTA
1 TAAATTTTTA-TAAAAATCA
* *
89079064 GAATTTTTTATAAAAATCA
1 TAAATTTTTATAAAAATCA
**** * **
89079083 TAAAAAGATAAAAAAATTG
1 TAAATTTTTATAAAAATCA
89079102 TAAATTTTTATAAAAATCA
1 TAAATTTTTATAAAAATCA
89079121 TAAA
1 TAAA
89079125 AAAAAATTAA
Statistics
Matches: 41, Mismatches: 19, Indels: 2
0.66 0.31 0.03
Matches are distributed among these distances:
19 36 0.88
20 5 0.12
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.38
Consensus pattern (19 bp):
TAAATTTTTATAAAAATCA
Found at i:89079324 original size:28 final size:29
Alignment explanation
Indices: 89079293--89079357 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 29
89079283 TTACATTTTG
89079293 TATAATTTTCTTATGACT-TTAT-AAAATT
1 TATAATTTT-TTATGACTATTATAAAAATT
*
89079321 TAT-A-TTTTTATGATTATTATAAAAATT
1 TATAATTTTTTATGACTATTATAAAAATT
*
89079348 TACAATTTTT
1 TATAATTTTT
89079358 ATATTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
25 7 0.23
26 7 0.23
27 9 0.29
28 4 0.13
29 4 0.13
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (29 bp):
TATAATTTTTTATGACTATTATAAAAATT
Found at i:89079375 original size:20 final size:19
Alignment explanation
Indices: 89079346--89079385 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
89079336 ATTATAAAAA
89079346 TTTACAATTTTTATATTTTT
1 TTTACAA-TTTTATATTTTT
*
89079366 TTTACTATTTTATATTTTT
1 TTTACAATTTTATATTTTT
89079385 T
1 T
89079386 CTAATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTACAATTTTATATTTTT
Found at i:89079385 original size:17 final size:18
Alignment explanation
Indices: 89079351--89079400 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
89079341 AAAAATTTAC
* *
89079351 AATTTTTATATTTTTTTT
1 AATTTTAATATTTTTTCT
89079369 ACTATTTT-ATATTTTTTCT
1 A--ATTTTAATATTTTTTCT
89079388 AATTTTAATATTT
1 AATTTTAATATTT
89079401 GAATTTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 5 0.18
18 7 0.25
19 11 0.39
20 5 0.18
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (18 bp):
AATTTTAATATTTTTTCT
Found at i:89080361 original size:17 final size:17
Alignment explanation
Indices: 89080339--89080372 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
89080329 CCTCAATTTA
* *
89080339 ATTTTTTTTTATCTTTT
1 ATTTTTTCTAATCTTTT
89080356 ATTTTTTCTAATCTTTT
1 ATTTTTTCTAATCTTTT
89080373 TAAAATCAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTTTTCTAATCTTTT
Found at i:89080597 original size:5 final size:5
Alignment explanation
Indices: 89080589--89080619 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
89080579 ATGAAAATTT
*
89080589 CATCC CATCC CATCC CATCC CATCT CATCC C
1 CATCC CATCC CATCC CATCC CATCC CATCC C
89080620 GCCTACACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.19, C:0.58, G:0.00, T:0.23
Consensus pattern (5 bp):
CATCC
Found at i:89081132 original size:23 final size:24
Alignment explanation
Indices: 89081093--89081139 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
89081083 CAGATATAAT
*
89081093 AAAAATCTATAATTAAATTATTAA
1 AAAAATATATAATTAAATTATTAA
89081117 AAAAATATATAA-TAAATTATTAA
1 AAAAATATATAATTAAATTATTAA
89081140 TTTAGTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAAATATATAATTAAATTATTAA
Found at i:89087682 original size:36 final size:37
Alignment explanation
Indices: 89087636--89087712 Score: 147
Period size: 36 Copynumber: 2.1 Consensus size: 37
89087626 TATGTTTGAC
89087636 TTTATGTTTGAATGTGAATCGATGTAAATTAATATCT
1 TTTATGTTTGAATGTGAATCGATGTAAATTAATATCT
89087673 TTTA-GTTTGAATGTGAATCGATGTAAATTAATATCT
1 TTTATGTTTGAATGTGAATCGATGTAAATTAATATCT
89087709 TTTA
1 TTTA
89087713 ATTTACTTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 36 0.90
37 4 0.10
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (37 bp):
TTTATGTTTGAATGTGAATCGATGTAAATTAATATCT
Found at i:89088557 original size:141 final size:141
Alignment explanation
Indices: 89088299--89088576 Score: 405
Period size: 141 Copynumber: 2.0 Consensus size: 141
89088289 GTGACTCGTA
* *
89088299 TACTTTGATGTAAGTAAAAGCCTGAGTTCAAATAGATAAGCAACCGAAAGTTGATGCGTTAGGTA
1 TACTTTGATGTAAGTAAAAACCCGAGTTCAAATAGATAAGCAACCGAAAGTTGATGCGTTAGGTA
* * * * *
89088364 TACGACTTCTGTAGTATGTAGTGTCATTCACAATAATGAAATTTATAGCCCGAGACATGATTAAA
66 TACGACTTCTGCAGTATGTAGCGTCATTCACAACAATGAAATTTATAACCCGAGACATGAGTAAA
89088429 TGATATCATTT
131 TGATATCATTT
* * * *
89088440 TACTTTGATGTAAGTAAAAACCCGAGTTCAAATAGATAAGGAATCGAAAGTTGGTGCGTTGGGTA
1 TACTTTGATGTAAGTAAAAACCCGAGTTCAAATAGATAAGCAACCGAAAGTTGATGCGTTAGGTA
* * * *
89088505 TATGACTTCTGCAGTATGTAGCG-CAATTCACAACAGTGGAATTTATAACCCGAGACATGCGTAA
66 TACGACTTCTGCAGTATGTAGCGTC-ATTCACAACAATGAAATTTATAACCCGAGACATGAGTAA
89088569 ATGATATC
130 ATGATATC
89088577 CTTTCATTAG
Statistics
Matches: 121, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
140 1 0.01
141 120 0.99
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (141 bp):
TACTTTGATGTAAGTAAAAACCCGAGTTCAAATAGATAAGCAACCGAAAGTTGATGCGTTAGGTA
TACGACTTCTGCAGTATGTAGCGTCATTCACAACAATGAAATTTATAACCCGAGACATGAGTAAA
TGATATCATTT
Found at i:89090468 original size:18 final size:18
Alignment explanation
Indices: 89090445--89090493 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
89090435 AATTAATGAT
*
89090445 TTGAAATAGAAAATGGTA
1 TTGAAATAGAAAATGCTA
* *
89090463 TTGAAAT-GACAATGCTT
1 TTGAAATAGAAAATGCTA
*
89090480 TTGAAATAGCAAAT
1 TTGAAATAGAAAAT
89090494 AAGATGAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.31
Consensus pattern (18 bp):
TTGAAATAGAAAATGCTA
Found at i:89097537 original size:28 final size:28
Alignment explanation
Indices: 89097505--89097573 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
89097495 AGTTCCCGCG
**
89097505 GACTCTTACTTGAAAGATAGTCCATGTA
1 GACTCTTACTTGAAAGATAGTCCATACA
*
89097533 GACTCTTACTTGAAAGATAGTTCATACA
1 GACTCTTACTTGAAAGATAGTCCATACA
89097561 GACTCTTACTTGA
1 GACTCTTACTTGA
89097574 TAACAGTCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (28 bp):
GACTCTTACTTGAAAGATAGTCCATACA
Found at i:89098763 original size:11 final size:11
Alignment explanation
Indices: 89098742--89098781 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
89098732 ATCCATAGAA
*
89098742 CGTTAATGAAT
1 CGTTCATGAAT
*
89098753 TGTTCATGAAT
1 CGTTCATGAAT
89098764 CGTTCATGAAT
1 CGTTCATGAAT
89098775 CGTTCAT
1 CGTTCAT
89098782 TTATTAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (11 bp):
CGTTCATGAAT
Found at i:89100772 original size:23 final size:22
Alignment explanation
Indices: 89100746--89100789 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
89100736 AAAACAAAGA
*
89100746 AAAAGAACAAATCGATAACATGC
1 AAAAGAACAAACCG-TAACATGC
* *
89100769 AAAATAATAAACCGTAACATG
1 AAAAGAACAAACCGTAACATG
89100790 TAAATAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.57, C:0.16, G:0.11, T:0.16
Consensus pattern (22 bp):
AAAAGAACAAACCGTAACATGC
Found at i:89101190 original size:3 final size:3
Alignment explanation
Indices: 89101159--89101210 Score: 52
Period size: 3 Copynumber: 16.7 Consensus size: 3
89101149 ATATAATGAG
* *
89101159 AAT AAT AA- AGAT ATAT ATAT AAC AAT AAT AAT GAT AAT AAT AAT AAT
1 AAT AAT AAT A-AT A-AT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
89101206 AAT AA
1 AAT AA
89101211 CATAAAATTG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
2 1 0.02
3 33 0.79
4 8 0.19
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:89103158 original size:43 final size:43
Alignment explanation
Indices: 89102907--89103288 Score: 262
Period size: 43 Copynumber: 8.9 Consensus size: 43
89102897 GATCTTTTAA
* * * *
89102907 TTCAATCCGCTCCACCT-TAAT-TTAGGGAGATAGGATAGTGTC
1 TTCAATCTGCTCCA-CTGTAATCTCAGGGAGATAAGATACTGTC
** * * * * *
89102949 TTTGATTTGCTCCGCTGTAATCTTAGGGAGATAA-ATCTCTGGC
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-ACTGTC
* * * *
89102992 TTCAATCTGCTCCGCTGTAATCTTAGGGAGATAA-ATCTCTGGC
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-ACTGTC
* * *
89103035 TTCAATCTGCTCCGCCGTAATCTCAAGGAGATAAGAT-CTGAAATTC
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATACTG----TC
* * * *
89103081 TTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGATAGTGTC
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATACTGTC
* *
89103124 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA-CCTG-A
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATACTGTC
* * * * * * * *
89103165 TGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTAT
1 TTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATACTGT-C
* * *
89103209 TTTAATCCGCTCCACTGTAA-CTTCAGGGAGATAGGATTA-TGTC
1 TTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGA-TACTGTC
* *
89103252 TTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGAT
89103289 TTCTGGCTTT
Statistics
Matches: 273, Mismatches: 52, Indels: 30
0.77 0.15 0.08
Matches are distributed among these distances:
40 1 0.00
41 31 0.11
42 24 0.09
43 149 0.55
44 33 0.12
45 1 0.00
46 32 0.12
47 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (43 bp):
TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATACTGTC
Found at i:89103763 original size:88 final size:87
Alignment explanation
Indices: 89103486--89104158 Score: 885
Period size: 86 Copynumber: 7.7 Consensus size: 87
89103476 AGCTTCAATG
** * * * *
89103486 CAACCGATGGAGGCAAGGCTTTGT-T-TTTGATCTGCTTTGCTGTTAATGCTGGAAGGCAAGATC
1 CAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATC
** * * * *
89103549 TGCTTCTTTAACTAGCTCCA-CTG
65 TTTTTCTTCAACCAGCTCTATC-A
* ** * * *
89103572 CAATCGATGGATGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATC
1 CAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATC
** * *
89103635 TGCTTCTTTAACCAGCTCCA-CTA
65 TTTTTCTTCAACCAGCTCTATC-A
* * *
89103658 CAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
89103723 TTTGTCTTCAACCAGCTCTATCA
66 TTT-TCTTCAACCAGCTCTATCA
*
89103746 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
89103811 TTTGTCTTCAACCAGCTCTATCA
66 TTT-TCTTCAACCAGCTCTATCA
* *
89103834 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAAGAAGGCAAGATC-
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
*
89103898 TTTTCTTTAACCAGCTCTATCA
66 TTTTCTTCAACCAGCTCTATCA
*
89103920 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
*
89103985 TTTGTCTTCAACCAGCTCCATCA
66 TTT-TCTTCAACCAGCTCTATCA
*
89104008 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATC-
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
*
89104072 TTTTCTTTAACCAGCTCTATCA
66 TTTTCTTCAACCAGCTCTATCA
* * * * *
89104094 CAACCGAAAGAGGCAAAGTTTGTGTCTTCGACCTGCTTCACTATCAATGCCGGAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
89104159 GTAACTTCAT
Statistics
Matches: 537, Mismatches: 43, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
85 5 0.01
86 247 0.46
87 45 0.08
88 239 0.45
89 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (87 bp):
CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
TTTTCTTCAACCAGCTCTATCA
Found at i:89103935 original size:262 final size:261
Alignment explanation
Indices: 89103486--89104159 Score: 930
Period size: 262 Copynumber: 2.6 Consensus size: 261
89103476 AGCTTCAATG
** * * * * *
89103486 CAACCGATGGAGGCAAGGCTTTGT-T-TTTGATCTGCTTTGCTGTTAATGCTGGAAGGCAAGATC
1 CAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATC
* * * * * * ** *
89103549 TGCTTCTTTAACTAGCTCCA-CTGCAATCGATGGATGCAAGGCTTTGT-T-TTCGATCTGCTTCG
65 T-TTTCTTCAACCAGCTCTATC-ACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCG
* *
89103611 CTGTTAATGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGAGAGAGGCAAGG
127 CTGTCAATGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGAAAGAGGCAAGG
*
89103676 TTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTC
192 TTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTC
*
89103741 TATCA
257 CATCA
89103746 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATC-
89103811 TTTGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCT
65 TTT-TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCT
* * *
89103876 GTCAATGTAAGAAGGCAAGATCT-TTTCTTTAACCAGCTCTA-TCACAACCGAAAGAGGCAAGGT
129 GTCAATGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACT-ACAACCGAAAGAGGCAAGGT
* *
89103939 TTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCC
193 TTGTGTCTTCGACCTGCTTCACTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCC
89104004 ATCA
258 ATCA
* *
89104008 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCT
* * * * *
89104073 TTTCTTTAACCAGCTCTATCACAACCGAAAGAGGCAAAGTTTGTGTCTTCGACCTGCTTCACTAT
66 TTTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGT
**
89104138 CAATGCCGGAAGGCAAGATCTG
131 CAATGTAGGAAGGCAAGATCTG
89104160 TAACTTCATT
Statistics
Matches: 370, Mismatches: 35, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
259 5 0.01
260 93 0.25
261 43 0.12
262 191 0.52
263 38 0.10
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (261 bp):
CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCT
TTTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGT
CAATGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGAAAGAGGCAAGGTTTG
TGTCTTCGACCTGCTTCACTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATC
A
Found at i:89103977 original size:174 final size:174
Alignment explanation
Indices: 89103486--89104158 Score: 930
Period size: 174 Copynumber: 3.9 Consensus size: 174
89103476 AGCTTCAATG
** * * *
89103486 CAACCGATGGAGGCAAGGCTTTGT-T-TTTGATCTGCTTTGCTGTTAATGCT-GGAAGGCAAGAT
1 CAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG-TAGGAAGGCAAGAT
* * * * * ** *
89103548 CTGCTTCTTTAACTAGCTCCA-CTGCAATCGATGGATGCAAGGCTTTGT-T-TTCGATCTGCTTC
64 CT-TTTCTTTAACCAGCTCTATC-ACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTC
* * * ** *
89103610 GCTGTTAATGTAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCA-CTA
126 GCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATC-A
* * * *
89103658 CAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATC-
*
89103723 TTTGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCT
65 TTT-TCTTTAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCT
*
89103788 GTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCA
129 GTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCA
*
89103834 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAAGAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
89103899 TTTCTTTAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGT
66 TTTCTTTAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGT
89103964 CAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCA
131 CAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCA
89104008 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
* * * *
89104073 TTTCTTTAACCAGCTCTATCACAACCGAAAGAGGCAAAGTTTGTGTCTTCGACCTGCTTCACTAT
66 TTTCTTTAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGT
* *
89104138 CAATGCCGGAAGGCAAGATCT
131 CAATGCAGAAAGGCAAGATCT
89104159 GTAACTTCAT
Statistics
Matches: 453, Mismatches: 38, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
171 5 0.01
172 17 0.04
173 37 0.08
174 278 0.61
175 41 0.09
176 74 0.16
177 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (174 bp):
CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
TTTCTTTAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGT
CAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCA
Found at i:89108471 original size:19 final size:20
Alignment explanation
Indices: 89108442--89108490 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
89108432 CACTTCGTGA
* *
89108442 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
89108461 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
89108481 AAATG-AATGC
1 AAATGTAATGC
89108491 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:89110624 original size:14 final size:14
Alignment explanation
Indices: 89110605--89110631 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
89110595 AAACAAATAC
89110605 ATATACATATATAT
1 ATATACATATATAT
89110619 ATATACATATATA
1 ATATACATATATA
89110632 AGCAAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATACATATATAT
Found at i:89110747 original size:3 final size:3
Alignment explanation
Indices: 89110716--89110767 Score: 52
Period size: 3 Copynumber: 16.7 Consensus size: 3
89110706 ATATAATGAG
* *
89110716 AAT AAT AA- AGAT ATAT ATAT AAC AAT AAT AAT GAT AAT AAT AAT AAT
1 AAT AAT AAT A-AT A-AT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
89110763 AAT AA
1 AAT AA
89110768 CATAAAATTG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
2 1 0.02
3 33 0.79
4 8 0.19
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:89112086 original size:23 final size:23
Alignment explanation
Indices: 89112054--89112105 Score: 95
Period size: 23 Copynumber: 2.2 Consensus size: 23
89112044 TAAATCCCAT
89112054 TAAATTGAGTTTAATTAGAGTACC
1 TAAA-TGAGTTTAATTAGAGTACC
89112078 TAAATGAGTTTAATTAGAGTACC
1 TAAATGAGTTTAATTAGAGTACC
89112101 TAAAT
1 TAAAT
89112106 TATACTCTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 24 0.86
24 4 0.14
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (23 bp):
TAAATGAGTTTAATTAGAGTACC
Found at i:89113428 original size:5 final size:5
Alignment explanation
Indices: 89113418--89113442 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
89113408 GTGGTAAGAT
89113418 ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA
89113443 TAGGCCAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:89118339 original size:18 final size:18
Alignment explanation
Indices: 89118329--89118755 Score: 127
Period size: 17 Copynumber: 24.0 Consensus size: 18
89118319 TTTTTAAGAT
89118329 ACGAGAATTTTTGAAAAC
1 ACGAGAATTTTTGAAAAC
*
89118347 ACGAGAA--TTTGTAAAC
1 ACGAGAATTTTTGAAAAC
* *
89118363 ACGAAAATTTTAG-AAAC
1 ACGAGAATTTTTGAAAAC
* *
89118380 ACGAAAATTTTTGGAAAAA
1 ACGAGAATTTTT-GAAAAC
*
89118399 ACGA-AATTTTCTTAAAAC
1 ACGAGAATTTT-TGAAAAC
* *
89118417 ACGACATTTTTTTTTTG-AAAC
1 ACGAGA----ATTTTTGAAAAC
*
89118438 ACGGGAATTTTT-AAAAC
1 ACGAGAATTTTTGAAAAC
* * *
89118455 AAGACATTTTTTTG-AAAC
1 ACGAGA-ATTTTTGAAAAC
* *
89118473 AC-A-ATTTTTTCTTAAAA-
1 ACGAGA-ATTTT-TGAAAAC
*
89118490 A--A-AA-TTTT--AAAT
1 ACGAGAATTTTTGAAAAC
89118502 ACGAGAATTTTT-AAAAC
1 ACGAGAATTTTTGAAAAC
*
89118519 ACGAAAATTTTT-AAAAC
1 ACGAGAATTTTTGAAAAC
* *
89118536 ACGGAAATATTTTTTTTTTTAAAAC
1 AC-GAGA-A-----TTTTTGAAAAC
*
89118561 ACGAAAATTTTTTCTGAAAAC
1 ACGAGAA--TTTT-TGAAAAC
* *
89118582 AAGAAAATTTTTG-AAAC
1 ACGAGAATTTTTGAAAAC
*
89118599 ACTAGAA-TTTTGAAAAC
1 ACGAGAATTTTTGAAAAC
89118616 ACGA-AGATTTTTG-AAAC
1 ACGAGA-ATTTTTGAAAAC
*
89118633 ATGAGAATTTTT-AAAAGC
1 ACGAGAATTTTTGAAAA-C
* * *
89118651 ACGAGGATTATTGAAAGC
1 ACGAGAATTTTTGAAAAC
* *
89118669 ACGAAAATTTGT-AAAA-
1 ACGAGAATTTTTGAAAAC
* *
89118685 ACGACAATTTTTG-AAAT
1 ACGAGAATTTTTGAAAAC
89118702 ACGAGAAATTTTT--AAAC
1 ACGAG-AATTTTTGAAAAC
* * **
89118719 GCGAAAATTTTTTTCAAAC
1 ACGAGAA-TTTTTGAAAAC
* *
89118738 ACGAAAACTTTTGAAAAC
1 ACGAGAATTTTTGAAAAC
89118756 GCGAAAATTC
Statistics
Matches: 319, Mismatches: 47, Indels: 86
0.71 0.10 0.19
Matches are distributed among these distances:
11 3 0.01
12 1 0.00
13 1 0.00
14 4 0.01
15 2 0.01
16 48 0.15
17 101 0.32
18 84 0.26
19 27 0.08
20 6 0.02
21 20 0.06
22 1 0.00
23 5 0.02
24 9 0.03
25 7 0.02
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (18 bp):
ACGAGAATTTTTGAAAAC
Found at i:89118357 original size:16 final size:16
Alignment explanation
Indices: 89118338--89118389 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
89118328 TACGAGAATT
*
89118338 TTTGAAAACACGAGAA
1 TTTGAAAACACGAAAA
*
89118354 TTTGTAAACACGAAAA
1 TTTGAAAACACGAAAA
*
89118370 TTTTAGAAACACGAAAA
1 TTTGA-AAACACGAAAA
89118387 TTT
1 TTT
89118390 TTGGAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (16 bp):
TTTGAAAACACGAAAA
Found at i:89118381 original size:17 final size:17
Alignment explanation
Indices: 89118337--89118420 Score: 73
Period size: 18 Copynumber: 4.8 Consensus size: 17
89118327 ATACGAGAAT
*
89118337 TTTTGAAAACACGAGAA
1 TTTTGAAAACACGAAAA
*
89118354 -TTTGTAAACACGAAAA
1 TTTTGAAAACACGAAAA
89118370 TTTT-AGAAACACGAAAA
1 TTTTGA-AAACACGAAAA
* *
89118387 TTTTTGGAAAAAACGAAAT
1 -TTTT-GAAAACACGAAAA
*
89118406 TTTCTTAAAACACGA
1 TTT-TGAAAACACGA
89118421 CATTTTTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
16 14 0.26
17 14 0.26
18 15 0.28
19 10 0.19
20 1 0.02
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:89118527 original size:17 final size:17
Alignment explanation
Indices: 89118489--89118764 Score: 153
Period size: 17 Copynumber: 15.4 Consensus size: 17
89118479 TTTTCTTAAA
* *
89118489 AAAAATTTT-AAATACG
1 AAAATTTTTAAAACACG
*
89118505 AGAATTTTTAAAACACG
1 AAAATTTTTAAAACACG
89118522 AAAATTTTTAAAACACGG
1 AAAATTTTTAAAACAC-G
89118540 AAATATTTTTTTTTTTAAAACACG
1 AAA-A------TTTTTAAAACACG
*
89118564 AAAATTTTTTCTGAAAACAAG
1 AAAA--TTTT-T-AAAACACG
* *
89118585 AAAATTTTTGAAACACT
1 AAAATTTTTAAAACACG
* *
89118602 AGAATTTTGAAAACACG
1 AAAATTTTTAAAACACG
* * *
89118619 AAGATTTTTGAAACATG
1 AAAATTTTTAAAACACG
*
89118636 AGAATTTTTAAAAGCACG
1 AAAATTTTTAAAA-CACG
** * *
89118654 AGGATTATTGAAAGCACG
1 AAAATT-TTTAAAACACG
*
89118672 AAAATTTGTAAAA-ACG
1 AAAATTTTTAAAACACG
* * *
89118688 ACAATTTTTGAAATACG
1 AAAATTTTTAAAACACG
*
89118705 AGAAATTTTT-AAACGCG
1 A-AAATTTTTAAAACACG
*
89118722 AAAATTTTTTTCAAACACG
1 AAAA--TTTTTAAAACACG
* *
89118741 AAAACTTTTGAAAACGCG
1 AAAA-TTTTTAAAACACG
89118759 AAAATT
1 AAAATT
89118765 CGAAAATTTC
Statistics
Matches: 202, Mismatches: 40, Indels: 35
0.73 0.14 0.13
Matches are distributed among these distances:
16 23 0.11
17 77 0.38
18 47 0.23
19 26 0.13
20 1 0.00
21 11 0.05
23 1 0.00
24 4 0.02
25 12 0.06
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.32
Consensus pattern (17 bp):
AAAATTTTTAAAACACG
Found at i:89118557 original size:25 final size:23
Alignment explanation
Indices: 89118526--89118573 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 23
89118516 AACACGAAAA
89118526 TTTTTAAAACACGGAAATATTTTTT
1 TTTTTAAAACAC-GAAA-ATTTTTT
89118551 TTTTTAAAACACGAAAATTTTTT
1 TTTTTAAAACACGAAAATTTTTT
89118574 CTGAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 7 0.30
24 4 0.17
25 12 0.52
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (23 bp):
TTTTTAAAACACGAAAATTTTTT
Found at i:89118732 original size:19 final size:19
Alignment explanation
Indices: 89118710--89118764 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 19
89118700 ATACGAGAAA
89118710 TTTTT-AAACGCGAAAATT
1 TTTTTAAAACGCGAAAATT
* * *
89118728 TTTTTCAAACACGAAAA-C
1 TTTTTAAAACGCGAAAATT
*
89118746 TTTTGAAAACGCGAAAATT
1 TTTTTAAAACGCGAAAATT
89118765 CGAAAATTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 19 0.66
19 10 0.34
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.33
Consensus pattern (19 bp):
TTTTTAAAACGCGAAAATT
Found at i:89118808 original size:18 final size:17
Alignment explanation
Indices: 89118759--89118809 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
89118749 TGAAAACGCG
89118759 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
89118776 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
89118794 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
89118810 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:89119332 original size:26 final size:26
Alignment explanation
Indices: 89119293--89119349 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
89119283 CCTTTTTTTT
*
89119293 CTGCTGCAGGATTCGGGCCTGGGGGC
1 CTGCTGCAGAATTCGGGCCTGGGGGC
*
89119319 CTGCTGCCGAATTCGGGCCTGGGGGC
1 CTGCTGCAGAATTCGGGCCTGGGGGC
89119345 CTGCT
1 CTGCT
89119350 TGGTCTGCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.07, C:0.30, G:0.42, T:0.21
Consensus pattern (26 bp):
CTGCTGCAGAATTCGGGCCTGGGGGC
Found at i:89119481 original size:20 final size:19
Alignment explanation
Indices: 89119456--89119499 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
89119446 TGGCTGTGGC
89119456 CTGCTTCTATTTTATTTTTT
1 CTGCTT-TATTTTATTTTTT
* *
89119476 CTGCTTTGTTTTGTTTTTT
1 CTGCTTTATTTTATTTTTT
*
89119495 TTGCT
1 CTGCT
89119500 GCTTTGTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.05, C:0.14, G:0.11, T:0.70
Consensus pattern (19 bp):
CTGCTTTATTTTATTTTTT
Found at i:89119492 original size:19 final size:21
Alignment explanation
Indices: 89119456--89119509 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
89119446 TGGCTGTGGC
*
89119456 CTGCTTCTATTTTA-TTTTTT-
1 CTGCTT-TGTTTTATTTTTTTG
*
89119476 CTGCTTTGTTTTGTTTTTTTTG
1 CTGCTTTGTTTT-ATTTTTTTG
89119498 CTGCTTTGTTTT
1 CTGCTTTGTTTT
89119510 TTTCAAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 5 0.17
20 6 0.21
21 6 0.21
22 12 0.41
ACGTcount: A:0.04, C:0.13, G:0.13, T:0.70
Consensus pattern (21 bp):
CTGCTTTGTTTTATTTTTTTG
Found at i:89119511 original size:19 final size:19
Alignment explanation
Indices: 89119465--89119512 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
89119455 CCTGCTTCTA
*
89119465 TTTTATTTTTTCTGCTTTG
1 TTTTTTTTTTTCTGCTTTG
89119484 TTTTGTTTTTTTTGCTGCTTTG
1 -TTT-TTTTTTTT-CTGCTTTG
89119506 TTTTTTT
1 TTTTTTT
89119513 CAAAAACCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 7 0.28
21 10 0.40
22 8 0.32
ACGTcount: A:0.02, C:0.08, G:0.12, T:0.77
Consensus pattern (19 bp):
TTTTTTTTTTTCTGCTTTG
Found at i:89120094 original size:29 final size:29
Alignment explanation
Indices: 89120061--89120177 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
89120051 TGTAATTTTT
*
89120061 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
89120090 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
89120120 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
89120149 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
89120178 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:89120116 original size:30 final size:30
Alignment explanation
Indices: 89120076--89120177 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
89120066 ATTTAGGATT
*
89120076 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
89120106 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
89120136 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
89120166 AAAATGCAATTT
1 AAAATGAAATTT
89120178 TTATTTTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:89120199 original size:15 final size:16
Alignment explanation
Indices: 89120173--89120209 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
89120163 GTCAAAATGC
89120173 AATTTTTATTTTTTAA
1 AATTTTTATTTTTTAA
*
89120189 AATTTTT-TTTTTTGA
1 AATTTTTATTTTTTAA
89120204 AATTTT
1 AATTTT
89120210 GAAAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
AATTTTTATTTTTTAA
Found at i:89120668 original size:53 final size:54
Alignment explanation
Indices: 89120450--89120704 Score: 387
Period size: 53 Copynumber: 4.8 Consensus size: 54
89120440 CACGTGAGCC
* *
89120450 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
*
89120505 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
89120555 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
89120609 AAGGCTCAACTTACCTCTCGCAATATG-GTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
89120662 AAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
89120705 CAAAGATTGA
Statistics
Matches: 185, Mismatches: 9, Indels: 13
0.89 0.04 0.06
Matches are distributed among these distances:
50 48 0.26
52 1 0.01
53 50 0.27
54 42 0.23
55 38 0.21
56 6 0.03
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:89120895 original size:72 final size:72
Alignment explanation
Indices: 89120663--89120929 Score: 448
Period size: 72 Copynumber: 3.7 Consensus size: 72
89120653 AGAAATTAAA
**
89120663 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACA-AAGATTGAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA-ATTGAAATTACCTCAAC
89120727 GTGTCTTG
65 GTGTCTTG
* *
89120735 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAAC
89120800 GTGTCTTG
65 GTGTCTTG
89120808 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
89120873 TGTCTTG
66 TGTCTTG
*
89120880 AGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
89120930 AAAAGGCTTA
Statistics
Matches: 185, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
71 6 0.03
72 110 0.59
73 67 0.36
74 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCTTG
Found at i:89121028 original size:122 final size:125
Alignment explanation
Indices: 89120808--89121051 Score: 361
Period size: 122 Copynumber: 2.0 Consensus size: 125
89120798 ACGTGTCTTG
** * * * *
89120808 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
89120873 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATTAAA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTAAA
* * *
89120933 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
*
89120995 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATT
89121052 GAAATTACCT
Statistics
Matches: 108, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
122 71 0.66
123 9 0.08
124 3 0.03
125 25 0.23
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (125 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAA
Found at i:89121075 original size:72 final size:72
Alignment explanation
Indices: 89120933--89121629 Score: 1087
Period size: 72 Copynumber: 9.7 Consensus size: 72
89120923 AAAAATTAAA
* ** * * * * * *
89120933 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
89120995 TGTCTTG
66 TGTCTTG
89121002 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
89121067 TGTCTTG
66 TGTCTTG
89121074 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
89121139 TGTCTTG
66 TGTCTTG
*
89121146 AGGGTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
89121211 TGTCTTG
66 TGTCTTG
* *
89121218 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAAC
89121283 GTGTCTTG
65 GTGTCTTG
89121291 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
89121356 TGTCTTG
66 TGTCTTG
* * *
89121363 AGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAACAGAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
*
89121428 TGTCCTG
66 TGTCTTG
* *
89121435 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
*
89121500 TGTCCTG
66 TGTCTTG
* * * *
89121507 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTAACAACAGAAATTAAAATTACCTCAGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA-AACAGAAATTGAAATTACCTCAAC
*
89121572 GTGTCCTG
65 GTGTCTTG
** * *
89121580 AGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACATAAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
89121630 AAAAGGCTTA
Statistics
Matches: 590, Mismatches: 32, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
69 25 0.04
70 3 0.01
71 3 0.01
72 428 0.73
73 131 0.22
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCTTG
Found at i:89121511 original size:289 final size:288
Alignment explanation
Indices: 89120933--89121629 Score: 1091
Period size: 289 Copynumber: 2.4 Consensus size: 288
89120923 AAAAATTAAA
* ** * * * *
89120933 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AA-AACATAAACTAAAAATACCTCAAT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAACAACAGAAA-TTAAAATACCTCAAC
89120994 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
65 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
89121059 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
130 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
* * * *
89121124 GAAATTACCTCAACGTGTCTTGAGGGTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
195 GAAAATACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAAC
*
89121189 AGAAATTGAAATTACCTCAACGTGTCTTG
260 AGAAATTGAAATTACCTCAACGTGTCCTG
*
89121218 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGA-AGCAGAAATTGAAAATACCTCAA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-ACAACAGAAATT-AAAATACCTCAA
89121282 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATT
64 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATT
*
89121347 ACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTGAAAACAGAAAT
129 ACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAAT
*
89121412 TGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAA
194 TGAAAATACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAA
*
89121477 CAGAAATTGAAATTACCTCAGCGTGTCCTG
259 CAGAAATTGAAATTACCTCAACGTGTCCTG
* * *
89121507 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTAACAACAGAAATTAAAATTACCTCAGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAACAACAGAAATTAAAA-TACCTCAAC
* ** * *
89121572 GTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACATAAATT
65 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
89121630 AAAAGGCTTA
Statistics
Matches: 379, Mismatches: 25, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
285 25 0.07
286 3 0.01
287 3 0.01
288 13 0.03
289 335 0.88
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (288 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAACAACAGAAATTAAAATACCTCAACG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTG
AAAATACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACA
GAAATTGAAATTACCTCAACGTGTCCTG
Found at i:89121772 original size:123 final size:124
Alignment explanation
Indices: 89121507--89121784 Score: 355
Period size: 123 Copynumber: 2.2 Consensus size: 124
89121497 GCGTGTCCTG
** * * * *
89121507 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTAACAACAGAAATTAAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAG-TCA-TATTTAACAACAGAAACTAAAAATACCTCAGC
* *
89121572 GTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACATAAATTAAA
64 GTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAGAAATTAAA
* * **
89121633 AGGCTTAACTCACCTCTCGCAATATGAGTCA-ATTTAA-AACATAAACTAAAAATACCTTGGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTCATATTTAACAACAGAAACTAAAAATACCTCAGCGT
* *
89121696 GCCCCT-AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
66 G-CCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAGAAATTAAA
**
89121756 AGGCTCAACTCACCTCTCGTGATATGAGT
1 AGGCTCAACTCACCTCTCGCAATATGAGT
89121785 TGATTTTCCT
Statistics
Matches: 133, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
122 52 0.39
123 54 0.41
125 2 0.02
126 25 0.19
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (124 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCATATTTAACAACAGAAACTAAAAATACCTCAGCGT
GCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAGAAATTAAA
Found at i:89123628 original size:30 final size:29
Alignment explanation
Indices: 89123588--89123703 Score: 117
Period size: 30 Copynumber: 3.9 Consensus size: 29
89123578 TAAAAAATAA
* *
89123588 AAATTGCATTTTGACACCTAAACTTTTC-CT
1 AAATTTCATTTTGAC-CCTAAAC-TTTCATT
*
89123618 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCC-TAAACTTTCATT
* *
89123648 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGA-CCCTAAACTTTCATT
* * *
89123678 AAATTTCATTTTAATCCTAAATTTTC
1 AAATTTCATTTTGACCCTAAACTTTC
89123704 TAAAAATTAC
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
29 16 0.22
30 54 0.74
31 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATTTCATTTTGACCCTAAACTTTCATT
Found at i:89123953 original size:20 final size:20
Alignment explanation
Indices: 89123930--89123987 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
89123920 AAAACTTGCA
89123930 AAAAAGAGAAAAAGAAGAGG
1 AAAAAGAGAAAAAGAAGAGG
* *
89123950 AAAAGGAGAGAAAG-AGAGG
1 AAAAAGAGAAAAAGAAGAGG
* *
89123969 AGAAAG-G-AGAAGAAGAGG
1 AAAAAGAGAAAAAGAAGAGG
89123987 A
1 A
89123988 GAGCCTCCGA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
17 3 0.10
18 7 0.23
19 9 0.29
20 12 0.39
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (20 bp):
AAAAAGAGAAAAAGAAGAGG
Found at i:89123959 original size:22 final size:20
Alignment explanation
Indices: 89123935--89123978 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
89123925 TTGCAAAAAA
*
89123935 GAGAAAAAGAAGAGGA-AAAG
1 GAGAGAAAG-AGAGGAGAAAG
89123955 GAGAGAAAGAGAGGAGAAAG
1 GAGAGAAAGAGAGGAGAAAG
89123975 GAGA
1 GAGA
89123979 AGAAGAGGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (20 bp):
GAGAGAAAGAGAGGAGAAAG
Found at i:89124029 original size:18 final size:17
Alignment explanation
Indices: 89124006--89124048 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
89123996 GACAGCGGCT
89124006 CGACGGCGAAGACGACGG
1 CGACGGCGAAG-CGACGG
*
89124024 CGACGGCACAAGCGACGG
1 CGACGGC-GAAGCGACGG
89124042 CG-CGGCG
1 CGACGGCG
89124049 CGGCGGCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 4 0.18
18 15 0.68
19 3 0.14
ACGTcount: A:0.23, C:0.33, G:0.44, T:0.00
Consensus pattern (17 bp):
CGACGGCGAAGCGACGG
Found at i:89124072 original size:3 final size:3
Alignment explanation
Indices: 89124066--89124140 Score: 102
Period size: 3 Copynumber: 26.0 Consensus size: 3
89124056 TAGGGCTCGT
*
89124066 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GGA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* *
89124114 GAA -AA -AA GAA AAA GAA AAA GAA -AA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
89124141 AAAGGAAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
2 6 0.09
3 58 0.91
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:89124149 original size:6 final size:6
Alignment explanation
Indices: 89124070--89124150 Score: 65
Period size: 6 Copynumber: 13.3 Consensus size: 6
89124060 GCTCGTGAAG
* * * * * * * *
89124070 AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG GAGAAG AAGAAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAG-AAA
89124119 AAGAAA AAGAAA AAG-AA AAGAAA AAGGAAA AA
1 AAGAAA AAGAAA AAGAAA AAGAAA AA-GAAA AA
89124151 ATAAAAAATA
Statistics
Matches: 69, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
5 5 0.07
6 53 0.77
7 11 0.16
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:89124216 original size:18 final size:18
Alignment explanation
Indices: 89124193--89124235 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
89124183 CGGGTCAAAC
89124193 CGACCCGATCCGGCGACA
1 CGACCCGATCCGGCGACA
* *
89124211 CGACCCGATCCGGTGACC
1 CGACCCGATCCGGCGACA
89124229 CGACCCG
1 CGACCCG
89124236 CAACCCAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.19, C:0.47, G:0.28, T:0.07
Consensus pattern (18 bp):
CGACCCGATCCGGCGACA
Found at i:89124526 original size:7 final size:7
Alignment explanation
Indices: 89124516--89124594 Score: 88
Period size: 7 Copynumber: 11.1 Consensus size: 7
89124506 GAAAAAGAAG
89124516 GAAAAAA
1 GAAAAAA
*
89124523 GAAAACA
1 GAAAAAA
*
89124530 GAAAACA
1 GAAAAAA
89124537 GAAAAAA
1 GAAAAAA
89124544 GAAAAAA
1 GAAAAAA
89124551 GAAAAGAA
1 GAAAA-AA
*
89124559 AAAAAAA
1 GAAAAAA
*
89124566 GGGAAAAA
1 -GAAAAAA
*
89124574 G-GAAAA
1 GAAAAAA
89124580 GAAAAAA
1 GAAAAAA
89124587 GAAAAAA
1 GAAAAAA
89124594 G
1 G
89124595 GAAGGCTCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
6 5 0.08
7 46 0.74
8 11 0.18
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:89124542 original size:21 final size:19
Alignment explanation
Indices: 89124518--89124592 Score: 82
Period size: 18 Copynumber: 3.9 Consensus size: 19
89124508 AAAAGAAGGA
*
89124518 AAAAAGAAAACAGAAAACAG
1 AAAAAGAAAAAAGAAAA-AG
89124538 AAAAAAGAAAAAAG-AAAAG
1 -AAAAAGAAAAAAGAAAAAG
**
89124557 AAAAA-AAAAGGGAAAAAG
1 AAAAAGAAAAAAGAAAAAG
*
89124575 GAAAAGAAAAAAGAAAAA
1 AAAAAGAAAAAAGAAAAA
89124593 AGGAAGGCTC
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
17 5 0.11
18 14 0.30
19 12 0.26
20 3 0.07
21 12 0.26
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAAAGAAAAAG
Found at i:89124643 original size:21 final size:21
Alignment explanation
Indices: 89124619--89124658 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
89124609 TGTAACCCTC
89124619 TCGGTCAAGCTCGTATTTTGA
1 TCGGTCAAGCTCGTATTTTGA
*
89124640 TCGGTCAATCTCGTATTTT
1 TCGGTCAAGCTCGTATTTT
89124659 TGAGCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (21 bp):
TCGGTCAAGCTCGTATTTTGA
Found at i:89125104 original size:36 final size:36
Alignment explanation
Indices: 89125062--89125174 Score: 100
Period size: 39 Copynumber: 3.0 Consensus size: 36
89125052 ACGATACTTC
89125062 TTTAAAAAAAATCGTGTTTCAAAAATTTTCGGGTTT
1 TTTAAAAAAAATCGTGTTTCAAAAATTTTCGGGTTT
* * * *
89125098 TTTAAAAAAATTTCTCGTGTTTCAAAAAATTTCCGTTTT
1 TTTAAAAAAA---ATCGTGTTTCAAAAATTTTCGGGTTT
** *** *
89125137 TTTTTAAATTTTCGTGTTTTCAAAAATTTTCGTGTTT
1 TTTAAAAAAAATCGTG-TTTCAAAAATTTTCGGGTTT
89125174 T
1 T
89125175 CAAAAATCTT
Statistics
Matches: 60, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
36 15 0.25
37 17 0.28
39 28 0.47
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.50
Consensus pattern (36 bp):
TTTAAAAAAAATCGTGTTTCAAAAATTTTCGGGTTT
Found at i:89125156 original size:18 final size:18
Alignment explanation
Indices: 89125073--89125560 Score: 235
Period size: 18 Copynumber: 27.9 Consensus size: 18
89125063 TTAAAAAAAA
89125073 TCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
* *
89125090 TCGGGTTTTTTAAAAAAATTT
1 TC--GTGTTTT-CAAAAATTT
89125111 CTCGTG-TTTCAAAAAATTT
1 -TCGTGTTTTC-AAAAATTT
* * ***
89125130 CCGTTTTTTTTTAAATTT
1 TCGTGTTTTCAAAAATTT
89125148 TCGTGTTTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
89125166 TCGTGTTTTCAAAAATCTT
1 TCGTGTTTTCAAAAAT-TT
*
89125185 T-GTGTTTTCAAAAATTC
1 TCGTGTTTTCAAAAATTT
* *
89125202 TGGCG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
**
89125219 TCGTGTTTAAAAAAAAAATTT
1 TCGTGTTT---TCAAAAATTT
* *
89125240 ACGTGTTTTCACAAATTT
1 TCGTGTTTTCAAAAATTT
* *
89125258 TCGTG-TTTCACAAATTC
1 TCGTGTTTTCAAAAATTT
*
89125275 TCGTGTTTTCAAAAA-CT
1 TCGTGTTTTCAAAAATTT
* *
89125292 CCAGTG-TTTC-AAAGTTT
1 TC-GTGTTTTCAAAAATTT
* * *
89125309 CCATGTTTTCAAAAATTC
1 TCGTGTTTTCAAAAATTT
* * **
89125327 TCGCG-TTTAAAAAAAAT
1 TCGTGTTTTCAAAAATTT
*
89125344 TCGTG-TTTCAAAATATTC
1 TCGTGTTTTCAAAA-ATTT
**
89125362 TCG-CATTTC---AATTT
1 TCGTGTTTTCAAAAATTT
*
89125376 T--TGTTTT--TAAA---
1 TCGTGTTTTCAAAAATTT
* *
89125387 TCGTG-TTTCAAAAAATG
1 TCGTGTTTTCAAAAATTT
89125404 TCGTGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAATTT
*
89125421 TCGTG-TTTCTAAAATTT
1 TCGTGTTTTCAAAAATTT
* * *
89125438 CCCTGTTTT-AAAAATTC
1 TCGTGTTTTCAAAAATTT
* * *
89125455 CCGTG-TTTCAGAAAAAATG
1 TCGTGTTTTC--AAAAATTT
*
89125474 TCGTGTTTT-AAGAAAATT
1 TCGTGTTTTCAA-AAATTT
*
89125492 TCGTTTTTTCTAAAAATTT
1 TCGTGTTTTC-AAAAATTT
*
89125511 TCGTG-TTTCTAAAATTT
1 TCGTGTTTTCAAAAATTT
* *
89125528 TCGTG-TTT-ACAAATTC
1 TCGTGTTTTCAAAAATTT
89125544 TCGTGTTTTCAAAAATT
1 TCGTGTTTTCAAAAATT
89125561 CTAGTATTTT
Statistics
Matches: 356, Mismatches: 73, Indels: 83
0.70 0.14 0.16
Matches are distributed among these distances:
11 1 0.00
12 3 0.01
13 5 0.01
14 9 0.03
15 1 0.00
16 21 0.06
17 121 0.34
18 122 0.34
19 38 0.11
20 10 0.03
21 23 0.06
22 2 0.01
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTT
Found at i:89125226 original size:17 final size:17
Alignment explanation
Indices: 89125073--89125560 Score: 228
Period size: 17 Copynumber: 27.9 Consensus size: 17
89125063 TTAAAAAAAA
89125073 TCGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
* *
89125090 TCGGGTTTTTTAAAAAAATTT
1 TC--G-TGTTT-CAAAAATTT
89125111 CTCGTGTTTCAAAAAATTT
1 -TCGTGTTTC-AAAAATTT
* * ***
89125130 CCGTTTTTTTTTAAATTT
1 TCG-TGTTTCAAAAATTT
89125148 TCGTGTTTTCAAAAATTT
1 TCGTG-TTTCAAAAATTT
89125166 TCGTGTTTTCAAAAATCTT
1 TCGTG-TTTCAAAAAT-TT
*
89125185 T-GTGTTTTCAAAAATTC
1 TCGTG-TTTCAAAAATTT
* *
89125202 TGGCGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
*
89125219 TCGTGTTTAAAAAAAAAATTT
1 TCGTGTTT----CAAAAATTT
* *
89125240 ACGTGTTTTCACAAATTT
1 TCGTG-TTTCAAAAATTT
* *
89125258 TCGTGTTTCACAAATTC
1 TCGTGTTTCAAAAATTT
*
89125275 TCGTGTTTTCAAAAA-CT
1 TCGTG-TTTCAAAAATTT
* *
89125292 CCAGTGTTTC-AAAGTTT
1 TC-GTGTTTCAAAAATTT
* * *
89125309 CCATGTTTTCAAAAATTC
1 TCGTG-TTTCAAAAATTT
* * **
89125327 TCGCGTTTAAAAAAAAT
1 TCGTGTTTCAAAAATTT
*
89125344 TCGTGTTTCAAAATATTC
1 TCGTGTTTCAAAA-ATTT
**
89125362 TCGCATTTC---AATTT
1 TCGTGTTTCAAAAATTT
**
89125376 T--TGTTT-TTAAA---
1 TCGTGTTTCAAAAATTT
* *
89125387 TCGTGTTTCAAAAAATG
1 TCGTGTTTCAAAAATTT
*
89125404 TCGTGTTTTAAAAATTT
1 TCGTGTTTCAAAAATTT
*
89125421 TCGTGTTTCTAAAATTT
1 TCGTGTTTCAAAAATTT
* * * *
89125438 CCCTGTTTTAAAAATTC
1 TCGTGTTTCAAAAATTT
* * *
89125455 CCGTGTTTCAGAAAAAATG
1 TCGTGTTTC--AAAAATTT
* *
89125474 TCGTGTTTTAAGAAAATT
1 TCGTGTTTCAA-AAATTT
*
89125492 TCGTTTTTTCTAAAAATTT
1 TCG-TGTTTC-AAAAATTT
*
89125511 TCGTGTTTCTAAAATTT
1 TCGTGTTTCAAAAATTT
* *
89125528 TCGTGTTT-ACAAATTC
1 TCGTGTTTCAAAAATTT
89125544 TCGTGTTTTCAAAAATT
1 TCGTG-TTTCAAAAATT
89125561 CTAGTATTTT
Statistics
Matches: 355, Mismatches: 79, Indels: 73
0.70 0.16 0.14
Matches are distributed among these distances:
11 1 0.00
12 3 0.01
13 5 0.01
14 9 0.03
15 1 0.00
16 15 0.04
17 137 0.39
18 107 0.30
19 45 0.13
20 7 0.02
21 20 0.06
22 5 0.01
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (17 bp):
TCGTGTTTCAAAAATTT
Found at i:89125247 original size:56 final size:53
Alignment explanation
Indices: 89125154--89125372 Score: 142
Period size: 52 Copynumber: 4.1 Consensus size: 53
89125144 ATTTTCGTGT
** ** *
89125154 TTTCAAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTTCAAAAATTCTGGCG
1 TTTCAAAAATTTTCGTGTTTAAAAAAAAATTTGTGTTTTCAAAAATTCTCGCG
* * *
89125207 TTTCAAAAATTTTCGTGTTTAAAAAAAAAATTTACGTGTTTTCACAAATTTTCGTG
1 TTTCAAAAATTTTCGTGTTT-AAAAAAAAATTT--GTGTTTTCAAAAATTCTCGCG
* * ** * ** ** **
89125263 TTTCACAAATTCTCGTGTTT-TCAAAAACTCCAGTG-TTTCAAAGTTTC-CATG
1 TTTCAAAAATTTTCGTGTTTAAAAAAAAAT-TTGTGTTTTCAAAAATTCTCGCG
* * * *
89125314 TTTTCAAAAATTCTCGCGTTT-AAAAAAAATTCGTG-TTTCAAAATATTCTCGCA
1 -TTTCAAAAATTTTCGTGTTTAAAAAAAAATTTGTGTTTTCAAAA-ATTCTCGCG
89125367 TTTCAA
1 TTTCAA
89125373 TTTTTGTTTT
Statistics
Matches: 127, Mismatches: 32, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
51 13 0.10
52 41 0.32
53 24 0.19
54 14 0.11
56 35 0.28
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (53 bp):
TTTCAAAAATTTTCGTGTTTAAAAAAAAATTTGTGTTTTCAAAAATTCTCGCG
Found at i:89125299 original size:74 final size:74
Alignment explanation
Indices: 89125158--89125300 Score: 175
Period size: 74 Copynumber: 1.9 Consensus size: 74
89125148 TCGTGTTTTC
* * * *
89125158 AAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTTCAAAAATTCTGGCGTTTCAAAAATTTTCGT
1 AAAAATTTACGTGTTTTCAAAAATCTTTGTGTTTTCAAAAATTCTCGCGTTTCAAAAATCTCCGT
89125223 GTTTAAAAA
66 GTTTAAAAA
* * *
89125232 AAAAATTTACGTGTTTTCACAAAT-TTTCGTG-TTTCACAAATTCTCGTGTTTTCAAAAA-CTCC
1 AAAAATTTACGTGTTTTCAAAAATCTTT-GTGTTTTCAAAAATTCTCGCG-TTTCAAAAATCTCC
89125294 AGTGTTT
64 -GTGTTT
89125301 CAAAGTTTCC
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
73 19 0.32
74 40 0.68
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (74 bp):
AAAAATTTACGTGTTTTCAAAAATCTTTGTGTTTTCAAAAATTCTCGCGTTTCAAAAATCTCCGT
GTTTAAAAA
Found at i:89125556 original size:16 final size:16
Alignment explanation
Indices: 89125505--89125556 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
89125495 TTTTTTCTAA
*
89125505 AAATTTTCGTGTTTCTA
1 AAATTTTCGTGTTT-TC
*
89125522 AAATTTTCGTGTTTAC
1 AAATTTTCGTGTTTTC
*
89125538 AAATTCTCGTGTTTTC
1 AAATTTTCGTGTTTTC
89125554 AAA
1 AAA
89125557 AATTCTAGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.48
Consensus pattern (16 bp):
AAATTTTCGTGTTTTC
Found at i:89125576 original size:18 final size:18
Alignment explanation
Indices: 89125538--89125576 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
89125528 TCGTGTTTAC
* * *
89125538 AAATTCTCGTGTTTTCAA
1 AAATTCTAGTATTTTAAA
89125556 AAATTCTAGTATTTTAAA
1 AAATTCTAGTATTTTAAA
89125574 AAA
1 AAA
89125577 AAACTTTCGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (18 bp):
AAATTCTAGTATTTTAAA
Found at i:89156760 original size:15 final size:14
Alignment explanation
Indices: 89156734--89156775 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
89156724 AAATTTTGGT
89156734 TTTTGATATTTAAGG
1 TTTTGAT-TTTAAGG
89156749 TTTGTGATTTTAAGG
1 TTT-TGATTTTAAGG
*
89156764 TTTAGATTTTAA
1 TTTTGATTTTAA
89156776 AATTCTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 8 0.32
15 13 0.52
16 4 0.16
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.55
Consensus pattern (14 bp):
TTTTGATTTTAAGG
Found at i:89156923 original size:29 final size:31
Alignment explanation
Indices: 89156880--89156952 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 31
89156870 GAAGAATTTA
* *
89156880 AGATTTT-GGTTTTTAAGGCTTAAG-TCTTAT
1 AGATTTTAGG-TTTTAAGACTTAAGATCATAT
* *
89156910 -GATTTTAGGTTTTAAGATTTATGATCATAT
1 AGATTTTAGGTTTTAAGACTTAAGATCATAT
89156940 AGATTTTAGGTTT
1 AGATTTTAGGTTT
89156953 AGGGTTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 17 0.47
30 7 0.19
31 12 0.33
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (31 bp):
AGATTTTAGGTTTTAAGACTTAAGATCATAT
Found at i:89159723 original size:16 final size:16
Alignment explanation
Indices: 89159702--89159753 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
89159692 ATAGAGAAGA
89159702 AAAAATATTACTCAAC
1 AAAAATATTACTCAAC
*
89159718 AAAAATATGA-T--A-
1 AAAAATATTACTCAAC
89159730 AAAAATATTACTCAAC
1 AAAAATATTACTCAAC
89159746 AAAAATAT
1 AAAAATAT
89159754 GATTTTCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
12 9 0.30
13 2 0.07
15 2 0.07
16 17 0.57
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.25
Consensus pattern (16 bp):
AAAAATATTACTCAAC
Found at i:89159738 original size:28 final size:28
Alignment explanation
Indices: 89159701--89159756 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
89159691 AATAGAGAAG
89159701 AAAAAATATTACTCAACAAAAATATGAT
1 AAAAAATATTACTCAACAAAAATATGAT
89159729 AAAAAATATTACTCAACAAAAATATGAT
1 AAAAAATATTACTCAACAAAAATATGAT
89159757 TTTCAATCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.61, C:0.11, G:0.04, T:0.25
Consensus pattern (28 bp):
AAAAAATATTACTCAACAAAAATATGAT
Found at i:89164516 original size:15 final size:15
Alignment explanation
Indices: 89164496--89164537 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
89164486 TTGTAGTAGA
89164496 TTGTATTTCTTCCAT
1 TTGTATTTCTTCCAT
89164511 TTGTATTTCTTCCAT
1 TTGTATTTCTTCCAT
89164526 TCTAGTATTTCT
1 T-T-GTATTTCT
89164538 AGAATTTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 16 0.64
16 1 0.04
17 8 0.32
ACGTcount: A:0.14, C:0.19, G:0.07, T:0.60
Consensus pattern (15 bp):
TTGTATTTCTTCCAT
Found at i:89165487 original size:21 final size:20
Alignment explanation
Indices: 89165449--89165487 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
89165439 TTATTTATTT
**
89165449 TTTTATATTTAGGGTTTTGA
1 TTTTATATTTAGAATTTTGA
89165469 TTTTATAGTTTAGAATTTT
1 TTTTATA-TTTAGAATTTT
89165488 TGGATTTAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (20 bp):
TTTTATATTTAGAATTTTGA
Found at i:89167573 original size:20 final size:19
Alignment explanation
Indices: 89167548--89167608 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
89167538 TAATATTATT
89167548 TTTTTAAAATTTCAAATATA
1 TTTTTAAAATTT-AAATATA
89167568 TTTTTAAAA-TT--AT-T-
1 TTTTTAAAATTTAAATATA
89167582 TTTTTAAAATTTTAAATATA
1 TTTTTAAAA-TTTAAATATA
89167602 TTTTTAA
1 TTTTTAA
89167609 TAATATAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
14 9 0.26
15 1 0.03
16 4 0.11
18 2 0.06
19 3 0.09
20 16 0.46
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTTAAAATTTAAATATA
Found at i:89167583 original size:34 final size:34
Alignment explanation
Indices: 89167520--89167608 Score: 126
Period size: 34 Copynumber: 2.6 Consensus size: 34
89167510 TTGGTTTTAA
* * * *
89167520 AAAATTTGAAATGT-TTTATAATATTATTTTTTT
1 AAAATTTCAAATATATTTTTAAAATTATTTTTTT
89167553 AAAATTTCAAATATATTTTTAAAATTATTTTTTT
1 AAAATTTCAAATATATTTTTAAAATTATTTTTTT
*
89167587 AAAATTTTAAATATATTTTTAA
1 AAAATTTCAAATATATTTTTAA
89167609 TAATATAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 12 0.24
34 38 0.76
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (34 bp):
AAAATTTCAAATATATTTTTAAAATTATTTTTTT
Found at i:89167733 original size:14 final size:15
Alignment explanation
Indices: 89167708--89167739 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
89167698 TAATTTAACA
89167708 TATAATTTTTTAAAT
1 TATAATTTTTTAAAT
89167723 TATAA-TTTTTAAAT
1 TATAATTTTTTAAAT
89167737 TAT
1 TAT
89167740 TTTTAAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TATAATTTTTTAAAT
Found at i:89167851 original size:18 final size:19
Alignment explanation
Indices: 89167830--89167872 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
89167820 AATTAATTAG
89167830 AAAAAA-AATTTATTTGTT
1 AAAAAAGAATTTATTTGTT
*
89167848 AAAAAAGGATTTATTTGTT
1 AAAAAAGAATTTATTTGTT
89167867 AAAAAA
1 AAAAAA
89167873 TATAACTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.37
Consensus pattern (19 bp):
AAAAAAGAATTTATTTGTT
Found at i:89170508 original size:30 final size:30
Alignment explanation
Indices: 89170474--89170576 Score: 172
Period size: 30 Copynumber: 3.4 Consensus size: 30
89170464 GTCGCAGAAC
*
89170474 AGTTCATATCACCAGGACATGGGCAGTTCG
1 AGTTCATATCACCTGGACATGGGCAGTTCG
*
89170504 AGTTCATATCACCTGGACATGGGCGGCTT-G
1 AGTTCATATCACCTGGACATGGGCAG-TTCG
89170534 AGTTCATATCACCTGGACATGGGCAGTTCG
1 AGTTCATATCACCTGGACATGGGCAGTTCG
89170564 AGTTCATATCACC
1 AGTTCATATCACC
89170577 CAGACATAAG
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
29 2 0.03
30 64 0.94
31 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.26
Consensus pattern (30 bp):
AGTTCATATCACCTGGACATGGGCAGTTCG
Found at i:89170607 original size:60 final size:60
Alignment explanation
Indices: 89170474--89170600 Score: 200
Period size: 60 Copynumber: 2.1 Consensus size: 60
89170464 GTCGCAGAAC
* ** **
89170474 AGTTCATATCACCAGGACATGGGCAGTTCGAGTTCATATCACCTGGACATGGGCGGCTTG
1 AGTTCATATCACCTGGACATGGGCAGTTCGAGTTCATATCACCCAGACATAAGCGGCTTG
*
89170534 AGTTCATATCACCTGGACATGGGCAGTTCGAGTTCATATCACCCAGACATAAGCGGTTTG
1 AGTTCATATCACCTGGACATGGGCAGTTCGAGTTCATATCACCCAGACATAAGCGGCTTG
89170594 AGTTCAT
1 AGTTCAT
89170601 TCCACCTAGA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (60 bp):
AGTTCATATCACCTGGACATGGGCAGTTCGAGTTCATATCACCCAGACATAAGCGGCTTG
Found at i:89172231 original size:83 final size:83
Alignment explanation
Indices: 89172092--89172258 Score: 325
Period size: 83 Copynumber: 2.0 Consensus size: 83
89172082 AAGACCCTTC
89172092 GATTTGTCGAAGATAATGCAAAAGTTGTCTTGCCTGACAACATACCTCTGCAAGTTTCGAATGAA
1 GATTTGTCGAAGATAATGCAAAAGTTGTCTTGCCTGACAACATACCTCTGCAAGTTTCGAATGAA
89172157 ATATGCCCACGATTCAAA
66 ATATGCCCACGATTCAAA
*
89172175 GATTTGTCGAAGATAATGCAAAAGTTGTCTTGCCTGACAACATGCCTCTGCAAGTTTCGAATGAA
1 GATTTGTCGAAGATAATGCAAAAGTTGTCTTGCCTGACAACATACCTCTGCAAGTTTCGAATGAA
89172240 ATATGCCCACGATTCAAA
66 ATATGCCCACGATTCAAA
89172258 G
1 G
89172259 TTCTCCGACT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (83 bp):
GATTTGTCGAAGATAATGCAAAAGTTGTCTTGCCTGACAACATACCTCTGCAAGTTTCGAATGAA
ATATGCCCACGATTCAAA
Found at i:89173200 original size:39 final size:39
Alignment explanation
Indices: 89173146--89173225 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
89173136 ACTCGGGTTA
89173146 CTGAATAAAGGGCCATGAACATCTTCAAACTTCTCCGAG
1 CTGAATAAAGGGCCATGAACATCTTCAAACTTCTCCGAG
89173185 CTGAATAAAGGGCCATGAACATCTTCAAACTTCTCCGAG
1 CTGAATAAAGGGCCATGAACATCTTCAAACTTCTCCGAG
89173224 CT
1 CT
89173226 TTCATCAGCG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (39 bp):
CTGAATAAAGGGCCATGAACATCTTCAAACTTCTCCGAG
Found at i:89174136 original size:30 final size:30
Alignment explanation
Indices: 89174102--89174177 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
89174092 TTTAAAATTA
*
89174102 ATTTAAAATTTTATAAT-TTATAAAAAATAT
1 ATTTAAAATTTTATAATATT-TAAAAAATAC
** * *
89174132 ATTTAAAATTAAAAAATATTTAAAATATAC
1 ATTTAAAATTTTATAATATTTAAAAAATAC
*
89174162 ATTTAAAATATTATAA
1 ATTTAAAATTTTATAA
89174178 AACAAATAAT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
30 34 0.94
31 2 0.06
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (30 bp):
ATTTAAAATTTTATAATATTTAAAAAATAC
Found at i:89174145 original size:17 final size:17
Alignment explanation
Indices: 89174124--89174157 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
89174114 ATAATTTATA
89174124 AAAAATATATTTAAAATT
1 AAAAA-ATATTTAAAATT
89174142 AAAAAATATTTAAAAT
1 AAAAAATATTTAAAAT
89174158 ATACATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAAAATATTTAAAATT
Found at i:89174193 original size:121 final size:114
Alignment explanation
Indices: 89174086--89174380 Score: 303
Period size: 121 Copynumber: 2.5 Consensus size: 114
89174076 AAAACGTTTG
89174086 AATATCTTTAAAATTAATTTAAAATTTTATAATTTATAAAAAATATATTTAAAATTAAAAAATAT
1 AATATCTTTAAAATTAATTTAAAATTTTATAA-TTATAAAAAATATATTTAAAATTAAAAAAT-T
* *
89174151 TTAAAATAT-ACATTTAAAATATTATAAAACAAATAATAAATTTTAAAGGT
64 TTAAAATATAAAATTTAAAATATTATAAAACAAATAATAAATTTTAAAGTT
** * * ** **
89174201 AATATCTTTAAAACTAATATATTTAAAAAAATAAAAAAAATAAGAAAACTATA-AAACAAATTAA
1 AATATCTTTAAAA-T--TA-ATTT-AAAATTTTATAATTATAA-AAAA-TATATTTA-AAATTAA
* * * *
89174265 AAAATTTTAAATTTTAAAATTTAAAATATTATAAAACTAATAATAAATTTGAAAGTT
58 AAAATTTTAAAATATAAAATTTAAAATATTATAAAACAAATAATAAATTTTAAAGTT
* *
89174322 CATATCTTTAAAA-T-ATTTAAATATTTTAT-ATTATTAAAAATATATTTAAAATGTAAAAA
1 AATATCTTTAAAATTAATTTAAA-ATTTTATAATTATAAAAAATATATTTAAAAT-TAAAAA
89174381 CTAATATTTA
Statistics
Matches: 144, Mismatches: 24, Indels: 26
0.74 0.12 0.13
Matches are distributed among these distances:
112 8 0.06
113 11 0.08
114 7 0.05
115 20 0.14
116 1 0.01
117 1 0.01
118 2 0.01
119 8 0.06
120 21 0.15
121 65 0.45
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (114 bp):
AATATCTTTAAAATTAATTTAAAATTTTATAATTATAAAAAATATATTTAAAATTAAAAAATTTT
AAAATATAAAATTTAAAATATTATAAAACAAATAATAAATTTTAAAGTT
Found at i:89174380 original size:20 final size:20
Alignment explanation
Indices: 89174355--89174425 Score: 81
Period size: 21 Copynumber: 3.5 Consensus size: 20
89174345 TTTTATATTA
89174355 TTAAAAATATATTTAAAA-T
1 TTAAAAATATATTTAAAATT
* *
89174374 GTAAAAACTAATATTTAAATTT
1 TTAAAAA-T-ATATTTAAAATT
*
89174396 TTAAATATATATTTTAAAATT
1 TTAAAAATATA-TTTAAAATT
89174417 TTAAAAATA
1 TTAAAAATA
89174426 AATATTATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 6 0.14
20 4 0.10
21 26 0.62
22 6 0.14
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (20 bp):
TTAAAAATATATTTAAAATT
Found at i:89174411 original size:21 final size:21
Alignment explanation
Indices: 89174342--89174421 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
89174332 AAATATTTAA
* * *
89174342 ATATTTTATATTATTAAAAAT
1 ATATTTTAAATTTTTAAATAT
* * **
89174363 ATATTTAAAATGTAAAAACTA-
1 ATATTTTAAATTTTTAAA-TAT
89174384 ATA-TTTAAATTTTTAAATAT
1 ATATTTTAAATTTTTAAATAT
*
89174404 ATATTTTAAAATTTTAAA
1 ATATTTTAAATTTTTAAA
89174422 AATAAATATT
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
19 2 0.05
20 13 0.30
21 28 0.64
22 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (21 bp):
ATATTTTAAATTTTTAAATAT
Found at i:89177525 original size:28 final size:29
Alignment explanation
Indices: 89177456--89177526 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 29
89177446 ACCTCAGGTT
* *
89177456 ACATTTTAGTCACTTATGTTTGAAATATT
1 ACATTTTAGTCACTTACGTTTGAAATATA
*
89177485 ACATTTTCA-TCACTTACG-TT-AACATGTA
1 ACATTTT-AGTCACTTACGTTTGAA-ATATA
89177513 ACATTTTAGTCACT
1 ACATTTTAGTCACT
89177527 GAGCTGTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
27 3 0.08
28 17 0.47
29 15 0.42
30 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.44
Consensus pattern (29 bp):
ACATTTTAGTCACTTACGTTTGAAATATA
Found at i:89182932 original size:54 final size:54
Alignment explanation
Indices: 89182874--89182981 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
89182864 AAACTAGATG
89182874 AAAACACATGTCATTATACAATAAAAAAATATAATGCATAATTATGATGATAGT
1 AAAACACATGTCATTATACAATAAAAAAATATAATGCATAATTATGATGATAGT
89182928 AAAACACATGTCATTATACAATAAAAAAATATAATGCATAATTATGATGATAGT
1 AAAACACATGTCATTATACAATAAAAAAATATAATGCATAATTATGATGATAGT
89182982 TAATGTTTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (54 bp):
AAAACACATGTCATTATACAATAAAAAAATATAATGCATAATTATGATGATAGT
Found at i:89190495 original size:30 final size:31
Alignment explanation
Indices: 89190461--89190529 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 31
89190451 TTAGTAATGG
* *
89190461 TAAAACTACACTTTAACCTCTT-AAAAATTA
1 TAAAAATACAATTTAACCTCTTAAAAAATTA
** *
89190491 TAAAAATTTAATTTAACCTTTTAAAAAATTA
1 TAAAAATACAATTTAACCTCTTAAAAAATTA
89190522 TAAAAATA
1 TAAAAATA
89190530 TAGACTATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 17 0.53
31 15 0.47
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (31 bp):
TAAAAATACAATTTAACCTCTTAAAAAATTA
Found at i:89191106 original size:26 final size:29
Alignment explanation
Indices: 89191061--89191117 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 29
89191051 ATGACTTTCC
*
89191061 AAAAATTCATACATGATTTAACTT-TAAA
1 AAAAATTCATACAAGATTTAACTTATAAA
*
89191089 AAAAATT-ATACAAG-TTTAAGTTATAAA
1 AAAAATTCATACAAGATTTAACTTATAAA
89191116 AA
1 AA
89191118 TTATATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 7 0.27
27 12 0.46
28 7 0.27
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAAATTCATACAAGATTTAACTTATAAA
Found at i:89191199 original size:20 final size:21
Alignment explanation
Indices: 89191170--89191213 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
89191160 ATGATAAAAA
89191170 AAATCT-AAAAT-TATATTAT
1 AAATCTAAAAATATATATTAT
89191189 AAATACTAAAAATATATATTAT
1 AAAT-CTAAAAATATATATTAT
89191211 AAA
1 AAA
89191214 AAAATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.18
20 2 0.09
21 5 0.23
22 11 0.50
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATCTAAAAATATATATTAT
Found at i:89192771 original size:6 final size:7
Alignment explanation
Indices: 89192745--89192774 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
89192735 TTGTAAACAT
89192745 TTTTATA
1 TTTTATA
89192752 TTTTATA
1 TTTTATA
89192759 TTTTATA
1 TTTTATA
89192766 TTTATATA
1 TTT-TATA
89192774 T
1 T
89192775 ATTTTGTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.77
8 5 0.23
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTTATA
Found at i:89192897 original size:29 final size:30
Alignment explanation
Indices: 89192865--89192926 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
89192855 CTTTTCTATA
**
89192865 TTTTTAATAATTTTAATAAATTTTAA-ATT
1 TTTTTAATAATGGTAATAAATTTTAATATT
* * *
89192894 TTTTTTATTATGGTAATAATTTTTAATATT
1 TTTTTAATAATGGTAATAAATTTTAATATT
89192924 TTT
1 TTT
89192927 CTGTAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 21 0.78
30 6 0.22
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (30 bp):
TTTTTAATAATGGTAATAAATTTTAATATT
Found at i:89195052 original size:31 final size:31
Alignment explanation
Indices: 89194984--89195058 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 31
89194974 TATTAGAATT
89194984 ATTTT-TATATATTTTAATTAAAATTTTTGAA
1 ATTTTATATATATTTTAATTAAAATTTTT-AA
* *
89195015 ATTTTTATATGTATTTTAATTAGATATTTTT-A
1 A-TTTTATATATATTTTAATTA-AAATTTTTAA
89195047 ATTTTATA-ATAT
1 ATTTTATATATAT
89195059 GTATTTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
30 3 0.08
31 8 0.21
32 6 0.16
33 14 0.37
34 7 0.18
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (31 bp):
ATTTTATATATATTTTAATTAAAATTTTTAA
Found at i:89195059 original size:34 final size:32
Alignment explanation
Indices: 89194984--89195071 Score: 101
Period size: 34 Copynumber: 2.7 Consensus size: 32
89194974 TATTAGAATT
89194984 ATTTTTATA--TATTTTAATTAAAATTTTTGAA
1 ATTTTTATATGTATTTTAATTAAAATTTTT-AA
*
89195015 ATTTTTATATGTATTTTAATTAGATATTTTT-A
1 ATTTTTATATGTATTTTAATTA-AAATTTTTAA
*
89195047 ATTTTATAATATGTATTTTATTTAA
1 ATTTT-T-ATATGTATTTTAATTAA
89195072 TCTTATAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
31 9 0.18
32 6 0.12
33 13 0.26
34 22 0.44
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (32 bp):
ATTTTTATATGTATTTTAATTAAAATTTTTAA
Found at i:89204355 original size:2 final size:2
Alignment explanation
Indices: 89204348--89204374 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
89204338 TGAAGGGGAG
89204348 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
89204375 CGGAGGAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:89206941 original size:192 final size:192
Alignment explanation
Indices: 89206614--89206999 Score: 772
Period size: 192 Copynumber: 2.0 Consensus size: 192
89206604 ATGCATATCA
89206614 ATGATTTTGAGGATTAATGCATGATTATAGTTTGTGTGAACAGACGTTTAACCATTATTCAATAA
1 ATGATTTTGAGGATTAATGCATGATTATAGTTTGTGTGAACAGACGTTTAACCATTATTCAATAA
89206679 GATATCTTTTATAGTTTAATTGGTGAAATTAAGTTTTGATGGATATCATTGAAGTTAATTTTTTT
66 GATATCTTTTATAGTTTAATTGGTGAAATTAAGTTTTGATGGATATCATTGAAGTTAATTTTTTT
89206744 TTTATTTTGTTATGGTTATATATTCAATTTTATGTGTGCTTTGGTGCAAATTCATGTCAACT
131 TTTATTTTGTTATGGTTATATATTCAATTTTATGTGTGCTTTGGTGCAAATTCATGTCAACT
89206806 ATGATTTTGAGGATTAATGCATGATTATAGTTTGTGTGAACAGACGTTTAACCATTATTCAATAA
1 ATGATTTTGAGGATTAATGCATGATTATAGTTTGTGTGAACAGACGTTTAACCATTATTCAATAA
89206871 GATATCTTTTATAGTTTAATTGGTGAAATTAAGTTTTGATGGATATCATTGAAGTTAATTTTTTT
66 GATATCTTTTATAGTTTAATTGGTGAAATTAAGTTTTGATGGATATCATTGAAGTTAATTTTTTT
89206936 TTTATTTTGTTATGGTTATATATTCAATTTTATGTGTGCTTTGGTGCAAATTCATGTCAACT
131 TTTATTTTGTTATGGTTATATATTCAATTTTATGTGTGCTTTGGTGCAAATTCATGTCAACT
89206998 AT
1 AT
89207000 ATACATATTT
Statistics
Matches: 194, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
192 194 1.00
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.47
Consensus pattern (192 bp):
ATGATTTTGAGGATTAATGCATGATTATAGTTTGTGTGAACAGACGTTTAACCATTATTCAATAA
GATATCTTTTATAGTTTAATTGGTGAAATTAAGTTTTGATGGATATCATTGAAGTTAATTTTTTT
TTTATTTTGTTATGGTTATATATTCAATTTTATGTGTGCTTTGGTGCAAATTCATGTCAACT
Found at i:89209605 original size:12 final size:12
Alignment explanation
Indices: 89209588--89209635 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
89209578 TGGGAGTAAA
89209588 GTTTTATATTTG
1 GTTTTATATTTG
*
89209600 GTTTTATATGTTAAA
1 GTTTTATAT-TT--G
89209615 GTTTTATATTTG
1 GTTTTATATTTG
89209627 GTTTTATAT
1 GTTTTATAT
89209636 GTTAATGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 18 0.58
13 2 0.06
14 2 0.06
15 9 0.29
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (12 bp):
GTTTTATATTTG
Found at i:89209618 original size:27 final size:27
Alignment explanation
Indices: 89209584--89209640 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
89209574 TTAGTGGGAG
89209584 TAAAGTTTTATATTTGGTTTTATATGT
1 TAAAGTTTTATATTTGGTTTTATATGT
89209611 TAAAGTTTTATATTTGGTTTTATATGT
1 TAAAGTTTTATATTTGGTTTTATATGT
89209638 TAA
1 TAA
89209641 TGACATATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (27 bp):
TAAAGTTTTATATTTGGTTTTATATGT
Found at i:89213076 original size:53 final size:53
Alignment explanation
Indices: 89213015--89213234 Score: 149
Period size: 52 Copynumber: 4.2 Consensus size: 53
89213005 GCCACAACCC
** *
89213015 CAAA-TTTTTTTATCT-GATAAAGGAGTGTTGGCCATCAGTGTCCCAATACCTT
1 CAAATTTTTTTTATCTAGATAAAGGAGTGTCAGCCATCAGTGTCCCAACACC-T
* * * *
89213067 CAAATTTTTTTAATTCTGGA-AAA-GAG-GTTCCAGCCATCAGTGTCCCAGCTCC-
1 CAAATTTTTTTTA-TCTAGATAAAGGAGTG-T-CAGCCATCAGTGTCCCAACACCT
* * * *
89213119 CAAAATTTTTTTAAT-TAGATAAAGG-GATGTCAGCCATCAGCGTCCCAGCACCC
1 C-AAATTTTTTTTATCTAGATAAAGGAG-TGTCAGCCATCAGTGTCCCAACACCT
* * * * *
89213172 CAAATTTTTTTT-TC-AAATAAAGGGGTGTC-GGCATCAGTGTCACAACACTTT
1 CAAATTTTTTTTATCTAGATAAAGGAGTGTCAGCCATCAGTGTCCCAACAC-CT
89213223 C-AATTTTTTTTA
1 CAAATTTTTTTTA
89213235 AAAATATACC
Statistics
Matches: 136, Mismatches: 17, Indels: 31
0.74 0.09 0.17
Matches are distributed among these distances:
50 25 0.18
51 17 0.12
52 42 0.31
53 26 0.19
54 24 0.18
55 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (53 bp):
CAAATTTTTTTTATCTAGATAAAGGAGTGTCAGCCATCAGTGTCCCAACACCT
Found at i:89220805 original size:43 final size:43
Alignment explanation
Indices: 89220744--89220829 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
89220734 TATATGATTG
* *
89220744 ATATTGAAATGACAAATATGATAAGTGAATATGAGATGAGAAA
1 ATATTGAAATGACAAATATGAGAAATGAATATGAGATGAGAAA
* *
89220787 ATATTGAAATGGCAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGACAAATATGAGAAATGAATATGAGATGAGAAA
89220830 TGAGATATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.50, C:0.02, G:0.22, T:0.26
Consensus pattern (43 bp):
ATATTGAAATGACAAATATGAGAAATGAATATGAGATGAGAAA
Found at i:89221515 original size:14 final size:15
Alignment explanation
Indices: 89221493--89221533 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
89221483 TATTTATCAG
*
89221493 TAATAAATTATATTA
1 TAATTAATTATATTA
89221508 -AATTAATT-TATTA
1 TAATTAATTATATTA
89221521 TAATTATATTATA
1 TAATTA-ATTATA
89221534 AAATATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
13 5 0.23
14 12 0.55
15 3 0.14
16 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATTAATTATATTA
Found at i:89221558 original size:27 final size:28
Alignment explanation
Indices: 89221494--89221558 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 28
89221484 ATTTATCAGT
89221494 AATAAATTATATTAAATTAATTTATTATA
1 AATAAATTATA-TAAATTAATTTATTATA
* *
89221523 ATTATATTATA-AAA-T-ATTTATATGATA
1 AATAAATTATATAAATTAATTTAT-T-ATA
89221550 AATAAATTA
1 AATAAATTA
89221559 AATAGTGACA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
25 6 0.20
26 2 0.07
27 13 0.43
29 9 0.30
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (28 bp):
AATAAATTATATAAATTAATTTATTATA
Found at i:89221606 original size:15 final size:15
Alignment explanation
Indices: 89221586--89221633 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
89221576 GATAAAAATA
89221586 AAATATATTTGTAAT
1 AAATATATTTGTAAT
*
89221601 -AA-ATA-TTATAA-
1 AAATATATTTGTAAT
89221612 AATATATATTTGTAAT
1 AA-ATATATTTGTAAT
89221628 AAATAT
1 AAATAT
89221634 TATAAATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
12 6 0.23
13 4 0.15
14 5 0.19
15 9 0.35
16 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (15 bp):
AAATATATTTGTAAT
Found at i:89221612 original size:25 final size:26
Alignment explanation
Indices: 89221583--89221641 Score: 102
Period size: 27 Copynumber: 2.3 Consensus size: 26
89221573 TGTGATAAAA
89221583 ATAAA-ATATATTTGTAATAAATATT
1 ATAAATATATATTTGTAATAAATATT
89221608 ATAAAATATATATTTGTAATAAATATT
1 AT-AAATATATATTTGTAATAAATATT
89221635 ATAAATA
1 ATAAATA
89221642 CATTGATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 2 0.06
26 8 0.25
27 22 0.69
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.42
Consensus pattern (26 bp):
ATAAATATATATTTGTAATAAATATT
Found at i:89221625 original size:27 final size:27
Alignment explanation
Indices: 89221588--89221639 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
89221578 TAAAAATAAA
89221588 ATATATTTGTAATAAATATTATAAAAT
1 ATATATTTGTAATAAATATTATAAAAT
89221615 ATATATTTGTAATAAATATTATAAA
1 ATATATTTGTAATAAATATTATAAA
89221640 TACATTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (27 bp):
ATATATTTGTAATAAATATTATAAAAT
Found at i:89221633 original size:13 final size:13
Alignment explanation
Indices: 89221590--89221634 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
89221580 AAAATAAAAT
89221590 ATATTTGTAATAA
1 ATATTTGTAATAA
** *
89221603 ATATTATAAAATAT
1 ATATT-TGTAATAA
89221617 ATATTTGTAATAA
1 ATATTTGTAATAA
89221630 ATATT
1 ATATT
89221635 ATAAATACAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (13 bp):
ATATTTGTAATAA
Found at i:89221641 original size:13 final size:14
Alignment explanation
Indices: 89221598--89221639 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
89221588 ATATATTTGT
89221598 AATAAATATTATAA
1 AATAAATATTATAA
* **
89221612 AATATATATT-TGT
1 AATAAATATTATAA
89221625 AATAAATATTATAA
1 AATAAATATTATAA
89221639 A
1 A
89221640 TACATTGATA
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
AATAAATATTATAA
Found at i:89222882 original size:18 final size:18
Alignment explanation
Indices: 89222859--89222922 Score: 110
Period size: 18 Copynumber: 3.6 Consensus size: 18
89222849 TAAATAAATA
89222859 TACTGAATAACTGACTGC
1 TACTGAATAACTGACTGC
*
89222877 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTGC
*
89222895 TACTGGATAACTGACTGC
1 TACTGAATAACTGACTGC
89222913 TACTGAATAA
1 TACTGAATAA
89222923 TTTATCGTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (18 bp):
TACTGAATAACTGACTGC
Found at i:89222950 original size:18 final size:18
Alignment explanation
Indices: 89222859--89222950 Score: 105
Period size: 18 Copynumber: 5.1 Consensus size: 18
89222849 TAAATAAATA
*
89222859 TACTGAATAACTGACTGC
1 TACTGAATAACTGACTGT
89222877 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTGT
* *
89222895 TACTGGATAACTGACTGC
1 TACTGAATAACTGACTGT
* *
89222913 TACTGAATAATTTA-TCGT
1 TACTGAATAACTGACT-GT
* *
89222931 TATTGAATAATTGACTGT
1 TACTGAATAACTGACTGT
89222949 TA
1 TA
89222951 AAGAGTGATT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
17 1 0.02
18 61 0.97
19 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (18 bp):
TACTGAATAACTGACTGT
Found at i:89223003 original size:18 final size:18
Alignment explanation
Indices: 89222929--89223011 Score: 69
Period size: 18 Copynumber: 4.6 Consensus size: 18
89222919 ATAATTTATC
* *
89222929 GTTATTGAATAATTGACT
1 GTTATTGAATGATTGAAT
** *
89222947 GTTAAAGAGTGATTGAAT
1 GTTATTGAATGATTGAAT
* * *
89222965 ATTATTGAACGACT-AATT
1 GTTATTGAATGATTGAA-T
89222983 GTTATTGAATGATTGAAT
1 GTTATTGAATGATTGAAT
*
89223001 GTTACTGAATG
1 GTTATTGAATG
89223012 CAACTGACAA
Statistics
Matches: 48, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
17 2 0.04
18 44 0.92
19 2 0.04
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (18 bp):
GTTATTGAATGATTGAAT
Found at i:89231971 original size:49 final size:49
Alignment explanation
Indices: 89231890--89231983 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 49
89231880 TCAAGAAGGG
* * * *
89231890 ATAAATAGTGATCAGAGTGTAAACAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGTAAACAATAGAAGACCAAGTTTAGCAATGT
*
89231939 ATAAATAGTGATAAGAGTGTAGAA-AATAGAAGACCAATTTTAGCA
1 ATAAATAGTGATAAGAGTGTA-AACAATAGAAGACCAAGTTTAGCA
89231984 TTGCATAGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 37 0.95
50 2 0.05
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.26
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGTAAACAATAGAAGACCAAGTTTAGCAATGT
Found at i:89232903 original size:32 final size:32
Alignment explanation
Indices: 89232862--89232925 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
89232852 TAGTAAGTTC
89232862 ATAGGAATAAATCATAAATCTTACCAAACATT
1 ATAGGAATAAATCATAAATCTTACCAAACATT
89232894 ATAGGAATAAATCATAAATCTTACCAAACATT
1 ATAGGAATAAATCATAAATCTTACCAAACATT
89232926 CATACTCTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.50, C:0.16, G:0.06, T:0.28
Consensus pattern (32 bp):
ATAGGAATAAATCATAAATCTTACCAAACATT
Found at i:89240619 original size:11 final size:10
Alignment explanation
Indices: 89240582--89240730 Score: 81
Period size: 10 Copynumber: 14.7 Consensus size: 10
89240572 TTTTTATTAG
*
89240582 AATTTATTAT
1 AATTTTTTAT
89240592 AA-TTTTTAT
1 AATTTTTTAT
**
89240601 AAACTTTTAT
1 AATTTTTTAT
89240611 GAATTTTTTAAT
1 -AATTTTTT-AT
*
89240623 AATATTTTAT
1 AATTTTTTAT
*
89240633 AAGTTTTTAT
1 AATTTTTTAT
* *
89240643 AAGTTTATAT
1 AATTTTTTAT
89240653 AATTTTTT-T
1 AATTTTTTAT
** *
89240662 AAGATTTAAT
1 AATTTTTTAT
*
89240672 -ATTTTTAAT
1 AATTTTTTAT
*
89240681 GA-TTTTTAT
1 AATTTTTTAT
89240690 GAAATTATTTTTAT
1 --AA-T-TTTTTAT
*
89240704 AATTTTTAAT
1 AATTTTTTAT
*
89240714 AAATTTTTAT
1 AATTTTTTAT
*
89240724 GATTTTT
1 AATTTTT
89240731 AAATAAAAAA
Statistics
Matches: 107, Mismatches: 22, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
9 27 0.25
10 54 0.50
11 15 0.14
12 4 0.04
14 7 0.07
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.60
Consensus pattern (10 bp):
AATTTTTTAT
Found at i:89240641 original size:32 final size:31
Alignment explanation
Indices: 89240571--89240668 Score: 94
Period size: 32 Copynumber: 3.1 Consensus size: 31
89240561 ATACACTTTT
89240571 ATTTTTATTAGAATTTATTATAATTTTTATAA
1 ATTTTTA-TAGAATTTATTATAATTTTTATAA
* *
89240603 ACTTTTAT-GAATTTTTTAATAATATTTTATAA
1 ATTTTTATAGAATTTATT-ATAAT-TTTTATAA
* * *
89240635 GTTTTTATA-AGTTTA-TATAATTTTTTTAA
1 ATTTTTATAGAATTTATTATAATTTTTATAA
89240664 GATTT
1 -ATTT
89240669 AATATTTTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
29 7 0.13
30 16 0.30
31 7 0.13
32 24 0.44
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (31 bp):
ATTTTTATAGAATTTATTATAATTTTTATAA
Found at i:89240664 original size:19 final size:20
Alignment explanation
Indices: 89240571--89240678 Score: 84
Period size: 22 Copynumber: 5.3 Consensus size: 20
89240561 ATACACTTTT
*
89240571 ATTTTTATTAGAATTTATTATA
1 ATTTTTATAAG-ATTTA-TATA
89240593 ATTTTTATAA-ACTTT-TATGA
1 ATTTTTATAAGA-TTTATAT-A
*
89240613 ATTTTTTAATAATATTT-TATA
1 A-TTTTT-ATAAGATTTATATA
89240634 AGTTTTTATAAG-TTTATATA
1 A-TTTTTATAAGATTTATATA
*
89240654 ATTTTTTTAAGATTTA-AT-
1 ATTTTTATAAGATTTATATA
89240672 ATTTTTA
1 ATTTTTA
89240679 ATGATTTTTA
Statistics
Matches: 74, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
18 6 0.08
19 17 0.23
20 16 0.22
21 15 0.20
22 19 0.26
23 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (20 bp):
ATTTTTATAAGATTTATATA
Found at i:89240676 original size:16 final size:17
Alignment explanation
Indices: 89240652--89240685 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
89240642 TAAGTTTATA
*
89240652 TAATTTTTTTAA-GATT
1 TAATATTTTTAATGATT
89240668 TAATATTTTTAATGATT
1 TAATATTTTTAATGATT
89240685 T
1 T
89240686 TTATGAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TAATATTTTTAATGATT
Found at i:89240678 original size:29 final size:28
Alignment explanation
Indices: 89240615--89240689 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
89240605 TTTTATGAAT
* *
89240615 TTTTTAATAATATTTTATAAGTTTTTATA
1 TTTTTAATAAT-TTTTATAAGATTTAATA
** *
89240644 AGTTTATATAATTTTTTTAAGATTTAATA
1 TTTTTA-ATAATTTTTATAAGATTTAATA
*
89240673 TTTTTAATGATTTTTAT
1 TTTTTAATAATTTTTAT
89240690 GAAATTATTT
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
28 9 0.25
29 22 0.61
30 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.61
Consensus pattern (28 bp):
TTTTTAATAATTTTTATAAGATTTAATA
Found at i:89240721 original size:20 final size:20
Alignment explanation
Indices: 89240571--89240737 Score: 81
Period size: 20 Copynumber: 8.6 Consensus size: 20
89240561 ATACACTTTT
*
89240571 ATTTTTATTAGAATTTATTATA
1 ATTTTTAATA-AATTT-TTATA
*
89240593 ATTTTT-ATAAACTTTTATGA
1 ATTTTTAATAAATTTTTAT-A
89240613 ATTTTTTAAT-AATATTTTATA
1 A-TTTTTAATAAAT-TTTTATA
* *
89240634 AGTTTTT-ATAAGTTTATATA
1 A-TTTTTAATAAATTTTTATA
* *
89240654 ATTTTT-TTAAGA-TTTAAT-
1 ATTTTTAATAA-ATTTTTATA
* *
89240672 ATTTTTAAT-GATTTTTATG
1 ATTTTTAATAAATTTTTATA
*
89240691 A-----AAT-TATTTTTATA
1 ATTTTTAATAAATTTTTATA
*
89240705 ATTTTTAATAAATTTTTATG
1 ATTTTTAATAAATTTTTATA
89240725 ATTTTTAAATAAA
1 ATTTTT-AATAAA
89240738 AAATATAATA
Statistics
Matches: 112, Mismatches: 17, Indels: 33
0.69 0.10 0.20
Matches are distributed among these distances:
14 12 0.11
17 1 0.01
18 11 0.10
19 21 0.19
20 29 0.26
21 24 0.21
22 14 0.12
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.58
Consensus pattern (20 bp):
ATTTTTAATAAATTTTTATA
Found at i:89240730 original size:21 final size:20
Alignment explanation
Indices: 89240696--89240737 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
89240686 TTATGAAATT
*
89240696 ATTTTTATAATTTTTAATAA
1 ATTTTTATAATTTTAAATAA
*
89240716 ATTTTTATGATTTTTAAATAA
1 ATTTTTAT-AATTTTAAATAA
89240737 A
1 A
89240738 AAATATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTTTTATAATTTTAAATAA
Found at i:89245802 original size:28 final size:29
Alignment explanation
Indices: 89245771--89245835 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
89245761 TAGAAGGTTT
*
89245771 AAATATTATTTAAAATAT-AAAAATATAA
1 AAATATTATTGAAAATATAAAAAATATAA
* *
89245799 AAATTATT-TTGAAATTATAAAAAATATAT
1 AAA-TATTATTGAAAATATAAAAAATATAA
*
89245828 AATTATTA
1 AAATATTA
89245836 AAAAAATCAC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (29 bp):
AAATATTATTGAAAATATAAAAAATATAA
Found at i:89253189 original size:22 final size:22
Alignment explanation
Indices: 89253145--89253189 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
89253135 TAGCAAACAA
* *
89253145 ATATAAATATAAATAATTGTAT
1 ATATAAATATAAAAAATTATAT
89253167 ATATAAATA-AAAAAATTA-AT
1 ATATAAATATAAAAAATTATAT
89253187 ATA
1 ATA
89253190 AACAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
ATATAAATATAAAAAATTATAT
Found at i:89253206 original size:16 final size:15
Alignment explanation
Indices: 89253173--89253214 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
89253163 GTATATATAA
89253173 ATAAAAAA-ATTAAT
1 ATAAAAAATATTAAT
*
89253187 ATAAACAAATATTTAT
1 ATAAA-AAATATTAAT
89253203 ATAAAAAA-ATTA
1 ATAAAAAATATTA
89253215 TATTTATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 8 0.33
15 6 0.25
16 10 0.42
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAAAAATATTAAT
Found at i:89253219 original size:19 final size:19
Alignment explanation
Indices: 89253195--89253252 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 19
89253185 ATATAAACAA
89253195 ATATTTATATAAAAAAATT
1 ATATTTATATAAAAAAATT
* *
89253214 ATATTTATGTAAAAAAACT
1 ATATTTATATAAAAAAATT
* *
89253233 AGATTTAAATAAAAAAATT
1 ATATTTATATAAAAAAATT
89253252 A
1 A
89253253 AATAAATATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (19 bp):
ATATTTATATAAAAAAATT
Found at i:89258595 original size:12 final size:13
Alignment explanation
Indices: 89258580--89258611 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
89258570 ATAACACATT
89258580 TCAAAAC-ATGCA
1 TCAAAACTATGCA
89258592 TCAAAACTATGCA
1 TCAAAACTATGCA
89258605 -CAAAACT
1 TCAAAACT
89258612 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:89269261 original size:100 final size:100
Alignment explanation
Indices: 89269088--89269285 Score: 342
Period size: 100 Copynumber: 2.0 Consensus size: 100
89269078 AGACGGCAAT
* *
89269088 GAGAATGTGCGATTTTCGAGGGTTTATTCAAACTTTTTCAAGCTTCCATGCTCTTTTACATCATG
1 GAGAATGTGCGATTTTCAAGGGTTTATTCAAACTTTTTCAAGCTTCCATGCTCATTTACATCATG
89269153 TCAATAGGCGTTCAAACCACGCGCCTTCCGGTTAC
66 TCAATAGGCGTTCAAACCACGCGCCTTCCGGTTAC
**
89269188 GAGAATGTGCGATTTTCAAGGGTTTATTCAAACTTTTTCAAGCTTCCATGCTCATTTACATTGTG
1 GAGAATGTGCGATTTTCAAGGGTTTATTCAAACTTTTTCAAGCTTCCATGCTCATTTACATCATG
* *
89269253 TCAATAGGCGTTTAAACCACGTGCCTTCCGGTT
66 TCAATAGGCGTTCAAACCACGCGCCTTCCGGTT
89269286 TTAGCCCACT
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 92 1.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.35
Consensus pattern (100 bp):
GAGAATGTGCGATTTTCAAGGGTTTATTCAAACTTTTTCAAGCTTCCATGCTCATTTACATCATG
TCAATAGGCGTTCAAACCACGCGCCTTCCGGTTAC
Done.