Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 113 of 126
Found at i:34741399 original size:10 final size:10
Alignment explanation
Indices: 34741352--34741399 Score: 62
Period size: 10 Copynumber: 4.9 Consensus size: 10
34741342 CGTTTTGTTT
34741352 GACTGTTTTG
1 GACTGTTTTG
*
34741362 GACT-TTTAG
1 GACTGTTTTG
34741371 GACTGTTTTG
1 GACTGTTTTG
* *
34741381 GATTTTTTTG
1 GACTGTTTTG
34741391 GACTGTTTT
1 GACTGTTTT
34741400 AAATATGGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
9 8 0.26
10 23 0.74
ACGTcount: A:0.12, C:0.08, G:0.25, T:0.54
Consensus pattern (10 bp):
GACTGTTTTG
Found at i:34744250 original size:38 final size:38
Alignment explanation
Indices: 34744207--34744283 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
34744197 ATAAAGTTAG
* *
34744207 ATAAATGGGCCACATTCAAAAATGAATGTGGTTTTCTC
1 ATAAATGGGCCACATTCAAAAATAAATGTGATTTTCTC
*
34744245 ATAAATGGGTCACATTCAAAAATAAATGTGATTTTCTC
1 ATAAATGGGCCACATTCAAAAATAAATGTGATTTTCTC
34744283 A
1 A
34744284 CTAAGTATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (38 bp):
ATAAATGGGCCACATTCAAAAATAAATGTGATTTTCTC
Found at i:34745635 original size:40 final size:41
Alignment explanation
Indices: 34745569--34745651 Score: 141
Period size: 40 Copynumber: 2.0 Consensus size: 41
34745559 GGAATTTTAA
* *
34745569 ATGACCGTAGTTTTTTTTTTTTAATGACTTCTCGCCCACAT
1 ATGACCATAGTTTTTTTTTTTTAATGACTTCTCACCCACAT
34745610 ATGACCATAG-TTTTTTTTTTTAATGACTTCTCACCCACAT
1 ATGACCATAGTTTTTTTTTTTTAATGACTTCTCACCCACAT
34745650 AT
1 AT
34745652 CAAGGCTTCG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 31 0.77
41 9 0.22
ACGTcount: A:0.23, C:0.22, G:0.10, T:0.46
Consensus pattern (41 bp):
ATGACCATAGTTTTTTTTTTTTAATGACTTCTCACCCACAT
Found at i:34750413 original size:38 final size:36
Alignment explanation
Indices: 34750354--34750437 Score: 89
Period size: 37 Copynumber: 2.3 Consensus size: 36
34750344 ATCATTTTAT
* *
34750354 TTTTTTAAAATCATTTCCAAAATCTTTCACTCTATAA
1 TTTTTTAAAATCATTTCCAAAATCTTTCA-TATAGAA
* * *
34750391 TTTTTTAAAAT-ATTGATTCAAAATTTTTCATATAGCA
1 TTTTTTAAAATCATT--TCCAAAATCTTTCATATAGAA
34750428 TTTTTTAAAA
1 TTTTTTAAAA
34750438 ATTATTTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
36 3 0.08
37 25 0.62
38 12 0.30
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.49
Consensus pattern (36 bp):
TTTTTTAAAATCATTTCCAAAATCTTTCATATAGAA
Found at i:34751911 original size:32 final size:34
Alignment explanation
Indices: 34751826--34751916 Score: 89
Period size: 36 Copynumber: 2.7 Consensus size: 34
34751816 ACTAAAAAAT
*
34751826 AAAAACCCCTACAGTGAAAGAAAGAAAGAAAAGA
1 AAAAAACCCTACAGTGAAAGAAAGAAAGAAAAGA
** **
34751860 ATTTAAAAAAACT-TGGTGAAAGAAAGAAAG-AAAG-
1 A---AAAAACCCTACAGTGAAAGAAAGAAAGAAAAGA
34751894 AAAAAACCCTACAGTGAAAGAAA
1 AAAAAACCCTACAGTGAAAGAAA
34751917 AAAAACCTCT
Statistics
Matches: 44, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
31 7 0.16
32 10 0.23
34 2 0.05
35 4 0.09
36 15 0.34
37 6 0.14
ACGTcount: A:0.60, C:0.11, G:0.18, T:0.11
Consensus pattern (34 bp):
AAAAAACCCTACAGTGAAAGAAAGAAAGAAAAGA
Found at i:34753242 original size:127 final size:127
Alignment explanation
Indices: 34753016--34753270 Score: 429
Period size: 127 Copynumber: 2.0 Consensus size: 127
34753006 AAAGATCTGA
* * *
34753016 ACCATGTCGGGAATTACAATTGGGGCTTTGCGGTTTTGGTATGCCTATATCACGAGCTTTGTCAA
1 ACCATGTCAGGAATTACAATTGGGGCTCTGCAGTTTTGGTATGCCTATATCACGAGCTTTGTCAA
* * *
34753081 TAGACAAAGCCAAATATGAAGGACATGAGTGGTTGCTGCCTTTTGCTGCAATCATGGACATT
66 GAGACAAAGCCAAAAATGAAGGACATGAGCGGTTGCTGCCTTTTGCTGCAATCATGGACATT
*
34753143 ACCATGTCAGGACTTACAATTGGGGCTCTGCAGTTTTGGTATGCCTATATCACGAGCTTTGTCAA
1 ACCATGTCAGGAATTACAATTGGGGCTCTGCAGTTTTGGTATGCCTATATCACGAGCTTTGTCAA
* *
34753208 GCGACAAAGCCAAAAATGAAGGACATGAGCGGTTGCTGCCTTTTGTTGCAATCATGGACATT
66 GAGACAAAGCCAAAAATGAAGGACATGAGCGGTTGCTGCCTTTTGCTGCAATCATGGACATT
34753270 A
1 A
34753271 TAGATGCCAT
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
127 119 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (127 bp):
ACCATGTCAGGAATTACAATTGGGGCTCTGCAGTTTTGGTATGCCTATATCACGAGCTTTGTCAA
GAGACAAAGCCAAAAATGAAGGACATGAGCGGTTGCTGCCTTTTGCTGCAATCATGGACATT
Found at i:34755648 original size:54 final size:54
Alignment explanation
Indices: 34755507--34755685 Score: 208
Period size: 54 Copynumber: 3.4 Consensus size: 54
34755497 CATCAATGTT
* * * * * *
34755507 CCAACACCCCAAAACTTTTTTATCAAATAAAGGGGGTGTCGGCCATTAG-TGTC
1 CCAACACTCCAAAATTTTTTTATCAGATAAAGGGGGTGTTGGCCATCAGCTATC
* * * *
34755560 CCAGCA-TTC-TAATTTTTTTATCAGATAAAAGGGGTGTTGGCCATCAGCT-TC
1 CCAACACTCCAAAATTTTTTTATCAGATAAAGGGGGTGTTGGCCATCAGCTATC
34755611 CCAACACTCCAAAATTATTTTTATCAGATAAAGGGGGTGTTGGCCATCA-CTATC
1 CCAACACTCCAAAATT-TTTTTATCAGATAAAGGGGGTGTTGGCCATCAGCTATC
*
34755665 CCAACAC-CCTAAATTTTTTTA
1 CCAACACTCCAAAATTTTTTTA
34755686 AAATCCAATA
Statistics
Matches: 107, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
51 39 0.36
52 10 0.09
53 18 0.17
54 40 0.37
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (54 bp):
CCAACACTCCAAAATTTTTTTATCAGATAAAGGGGGTGTTGGCCATCAGCTATC
Found at i:34755771 original size:52 final size:52
Alignment explanation
Indices: 34755495--34755790 Score: 228
Period size: 51 Copynumber: 5.6 Consensus size: 52
34755485 TGGGGTGCCA
* * ** * *
34755495 GCCATCAATGTTCCAACACCCCAAAACTTTTTTATCAAATAAAGGGGGTGTCG
1 GCCATCAATGTCCCAACACCCTAAATTTTTTTTATCAGATAAA-GGGGTGTTG
* * * **
34755548 GCCATTAGTGTCCCAGCATTCT-AA-TTTTTTTATCAGATAAAAGGGGTGTTG
1 GCCATCAATGTCCCAACACCCTAAATTTTTTTTATCAGAT-AAAGGGGTGTTG
* * *
34755599 GCCATCAGCT-TCCCAACACTCCAAAATTATTTTTATCAGATAAAGGGGGTGTTG
1 GCCATCA-ATGTCCCAACAC-CCTAAATTTTTTTTATCAGATAAA-GGGGTGTTG
* * * * *
34755653 GCCATCACTATCCCAACACCCTAAATTTTTTTAAAATCCA-ATAAAAGGGTTGTCG
1 GCCATCAATGTCCCAACACCCTAAATTTTTTT--TAT-CAGAT-AAAGGGGTGTTG
* * *
34755708 GTCATCAATGTCCTAGCA-CCTAAAATTTTTTTTA-CTAGATAAAGGGGTGTTG
1 GCCATCAATGTCCCAACACCCT-AAATTTTTTTTATC-AGATAAAGGGGTGTTG
* *
34755760 GCCATTAATGTCCCAACACCC-CAATTTTTTT
1 GCCATCAATGTCCCAACACCCTAAATTTTTTT
34755791 AAATAGTGGT
Statistics
Matches: 193, Mismatches: 35, Indels: 32
0.74 0.13 0.12
Matches are distributed among these distances:
51 43 0.22
52 32 0.17
53 38 0.20
54 41 0.21
55 34 0.18
56 5 0.03
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (52 bp):
GCCATCAATGTCCCAACACCCTAAATTTTTTTTATCAGATAAAGGGGTGTTG
Found at i:34770487 original size:44 final size:43
Alignment explanation
Indices: 34770261--34770511 Score: 179
Period size: 44 Copynumber: 5.8 Consensus size: 43
34770251 AAGAATTTCA
* *
34770261 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGT
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAT
* * * * * *
34770305 AATCCTATCTCCCTCAGATTACAGTGGAGCGGGTTAAAATAAAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAT
* * *** *
34770349 GATCTTATCTCTCTGA-AGTTACAGTAGG-GTAGA-TCGTATCA-
1 GATCTTATCTCCCTGAGA-TTACAGT-GGAGCAGATTAAAATAAT
* * ** *
34770390 GGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAT
* * *
34770434 AATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAT
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAT
* * *
34770478 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGAT
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGAT
34770512 CGTATTAGGT
Statistics
Matches: 154, Mismatches: 43, Indels: 20
0.71 0.20 0.09
Matches are distributed among these distances:
40 2 0.01
41 24 0.16
42 3 0.02
43 13 0.08
44 110 0.71
45 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (43 bp):
GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAT
Found at i:34770493 original size:129 final size:129
Alignment explanation
Indices: 34770258--34770577 Score: 489
Period size: 129 Copynumber: 2.5 Consensus size: 129
34770248 CCGAAGAATT
* * *
34770258 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTCAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* *
34770323 TTACAGTGGAGCGGGTTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGGGTAGATCGTA
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
*
34770387 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
*
34770452 TTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
* * * * * * * *
34770516 TTAGGTTTTACCTCCCTGTGATTACAGTGGAGTACATTGAATCCAGTAA-CTCTATCTCCCTG
1 TCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATC-CTATCTCCCTG
34770578 GGCAGCAGTG
Statistics
Matches: 174, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
128 1 0.01
129 173 0.99
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (129 bp):
TCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA
Found at i:34772193 original size:3 final size:3
Alignment explanation
Indices: 34772180--34772242 Score: 58
Period size: 3 Copynumber: 20.3 Consensus size: 3
34772170 TTATCATCTT
*
34772180 TTA TTA TTTA TTA TTTA TTA TTA CTA TTA TTA TTA TTA CTTA -TA TTA
1 TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
*
34772227 TTG TTCA -TA TTA TTA T
1 TTA TT-A TTA TTA TTA T
34772243 ATGATAGTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
2 3 0.06
3 38 0.76
4 9 0.18
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:34775778 original size:61 final size:60
Alignment explanation
Indices: 34775666--34775791 Score: 148
Period size: 61 Copynumber: 2.1 Consensus size: 60
34775656 ATGTAGTAAG
* * * * ** *
34775666 TTTTAGAGTTAGGACTAGATTGACAAATTTTGTAAATGTTAGGGGGCAAATTT-TTAGAATC
1 TTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTAGAGGGCAAATTTGTT-GAA-C
34775727 TTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATT-GAGGGCTAAATTTGTTGAAC
1 TTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTAGAGGGC-AAATTTGTTGAAC
34775787 TTTTA
1 TTTTA
34775792 ATATTTAAGA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
60 11 0.20
61 43 0.77
62 2 0.04
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (60 bp):
TTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTAGAGGGCAAATTTGTTGAAC
Found at i:34782180 original size:74 final size:74
Alignment explanation
Indices: 34782056--34782200 Score: 272
Period size: 74 Copynumber: 2.0 Consensus size: 74
34782046 AAATTAAACA
*
34782056 TTATTATCTTCAGCTACCAAAATGTATAACTTTTGTCAGACACAAGTACTATACTAGACAAAAGT
1 TTATTATCTTCAGCTACCAAAATGTATAACTTTTGTCAGACACAAATACTATACTAGACAAAAGT
34782121 TAATACGAG
66 TAATACGAG
*
34782130 TTATTATCTTCAGGTACCAAAATGTATAACTTTTGTCAGACACAAATACTATACTAGACAAAAGT
1 TTATTATCTTCAGCTACCAAAATGTATAACTTTTGTCAGACACAAATACTATACTAGACAAAAGT
34782195 TAATAC
66 TAATAC
34782201 AAGTATCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (74 bp):
TTATTATCTTCAGCTACCAAAATGTATAACTTTTGTCAGACACAAATACTATACTAGACAAAAGT
TAATACGAG
Found at i:34783268 original size:22 final size:22
Alignment explanation
Indices: 34783241--34783283 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
34783231 TTTTACTATT
34783241 TTGCTACAATTTCACTATTATG
1 TTGCTACAATTTCACTATTATG
* * *
34783263 TTGCTACTATTTTATTATTAT
1 TTGCTACAATTTCACTATTAT
34783284 TGTTTATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.14, G:0.07, T:0.53
Consensus pattern (22 bp):
TTGCTACAATTTCACTATTATG
Found at i:34783314 original size:19 final size:17
Alignment explanation
Indices: 34783292--34783326 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
34783282 ATTGTTTATA
34783292 TATTGTATAATTGTTGTTT
1 TATTGT-TAATT-TTGTTT
34783311 TATTGTTAATTTTGTT
1 TATTGTTAATTTTGTT
34783327 ACTATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (17 bp):
TATTGTTAATTTTGTTT
Found at i:34783332 original size:18 final size:19
Alignment explanation
Indices: 34783292--34783332 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
34783282 ATTGTTTATA
*
34783292 TATTGTATAATTGTTGTTT
1 TATTGTATAATTGTTGTTC
34783311 TATTGT-TAATT-TTGTTAC
1 TATTGTATAATTGTTGTT-C
34783329 TATT
1 TATT
34783333 TTAGAGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.63
Consensus pattern (19 bp):
TATTGTATAATTGTTGTTC
Found at i:34784660 original size:50 final size:50
Alignment explanation
Indices: 34784550--34784797 Score: 241
Period size: 50 Copynumber: 4.9 Consensus size: 50
34784540 ACATTAAGAG
* * *
34784550 GATGAGA--TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGA
* * * *
34784601 GATTATGAGAGGTCCCATTTAAGACCATCTCTGGTACATGACGTTGGCACCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* *
34784654 GATGAGAGATCCCATGTAAGAGCATGTCTGGGACATGGCGTTGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* * * *
34784704 GATGAGAGGTCCC-TCGGAAGACCATGTCTGGGACATGGCATGGGCACCTA
1 GATGAGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* ** * * *
34784754 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGG
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGG
34784798 TAGTTCAAGA
Statistics
Matches: 164, Mismatches: 26, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
49 1 0.01
50 120 0.73
51 2 0.01
53 3 0.02
54 6 0.04
55 1 0.01
56 31 0.19
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
Found at i:34784759 original size:100 final size:103
Alignment explanation
Indices: 34784553--34784797 Score: 275
Period size: 100 Copynumber: 2.4 Consensus size: 103
34784543 TTAAGAGGAT
* *
34784553 GAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCA
1 GAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CGAG--TATGAGAGGTCCCA
** * * *
34784618 TTTAAGACCATCTCTGGTACATGACGTTGGCACCGAGATGA
63 TGGAAGACCATCTCTGGGACATGACATGGGCACCGAGATGA
* *
34784659 GAGATCCCATGTAAGAGCATGTCTGGGACATGGCGTTGGCA-C-CGAG-ATGAGAGGTCCC-TCG
1 GAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAGAGGTCCCAT-G
* * * *
34784720 GAAGACCATGTCTGGGACATGGCATGGGCACCTATATGA
65 GAAGACCATCTCTGGGACATGACATGGGCACCGAGATGA
* *
34784759 GA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGG
1 GAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGG
34784798 TAGTTCAAGA
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
99 2 0.02
100 76 0.63
103 3 0.03
105 1 0.01
106 38 0.32
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (103 bp):
GAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAGAGGTCCCATGG
AAGACCATCTCTGGGACATGACATGGGCACCGAGATGA
Found at i:34791186 original size:15 final size:16
Alignment explanation
Indices: 34791162--34791204 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
34791152 AAGTCAAAAT
* *
34791162 AGAAATAAAAAAG-AG
1 AGAAAGAAAAAAGAAA
34791177 AGAAAGAAAAAAGAAA
1 AGAAAGAAAAAAGAAA
*
34791193 AAAAAGAAAAAA
1 AGAAAGAAAAAA
34791205 ACAGGAGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.02
Consensus pattern (16 bp):
AGAAAGAAAAAAGAAA
Found at i:34792070 original size:13 final size:13
Alignment explanation
Indices: 34792044--34792094 Score: 75
Period size: 13 Copynumber: 3.8 Consensus size: 13
34792034 CCGGAGTCAA
34792044 AAAAATGAAAAATG
1 AAAAATG-AAAATG
*
34792058 AAAAATGAGAATG
1 AAAAATGAAAATG
34792071 AAAAATGAAAATG
1 AAAAATGAAAATG
*
34792084 AAAACTGAAAA
1 AAAAATGAAAA
34792095 CGGAGAGGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
13 27 0.79
14 7 0.21
ACGTcount: A:0.69, C:0.02, G:0.16, T:0.14
Consensus pattern (13 bp):
AAAAATGAAAATG
Found at i:34792072 original size:20 final size:19
Alignment explanation
Indices: 34792045--34792094 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 19
34792035 CGGAGTCAAA
34792045 AAAATGAAAAATGAAAAATG
1 AAAATGAAAAATG-AAAATG
*
34792065 AGAATGAAAAATGAAAATG
1 AAAATGAAAAATGAAAATG
34792084 AAAACTGAAAA
1 AAAA-TGAAAA
34792095 CGGAGAGGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.68, C:0.02, G:0.16, T:0.14
Consensus pattern (19 bp):
AAAATGAAAAATGAAAATG
Found at i:34792095 original size:7 final size:7
Alignment explanation
Indices: 34792044--34792094 Score: 70
Period size: 7 Copynumber: 7.6 Consensus size: 7
34792034 CCGGAGTCAA
34792044 AAAAATG
1 AAAAATG
34792051 AAAAATG
1 AAAAATG
34792058 AAAAATG
1 AAAAATG
*
34792065 -AGAATG
1 AAAAATG
34792071 AAAAATG
1 AAAAATG
34792078 -AAAATG
1 AAAAATG
*
34792084 AAAACTG
1 AAAAATG
34792091 AAAA
1 AAAA
34792095 CGGAGAGGCT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
6 11 0.28
7 28 0.72
ACGTcount: A:0.69, C:0.02, G:0.16, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:34793542 original size:131 final size:131
Alignment explanation
Indices: 34793303--34793667 Score: 554
Period size: 131 Copynumber: 2.8 Consensus size: 131
34793293 TCGGTGAAAT
* * ** *
34793303 CACAAGTCCTATGCCCCTGGTCAGCAGTGGAATAGGTT-AGAAATTACAGATCTTGTTTTCCTGA
1 CACACGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGA-AAATTACAGATCTTGTTTCCCTGA
* * *
34793367 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTCTCTTCCCCAGGAGTAGGGAAATAGATTTAA
65 ACAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAA
*
34793432 GC
130 AC
*
34793434 CACACGTCCTATGTCCCTGACCAGTAGTGGAATAGGTTGAAAATTACAGATCTTGTTTCCCTGAA
1 CACACGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGAAAATTACAGATCTTGTTTCCCTGAA
* ** *
34793499 CAGCAGCAGAGTAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAA
66 CAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAA
34793564 C
131 C
* *
34793565 CACACGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCT-AA
1 CACACGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGAAAATTACAGATCTTGTTTCCCTGAA
34793629 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTT
66 -CAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTT
34793668 TAAGTGTAAG
Statistics
Matches: 211, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
130 2 0.01
131 208 0.99
132 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (131 bp):
CACACGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGAAAATTACAGATCTTGTTTCCCTGAA
CAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAA
C
Found at i:34793794 original size:44 final size:44
Alignment explanation
Indices: 34793746--34794089 Score: 118
Period size: 44 Copynumber: 7.1 Consensus size: 44
34793736 CTAGTAATCC
34793746 TATCTCCCTAAGATTATAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTAAGATTATAGTGGAGCGGATTAAAATAAAGGATCT
** * * * * * *
34793790 TATCTCTTTGAAG-TTATAGTAGAGTAGATCGCATCAGATTGAAGCTAGTAATCC
1 TATCTCCCT-AAGATTATAGT-G-G-AG--CGGATTAAAAT-AA---AG-GATCT
34793844 TATCTCCCTAAGATTATAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTAAGATTATAGTGGAGCGGATTAAAATAAAGGATCT
** * * * * * *
34793888 TATCTCTTTGAAG-TTATAGTAGAGTAGATCGCATCAGATTGAAGCTAGTAATCC
1 TATCTCCCT-AAGATTATAGT-G-G-AG--CGGATTAAAAT-AA---AG-GATCT
* *
34793942 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTAAGATTATAGTGGAGCGGATTAAAATAAAGGATCT
** * * * * * *
34793986 TATCTCTTTGAAG-TTATAGTAGAGTAGATCGCATCAGATTGAAGCTAGTAATCC
1 TATCTCCCT-AAGATTATAGT-G-G-AG--CGGATTAAAAT-AA---AG-GATCT
* *
34794040 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTAAGATTATAGTGGAGCGGATTAAAATAAAGGATCT
34794084 TATCTC
1 TATCTC
34794090 TCTGAAGTTA
Statistics
Matches: 210, Mismatches: 54, Indels: 72
0.62 0.16 0.21
Matches are distributed among these distances:
44 56 0.27
45 17 0.08
46 3 0.01
47 6 0.03
48 6 0.03
49 42 0.20
50 6 0.03
51 6 0.03
52 3 0.01
53 16 0.08
54 49 0.23
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (44 bp):
TATCTCCCTAAGATTATAGTGGAGCGGATTAAAATAAAGGATCT
Found at i:34793895 original size:98 final size:98
Alignment explanation
Indices: 34793726--34794123 Score: 742
Period size: 98 Copynumber: 4.1 Consensus size: 98
34793716 TACAGTGGAG
*
34793726 CAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTATAGTGGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
34793791 ATCTCTTTGAAGTTATAGTAGAGTAGATCGCAT
66 ATCTCTTTGAAGTTATAGTAGAGTAGATCGCAT
*
34793824 CAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTATAGTGGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
34793889 ATCTCTTTGAAGTTATAGTAGAGTAGATCGCAT
66 ATCTCTTTGAAGTTATAGTAGAGTAGATCGCAT
*
34793922 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
34793987 ATCTCTTTGAAGTTATAGTAGAGTAGATCGCAT
66 ATCTCTTTGAAGTTATAGTAGAGTAGATCGCAT
*
34794020 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
* *
34794085 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
66 ATCTCTTTGAAGTTATAGTAGAGTAGATCGCAT
34794118 CAGATT
1 CAGATT
34794124 AAAGAATTAC
Statistics
Matches: 296, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 296 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (98 bp):
CAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
ATCTCTTTGAAGTTATAGTAGAGTAGATCGCAT
Found at i:34794444 original size:170 final size:172
Alignment explanation
Indices: 34794125--34794494 Score: 510
Period size: 170 Copynumber: 2.1 Consensus size: 172
34794115 CATCAGATTA
* * * * *
34794125 AAGAATTACAGAAACCTTATCTCCCTAAGATTACAGCGGAGTAGATTGAAGCTAGTAATCTTATC
1 AAGAATTACAG--ATCTTATCTCCCTAAGATTACAGCGGAGCAGAATGAAGCCAGTAATCCTATC
* * * *
34794190 TCCTTGAGATTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGT
64 TCCCTGAGATTACAGTGGAACAGATT---ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
* ** * *
34794255 AGATCGCATCAGGTCTTATCTCTTTGAGATTACAGTGGAATAGACCG
126 AGATCACATCAGGTCTTATCTCCCTGAGATCACAGTGAAATAGACCG
* * *
34794302 AAGAATTACAGATCTTATCTCTCTGAGATTACAGCGGAGCAGAATGAAGCCAGTAATCCTATTTC
1 AAGAATTACAGATCTTATCTCCCTAAGATTACAGCGGAGCAGAATGAAGCCAGTAATCCTATCTC
*
34794367 CCTGAGATTACAGTGTAACAGA-T-TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC
66 CCTGAGATTACAGTGGAACAGATTATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC
*
34794430 ACATCAGGTCTTATCTCCCTGAGATCACGGTGAAATAGACCG
131 ACATCAGGTCTTATCTCCCTGAGATCACAGTGAAATAGACCG
34794472 AAGAATTACAGATCTTATCTCCC
1 AAGAATTACAGATCTTATCTCCC
34794495 AAGCGATGTA
Statistics
Matches: 173, Mismatches: 20, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
170 97 0.56
174 1 0.01
175 64 0.37
177 11 0.06
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (172 bp):
AAGAATTACAGATCTTATCTCCCTAAGATTACAGCGGAGCAGAATGAAGCCAGTAATCCTATCTC
CCTGAGATTACAGTGGAACAGATTATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC
ACATCAGGTCTTATCTCCCTGAGATCACAGTGAAATAGACCG
Found at i:34794571 original size:50 final size:50
Alignment explanation
Indices: 34794512--34795281 Score: 396
Period size: 50 Copynumber: 15.6 Consensus size: 50
34794502 GTAGTGGAAC
* * *
34794512 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCCAGACATTGCAGTTAAAA
* * * * ** * *
34794562 AGATTAAAGCTACAACAGCGAATCTTACTCCCCAAGTGA-TGCAG-CAGAAT
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCC-AGACATTGCAGTTA-AAA
* *
34794612 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCCAGACATTGCAGTTAAAA
* * * * * * * * * *** *
34794662 AGATTAAAGCTACAGCAGCGAATCTTACCTCTCAGGCAGTGAAGCGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCCAGACATTGCAGTTAAAA
* * * *
34794712 ATATTAAAGCCACAACGGTGAATATTGCCT-CCATGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCCA-GACATTGCAGTTAAAA
* * * * * * ** *** *
34794762 ATATTAAAGCTAAAACAGCGATTCTTACTTCCCAGGTGA-TGCAGCGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCCA-GACATTGCAGTTAAAA
* * *
34794812 AGATTAAAGTCACGACGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCCAGACATTGCAGTTAAAA
* * * * * * **
34794862 AGACTAAAGCCACAGCGGTGAGTGTTACTTCCCTGGTAACA-T--AGTGAAGC
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCC-AG--ACATTGCAGTTAAAA
* * * *
34794912 AGACTAGAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTTAAAG
1 AGATTAAAGCCACAACGGTGAATCTTAC-TTCCCAGACATTGCAGTTAAAA
* * * ** * * * * * *
34794962 GGATTAAAGTCACAATGACGAATCTCACTCTCTCAGCCAGTGCAG-TAGAG
1 AGATTAAAGCCACAACGGTGAATCTTACT-TCCCAGACATTGCAGTTAAAA
*
34795012 AGATTAAAGCCACAACGGTGAATC--A--T----G---TTGCAGCTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCCAGACATTGCAGTTAAAA
* * * ** * * * * * *
34795051 GGATTAAAGTCACAATGACGAATCTCACTCTCTCAGCCAGTGCAG-TAGAG
1 AGATTAAAGCCACAACGGTGAATCTTACT-TCCCAGACATTGCAGTTAAAA
** * * * *
34795101 AGATTAAAGCCACAACGGTGAATCTGGCCTCCCTGACTTTGCGGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCCAGACATTGCAGTTAAAA
* * * * * * * **
34795151 AGACTAAAGCCACAACAGCGAATCTTACATTCTCAGGCAGTGCAGTGAAGC
1 AGATTAAAGCCACAACGGTGAATCTTAC-TTCCCAGACATTGCAGTTAAAA
*
34795202 AGATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTAC-TTCCCAGACATTGCAGTTAAAA
* *
34795252 AGATTAAAGCCACGATGGTGAATCTTACTT
1 AGATTAAAGCCACAACGGTGAATCTTACTT
34795282 TCCAAAAGTT
Statistics
Matches: 516, Mismatches: 173, Indels: 63
0.69 0.23 0.08
Matches are distributed among these distances:
38 5 0.01
39 22 0.04
41 2 0.00
44 1 0.00
45 1 0.00
47 3 0.01
48 3 0.01
49 20 0.04
50 388 0.75
51 67 0.13
52 1 0.00
53 3 0.01
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (50 bp):
AGATTAAAGCCACAACGGTGAATCTTACTTCCCAGACATTGCAGTTAAAA
Found at i:34794656 original size:100 final size:100
Alignment explanation
Indices: 34794508--34795261 Score: 621
Period size: 100 Copynumber: 7.6 Consensus size: 100
34794498 CGATGTAGTG
* *
34794508 GAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAAAGATTAAAGCT
1 GAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCT
*
34794573 ACAACAGCGAATCTTACTCCCCAAGTGA-TGCAGCA
66 ACAACAGCGAATCTTACTCCTC-AGTGAGTGCAGCA
*
34794608 GAATAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCT
1 GAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCT
* * *
34794673 ACAGCAGCGAATCTTAC-CTCTCAG-GCAGTGAAGCG
66 ACAACAGCGAATCTTACTC-CTCAGTG-AGTGCAGCA
* * * ** *
34794708 GAACATATTAAAGCCACAACGGTGAATATTGCCTCCATGACATTGCAGTTAAAAATATTAAAGCT
1 GAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCT
* * *
34794773 AAAACAGCGATTCTTACTTCC-CAGGTGA-TGCAGCG
66 ACAACAGCGAATCTTAC-TCCTCA-GTGAGTGCAGCA
* * * * *
34794808 GAACAGATTAAAGTCACGACGGTGAATCTTACTTCCCCGACATTGCAGTTAAAAAGACTAAAGCC
1 GAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCT
* * * * * * *
34794873 ACAGCGGTGAGTGTTACTTCC-C--TG-GTAACATAG-T
66 ACAACAGCGAATCTTAC-TCCTCAGTGAGT-GC--AGCA
* * * **
34794907 GAAGCAGACTAGAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAGGGATTAAAG-
1 GAA-CAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGC
* * ** *
34794971 TCACAA-TGACGAATCTCACTCTCTCAGCCAGTGCAGTA
65 T-ACAACAG-CGAATCTTACTC-CTCAGTGAGTGCAGCA
* * *
34795009 G-AGAGATTAAAGCCACAACGGTGAATCATG-TT----G-CA--GC---TAAAAGGATTAAAG-T
1 GAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCT
* * ** *
34795061 CACAA-TGACGAATCTCACTCTCTCAGCCAGTGCAGTA
66 -ACAACAG-CGAATCTTACTC-CTCAGTGAGTGCAGCA
* * * * * * * *
34795098 G-AGAGATTAAAGCCACAACGGTGAATCTGGCCTCCCTGACTTTGCGGTTAAAAAGACTAAAGCC
1 GAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCT
* *
34795162 ACAACAGCGAATCTTACATTCTCAG-GCAGTGCAG-T
66 ACAACAGCGAATCTTAC-TCCTCAGTG-AGTGCAGCA
*
34795197 GAAGCAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGATTAAAGC
1 GAA-CAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGC
34795262 CACGATGGTG
Statistics
Matches: 535, Mismatches: 82, Indels: 73
0.78 0.12 0.11
Matches are distributed among these distances:
89 79 0.15
90 1 0.00
92 2 0.00
94 3 0.01
95 2 0.00
97 5 0.01
98 2 0.00
99 13 0.02
100 360 0.67
101 62 0.12
102 3 0.01
103 1 0.00
104 2 0.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (100 bp):
GAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCT
ACAACAGCGAATCTTACTCCTCAGTGAGTGCAGCA
Found at i:34795101 original size:89 final size:89
Alignment explanation
Indices: 34794950--34795124 Score: 332
Period size: 89 Copynumber: 2.0 Consensus size: 89
34794940 TTTCCCGACA
* *
34794950 TTGCAGTTAAAGGGATTAAAGTCACAATGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGAGA
1 TTGCAGCTAAAAGGATTAAAGTCACAATGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGAGA
34795015 TTAAAGCCACAACGGTGAATCATG
66 TTAAAGCCACAACGGTGAATCATG
34795039 TTGCAGCTAAAAGGATTAAAGTCACAATGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGAGA
1 TTGCAGCTAAAAGGATTAAAGTCACAATGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGAGA
34795104 TTAAAGCCACAACGGTGAATC
66 TTAAAGCCACAACGGTGAATC
34795125 TGGCCTCCCT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 84 1.00
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (89 bp):
TTGCAGCTAAAAGGATTAAAGTCACAATGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGAGA
TTAAAGCCACAACGGTGAATCATG
Found at i:34795275 original size:101 final size:100
Alignment explanation
Indices: 34795039--34795280 Score: 292
Period size: 101 Copynumber: 2.4 Consensus size: 100
34795029 GTGAATCATG
* * * * *
34795039 TTGCAGCTAAAAGGATTAAAGTCACAATGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGAGA
1 TTGCAGTTAAAAAGATTAAAGCCACAATGGCGAATCTTACTCTCTCAGCCAGTGCAGTAGAGAGA
*
34795104 TTAAAGCCACAACGGTGAATCTGGCCTCCCTGACT
66 TTAAAGCCACAACGGTGAATCTGGCCTCCCTGACA
* * ** *
34795139 TTGCGGTTAAAAAGACTAAAGCCACAACAGCGAATCTTACAT-TCTCAGGCAGTGCAGT-GAAGC
1 TTGCAGTTAAAAAGATTAAAGCCACAATGGCGAATCTTAC-TCTCTCAGCCAGTGCAGTAG-AG-
* *
34795202 AGATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACA
63 AGATTAAAGCCACAACGGTGAATCTGGC-CTCCCTGACA
* *
34795240 TTGCAGTTAAAAAGATTAAAGCCACGATGGTGAATCTTACT
1 TTGCAGTTAAAAAGATTAAAGCCACAATGGCGAATCTTACT
34795281 TTCCAAAAGT
Statistics
Matches: 119, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
99 1 0.01
100 49 0.41
101 65 0.55
102 4 0.03
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (100 bp):
TTGCAGTTAAAAAGATTAAAGCCACAATGGCGAATCTTACTCTCTCAGCCAGTGCAGTAGAGAGA
TTAAAGCCACAACGGTGAATCTGGCCTCCCTGACA
Found at i:34799149 original size:110 final size:110
Alignment explanation
Indices: 34798956--34799175 Score: 440
Period size: 110 Copynumber: 2.0 Consensus size: 110
34798946 GTAAAAAATT
34798956 GGTATTGAATCAGTTTTGAGACAGCAGTAGTGACGTGATTTTGAAAAATCATTAAGGATAGTAGA
1 GGTATTGAATCAGTTTTGAGACAGCAGTAGTGACGTGATTTTGAAAAATCATTAAGGATAGTAGA
34799021 AAATGAATTAGAGGTGGATGAGATATAGAATTAAATCTTATTGAG
66 AAATGAATTAGAGGTGGATGAGATATAGAATTAAATCTTATTGAG
34799066 GGTATTGAATCAGTTTTGAGACAGCAGTAGTGACGTGATTTTGAAAAATCATTAAGGATAGTAGA
1 GGTATTGAATCAGTTTTGAGACAGCAGTAGTGACGTGATTTTGAAAAATCATTAAGGATAGTAGA
34799131 AAATGAATTAGAGGTGGATGAGATATAGAATTAAATCTTATTGAG
66 AAATGAATTAGAGGTGGATGAGATATAGAATTAAATCTTATTGAG
34799176 TCTATTTTCA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 110 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.31
Consensus pattern (110 bp):
GGTATTGAATCAGTTTTGAGACAGCAGTAGTGACGTGATTTTGAAAAATCATTAAGGATAGTAGA
AAATGAATTAGAGGTGGATGAGATATAGAATTAAATCTTATTGAG
Found at i:34810468 original size:30 final size:30
Alignment explanation
Indices: 34810433--34810505 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
34810423 CACGATCTGG
* *
34810433 CACACGGCCGTGTGTGCCACACAGTCTAGA
1 CACACGGGCGTGTGTGCCACACAGCCTAGA
* *
34810463 CACACGGGAGTGTGTGCCACACAGCCTGGA
1 CACACGGGCGTGTGTGCCACACAGCCTAGA
34810493 CACACGGGCGTGT
1 CACACGGGCGTGT
34810506 CCGAGGCCGT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.22, C:0.32, G:0.32, T:0.15
Consensus pattern (30 bp):
CACACGGGCGTGTGTGCCACACAGCCTAGA
Found at i:34810789 original size:12 final size:11
Alignment explanation
Indices: 34810778--34810818 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 11
34810768 TTTGCTTTAT
34810778 TTTATTTATTA
1 TTTATTTATTA
34810789 -TTATTTATTA
1 TTTATTTATTA
34810799 TATTATTTATT-
1 T-TTATTTATTA
34810810 TTTACTTTA
1 TTTA-TTTA
34810819 CTGATTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 13 0.48
11 5 0.19
12 9 0.33
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:34810804 original size:22 final size:23
Alignment explanation
Indices: 34810774--34810818 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
34810764 ACCCTTTGCT
*
34810774 TTATTTTATTTATTATTA-TTTA
1 TTATATTATTTATTATTACTTTA
*
34810796 TTATATTATTTATTTTTACTTTA
1 TTATATTATTTATTATTACTTTA
34810819 CTGATTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (23 bp):
TTATATTATTTATTATTACTTTA
Found at i:34812580 original size:13 final size:13
Alignment explanation
Indices: 34812560--34812592 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
34812550 GATTATTTGT
34812560 GAATTATTT-TGA
1 GAATTATTTATGA
34812572 GACATTATTTATGA
1 GA-ATTATTTATGA
34812586 GAATTAT
1 GAATTAT
34812593 GAGTTGAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 12 0.63
14 5 0.26
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.45
Consensus pattern (13 bp):
GAATTATTTATGA
Found at i:34815832 original size:6 final size:6
Alignment explanation
Indices: 34815814--34815850 Score: 65
Period size: 6 Copynumber: 6.0 Consensus size: 6
34815804 TTATTACCCT
34815814 TAATCC ATAATCC TAATCC TAATCC TAATCC TAATCC
1 TAATCC -TAATCC TAATCC TAATCC TAATCC TAATCC
34815851 CATTTCCGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (6 bp):
TAATCC
Found at i:34820048 original size:6 final size:6
Alignment explanation
Indices: 34820039--34820065 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
34820029 GCAGAAACAG
34820039 AAACGA AAACGA AAACGA AAACGA AAA
1 AAACGA AAACGA AAACGA AAACGA AAA
34820066 TGGAAATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.15, G:0.15, T:0.00
Consensus pattern (6 bp):
AAACGA
Found at i:34828041 original size:17 final size:17
Alignment explanation
Indices: 34827989--34828041 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
34827979 ATTGGAAACA
* *
34827989 TAATCTTAGAGGATATA
1 TAATCTTAGAAGATATG
* *
34828006 AAATCGTAGATATGATATG
1 TAATCTTAGA-A-GATATG
34828025 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
34828042 ATTTTGTAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 14 0.50
18 1 0.04
19 13 0.46
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.34
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:34828041 original size:22 final size:23
Alignment explanation
Indices: 34828013--34828057 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
34828003 ATAAAATCGT
34828013 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
34828035 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
34828058 GAATTGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:34832776 original size:252 final size:252
Alignment explanation
Indices: 34832331--34832835 Score: 938
Period size: 252 Copynumber: 2.0 Consensus size: 252
34832321 GTGACAGGAC
* * *
34832331 AACAGCCACTTACACCCAATGCTGTTGCGACTCGTTATGGGGGACCGAATCCAGCAGCCTATCGA
1 AACAGCCACTTACACCCAATGCTGTTGCGACTCGTTATGCGGGACCGAATCCAGCAGCATATCAA
* *
34832396 TTTGCGAGAGATTGGCAAGAGCAAAATGATTTGGCTAGAGCTTGTCTTCACAAGGCAAGTAAGCG
66 TTTGCGAGAGATTGGCAAGAGCAAAACGATTTGGCTAGAGCTTGTCTTCACAAGGCAAGTAAGCA
34832461 CAATAAGAAGTGGGCGGATCAGAATCGAAGGGATGTGCAATATCAGGTTGGTGATTCCGCCCTTG
131 CAATAAGAAGTGGGCGGATCAGAATCGAAGGGATGTGCAATATCAGGTTGGTGATTCCGCCCTTG
34832526 CTAAACTGCACCTTATTTTGCGACACAATGGGTTGCATAAAGGGCTTGTGCGACGTT
196 CTAAACTGCACCTTATTTTGCGACACAATGGGTTGCATAAAGGGCTTGTGCGACGTT
34832583 AACAGCCACTTACACCCAATGCTGTTGCGACTCGTTATGCGGGACCGAATCCAGCAGCATATCAA
1 AACAGCCACTTACACCCAATGCTGTTGCGACTCGTTATGCGGGACCGAATCCAGCAGCATATCAA
* * *
34832648 TTTGTGAGAGATTGGCAAGAGCAAAACGATTTGGCTAGGGCTTGTCTTCATAAGGCAAGTAAGCA
66 TTTGCGAGAGATTGGCAAGAGCAAAACGATTTGGCTAGAGCTTGTCTTCACAAGGCAAGTAAGCA
34832713 CAATAAGAAGTGGGCGGATCAGAATCGAAGGGATGTGCAATATCAGGTTGGTGATTCCGCCCTTG
131 CAATAAGAAGTGGGCGGATCAGAATCGAAGGGATGTGCAATATCAGGTTGGTGATTCCGCCCTTG
34832778 CTAAACTGCACCTTATTTTGCGACACAATGGGTTGCATAAAGGGCTTGTGCGACGTT
196 CTAAACTGCACCTTATTTTGCGACACAATGGGTTGCATAAAGGGCTTGTGCGACGTT
34832835 A
1 A
34832836 TGAGGGGCCA
Statistics
Matches: 245, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
252 245 1.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (252 bp):
AACAGCCACTTACACCCAATGCTGTTGCGACTCGTTATGCGGGACCGAATCCAGCAGCATATCAA
TTTGCGAGAGATTGGCAAGAGCAAAACGATTTGGCTAGAGCTTGTCTTCACAAGGCAAGTAAGCA
CAATAAGAAGTGGGCGGATCAGAATCGAAGGGATGTGCAATATCAGGTTGGTGATTCCGCCCTTG
CTAAACTGCACCTTATTTTGCGACACAATGGGTTGCATAAAGGGCTTGTGCGACGTT
Found at i:34835788 original size:48 final size:49
Alignment explanation
Indices: 34835721--34835826 Score: 119
Period size: 48 Copynumber: 2.2 Consensus size: 49
34835711 AGGTAAAAAA
* * * * *
34835721 GAAAGAAAAAGATACTAGTAGAACA-A-AGAAGA-TAAGAGAAGGAGAAGG
1 GAAA-AAAAAGAGAATAGTAGAAAATATAGAAGAGAAAGA-AAGGAGAAAG
34835769 GAGAAAAAAAGAGAATAGTAGAAAATATAGAAGAGAAAGAAAGGAGAAAG
1 GA-AAAAAAAGAGAATAGTAGAAAATATAGAAGAGAAAGAAAGGAGAAAG
34835819 GAAAAAAA
1 GAAAAAAA
34835827 CATTTGGGGT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
48 19 0.39
49 9 0.18
50 17 0.35
51 4 0.08
ACGTcount: A:0.63, C:0.02, G:0.27, T:0.08
Consensus pattern (49 bp):
GAAAAAAAAGAGAATAGTAGAAAATATAGAAGAGAAAGAAAGGAGAAAG
Found at i:34839600 original size:27 final size:27
Alignment explanation
Indices: 34839570--34839640 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
34839560 TAGTACTGCT
34839570 TATGACATAGGCACCACTGGTGCCACC
1 TATGACATAGGCACCACTGGTGCCACC
* * * *
34839597 TATGACATGGGCACAATTGGTGCCACT
1 TATGACATAGGCACCACTGGTGCCACC
*
34839624 TATGACATTGGCACCAC
1 TATGACATAGGCACCAC
34839641 CAAACATATT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (27 bp):
TATGACATAGGCACCACTGGTGCCACC
Found at i:34840087 original size:33 final size:34
Alignment explanation
Indices: 34840037--34840102 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
34840027 TCACTCTCTC
*
34840037 TTTAGATTTTTTAAGGGTTAGAGTTAGGGTTTTT
1 TTTAGATTTTTTAAGGGTTAGAGTTAGGATTTTT
*
34840071 TTTA-ATTTTGTT-AGGGTTAGGGTTAGGATTTT
1 TTTAGATTTT-TTAAGGGTTAGAGTTAGGATTTT
34840103 CAGAAATTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 23 0.79
34 6 0.21
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (34 bp):
TTTAGATTTTTTAAGGGTTAGAGTTAGGATTTTT
Found at i:34843533 original size:17 final size:17
Alignment explanation
Indices: 34843376--34843637 Score: 206
Period size: 17 Copynumber: 15.4 Consensus size: 17
34843366 AGACACAACC
*
34843376 CGCATATAAACACAGTT
1 CGCATATAAACACAGCT
* * *
34843393 CACATATAAACATAGAT
1 CGCATATAAACACAGCT
**** *
34843410 ATTTTATAAACACAACT
1 CGCATATAAACACAGCT
* *
34843427 TGCATATAAACACAACT
1 CGCATATAAACACAGCT
* *
34843444 AGCATATAAACACAACT
1 CGCATATAAACACAGCT
* * *
34843461 TGCATATATACACTGCT
1 CGCATATAAACACAGCT
* *
34843478 GGCATATAAACATAGCT
1 CGCATATAAACACAGCT
*
34843495 AGCATATAAACACAGCT
1 CGCATATAAACACAGCT
*
34843512 TGCATATAAACACCAGC-
1 CGCATATAAACA-CAGCT
*
34843529 CGCATATAAACATAGCT
1 CGCATATAAACACAGCT
* *
34843546 CGAATAATAAA-ACTA-CC
1 CGCAT-ATAAACAC-AGCT
* *
34843563 CGCATACAAACATAGCT
1 CGCATATAAACACAGCT
* *
34843580 CACATATAAACACAACT
1 CGCATATAAACACAGCT
* *
34843597 CGTATATAAACACGGCT
1 CGCATATAAACACAGCT
*
34843614 CACATATAAACACAGCT
1 CGCATATAAACACAGCT
34843631 CGCATAT
1 CGCATAT
34843638 TGTCATAGGT
Statistics
Matches: 192, Mismatches: 47, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
16 8 0.04
17 174 0.91
18 10 0.05
ACGTcount: A:0.44, C:0.24, G:0.09, T:0.23
Consensus pattern (17 bp):
CGCATATAAACACAGCT
Found at i:34847870 original size:20 final size:20
Alignment explanation
Indices: 34847823--34847892 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
34847813 AAAATGTATA
*
34847823 TGATTGCACTTCC-GTGCCCT
1 TGATTGCAC-TCCGGTGCCCC
* *
34847843 TGACTGCACTCCGGTACCCC
1 TGATTGCACTCCGGTGCCCC
*
34847863 TGATTGCACTCCGGTGCTCC
1 TGATTGCACTCCGGTGCCCC
*
34847883 TGATTACACT
1 TGATTGCACT
34847893 TCAATGCCTA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 3 0.07
20 39 0.93
ACGTcount: A:0.14, C:0.36, G:0.20, T:0.30
Consensus pattern (20 bp):
TGATTGCACTCCGGTGCCCC
Found at i:34849967 original size:17 final size:17
Alignment explanation
Indices: 34849945--34849979 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
34849935 CATAATGGCT
*
34849945 ATAACATCAGCCAAAAC
1 ATAACATCAACCAAAAC
34849962 ATAACATCAACCAAAAC
1 ATAACATCAACCAAAAC
34849979 A
1 A
34849980 CCTATACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.57, C:0.29, G:0.03, T:0.11
Consensus pattern (17 bp):
ATAACATCAACCAAAAC
Found at i:34850451 original size:29 final size:29
Alignment explanation
Indices: 34850395--34850582 Score: 157
Period size: 30 Copynumber: 6.4 Consensus size: 29
34850385 AGCGAAAGCT
34850395 ATCCCTTTTCATTATTTGATGGTCGTCACC
1 ATCCCTTTTCATT-TTTGATGGTCGTCACC
*
34850425 ATCCCTTTTCATTTTTGATGGTTGTCACC
1 ATCCCTTTTCATTTTTGATGGTCGTCACC
* * * * *
34850454 GTCCCTTTTCATAATTTGATAGTCG-AAGC
1 ATCCCTTTTCAT-TTTTGATGGTCGTCACC
** * * ** *
34850483 -TCCCTTTTCACAATTCGATAGTC-AAAGCT
1 ATCCCTTTTCA-TTTTTGATGGTCGTCA-CC
* *
34850512 ATCCCTTTTCATTTTTCGGTGGTCGTCACT
1 ATCCCTTTTCATTTTT-GATGGTCGTCACC
* *
34850542 ATCCCTTTTCATTGTTGATGGTCGCCACC
1 ATCCCTTTTCATTTTTGATGGTCGTCACC
34850571 ATCCCTTTTCAT
1 ATCCCTTTTCAT
34850583 AATTAGATAG
Statistics
Matches: 129, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
28 22 0.17
29 52 0.40
30 54 0.42
31 1 0.01
ACGTcount: A:0.18, C:0.27, G:0.14, T:0.42
Consensus pattern (29 bp):
ATCCCTTTTCATTTTTGATGGTCGTCACC
Found at i:34850497 original size:28 final size:29
Alignment explanation
Indices: 34850455--34850522 Score: 93
Period size: 28 Copynumber: 2.3 Consensus size: 29
34850445 GTTGTCACCG
* * *
34850455 TCCCTTTTCATAATTTGATAGTCGAAGC-
1 TCCCTTTTCACAATTCGATAGTCAAAGCA
34850483 TCCCTTTTCACAATTCGATAGTCAAAGCTA
1 TCCCTTTTCACAATTCGATAGTCAAAGC-A
34850513 TCCCTTTTCA
1 TCCCTTTTCA
34850523 TTTTTCGGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 25 0.71
30 10 0.29
ACGTcount: A:0.25, C:0.26, G:0.10, T:0.38
Consensus pattern (29 bp):
TCCCTTTTCACAATTCGATAGTCAAAGCA
Found at i:34850576 original size:117 final size:118
Alignment explanation
Indices: 34850380--34850611 Score: 335
Period size: 117 Copynumber: 2.0 Consensus size: 118
34850370 TTTTCATAGC
*
34850380 TCGATAGCGAAAGCTATCCCTTTTCATTATTTGATGGTCGTCACCATCCCTTTTCATTTTTGATG
1 TCGATAGCGAAAGCTATCCCTTTTCATTATTTGATGGTCGTCACCATCCCTTTTCATTGTTGATG
* * * * *
34850445 GTTGTCACCGTCCCTTTTCATAATTTGATAGTCGAAGC-TCCCTTTTCACAAT
66 GTCGCCACCATCCCTTTTCATAATTAGATAGCCGAAGCATCCCTTTTCACAAT
* *
34850497 TCGATAGTC-AAAGCTATCCCTTTTCATT-TTTCGGTGGTCGTCACTATCCCTTTTCATTGTTGA
1 TCGATAG-CGAAAGCTATCCCTTTTCATTATTT-GATGGTCGTCACCATCCCTTTTCATTGTTGA
*
34850560 TGGTCGCCACCATCCCTTTTCATAATTAGATAGCCGAGGCTATCCCTTTTCA
64 TGGTCGCCACCATCCCTTTTCATAATTAGATAGCCGAAGC-ATCCCTTTTCA
34850612 TTCTTGTTTC
Statistics
Matches: 102, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
116 3 0.03
117 88 0.86
118 1 0.01
119 10 0.10
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.39
Consensus pattern (118 bp):
TCGATAGCGAAAGCTATCCCTTTTCATTATTTGATGGTCGTCACCATCCCTTTTCATTGTTGATG
GTCGCCACCATCCCTTTTCATAATTAGATAGCCGAAGCATCCCTTTTCACAAT
Found at i:34851053 original size:11 final size:11
Alignment explanation
Indices: 34851039--34851064 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
34851029 TAGATATTGT
34851039 AGCGATACTGC
1 AGCGATACTGC
34851050 AGCGATACTGC
1 AGCGATACTGC
34851061 AGCG
1 AGCG
34851065 TAAGACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.31, T:0.15
Consensus pattern (11 bp):
AGCGATACTGC
Found at i:34851527 original size:21 final size:21
Alignment explanation
Indices: 34851503--34851542 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
34851493 TTTAATTCTC
34851503 CACTTGTTTC-TCACTTTCCTT
1 CACTT-TTTCTTCACTTTCCTT
*
34851524 CACTTTTTCTTCATTTTCC
1 CACTTTTTCTTCACTTTCC
34851543 ATATCAAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.10, C:0.33, G:0.03, T:0.55
Consensus pattern (21 bp):
CACTTTTTCTTCACTTTCCTT
Found at i:34856941 original size:23 final size:21
Alignment explanation
Indices: 34856890--34856951 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
34856880 ATATGTATCA
34856890 TATTATATATAAATATTTTAAT
1 TATT-TATATAAATATTTTAAT
*
34856912 TAATTATAT-AATCATTTTAAATT
1 TATTTATATAAAT-ATTTT-AA-T
*
34856935 TATTTAT-TACATATTTT
1 TATTTATATAAATATTTT
34856952 TATACAAGGC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
20 3 0.09
21 10 0.30
22 11 0.33
23 9 0.27
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTTATATAAATATTTTAAT
Found at i:34862068 original size:18 final size:19
Alignment explanation
Indices: 34862034--34862075 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
34862024 GCAAATGAAT
34862034 CATTTATCATCTTCATTTC
1 CATTTATCATCTTCATTTC
*
34862053 CATTTA-CATTTTCATTTC
1 CATTTATCATCTTCATTTC
34862071 CATTT
1 CATTT
34862076 TGAGAAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (19 bp):
CATTTATCATCTTCATTTC
Found at i:34862328 original size:13 final size:13
Alignment explanation
Indices: 34862310--34862334 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34862300 TATTTTAATA
34862310 TTATTTTGTGTGT
1 TTATTTTGTGTGT
34862323 TTATTTTGTGTG
1 TTATTTTGTGTG
34862335 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:34863962 original size:41 final size:41
Alignment explanation
Indices: 34863917--34864018 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
34863907 GCTTAGCGCT
*
34863917 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
* * *
34863958 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
34863999 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
34864019 TACTGAATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
40 3 0.05
41 53 0.95
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
Found at i:34873891 original size:43 final size:43
Alignment explanation
Indices: 34873844--34873926 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
34873834 TGAATATATC
* *
34873844 AAATTTAAGTTTCAAATTAGAGTGGTAATAAAAGAAAAAAATT
1 AAATTTAAGTTTCAAATTAGAATGATAATAAAAGAAAAAAATT
*
34873887 AAATTTAAGTTTCAAATTAGAATGATAATAAGAGAAAAAA
1 AAATTTAAGTTTCAAATTAGAATGATAATAAAAGAAAAAA
34873927 TGAAAGAGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.55, C:0.02, G:0.13, T:0.29
Consensus pattern (43 bp):
AAATTTAAGTTTCAAATTAGAATGATAATAAAAGAAAAAAATT
Found at i:34878162 original size:30 final size:30
Alignment explanation
Indices: 34878102--34878162 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
34878092 TATATATTTT
* **
34878102 TTTCTTCTTCTTTTTTTTTATTTTTTTTCC
1 TTTCTTCTTCTTTTTCTTTATTTTACTTCC
*
34878132 TTTCTTCTT-TTCTTTCTTTGTTTTACTTCC
1 TTTCTTCTTCTT-TTTCTTTATTTTACTTCC
34878162 T
1 T
34878163 CGATTTCTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (30 bp):
TTTCTTCTTCTTTTTCTTTATTTTACTTCC
Found at i:34881403 original size:26 final size:26
Alignment explanation
Indices: 34881367--34881419 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
34881357 TATTAAGATA
34881367 ATCCAAATAGTAGATAGTTTTGAGCG
1 ATCCAAATAGTAGATAGTTTTGAGCG
34881393 ATCCAAATAGTAGATAGTTTTGAGCG
1 ATCCAAATAGTAGATAGTTTTGAGCG
34881419 A
1 A
34881420 ACTATCTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (26 bp):
ATCCAAATAGTAGATAGTTTTGAGCG
Found at i:34886871 original size:41 final size:41
Alignment explanation
Indices: 34886821--34886986 Score: 269
Period size: 41 Copynumber: 4.0 Consensus size: 41
34886811 AATTCATCAT
* *
34886821 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
34886862 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
34886903 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
34886944 ATTTAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
34886985 AT
1 AT
34886987 NNNNNNNNNN
Statistics
Matches: 115, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 115 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:34886964 original size:82 final size:82
Alignment explanation
Indices: 34886827--34886986 Score: 311
Period size: 82 Copynumber: 2.0 Consensus size: 82
34886817 TCATATTCGG
34886827 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
34886892 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
*
34886909 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTTAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
34886974 TTTATAACCTGAT
66 TTTATAACCTGAT
34886987 NNNNNNNNNN
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 77 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:34887879 original size:19 final size:19
Alignment explanation
Indices: 34887857--34887895 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
34887847 AGTTACTAAA
*
34887857 ATAACGTTTAATAATTAAT
1 ATAACCTTTAATAATTAAT
34887876 ATAACCTTTAATAATTAAT
1 ATAACCTTTAATAATTAAT
34887895 A
1 A
34887896 AACAAAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (19 bp):
ATAACCTTTAATAATTAAT
Found at i:34897632 original size:103 final size:103
Alignment explanation
Indices: 34897449--34897654 Score: 385
Period size: 103 Copynumber: 2.0 Consensus size: 103
34897439 TTTATATTCC
34897449 TAAATTTCGACCTTTCTACCCTTTTTGACATTTTTTTAATCCATTTTCTCTGTTGTTCTTTCCTA
1 TAAATTTCGACCTTTCTACCCTTTTTGACATTTTTTTAATCCATTTTCTCTGTTGTTCTTTCCTA
*
34897514 CTTCGTTACAACTGACTTGCTTTTCTGGCTTTTCTCTT
66 CTTCATTACAACTGACTTGCTTTTCTGGCTTTTCTCTT
34897552 TAAATTTCGACCTTTCTACCCTTTTTGACATTTTTTTAATCCATTTTCTCTGTTGTTCTTTCCTA
1 TAAATTTCGACCTTTCTACCCTTTTTGACATTTTTTTAATCCATTTTCTCTGTTGTTCTTTCCTA
**
34897617 CTTCATTACCGCTGACTTGCTTTTCTGGCTTTTCTCTT
66 CTTCATTACAACTGACTTGCTTTTCTGGCTTTTCTCTT
34897655 ATTCTTCTTT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.14, C:0.25, G:0.09, T:0.52
Consensus pattern (103 bp):
TAAATTTCGACCTTTCTACCCTTTTTGACATTTTTTTAATCCATTTTCTCTGTTGTTCTTTCCTA
CTTCATTACAACTGACTTGCTTTTCTGGCTTTTCTCTT
Found at i:34898096 original size:93 final size:93
Alignment explanation
Indices: 34897937--34898122 Score: 363
Period size: 93 Copynumber: 2.0 Consensus size: 93
34897927 AAGAGTAAAC
34897937 ATTGTAAAGTTAGTTTTTCTATGCTTACTGGTTCAATGCTTACCTATTTATGGTTGGTGCTTAGG
1 ATTGTAAAGTTAGTTTTTCTATGCTTACTGGTTCAATGCTTACCTATTTATGGTTGGTGCTTAGG
34898002 AACTGATTTGAGGCATGAAGGTCCTTAG
66 AACTGATTTGAGGCATGAAGGTCCTTAG
*
34898030 ATTGTAGAGTTAGTTTTTCTATGCTTACTGGTTCAATGCTTACCTATTTATGGTTGGTGCTTAGG
1 ATTGTAAAGTTAGTTTTTCTATGCTTACTGGTTCAATGCTTACCTATTTATGGTTGGTGCTTAGG
34898095 AACTGATTTGAGGCATGAAGGTCCTTAG
66 AACTGATTTGAGGCATGAAGGTCCTTAG
34898123 TTGGTGAGAA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.41
Consensus pattern (93 bp):
ATTGTAAAGTTAGTTTTTCTATGCTTACTGGTTCAATGCTTACCTATTTATGGTTGGTGCTTAGG
AACTGATTTGAGGCATGAAGGTCCTTAG
Found at i:34899150 original size:34 final size:31
Alignment explanation
Indices: 34899099--34899168 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 31
34899089 TGTTACTATC
*
34899099 ACTGTAATGAGATAAGGCCCACACTGATACTGA
1 ACTGTAATGAGAAAAGGCCCA-ACTGA-ACTGA
*
34899132 TACTGTAATGGGAAAAGGCCCAACTGAACTGA
1 -ACTGTAATGAGAAAAGGCCCAACTGAACTGA
34899164 ACTGT
1 ACTGT
34899169 TATTCAATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 5 0.15
32 5 0.15
33 5 0.15
34 19 0.56
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (31 bp):
ACTGTAATGAGAAAAGGCCCAACTGAACTGA
Found at i:34899770 original size:96 final size:96
Alignment explanation
Indices: 34899664--34899857 Score: 379
Period size: 96 Copynumber: 2.0 Consensus size: 96
34899654 ATGTTTTCAA
34899664 AAAACACTTCAATATGATATCGCCACCAGATTCAGCCATAATGTCTAGGCCGGGTTTAGGGTGTT
1 AAAACACTTCAATATGATATCGCCACCAGATTCAGCCATAATGTCTAGGCCGGGTTTAGGGTGTT
34899729 ACAAGTTTAACTCCAATCATTTCATTACTTC
66 ACAAGTTTAACTCCAATCATTTCATTACTTC
*
34899760 AAAACACTTCAATGTGATATCGCCACCAGATTCAGCCATAATGTCTAGGCCGGGTTTAGGGTGTT
1 AAAACACTTCAATATGATATCGCCACCAGATTCAGCCATAATGTCTAGGCCGGGTTTAGGGTGTT
34899825 ACAAGTTTAACTCCAATCATTTCATTACTTC
66 ACAAGTTTAACTCCAATCATTTCATTACTTC
34899856 AA
1 AA
34899858 GCTAATAAAC
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 97 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (96 bp):
AAAACACTTCAATATGATATCGCCACCAGATTCAGCCATAATGTCTAGGCCGGGTTTAGGGTGTT
ACAAGTTTAACTCCAATCATTTCATTACTTC
Found at i:34901709 original size:19 final size:19
Alignment explanation
Indices: 34901672--34901712 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
34901662 AAATAAGTGT
*
34901672 AATAATAATACCAATAATA
1 AATAATAATACCAACAATA
**
34901691 AATAATAATAGTAACAATA
1 AATAATAATACCAACAATA
34901710 AAT
1 AAT
34901713 TTATTAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (19 bp):
AATAATAATACCAACAATA
Found at i:34902763 original size:12 final size:12
Alignment explanation
Indices: 34902748--34902782 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
34902738 GTAATTTGGA
34902748 TTGTTATTTTAT
1 TTGTTATTTTAT
34902760 TTGTTATTTTAT
1 TTGTTATTTTAT
34902772 TAT-TTATTTTA
1 T-TGTTATTTTA
34902783 ATAGCGGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 21 0.95
13 1 0.05
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (12 bp):
TTGTTATTTTAT
Found at i:34903078 original size:44 final size:44
Alignment explanation
Indices: 34902988--34903086 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
34902978 GCAACATCGA
**
34902988 GGAGATAAGATTTGTTTTCTCAGTCTGCTCCACTACAACTTCAG
1 GGAGATAAGATTTGTCATCTCAGTCTGCTCCACTACAACTTCAG
** *
34903032 GGAGATAAGATTTGTCATCTTC-GATCTGCTCTGCTACAGCTT-AG
1 GGAGATAAGATTTGTCATC-TCAG-TCTGCTCCACTACAACTTCAG
*
34903076 GGAGACAAGAT
1 GGAGATAAGAT
34903087 CTGTAATTTC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
44 30 0.64
45 17 0.36
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (44 bp):
GGAGATAAGATTTGTCATCTCAGTCTGCTCCACTACAACTTCAG
Found at i:34903325 original size:88 final size:88
Alignment explanation
Indices: 34903176--34903748 Score: 887
Period size: 88 Copynumber: 6.5 Consensus size: 88
34903166 ATGATTCGCC
* * *
34903176 GTCTTTGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATTTGCTGTCTTCAACCTA-CTCCACT
1 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACC-AGCTCCACT
* * *
34903240 ACAATCAAGGGAGGCAAGGCTTGT
65 ACAACCGAGGGAGGCAAGGTTTGT
*
34903264 GTCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
1 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
* * *
34903329 CAATCGAAGGAGGAAAGGTTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
* * * * * *
34903352 GTCTTCGATCTGCTTCGCTGTCGATGTAGGAAGGCAAGATCTGTTGTCTTCAACTAGCTCCACCA
1 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
*
34903417 CAACCGAGGGAGGAAAGGTTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
*
34903440 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACTAGCTCCACTA
1 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
*
34903505 CAACCGAGGAAGGCAAGGTTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
* * *
34903528 GTCTTCGATCTGCTTCACTGTCGATGTAGGAAGGCAAGATTTGCTATCTTCAACCAGCTCCACCA
1 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
34903593 CAACCGAGGGAGGCAAGGTTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
* * *
34903616 GTCTTCGATCTGCTTCGCTGTCGATGTAGGAAGGCAAGATTTGCTATCTTCAACCAGCTCCACTA
1 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
*
34903681 CAACCGAGGGAGGCAAGATTTGT
66 CAACCGAGGGAGGCAAGGTTTGT
*
34903704 GTCTTCGATCTGCTTCATTGTCGATGCAGGAAGGCAAGATCTGCT
1 GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCT
34903749 GTATTCACTG
Statistics
Matches: 450, Mismatches: 34, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
87 1 0.00
88 449 1.00
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (88 bp):
GTCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTA
CAACCGAGGGAGGCAAGGTTTGT
Found at i:34906015 original size:32 final size:33
Alignment explanation
Indices: 34905941--34906040 Score: 134
Period size: 33 Copynumber: 3.0 Consensus size: 33
34905931 TTGATTTTTC
34905941 TTTTTCTTCTTTGTTTTCGA-TTTTGATTTTGA-TT
1 TTTTTCTTCTTT-TTTT--ATTTTTGATTTTGATTT
34905975 TTTTTCTTC-TTTTTTATTTTTGATTTTGATTT
1 TTTTTCTTCTTTTTTTATTTTTGATTTTGATTT
**
34906007 TTTTTCTTCTTTTTTTATTTTTTCTTTTGATTT
1 TTTTTCTTCTTTTTTTATTTTTGATTTTGATTT
34906040 T
1 T
34906041 GATCTCAACT
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
30 1 0.02
31 12 0.20
32 15 0.25
33 24 0.39
34 9 0.15
ACGTcount: A:0.08, C:0.08, G:0.07, T:0.77
Consensus pattern (33 bp):
TTTTTCTTCTTTTTTTATTTTTGATTTTGATTT
Found at i:34906019 original size:18 final size:17
Alignment explanation
Indices: 34905967--34906040 Score: 59
Period size: 15 Copynumber: 4.6 Consensus size: 17
34905957 TCGATTTTGA
*
34905967 TTTTGATTTTTTTCTTC
1 TTTTGATTTTTTTTTTC
* **
34905984 -TTT--TTTATTTTTGA
1 TTTTGATTTTTTTTTTC
34905998 TTTTGATTTTTTTTCTTC
1 TTTTGATTTTTTTT-TTC
*
34906016 TTTT--TTTATTTTTTC
1 TTTTGATTTTTTTTTTC
34906031 TTTTGATTTT
1 TTTTGATTTT
34906041 GATCTCAACT
Statistics
Matches: 42, Mismatches: 9, Indels: 12
0.67 0.14 0.19
Matches are distributed among these distances:
14 7 0.17
15 10 0.24
16 10 0.24
17 10 0.24
18 5 0.12
ACGTcount: A:0.08, C:0.07, G:0.05, T:0.80
Consensus pattern (17 bp):
TTTTGATTTTTTTTTTC
Found at i:34911105 original size:19 final size:19
Alignment explanation
Indices: 34911068--34911108 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
34911058 AAATAAGTGT
*
34911068 AATAATAATACCAATAATA
1 AATAATAATACCAACAATA
**
34911087 AATAATAATAGTAACAATA
1 AATAATAATACCAACAATA
34911106 AAT
1 AAT
34911109 TTATTAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (19 bp):
AATAATAATACCAACAATA
Found at i:34918235 original size:42 final size:42
Alignment explanation
Indices: 34918176--34918258 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
34918166 AAATTCAAAG
34918176 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTT
* *
34918218 GGATAAGAACAAGAGTTCAAATTTTTTAATTTCAAACGTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTT
34918259 CACACATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.35
Consensus pattern (42 bp):
GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTT
Found at i:34921113 original size:20 final size:19
Alignment explanation
Indices: 34921060--34921113 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
34921050 AATTCTTTAC
*
34921060 AAAAAATTAAATAAAATCA
1 AAAAAAATAAATAAAATCA
* *
34921079 AAATAAAATATATAAAATTA
1 AAA-AAAATAAATAAAATCA
*
34921099 TAAAAAATCAAATAA
1 AAAAAAAT-AAATAA
34921114 CTTTAAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAAAATAAATAAAATCA
Found at i:34921472 original size:18 final size:17
Alignment explanation
Indices: 34921422--34921473 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
34921412 AATTACAAAA
34921422 AAAATTCAAAATATTTTT
1 AAAATTCAAAATA-TTTT
34921440 AAAA-T---AAT-TTTT
1 AAAATTCAAAATATTTT
34921452 AAAATTCAAAATATTTAT
1 AAAATTCAAAATATTT-T
34921470 AAAA
1 AAAA
34921474 AACCCAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
12 8 0.29
13 1 0.04
14 3 0.11
16 3 0.11
17 4 0.14
18 9 0.32
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATTCAAAATATTTT
Found at i:34922875 original size:5 final size:5
Alignment explanation
Indices: 34922865--34922892 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
34922855 TTGGACTGTG
34922865 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
34922893 GATCACACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:34925565 original size:21 final size:21
Alignment explanation
Indices: 34925540--34925580 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
34925530 TTTAATTCAC
34925540 CGTCGTCATCACCATCATCAT
1 CGTCGTCATCACCATCATCAT
** *
34925561 CGTCGTTGTCATCATCATCA
1 CGTCGTCATCACCATCATCA
34925581 CTTTCTCGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.34, G:0.12, T:0.32
Consensus pattern (21 bp):
CGTCGTCATCACCATCATCAT
Found at i:34927093 original size:72 final size:72
Alignment explanation
Indices: 34926969--34927143 Score: 275
Period size: 72 Copynumber: 2.5 Consensus size: 72
34926959 AAAATCATAT
* * *
34926969 ATAAACAACTATTGATAAAACTA-ATTTAGTATAAATAAGTAGAACATAAATTCAATATCCAAAG
1 ATAAACAACTATTGATAAAACTAGATTTAGCATAAATAAGAAGAACATAAATTCAATATCCAAAA
34927033 ACCAAAC
66 ACCAAAC
*
34927040 ATAAACAACTATTAATAAAACTAGATTATA-CATAAATAAGAAGAACATAAATTCAATATCCAAA
1 ATAAACAACTATTGATAAAACTAGATT-TAGCATAAATAAGAAGAACATAAATTCAATATCCAAA
34927104 AACCAAAC
65 AACCAAAC
*
34927112 ATAAATAACTATTGATAAAACTAG-TTTAGCAT
1 ATAAACAACTATTGATAAAACTAGATTTAGCAT
34927144 TGTTGTTTAG
Statistics
Matches: 95, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
70 2 0.02
71 27 0.28
72 64 0.67
73 2 0.02
ACGTcount: A:0.54, C:0.14, G:0.06, T:0.26
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTTAGCATAAATAAGAAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:34934413 original size:63 final size:63
Alignment explanation
Indices: 34934331--34934455 Score: 162
Period size: 63 Copynumber: 2.0 Consensus size: 63
34934321 CATTGGAGAG
* * * *
34934331 GTGTTGATACAGGGAATGATGGGGCATGTTGTGGT-GCTTGTGTAAAATAAACTGGTGCTAAAT
1 GTGTTGATACAAGGAATGATGGGGCATGTTGTGGTAG-TTGTATAAAATAAACTAGTACTAAAT
* * * *
34934394 GTGTTGATGCAAGGAATGATTGTGCGTGTTGTGGTAGTTGTATAAAATAAACTAGTACTAAA
1 GTGTTGATACAAGGAATGATGGGGCATGTTGTGGTAGTTGTATAAAATAAACTAGTACTAAA
34934456 GGTGATAATG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
63 52 0.98
64 1 0.02
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (63 bp):
GTGTTGATACAAGGAATGATGGGGCATGTTGTGGTAGTTGTATAAAATAAACTAGTACTAAAT
Found at i:34934473 original size:63 final size:63
Alignment explanation
Indices: 34934340--34934489 Score: 149
Period size: 63 Copynumber: 2.4 Consensus size: 63
34934330 GGTGTTGATA
* * * * * * * * *
34934340 CAGGGAATGATGGGGCATGTTGTGGTGCTTGTGTAAAATAAACTGGTGCTAAATGTGTTGATG
1 CAGGGAATGATTGTGCGTGTTGTGGTGCTTGTATAAAATAAACTAGTACTAAAGGTGATAATG
*
34934403 CAAGGAATGATTGTGCGTGTTGTGGTAG-TTGTATAAAATAAACTAGTACTAAAGGTGATAATG
1 CAGGGAATGATTGTGCGTGTTGTGGT-GCTTGTATAAAATAAACTAGTACTAAAGGTGATAATG
** * * *
34934466 TGGGGAATGAGTGTGTGTGCTGTG
1 CAGGGAATGATTGTGCGTGTTGTG
34934490 ATGATTGTGA
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
63 69 0.99
64 1 0.01
ACGTcount: A:0.27, C:0.07, G:0.34, T:0.32
Consensus pattern (63 bp):
CAGGGAATGATTGTGCGTGTTGTGGTGCTTGTATAAAATAAACTAGTACTAAAGGTGATAATG
Found at i:34940651 original size:2 final size:2
Alignment explanation
Indices: 34940644--34940672 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
34940634 TTCATTCAGT
34940644 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34940673 CATGATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34950472 original size:15 final size:15
Alignment explanation
Indices: 34950425--34950464 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
34950415 TATAAGCAAC
34950425 AAAACATAGTAATTA
1 AAAACATAGTAATTA
* *
34950440 AAAAAATAATTAATTA
1 AAAACAT-AGTAATTA
34950456 AAAACATAG
1 AAAACATAG
34950465 CTATTAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (15 bp):
AAAACATAGTAATTA
Found at i:34957354 original size:13 final size:12
Alignment explanation
Indices: 34957327--34957382 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
34957317 CGGTATTGTC
*
34957327 AAAAATAATTTA
1 AAAAAAAATTTA
34957339 AAAAAAAATTTGA
1 AAAAAAAATTT-A
* *
34957352 AAAAAAAAATTC
1 AAAAAAAATTTA
*
34957364 AAAAAAAATTCA
1 AAAAAAAATTTA
34957376 AAAAAAA
1 AAAAAAA
34957383 GTTTGTATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
12 26 0.70
13 11 0.30
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (12 bp):
AAAAAAAATTTA
Found at i:34957355 original size:14 final size:13
Alignment explanation
Indices: 34957327--34957382 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
34957317 CGGTATTGTC
* *
34957327 AAAAATAATTTAA
1 AAAAAAAATTCAA
* *
34957340 AAAAAAATTTGAA
1 AAAAAAAATTCAA
34957353 AAAAAAAATTC--
1 AAAAAAAATTCAA
34957364 AAAAAAAATTCAA
1 AAAAAAAATTCAA
34957377 AAAAAA
1 AAAAAA
34957383 GTTTGTATTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 11 0.31
13 25 0.69
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:34957367 original size:11 final size:11
Alignment explanation
Indices: 34957353--34957382 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
34957343 AAAATTTGAA
34957353 AAAAAAAATTC
1 AAAAAAAATTC
34957364 AAAAAAAATTC
1 AAAAAAAATTC
34957375 AAAAAAAA
1 AAAAAAAA
34957383 GTTTGTATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:34957469 original size:26 final size:27
Alignment explanation
Indices: 34957428--34957491 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 27
34957418 GTATTGAAGA
*
34957428 AAAAAAAAGAATAAAAAAAATTCGGAATT-
1 AAAAAAAAG-A-AAAAAAAA-TCGAAATTG
34957457 AAAAAAAAGAAAAAAAAATCGAAATTG
1 AAAAAAAAGAAAAAAAAATCGAAATTG
34957484 AAAAAAAA
1 AAAAAAAA
34957492 AAGAGTGATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
26 7 0.21
27 16 0.48
28 1 0.03
29 9 0.27
ACGTcount: A:0.75, C:0.03, G:0.09, T:0.12
Consensus pattern (27 bp):
AAAAAAAAGAAAAAAAAATCGAAATTG
Found at i:34957495 original size:29 final size:29
Alignment explanation
Indices: 34957427--34957492 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
34957417 AGTATTGAAG
*
34957427 AAAAAAAAAGAATAAAAAAAATTCGGAATT
1 AAAAAAAAAG-ATAAAAAAAATTCGAAATT
34957457 -AAAAAAAAGA-AAAAAAAA-TCGAAATT
1 AAAAAAAAAGATAAAAAAAATTCGAAATT
34957483 GAAAAAAAAA
1 -AAAAAAAAA
34957493 AGAGTGATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 7 0.21
27 8 0.24
28 9 0.27
29 9 0.27
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (29 bp):
AAAAAAAAAGATAAAAAAAATTCGAAATT
Found at i:34957973 original size:200 final size:200
Alignment explanation
Indices: 34957630--34958029 Score: 782
Period size: 200 Copynumber: 2.0 Consensus size: 200
34957620 CCAAGCCAAA
34957630 TCAATTTTGTAAGCCGACGCCAAACGGTATTGATTCATCGATTTAGTTTGCGAAGAACTTTGAGA
1 TCAATTTTGTAAGCCGACGCCAAACGGTATTGATTCATCGATTTAGTTTGCGAAGAACTTTGAGA
34957695 GGCGAAAATCGAGTGGAAAAAAAAGGCAAGAGTGATTGGTGAGACCATTCGAGAGAAGTAAAAGC
66 GGCGAAAATCGAGTGGAAAAAAAAGGCAAGAGTGATTGGTGAGACCATTCGAGAGAAGTAAAAGC
34957760 CAAATTGTGTGAATTTTCTTTGTGAGTGAAACGTGAGATTTTTTTTTGTGTGGTGAGGTATTTAT
131 CAAATTGTGTGAATTTTCTTTGTGAGTGAAACGTGAGATTTTTTTTTGTGTGGTGAGGTATTTAT
34957825 TTTCT
196 TTTCT
* *
34957830 TCAATTTTGTAAGCCGCCGCCAAACGGTATTGATTCGTCGATTTAGTTTGCGAAGAACTTTGAGA
1 TCAATTTTGTAAGCCGACGCCAAACGGTATTGATTCATCGATTTAGTTTGCGAAGAACTTTGAGA
34957895 GGCGAAAATCGAGTGGAAAAAAAAGGCAAGAGTGATTGGTGAGACCATTCGAGAGAAGTAAAAGC
66 GGCGAAAATCGAGTGGAAAAAAAAGGCAAGAGTGATTGGTGAGACCATTCGAGAGAAGTAAAAGC
34957960 CAAATTGTGTGAATTTTCTTTGTGAGTGAAACGTGAGATTTTTTTTTGTGTGGTGAGGTATTTAT
131 CAAATTGTGTGAATTTTCTTTGTGAGTGAAACGTGAGATTTTTTTTTGTGTGGTGAGGTATTTAT
34958025 TTTCT
196 TTTCT
34958030 ATTGTATTTT
Statistics
Matches: 198, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
200 198 1.00
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (200 bp):
TCAATTTTGTAAGCCGACGCCAAACGGTATTGATTCATCGATTTAGTTTGCGAAGAACTTTGAGA
GGCGAAAATCGAGTGGAAAAAAAAGGCAAGAGTGATTGGTGAGACCATTCGAGAGAAGTAAAAGC
CAAATTGTGTGAATTTTCTTTGTGAGTGAAACGTGAGATTTTTTTTTGTGTGGTGAGGTATTTAT
TTTCT
Found at i:34958614 original size:17 final size:15
Alignment explanation
Indices: 34958594--34958632 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
34958584 GCGAGCGAGA
34958594 AAATGAACATGAAAAAG
1 AAATGAA-A-GAAAAAG
34958611 AAATGAAAGAAAAAG
1 AAATGAAAGAAAAAG
34958626 AAGATGA
1 AA-ATGA
34958633 GTGGGACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.67, C:0.03, G:0.21, T:0.10
Consensus pattern (15 bp):
AAATGAAAGAAAAAG
Found at i:34963934 original size:18 final size:18
Alignment explanation
Indices: 34963913--34963951 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
34963903 GATTGAGAGT
* *
34963913 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
34963931 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
34963949 GAA
1 GAA
34963952 GTTGAAGAAA
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:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:34965160 original size:13 final size:13
Alignment explanation
Indices: 34965142--34965166 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34965132 TGGTCATCAT
34965142 GGTGTGAACACAA
1 GGTGTGAACACAA
34965155 GGTGTGAACACA
1 GGTGTGAACACA
34965167 TGATCAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:34965689 original size:20 final size:20
Alignment explanation
Indices: 34965661--34965709 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
34965651 AATGAGCTGA
34965661 ATTGTAGCTAAATTGAGCCCG
1 ATTG-AGCTAAATTGAGCCCG
* * *
34965682 ATTGAGCTGACTTGAGCTCG
1 ATTGAGCTAAATTGAGCCCG
*
34965702 AGTGAGCT
1 ATTGAGCT
34965710 GGAAACGAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (20 bp):
ATTGAGCTAAATTGAGCCCG
Found at i:34965710 original size:20 final size:20
Alignment explanation
Indices: 34965673--34965710 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34965663 TGTAGCTAAA
*
34965673 TTGAGCCCGATTGAGCTGAC
1 TTGAGCCCGAGTGAGCTGAC
*
34965693 TTGAGCTCGAGTGAGCTG
1 TTGAGCCCGAGTGAGCTG
34965711 GAAACGAGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.21, G:0.34, T:0.26
Consensus pattern (20 bp):
TTGAGCCCGAGTGAGCTGAC
Found at i:34968722 original size:30 final size:31
Alignment explanation
Indices: 34968656--34968722 Score: 75
Period size: 32 Copynumber: 2.2 Consensus size: 31
34968646 TCTCACTTTT
* * *
34968656 TTTTTGAATTTTTTTTTCAAATTCTCTCTTTT
1 TTTTTGAATTTTTTTAT-AAATTCTCTATTTG
34968688 TTTTTGAATTTTTTTAT-AATT-TCTAATTTG
1 TTTTTGAATTTTTTTATAAATTCTCT-ATTTG
34968718 TTTTT
1 TTTTT
34968723 AATACTCCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 3 0.10
30 12 0.39
32 16 0.52
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.70
Consensus pattern (31 bp):
TTTTTGAATTTTTTTATAAATTCTCTATTTG
Found at i:34968722 original size:31 final size:31
Alignment explanation
Indices: 34968652--34968711 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
34968642 GTTTTCTCAC
* *
34968652 TTTTTTTTTGAATTTTTTTTTCAAATTCTCTC
1 TTTTTTTTTGAATTTTTTTAT-AAATTCTCTA
*
34968684 TTTTTTTTTGAATTTTTTTATAATTTCT
1 TTTTTTTTTGAATTTTTTTATAAATTCT
34968712 AATTTGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.17, C:0.08, G:0.03, T:0.72
Consensus pattern (31 bp):
TTTTTTTTTGAATTTTTTTATAAATTCTCTA
Found at i:34971715 original size:22 final size:21
Alignment explanation
Indices: 34971690--34971731 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
34971680 TTTGAACCAT
34971690 TACCAATT-CGTACCAACTTCCA
1 TACC-ATTACGTACCAA-TTCCA
34971712 TACCATTACGTACCAATTCC
1 TACCATTACGTACCAATTCC
34971732 TAAATACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.31, C:0.36, G:0.05, T:0.29
Consensus pattern (21 bp):
TACCATTACGTACCAATTCCA
Found at i:34976275 original size:89 final size:89
Alignment explanation
Indices: 34976168--34976362 Score: 390
Period size: 89 Copynumber: 2.2 Consensus size: 89
34976158 TCAAGAAAAT
34976168 CAAGAAACCGAATCTTGGCCCAATTTTTCTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAGA
1 CAAGAAACCGAATCTTGGCCCAATTTTTCTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAGA
34976233 TTTCAAATCTTGGAAATCTTGGTC
66 TTTCAAATCTTGGAAATCTTGGTC
34976257 CAAGAAACCGAATCTTGGCCCAATTTTTCTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAGA
1 CAAGAAACCGAATCTTGGCCCAATTTTTCTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAGA
34976322 TTTCAAATCTTGGAAATCTTGGTC
66 TTTCAAATCTTGGAAATCTTGGTC
34976346 CAAGAAACCGAATCTTG
1 CAAGAAACCGAATCTTG
34976363 CAGCCAAAGT
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 106 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (89 bp):
CAAGAAACCGAATCTTGGCCCAATTTTTCTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAGA
TTTCAAATCTTGGAAATCTTGGTC
Found at i:34982812 original size:13 final size:13
Alignment explanation
Indices: 34982794--34982819 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34982784 ACCTGAAAGC
34982794 AATTTAATTCATA
1 AATTTAATTCATA
34982807 AATTTAATTCATA
1 AATTTAATTCATA
34982820 TTAGGACACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTTAATTCATA
Found at i:34983233 original size:20 final size:21
Alignment explanation
Indices: 34983208--34983246 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
34983198 CTCAAAAAGC
34983208 AAATGAGCTCAA-TGAGCTGG
1 AAATGAGCTCAATTGAGCTGG
*
34983228 AAATGAGCTGAATTGAGCT
1 AAATGAGCTCAATTGAGCT
34983247 CAACGAGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (21 bp):
AAATGAGCTCAATTGAGCTGG
Found at i:34984548 original size:18 final size:16
Alignment explanation
Indices: 34984504--34984564 Score: 59
Period size: 18 Copynumber: 3.6 Consensus size: 16
34984494 TCTTCACTCG
*
34984504 TTTTCTTTTCAAACTC
1 TTTTCTTTTCAATCTC
34984520 TCTTTCTTTTTCAATCTC
1 T-TTTC-TTTTCAATCTC
*
34984538 GTTTTGCTTTTCACTCTC
1 -TTTT-CTTTTCAATCTC
*
34984556 TTTTGTTTT
1 TTTTCTTTT
34984565 TGAAATCTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 5 0.13
17 8 0.21
18 23 0.61
19 2 0.05
ACGTcount: A:0.10, C:0.23, G:0.05, T:0.62
Consensus pattern (16 bp):
TTTTCTTTTCAATCTC
Found at i:34984572 original size:36 final size:34
Alignment explanation
Indices: 34984500--34984579 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 34
34984490 TTCTTCTTCA
*
34984500 CTCGTTTTCTTTTCAAACTCTCTTTCTTTTTCAAT
1 CTCGTTTTCTTTTC-AACTCTCTTTCTTTTTAAAT
*
34984535 CTCGTTTTGCTTTTC-ACTCTCTTTTGTTTTTGAAAT
1 CTCGTTTT-CTTTTCAACTCTC-TTTCTTTTT-AAAT
*
34984571 CTCATTTTC
1 CTCGTTTTC
34984580 ATATTTTTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
34 6 0.15
35 17 0.44
36 16 0.41
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (34 bp):
CTCGTTTTCTTTTCAACTCTCTTTCTTTTTAAAT
Found at i:34984592 original size:6 final size:6
Alignment explanation
Indices: 34984583--34984681 Score: 74
Period size: 6 Copynumber: 16.0 Consensus size: 6
34984573 CATTTTCATA
* * * **
34984583 TTTTTC TTTTTC AATTTTC TTTTCTTC ATTTTC TTTTTC TCTCAC TTTTTC
1 TTTTTC TTTTTC -TTTTTC -TTT-TTC TTTTTC TTTTTC TTTTTC TTTTTC
* * **
34984634 GTTTTC TTTTTC TTTTT- TGTTTTC TTTTTC TTCTTC ACTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TTTTTC
34984682 GAATTCATTA
Statistics
Matches: 70, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
5 1 0.01
6 56 0.80
7 10 0.14
8 3 0.04
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.73
Consensus pattern (6 bp):
TTTTTC
Found at i:34986004 original size:21 final size:21
Alignment explanation
Indices: 34985978--34986040 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
34985968 TTGGTATTTG
34985978 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
34985999 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
34986020 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
34986041 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:34989060 original size:21 final size:21
Alignment explanation
Indices: 34989034--34989077 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
34989024 TTGGTATTTG
**
34989034 GGAATTGGTTTGAAATAGTAT
1 GGAATTGGTACGAAATAGTAT
*
34989055 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATAGTAT
34989076 GG
1 GG
34989078 TTTTTGGTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.02, G:0.34, T:0.32
Consensus pattern (21 bp):
GGAATTGGTACGAAATAGTAT
Found at i:34989087 original size:22 final size:23
Alignment explanation
Indices: 34989059--34989102 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
34989049 TAGTATGGAA
34989059 TTGGTACGAAATGGT-ATGGTTT
1 TTGGTACGAAATGGTAATGGTTT
*
34989081 TTGGTACGAATTGGTAATGGTT
1 TTGGTACGAAATGGTAATGGTT
34989103 CAAAGAGGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.23, C:0.05, G:0.32, T:0.41
Consensus pattern (23 bp):
TTGGTACGAAATGGTAATGGTTT
Found at i:34992573 original size:91 final size:91
Alignment explanation
Indices: 34992413--34992595 Score: 321
Period size: 91 Copynumber: 2.0 Consensus size: 91
34992403 TTTGGCCTGA
* *
34992413 TTTTCAACTAAGTATGAAGAAATTTCTTGATTGGGCTGGATTTTGGTTATTGGTACTCGCCTTCA
1 TTTTCAACTAAGTATGAAGAAATTTCTTGATTGGGCTGGACTTTGGTTATTGGGACTCGCCTTCA
34992478 AGAATTTGGGCTCGTGATCCATATCC
66 AGAATTTGGGCTCGTGATCCATATCC
* *
34992504 TTTTCAACTAAGTATGAAGAAATTTCTTGATTGGGCTGGACTTTGGTTATTGGGCCTCGCCTTCC
1 TTTTCAACTAAGTATGAAGAAATTTCTTGATTGGGCTGGACTTTGGTTATTGGGACTCGCCTTCA
*
34992569 AGAATTTGGGCTCGTGATCCATCTCC
66 AGAATTTGGGCTCGTGATCCATATCC
34992595 T
1 T
34992596 ACCAAAATTG
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 87 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (91 bp):
TTTTCAACTAAGTATGAAGAAATTTCTTGATTGGGCTGGACTTTGGTTATTGGGACTCGCCTTCA
AGAATTTGGGCTCGTGATCCATATCC
Found at i:34992822 original size:77 final size:77
Alignment explanation
Indices: 34992739--34992892 Score: 290
Period size: 77 Copynumber: 2.0 Consensus size: 77
34992729 AATTGGGCCA
*
34992739 AGATTCGGTTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGT
1 AGATTCGATTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGT
34992804 ATGAATCTAAGG
66 ATGAATCTAAGG
34992816 AGATTCGATTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGT
1 AGATTCGATTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGT
*
34992881 ATGCATCTAAGG
66 ATGAATCTAAGG
34992893 CCTTGCTAAC
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.42
Consensus pattern (77 bp):
AGATTCGATTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTGTTCTCTCGTGT
ATGAATCTAAGG
Found at i:35003116 original size:38 final size:38
Alignment explanation
Indices: 35003042--35003126 Score: 95
Period size: 38 Copynumber: 2.3 Consensus size: 38
35003032 ATTTCCTTAT
* *
35003042 TTTCACACACATTGCTTTTAACTCGTTCCATGCTTTTA
1 TTTCACTCACATTGCTTTTAACTCGTTCCATACTTTTA
* *
35003080 TTTCACTCACTTTGCTTTTAAC-C-TTCACAATACTTTTG
1 TTTCACTCACATTGCTTTTAACTCGTTC-C-ATACTTTTA
35003118 TTTC-CTCAC
1 TTTCACTCAC
35003127 CTAATTTTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
36 3 0.07
37 7 0.17
38 31 0.76
ACGTcount: A:0.20, C:0.28, G:0.06, T:0.46
Consensus pattern (38 bp):
TTTCACTCACATTGCTTTTAACTCGTTCCATACTTTTA
Found at i:35013275 original size:40 final size:40
Alignment explanation
Indices: 35013224--35013500 Score: 464
Period size: 40 Copynumber: 6.9 Consensus size: 40
35013214 ATAACCGCAA
* * * *
35013224 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
35013264 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
35013304 GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
35013344 GCACAAATGCCTTCGGGTTTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
35013384 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
35013424 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
35013464 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
35013501 ATGCTCATGC
Statistics
Matches: 221, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 221 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:35016476 original size:15 final size:15
Alignment explanation
Indices: 35016438--35016476 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
35016428 TTGATGACTT
*
35016438 CCTAGGGTGGTCAAC
1 CCTAGGGTTGTCAAC
**
35016453 CCTAGGGTTGTCAGG
1 CCTAGGGTTGTCAAC
35016468 CCTAGGGTT
1 CCTAGGGTT
35016477 TTACGTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.15, C:0.23, G:0.36, T:0.26
Consensus pattern (15 bp):
CCTAGGGTTGTCAAC
Found at i:35019461 original size:13 final size:13
Alignment explanation
Indices: 35019443--35019467 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35019433 GAGGAGTTTT
35019443 AGGTGGTGGTTGA
1 AGGTGGTGGTTGA
35019456 AGGTGGTGGTTG
1 AGGTGGTGGTTG
35019468 TTTGTTAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.56, T:0.32
Consensus pattern (13 bp):
AGGTGGTGGTTGA
Found at i:35030678 original size:22 final size:22
Alignment explanation
Indices: 35030653--35030695 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
35030643 TTATGTGACA
35030653 GTTTATCT-GCAATTATGTGGTT
1 GTTTAT-TGGCAATTATGTGGTT
*
35030675 GTTTATTGGCATTTATGTGGT
1 GTTTATTGGCAATTATGTGGT
35030696 GGCTTGTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.16, C:0.07, G:0.26, T:0.51
Consensus pattern (22 bp):
GTTTATTGGCAATTATGTGGTT
Found at i:35040058 original size:19 final size:19
Alignment explanation
Indices: 35040034--35040071 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
35040024 CTTCAAAAGA
35040034 AAGGTTGAAGAAGATTATC
1 AAGGTTGAAGAAGATTATC
35040053 AAGGTTGAAGAAGATTATC
1 AAGGTTGAAGAAGATTATC
35040072 CCCAAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.26, T:0.26
Consensus pattern (19 bp):
AAGGTTGAAGAAGATTATC
Found at i:35048593 original size:21 final size:21
Alignment explanation
Indices: 35048569--35048613 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
35048559 CAATGGAAGT
35048569 ATGCTTATGTTAATGAAAATG
1 ATGCTTATGTTAATGAAAATG
35048590 ATGCTTATGTTAATGAAAATG
1 ATGCTTATGTTAATGAAAATG
35048611 ATG
1 ATG
35048614 AATTTAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (21 bp):
ATGCTTATGTTAATGAAAATG
Found at i:35054383 original size:40 final size:39
Alignment explanation
Indices: 35054285--35054507 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
35054275 TCCTCGTTCA
* * ** * *
35054285 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
35054324 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
35054363 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
**
35054403 GAATGCCTTCGGGACTTAACCCGGATTT-AGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAAT-TCGCAC
* * * * * *
35054443 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAATTCGCAC
* *
35054484 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
35054508 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
39 39 0.25
40 108 0.69
41 8 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
Found at i:35054441 original size:80 final size:79
Alignment explanation
Indices: 35054283--35054507 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
35054273 GCTCCTCGTT
* * ** * *
35054283 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
35054348 TTTAACAATTCGCA
66 TTTAACAATTCGCA
*
35054362 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
**
35054427 ATTT-AGTATCTCGCA
65 ATTTAACAAT-TCGCA
* * * * * * *
35054442 CAAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCC
35054505 GGA
63 GGA
35054508 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
79 41 0.33
80 77 0.62
81 6 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAATTCGCA
Found at i:35054507 original size:120 final size:119
Alignment explanation
Indices: 35054285--35054507 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 119
35054275 TCCTCGTTCA
* * *
35054285 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
35054350 TAACAATTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
35054404 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* * *
35054468 TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGA
35054508 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 38 0.43
120 42 0.48
121 8 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:35062447 original size:40 final size:40
Alignment explanation
Indices: 35062403--35062496 Score: 152
Period size: 40 Copynumber: 2.4 Consensus size: 40
35062393 TCCTCGTTCA
* *
35062403 AATGCCTTCGGGACATAGCCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAAG
*
35062443 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAAG
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAAG
*
35062483 AATGCCTACGGGAC
1 AATGCCTTCGGGAC
35062497 CGCACGAATG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAAG
Found at i:35062505 original size:20 final size:20
Alignment explanation
Indices: 35062477--35062516 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
35062467 TTTAACAACT
35062477 CGCAAGAATGCCTACGGGAC
1 CGCAAGAATGCCTACGGGAC
* *
35062497 CGCACGAATGCCTTCGGGAC
1 CGCAAGAATGCCTACGGGAC
35062517 TTAACCCGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.33, G:0.30, T:0.12
Consensus pattern (20 bp):
CGCAAGAATGCCTACGGGAC
Found at i:35062530 original size:60 final size:60
Alignment explanation
Indices: 35062437--35062556 Score: 213
Period size: 60 Copynumber: 2.0 Consensus size: 60
35062427 TTTAACAACT
35062437 CGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAAGAATGCCTACGGGAC
1 CGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAAGAATGCCTACGGGAC
* * *
35062497 CGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGAC
1 CGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAAGAATGCCTACGGGAC
35062557 TTAACCCGGA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (60 bp):
CGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAAGAATGCCTACGGGAC
Done.