Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 206 of 207
Found at i:62079740 original size:19 final size:18
Alignment explanation
Indices: 62079704--62079778 Score: 73
Period size: 19 Copynumber: 4.1 Consensus size: 18
62079694 ATCACACTGG
62079704 AAAAA-AAT-ATTTTTTT
1 AAAAATAATAATTTTTTT
*
62079720 AAATAATAATAATTTTGTT
1 AAA-AATAATAATTTTTTT
* *
62079739 AAAGATAATTATTTTTTT
1 AAAAATAATAATTTTTTT
*
62079757 AAAAAATAAAAATATTTTTT
1 -AAAAATAATAAT-TTTTTT
62079777 AA
1 AA
62079779 GTGAATGGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
16 3 0.06
17 2 0.04
18 15 0.32
19 21 0.45
20 6 0.13
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
AAAAATAATAATTTTTTT
Found at i:62089496 original size:58 final size:60
Alignment explanation
Indices: 62089423--62089558 Score: 168
Period size: 58 Copynumber: 2.3 Consensus size: 60
62089413 TTAATATAAC
* * **
62089423 ATTTAGTATCTGAACTTTACACTTTTTTCTAATTTGGTA-C-AAACTTTTTTTTAGCCCA
1 ATTTGGTACCTGAACTTTACACTTTTTTCTAATTTGGTATCAAAACTTTTTTGGAGCCCA
* * * * *
62089481 ATTTGGTACCTGAACTTGACATTTTTTTGTAATTTGGTATCAAAACTTTTTTGGGGCCTA
1 ATTTGGTACCTGAACTTTACACTTTTTTCTAATTTGGTATCAAAACTTTTTTGGAGCCCA
*
62089541 ATTTGGTACCTAAACTTT
1 ATTTGGTACCTGAACTTT
62089559 TTCTTTTAGG
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 34 0.52
59 1 0.02
60 30 0.46
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.46
Consensus pattern (60 bp):
ATTTGGTACCTGAACTTTACACTTTTTTCTAATTTGGTATCAAAACTTTTTTGGAGCCCA
Found at i:62089557 original size:60 final size:58
Alignment explanation
Indices: 62089435--62089557 Score: 156
Period size: 60 Copynumber: 2.1 Consensus size: 58
62089425 TTAGTATCTG
* ** *
62089435 AACTTTACACTTTTTTCTAATTTGGTACAAACTTTTTTTTAGCCCAATTTGGTACCTG
1 AACTTGACACTTTTTTCTAATTTGGTACAAACTTTTTTGGAGCCCAATTTGGTACCTA
* * * *
62089493 AACTTGACATTTTTTTGTAATTTGGTATCAAAACTTTTTTGGGGCCTAATTTGGTACCTA
1 AACTTGACACTTTTTTCTAATTTGGTA-C-AAACTTTTTTGGAGCCCAATTTGGTACCTA
62089553 AACTT
1 AACTT
62089558 TTTCTTTTAG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 24 0.44
59 1 0.02
60 30 0.55
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.46
Consensus pattern (58 bp):
AACTTGACACTTTTTTCTAATTTGGTACAAACTTTTTTGGAGCCCAATTTGGTACCTA
Found at i:62091606 original size:31 final size:31
Alignment explanation
Indices: 62091571--62091637 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
62091561 GTTACAAAAT
62091571 AGTTATTGAATTATTCAAAAATTTTCATTTA
1 AGTTATTGAATTATTCAAAAATTTTCATTTA
** * *
62091602 AGTTATTGAATTATTTGAAATTTTTTATTTA
1 AGTTATTGAATTATTCAAAAATTTTCATTTA
62091633 AGTTA
1 AGTTA
62091638 CTCAATTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (31 bp):
AGTTATTGAATTATTCAAAAATTTTCATTTA
Found at i:62095323 original size:984 final size:984
Alignment explanation
Indices: 62092938--62095892 Score: 5903
Period size: 984 Copynumber: 3.0 Consensus size: 984
62092928 TTGCTGAATG
62092938 ATAATTTAGGTTACTTGTGTGAGTTCTATAACGATATGGTTTTACGAGAATCCCGATGAACTTCA
1 ATAATTTAGGTTACTTGTGTGAGTTCTATAACGATATGGTTTTACGAGAATCCCGATGAACTTCA
62093003 CCAATTGTGTCTCTATAAGTGCATAAAATTGCTAGTCCAGTGTTTAGCATCAAATCTCGTTCAGT
66 CCAATTGTGTCTCTATAAGTGCATAAAATTGCTAGTCCAGTGTTTAGCATCAAATCTCGTTCAGT
62093068 ATTTCAGGTTGTCGCAGGGAACTTGTAGCTATGGTTCGGTTTAATTTGTTACTGGAAGAAATGGC
131 ATTTCAGGTTGTCGCAGGGAACTTGTAGCTATGGTTCGGTTTAATTTGTTACTGGAAGAAATGGC
62093133 TTGAACAAGTAAATAGATGTTAAGTTGTTGGAATATTTTACTCATTGTGTGTTTTGACAGTTCGG
196 TTGAACAAGTAAATAGATGTTAAGTTGTTGGAATATTTTACTCATTGTGTGTTTTGACAGTTCGG
62093198 AGTGTTACGGGAAATGAGTTCCGATTCAGTAAATTGTTTTGCTCTTTTATTCTTGCATACCGGAG
261 AGTGTTACGGGAAATGAGTTCCGATTCAGTAAATTGTTTTGCTCTTTTATTCTTGCATACCGGAG
62093263 AAGTCAGTACTTACGGTTTTTCTTTTGCACTATAGCATATTACAGGGCTGAGTTATAGTCCGGGT
326 AAGTCAGTACTTACGGTTTTTCTTTTGCACTATAGCATATTACAGGGCTGAGTTATAGTCCGGGT
62093328 TTGGTTCTTCGTTTACCAGTGTGGACTTAACAATAATTTTGGTAGTTTTAGCGTATGAAAATGAA
391 TTGGTTCTTCGTTTACCAGTGTGGACTTAACAATAATTTTGGTAGTTTTAGCGTATGAAAATGAA
62093393 AATATTTCAATACGAAAGGCCCCCGGGTTAAAAGCACTTCTGCTAAGCCCCTTTATGGCTGTGCG
456 AATATTTCAATACGAAAGGCCCCCGGGTTAAAAGCACTTCTGCTAAGCCCCTTTATGGCTGTGCG
62093458 ACTAGCTGTAATGTTAGAGCTTGCGACCATGGTACCGTGCTTTGTCTTTCCGTAAACCTTTACTA
521 ACTAGCTGTAATGTTAGAGCTTGCGACCATGGTACCGTGCTTTGTCTTTCCGTAAACCTTTACTA
62093523 ACTTAGCTTCCACATCATTCTAAATGACCAAGTCTAGTCATCACCATTGTTTCCCGTGCAAGTCA
586 ACTTAGCTTCCACATCATTCTAAATGACCAAGTCTAGTCATCACCATTGTTTCCCGTGCAAGTCA
62093588 CCCCCGTTTCCATCTTCTATTCGGTTATATATCCAAAATTTTTCAACA-CCCCCCGGAATGGCTG
651 CCCCCGTTTCCATCTTCTATTCGGTTATATATCCAAAATTTTTCAACACCCCCCCGGAATGGCTG
62093652 AGTGATTCCTCTGTTTGGTTTCTGCTGTAGCTTTGTCCGACTCCAGGGCACGTATGTGGTACTTA
716 AGTGATTCCTCTGTTTGGTTTCTGCTGTAGCTTTGTCCGACTCCAGGGCACGTATGTGGTACTTA
62093717 TCTAATGTTGATGTTACCAGTGTCGTTGTCTGGCTTGGGTTTGGTTGCCCTGGTTTAATAGCATG
781 TCTAATGTTGATGTTACCAGTGTCGTTGTCTGGCTTGGGTTTGGTTGCCCTGGTTTAATAGCATG
62093782 TAATGCTACTATGTTTTAGGGACGATGGCTAATGGAGCGACTCGAGTTAGAAATAAAATTTGTTT
846 TAATGCTACTATGTTTTAGGGACGATGGCTAATGGAGCGACTCGAGTTAGAAATAAAATTTGTTT
62093847 TGATTCTATGCTTCTTATGCTTCTTTTTATGTTATTTTCTGAAGTTCTCTTTTCATGCCAATAGG
911 TGATTCTATGCTTCTTATGCTTCTTTTTATGTTATTTTCTGAAGTTCTCTTTTCATGCCAATAGG
62093912 TACCGAGCC
976 TACCGAGCC
62093921 ATAATTTAGGTTACTTGTGTGAGTTCTATAACGATATGGTTTTACGAGAATCCCGATGAACTTCA
1 ATAATTTAGGTTACTTGTGTGAGTTCTATAACGATATGGTTTTACGAGAATCCCGATGAACTTCA
62093986 CCAATTGTGTCTCTATAAGTGCATAAAATTGCTAGTCCAGTGTTTAGCATCAAATCTCGTTCAGT
66 CCAATTGTGTCTCTATAAGTGCATAAAATTGCTAGTCCAGTGTTTAGCATCAAATCTCGTTCAGT
62094051 ATTTCAGGTTGTCGCAGGGAACTTGTAGCTATGGTTCGGTTTAATTTGTTACTGGAAGAAATGGC
131 ATTTCAGGTTGTCGCAGGGAACTTGTAGCTATGGTTCGGTTTAATTTGTTACTGGAAGAAATGGC
62094116 TTGAACAAGTAAATAGATGTTAAGTTGTTGGAATATTTTACTCATTGTGTGTTTTGACAGTTCGG
196 TTGAACAAGTAAATAGATGTTAAGTTGTTGGAATATTTTACTCATTGTGTGTTTTGACAGTTCGG
62094181 AGTGTTACGGGAAATGAGTTCCGATTCAGTAAATTGTTTTGCTCTTTTATTCTTGCATACCGGAG
261 AGTGTTACGGGAAATGAGTTCCGATTCAGTAAATTGTTTTGCTCTTTTATTCTTGCATACCGGAG
62094246 AAGTCAGTACTTACGGTTTTTCTTTTGCACTATAGCATATTACAGGGCTGAGTTATAGTCCGGGT
326 AAGTCAGTACTTACGGTTTTTCTTTTGCACTATAGCATATTACAGGGCTGAGTTATAGTCCGGGT
62094311 TTGGTTCTTCGTTTACCAGTGTGGACTTAACAATAATTTTGGTAGTTTTAGCGTATGAAAATGAA
391 TTGGTTCTTCGTTTACCAGTGTGGACTTAACAATAATTTTGGTAGTTTTAGCGTATGAAAATGAA
62094376 AATATTTCAATACGAAAGGCCCCCGGGTTAAAAGCACTTCTGCTAAGCCCCTTTATGGCTGTGCG
456 AATATTTCAATACGAAAGGCCCCCGGGTTAAAAGCACTTCTGCTAAGCCCCTTTATGGCTGTGCG
62094441 ACTAGCTGTAATGTTAGAGCTTGCGACCATGGTACCGTGCTTTGTCTTTCCGTAAACCTTTACTA
521 ACTAGCTGTAATGTTAGAGCTTGCGACCATGGTACCGTGCTTTGTCTTTCCGTAAACCTTTACTA
62094506 ACTTAGCTTCCACATCATTCTAAATGACCAAGTCTAGTCATCACCATTGTTTCCCGTGCAAGTCA
586 ACTTAGCTTCCACATCATTCTAAATGACCAAGTCTAGTCATCACCATTGTTTCCCGTGCAAGTCA
62094571 CCCCCGTTTCCATCTTCTATTCGGTTATATATCCAAAATTTTTCAACACCCCCCCGGAATGGCTG
651 CCCCCGTTTCCATCTTCTATTCGGTTATATATCCAAAATTTTTCAACACCCCCCCGGAATGGCTG
62094636 AGTGATTCCTCTGTTTGGTTTCTGCTGTAGCTTTGTCCGACTCCAGGGCACGTATGTGGTACTTA
716 AGTGATTCCTCTGTTTGGTTTCTGCTGTAGCTTTGTCCGACTCCAGGGCACGTATGTGGTACTTA
62094701 TCTAATGTTGATGTTACCAGTGTCGTTGTCTGGCTTGGGTTTGGTTGCCCTGGTTTAATAGCATG
781 TCTAATGTTGATGTTACCAGTGTCGTTGTCTGGCTTGGGTTTGGTTGCCCTGGTTTAATAGCATG
62094766 TAATGCTACTATGTTTTAGGGACGATGGCTAATGGAGCGACTCGAGTTAGAAATAAAATTTGTTT
846 TAATGCTACTATGTTTTAGGGACGATGGCTAATGGAGCGACTCGAGTTAGAAATAAAATTTGTTT
62094831 TGATTCTATGCTTCTTATGCTTCTTTTTATGTTATTTTCTGAAGTTCTCTTTTCATGCCAATAGG
911 TGATTCTATGCTTCTTATGCTTCTTTTTATGTTATTTTCTGAAGTTCTCTTTTCATGCCAATAGG
62094896 TACCGAGCC
976 TACCGAGCC
62094905 ATAATTTAGGTTACTTGTGTGAGTTCTATAACGATATGGTTTTACGAGAATCCCGATGAACTTCA
1 ATAATTTAGGTTACTTGTGTGAGTTCTATAACGATATGGTTTTACGAGAATCCCGATGAACTTCA
62094970 CCAATTGTGTCTCTATAAGTGCATAAAATTGCTAGTCCAGTGTTTAGCATCAAATCTCGTTCAGT
66 CCAATTGTGTCTCTATAAGTGCATAAAATTGCTAGTCCAGTGTTTAGCATCAAATCTCGTTCAGT
62095035 ATTTCAGGTTGTCGCAGGGAACTTGTAGCTATGGTTCGGTTTAATTTGTTACTGGAAGAAATGGC
131 ATTTCAGGTTGTCGCAGGGAACTTGTAGCTATGGTTCGGTTTAATTTGTTACTGGAAGAAATGGC
62095100 TTGAACAAGTAAATAGATGTTAAGTTGTTGGAATATTTTACTCATTGTGTGTTTTGACAGTTCGG
196 TTGAACAAGTAAATAGATGTTAAGTTGTTGGAATATTTTACTCATTGTGTGTTTTGACAGTTCGG
62095165 AGTGTTACGGGAAATGAGTTCCGATTCAGTAAATTGTTTTGCTCTTTTATTCTTGCATACCGGAG
261 AGTGTTACGGGAAATGAGTTCCGATTCAGTAAATTGTTTTGCTCTTTTATTCTTGCATACCGGAG
62095230 AAGTCAGTACTTACGGTTTTTCTTTTGCACTATAGCATATTACAGGGCTGAGTTATAGTCCGGGT
326 AAGTCAGTACTTACGGTTTTTCTTTTGCACTATAGCATATTACAGGGCTGAGTTATAGTCCGGGT
62095295 TTGGTTCTTCGTTTACCAGTGTGGACTTAACAATAATTTTGGTAGTTTTAGCGTATGAAAATGAA
391 TTGGTTCTTCGTTTACCAGTGTGGACTTAACAATAATTTTGGTAGTTTTAGCGTATGAAAATGAA
62095360 AATATTTCAATACGAAAGGCCCCCGGGTTAAAAGCACTTCTGCTAAGCCCCTTTATGGCTGTGCG
456 AATATTTCAATACGAAAGGCCCCCGGGTTAAAAGCACTTCTGCTAAGCCCCTTTATGGCTGTGCG
62095425 ACTAGCTGTAATGTTAGAGCTTGCGACCATGGTACCGTGCTTTGTCTTTCCGTAAACCTTTACTA
521 ACTAGCTGTAATGTTAGAGCTTGCGACCATGGTACCGTGCTTTGTCTTTCCGTAAACCTTTACTA
62095490 ACTTAGCTTCCACATCATTCTAAATGACCAAGTCTAGTCATCACCATTGTTTCCCGTGCAAGTCA
586 ACTTAGCTTCCACATCATTCTAAATGACCAAGTCTAGTCATCACCATTGTTTCCCGTGCAAGTCA
62095555 CCCCCGTTTCCATCTTCTATTCGGTTATATATCCAAAATTTTTCAACACCCCCCCGGAATGGCTG
651 CCCCCGTTTCCATCTTCTATTCGGTTATATATCCAAAATTTTTCAACACCCCCCCGGAATGGCTG
62095620 AGTGATTCCTCTGTTTGGTTTCTGCTGTAGCTTTGTCCGACTCCAGGGCACGTATGTGGTACTTA
716 AGTGATTCCTCTGTTTGGTTTCTGCTGTAGCTTTGTCCGACTCCAGGGCACGTATGTGGTACTTA
62095685 TCTAATGTTGATGTTACCAGTGTCGTTGTCTGGCTTGGGTTTGGTTGCCCTGGTTTAATAGCATG
781 TCTAATGTTGATGTTACCAGTGTCGTTGTCTGGCTTGGGTTTGGTTGCCCTGGTTTAATAGCATG
62095750 TAATGCTACTATGTTTTAGGGACGATGGCTAATGGAGCGACTCGAGTTAGAAATAAAATTTGTTT
846 TAATGCTACTATGTTTTAGGGACGATGGCTAATGGAGCGACTCGAGTTAGAAATAAAATTTGTTT
62095815 TGATTCTATGCTTCTTATGCTTCTTTTTATGTTATTTTCTGAAGTTCTCTTTTCATGCCAATAGG
911 TGATTCTATGCTTCTTATGCTTCTTTTTATGTTATTTTCTGAAGTTCTCTTTTCATGCCAATAGG
62095880 TACCGAGCC
976 TACCGAGCC
62095889 ATAA
1 ATAA
62095893 CAAGTGCTTA
Statistics
Matches: 1971, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
983 698 0.35
984 1273 0.65
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (984 bp):
ATAATTTAGGTTACTTGTGTGAGTTCTATAACGATATGGTTTTACGAGAATCCCGATGAACTTCA
CCAATTGTGTCTCTATAAGTGCATAAAATTGCTAGTCCAGTGTTTAGCATCAAATCTCGTTCAGT
ATTTCAGGTTGTCGCAGGGAACTTGTAGCTATGGTTCGGTTTAATTTGTTACTGGAAGAAATGGC
TTGAACAAGTAAATAGATGTTAAGTTGTTGGAATATTTTACTCATTGTGTGTTTTGACAGTTCGG
AGTGTTACGGGAAATGAGTTCCGATTCAGTAAATTGTTTTGCTCTTTTATTCTTGCATACCGGAG
AAGTCAGTACTTACGGTTTTTCTTTTGCACTATAGCATATTACAGGGCTGAGTTATAGTCCGGGT
TTGGTTCTTCGTTTACCAGTGTGGACTTAACAATAATTTTGGTAGTTTTAGCGTATGAAAATGAA
AATATTTCAATACGAAAGGCCCCCGGGTTAAAAGCACTTCTGCTAAGCCCCTTTATGGCTGTGCG
ACTAGCTGTAATGTTAGAGCTTGCGACCATGGTACCGTGCTTTGTCTTTCCGTAAACCTTTACTA
ACTTAGCTTCCACATCATTCTAAATGACCAAGTCTAGTCATCACCATTGTTTCCCGTGCAAGTCA
CCCCCGTTTCCATCTTCTATTCGGTTATATATCCAAAATTTTTCAACACCCCCCCGGAATGGCTG
AGTGATTCCTCTGTTTGGTTTCTGCTGTAGCTTTGTCCGACTCCAGGGCACGTATGTGGTACTTA
TCTAATGTTGATGTTACCAGTGTCGTTGTCTGGCTTGGGTTTGGTTGCCCTGGTTTAATAGCATG
TAATGCTACTATGTTTTAGGGACGATGGCTAATGGAGCGACTCGAGTTAGAAATAAAATTTGTTT
TGATTCTATGCTTCTTATGCTTCTTTTTATGTTATTTTCTGAAGTTCTCTTTTCATGCCAATAGG
TACCGAGCC
Found at i:62096686 original size:39 final size:38
Alignment explanation
Indices: 62096637--62096745 Score: 137
Period size: 38 Copynumber: 2.8 Consensus size: 38
62096627 TGTTGTGGGC
62096637 ATGCCATAAGTCCCTGTACCTTTTTGTAAATTTATCATT
1 ATGCCATAAGTCCCTGTA-CTTTTTGTAAATTTATCATT
* * **
62096676 ATGTCATAAGTCCTTGTACTTTTTGTAAATTTATTTTT
1 ATGCCATAAGTCCCTGTACTTTTTGTAAATTTATCATT
* ** *
62096714 ATGCCATAAATTTCTGTATTTTTTGTAAATTT
1 ATGCCATAAGTCCCTGTACTTTTTGTAAATTT
62096746 GTCCTTTATT
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
38 44 0.73
39 16 0.27
ACGTcount: A:0.26, C:0.14, G:0.10, T:0.50
Consensus pattern (38 bp):
ATGCCATAAGTCCCTGTACTTTTTGTAAATTTATCATT
Found at i:62113131 original size:3 final size:3
Alignment explanation
Indices: 62113125--62113151 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
62113115 GAAGAAGAAA
62113125 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
62113152 GAAGATGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:62113267 original size:5 final size:5
Alignment explanation
Indices: 62113259--62113283 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
62113249 TACTTTTTTA
62113259 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
62113284 CTTTTTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:62113289 original size:15 final size:14
Alignment explanation
Indices: 62113247--62113289 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
62113237 ATTCCCTCTC
*
62113247 TTTACTTTTTTATAT
1 TTTA-TTTTTTTTAT
62113262 TTTATTTTATTTTAT
1 TTTATTTT-TTTTAT
62113277 TTTATTTCTTTTT
1 TTTATTT-TTTTT
62113290 TCTTTTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 4 0.16
15 20 0.80
16 1 0.04
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTATTTTTTTTAT
Found at i:62114149 original size:17 final size:18
Alignment explanation
Indices: 62114117--62114150 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
62114107 TCAATTAAAT
*
62114117 AAATATTTAAATATTTGA
1 AAATATTTAAAAATTTGA
62114135 AAATA-TTAAAAATTTG
1 AAATATTTAAAAATTTG
62114151 GTTCAATTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (18 bp):
AAATATTTAAAAATTTGA
Found at i:62118792 original size:40 final size:41
Alignment explanation
Indices: 62118748--62118828 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 41
62118738 AATAAACAAT
* * *
62118748 TTTAAATAAGCCT-ACACTTTATCTAAATAAAC-ATTTTTTA
1 TTTAAAAAACCCTAACA-TTTATCAAAATAAACAATTTTTTA
*
62118788 TTTAAAAAACCCTAACATTTGTCAAAATAAACAATTTTTTA
1 TTTAAAAAACCCTAACATTTATCAAAATAAACAATTTTTTA
62118829 AAATATAATC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 24 0.69
41 11 0.31
ACGTcount: A:0.43, C:0.15, G:0.02, T:0.40
Consensus pattern (41 bp):
TTTAAAAAACCCTAACATTTATCAAAATAAACAATTTTTTA
Found at i:62119163 original size:23 final size:23
Alignment explanation
Indices: 62119127--62119181 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
62119117 ATTTATTTTT
62119127 TTTAGAAATATTTATAAAAAAATA
1 TTTA-AAATATTTATAAAAAAATA
* *
62119151 CTTTAAAAT-TTTATCAAATAATA
1 -TTTAAAATATTTATAAAAAAATA
*
62119174 TTCAAAAT
1 TTTAAAAT
62119182 CCATAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.26
23 12 0.44
24 4 0.15
25 4 0.15
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (23 bp):
TTTAAAATATTTATAAAAAAATA
Found at i:62122071 original size:10 final size:9
Alignment explanation
Indices: 62122056--62122147 Score: 53
Period size: 9 Copynumber: 9.7 Consensus size: 9
62122046 ATAATAATCA
62122056 ATAAAAATT
1 ATAAAAATT
62122065 ATAAAAATT
1 ATAAAAATT
*
62122074 AT-TAAATT
1 ATAAAAATT
*
62122082 TTAAAAAATAT
1 AT-AAAAAT-T
* *
62122093 TTAAAAGTT
1 ATAAAAATT
*
62122102 ATTAAAATT
1 ATAAAAATT
*
62122111 AGAAAAAAAGTT
1 --ATAAAAA-TT
62122123 ATAAAAATCGT
1 ATAAAAAT--T
62122134 A-AAAAATT
1 ATAAAAATT
62122142 ATAAAA
1 ATAAAA
62122148 TATATAGAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 18
0.70 0.11 0.20
Matches are distributed among these distances:
8 8 0.12
9 23 0.36
10 21 0.33
11 10 0.16
12 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:62122079 original size:19 final size:20
Alignment explanation
Indices: 62122057--62122147 Score: 64
Period size: 20 Copynumber: 4.7 Consensus size: 20
62122047 TAATAATCAA
62122057 TAAAAATTATAAAAATTA-T
1 TAAAAATTATAAAAATTAGT
* * *
62122076 T--AAATTTTAAAAAATATT
1 TAAAAATTATAAAAATTAGT
* * *
62122094 TAAAAGTTATTAAAATTAGA
1 TAAAAATTATAAAAATTAGT
* *
62122114 AAAAAAGTTATAAAAA-TCGT
1 TAAAAA-TTATAAAAATTAGT
*
62122134 AAAAAATTATAAAA
1 TAAAAATTATAAAA
62122148 TATATAGAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
17 13 0.24
18 2 0.04
19 9 0.16
20 23 0.42
21 8 0.15
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (20 bp):
TAAAAATTATAAAAATTAGT
Found at i:62122089 original size:28 final size:29
Alignment explanation
Indices: 62122058--62122130 Score: 87
Period size: 28 Copynumber: 2.5 Consensus size: 29
62122048 AATAATCAAT
*
62122058 AAAAATTATAAAAATTATTAAATTTTA-AA
1 AAAAATTATAAAAATTATTAAA-ATTAGAA
* *
62122087 AAATATT-TAAAAGTTATTAAAATTAGAA
1 AAAAATTATAAAAATTATTAAAATTAGAA
62122115 AAAAAGTTATAAAAAT
1 AAAAA-TTATAAAAAT
62122131 CGTAAAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 3 0.08
28 19 0.53
29 8 0.22
30 6 0.17
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (29 bp):
AAAAATTATAAAAATTATTAAAATTAGAA
Found at i:62122097 original size:18 final size:17
Alignment explanation
Indices: 62122060--62122093 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
62122050 TAATCAATAA
*
62122060 AAATTATAAAAATTATT
1 AAATTATAAAAAATATT
*
62122077 AAATTTTAAAAAATATT
1 AAATTATAAAAAATATT
62122094 TAAAAGTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATTATAAAAAATATT
Found at i:62123158 original size:184 final size:186
Alignment explanation
Indices: 62122607--62123165 Score: 881
Period size: 186 Copynumber: 3.0 Consensus size: 186
62122597 AAATATTTCT
* *
62122607 ATTTTACAGACTCGGTTTACGAAAATAAAGTTCCGAAACCATTAAAAATTGAGTCATTACAATTT
1 ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTAAGTCATTACAATTT
*
62122672 TAATCGAATTTCTAACATACAGAGAAATCATTTTACTCACTGTAAAAAGCATTAGGGACCAACAT
66 TAATCGAATTTCTAACATACAGAGAAATCATTTTACTCACTGTAAAAAGCATTAGGGACCAAAAT
* **
62122737 ATAATACATGAGATGGGTACAATAATAAGAATAGGAGAAAGTGAGTGACAATGGCA
131 ATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTGAGTGACAAAAGCA
*
62122793 ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTGAA-CCATTACAATT
1 ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATT-AAGTCATTACAATT
* * *
62122857 TTAATCGAATTTCTAACATAGAGAAAAATCATTTTACTCACTATAAAAAGCATTAGGGACCAAAA
65 TTAATCGAATTTCTAACATACAGAGAAATCATTTTACTCACTGTAAAAAGCATTAGGGACCAAAA
* *
62122922 TATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAACTAAGTGACAAAAGCA
130 TATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTGAGTGACAAAAGCA
* * * * *
62122979 ATTTTACAAACTCGATTTAAGAAAATAAAGTTCCGAAACTATTGAAAATTAAGTCGTTACAATTT
1 ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTAAGTCATTACAATTT
** * * * *
62123044 TGGTCAAATTTCTAACATATAGAGAAAT-AATTT-CTCACTGTAAAAAGCATCAGGGACCAAAAT
66 TAATCGAATTTCTAACATACAGAGAAATCATTTTACTCACTGTAAAAAGCATTAGGGACCAAAAT
62123107 ATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTGAGTGACAAAAGCA
131 ATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTGAGTGACAAAAGCA
62123163 ATT
1 ATT
62123166 AGACAACCGT
Statistics
Matches: 343, Mismatches: 28, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
184 85 0.25
185 6 0.02
186 251 0.73
187 1 0.00
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (186 bp):
ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTAAGTCATTACAATTT
TAATCGAATTTCTAACATACAGAGAAATCATTTTACTCACTGTAAAAAGCATTAGGGACCAAAAT
ATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTGAGTGACAAAAGCA
Found at i:62124713 original size:333 final size:335
Alignment explanation
Indices: 62123906--62125401 Score: 1662
Period size: 333 Copynumber: 4.5 Consensus size: 335
62123896 TCTGCACATG
* *
62123906 GGTGCTTGGATTCGGGTGTGAGTGT--ACACAGGTGAGTTCAAAAAGGGTATTTTC--TGTGTTA
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACACA-GTGTGTTCAAAAAGGGTATTTTCTATGTATTA
* * * *
62123967 AGAGGATCTCTGGACGAT-AGTATTCCTATACTCGTGTTCAAGTTAGAGGTGTCTATGAGTTAGA
65 AAAGGATCTTTGGAAGATCA-TATTCCTATACTCGTGTTCAAGTCAGAGGTGTCTATGAGTTAGA
* * * * * *
62124031 CCTAG-TGAATGTGTAGTATCAACAATATATAGGTTTCATATTTTGGCCAAGTTCATTCTCAAGC
129 CCCAGCT-CATGTGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTCTCAGGC
* * * * *
62124095 TTAATATTTTTGTATAAATCTTCCCAAATA-CAGGGTGGGGCTTAGCACATAGGTCCTTGGACAG
193 TTAATATTTTTGTCTAAACCTTCCCAAATACCA-GGTGGGGCTTTGCTCATAGGTCCTTGGACAA
* * ** ** *
62124159 GTCTAGTTCAAGTATGTGTCAGACATGATTCCTGAAAGAAAAGCAAGGGGAACCGATAGCTTTTT
257 GTCTAGTTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGCAA-GGGAAGTGTTAGCTTTTT
* *
62124224 GGCTCCGGGTGCTAA
321 GGCTTCGGGTGCTAT
* * * * ** *
62124239 GGTACTTGGATTTGTGTGTAAGTGTGCACACAAACGTGTTAAAAAAGGGTGTATTTTCTATGTAT
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACAC-AGTGTGTTCAAAAA-GG-GTATTTTCTATGTAT
* * ** * * ** * * * *
62124304 TAATAGGATCTCTGGAAGATCATATTGTTATATTCGTGATCGGGTCTGAGGTGTCTAGGAGATGG
63 TAAAAGGATCTTTGGAAGATCATATTCCTATACTCGTGTTCAAGTCAGAGGTGTCTATGAGTTAG
* **
62124369 A-CCAGGCTCATGGGTAGCATCAACACTGCATAGGTCTCATATTTTGGCCAAGTTCATTCTCAGG
128 ACCCA-GCTCATGTGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTCTCAGG
* * * *
62124433 CTTTATA-TTATGTCTAAACCTTCCCAAATACCAGGTGGAGCTTTGCTCATGGGTCCTTGGACAA
192 CTTAATATTTTTGTCTAAACCTTCCCAAATACCAGGTGGGGCTTTGCTCATAGGTCCTTGGACAA
* * * * *
62124497 GTCTAGTACAAGTATGTGTCAGACACGATTA-TTGAAGAAAAG-AGGGGAAGTGTTAACTTTTTT
257 GTCTAGTTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGCAAGGGAAGTGTTAGCTTTTTG
* *
62124560 GCTTCGGGAGATAT
322 GCTTCGGGTGCTAT
* * * *
62124574 GGTGCTTGGGTTCGGGTGTGAGTGTGTACACGAGTGAGGTCAAAAAGGGTATTTTCTATGTATTA
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACAC-AGTGTGTTCAAAAAGGGTATTTTCTATGTATTA
* * * *** *
62124639 AAAAGATCTTTGGAAGATCATATTCCGATACTTGTGTTTGGGTCAGAGGTGTCTATGAGTTGGAC
65 AAAGGATCTTTGGAAGATCATATTCCTATACTCGTGTTCAAGTCAGAGGTGTCTATGAGTTAGAC
* * ***
62124704 CCAGCTCATGTGTAGCATTAACACTATATAGGTCTCATGTTTCCACCAAGTTCATTCTCAGGCTT
130 CCAGCTCATGTGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTCTCAGGCTT
* * * ** * * * *
62124769 GATATTTTTGTCTAAACCTTCTCGAATACTGGGTAGGGCTTTGGTCATGGGTCCTTGGA-AAGGA
195 AATATTTTTGTCTAAACCTTCCCAAATACCAGGTGGGGCTTTGCTCATAGGTCCTTGGACAA-GT
* *
62124833 CTAGTTCAAGTATGTGTCAGACACAATTACTTCAAGAAAAGCAAAGGTAAGTGTTAGCTTTTTGG
259 CTAGTTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGC-AAGGGAAGTGTTAGCTTTTTGG
* *
62124898 CTTCGAGTGTTAT
323 CTTCGGGTGCTAT
* * *
62124911 GGTGCTTGGATTCGGGTGTCAGTGTGCACACGGGTGTGTTC-GAAAGGGTATTTTCTATGTATTA
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACAC-AGTGTGTTCAAAAAGGGTATTTTCTATGTATTA
* * * * *
62124975 AGAGGAT-TTT--TAGATCATATTCCTATACTCGTGTTCAAATCAAAGGTATCTATGAGTTAGAC
65 AAAGGATCTTTGGAAGATCATATTCCTATACTCGTGTTCAAGTCAGAGGTGTCTATGAGTTAGAC
* * * *
62125037 CAAGCTCATATGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTATCAGGCCT
130 CCAGCTCATGTGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTCTCAGGCTT
62125102 AATATTTTTGTCTAAACCTTCCCAAATACC-GGTGGGGCTTTG-TACATAGGTCCTTGGACAAGT
195 AATATTTTTGTCTAAACCTTCCCAAATACCAGGTGGGGCTTTGCT-CATAGGTCCTTGGACAAGT
*
62125165 CTAGTTCAAGTATGTGT-TGTACACGATTACTTCAAGAAAAGCAAGGGAAGTGTTAGCTTTTTGG
259 CTAGTTCAAGTATGTGTCAG-ACACGATTACTTCAAGAAAAGCAAGGGAAGTGTTAGCTTTTTGG
62125229 CTTCGGGTGCTAT
323 CTTCGGGTGCTAT
* *
62125242 GGTGCTTGGATTCAGGTGTGAGTGTGCACACAGGTGTGTTCGAAAAGGGTATTTTCTATGTATTA
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACACA-GTGTGTTCAAAAAGGGTATTTTCTATGTATTA
* * * * * * * *
62125307 AAAGGATCTTTGAAAGATCATATTCCTGTACTCATGTTCAGGTTAGAGGTATCTATGTGTTGGAC
65 AAAGGATCTTTGGAAGATCATATTCCTATACTCGTGTTCAAGTCAGAGGTGTCTATGAGTTAGAC
*** ***
62125372 TGGGCTTGGGTGTAGCATCAACACTATATA
130 CCAGCTCATGTGTAGCATCAACACTATATA
62125402 TAATTTCTCA
Statistics
Matches: 969, Mismatches: 169, Indels: 48
0.82 0.14 0.04
Matches are distributed among these distances:
331 71 0.07
332 91 0.09
333 277 0.29
334 79 0.08
335 150 0.15
336 31 0.03
337 80 0.08
338 76 0.08
339 112 0.12
340 2 0.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (335 bp):
GGTGCTTGGATTCGGGTGTGAGTGTGCACACAGTGTGTTCAAAAAGGGTATTTTCTATGTATTAA
AAGGATCTTTGGAAGATCATATTCCTATACTCGTGTTCAAGTCAGAGGTGTCTATGAGTTAGACC
CAGCTCATGTGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTCTCAGGCTTA
ATATTTTTGTCTAAACCTTCCCAAATACCAGGTGGGGCTTTGCTCATAGGTCCTTGGACAAGTCT
AGTTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGCAAGGGAAGTGTTAGCTTTTTGGCTT
CGGGTGCTAT
Found at i:62125397 original size:668 final size:669
Alignment explanation
Indices: 62123906--62125401 Score: 1771
Period size: 672 Copynumber: 2.2 Consensus size: 669
62123896 TCTGCACATG
*
62123906 GGTGCTTGGATTCGGGTGTGAGTGT-ACACAGGTGAGTTCAAAAAGGGTATTTTC--TGTGTTAA
1 GGTGCTTGGATTCGGGTGTGAGTGTGACACAGGTGAGTTCAAAAAGGGTATTTTCTATGTATTAA
* * * * * *
62123968 GAGGATCTCTGGACGAT-AGTATTCCTATACTCGTGTTCAAGTTAGAGGTGTCTATGAGTTAGAC
66 AAGGATCTTTGGAAGATCA-TATTCCTGTACTCGTGTTCAGGTTAGAGGTGTCTATGAGTTGGA-
* ** * * * ***
62124032 CTAGTGAATGTGTAGTATCAACAATATATAGGTTTCATATTTTGGCCAAGTTCATTCTCAAGCTT
129 CT-GAGCTTGTGTAGCATCAACACTATATAGGTCTCATATTTCCACCAAGTTCATTCTCAAGCTT
* * * *
62124097 AATATTTTTGTATAAATCTTCCCAAATACAGGGTGGGGCTTAGCACATAGGTCCTTGGACAGGTC
193 AATATTTTTGTATAAACCTTCCCAAATACAGGGTAGGGCTTAGCACATAGGTCCTTGGAAAGGAC
** * *
62124162 TAGTTCAAGTATGTGTCAGACATGATTCCTGAAAGAAAAGCAAGGGGAACCGATAGCTTTTTGGC
258 TAGTTCAAGTATGTGTCAGACACAATTACTGAAAGAAAAGCAAAGGGAACCGATAGCTTTTTGGC
* * *
62124227 TCCGGGTGCTAAGGTACTTGGATTTGTGTGTAAGTGTGCACACAAACGTGTTAAAAAAGGGTGTA
323 TCCGAGTGCTAAGGTACTTGGATTCGGGTGTAAGTGTGCACACAAACGTGTTAAAAAAGGGTGTA
* ** * *** ** *
62124292 TTTTCTATGTATTAATAGGATCTCTGGAAGATCATATTGTTATATTCGTGATCGGGTCTGAGGTG
388 TTTTCTATGTATTAAGAGGATCTCTGGAAGATCATATTCCTATACTCGTGATCAAATCAAAGGTA
* * * *
62124357 TCTAGGAGATGGACCAGGCTCATGGGTAGCATCAACACTGCATAGGTCTCATATTTTGGCCAAGT
453 TCTAGGAGATAGACCAAGCTCATAGGTAGCATCAACACTACATAGGTCTCATATTTTGGCCAAGT
* * * *
62124422 TCATTCTCAGGCTTTATATTATGTCTAAACCTTCCCAAATACCAGGTGGAGCTTTGCTCATGGGT
518 TCATTATCAGGCCTAATATTATGTCTAAACCTTCCCAAATACCAGGTGGAGCTTTGCTCATAGGT
* *
62124487 CCTTGGACAAGTCTAGTACAAGTATGTGTCAGACACGATTATTGAAGAAAAGAGGGGAAGTGTTA
583 CCTTGGACAAGTCTAGTACAAGTATGTGTCAGACACGATTATTCAAGAAAAGAAGGGAAGTGTTA
*
62124552 ACTTTTTTGCTTCGGGAGATAT
648 ACTTTTTGGCTTCGGGAGATAT
* *
62124574 GGTGCTTGGGTTCGGGTGTGAGTGTGTACAC-GAGTGAGGTCAAAAAGGGTATTTTCTATGTATT
1 GGTGCTTGGATTCGGGTGTGAGTGTG-ACACAG-GTGAGTTCAAAAAGGGTATTTTCTATGTATT
* * ** *
62124638 AAAAAGATCTTTGGAAGATCATATTCC-GATACTTGTGTTTGGGTCAGAGGTGTCTATGAGTTGG
64 AAAAGGATCTTTGGAAGATCATATTCCTG-TACTCGTGTTCAGGTTAGAGGTGTCTATGAGTTGG
** * * *
62124702 ACCCAGCTCATGTGTAGCATTAACACTATATAGGTCTCATGTTTCCACCAAGTTCATTCTCAGGC
128 ACTGAGCT--TGTGTAGCATCAACACTATATAGGTCTCATATTTCCACCAAGTTCATTCTCAAGC
* * * * * * ** *
62124767 TTGATATTTTTGTCTAAACCTTCTCGAATACTGGGTAGGGCTTTGGTCATGGGTCCTTGGAAAGG
191 TTAATATTTTTGTATAAACCTTCCCAAATACAGGGTAGGGCTTAGCACATAGGTCCTTGGAAAGG
** * ** *
62124832 ACTAGTTCAAGTATGTGTCAGACACAATTACTTCAAGAAAAGCAAAGGTAAGTGTTAGCTTTTTG
256 ACTAGTTCAAGTATGTGTCAGACACAATTACTGAAAGAAAAGCAAAGGGAACCGATAGCTTTTTG
* * * * * **** **
62124897 GCTTCGAGTGTTATGGTGCTTGGATTCGGGTGTCAGTGTGCACACGGGTGTGTT-CGAAA-GG-G
321 GCTCCGAGTGCTAAGGTACTTGGATTCGGGTGTAAGTGTGCACACAAACGTGTTAAAAAAGGGTG
** *
62124959 TATTTTCTATGTATTAAGAGGAT-T-T-TTAGATCATATTCCTATACTCGTGTTCAAATCAAAGG
386 TATTTTCTATGTATTAAGAGGATCTCTGGAAGATCATATTCCTATACTCGTGATCAAATCAAAGG
* * * *
62125021 TATCTATGAGTTAGACCAAGCTCATATGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAA
451 TATCTAGGAGATAGACCAAGCTCATAGGTAGCATCAACACTACATAGGTCTCATATTTTGGCCAA
* *
62125086 GTTCATTATCAGGCCTAATATTTTTGTCTAAACCTTCCCAAATACC-GGTGGGGCTTTG-TACAT
516 GTTCATTATCAGGCCTAATA-TTATGTCTAAACCTTCCCAAATACCAGGTGGAGCTTTGCT-CAT
* *
62125149 AGGTCCTTGGACAAGTCTAGTTCAAGTATGTGT-TGTACACGATTACTTCAAGAAAAGCAAGGGA
579 AGGTCCTTGGACAAGTCTAGTACAAGTATGTGTCAG-ACACGATTA-TTCAAGAAAAG-AAGGGA
* * *
62125213 AGTGTTAGCTTTTTGGCTTCGGGTGCTAT
641 AGTGTTAACTTTTTGGCTTCGGGAGATAT
* * *
62125242 GGTGCTTGGATTCAGGTGTGAGTGTGCACACAGGTGTGTTCGAAAAGGGTATTTTCTATGTATTA
1 GGTGCTTGGATTCGGGTGTGAGTGTG-ACACAGGTGAGTTCAAAAAGGGTATTTTCTATGTATTA
* * * *
62125307 AAAGGATCTTTGAAAGATCATATTCCTGTACTCATGTTCAGGTTAGAGGTATCTATGTGTTGGAC
65 AAAGGATCTTTGGAAGATCATATTCCTGTACTCGTGTTCAGGTTAGAGGTGTCTATGAGTTGGAC
*
62125372 TGGGCTTGGGTGTAGCATCAACACTATATA
130 TGAGCTT--GTGTAGCATCAACACTATATA
62125402 TAATTTCTCA
Statistics
Matches: 691, Mismatches: 119, Indels: 36
0.82 0.14 0.04
Matches are distributed among these distances:
665 2 0.00
666 154 0.22
667 35 0.05
668 189 0.27
669 26 0.04
670 29 0.04
671 4 0.01
672 251 0.36
673 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (669 bp):
GGTGCTTGGATTCGGGTGTGAGTGTGACACAGGTGAGTTCAAAAAGGGTATTTTCTATGTATTAA
AAGGATCTTTGGAAGATCATATTCCTGTACTCGTGTTCAGGTTAGAGGTGTCTATGAGTTGGACT
GAGCTTGTGTAGCATCAACACTATATAGGTCTCATATTTCCACCAAGTTCATTCTCAAGCTTAAT
ATTTTTGTATAAACCTTCCCAAATACAGGGTAGGGCTTAGCACATAGGTCCTTGGAAAGGACTAG
TTCAAGTATGTGTCAGACACAATTACTGAAAGAAAAGCAAAGGGAACCGATAGCTTTTTGGCTCC
GAGTGCTAAGGTACTTGGATTCGGGTGTAAGTGTGCACACAAACGTGTTAAAAAAGGGTGTATTT
TCTATGTATTAAGAGGATCTCTGGAAGATCATATTCCTATACTCGTGATCAAATCAAAGGTATCT
AGGAGATAGACCAAGCTCATAGGTAGCATCAACACTACATAGGTCTCATATTTTGGCCAAGTTCA
TTATCAGGCCTAATATTATGTCTAAACCTTCCCAAATACCAGGTGGAGCTTTGCTCATAGGTCCT
TGGACAAGTCTAGTACAAGTATGTGTCAGACACGATTATTCAAGAAAAGAAGGGAAGTGTTAACT
TTTTGGCTTCGGGAGATAT
Found at i:62126901 original size:33 final size:33
Alignment explanation
Indices: 62126808--62126907 Score: 92
Period size: 33 Copynumber: 3.0 Consensus size: 33
62126798 CCCTTAGAGT
* *
62126808 TTTCAGACGACTGATCAACAGGTTTCGAATTAG
1 TTTCAGAAGACTGATCAACAGGTTCCGAATTAG
* ** * * *
62126841 CTTGTGAAGACTGGTCAGCAGGCTCCGAATTAG
1 TTTCAGAAGACTGATCAACAGGTTCCGAATTAG
* * * *
62126874 TTTCAGATGACTCATCATCAGGTTCCGATTTAG
1 TTTCAGAAGACTGATCAACAGGTTCCGAATTAG
62126907 T
1 T
62126908 CCCAGTTTCC
Statistics
Matches: 50, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (33 bp):
TTTCAGAAGACTGATCAACAGGTTCCGAATTAG
Found at i:62135258 original size:19 final size:19
Alignment explanation
Indices: 62135224--62135260 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
62135214 ATATGTGAAA
**
62135224 AAACAAATAAGTAATAAAT
1 AAACAAATAAAAAATAAAT
62135243 AAACAAATAAAAAATAAA
1 AAACAAATAAAAAATAAA
62135261 AAAAATTGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (19 bp):
AAACAAATAAAAAATAAAT
Found at i:62140201 original size:47 final size:47
Alignment explanation
Indices: 62140116--62140238 Score: 167
Period size: 47 Copynumber: 2.6 Consensus size: 47
62140106 CGTTTGTAGG
*
62140116 ACAAACGAACATCGAAAACATTATATGAGGTACCAGAAGCATGGACT
1 ACAACCGAACATCGAAAACATTATATGAGGTACCAGAAGCATGGACT
* * * *
62140163 ACAGCTGAACCA-CGAAAACATTATATGAGGTGCTAGAAGCATGGACT
1 ACAACCGAA-CATCGAAAACATTATATGAGGTACCAGAAGCATGGACT
* *
62140210 ACAACCGAACATTGAAAACATTTTATGAG
1 ACAACCGAACATCGAAAACATTATATGAG
62140239 ATCAATAGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 2 0.03
47 61 0.94
48 2 0.03
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.20
Consensus pattern (47 bp):
ACAACCGAACATCGAAAACATTATATGAGGTACCAGAAGCATGGACT
Found at i:62153606 original size:21 final size:21
Alignment explanation
Indices: 62153566--62153608 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
62153556 TTAATCAATT
*
62153566 TTCATATATAATATTGACATA
1 TTCATATATAATATTAACATA
62153587 TTCATATATAA-ATTAAACATA
1 TTCATATATAATATT-AACATA
62153608 T
1 T
62153609 AACCGTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (21 bp):
TTCATATATAATATTAACATA
Found at i:62159995 original size:23 final size:23
Alignment explanation
Indices: 62159969--62160012 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
62159959 TTTTGGGTGG
**
62159969 CAAATTCGGGCTTATATTTTTTT
1 CAAATTCGAACTTATATTTTTTT
62159992 CAAATTCGAACTTATATTTTT
1 CAAATTCGAACTTATATTTTT
62160013 ACTTAAACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.14, G:0.09, T:0.50
Consensus pattern (23 bp):
CAAATTCGAACTTATATTTTTTT
Found at i:62171560 original size:31 final size:31
Alignment explanation
Indices: 62171498--62171562 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
62171488 AATATATATT
* * **
62171498 TTAAATCAATATCAAAGTTTTATGTGAATAA
1 TTAAATCAAAATCAAAGTTCTACATGAATAA
* *
62171529 TTAAATCAAAATTAAAGTTCTACATGTATAA
1 TTAAATCAAAATCAAAGTTCTACATGAATAA
62171560 TTA
1 TTA
62171563 TGCAAATCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (31 bp):
TTAAATCAAAATCAAAGTTCTACATGAATAA
Found at i:62174965 original size:19 final size:19
Alignment explanation
Indices: 62174930--62174996 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 19
62174920 ATCTTTTGAG
62174930 GTTTGAGTTTGAAATTTAAA
1 GTTTGAGTTT-AAATTTAAA
62174950 GTTTGAGTTTAAATTTAACA
1 GTTTGAGTTTAAATTTAA-A
*
62174970 -TTTGAGATTCAAAATTTAAA
1 GTTTGAG-TT-TAAATTTAAA
*
62174990 TTTTGAG
1 GTTTGAG
62174997 GTTTCATATT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
19 14 0.33
20 14 0.33
21 14 0.33
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.45
Consensus pattern (19 bp):
GTTTGAGTTTAAATTTAAA
Found at i:62178670 original size:23 final size:24
Alignment explanation
Indices: 62178619--62178671 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
62178609 GCATAAGTTG
*
62178619 TGAA-TTTAATCTTTGTACTTTGA
1 TGAATTTTAATCTTTATACTTTGA
* *
62178642 TCAATTTTAATCTTTATACTTT-T
1 TGAATTTTAATCTTTATACTTTGA
62178665 TGAATTT
1 TGAATTT
62178672 GTCAATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.26, C:0.09, G:0.08, T:0.57
Consensus pattern (24 bp):
TGAATTTTAATCTTTATACTTTGA
Found at i:62180683 original size:19 final size:20
Alignment explanation
Indices: 62180645--62180683 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
62180635 TTATTATTCT
* *
62180645 TTTTTTTTATATTAATCATA
1 TTTTTTTAATATTAAACATA
62180665 TTTTTTTAATA-TAAACATA
1 TTTTTTTAATATTAAACATA
62180684 AATTTCTACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTTTAATATTAAACATA
Found at i:62181244 original size:105 final size:105
Alignment explanation
Indices: 62181054--62181260 Score: 315
Period size: 105 Copynumber: 2.0 Consensus size: 105
62181044 AGTCCAAATG
* * * * *
62181054 TCGTCTAGAGATCAATCTCGAGATTAATGTCAACTAAAAACTCGAATATATATCTTTTGTCATTT
1 TCGTCTAGAAATCAATCTCGAGACTAATATCAACTAAAAACTCGAACATATATCTTTTGTCACTT
* *
62181119 CACTTATGATTCTACCGACTCCTCGTACTTTCATTTAAGA
66 CACTTATGATTCAACCGACTCCTCATACTTTCATTTAAGA
* *
62181159 TCGTCTAGAAATCGATCTCGAGACTAATATCAATTAAAAACTCGAACATATATCTTTTGTCACTT
1 TCGTCTAGAAATCAATCTCGAGACTAATATCAACTAAAAACTCGAACATATATCTTTTGTCACTT
* *
62181224 CACTTGTGATTCAACTGACTCCTCATACTTTCATTTA
66 CACTTATGATTCAACCGACTCCTCATACTTTCATTTA
62181261 CCGCATGACG
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
105 91 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.37
Consensus pattern (105 bp):
TCGTCTAGAAATCAATCTCGAGACTAATATCAACTAAAAACTCGAACATATATCTTTTGTCACTT
CACTTATGATTCAACCGACTCCTCATACTTTCATTTAAGA
Found at i:62186144 original size:24 final size:26
Alignment explanation
Indices: 62186116--62186164 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
62186106 TATTAAAATT
*
62186116 TGTTTTTGCC-TT-TTTAAATATTGA
1 TGTTTTTACCATTCTTTAAATATTGA
62186140 TGTTTTTACCATTTCTTTAAATATT
1 TGTTTTTACCA-TTCTTTAAATATT
62186165 AAATAATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.43
26 2 0.10
27 10 0.48
ACGTcount: A:0.22, C:0.10, G:0.08, T:0.59
Consensus pattern (26 bp):
TGTTTTTACCATTCTTTAAATATTGA
Found at i:62192216 original size:7 final size:7
Alignment explanation
Indices: 62192204--62192238 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
62192194 CAAGAACTTC
62192204 AAATAAA
1 AAATAAA
62192211 AAATAAA
1 AAATAAA
62192218 AAATAAA
1 AAATAAA
62192225 AAATAAA
1 AAATAAA
*
62192232 AACTAAA
1 AAATAAA
62192239 TGCCAAGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (7 bp):
AAATAAA
Found at i:62195249 original size:36 final size:36
Alignment explanation
Indices: 62195202--62195277 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
62195192 TAGTTTCTAT
*
62195202 TTATAGGCATAAGAAGTAGAAATCTAATTTTAATAA
1 TTATAGGCATAAGAAGTAGAAATCTAATTCTAATAA
62195238 TTATAGGCATAAGAAGTAGAAATCTAATTCTAATAA
1 TTATAGGCATAAGAAGTAGAAATCTAATTCTAATAA
62195274 TTAT
1 TTAT
62195278 CAGAATTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (36 bp):
TTATAGGCATAAGAAGTAGAAATCTAATTCTAATAA
Found at i:62195351 original size:16 final size:16
Alignment explanation
Indices: 62195330--62195368 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
62195320 CAGAATCATA
62195330 TTTTTAACT-ATTTATT
1 TTTTTAA-TGATTTATT
62195346 TTTTTAATGATTTATT
1 TTTTTAATGATTTATT
*
62195362 TATTTAA
1 TTTTTAA
62195369 ATCGGATGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTTTAATGATTTATT
Found at i:62202879 original size:29 final size:26
Alignment explanation
Indices: 62202836--62202893 Score: 64
Period size: 30 Copynumber: 2.1 Consensus size: 26
62202826 TTGAACTATT
*
62202836 ATTTTTTATATTAATCGAAATAAATAATAC
1 ATTTTTTATACTAAT--AAA-AAATAA-AC
62202866 ATTTTTTA-ACTAATAAAAAATAAAC
1 ATTTTTTATACTAATAAAAAATAAAC
62202891 ATT
1 ATT
62202894 AGCAATGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 5 0.19
26 6 0.22
27 3 0.11
29 5 0.19
30 8 0.30
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (26 bp):
ATTTTTTATACTAATAAAAAATAAAC
Found at i:62206164 original size:28 final size:28
Alignment explanation
Indices: 62206124--62206181 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
62206114 CATTTCATTC
*
62206124 TTTTTCTTTTTTGAATA-TTTATAAACTT
1 TTTTTCTTCTTTGAATATTTTATAAA-TT
*
62206152 TTTTTGTTCTTTGAATATTTTATAAATT
1 TTTTTCTTCTTTGAATATTTTATAAATT
62206180 TT
1 TT
62206182 AGATTATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (28 bp):
TTTTTCTTCTTTGAATATTTTATAAATT
Found at i:62208222 original size:19 final size:19
Alignment explanation
Indices: 62208194--62208232 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
62208184 AATAAACACC
*
62208194 AAAAATTTATTTTAAAAAT
1 AAAAAATTATTTTAAAAAT
62208213 AAAAAATTATTTTAAAAAT
1 AAAAAATTATTTTAAAAAT
62208232 A
1 A
62208233 TTTTAAAATT
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAAATTATTTTAAAAAT
Found at i:62209207 original size:14 final size:14
Alignment explanation
Indices: 62209188--62209217 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
62209178 AAGTGTTATG
62209188 AGTGTTCAGGAGGA
1 AGTGTTCAGGAGGA
62209202 AGTGTTCAGGAGGA
1 AGTGTTCAGGAGGA
62209216 AG
1 AG
62209218 AAAGGTGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.43, T:0.20
Consensus pattern (14 bp):
AGTGTTCAGGAGGA
Found at i:62215781 original size:15 final size:15
Alignment explanation
Indices: 62215758--62215792 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
62215748 AATCATTTAT
*
62215758 TTCATTTCATTTCAA
1 TTCATTTCAATTCAA
*
62215773 TTCAATTCAATTCAA
1 TTCATTTCAATTCAA
62215788 TTCAT
1 TTCAT
62215793 ATATATAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (15 bp):
TTCATTTCAATTCAA
Found at i:62215810 original size:20 final size:19
Alignment explanation
Indices: 62215766--62215825 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
62215756 ATTTCATTTC
62215766 ATTTCAATTCAAT-T--CA
1 ATTTCAATTCAATATCACA
*
62215782 A-TTCAATTCATATAT-ATA
1 ATTTCAATTCA-ATATCACA
62215800 ATTTCACATTCAATATCACA
1 ATTTCA-ATTCAATATCACA
62215820 ATTTCA
1 ATTTCA
62215826 TTCCAATTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
15 9 0.25
16 3 0.08
17 1 0.03
18 2 0.06
19 8 0.22
20 13 0.36
ACGTcount: A:0.40, C:0.18, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTTCAATTCAATATCACA
Found at i:62228150 original size:12 final size:12
Alignment explanation
Indices: 62228133--62228158 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62228123 ATTATAGTTG
62228133 GTTTACGTTATC
1 GTTTACGTTATC
62228145 GTTTACGTTATC
1 GTTTACGTTATC
62228157 GT
1 GT
62228159 CATTTTGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.19, T:0.50
Consensus pattern (12 bp):
GTTTACGTTATC
Found at i:62228589 original size:31 final size:31
Alignment explanation
Indices: 62228549--62228619 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
62228539 AAATATTTCG
*
62228549 AATAGTTTAATGACCAAAACGTAGACTTATT
1 AATAGTTTAATGACCAAAACGTAAACTTATT
* ** *
62228580 AATAATTTAATGATGAAAACGTAAATTTATT
1 AATAGTTTAATGACCAAAACGTAAACTTATT
62228611 AATAGTTTA
1 AATAGTTTA
62228620 GTAATCTTGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (31 bp):
AATAGTTTAATGACCAAAACGTAAACTTATT
Found at i:62230422 original size:15 final size:15
Alignment explanation
Indices: 62230394--62230433 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
62230384 TTTTTATAAT
62230394 TAAATTTAAAATTAAA
1 TAAATTT-AAATTAAA
**
62230410 TAAATTTAAATTATT
1 TAAATTTAAATTAAA
62230425 TAAATTTAA
1 TAAATTTAA
62230434 TTCCAACCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAATTTAAATTAAA
Found at i:62235980 original size:15 final size:15
Alignment explanation
Indices: 62235960--62236009 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
62235950 TTCAGAGTCT
62235960 TCATCTCTTTCAACA
1 TCATCTCTTTCAACA
* *
62235975 TCATCTCTTTCCACC
1 TCATCTCTTTCAACA
*
62235990 TCATCTCTTTCAACT
1 TCATCTCTTTCAACA
62236005 TCATC
1 TCATC
62236010 AGCATCTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (15 bp):
TCATCTCTTTCAACA
Found at i:62239022 original size:31 final size:31
Alignment explanation
Indices: 62238984--62239048 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
62238974 AAATTATAAG
*
62238984 TCATGACTATAAAGGAGAAAGAAAATATTCA
1 TCATGACTAAAAAGGAGAAAGAAAATATTCA
62239015 TCATGACTAAAAAGGAGAAAGAAAATATTCA
1 TCATGACTAAAAAGGAGAAAGAAAATATTCA
62239046 TCA
1 TCA
62239049 CTTATGATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.52, C:0.11, G:0.15, T:0.22
Consensus pattern (31 bp):
TCATGACTAAAAAGGAGAAAGAAAATATTCA
Found at i:62239137 original size:73 final size:73
Alignment explanation
Indices: 62239049--62239197 Score: 298
Period size: 73 Copynumber: 2.0 Consensus size: 73
62239039 ATATTCATCA
62239049 CTTATGATTAAGGTCAGGACATCATTTGCAAAATATTCTTACTCTCAAGTATTCTTTCTGCAAAA
1 CTTATGATTAAGGTCAGGACATCATTTGCAAAATATTCTTACTCTCAAGTATTCTTTCTGCAAAA
62239114 ACTTTTGT
66 ACTTTTGT
62239122 CTTATGATTAAGGTCAGGACATCATTTGCAAAATATTCTTACTCTCAAGTATTCTTTCTGCAAAA
1 CTTATGATTAAGGTCAGGACATCATTTGCAAAATATTCTTACTCTCAAGTATTCTTTCTGCAAAA
62239187 ACTTTTGT
66 ACTTTTGT
62239195 CTT
1 CTT
62239198 CTTTCCATTT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (73 bp):
CTTATGATTAAGGTCAGGACATCATTTGCAAAATATTCTTACTCTCAAGTATTCTTTCTGCAAAA
ACTTTTGT
Found at i:62242680 original size:140 final size:143
Alignment explanation
Indices: 62242356--62242686 Score: 461
Period size: 145 Copynumber: 2.3 Consensus size: 143
62242346 TTCTTTTTCT
* * * *
62242356 TTTTTTTTTGTCTTTCATGATACAAATTACTAATTACTTAGCTGTAAATTTAATTTAAAAAGTGC
1 TTTTTTTTTGTCTTTCATGACACAATTTACTAATTGCTTAGCTATAAATTTAATTTAAAAAGTGC
* * * * * *
62242421 ATTTGTTAATTAGTAAAGCACGCCTTACCAGATACGTTTTTGTCTAACGTCAACCACCCAATTAG
66 ATTTGTTAACTAGAAAAGCACACCCTACCAGATACATTTTTGTCTAACGTCAACCACCCAATCAG
*
62242486 CGTTAAGGACTCTGG
131 CATTAAGGACTC--G
*
62242501 TTTTTTTTTGTCTTTCTTGACACAATTTACTAATTGCTTAGCTATAAATTTAATTTAAAAAGTGC
1 TTTTTTTTTGTCTTTCATGACACAATTTACTAATTGCTTAGCTATAAATTTAATTTAAAAAGTGC
* * * *
62242566 ATTTGTTAACTA-AAAAGTACACCCTACCAGATACATTTTTGTCTAATGTTAACCACTCAATCAG
66 ATTTGTTAACTAGAAAAGCACACCCTACCAGATACATTTTTGTCTAACGTCAACCACCCAATCAG
62242630 CATTAAGGAC-C-
131 CATTAAGGACTCG
* *
62242641 TTTTTTTTTATCTTTCATAACACAATTTACTAATTGCTTAGCTATA
1 TTTTTTTTTGTCTTTCATGACACAATTTACTAATTGCTTAGCTATA
62242687 TTCTAACTTA
Statistics
Matches: 167, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
140 43 0.26
143 1 0.01
144 52 0.31
145 71 0.43
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (143 bp):
TTTTTTTTTGTCTTTCATGACACAATTTACTAATTGCTTAGCTATAAATTTAATTTAAAAAGTGC
ATTTGTTAACTAGAAAAGCACACCCTACCAGATACATTTTTGTCTAACGTCAACCACCCAATCAG
CATTAAGGACTCG
Found at i:62243074 original size:24 final size:24
Alignment explanation
Indices: 62243044--62243097 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
62243034 ACTACTAAGT
*
62243044 TTGAAACTTGAAATTAGAGAAGAG
1 TTGAAACTTGAAATGAGAGAAGAG
62243068 TTGAAACTTGAAATGAGAGAAGAG
1 TTGAAACTTGAAATGAGAGAAGAG
*
62243092 CTGAAA
1 TTGAAA
62243098 AGAAGCAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.46, C:0.06, G:0.26, T:0.22
Consensus pattern (24 bp):
TTGAAACTTGAAATGAGAGAAGAG
Found at i:62261901 original size:42 final size:42
Alignment explanation
Indices: 62261854--62261936 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
62261844 AATATGTGTG
62261854 AAACGTTTGAAATTCAAACATTTGAACTATTATTCTTATCCA
1 AAACGTTTGAAATTCAAACATTTGAACTATTATTCTTATCCA
*
62261896 AAACGTTTGAAATTCAAACATTTGAACTATTGTTCTTATCC
1 AAACGTTTGAAATTCAAACATTTGAACTATTATTCTTATCC
62261937 CCTTGAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (42 bp):
AAACGTTTGAAATTCAAACATTTGAACTATTATTCTTATCCA
Found at i:62268918 original size:17 final size:17
Alignment explanation
Indices: 62268898--62268930 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
62268888 CAAATTCAAT
62268898 AAAGAAACAAA-AAAGAA
1 AAAGAAA-AAATAAAGAA
62268915 AAAGAAAAAATAAAGA
1 AAAGAAAAAATAAAGA
62268931 TTAATTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (17 bp):
AAAGAAAAAATAAAGAA
Found at i:62274567 original size:15 final size:15
Alignment explanation
Indices: 62274549--62274589 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
62274539 TGATGAAGTT
62274549 GAAAGAGATGAGGTG
1 GAAAGAGATGAGGTG
* *
62274564 GAAAGAGATGATGTT
1 GAAAGAGATGAGGTG
62274579 GAAAGAGATGA
1 GAAAGAGATGA
62274590 AGACTCTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.39, T:0.17
Consensus pattern (15 bp):
GAAAGAGATGAGGTG
Found at i:62276938 original size:22 final size:22
Alignment explanation
Indices: 62276910--62276961 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
62276900 TACAATTTTG
62276910 ATGTTGGTCTCACTCGAATGTC
1 ATGTTGGTCTCACTCGAATGTC
62276932 ATGTTGGTCTCACTCGAATGTC
1 ATGTTGGTCTCACTCGAATGTC
62276954 ATGTTGGT
1 ATGTTGGT
62276962 GTTGCAGCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.38
Consensus pattern (22 bp):
ATGTTGGTCTCACTCGAATGTC
Found at i:62277947 original size:18 final size:18
Alignment explanation
Indices: 62277905--62277939 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62277895 CCGAAGCTAG
*
62277905 TTATGAAGATGACGATGC
1 TTATGAAGATGACAATGC
*
62277923 TTATGAAGATGATAATG
1 TTATGAAGATGACAATG
62277940 GCTTTGAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (18 bp):
TTATGAAGATGACAATGC
Found at i:62286336 original size:12 final size:12
Alignment explanation
Indices: 62286321--62286359 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
62286311 ATGTATACGT
62286321 ATATCCATATCC
1 ATATCCATATCC
62286333 ATATCCATATCC
1 ATATCCATATCC
* *
62286345 ATATACATATAC
1 ATATCCATATCC
62286357 ATA
1 ATA
62286360 ACAGCTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.33
Consensus pattern (12 bp):
ATATCCATATCC
Found at i:62286342 original size:18 final size:18
Alignment explanation
Indices: 62286321--62286359 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
62286311 ATGTATACGT
* *
62286321 ATATCCATATCCATATCC
1 ATATCCATATACATATAC
62286339 ATATCCATATACATATAC
1 ATATCCATATACATATAC
62286357 ATA
1 ATA
62286360 ACAGCTCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.33
Consensus pattern (18 bp):
ATATCCATATACATATAC
Found at i:62294491 original size:22 final size:21
Alignment explanation
Indices: 62294456--62294497 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
62294446 TAAACTTTCA
*
62294456 AAATTTTAAAAAATTTTAATT
1 AAATTTTAAAAAATCTTAATT
62294477 AAATTTTCAAAAAATCTTAAT
1 AAATTTT-AAAAAATCTTAAT
62294498 AACATCTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATTTTAAAAAATCTTAATT
Found at i:62294684 original size:30 final size:29
Alignment explanation
Indices: 62294624--62294684 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
62294614 AATATTAAAA
* *
62294624 TTATACATAAAATTTAATTTTATGCAATT
1 TTATAAATAAAATTTAATTTGATGCAATT
* *
62294653 TTATAAATAAAATTTTGATTTGATTCAATT
1 TTATAAATAAAA-TTTAATTTGATGCAATT
62294683 TT
1 TT
62294685 CACAAATCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (29 bp):
TTATAAATAAAATTTAATTTGATGCAATT
Found at i:62303206 original size:31 final size:31
Alignment explanation
Indices: 62303147--62303206 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
62303137 TACAAAATGA
*
62303147 TCACTGAACTATTCAATAGTTTTCATTTAAG
1 TCACTGAACTATTCAATACTTTTCATTTAAG
*
62303178 TCACTGAACTATTCAGA-ACTTTTTATTTA
1 TCACTGAACTATTCA-ATACTTTTCATTTA
62303207 GGTCTTTGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (31 bp):
TCACTGAACTATTCAATACTTTTCATTTAAG
Found at i:62310924 original size:6 final size:6
Alignment explanation
Indices: 62310913--62310944 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
62310903 TGAATGTATG
*
62310913 ATATAC ATATAC AAATAC ATATAC ATATAC AT
1 ATATAC ATATAC ATATAC ATATAC ATATAC AT
62310945 GAAGTAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (6 bp):
ATATAC
Found at i:62320003 original size:43 final size:43
Alignment explanation
Indices: 62319950--62320048 Score: 171
Period size: 43 Copynumber: 2.3 Consensus size: 43
62319940 CGAAACGAAA
*
62319950 GAACAAAGAAAAGGGGAAGTTGGGTCTTGAAAGCTAACAAGAG
1 GAACAAAGAAAAGGAGAAGTTGGGTCTTGAAAGCTAACAAGAG
*
62319993 GAACAGAGAAAAGGAGAAGTTGGGTCTTGAAAGCTAACAAGAG
1 GAACAAAGAAAAGGAGAAGTTGGGTCTTGAAAGCTAACAAGAG
*
62320036 GCACAAAGAAAAG
1 GAACAAAGAAAAG
62320049 TTTTGGGGGG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.46, C:0.10, G:0.31, T:0.12
Consensus pattern (43 bp):
GAACAAAGAAAAGGAGAAGTTGGGTCTTGAAAGCTAACAAGAG
Found at i:62323177 original size:11 final size:11
Alignment explanation
Indices: 62323161--62323185 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
62323151 AACCAAAAGA
62323161 AAAATCAAACT
1 AAAATCAAACT
62323172 AAAATCAAACT
1 AAAATCAAACT
62323183 AAA
1 AAA
62323186 GAAAATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATCAAACT
Found at i:62331848 original size:15 final size:15
Alignment explanation
Indices: 62331825--62331854 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62331815 ATAGATCAGA
62331825 ATATAAATTTATTAT
1 ATATAAATTTATTAT
*
62331840 ATATTAATTTATTAT
1 ATATAAATTTATTAT
62331855 TTCATCATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATAAATTTATTAT
Found at i:62333210 original size:31 final size:30
Alignment explanation
Indices: 62333137--62333210 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
62333127 ATTATTTTTT
* * *
62333137 GGGGCCTAAACTTGTCAAATTTTTTATATT
1 GGGGCCTAAACTTGACAAATTTTTTAGATC
* *
62333167 GGGACCTGAACTTGAC-AATTGTTTCTAGATC
1 GGGGCCTAAACTTGACAAATT-TTT-TAGATC
62333198 GGGGCCTAAACTT
1 GGGGCCTAAACTT
62333211 TTTTTTATCC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
29 4 0.11
30 16 0.46
31 15 0.43
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.35
Consensus pattern (30 bp):
GGGGCCTAAACTTGACAAATTTTTTAGATC
Found at i:62334930 original size:18 final size:16
Alignment explanation
Indices: 62334908--62334939 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
62334898 ATCAATTATT
*
62334908 ATATATAAAAAGTATA
1 ATATATAAAAAATATA
62334924 ATATATAAAAAATATA
1 ATATATAAAAAATATA
62334940 TTCTATTCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
ATATATAAAAAATATA
Found at i:62340926 original size:23 final size:23
Alignment explanation
Indices: 62340900--62340945 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
62340890 GTCGGCAGAG
62340900 GTTGGTTCTTTATGACTGTTTTT
1 GTTGGTTCTTTATGACTGTTTTT
62340923 GTTGGTTCTTTATGACTGTTTTT
1 GTTGGTTCTTTATGACTGTTTTT
62340946 TGTTTACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.09, G:0.22, T:0.61
Consensus pattern (23 bp):
GTTGGTTCTTTATGACTGTTTTT
Found at i:62345806 original size:11 final size:11
Alignment explanation
Indices: 62345790--62345815 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
62345780 ATTTTTTTAA
62345790 TTTTAAAATAC
1 TTTTAAAATAC
62345801 TTTTAAAATAC
1 TTTTAAAATAC
62345812 TTTT
1 TTTT
62345816 TTTTTATTTT
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:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:62354487 original size:9 final size:9
Alignment explanation
Indices: 62354475--62354508 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
62354465 ACTTTTTATA
62354475 TTTTTAAAT
1 TTTTTAAAT
62354484 TTTTTATAAT
1 TTTTTA-AAT
62354494 TTTTTAAAT
1 TTTTTAAAT
*
62354503 TATTTA
1 TTTTTA
62354509 TTGACATGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:62354497 original size:19 final size:17
Alignment explanation
Indices: 62354467--62354509 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
62354457 TTTGATGAAC
62354467 TTTTTATATTTTTAAAT
1 TTTTTATATTTTTAAAT
62354484 TTTTTATAATTTTTTAAAT
1 TTTTTAT-A-TTTTTAAAT
*
62354503 TATTTAT
1 TTTTTAT
62354510 TGACATGGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 1 0.04
19 15 0.65
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTATATTTTTAAAT
Found at i:62355974 original size:29 final size:29
Alignment explanation
Indices: 62355940--62355995 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
62355930 GACCCTGTAC
62355940 ATTTTTAAAATTT-AGAATTTAGTCCCTAA
1 ATTTTT-AAATTTAAGAATTTAGTCCCTAA
**
62355969 ATTTTTATTTTTAAGAATTTAGTCCCT
1 ATTTTTAAATTTAAGAATTTAGTCCCT
62355996 CTACCTATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (29 bp):
ATTTTTAAATTTAAGAATTTAGTCCCTAA
Found at i:62361534 original size:14 final size:15
Alignment explanation
Indices: 62361511--62361544 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
62361501 GTTTATTTTG
62361511 TTTTGATTTTTGTTT
1 TTTTGATTTTTGTTT
62361526 TTTTG-TTTTTGTTT
1 TTTTGATTTTTGTTT
62361540 TTTTG
1 TTTTG
62361545 CAGGCAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (15 bp):
TTTTGATTTTTGTTT
Found at i:62371988 original size:19 final size:19
Alignment explanation
Indices: 62371964--62372024 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 19
62371954 TCTAATTAAG
62371964 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
62371983 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
* *
62372001 TAATAACTATATTTTAAAT
1 TAATAACTCTATTTTAATT
62372020 TAATA
1 TAATA
62372025 GAAATACCAG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:62371993 original size:18 final size:18
Alignment explanation
Indices: 62371972--62372024 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
62371962 AGTAATAACT
62371972 CTATTTTAATTTAATAAA
1 CTATTTTAATTTAATAAA
* *
62371990 CTATTCTCATTTAAT-AA
1 CTATTTTAATTTAATAAA
*
62372007 CTATATTTTAAATTAATA
1 C--TATTTTAATTTAATA
62372025 GAAATACCAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 3 0.11
18 13 0.48
19 11 0.41
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (18 bp):
CTATTTTAATTTAATAAA
Found at i:62372548 original size:27 final size:27
Alignment explanation
Indices: 62372512--62372596 Score: 127
Period size: 27 Copynumber: 3.2 Consensus size: 27
62372502 TTTTAATCCT
62372512 TTGGCA-CATTGGTGCCGCCAATGGCA
1 TTGGCACCATTGGTGCCGCCAATGGCA
*
62372538 TTGGCACCATTGGTGCTGCCAATGGCA
1 TTGGCACCATTGGTGCCGCCAATGGCA
* *
62372565 TTGGCACCTTTGATGCCGCCAATGGCA
1 TTGGCACCATTGGTGCCGCCAATGGCA
*
62372592 GTGGC
1 TTGGC
62372597 CTGATCAGGC
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 6 0.11
27 47 0.89
ACGTcount: A:0.18, C:0.27, G:0.31, T:0.25
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATGGCA
Found at i:62372691 original size:27 final size:27
Alignment explanation
Indices: 62372633--62372701 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
62372623 GTTTTTTTGG
**
62372633 TATATTTTGGTAAATAAAAAAAATTAT
1 TATATTTTGGTAAATAAAAAAAAGGAT
* * *
62372660 AATATTTTAGTAAATAAAAAAAGGGAT
1 TATATTTTGGTAAATAAAAAAAAGGAT
62372687 TATATTTTGGTAAAT
1 TATATTTTGGTAAAT
62372702 TTTTATTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (27 bp):
TATATTTTGGTAAATAAAAAAAAGGAT
Found at i:62374322 original size:6 final size:6
Alignment explanation
Indices: 62374311--62374346 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
62374301 ATTATAAACA
*
62374311 TTTTAT TTTTAT ATTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
62374347 AAATTTCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:62375874 original size:60 final size:60
Alignment explanation
Indices: 62375780--62375892 Score: 172
Period size: 60 Copynumber: 1.9 Consensus size: 60
62375770 CTAACTATGC
* * *
62375780 CCTTGCATAACAATGATTGATTGTTTCCATATGATCCTAGACTTAATTATTAGCGTACGA
1 CCTTGCATAACAATGATTAATTGCTTCCAGATGATCCTAGACTTAATTATTAGCGTACGA
* * *
62375840 CCTTGGATAACAATGATTAATTGCTTCTAGATGATTCTAGACTTAATTATTAG
1 CCTTGCATAACAATGATTAATTGCTTCCAGATGATCCTAGACTTAATTATTAG
62375893 TGTAAACTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (60 bp):
CCTTGCATAACAATGATTAATTGCTTCCAGATGATCCTAGACTTAATTATTAGCGTACGA
Found at i:62378137 original size:29 final size:30
Alignment explanation
Indices: 62378091--62378161 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 30
62378081 AAATATTTTT
* **
62378091 ATAATTTTAATA-AGTTTTATTTTTTAAAA
1 ATAATTTTTATATAGTTTTAAATTTTAAAA
**
62378120 ATAATTTTTATATTTTTTTAAATTTTAAAA
1 ATAATTTTTATATAGTTTTAAATTTTAAAA
62378150 ATTAATTATTTA
1 A-TAATT-TTTA
62378162 CTAACATGGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 11 0.32
30 14 0.41
31 5 0.15
32 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (30 bp):
ATAATTTTTATATAGTTTTAAATTTTAAAA
Found at i:62379838 original size:60 final size:60
Alignment explanation
Indices: 62379744--62379860 Score: 189
Period size: 60 Copynumber: 1.9 Consensus size: 60
62379734 CTAACTATGC
* * *
62379744 CCTTGCATAACAATGATTGATTGTTTCCATATGATCCTAGACTTAATTATTAGTGTACGG
1 CCTTGCATAACAATGATTAATTGCTTCCAGATGATCCTAGACTTAATTATTAGTGTACGG
* *
62379804 CCTTGGATAACAATGATTAATTGCTTCTAGATGATCCTAGACTTAATTATTAGTGTA
1 CCTTGCATAACAATGATTAATTGCTTCCAGATGATCCTAGACTTAATTATTAGTGTA
62379861 AACTCTAGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.38
Consensus pattern (60 bp):
CCTTGCATAACAATGATTAATTGCTTCCAGATGATCCTAGACTTAATTATTAGTGTACGG
Found at i:62381271 original size:12 final size:12
Alignment explanation
Indices: 62381250--62381285 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
62381240 CTAATAATTT
*
62381250 AATATAAATATA
1 AATATTAATATA
*
62381262 AATATTAATATT
1 AATATTAATATA
62381274 AATATTAATATA
1 AATATTAATATA
62381286 TATAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AATATTAATATA
Found at i:62381271 original size:18 final size:18
Alignment explanation
Indices: 62381248--62381292 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
62381238 CACTAATAAT
62381248 TTAATATAAATATAAATA
1 TTAATATAAATATAAATA
* *
62381266 TTAATATTAATATTAATA
1 TTAATATAAATATAAATA
62381284 -T-ATATAAAT
1 TTAATATAAAT
62381293 TTTATTTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 7 0.29
17 1 0.04
18 16 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATATAAATATAAATA
Found at i:62384035 original size:14 final size:14
Alignment explanation
Indices: 62384008--62384042 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
62383998 TGGTATAGTG
62384008 AAAAAAATTGGAAA
1 AAAAAAATTGGAAA
62384022 AATAAAAATT-GAAA
1 AA-AAAAATTGGAAA
62384036 AAAAAAA
1 AAAAAAA
62384043 GAAAATGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 5 0.25
14 8 0.40
15 7 0.35
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (14 bp):
AAAAAAATTGGAAA
Found at i:62385751 original size:16 final size:17
Alignment explanation
Indices: 62385722--62385755 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
62385712 ATAAATTTTA
*
62385722 GTTTTTTCCTCAAAAAT
1 GTTTTGTCCTCAAAAAT
62385739 GTTTTGTCC-CAAAAAT
1 GTTTTGTCCTCAAAAAT
62385755 G
1 G
62385756 CTTCTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (17 bp):
GTTTTGTCCTCAAAAAT
Found at i:62386970 original size:17 final size:17
Alignment explanation
Indices: 62386944--62386997 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
62386934 AAATATATTT
*
62386944 ATTTTTAAATTTTTTTA
1 ATTTTAAAATTTTTTTA
62386961 ATTTTAAAATATTTTTTTA
1 ATTTT-AAA-ATTTTTTTA
*
62386980 A-TTTAAGAATATTTTTA
1 ATTTTAA-AATTTTTTTA
62386997 A
1 A
62386998 AATATTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 16 0.50
18 6 0.19
19 10 0.31
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
ATTTTAAAATTTTTTTA
Found at i:62386976 original size:19 final size:19
Alignment explanation
Indices: 62386952--62386995 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
62386942 TTATTTTTAA
62386952 ATTTTTTTAATTTTAA-AAT
1 ATTTTTTTAA-TTTAAGAAT
62386971 ATTTTTTTAATTTAAGAAT
1 ATTTTTTTAATTTAAGAAT
62386990 ATTTTT
1 ATTTTT
62386996 AAAATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTTTTAATTTAAGAAT
Found at i:62386998 original size:30 final size:31
Alignment explanation
Indices: 62386962--62387027 Score: 100
Period size: 30 Copynumber: 2.1 Consensus size: 31
62386952 ATTTTTTTAA
62386962 TTTTAAAATA-TTTTTTTAA-TTTAAGAATAT
1 TTTTAAAATATTTTTTTTAATTTTAA-AATAT
62386992 TTTTAAAATATTTTTTTTAATTTTTAAAATAT
1 TTTTAAAATATTTTTTTTAA-TTTTAAAATAT
62387024 TTTT
1 TTTT
62387028 TGGTATTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
30 10 0.30
31 9 0.27
32 9 0.27
33 5 0.15
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (31 bp):
TTTTAAAATATTTTTTTTAATTTTAAAATAT
Found at i:62387003 original size:11 final size:11
Alignment explanation
Indices: 62386981--62387027 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
62386971 ATTTTTTTAA
62386981 TTTAAGAATATT
1 TTTAA-AATATT
62386993 TTTAAAATATT
1 TTTAAAATATT
***
62387004 TTTTTTA-ATT
1 TTTAAAATATT
62387014 TTTAAAATATT
1 TTTAAAATATT
62387025 TTT
1 TTT
62387028 TGGTATTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
10 7 0.25
11 16 0.57
12 5 0.18
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TTTAAAATATT
Found at i:62387036 original size:20 final size:21
Alignment explanation
Indices: 62386990--62387043 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
62386980 ATTTAAGAAT
*
62386990 ATTTTTAAAATATTTTTTTTA
1 ATTTTTAAAATATTTTTTGTA
62387011 ATTTTTAAAATATTTTTTGGTA
1 ATTTTTAAAATATTTTTT-GTA
*
62387033 TTTTATTAAAA
1 ATTT-TTAAAA
62387044 AATAGCTGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 18 0.62
22 5 0.17
23 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
ATTTTTAAAATATTTTTTGTA
Found at i:62396165 original size:312 final size:312
Alignment explanation
Indices: 62395593--62396206 Score: 943
Period size: 313 Copynumber: 2.0 Consensus size: 312
62395583 CTTAAAACTG
* *
62395593 AAAATAAGATTTCCAAACATGGATAATCATCTTATTTTAATCGAAAAGAAAAAGCAAAAAATAAA
1 AAAATAAGATTTCCAAACATGGATAATCATCTCATTTTAATCAAAAAGAAAAAGCAAAAAAT--A
* * *
62395658 AATAATAAAATTCCTATTCTTAAGTAAGTGAAAAAAAACAACAACTTACATCTACTAAATTATCC
64 AATAATAAAATTCATATTCCTAAGTAAGTGAAAAAAAAAAACAACTTACATCTACTAAATTATCC
**
62395723 ATCGCAAACAACATAGACAAACTTTATGACTTCAAATTTCATAATTTCACTCAAACTTGCAGAGT
129 ATCGCAAACAACATAGACAAACTTTATGACTTCAAATTTCATAATTTCACTCAAACTTGCAGAAC
* * *
62395788 ATATTTAATTTTTAAGAATACATAGAGGTTAACAACTAATTTTCAACTCAAGTAAGTAAGGAAAT
194 ATATTTAATTTTTAACAATACATAGAGATTAACAACTAATTTTCAACTCAAGTAAGCAAGGAAAT
62395853 GACCATAAAAAAAAAT-ATGAAGAATGCAACAATAACGTATCATCTAAAATAAA
259 GACCATAAAAAAAAATAATGAAGAATGCAACAATAACGTATCATCTAAAATAAA
*
62395906 AAAATAAGATTTCCAAACATGGATAATGATCTCATTTTAATCAAAAAGAAAAAGC-AAAAAT-AA
1 AAAATAAGATTTCCAAACATGGATAATCATCTCATTTTAATCAAAAAGAAAAAGCAAAAAATAAA
*
62395969 TAA-AAAATTTCATATTCCTAATTAAGTGAAAAACAATTAATAAACAACTTACATCTACTAAATT
66 TAATAAAA-TTCATATTCCTAAGTAAGTG-AAAA-AA--AA-AAACAACTTACATCTACTAAATT
*
62396033 ATCCATCGCAAACAACATAGACAAACTTTATGACTTCAAA-TTCATAATTTCACT-GAACTTGCA
125 ATCCATCGCAAACAACATAGACAAACTTTATGACTTCAAATTTCATAATTTCACTCAAACTTGCA
* * *
62396096 GAACATATTTAATTTTTAACAATATATAGAGATTAACAACTAATTTTGAACTCAAGTAAGCATGG
190 GAACATATTTAATTTTTAACAATACATAGAGATTAACAACTAATTTTCAACTCAAGTAAGCAAGG
* * *
62396161 AAATGACGATCAACAAAAATAATGAAGAATGCAACAATAACGTATC
255 AAATGACCATAAAAAAAAATAATGAAGAATGCAACAATAACGTATC
62396207 GTATAAACTG
Statistics
Matches: 275, Mismatches: 19, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
308 4 0.01
309 22 0.08
310 4 0.01
311 2 0.01
312 88 0.32
313 93 0.34
314 62 0.23
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.28
Consensus pattern (312 bp):
AAAATAAGATTTCCAAACATGGATAATCATCTCATTTTAATCAAAAAGAAAAAGCAAAAAATAAA
TAATAAAATTCATATTCCTAAGTAAGTGAAAAAAAAAAACAACTTACATCTACTAAATTATCCAT
CGCAAACAACATAGACAAACTTTATGACTTCAAATTTCATAATTTCACTCAAACTTGCAGAACAT
ATTTAATTTTTAACAATACATAGAGATTAACAACTAATTTTCAACTCAAGTAAGCAAGGAAATGA
CCATAAAAAAAAATAATGAAGAATGCAACAATAACGTATCATCTAAAATAAA
Found at i:62398082 original size:40 final size:40
Alignment explanation
Indices: 62398028--62398129 Score: 170
Period size: 40 Copynumber: 2.5 Consensus size: 40
62398018 TAAATATATT
62398028 TATTTTTTAAAATTTTTAAAATTTTAAAATATTTTTAAAA
1 TATTTTTTAAAATTTTTAAAATTTTAAAATATTTTTAAAA
*
62398068 TATTTTTTAAAATTTTTTAAATTTTAAAATATTTTTAAAA
1 TATTTTTTAAAATTTTTAAAATTTTAAAATATTTTTAAAA
*
62398108 TACTTTTTT-TAATTTTTAAAAT
1 TA-TTTTTTAAAATTTTTAAAAT
62398130 AAATTTTTAG
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 52 0.90
41 6 0.10
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (40 bp):
TATTTTTTAAAATTTTTAAAATTTTAAAATATTTTTAAAA
Found at i:62398109 original size:11 final size:11
Alignment explanation
Indices: 62398028--62398115 Score: 86
Period size: 11 Copynumber: 8.6 Consensus size: 11
62398018 TAAATATATT
*
62398028 TATTTTTTAAA
1 TATTTTTAAAA
62398039 -ATTTTT-AAA
1 TATTTTTAAAA
62398048 -A-TTTTAAAA
1 TATTTTTAAAA
62398057 TATTTTTAAAA
1 TATTTTTAAAA
62398068 TATTTTTTAAAA
1 TA-TTTTTAAAA
62398080 T-TTTTT--AA
1 TATTTTTAAAA
62398088 -A-TTTTAAAA
1 TATTTTTAAAA
62398097 TATTTTTAAAA
1 TATTTTTAAAA
62398108 TACTTTTT
1 TA-TTTTT
62398116 TTAATTTTTA
Statistics
Matches: 67, Mismatches: 0, Indels: 19
0.78 0.00 0.22
Matches are distributed among these distances:
7 4 0.06
8 6 0.09
9 9 0.13
10 13 0.19
11 20 0.30
12 15 0.22
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:62398136 original size:21 final size:21
Alignment explanation
Indices: 62398098--62398137 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
62398088 ATTTTAAAAT
**
62398098 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
62398119 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
62398138 AGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:62420349 original size:94 final size:93
Alignment explanation
Indices: 62420205--62420683 Score: 392
Period size: 94 Copynumber: 5.1 Consensus size: 93
62420195 AGTCTCAAAG
**
62420205 AAAGAAAAACAGCGGGGAAAAAATCTAGATCCAGAAATTTGTTAATTTTC-AATTTTCCCCCTAA
1 AAAGAAAAACA-AAGGGAAAAAATCTAGATCCAGAAATTTGTTAATTTTCAAATTTTCCCCCTAA
62420269 TTTTCCCGTCTCAGAGAAAAATATTACTA
65 TTTTCCCGTCTCAGAGAAAAATATTACTA
* * * * * *
62420298 CAAGAAAAACAACAGGGAAAAGAATCGAAAGCCATAAATTTGTTAATTTTCAAAATTT-CCCCTA
1 AAAGAAAAACAA-AGGGAAAA-AATCTAGATCCAGAAATTTGTTAATTTTCAAATTTTCCCCCTA
*
62420362 ATTTTCCCGTCTCAGAGAAAAAATATTACCA
64 ATTTTCCCGTCTCAGAG-AAAAATATTACTA
** * * *
62420393 AAAGAAAAAC-AAGAAAAAAAAATACCCTAGATCCAGAATTTTGTTGATTTTC-GATTTTCCCCC
1 AAAGAAAAACAAAG-GGAAAAAAT---CTAGATCCAGAAATTTGTTAATTTTCAAATTTT-CCCC
*
62420456 CTAATTTTCCCGTCTTAGAGAAAAATA-T--T-
61 CTAATTTTCCCGTCTCAGAGAAAAATATTACTA
* ** * *
62420485 -AAGAAAAACATAA---AAAAAA--TAGATCCAGAAATCTGTTGGTTTTCGATTTTTCCCCCTAA
1 AAAGAAAAACA-AAGGGAAAAAATCTAGATCCAGAAATTTGTTAATTTTCAAATTTTCCCCCTAA
* *
62420544 TTTTCCCGTCTTAGACAAAAATATTACTA
65 TTTTCCCGTCTCAGAGAAAAATATTACTA
** * * *
62420573 AAAGAAAAACATGAAGAAAAAAAAAACCTCTAGATCCAGAAATCTGTTGATTTTCGAAATTTTTT
1 AAAGAAAAACA--AAG--GGAAAAAA--TCTAGATCCAGAAATTTGTTAATTTTC-AAA-TTTTC
* * * * *
62420638 TCCCTAATTTTCTCGTCCCAGAAAAATAAATATTACCA
58 CCCCTAATTTTCCCGTCTCAG-AGAA-AAATATTACTA
62420676 AAAGAAAA
1 AAAGAAAA
62420684 TATCAATGAT
Statistics
Matches: 315, Mismatches: 39, Indels: 54
0.77 0.10 0.13
Matches are distributed among these distances:
84 52 0.17
85 5 0.02
87 1 0.00
89 16 0.05
90 2 0.01
91 9 0.03
93 24 0.08
94 53 0.17
95 37 0.12
96 27 0.09
97 22 0.07
99 24 0.08
100 1 0.00
101 21 0.07
102 3 0.01
103 18 0.06
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (93 bp):
AAAGAAAAACAAAGGGAAAAAATCTAGATCCAGAAATTTGTTAATTTTCAAATTTTCCCCCTAAT
TTTCCCGTCTCAGAGAAAAATATTACTA
Found at i:62420579 original size:101 final size:102
Alignment explanation
Indices: 62420474--62420683 Score: 246
Period size: 101 Copynumber: 2.1 Consensus size: 102
62420464 CCCGTCTTAG
* * *
62420474 AGAAAAATATTAAGAAAAACATAAAAAAAATAGATCCAGAAATCTGTTGGTTTTCG-ATTTTTCC
1 AGAAAAACATGAAGAAAAA-A-AAAAAAAATAGATCCAGAAATCTGTTGATTTTCGAATTTTTCC
** * *
62420538 CCCTAATTTTCCCGTCTTAG-ACAA-AAATATTACTAAA
64 CCCTAATTTTCCCGTCCCAGAAAAATAAATATTACCAAA
**** **
62420575 AGAAAAACATGAAGAAAAAAAAAACCTCTAGATCCAGAAATCTGTTGATTTTCGAAATTTTTTTC
1 AGAAAAACATGAAGAAAAAAAAAAAAAATAGATCCAGAAATCTGTTGATTTTCG-AATTTTTCCC
*
62420640 CCTAATTTTCTCGTCCCAGAAAAATAAATATTACCAAA
65 CCTAATTTTCCCGTCCCAGAAAAATAAATATTACCAAA
62420678 AGAAAA
1 AGAAAA
62420684 TATCAATGAT
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
99 29 0.32
100 1 0.01
101 40 0.44
102 3 0.03
103 18 0.20
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (102 bp):
AGAAAAACATGAAGAAAAAAAAAAAAAATAGATCCAGAAATCTGTTGATTTTCGAATTTTTCCCC
CTAATTTTCCCGTCCCAGAAAAATAAATATTACCAAA
Found at i:62422506 original size:9 final size:9
Alignment explanation
Indices: 62422492--62422531 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
62422482 GCAGTGATTC
62422492 AATTCGGTT
1 AATTCGGTT
*
62422501 AATTCGGGT
1 AATTCGGTT
*
62422510 AATCCGGTT
1 AATTCGGTT
62422519 AATTCGGTT
1 AATTCGGTT
62422528 AATT
1 AATT
62422532 TTTAACCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:62424035 original size:2 final size:2
Alignment explanation
Indices: 62424023--62424061 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
62424013 ATTATTTATG
*
62424023 CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
62424062 ACACAGTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:62424985 original size:97 final size:98
Alignment explanation
Indices: 62424850--62425026 Score: 268
Period size: 97 Copynumber: 1.8 Consensus size: 98
62424840 TTCTAGTATG
62424850 ATTCAAATGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTT-GAAAT
1 ATTCAAATGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTTGGAAAT
62424914 TTGAATGTAGATTCTAACATGACTGTTTTTTTTT
66 TTG-ATGTAGATTCTAACATGACTGTTTTTTTTT
* * *** * *
62424948 ATTCAAATGGACTATTGA-TTTGGGCATCTGGGTAGTGTTAATTTTTTTATGGATTTTTGGAATT
1 ATTCAAATGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTTGGAAAT
62425012 TTGATGTAGATTCTA
66 TTGATGTAGATTCTA
62425027 GTATGATTCA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
97 47 0.66
98 24 0.34
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.45
Consensus pattern (98 bp):
ATTCAAATGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTTGGAAAT
TTGATGTAGATTCTAACATGACTGTTTTTTTTT
Found at i:62425047 original size:97 final size:98
Alignment explanation
Indices: 62424850--62425047 Score: 211
Period size: 97 Copynumber: 2.0 Consensus size: 98
62424840 TTCTAGTATG
62424850 ATTCAAATGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTTGAAATT
1 ATTCAAATGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTTGAAATT
********
62424915 TGAATGTAGATTCTAACATGACTGTTTTTTTTT
66 TGAATGTAGATTCTAACATGACTCAAACGGATT
* * *** * *
62424948 ATTCAAATGGACTATTGA-TTTGGGCATCTGGGTAGTGTTAATTTTTTTATGGATTTTTGGAATT
1 ATTCAAATGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTT-GAAAT
** *
62425012 TTG-ATGTAGATTCTAGTATGATTCAAACGGATT
65 TTGAATGTAGATTCTAACATGACTCAAACGGATT
62425045 ATT
1 ATT
62425048 TATTTGGGCA
Statistics
Matches: 81, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
97 57 0.70
98 24 0.30
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (98 bp):
ATTCAAATGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTTGAAATT
TGAATGTAGATTCTAACATGACTCAAACGGATT
Found at i:62425060 original size:181 final size:180
Alignment explanation
Indices: 62424782--62425109 Score: 496
Period size: 181 Copynumber: 1.8 Consensus size: 180
62424772 GCAAATTTAG
*
62424782 TGATTTGGGCATCTGGGTAATGTTAATTTTGCGGGGATTATTGAAATTTGGATGTAGATTCTAGT
1 TGATTTGGGCATCTGGGTAATGTTAATTTTGCAGGGATTATTGAAATTTGGATGTAGATTCTAGT
*
62424847 ATGATTCAAATGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTTGAA
66 ATGATTCAAACGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTT-AA
* *
62424912 ATTTGAATGTAGATTCTAACATGACTGTTTTTTTTTATTCAAATGGACTAT
130 ATTTCAATCTAGATTCTAACATGACTGTTTTTTTTTATTCAAATGGACTAT
* ** * * * *
62424963 TGATTTGGGCATCTGGGTAGTGTTAATTTTTTTATGGATTTTTGGAATTTTGATGTAGATTCTAG
1 TGATTTGGGCATCTGGGTAATGTTAA-TTTTGCAGGGATTATTGAAATTTGGATGTAGATTCTAG
* * * *
62425028 TATGATTCAAACGGATTATTTA-TTTGGGCATCTGGGAAGTGTTAATTTTGCGATGGATTTTTAA
65 TATGATTCAAACGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTTAA
62425092 ATTTCAATCTAGATTCTA
130 ATTTCAATCTAGATTCTA
62425110 GCGTGAAACT
Statistics
Matches: 131, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
180 18 0.14
181 64 0.49
182 49 0.37
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.44
Consensus pattern (180 bp):
TGATTTGGGCATCTGGGTAATGTTAATTTTGCAGGGATTATTGAAATTTGGATGTAGATTCTAGT
ATGATTCAAACGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTTAAA
TTTCAATCTAGATTCTAACATGACTGTTTTTTTTTATTCAAATGGACTAT
Found at i:62430564 original size:29 final size:29
Alignment explanation
Indices: 62430517--62430574 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
62430507 TTTGATTCTT
* *
62430517 TTTAATAGTATAGGGACTAAATTGATCCA
1 TTTAATAATAGAGGGACTAAATTGATCCA
* *
62430546 TTTAATAATAGAGGTACTAATTTGATCCA
1 TTTAATAATAGAGGGACTAAATTGATCCA
62430575 ATCTCTGTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (29 bp):
TTTAATAATAGAGGGACTAAATTGATCCA
Found at i:62433520 original size:18 final size:20
Alignment explanation
Indices: 62433485--62433525 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
62433475 ATGTTACGTC
*
62433485 AAAAAAATGATTATAAAAAT
1 AAAAAAATGATTACAAAAAT
62433505 AAAAAAAT-ATT-CAAAAAT
1 AAAAAAATGATTACAAAAAT
62433523 AAA
1 AAA
62433526 TTATAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 3 0.15
20 8 0.40
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (20 bp):
AAAAAAATGATTACAAAAAT
Found at i:62435277 original size:14 final size:15
Alignment explanation
Indices: 62435243--62435274 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
62435233 AATTTTCTAT
62435243 AATT-AAAAACCCTA
1 AATTCAAAAACCCTA
62435257 AATTCAAAAACCCTA
1 AATTCAAAAACCCTA
62435272 AAT
1 AAT
62435275 CAATTCCCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (15 bp):
AATTCAAAAACCCTA
Found at i:62439705 original size:21 final size:20
Alignment explanation
Indices: 62439681--62439719 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
62439671 TTTGGAGATT
*
62439681 AAAACTTGGAATCTTTTTTAA
1 AAAAATTGG-ATCTTTTTTAA
*
62439702 AAAAATTGGGTCTTTTTT
1 AAAAATTGGATCTTTTTT
62439720 TTGGCAGGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (20 bp):
AAAAATTGGATCTTTTTTAA
Found at i:62440186 original size:188 final size:185
Alignment explanation
Indices: 62439816--62440593 Score: 1201
Period size: 192 Copynumber: 4.2 Consensus size: 185
62439806 ATTCCTCAAC
*
62439816 TAGCTGAAATTCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
1 TAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
*
62439881 GATAATTATGGATAATTTGATCAATATTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTT
66 GATAATTATGGATAATTTGATCAATTTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTT
*
62439946 CATATATATATATATATTAGAAGTTAGCTATGCCCTATATG--ATAAATTTTTTTTCTAT
131 C--ATATATATA-A-ATTAGAAGTTAGCTATGCCCT-TATGTAAGAAATTTTTTTTCTAT
*
62440004 TAGCTGAAATCCAAGAACAAATGGTTTCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
1 TAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
*
62440069 GATAATTATGGACAATTTGATCAAATTTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGT
66 GATAATTATGGATAATTTGATC-AATTTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGT
62440134 TCATATATA-AAATTAGAAGTTAGCTATGCCCTTATGTCAAGAAATTTTTTTTTCTAT
130 TCATATATATAAATTAGAAGTTAGCTATGCCCTTATGT-AAGAAA-TTTTTTTTCTAT
* * *
62440191 TAGCTGAAATTCAAGAACAAAT-G-ATATAT-TTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
1 TAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
* * *
62440253 GATAACTGTGGATAATTTGATCAATCTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTT
66 GATAATTATGGATAATTTGATCAATTTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTT
* * * *
62440318 CATATATA-AAATTAGAAGTTAGCTGTGCTCATAGGCCATCTGTAAAGAATTTTTTTTTCTAT
131 CATATATATAAATTAGAAGTTA-----GCT-AT-GCCCTTATGT-AAGAAATTTTTTTTCTAT
62440380 TAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
1 TAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
* *
62440445 GATAATTATGGATAATTTGGTCAATTTATTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTT
66 GATAATTATGGATAATTTGATCAATTTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTT
*
62440510 CATATATATAGATTAGAAGTTAGCTATGCCCTTATGTAAGAAATTTTTTTTCTAT
131 CATATATATAAATTAGAAGTTAGCTATGCCCTTATGTAAGAAATTTTTTTTCTAT
62440565 TAGCTGAAATCCAAGAACAAATGGTATCT
1 TAGCTGAAATCCAAGAACAAATGGTATCT
62440594 ATATAGATTA
Statistics
Matches: 543, Mismatches: 31, Indels: 35
0.89 0.05 0.06
Matches are distributed among these distances:
183 67 0.12
184 73 0.13
185 50 0.09
186 13 0.02
187 42 0.08
188 90 0.17
189 78 0.14
190 13 0.02
191 4 0.01
192 101 0.19
193 12 0.02
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (185 bp):
TAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
GATAATTATGGATAATTTGATCAATTTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTT
CATATATATAAATTAGAAGTTAGCTATGCCCTTATGTAAGAAATTTTTTTTCTAT
Found at i:62440536 original size:376 final size:371
Alignment explanation
Indices: 62439816--62440587 Score: 1234
Period size: 376 Copynumber: 2.1 Consensus size: 371
62439806 ATTCCTCAAC
* *
62439816 TAGCTGAAATTCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
1 TAGCTGAAATTCAAGAACAAAT-GTATATATCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
*
62439881 GATAATTATGGATAATTTGATCAATATTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTT
65 GATAACTATGGATAATTTGATCAATATTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTT
* *
62439946 CATATATATATATATATTAGAAGTTAGCTATGCCCTATATGATAAATTTTTTTTCTATTAGCTGA
130 CA-ATATATATATATATTAGAAGTTAGCTATGCCCCATATGAAAAATTTTTTTTCTATTAGCTGA
*
62440011 AATCCAAGAACAAATGGTTTCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTTGATAATT
194 AATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTTGATAATT
*
62440076 ATGGACAATTTGATCAAATTTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTTCATATA
259 ATGGACAATTTGATCAAATTTATTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTTCATATA
62440141 TAAAATTAGAAGTTAGCTATGCCCTTATGTCAAGAAATTTTTTTTTCTAT
324 TAAAATTAGAAGTTAGCTATGCCCTTATGT-AAGAAA-TTTTTTTTCTAT
62440191 TAGCTGAAATTCAAGAACAAATG-ATATAT-TTTCTTTCTGTTTTTGTTTATTAATTTTGATTTG
1 TAGCTGAAATTCAAGAACAAATGTATATATCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTTG
* *
62440254 ATAACTGTGGATAATTTGATCAATCTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTTC
66 ATAACTATGGATAATTTGATCAATATTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTTC
* *
62440319 -ATATATA-A-A-ATTAGAAGTTAGCTGTGCTCATAGGCCATCTGTAAAGAATTTTTTTTTCTAT
131 AATATATATATATATTAGAAGTTAGCTATGC-C-----CCATATG-AAA-AA-TTTTTTTTCTAT
62440380 TAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
187 TAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTT
* *
62440445 GATAATTATGGATAATTTGGTC-AATTTATTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGT
252 GATAATTATGGACAATTTGATCAAATTTATTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGT
*
62440509 TCATATATATAGATTAGAAGTTAGCTATGCCCTTATGTAAGAAATTTTTTTTCTAT
317 TCATATATA-AAATTAGAAGTTAGCTATGCCCTTATGTAAGAAATTTTTTTTCTAT
*
62440565 TAGCTGAAATCCAAGAACAAATG
1 TAGCTGAAATTCAAGAACAAATG
62440588 GTATCTATAT
Statistics
Matches: 372, Mismatches: 15, Indels: 21
0.91 0.04 0.05
Matches are distributed among these distances:
367 17 0.05
368 2 0.01
369 1 0.00
370 7 0.02
372 96 0.26
373 9 0.02
374 37 0.10
375 80 0.22
376 123 0.33
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (371 bp):
TAGCTGAAATTCAAGAACAAATGTATATATCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTTG
ATAACTATGGATAATTTGATCAATATTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTTC
AATATATATATATATTAGAAGTTAGCTATGCCCCATATGAAAAATTTTTTTTCTATTAGCTGAAA
TCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTTGATAATTAT
GGACAATTTGATCAAATTTATTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTTCATATATA
AAATTAGAAGTTAGCTATGCCCTTATGTAAGAAATTTTTTTTCTAT
Found at i:62440708 original size:122 final size:122
Alignment explanation
Indices: 62440491--62440715 Score: 423
Period size: 122 Copynumber: 1.8 Consensus size: 122
62440481 TGTTTTAAGA
* *
62440491 ATTTGAAGTTGTTTTAGTTCATATATATAGATTAGAAGTTAGCTATGCCCTTATGTAAGAAATTT
1 ATTTGAAGTTGTTTTAGTTCATACATATAGATTAGAAGTTAGCTATGCCCTTATATAAGAAATTT
62440556 TTTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCTATATAGATTAGAAGTTGTT
66 TTTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCTATATAGATTAGAAGTTGTT
*
62440613 ATTTGAAGTTGTTTTAGTTCATACATATAGATTAGAAGTTAGCTATGCCTTTATATAAGAAATTT
1 ATTTGAAGTTGTTTTAGTTCATACATATAGATTAGAAGTTAGCTATGCCCTTATATAAGAAATTT
62440678 TTTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCT
66 TTTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCT
62440716 TTCTTTCTTT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
122 100 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.41
Consensus pattern (122 bp):
ATTTGAAGTTGTTTTAGTTCATACATATAGATTAGAAGTTAGCTATGCCCTTATATAAGAAATTT
TTTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCTATATAGATTAGAAGTTGTT
Found at i:62440968 original size:181 final size:180
Alignment explanation
Indices: 62440613--62441020 Score: 667
Period size: 181 Copynumber: 2.2 Consensus size: 180
62440603 AGAAGTTGTT
* **
62440613 ATTTGAAGTTGTTTTAGTTCATACATATAGATTAGAAGTTAGCTATGCCTTTATATAAGAAATTT
1 ATTTGAAGTTGTTTTAGTTCAT--ATATAAATTAGAAGTTAGCTATGCCCATATATAAGAAATTT
62440678 TTTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAA
64 TTTTTCTATTAGCTGAAATCCAAGAACAAATGGTA---TTCTTTCTTTCTGTTTTTGTTTATTAA
62440743 TTTTGATTTGATAATTGTGGATAATTTGATCAATTGTTTTACTCTTGTTTTAAGA
126 TTTTGATTTGATAATTGTGGATAATTTGATCAATTGTTTTACTCTTGTTTTAAGA
*
62440798 ATTTGAAATTGTTTTAGTTCATATATAAATTAGAAGTTAGCTATGCCCATATATAAAGAAATTCT
1 ATTTGAAGTTGTTTTAGTTCATATATAAATTAGAAGTTAGCTATGCCCATATAT-AAGAAATT-T
62440863 TTTTTCTATTAGCTGAAATCCAAGAACAAATGGTA-TCTTTCTTTCTGTTTTTGTTTATTAATTT
64 TTTTTCTATTAGCTGAAATCCAAGAACAAATGGTATTCTTTCTTTCTGTTTTTGTTTATTAATTT
62440927 TGATTTGATAATTGTGGATAATTTGATCAATCT-TTTTACTCTTGTTTTAAGA
129 TGATTTGATAATTGTGGATAATTTGATCAAT-TGTTTTACTCTTGTTTTAAGA
* *
62440979 ATTTGAAGTTGTTTTTGTTCATTTATAAAGTTAGAAGTTAGC
1 ATTTGAAGTTGTTTTAGTTCATATATAAA-TTAGAAGTTAGC
62441021 GGTGCTCATA
Statistics
Matches: 212, Mismatches: 7, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
181 105 0.50
182 13 0.06
183 29 0.14
184 8 0.04
185 57 0.27
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (180 bp):
ATTTGAAGTTGTTTTAGTTCATATATAAATTAGAAGTTAGCTATGCCCATATATAAGAAATTTTT
TTTCTATTAGCTGAAATCCAAGAACAAATGGTATTCTTTCTTTCTGTTTTTGTTTATTAATTTTG
ATTTGATAATTGTGGATAATTTGATCAATTGTTTTACTCTTGTTTTAAGA
Found at i:62441826 original size:85 final size:84
Alignment explanation
Indices: 62441671--62441833 Score: 220
Period size: 85 Copynumber: 1.9 Consensus size: 84
62441661 TTTTTTCTGC
* ** * * *
62441671 TTTCTTTTCGTTGAAGTTTGCTAAGAAACACAATAGATTTCCTTTTAATGGAATATCGAAGGCAT
1 TTTCCTTTCGTTGAAGCATGCTAAGAAACACAATAGATTTCCTTTCAATGGAATATCAAAGCCAT
*
62441736 TGGAGGATTAGTTTATGCA
66 CGGAGGATTAGTTTATGCA
* *
62441755 TTTCCTTTCGTTGAAGCATGCATGAA-AAACATAATAGATTTCCTTTCGATGGAATATCAAAGCC
1 TTTCCTTTCGTTGAAGCATGC-T-AAGAAACACAATAGATTTCCTTTCAATGGAATATCAAAGCC
62441819 ATCGGAGGATTAGTT
64 ATCGGAGGATTAGTT
62441834 CGTAGGATGA
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 18 0.26
85 48 0.71
86 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.36
Consensus pattern (84 bp):
TTTCCTTTCGTTGAAGCATGCTAAGAAACACAATAGATTTCCTTTCAATGGAATATCAAAGCCAT
CGGAGGATTAGTTTATGCA
Found at i:62443881 original size:17 final size:17
Alignment explanation
Indices: 62443859--62443892 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
62443849 GTCAAGTGCC
62443859 CCTTTGTATGTTTGATG
1 CCTTTGTATGTTTGATG
62443876 CCTTTGTATGTTTGATG
1 CCTTTGTATGTTTGATG
62443893 ATCATGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.24, T:0.53
Consensus pattern (17 bp):
CCTTTGTATGTTTGATG
Found at i:62445511 original size:15 final size:16
Alignment explanation
Indices: 62445488--62445520 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
62445478 CAATTTTATT
62445488 AAATAAAAAT-ATATA
1 AAATAAAAATAATATA
*
62445503 AAATTAAAATAATATA
1 AAATAAAAATAATATA
62445519 AA
1 AA
62445521 TACATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATAAAAATAATATA
Found at i:62447229 original size:42 final size:41
Alignment explanation
Indices: 62447163--62447267 Score: 174
Period size: 41 Copynumber: 2.5 Consensus size: 41
62447153 TATTGTTTTC
62447163 TCTTAGCTTATTTTTGCATTTTTATTCAATTTCTGAAGTTAGT
1 TCTTAGCTTA-TTTTGCATTTTTATTCAATTT-TGAAGTTAGT
*
62447206 TCTTAGCTTATTTTGCATTTTTATTTAATTTTGAAGTTAGT
1 TCTTAGCTTATTTTGCATTTTTATTCAATTTTGAAGTTAGT
*
62447247 TCGTAGCTTATTTTGCATTTT
1 TCTTAGCTTATTTTGCATTTT
62447268 ATTACGAATT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
41 30 0.50
42 20 0.33
43 10 0.17
ACGTcount: A:0.20, C:0.10, G:0.12, T:0.57
Consensus pattern (41 bp):
TCTTAGCTTATTTTGCATTTTTATTCAATTTTGAAGTTAGT
Found at i:62451433 original size:54 final size:55
Alignment explanation
Indices: 62451291--62451436 Score: 160
Period size: 54 Copynumber: 2.7 Consensus size: 55
62451281 ATTTCTGGAG
* * * *
62451291 ATCA-AATTTCTAGAAGGGAATCAACCTTCACTCCCGGTAGGATGATTGCTCGAA
1 ATCAGAATTTCTAGAAGGGAATCAACCTTCACTTCTGATAGGATGATTACTCGAA
* * *
62451345 ATCAGAA-TTCTAGAAAGGAATCAACCTTCGCTTCTGATAGGATCG-TTAC-CATAA
1 ATCAGAATTTCTAGAAGGGAATCAACCTTCACTTCTGATAGGAT-GATTACTC-GAA
62451399 ATC-GAATTTCTAGAAGGGAATCAACC-TCTACTTCTGAT
1 ATCAGAATTTCTAGAAGGGAATCAACCTTC-ACTTCTGAT
62451437 GGGGTCATTA
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
53 6 0.08
54 69 0.88
55 3 0.04
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (55 bp):
ATCAGAATTTCTAGAAGGGAATCAACCTTCACTTCTGATAGGATGATTACTCGAA
Found at i:62454712 original size:9 final size:11
Alignment explanation
Indices: 62454684--62454710 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
62454674 AAATTTAAAC
62454684 AATATATTTTT
1 AATATATTTTT
62454695 AATATATTTTT
1 AATATATTTTT
62454706 AATAT
1 AATAT
62454711 TTATATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
AATATATTTTT
Found at i:62455548 original size:3 final size:3
Alignment explanation
Indices: 62455540--62455568 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
62455530 ATTGTTGCAT
62455540 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
62455569 GTCTCACATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:62459652 original size:174 final size:174
Alignment explanation
Indices: 62459362--62459816 Score: 712
Period size: 174 Copynumber: 2.6 Consensus size: 174
62459352 GTTATTTTCA
* *
62459362 GATGGAAATGAAATTGTATCGATTCGAAATGGTGAAGGTAAGCTTGTTAATACTAGTATATTCCA
1 GATGGAAATGAAATTGTATCGTTTCGAAATGGTGAAGGTAAGCTTGTTAATACTAGTATAATCCA
* * * *
62459427 TGTCTAGGAGCTCATGGAACTTGAAAACTTAATGTGTGATCCTTAATTCATTAAGTGCTCGAATC
66 TGTCTATGAGCTCATAGAACTTGAAAACTTAATGTGTAATCCTTAATTCATTAAGTGCTCAAATC
* *
62459492 AGTACTAAATTTGGTTGCAATTACCTCGTTGTCATTGTTTTCTT
131 AGTACTAAATTTGGTTGCAATAACCTCGTTGTCATTGTTTTCTC
* * * * *
62459536 GATGGAAATGAAATTGTTTTGTTTCGAAATGGTGAAGGTAAGCTTGTTGATACCAGTATACTCCA
1 GATGGAAATGAAATTGTATCGTTTCGAAATGGTGAAGGTAAGCTTGTTAATACTAGTATAATCCA
* *
62459601 TGTCTATGAGCTCATAGAACATGAAAACTTGATGTGTAATCCTTAATTCATTAAGTGCTCAAATC
66 TGTCTATGAGCTCATAGAACTTGAAAACTTAATGTGTAATCCTTAATTCATTAAGTGCTCAAATC
62459666 AGTACTAAATTTGGTTGCAATAACCTCGTTGTCATTGTTTTCTC
131 AGTACTAAATTTGGTTGCAATAACCTCGTTGTCATTGTTTTCTC
* * * *
62459710 AATGGAAACGAAATTGTATCGTTTCAAAATGGTGAATGTAAGCTTGTTAATACTAGTATAATCCA
1 GATGGAAATGAAATTGTATCGTTTCGAAATGGTGAAGGTAAGCTTGTTAATACTAGTATAATCCA
* * *
62459775 AGTATGTGAGCTCATAGAACTTGAAAACTTAATGTGTAATCC
66 TGTCTATGAGCTCATAGAACTTGAAAACTTAATGTGTAATCC
62459817 GGTAAAAGTA
Statistics
Matches: 253, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
174 253 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.35
Consensus pattern (174 bp):
GATGGAAATGAAATTGTATCGTTTCGAAATGGTGAAGGTAAGCTTGTTAATACTAGTATAATCCA
TGTCTATGAGCTCATAGAACTTGAAAACTTAATGTGTAATCCTTAATTCATTAAGTGCTCAAATC
AGTACTAAATTTGGTTGCAATAACCTCGTTGTCATTGTTTTCTC
Found at i:62470721 original size:20 final size:21
Alignment explanation
Indices: 62470681--62470721 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
62470671 AATTCATAAC
*
62470681 AAAAAATATATATTTATCATA
1 AAAAAATACATATTTATCATA
*
62470702 AAAAAATACCTATTTA-CATA
1 AAAAAATACATATTTATCATA
62470722 TATTATGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAAAATACATATTTATCATA
Found at i:62471002 original size:17 final size:17
Alignment explanation
Indices: 62470975--62471016 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
62470965 TATTTTTATT
62470975 TTTTATAATTTTAATG-AA
1 TTTT-TAATTTTAA-GAAA
*
62470993 TTTTTAATTTTCAGAAA
1 TTTTTAATTTTAAGAAA
62471010 TTTTTAA
1 TTTTTAA
62471017 AAATTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 17 0.77
18 4 0.18
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (17 bp):
TTTTTAATTTTAAGAAA
Found at i:62471002 original size:27 final size:29
Alignment explanation
Indices: 62470947--62471027 Score: 73
Period size: 26 Copynumber: 3.0 Consensus size: 29
62470937 ATTTTTCATG
*
62470947 TTTATAAATTTTAAAAAATATTTTTATTT
1 TTTATAAATTTTAAAAAATATTTTAATTT
**
62470976 TTTAT-AATTTTAATGAAT-TTTTAA-TT
1 TTTATAAATTTTAAAAAATATTTTAATTT
* * *
62471002 TTCAGAAATTTT-TAAAA-ATTTTAATT
1 TTTATAAATTTTAAAAAATATTTTAATT
62471028 GAAAATTCAA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
26 13 0.32
27 12 0.29
28 11 0.27
29 5 0.12
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (29 bp):
TTTATAAATTTTAAAAAATATTTTAATTT
Found at i:62479221 original size:8 final size:8
Alignment explanation
Indices: 62479208--62479286 Score: 50
Period size: 8 Copynumber: 9.1 Consensus size: 8
62479198 AATATTTATA
62479208 AAAATTTT
1 AAAATTTT
62479216 AAAATTTAT
1 AAAATTT-T
* *
62479225 ATATTTTT
1 AAAATTTT
62479233 AAAAAATTTT
1 --AAAATTTT
62479243 AAAATTTAT
1 AAAATTT-T
* *
62479252 AAAGAATAT
1 AAA-ATTTT
* *
62479261 ATAAAGTTA
1 A-AAATTTT
62479270 AAAATTTT
1 AAAATTTT
62479278 AAAATTTT
1 AAAATTTT
62479286 A
1 A
62479287 TAAAATAATA
Statistics
Matches: 54, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
8 29 0.54
9 15 0.28
10 10 0.19
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (8 bp):
AAAATTTT
Found at i:62479230 original size:26 final size:27
Alignment explanation
Indices: 62479199--62479252 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
62479189 AAAATTCAAA
62479199 ATATTTAT-AAAAATTTTAAAATTTAT
1 ATATTTATAAAAAATTTTAAAATTTAT
*
62479225 ATATTTTTAAAAAATTTTAAAATTTAT
1 ATATTTATAAAAAATTTTAAAATTTAT
62479252 A
1 A
62479253 AAGAATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
ATATTTATAAAAAATTTTAAAATTTAT
Found at i:62483933 original size:79 final size:79
Alignment explanation
Indices: 62483751--62484370 Score: 597
Period size: 81 Copynumber: 7.8 Consensus size: 79
62483741 TATTGTGTCT
* * * * * * *
62483751 AAAAAGCAAATATGATCGGAATTTACAATGAGATTGTTTAAAAAAACATCTTAAATGTGTGGTTC
1 AAAAAACAGATATGATCAGAATCTATAATGAGATTGTTCAAAAAAA-ATCTTAAATGGGTGGTTC
*
62483816 TAGACATTATGTAAA
65 TAGACATTGTGTAAA
* * * * * *
62483831 AAAAAACAG--ATGATTAGAATTTATAAAGAGATTGTTCAAAAAAAATCTTGAATGCGTGGTTCA
1 AAAAAACAGATATGATCAGAATCTATAATGAGATTGTTCAAAAAAAATCTTAAATGGGTGGTTCT
* *
62483894 AGATATTATGTAAA
66 AGACATTGTGTAAA
* * * *
62483908 AAAAAACAGATATGATTAAAATTTATAATTAGATTGTTCAAAAAATAATCTTAAATGGGTGGTTC
1 AAAAAACAGATATGATCAGAATCTATAATGAGATTGTTCAAAAAA-AATCTTAAATGGGTGG---
* *
62483973 TTCTAGGCATTGTGT-CA
62 TTCTAGACATTGTGTAAA
* * * *
62483990 AAAGAACATATATGATCAGAA-CTTATAATAAGATTGTTCAAAAAAAATCTTAAATGGATGGTTC
1 AAAAAACAGATATGATCAGAATC-TATAATGAGATTGTTCAAAAAAAATCTTAAATGGGTGGTTC
* *
62484054 TAGTCATTGTGTCAA
65 TAGACATTGTGTAAA
* * * * * * * * * *
62484069 AAAGAGCAGATATGATCAAAACCTATAATAATATTATTAAAAAAAAAACTCTTGAAT---TTGTT
1 AAAAAACAGATATGATCAGAATCTATAATGAGATTGTT-CAAAAAAAA-TCTTAAATGGGTGGTT
* *
62484131 CTAGGCATTGTGTCAA
64 CTAGACATTGTGTAAA
* * *
62484147 AAAATACATATATGATCAGAATCTATAATGAGATTGTTGAAAAAAAAAATCTTAAATGGGTGGTT
1 AAAAAACAGATATGATCAGAATCTATAATGAGATTGTT--CAAAAAAAATCTTAAATGGGTGGTT
* *
62484212 CTAGCCATTGTGTTAA
64 CTAGACATTGTGTAAA
* * * * *
62484228 AAATAGCAGATATGATCAAAACCTATAATGAGATTGTTCAAAAAAAATATCTTAAATGGGTGATT
1 AAAAAACAGATATGATCAGAATCTATAATGAGATTGTTC-AAAAAAA-ATCTTAAATGGGTGGTT
*
62484293 CTAGACGTTGTGTAAA
64 CTAGACATTGTGTAAA
* * *
62484309 AAAGAACAGATATGATCAGAATCTATGATGAGATTGTTCAAAAAAAATCTTAAATGAGTGGT
1 AAAAAACAGATATGATCAGAATCTATAATGAGATTGTTCAAAAAAAATCTTAAATGGGTGGT
62484371 ATGAGTCAAT
Statistics
Matches: 453, Mismatches: 70, Indels: 35
0.81 0.13 0.06
Matches are distributed among these distances:
77 38 0.08
78 99 0.22
79 87 0.19
80 44 0.10
81 135 0.30
82 39 0.09
83 11 0.02
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (79 bp):
AAAAAACAGATATGATCAGAATCTATAATGAGATTGTTCAAAAAAAATCTTAAATGGGTGGTTCT
AGACATTGTGTAAA
Found at i:62484211 original size:159 final size:158
Alignment explanation
Indices: 62483790--62484370 Score: 607
Period size: 161 Copynumber: 3.6 Consensus size: 158
62483780 GAGATTGTTT
* * * * * * * * *
62483790 AAAAAAACATCTTAAATGTGTGGTTCTAGACATTATGT-AAAAAAAAACAGATGATTAGAATTTA
1 AAAAAAAAATCTTAAATG-GTGATTCTAGGCATTGTGTCAAAAAAACATATATGATCAGAATCTA
* * * * ** * * * *
62483854 TAAAGAGATTGTTCAAAAAAAATCTTGAATGCGTGGTTCAAGATATTATGTAAAAAAAAACAGAT
65 TAATGAGATTGTTCAAAAAAAATCTTAAATGGGTGGTTCTAGCCATTGTGTCAAAAAGAGCAGAT
* ** * *
62483919 ATGATTAAAATTTATAATTAGATTGTTC-
130 ATGATCAAAACCTATAATAAGATTATTCA
* * *
62483947 AAAAAATAATCTTAAATGGGTGGTTCTTCTAGGCATTGTGTCAAAAGAACATATATGATCAGAA-
1 AAAAAAAAATCTTAAAT-GGT-G--ATTCTAGGCATTGTGTCAAAAAAACATATATGATCAGAAT
* * *
62484011 CTTATAATAAGATTGTTCAAAAAAAATCTTAAATGGATGGTTCTAGTCATTGTGTCAAAAAGAGC
62 C-TATAATGAGATTGTTCAAAAAAAATCTTAAATGGGTGGTTCTAGCCATTGTGTCAAAAAGAGC
*
62484076 AGATATGATCAAAACCTATAATAATATTATT-A
126 AGATATGATCAAAACCTATAATAAGATTATTCA
* *
62484108 AAAAAAAAACTCTTGAAT-TTG-TTCTAGGCATTGTGTCAAAAAATACATATATGATCAGAATCT
1 AAAAAAAAA-TCTTAAATGGTGATTCTAGGCATTGTGTCAAAAAA-ACATATATGATCAGAATCT
* * *
62484171 ATAATGAGATTGTTGAAAAAAAAAATCTTAAATGGGTGGTTCTAGCCATTGTGTTAAAAATAGCA
64 ATAATGAGATTGTT--CAAAAAAAATCTTAAATGGGTGGTTCTAGCCATTGTGTCAAAAAGAGCA
* *
62484236 GATATGATCAAAACCTATAATGAGATTGTTCA
127 GATATGATCAAAACCTATAATAAGATTATTCA
* * * * *
62484268 AAAAAAATATCTTAAATGGGTGATTCTAGACGTTGTGTAAAAAAGAACAGATATGATCAGAATCT
1 AAAAAAAAATCTTAAAT-GGTGATTCTAGGCATTGTGTCAAAAA-AACATATATGATCAGAATCT
* *
62484333 ATGATGAGATTGTTCAAAAAAAATCTTAAATGAGTGGT
64 ATAATGAGATTGTTCAAAAAAAATCTTAAATGGGTGGT
62484371 ATGAGTCAAT
Statistics
Matches: 355, Mismatches: 52, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
156 21 0.06
157 47 0.13
158 3 0.01
159 79 0.22
160 45 0.13
161 103 0.29
162 56 0.16
163 1 0.00
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (158 bp):
AAAAAAAAATCTTAAATGGTGATTCTAGGCATTGTGTCAAAAAAACATATATGATCAGAATCTAT
AATGAGATTGTTCAAAAAAAATCTTAAATGGGTGGTTCTAGCCATTGTGTCAAAAAGAGCAGATA
TGATCAAAACCTATAATAAGATTATTCA
Done.