Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 125 of 172
Found at i:41761436 original size:666 final size:666
Alignment explanation
Indices: 41759482--41761497 Score: 3539
Period size: 666 Copynumber: 3.0 Consensus size: 666
41759472 AAGTAAAAAT
41759482 TAAGAACACATAATTAAGAATAAGAACAAGTATTTATCATATAATTCAAATAGTAACAAGATCTA
1 TAAGAACACATAATTAAGAATAAGAACAAGTATTTATCATATAATTCAAATAGTAACAAGATCTA
41759547 TCTTAGGTTTCATCTCCCTCAAGTATTTAAGGAGTTTAGTTCATAATGATAGGGGAAAACATCTC
66 TCTTAGGTTTCATCTCCCTCAAGTATTTAAGGAGTTTAGTTCATAATGATAGGGGAAAACATCTC
41759612 AAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAGAACTTTTAAGGAAATTGAATGGAGATC
131 AAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAGAACTTTTAAGGAAATTGAATGGAGATC
41759677 TTCAATCTTGAAGTAGATCCTACTTCCGAGCTGATTCCGATGGCTACCTTCGAGTATTTCCTACT
196 TTCAATCTTGAAGTAGATCCTACTTCCGAGCTGATTCCGATGGCTACCTTCGAGTATTTCCTACT
41759742 TTCTACTCTACGTGTCCCATTTGATTCTCTTCTAGGGTGTTTATATAGACTTTAGAATGCTTCAA
261 TTCTACTCTACGTGTCCCATTTGATTCTCTTCTAGGGTGTTTATATAGACTTTAGAATGCTTCAA
41759807 AACCCTAAAAATTAGCCTTTTTGGAGTAGAATTAGACTTGGGTTCGACAGGGACACGACCATGTG
326 AACCCTAAAAATTAGCCTTTTTGGAGTAGAATTAGACTTGGGTTCGACAGGGACACGACCATGTG
41759872 CCATGCCCGTGTGAAGGTGCTCAAGCCGTGTGTAATTCTGAGTTGGTTTTTAGTTGACACGATCA
391 CCATGCCCGTGTGAAGGTGCTCAAGCCGTGTGTAATTCTGAGTTGGTTTTTAGTTGACACGATCA
41759937 TTACACGGGTGTGTGGTCTACCCGTGTGTCACACACGGGCGTGTGGATTACCCGTGTGGAACTGC
456 TTACACGGGTGTGTGGTCTACCCGTGTGTCACACACGGGCGTGTGGATTACCCGTGTGGAACTGC
* *
41760002 CTAGGACATGTGAAATACTGAATTAGGCCCACTTTGTCCGTTTTTGGCA-GATTGCATGCAACTC
521 CTAGGACATGTGAAATACTGAATTAGGCCCACTTTGTCCGTTTTTGGCACG-TTTCTTG---CT-
** ** * * *** *
41760066 CACTTAATTATGGAAGAT-CT-A-CTCTTAAACAGGGACTTTTACTCCACTG-AA-T-AAGCATA
581 --CTT--TT-T-G-CTATCCTAAGCTC-T---C-CTGA-GTATAAAACA-TGAAATTAAAG--GA
* * * * * * **
41760125 TTA-GACTTGAAT-TAATATCCTGAAATATTAAAG-TAAAAAT
630 TTAGGA---GCATCAAAT-TCATTAAATCTT-ATGCT-AAACC
41760165 TAAGAACACATAATTAAGAATAAGAACAAGTATTTATCATATAATTCAAATAGTAACAAGATCTA
1 TAAGAACACATAATTAAGAATAAGAACAAGTATTTATCATATAATTCAAATAGTAACAAGATCTA
41760230 TCTTAGGTTTCATCTCCCTCAAGTATTTAAGGAGTTTAGTTCATAATGATAGGGGAAAACATCTC
66 TCTTAGGTTTCATCTCCCTCAAGTATTTAAGGAGTTTAGTTCATAATGATAGGGGAAAACATCTC
41760295 AAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAGAACTTTTAAGGAAATTGAATGGAGATC
131 AAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAGAACTTTTAAGGAAATTGAATGGAGATC
41760360 TTCAATCTTGAAGTAGATCCTACTTCCGAGCTGATTCCGATGGCTACCTTCGAGTATTTCCTACT
196 TTCAATCTTGAAGTAGATCCTACTTCCGAGCTGATTCCGATGGCTACCTTCGAGTATTTCCTACT
41760425 TTCTACTCTACGTGTCCCATTTGATTCTCTTCTAGGGTGTTTATATAGACTTTAGAATGCTTCAA
261 TTCTACTCTACGTGTCCCATTTGATTCTCTTCTAGGGTGTTTATATAGACTTTAGAATGCTTCAA
41760490 AACCCTAAAAATTAGCCTTTTTGGAGTAGAATTAGACTTGGGTTCGACAGGGACACGACCATGTG
326 AACCCTAAAAATTAGCCTTTTTGGAGTAGAATTAGACTTGGGTTCGACAGGGACACGACCATGTG
41760555 CCATGCCCGTGTGAAGGTGCTCAAGCCGTGTGTAATTCTGAGTTGGTTTTTAGTTGACACGATCA
391 CCATGCCCGTGTGAAGGTGCTCAAGCCGTGTGTAATTCTGAGTTGGTTTTTAGTTGACACGATCA
41760620 TTACACGGGTGTGTGGTCTACCCGTGTGTCACACACGGGCGTGTGGATTACCCGTGTGGAACTGC
456 TTACACGGGTGTGTGGTCTACCCGTGTGTCACACACGGGCGTGTGGATTACCCGTGTGGAACTGC
41760685 CTAGGACATGTGAAATACTGAATTAGGCCCACTTTGTCCGTTTTTGGCACGTTTCTTGCTCTTTT
521 CTAGGACATGTGAAATACTGAATTAGGCCCACTTTGTCCGTTTTTGGCACGTTTCTTGCTCTTTT
41760750 TGCTATCCTAAGCTCTCCTGAGTATAAAACATGAAATTAAAGGATTAGGAGCATCAAATTCATTA
586 TGCTATCCTAAGCTCTCCTGAGTATAAAACATGAAATTAAAGGATTAGGAGCATCAAATTCATTA
41760815 AATCTTATGCTAAACC
651 AATCTTATGCTAAACC
41760831 TAAGAACACATAATTAAGAATAAGAACAAGTATTTATCATATAATTCAAATAGTAACAAGATCTA
1 TAAGAACACATAATTAAGAATAAGAACAAGTATTTATCATATAATTCAAATAGTAACAAGATCTA
41760896 TCTTAGGTTTCATCTCCCTCAAGTATTTAAGGAGTTTAGTTCATAATGATAGGGGAAAACATCTC
66 TCTTAGGTTTCATCTCCCTCAAGTATTTAAGGAGTTTAGTTCATAATGATAGGGGAAAACATCTC
41760961 AAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAGAACTTTTAAGGAAATTGAATGGAGATC
131 AAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAGAACTTTTAAGGAAATTGAATGGAGATC
41761026 TTCAATCTTGAAGTAGATCCTACTTCCGAGCTGATTCCGATGGCTACCTTCGAGTATTTCCTACT
196 TTCAATCTTGAAGTAGATCCTACTTCCGAGCTGATTCCGATGGCTACCTTCGAGTATTTCCTACT
41761091 TTCTACTCTACGTGTCCCATTTGATTCTCTTCTAGGGTGTTTATATAGACTTTAGAATGCTTCAA
261 TTCTACTCTACGTGTCCCATTTGATTCTCTTCTAGGGTGTTTATATAGACTTTAGAATGCTTCAA
41761156 AACCCTAAAAATTAGCCTTTTTGGAGTAGAATTAGACTTGGGTTCGACAGGGACACGACCATGTG
326 AACCCTAAAAATTAGCCTTTTTGGAGTAGAATTAGACTTGGGTTCGACAGGGACACGACCATGTG
41761221 CCATGCCCGTGTGAAGGTGCTCAAGCCGTGTGTAATTCTGAGTTGGTTTTTAGTTGACACGATCA
391 CCATGCCCGTGTGAAGGTGCTCAAGCCGTGTGTAATTCTGAGTTGGTTTTTAGTTGACACGATCA
41761286 TTACACGGGTGTGTGGTCTACCCGTGTGTCACACACGGGCGTGTGGATTACCCGTGTGGAACTGC
456 TTACACGGGTGTGTGGTCTACCCGTGTGTCACACACGGGCGTGTGGATTACCCGTGTGGAACTGC
41761351 CTAGGACATGTGAAATACTGAATTAGGCCCACTTTGTCCGTTTTTGGCACGTTTCTTGCTCTTTT
521 CTAGGACATGTGAAATACTGAATTAGGCCCACTTTGTCCGTTTTTGGCACGTTTCTTGCTCTTTT
41761416 TGCTATCCTAAGCTCTCCTGAGTATAAAACATGAAATTAAAGGATTAGGAGCATCAAATTCATTA
586 TGCTATCCTAAGCTCTCCTGAGTATAAAACATGAAATTAAAGGATTAGGAGCATCAAATTCATTA
41761481 AATCTTATGCTAAACC
651 AATCTTATGCTAAACC
41761497 T
1 T
41761498 TCTGAAAATA
Statistics
Matches: 1303, Mismatches: 20, Indels: 37
0.96 0.01 0.03
Matches are distributed among these distances:
666 672 0.52
667 13 0.01
668 5 0.00
669 11 0.01
670 5 0.00
671 4 0.00
672 2 0.00
673 3 0.00
674 3 0.00
675 5 0.00
677 3 0.00
680 2 0.00
683 574 0.44
684 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (666 bp):
TAAGAACACATAATTAAGAATAAGAACAAGTATTTATCATATAATTCAAATAGTAACAAGATCTA
TCTTAGGTTTCATCTCCCTCAAGTATTTAAGGAGTTTAGTTCATAATGATAGGGGAAAACATCTC
AAAATTGGGAAAACAACAAAACATAAAGAAACCCAAAGAACTTTTAAGGAAATTGAATGGAGATC
TTCAATCTTGAAGTAGATCCTACTTCCGAGCTGATTCCGATGGCTACCTTCGAGTATTTCCTACT
TTCTACTCTACGTGTCCCATTTGATTCTCTTCTAGGGTGTTTATATAGACTTTAGAATGCTTCAA
AACCCTAAAAATTAGCCTTTTTGGAGTAGAATTAGACTTGGGTTCGACAGGGACACGACCATGTG
CCATGCCCGTGTGAAGGTGCTCAAGCCGTGTGTAATTCTGAGTTGGTTTTTAGTTGACACGATCA
TTACACGGGTGTGTGGTCTACCCGTGTGTCACACACGGGCGTGTGGATTACCCGTGTGGAACTGC
CTAGGACATGTGAAATACTGAATTAGGCCCACTTTGTCCGTTTTTGGCACGTTTCTTGCTCTTTT
TGCTATCCTAAGCTCTCCTGAGTATAAAACATGAAATTAAAGGATTAGGAGCATCAAATTCATTA
AATCTTATGCTAAACC
Found at i:41764899 original size:12 final size:13
Alignment explanation
Indices: 41764876--41764904 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
41764866 ATAAAGGATC
41764876 ATAAAGTAAATAA
1 ATAAAGTAAATAA
41764889 ATAAA-TAAATAA
1 ATAAAGTAAATAA
41764901 ATAA
1 ATAA
41764905 TAGGAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
ATAAAGTAAATAA
Found at i:41768962 original size:30 final size:30
Alignment explanation
Indices: 41768926--41768987 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
41768916 GAGACAACCG
*
41768926 AAGGTAAATGGCATTGTCAAAAACACCATT
1 AAGGTAAATGGCATCGTCAAAAACACCATT
* *
41768956 AAGGTAAATGGCATCGTCAGAAACTCCATT
1 AAGGTAAATGGCATCGTCAAAAACACCATT
41768986 AA
1 AA
41768988 TCTTAAAGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.23
Consensus pattern (30 bp):
AAGGTAAATGGCATCGTCAAAAACACCATT
Found at i:41776989 original size:18 final size:18
Alignment explanation
Indices: 41776962--41777000 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
41776952 GGTATGTCGG
* *
41776962 CCACATGAGCGTATGGGT
1 CCACACGAGCATATGGGT
41776980 CCACACGAGCATATGGGT
1 CCACACGAGCATATGGGT
41776998 CCA
1 CCA
41777001 TTATATTGAA
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:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (18 bp):
CCACACGAGCATATGGGT
Found at i:41788227 original size:24 final size:23
Alignment explanation
Indices: 41788191--41788238 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 23
41788181 TTTTAAAATG
41788191 AAAAATATATATATCAACATTGA
1 AAAAATATATATATCAACATTGA
41788214 AAAATATATATATATCAACATTGA
1 AAAA-ATATATATATCAACATTGA
41788238 A
1 A
41788239 GATTAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.31
Consensus pattern (23 bp):
AAAAATATATATATCAACATTGA
Found at i:41791291 original size:38 final size:38
Alignment explanation
Indices: 41791249--41791336 Score: 140
Period size: 38 Copynumber: 2.3 Consensus size: 38
41791239 CGTTCTAATT
* * *
41791249 TTCTTGAGGAAGTAGTAGTGATATTGGACATCTCATGA
1 TTCTTGAAGAACTAGTAGTGATATTGAACATCTCATGA
*
41791287 TTCTTGAAGAACTAGTAGTGATATTGAACATCTCATGG
1 TTCTTGAAGAACTAGTAGTGATATTGAACATCTCATGA
41791325 TTCTTGAAGAAC
1 TTCTTGAAGAAC
41791337 CACTGCATGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (38 bp):
TTCTTGAAGAACTAGTAGTGATATTGAACATCTCATGA
Found at i:41798824 original size:51 final size:49
Alignment explanation
Indices: 41798758--41798891 Score: 196
Period size: 49 Copynumber: 2.7 Consensus size: 49
41798748 TGAGGTCGCA
41798758 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAA-T-TGATCACG
* * * * *
41798809 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATTGATCACG
*
41798858 TGTGTAGTACTAAGTGCAGGCTACTATGCATACC
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
41798892 AGATAGCTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
49 38 0.51
50 1 0.01
51 36 0.48
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATTGATCACG
Found at i:41798876 original size:49 final size:51
Alignment explanation
Indices: 41798758--41798883 Score: 193
Period size: 51 Copynumber: 2.5 Consensus size: 51
41798748 TGAGGTCGCA
*
41798758 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACG
* * * *
41798809 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACG
41798858 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
41798884 TGCATACCAG
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
49 33 0.47
50 1 0.01
51 36 0.51
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACG
Found at i:41801102 original size:11 final size:11
Alignment explanation
Indices: 41801086--41801111 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
41801076 TTTTTAACCC
41801086 ACACGGCCTGG
1 ACACGGCCTGG
41801097 ACACGGCCTGG
1 ACACGGCCTGG
41801108 ACAC
1 ACAC
41801112 ACGGACGTGT
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:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (11 bp):
ACACGGCCTGG
Found at i:41802415 original size:22 final size:21
Alignment explanation
Indices: 41802377--41802417 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
41802367 CTTTTTATTT
* *
41802377 TACTATTTTATTCTTCTTAAA
1 TACTATTCTATTATTCTTAAA
41802398 TACTATTGCTATTATTCTTA
1 TACTATT-CTATTATTCTTA
41802418 TTTAAAGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.27, C:0.15, G:0.02, T:0.56
Consensus pattern (21 bp):
TACTATTCTATTATTCTTAAA
Found at i:41803873 original size:6 final size:6
Alignment explanation
Indices: 41803858--41803928 Score: 99
Period size: 6 Copynumber: 11.5 Consensus size: 6
41803848 AGTCTAATTG
41803858 TTTTATT TTTTATT TTTTATT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-
1 TTTTA-T TTTTA-T TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
*
41803908 TTTTAT GTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTT
41803929 CTTAGACTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
5 5 0.08
6 37 0.61
7 19 0.31
ACGTcount: A:0.15, C:0.00, G:0.01, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:41807253 original size:24 final size:24
Alignment explanation
Indices: 41807225--41807273 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
41807215 TAATTGAATG
41807225 TTGTATTGTATGTAATGTGATTTA
1 TTGTATTGTATGTAATGTGATTTA
41807249 TTGTATTGTATGTAATGTGATTTA
1 TTGTATTGTATGTAATGTGATTTA
41807273 T
1 T
41807274 GTTAATGTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.55
Consensus pattern (24 bp):
TTGTATTGTATGTAATGTGATTTA
Found at i:41808052 original size:96 final size:96
Alignment explanation
Indices: 41807888--41808080 Score: 377
Period size: 96 Copynumber: 2.0 Consensus size: 96
41807878 TAGGCCATTT
41807888 AGCCAAATGGATGGAAACATAACATTGTATGCCTAGATTTTTAATAAACAAGATTGGTAAGTTTA
1 AGCCAAATGGATGGAAACATAACATTGTATGCCTAGATTTTTAATAAACAAGATTGGTAAGTTTA
*
41807953 GTTTCTGTTATACGAACTTACTAAGCATGTA
66 GTTTCTGTTACACGAACTTACTAAGCATGTA
41807984 AGCCAAATGGATGGAAACATAACATTGTATGCCTAGATTTTTAATAAACAAGATTGGTAAGTTTA
1 AGCCAAATGGATGGAAACATAACATTGTATGCCTAGATTTTTAATAAACAAGATTGGTAAGTTTA
41808049 GTTTCTGTTACACGAACTTACTAAGCATGTA
66 GTTTCTGTTACACGAACTTACTAAGCATGTA
41808080 A
1 A
41808081 TACTTATTTT
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33
Consensus pattern (96 bp):
AGCCAAATGGATGGAAACATAACATTGTATGCCTAGATTTTTAATAAACAAGATTGGTAAGTTTA
GTTTCTGTTACACGAACTTACTAAGCATGTA
Found at i:41827949 original size:40 final size:40
Alignment explanation
Indices: 41827851--41828113 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
41827841 TCCTCGTTCA
* * * * *
41827851 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
41827890 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
41827930 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
41827970 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
41828010 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
41828050 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
41828090 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
41828114 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:41835902 original size:40 final size:40
Alignment explanation
Indices: 41835804--41836066 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
41835794 TCCTCGTTCA
* * * * *
41835804 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
41835843 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
41835883 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
41835923 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
41835963 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
41836003 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
41836043 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
41836067 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:41847943 original size:18 final size:19
Alignment explanation
Indices: 41847906--41847943 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
41847896 TAGATGTTTG
*
41847906 GAGCCATTAGAAGTGAATTA
1 GAGCCATTACAAG-GAATTA
41847926 GAGCCATTACAA-GAATTA
1 GAGCCATTACAAGGAATTA
41847944 ATTTTGGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (19 bp):
GAGCCATTACAAGGAATTA
Found at i:41849790 original size:15 final size:14
Alignment explanation
Indices: 41849757--41849793 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
41849747 TTATATCATG
41849757 TATATATT-TTTTT
1 TATATATTATTTTT
41849770 TA-ATATTATATTTT
1 TATATATTAT-TTTT
41849784 TATATATTAT
1 TATATATTAT
41849794 GTATATATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 5 0.24
13 3 0.14
14 6 0.29
15 7 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATATATTATTTTT
Found at i:41849856 original size:129 final size:127
Alignment explanation
Indices: 41849723--41849962 Score: 353
Period size: 129 Copynumber: 1.9 Consensus size: 127
41849713 ATTATACTCC
*
41849723 ATATTATGCACATGTATATTAATAT-TATATCATGTATATATTTTTTTTAATATTATA-TTTTTA
1 ATATTATGCACA--TAT-TTAATATATATATCATGTATATA-TATTTTTAATATTATATTTTTTA
*
41849786 -TATATTATGTATATAT-TGTTAATATCATATTATTCATATATTTTATTATGTATTTTTTTTATA
62 GTATATTATGTATATATCT-TTAATATCATATTATTCATACATTTT-TTATGTATTTTTTTTATA
41849849 ACT
125 ACT
* *
41849852 ATATTATGTACATATTTCATATATATATCATGTATATATATTTTTAATATTATATTTTTTATGTA
1 ATATTATGCACATATTTAATATATATATCATGTATATATATTTTTAATATTATATTTTTTA-GTA
41849917 TATTATGTATATATCTTTAATATCATATTATTCATACATTTTTTAT
65 TATTATGTATATATCTTTAATATCATATTATTCATACATTTTTTAT
41849963 ATTATCCCAT
Statistics
Matches: 102, Mismatches: 4, Indels: 11
0.87 0.03 0.09
Matches are distributed among these distances:
126 21 0.21
127 24 0.24
128 4 0.04
129 52 0.51
130 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (127 bp):
ATATTATGCACATATTTAATATATATATCATGTATATATATTTTTAATATTATATTTTTTAGTAT
ATTATGTATATATCTTTAATATCATATTATTCATACATTTTTTATGTATTTTTTTTATAACT
Found at i:41849964 original size:25 final size:24
Alignment explanation
Indices: 41849905--41849964 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
41849895 TTAATATTAT
* *
41849905 ATTTTTTATGTATATTATGTATAT
1 ATTTTTTATATATATTATGTATAC
* *
41849929 ATCTTTAATATCATATTAT-TCATAC
1 ATTTTTTATAT-ATATTATGT-ATAC
41849954 ATTTTTTATAT
1 ATTTTTTATAT
41849965 TATCCCATGT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (24 bp):
ATTTTTTATATATATTATGTATAC
Found at i:41850110 original size:27 final size:27
Alignment explanation
Indices: 41850079--41850131 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
41850069 ATTATGTATA
*
41850079 TATTTTTAATACTACGTATATATTTTT
1 TATTTCTAATACTACGTATATATTTTT
* *
41850106 TATTTCTATTATTACGTATATATTTT
1 TATTTCTAATACTACGTATATATTTT
41850132 AATACATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.28, C:0.08, G:0.04, T:0.60
Consensus pattern (27 bp):
TATTTCTAATACTACGTATATATTTTT
Found at i:41850340 original size:15 final size:15
Alignment explanation
Indices: 41850322--41850353 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
41850312 TTATTATCAT
41850322 TTTATACTATTATTA
1 TTTATACTATTATTA
*
41850337 TTTATATTATTATTA
1 TTTATACTATTATTA
41850352 TT
1 TT
41850354 ATCATTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTATACTATTATTA
Found at i:41864105 original size:27 final size:27
Alignment explanation
Indices: 41864067--41864120 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
41864057 TTAGTTGACA
41864067 ACTTGAACTTGTGTTATTCCAAATATT
1 ACTTGAACTTGTGTTATTCCAAATATT
41864094 ACTTGAACTTGTGTTATTCCAAATATT
1 ACTTGAACTTGTGTTATTCCAAATATT
41864121 CATTTTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (27 bp):
ACTTGAACTTGTGTTATTCCAAATATT
Found at i:41868760 original size:18 final size:18
Alignment explanation
Indices: 41868739--41868848 Score: 132
Period size: 18 Copynumber: 6.1 Consensus size: 18
41868729 AGTCACTCTT
41868739 TAACAGTCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
* *
41868757 TAAC-GATAAATTATTCAG
1 TAACAG-TCAGTTATTCAG
*
41868775 TAACAGTCAATTATTCAG
1 TAACAGTCAGTTATTCAG
* * *
41868793 TAGCAGTTAGTTATCCAG
1 TAACAGTCAGTTATTCAG
*
41868811 TAACAGTCAGTTATTCAA
1 TAACAGTCAGTTATTCAG
*
41868829 TAGCAGTCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
41868847 TA
1 TA
41868849 CCTTTATTTA
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
17 1 0.01
18 75 0.97
19 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (18 bp):
TAACAGTCAGTTATTCAG
Found at i:41869383 original size:18 final size:18
Alignment explanation
Indices: 41869341--41869385 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
41869331 GAAAAATGAG
41869341 AATTTTT-AAAACACGAA
1 AATTTTTGAAAACACGAA
41869358 AA-TTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
41869375 AATTTTTGAAA
1 AATTTTTGAAA
41869386 CCTGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.15
17 14 0.54
18 8 0.31
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:41870012 original size:15 final size:17
Alignment explanation
Indices: 41869992--41870023 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
41869982 TTAGGAAACG
41869992 TACATAA-A-AAATATA
1 TACATAATATAAATATA
41870007 TACATAATATAAATATA
1 TACATAATATAAATATA
41870024 ATATATACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:41871042 original size:18 final size:19
Alignment explanation
Indices: 41871012--41871047 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
41871002 TTTTGGGGGG
41871012 GGGTTAGGGTTTTTTTTTT
1 GGGTTAGGGTTTTTTTTTT
41871031 GGGTTA-GGTTTTTTTTT
1 GGGTTAGGGTTTTTTTTT
41871048 GGGGGGGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.06, C:0.00, G:0.31, T:0.64
Consensus pattern (19 bp):
GGGTTAGGGTTTTTTTTTT
Found at i:41873976 original size:16 final size:16
Alignment explanation
Indices: 41873955--41873987 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
41873945 GTTTTCCCAC
41873955 TTTCTTTAT-TTTCTTT
1 TTTCTTT-TCTTTCTTT
41873971 TTTCTTTTCTTTCTTT
1 TTTCTTTTCTTTCTTT
41873987 T
1 T
41873988 GTTTCGGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 15 0.94
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTCTTTTCTTTCTTT
Found at i:41876075 original size:31 final size:34
Alignment explanation
Indices: 41876019--41876082 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
41876009 ATTAATTATT
41876019 ATTATTATAATTATAATACGATTACTT-TTAATGA
1 ATTATTATAATTATAATAC-ATTACTTCTTAATGA
*
41876053 ATTATTATAATTAT-ATA-TTTACTTCTTAAT
1 ATTATTATAATTATAATACATTACTTCTTAAT
41876083 ATATAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 6 0.21
32 5 0.18
33 3 0.11
34 14 0.50
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (34 bp):
ATTATTATAATTATAATACATTACTTCTTAATGA
Found at i:41877932 original size:20 final size:20
Alignment explanation
Indices: 41877907--41877956 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
41877897 TGGCTTAAAA
41877907 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
41877927 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
41877944 GTGGTAGTGGATT
1 TTGGTAGTGGATT
41877957 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:41882571 original size:20 final size:20
Alignment explanation
Indices: 41882546--41882595 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
41882536 TGGCTTAAAA
41882546 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
41882566 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
41882583 GTGGTAGTGGATT
1 TTGGTAGTGGATT
41882596 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:41886328 original size:10 final size:10
Alignment explanation
Indices: 41886308--41886366 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
41886298 TTTAAGATTC
41886308 AAAAAAGTTAT
1 AAAAAA-TTAT
41886319 AAAAAATTAT
1 AAAAAATTAT
**
41886329 TTAAAATT-T
1 AAAAAATTAT
41886338 -AAAAATTAT
1 AAAAAATTAT
*
41886347 -TAAAATTAT
1 AAAAAATTAT
*
41886356 AAAAAAATAT
1 AAAAAATTAT
41886366 A
1 A
41886367 TTTTTTAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
8 6 0.15
9 10 0.25
10 18 0.45
11 6 0.15
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:41886344 original size:8 final size:9
Alignment explanation
Indices: 41886309--41886360 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
41886299 TTAAGATTCA
41886309 AAAAAGTTAT
1 AAAAA-TTAT
41886319 AAAAAATTATT
1 -AAAAATTA-T
*
41886330 TAAAATT-T
1 AAAAATTAT
41886338 AAAAATTAT
1 AAAAATTAT
*
41886347 TAAAATTAT
1 AAAAATTAT
41886356 AAAAA
1 AAAAA
41886361 AATATATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 7 0.20
9 13 0.37
10 9 0.26
11 6 0.17
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:41886349 original size:17 final size:19
Alignment explanation
Indices: 41886310--41886360 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
41886300 TAAGATTCAA
41886310 AAAAGTTATAAAAAATTATTT
1 AAAA-TTAT-AAAAATTATTT
41886331 AAAATT-TAAAAATTA-TT
1 AAAATTATAAAAATTATTT
41886348 AAAATTATAAAAA
1 AAAATTATAAAAA
41886361 AATATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.28
18 14 0.48
19 1 0.03
20 2 0.07
21 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAATTATAAAAATTATTT
Found at i:41888001 original size:21 final size:19
Alignment explanation
Indices: 41887977--41888015 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
41887967 TAAAATCAAG
41887977 ATTTTCATTATATTAATCTCA
1 ATTTTCATT-T-TTAATCTCA
*
41887998 ATTTTTATTTTTAATCTC
1 ATTTTCATTTTTAATCTC
41888016 TTTTAGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 1 0.06
21 8 0.47
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTCATTTTTAATCTCA
Found at i:41891554 original size:3 final size:3
Alignment explanation
Indices: 41891548--41891580 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
41891538 CATCAATTTG
41891548 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
41891581 TTAGCTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:41898521 original size:36 final size:35
Alignment explanation
Indices: 41898448--41898519 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 35
41898438 TTAAAAAACG
* *
41898448 ATAATAAATATATTATAAAATATAAATACATTAAA
1 ATAATAAAAATATTATAAAATATAAAGACATTAAA
* *
41898483 ATAATAAAAATATATATTAAATATTAAGACGATTAAA
1 ATAATAAAAATAT-TATAAAATATAAAGAC-ATTAAA
41898520 TAGTTCAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 12 0.39
36 13 0.42
37 6 0.19
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (35 bp):
ATAATAAAAATATTATAAAATATAAAGACATTAAA
Found at i:41901334 original size:3 final size:3
Alignment explanation
Indices: 41901326--41901367 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
41901316 TTCTATCCCC
41901326 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
41901368 GTTTATTGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:41903349 original size:42 final size:43
Alignment explanation
Indices: 41903245--41903401 Score: 108
Period size: 43 Copynumber: 3.7 Consensus size: 43
41903235 TGAGATATCG
** * *
41903245 TGTAAGACCGTGTCTAGGACA-CAGGCCTCGAT-TTGAGATTGACA
1 TGTAAGACCACGTCTGGGACATC-GGCATCGATATTGA-ATT-ACA
* * * * * *
41903289 TGTGAGATCATGGCTGGGACATCGGCATC-ATATCTG-ATTTCG
1 TGTAAGACCACGTCTGGGACATCGGCATCGATAT-TGAATTACA
**
41903331 TGTAAGACC-CTGTCTGGGACAAAGGCATCGATATTGAATTACA
1 TGTAAGACCAC-GTCTGGGACATCGGCATCGATATTGAATTACA
* *
41903374 TGTAAGACCACGTCCGGGACGTCGGCAT
1 TGTAAGACCACGTCTGGGACATCGGCAT
41903402 TTTATGAGCA
Statistics
Matches: 86, Mismatches: 20, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
42 25 0.29
43 35 0.41
44 23 0.27
45 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATCGGCATCGATATTGAATTACA
Found at i:41905192 original size:23 final size:23
Alignment explanation
Indices: 41905166--41905210 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
41905156 GACCCTGTGA
41905166 TATGTTAACTATACCCATAACTC
1 TATGTTAACTATACCCATAACTC
*
41905189 TATGTTAACTGTACCCATAACT
1 TATGTTAACTATACCCATAACT
41905211 TTATCCGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (23 bp):
TATGTTAACTATACCCATAACTC
Found at i:41908224 original size:20 final size:20
Alignment explanation
Indices: 41908201--41908243 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
41908191 TTTTTTTTCA
*
41908201 TTTACATTAG-TTTTATAATT
1 TTTA-ATTAGATTTTAGAATT
*
41908221 TTTAATTTGATTTTAGAATT
1 TTTAATTAGATTTTAGAATT
41908241 TTT
1 TTT
41908244 TGTAAAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (20 bp):
TTTAATTAGATTTTAGAATT
Found at i:41911843 original size:21 final size:22
Alignment explanation
Indices: 41911819--41911866 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
41911809 ATAATATGTT
*
41911819 ATATTTTACATATTAT-AT-TAA
1 ATATTATA-ATATTATAATGTAA
41911840 ATA-TATAATATTATAATGTAA
1 ATATTATAATATTATAATGTAA
41911861 ATATTA
1 ATATTA
41911867 AAAATATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 7 0.30
20 5 0.22
21 9 0.39
22 2 0.09
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATTATAATATTATAATGTAA
Found at i:41912825 original size:29 final size:29
Alignment explanation
Indices: 41912763--41912825 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
41912753 ATGAATTTTA
* **
41912763 AAAAATAGAAAGACTAAATTCCTAAAAAT
1 AAAAATACAAAGACTAAATTCCTAAATTT
*
41912792 AAAAATACAAAGACTAAATT-TTAAATTT
1 AAAAATACAAAGACTAAATTCCTAAATTT
41912820 ACAAAA
1 A-AAAA
41912826 AGCATCATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.24
Consensus pattern (29 bp):
AAAAATACAAAGACTAAATTCCTAAATTT
Found at i:41914889 original size:29 final size:30
Alignment explanation
Indices: 41914847--41914908 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
41914837 ACTTAACAAG
*
41914847 CAAATGCCTCTAAAATAATAA-AAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAACTAA
* *
41914876 CAAATGTCTTTAAAATAATAACAAAACTAA
1 CAAATGCCTCTAAAATAATAACAAAACTAA
41914906 CAA
1 CAA
41914909 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAACTAA
Found at i:41924352 original size:51 final size:51
Alignment explanation
Indices: 41924297--41924397 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
41924287 GATGAAGAAA
*
41924297 AAGAAAAGAAAGAGGCAAAGGGTGATGATGGATCTTTAGTGATTAATTCAG
1 AAGAAAAGAAAGAAGCAAAGGGTGATGATGGATCTTTAGTGATTAATTCAG
41924348 AAGAAAAGAAAGAAGCAAAGGGTGATGATGGATCTTTAGTGATTAATTCA
1 AAGAAAAGAAAGAAGCAAAGGGTGATGATGGATCTTTAGTGATTAATTCA
41924398 TCCATTGTTG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.43, C:0.06, G:0.28, T:0.24
Consensus pattern (51 bp):
AAGAAAAGAAAGAAGCAAAGGGTGATGATGGATCTTTAGTGATTAATTCAG
Found at i:41925460 original size:15 final size:16
Alignment explanation
Indices: 41925434--41925466 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
41925424 ATTAAAAGTT
41925434 TTTTGAATTTGGGTTA
1 TTTTGAATTTGGGTTA
*
41925450 TTTTG-ATTTGGTTTA
1 TTTTGAATTTGGGTTA
41925465 TT
1 TT
41925467 ATAAGTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.64
Consensus pattern (16 bp):
TTTTGAATTTGGGTTA
Found at i:41938343 original size:199 final size:199
Alignment explanation
Indices: 41938003--41938378 Score: 628
Period size: 199 Copynumber: 1.9 Consensus size: 199
41937993 CTTATTTCTG
* * *
41938003 CTGAACCAGATTAACCAAAGACCATAACAAAAGAGCCAGATCTGCTCATCTGTTCCTTTATCATA
1 CTGAACCAGATTAACCAAAGACCACAACAAAAGAGCCAGATCTACTCATCTGTTCCTTTATCAAA
* * *
41938068 GACCCAGGTAAGCCATTGCCATATATTCAGATTATTATGGCTGAAAACCTATGCTAGTCTTAACT
66 GACCCAGGTAAACCATTGCCACATATTCAGATTATTATGGCTGAAAACCCATGCTAGTCTTAACT
41938133 GATTCCAAACTTCAATTGTAAATGGACATTGTTGAAAAATATGAGTGGTCCTTATCTCCTTGGCG
131 GATTCCAAACTTCAATTGTAAATGGACATTGTTGAAAAATATGAGTGGTCCTTATCTCCTTGGCG
41938198 ACAT
196 ACAT
* *
41938202 CTGAACCAGATTAACCAAAGACCACAACAAAATAGCCGGATCTACTCATCTGTTCCTTTATCAAA
1 CTGAACCAGATTAACCAAAGACCACAACAAAAGAGCCAGATCTACTCATCTGTTCCTTTATCAAA
*
41938267 GACCTAGGTAAACCATTGCCACATATTCAGATTATTATGGCCT-AAAACCCATGCTAGTCTTAAC
66 GACCCAGGTAAACCATTGCCACATATTCAGATTATTATGG-CTGAAAACCCATGCTAGTCTTAAC
** *
41938331 TGATTCCAAACTTTGATTGTAGATGGACATTGTTGAAAAATATGAGTG
130 TGATTCCAAACTTCAATTGTAAATGGACATTGTTGAAAAATATGAGTG
41938379 TTGTACTATT
Statistics
Matches: 164, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
199 162 0.99
200 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.29
Consensus pattern (199 bp):
CTGAACCAGATTAACCAAAGACCACAACAAAAGAGCCAGATCTACTCATCTGTTCCTTTATCAAA
GACCCAGGTAAACCATTGCCACATATTCAGATTATTATGGCTGAAAACCCATGCTAGTCTTAACT
GATTCCAAACTTCAATTGTAAATGGACATTGTTGAAAAATATGAGTGGTCCTTATCTCCTTGGCG
ACAT
Found at i:41943950 original size:9 final size:10
Alignment explanation
Indices: 41943926--41943959 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
41943916 ATTTATTATT
41943926 TATTTTATAA
1 TATTTTATAA
41943936 TATTTTA-AA
1 TATTTTATAA
*
41943945 TGTTTTATAA
1 TATTTTATAA
41943955 TATTT
1 TATTT
41943960 ACTAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
TATTTTATAA
Found at i:41944108 original size:12 final size:12
Alignment explanation
Indices: 41944041--41944188 Score: 58
Period size: 12 Copynumber: 13.2 Consensus size: 12
41944031 TAAAACATTT
41944041 AAAATATTATAA
1 AAAATATTATAA
*
41944053 AATAA-ATAATAA
1 AA-AATATTATAA
*
41944065 ATAAT-TT-T-A
1 AAAATATTATAA
*
41944074 AAAAT-TCA-AA
1 AAAATATTATAA
41944084 AAAAT-TTGAATAA
1 AAAATATT--ATAA
41944097 AAAATATTAT--
1 AAAATATTATAA
*
41944107 AAAACATT-T--
1 AAAATATTATAA
41944116 AAAATATTATAA
1 AAAATATTATAA
41944128 AAAATA--ATAA
1 AAAATATTATAA
* * *
41944138 ATAATTTTAAAA
1 AAAATATTATAA
41944150 AAAAT-TTA-AA
1 AAAATATTATAA
*
41944160 AAAATGTTTGAATAA
1 AAAAT-ATT--ATAA
41944175 AAAATATTATAA
1 AAAATATTATAA
41944187 AA
1 AA
41944189 CATTTAAAAT
Statistics
Matches: 105, Mismatches: 13, Indels: 36
0.68 0.08 0.23
Matches are distributed among these distances:
9 14 0.13
10 31 0.30
11 6 0.06
12 33 0.31
13 9 0.09
14 5 0.05
15 7 0.07
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.32
Consensus pattern (12 bp):
AAAATATTATAA
Found at i:41944121 original size:19 final size:19
Alignment explanation
Indices: 41944097--41944209 Score: 75
Period size: 19 Copynumber: 5.8 Consensus size: 19
41944087 ATTTGAATAA
41944097 AAAATATTATAAAACATTT
1 AAAATATTATAAAACATTT
* *
41944116 AAAATATTATAAAAAATAATA
1 AAAATATTATAAAACAT--TT
* * *
41944137 AATAATTTTAAAAAAAATTT
1 AA-AATATTATAAAACATTT
* * * *** **
41944157 AAAAAAATGTTTGA-ATAA
1 AAAATATTATAAAACATTT
41944175 AAAATATTATAAAACATTT
1 AAAATATTATAAAACATTT
41944194 AAAATATTATAAAACA
1 AAAATATTATAAAACA
41944210 AATAATAAAT
Statistics
Matches: 67, Mismatches: 23, Indels: 8
0.68 0.23 0.08
Matches are distributed among these distances:
18 10 0.15
19 38 0.57
20 3 0.04
21 3 0.04
22 13 0.19
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATATTATAAAACATTT
Found at i:41944195 original size:78 final size:79
Alignment explanation
Indices: 41944005--41944230 Score: 340
Period size: 78 Copynumber: 2.9 Consensus size: 79
41943995 TAATTTTTTT
* * *
41944005 AAAAACGTTTGAATAAATAAATATTTTAAAACATTTAAAATATTATAAAATAAATAATAAATAAT
1 AAAAAAGTTTGAATAAA-AAATATTATAAAACATTTAAAATATTATAAAACAAATAATAAATAAT
41944070 TTT---AAAAATTCA
65 TTTAAAAAAAATTCA
41944082 AAAAAA-TTTGAATAAAAAATATTATAAAACATTTAAAATATTAT-AAA-AAATAATAAATAATT
1 AAAAAAGTTTGAATAAAAAATATTATAAAACATTTAAAATATTATAAAACAAATAATAAATAATT
*
41944144 TTAAAAAAAATTTA
66 TTAAAAAAAATTCA
*
41944158 AAAAAATGTTTGAATAAAAAATATTATAAAACATTTAAAATATTATAAAACAAATAATAAAT-AC
1 AAAAAA-GTTTGAATAAAAAATATTATAAAACATTTAAAATATTATAAAACAAATAATAAATAAT
41944222 TTTAAAAAA
65 TTTAAAAAA
41944231 TAAATAATAA
Statistics
Matches: 138, Mismatches: 4, Indels: 12
0.90 0.03 0.08
Matches are distributed among these distances:
73 17 0.12
74 3 0.02
75 27 0.20
76 24 0.17
77 5 0.04
78 38 0.28
79 13 0.09
80 11 0.08
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (79 bp):
AAAAAAGTTTGAATAAAAAATATTATAAAACATTTAAAATATTATAAAACAAATAATAAATAATT
TTAAAAAAAATTCA
Found at i:41944206 original size:10 final size:10
Alignment explanation
Indices: 41944175--41944207 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
41944165 GTTTGAATAA
41944175 AAAATATTAT
1 AAAATATTAT
*
41944185 AAAACATT-T
1 AAAATATTAT
41944194 AAAATATTAT
1 AAAATATTAT
41944204 AAAA
1 AAAA
41944208 CAAATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATATTAT
Found at i:41944311 original size:29 final size:30
Alignment explanation
Indices: 41944266--41944325 Score: 113
Period size: 29 Copynumber: 2.0 Consensus size: 30
41944256 AGAAAAAGGA
41944266 CAAAGAATCTGATAGCGCCAAATTGTTTGG
1 CAAAGAATCTGATAGCGCCAAATTGTTTGG
41944296 CAAAGAAT-TGATAGCGCCAAATTGTTTGG
1 CAAAGAATCTGATAGCGCCAAATTGTTTGG
41944325 C
1 C
41944326 TCTACCAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (30 bp):
CAAAGAATCTGATAGCGCCAAATTGTTTGG
Found at i:41969977 original size:34 final size:33
Alignment explanation
Indices: 41969915--41969979 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
41969905 TTAAGTGTAC
41969915 ATATTTTTTTAATTTATTTTCAATTTTTTAGGAA
1 ATATTTTTTTAA-TTATTTTCAATTTTTTAGGAA
*
41969949 ATATTTATTTTAA-TATTTTTAATATTTTTAG
1 ATATTT-TTTTAATTATTTTCAAT-TTTTTAG
41969980 TATTTTTGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 9 0.32
34 13 0.46
35 6 0.21
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (33 bp):
ATATTTTTTTAATTATTTTCAATTTTTTAGGAA
Found at i:41969985 original size:8 final size:9
Alignment explanation
Indices: 41969956--41969986 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
41969946 GAAATATTTA
41969956 TTTTAATAT
1 TTTTAATAT
41969965 TTTTAATAT
1 TTTTAATAT
*
41969974 TTTTAGTAT
1 TTTTAATAT
41969983 TTTT
1 TTTT
41969987 GATGTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (9 bp):
TTTTAATAT
Found at i:41970003 original size:18 final size:19
Alignment explanation
Indices: 41969954--41970003 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
41969944 AGGAAATATT
41969954 TATTTTAATATTTTTAATA
1 TATTTTAATATTTTTAATA
* * *
41969973 T-TTTTAGTATTTTTGATG
1 TATTTTAATATTTTTAATA
41969991 TATTTTAAT-TTTT
1 TATTTTAATATTTT
41970004 AAAAAGATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (19 bp):
TATTTTAATATTTTTAATA
Found at i:41970222 original size:18 final size:18
Alignment explanation
Indices: 41970199--41970239 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
41970189 TAAACTCTAA
41970199 TTAATTTA-AATAAAACT
1 TTAATTTATAATAAAACT
*
41970216 CTTAA-TTATACTAAAACT
1 -TTAATTTATAATAAAACT
41970234 TTAATT
1 TTAATT
41970240 AATCTAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATTTATAATAAAACT
Found at i:41970783 original size:23 final size:23
Alignment explanation
Indices: 41970757--41970801 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
41970747 ATTATCATTC
41970757 ATCATAAACATACTCTACAACTT
1 ATCATAAACATACTCTACAACTT
41970780 ATCATAAACATACTCTACAACT
1 ATCATAAACATACTCTACAACT
41970802 GAGTTAGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (23 bp):
ATCATAAACATACTCTACAACTT
Found at i:41971265 original size:31 final size:31
Alignment explanation
Indices: 41971215--41971290 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
41971205 TTTAAAAAAA
*
41971215 AAACAATTTAGTAAATTAAAT-AAAACTTTTT
1 AAACAATTTAATAAATTAAATGAAAA-TTTTT
* ** *
41971246 GAACAATTTAATATCTTAAATGATAATTTTT
1 AAACAATTTAATAAATTAAATGAAAATTTTT
*
41971277 AAATAATTTAATAA
1 AAACAATTTAATAA
41971291 CTATTTTATA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
31 33 0.92
32 3 0.08
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (31 bp):
AAACAATTTAATAAATTAAATGAAAATTTTT
Found at i:41971353 original size:11 final size:11
Alignment explanation
Indices: 41971337--41971362 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
41971327 GAATATATTG
41971337 AAAAAAATAAA
1 AAAAAAATAAA
41971348 AAAAAAATAAA
1 AAAAAAATAAA
41971359 AAAA
1 AAAA
41971363 GTTCAAAATA
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:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:41971974 original size:27 final size:27
Alignment explanation
Indices: 41971912--41971974 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 27
41971902 GTAATGGTTT
41971912 TATA-AAAATAAAATATTAAATTAAAC
1 TATATAAAATAAAATATTAAATTAAAC
* * * *
41971938 TATATCAAAT-AAATCTTAAATTTAAG
1 TATATAAAATAAAATATTAAATTAAAC
41971964 TATAATAAAAT
1 TAT-ATAAAAT
41971975 GATTAAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.35
Consensus pattern (27 bp):
TATATAAAATAAAATATTAAATTAAAC
Found at i:41978309 original size:10 final size:10
Alignment explanation
Indices: 41978296--41978408 Score: 54
Period size: 10 Copynumber: 12.0 Consensus size: 10
41978286 GGCTTATAAC
41978296 TTTTTATATA
1 TTTTTATATA
41978306 TTTTTAGT-T-
1 TTTTTA-TATA
41978315 TGTTTTATA-A
1 T-TTTTATATA
41978325 -TTTTACTAT-
1 TTTTTA-TATA
41978334 TTTTTATAATA
1 TTTTTAT-ATA
41978345 TTTTGTA-AT-
1 TTTT-TATATA
*
41978354 TTTTT-TGACA
1 TTTTTAT-ATA
*
41978364 TTTTTA-ACA
1 TTTTTATATA
*
41978373 TTTTTAAATA
1 TTTTTATATA
41978383 -TTTT-TATA
1 TTTTTATATA
41978391 TTTTTATA-A
1 TTTTTATATA
41978400 -TTTTATATA
1 TTTTTATATA
41978409 AATATATCTA
Statistics
Matches: 82, Mismatches: 3, Indels: 37
0.67 0.02 0.30
Matches are distributed among these distances:
8 16 0.20
9 29 0.35
10 30 0.37
11 5 0.06
12 2 0.02
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (10 bp):
TTTTTATATA
Found at i:41978408 original size:18 final size:17
Alignment explanation
Indices: 41978296--41978407 Score: 66
Period size: 18 Copynumber: 6.1 Consensus size: 17
41978286 GGCTTATAAC
*
41978296 TTTTTATATATTTTTAGTT
1 TTTTTATA-ATTTTTA-TA
41978315 TGTTTTATAA-TTTTACTA
1 T-TTTTATAATTTTTA-TA
*
41978333 TTTTTTATAATATTTTGTAA
1 -TTTTTATAAT-TTTTAT-A
* *
41978353 TTTTTTTGACATTTTTAACA
1 TTTTTAT-A-ATTTTT-ATA
*
41978373 TTTTTAAATATTTTTATA
1 TTTTTATA-ATTTTTATA
41978391 TTTTTATAA-TTTTATA
1 TTTTTATAATTTTTATA
41978407 T
1 T
41978408 AAATATATCT
Statistics
Matches: 74, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
16 8 0.11
17 1 0.01
18 23 0.31
19 17 0.23
20 23 0.31
21 2 0.03
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.66
Consensus pattern (17 bp):
TTTTTATAATTTTTATA
Found at i:41982854 original size:16 final size:16
Alignment explanation
Indices: 41982833--41982865 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
41982823 AAGAATTAAG
41982833 AATTATATTTGTATAT
1 AATTATATTTGTATAT
*
41982849 AATTATATTTTTATAT
1 AATTATATTTGTATAT
41982865 A
1 A
41982866 TATACATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
AATTATATTTGTATAT
Found at i:41986223 original size:21 final size:21
Alignment explanation
Indices: 41986199--41986271 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
41986189 TTCGATGCTT
*
41986199 CTGAGAGATCTGAGGAATTGC
1 CTGAGAGATCCGAGGAATTGC
41986220 CTGAGAGATCCGAGGAATTGC
1 CTGAGAGATCCGAGGAATTGC
*
41986241 CTGAGAGATCCAAGGAATTGC
1 CTGAGAGATCCGAGGAATTGC
41986262 CT-AGGAGATC
1 CTGA-GAGATC
41986272 AAAGAGGCCA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 1 0.02
21 48 0.98
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.21
Consensus pattern (21 bp):
CTGAGAGATCCGAGGAATTGC
Found at i:41989822 original size:10 final size:10
Alignment explanation
Indices: 41989807--41989906 Score: 75
Period size: 10 Copynumber: 10.5 Consensus size: 10
41989797 AAATATGGTA
41989807 AAAAAATTAT
1 AAAAAATTAT
41989817 AAAAAATTAT
1 AAAAAATTAT
* *
41989827 TAAAAATCAT
1 AAAAAATTAT
41989837 -AAAAATTAT
1 AAAAAATTAT
* * *
41989846 TAAAATTTAG
1 AAAAAATTAT
41989856 AAAAAA--AT
1 AAAAAATTAT
41989864 AAAAAATT-T
1 AAAAAATTAT
* *
41989873 -TAAATTTAT
1 AAAAAATTAT
* *
41989882 TAAAAATTAG
1 AAAAAATTAT
*
41989892 AAAAAAATAT
1 AAAAAATTAT
41989902 AAAAA
1 AAAAA
41989907 TCGTAAAAAA
Statistics
Matches: 69, Mismatches: 16, Indels: 10
0.73 0.17 0.11
Matches are distributed among these distances:
8 12 0.17
9 10 0.14
10 47 0.68
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:41989840 original size:19 final size:20
Alignment explanation
Indices: 41989808--41989850 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
41989798 AATATGGTAA
*
41989808 AAAAATTATAAAAAATTATT
1 AAAAATCATAAAAAATTATT
41989828 AAAAATCAT-AAAAATTATT
1 AAAAATCATAAAAAATTATT
41989847 AAAA
1 AAAA
41989851 TTTAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAATCATAAAAAATTATT
Found at i:41989859 original size:19 final size:18
Alignment explanation
Indices: 41989809--41989860 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
41989799 ATATGGTAAA
41989809 AAAATTATAAAAAATTATT
1 AAAATT-TAAAAAATTATT
* *
41989828 AAAAATCATAAAAATTATT
1 AAAATTTA-AAAAATTATT
41989847 AAAATTTAGAAAAA
1 AAAATTTA-AAAAA
41989861 AATAAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 1 0.04
19 26 0.96
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAATTTAAAAAATTATT
Found at i:41989869 original size:19 final size:19
Alignment explanation
Indices: 41989847--41989922 Score: 57
Period size: 18 Copynumber: 4.0 Consensus size: 19
41989837 AAAAATTATT
41989847 AAAATTTAGAAAAAAATAA
1 AAAATTTAGAAAAAAATAA
* *** *
41989866 AAAATTT-TAAATTTATTA
1 AAAATTTAGAAAAAAATAA
41989884 AAAA-TTAGAAAAAAATATA
1 AAAATTTAGAAAAAAATA-A
* *
41989903 AAAATCGTAAAAAAAAATAA
1 AAAAT-TTAGAAAAAAATAA
41989923 GGACAATTAA
Statistics
Matches: 41, Mismatches: 12, Indels: 7
0.68 0.20 0.12
Matches are distributed among these distances:
17 2 0.05
18 15 0.37
19 12 0.29
20 1 0.02
21 11 0.27
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.26
Consensus pattern (19 bp):
AAAATTTAGAAAAAAATAA
Found at i:41990674 original size:24 final size:24
Alignment explanation
Indices: 41990647--41990692 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
41990637 ATAAGTTGTT
*
41990647 TATATTTAAAAAATATTAAACATA
1 TATAATTAAAAAATATTAAACATA
**
41990671 TATAATTATTAAATATTAAACA
1 TATAATTAAAAAATATTAAACA
41990693 AATAACACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
TATAATTAAAAAATATTAAACATA
Found at i:42006852 original size:18 final size:18
Alignment explanation
Indices: 42006795--42006860 Score: 52
Period size: 17 Copynumber: 3.8 Consensus size: 18
42006785 ATTGTGGTTG
*
42006795 AATTAGTTTA-TAATTTAT
1 AATTA-TTTATTAATTTTT
*
42006813 AATTATTT-TT--TTGTT
1 AATTATTTATTAATTTTT
*
42006828 AA-AATTTATTAATTTTT
1 AATTATTTATTAATTTTT
42006845 AATTATTTATTTAATT
1 AATTATTTA-TTAATT
42006861 ATTATTGGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 11
0.70 0.09 0.21
Matches are distributed among these distances:
14 4 0.11
15 7 0.19
17 10 0.27
18 10 0.27
19 6 0.16
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
AATTATTTATTAATTTTT
Found at i:42007051 original size:15 final size:16
Alignment explanation
Indices: 42007028--42007057 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42007018 GGTTGAATCG
42007028 AATT-TTTTTATTTTA
1 AATTGTTTTTATTTTA
42007043 AATTGTTTTTATTTT
1 AATTGTTTTTATTTT
42007058 TAAAATTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
AATTGTTTTTATTTTA
Found at i:42011248 original size:63 final size:61
Alignment explanation
Indices: 42011148--42011265 Score: 157
Period size: 63 Copynumber: 1.9 Consensus size: 61
42011138 ATCCATGTAT
* * * *
42011148 GAGAGCGTTAACGATTGAAACCATCAATGGTGAGGAAGAGTAAGTCATGAAGTGATATTGG
1 GAGAGCGGTAACGATTGAAACCATCAATGGGGAGGAAGAATAAATCATGAAGTGATATTGG
*
42011209 GAGAGCGGTAACGAATTCGAAACCGTTC-ATGGGGAGGAAGAATAAATCATGAAGTGA
1 GAGAGCGGTAACG-ATT-GAAACC-ATCAATGGGGAGGAAGAATAAATCATGAAGTGA
42011266 GATAATGGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
61 12 0.24
62 3 0.06
63 32 0.65
64 2 0.04
ACGTcount: A:0.37, C:0.11, G:0.31, T:0.20
Consensus pattern (61 bp):
GAGAGCGGTAACGATTGAAACCATCAATGGGGAGGAAGAATAAATCATGAAGTGATATTGG
Found at i:42011996 original size:15 final size:16
Alignment explanation
Indices: 42011966--42011996 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
42011956 GGCATTATCA
42011966 TATTTGCCTGCAGCTT
1 TATTTGCCTGCAGCTT
42011982 TATTTGCCT-CAGCTT
1 TATTTGCCTGCAGCTT
42011997 CAATAAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.13, C:0.26, G:0.16, T:0.45
Consensus pattern (16 bp):
TATTTGCCTGCAGCTT
Found at i:42017286 original size:13 final size:13
Alignment explanation
Indices: 42017268--42017306 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
42017258 ATGTGAAGAA
42017268 TATTATTTAAAAT
1 TATTATTTAAAAT
*
42017281 TATTATTTAAATTT
1 TATTATTTAAA-AT
42017295 TATTA-TTAAAAT
1 TATTATTTAAAAT
42017307 AAAAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 1 0.04
13 16 0.70
14 6 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTATTTAAAAT
Found at i:42017299 original size:14 final size:14
Alignment explanation
Indices: 42017268--42017307 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
42017258 ATGTGAAGAA
42017268 TATTATTTAAA-AT
1 TATTATTTAAATAT
*
42017281 TATTATTTAAATTT
1 TATTATTTAAATAT
*
42017295 TATTATTAAAATA
1 TATTATTTAAATA
42017308 AAAATAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTATTTAAATAT
Found at i:42017352 original size:20 final size:22
Alignment explanation
Indices: 42017325--42017371 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
42017315 AAAATTAAAT
42017325 ATTT-TATTAAATA-A-TAATA
1 ATTTATATTAAATATATTAATA
42017344 ATTTATATTAAATATATTAATA
1 ATTTATATTAAATATATTAATA
*
42017366 AGTTAT
1 ATTTAT
42017372 TATATGACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 9 0.38
21 1 0.04
22 10 0.42
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTTATATTAAATATATTAATA
Found at i:42017374 original size:25 final size:21
Alignment explanation
Indices: 42017322--42017376 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 21
42017312 TAAAAAATTA
*
42017322 AATATTTTATTAAATAATAAT
1 AATATTATATTAAATAATAAT
42017343 AAT-TTATATTAAATATATTAAT
1 AATATTATATTAAATA-A-TAAT
42017365 AAGTTATTATAT
1 AA--TATTATAT
42017377 GACTAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 11 0.39
21 4 0.14
22 6 0.21
24 1 0.04
25 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATATTATATTAAATAATAAT
Found at i:42017442 original size:13 final size:14
Alignment explanation
Indices: 42017422--42017453 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
42017412 AATATTGAAA
42017422 AATA-TAATATTTT
1 AATATTAATATTTT
42017435 -ATATTAATATTTT
1 AATATTAATATTTT
42017448 AATATT
1 AATATT
42017454 TTTAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 9 0.53
14 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATATTAATATTTT
Found at i:42022284 original size:26 final size:26
Alignment explanation
Indices: 42022252--42022321 Score: 140
Period size: 26 Copynumber: 2.7 Consensus size: 26
42022242 TTTTTAGCTC
42022252 CATATTTATATGATTTTTCAAGCAAT
1 CATATTTATATGATTTTTCAAGCAAT
42022278 CATATTTATATGATTTTTCAAGCAAT
1 CATATTTATATGATTTTTCAAGCAAT
42022304 CATATTTATATGATTTTT
1 CATATTTATATGATTTTT
42022322 ATCTTTAATC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (26 bp):
CATATTTATATGATTTTTCAAGCAAT
Found at i:42027740 original size:29 final size:29
Alignment explanation
Indices: 42027704--42027762 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
42027694 CAAGAACAAG
42027704 AATAAATCCAAAAGCCCAAAAACTTTACA
1 AATAAATCCAAAAGCCCAAAAACTTTACA
42027733 AATAAATCCAAAAGCCCAAAAACTTTACA
1 AATAAATCCAAAAGCCCAAAAACTTTACA
42027762 A
1 A
42027763 TGGCCCGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.56, C:0.24, G:0.03, T:0.17
Consensus pattern (29 bp):
AATAAATCCAAAAGCCCAAAAACTTTACA
Found at i:42037901 original size:10 final size:10
Alignment explanation
Indices: 42037886--42037916 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
42037876 ATTAATACTG
42037886 TATTTGACAA
1 TATTTGACAA
42037896 TATTTGACAA
1 TATTTGACAA
42037906 TATTTGACAA
1 TATTTGACAA
42037916 T
1 T
42037917 TCAATGGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.42
Consensus pattern (10 bp):
TATTTGACAA
Found at i:42042503 original size:27 final size:25
Alignment explanation
Indices: 42042455--42042514 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
42042445 AAAACTATTT
42042455 TTTAAAAAATAAAAATTATTTAAAAA
1 TTTAAAAAATAAAAATTATTT-AAAA
* *
42042481 TATTAAAAAATTTAATATT-TTTAAAA
1 T-TTAAAAAA-TAAAAATTATTTAAAA
42042507 TTTAAAAA
1 TTTAAAAA
42042515 TTAATTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 7 0.23
26 6 0.20
27 11 0.37
28 6 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
TTTAAAAAATAAAAATTATTTAAAA
Found at i:42042517 original size:45 final size:46
Alignment explanation
Indices: 42042401--42042523 Score: 139
Period size: 42 Copynumber: 2.7 Consensus size: 46
42042391 ACAAGTTAGC
**
42042401 ATTTAATTAATTTTTAAAATTTAAAAATT-TCAAAAAATATATAAAAA
1 ATTTAA-T-ATTTTTAAAATTTAAAAATTATTTAAAAATATATAAAAA
* **
42042448 A-CT-AT-TTTTTAAAAAATAAAAATTATTTAAAAATAT-TAAAAA
1 ATTTAATATTTTTAAAATTTAAAAATTATTTAAAAATATATAAAAA
*
42042490 ATTTAATATTTTTAAAATTTAAAAATTAATTAAA
1 ATTTAATATTTTTAAAATTTAAAAATTATTTAAA
42042524 TATTGATGTG
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
42 24 0.38
43 10 0.16
44 3 0.05
45 24 0.38
46 1 0.02
47 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (46 bp):
ATTTAATATTTTTAAAATTTAAAAATTATTTAAAAATATATAAAAA
Found at i:42044813 original size:20 final size:20
Alignment explanation
Indices: 42044785--42044827 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
42044775 AAAATGGTTT
* *
42044785 AAACTTTTTTAACTCAATTG
1 AAACATTTTTAAATCAATTG
*
42044805 AAACATTTTTAAATCGATTG
1 AAACATTTTTAAATCAATTG
42044825 AAA
1 AAA
42044828 AATTGTTCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.40
Consensus pattern (20 bp):
AAACATTTTTAAATCAATTG
Found at i:42045622 original size:41 final size:36
Alignment explanation
Indices: 42045555--42045666 Score: 118
Period size: 36 Copynumber: 3.0 Consensus size: 36
42045545 CTTTTTTCCG
* * *
42045555 AAACGCCACTAAAAGCTAAACTATAGCGGCGTTTTT
1 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTTT
* *
42045591 GCCAAAAACGCCACTAAGAA-CTGGTCAATAGCGGCATTTTT
1 -----AAACGCCACTAA-AAGCTGATCAATAGCGGCGTTTTT
42045632 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTT
1 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTT
42045667 AATCTCAAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
35 2 0.03
36 30 0.48
41 28 0.45
42 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (36 bp):
AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTTT
Found at i:42045790 original size:41 final size:40
Alignment explanation
Indices: 42045688--42045799 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 40
42045678 CCACTAAATT
* *
42045688 GCGGCGTTTTTGTCCCAAACACCACAAAAAACTGATCAATT
1 GCGGCGTTTTTGT-CCAAACGCCACAAAAAACTGATCAATA
* * * *
42045729 GTGGCGTTTTTATCCAAAACGCCACTAAAAACTGATTAATA
1 GCGGCGTTTTTGTCC-AAACGCCACAAAAAACTGATCAATA
*
42045770 GCGGCGTTTTTGGTCCAAACGCCGCAAAAA
1 GCGGCGTTTTT-GTCCAAACGCCACAAAAA
42045800 GTTTAGCAGG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
40 2 0.03
41 54 0.92
42 3 0.05
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (40 bp):
GCGGCGTTTTTGTCCAAACGCCACAAAAAACTGATCAATA
Found at i:42046142 original size:28 final size:28
Alignment explanation
Indices: 42046082--42046157 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
42046072 TGGCTTTCTG
* *
42046082 TAAACCCTTAAATCTTAAACATTAAACCC
1 TAAACCC-TAAATCTTAAACATTAAAACA
*
42046111 TAAACCCTAAATTTTAAATCA-TAAAACA
1 TAAACCCTAAATCTTAAA-CATTAAAACA
*
42046139 TAAACACT-AATCTATAAAC
1 TAAACCCTAAATCT-TAAAC
42046158 TCCAAAACCC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 5 0.12
28 26 0.65
29 9 0.22
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (28 bp):
TAAACCCTAAATCTTAAACATTAAAACA
Found at i:42047757 original size:14 final size:15
Alignment explanation
Indices: 42047738--42047767 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
42047728 TGTGTTTATA
42047738 TAAATACAT-AATTC
1 TAAATACATAAATTC
42047752 TAAATACATAAATTC
1 TAAATACATAAATTC
42047767 T
1 T
42047768 GAAGTTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATACATAAATTC
Found at i:42051004 original size:635 final size:635
Alignment explanation
Indices: 42049794--42051393 Score: 3128
Period size: 635 Copynumber: 2.5 Consensus size: 635
42049784 TAAATACATA
*
42049794 AAGTTAATGTTTATGAGTTTTGTGGAGTATGATTCTGCACATGCAAAGTTGGTTTGTTTAAAGCA
1 AAGTTAATGTTTATGAGTTTTGTGGAGTATGATTCTGCACATGCAAAGTTGGTTTGTTTAAAGCT
42049859 GTGCATTTTCATGTTTACATACTAATGGTGATTCCATTTTTGTTTTTTAGATGTTCTTTTGGTCT
66 GTGCATTTTCATGTTTACATACTAATGGTGATTCCATTTTTGTTTTTTAGATGTTCTTTTGGTCT
42049924 ATTTTCATGTTTCTATCCAACTTCTGTGTTTACTGTGCAGTTTTGCCATATTTTGCTAAGGTGTA
131 ATTTTCATGTTTCTATCCAACTTCTGTGTTTACTGTGCAGTTTTGCCATATTTTGCTAAGGTGTA
42049989 TAGCTTCATTGGCAGTGTCTTTGATCCTGGTACAAGTGGGCACTTGCAAAACTGATATAGGTAAA
196 TAGCTTCATTGGCAGTGTCTTTGATCCTGGTACAAGTGGGCACTTGCAAAACTGATATAGGTAAA
42050054 GTTTCTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTACATCTGTTCTAG
261 GTTTCTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTACATCTGTTCTAG
42050119 GTACTTATCTTTTATTTGCAAGAAACAGATTTAGGTAATGGAAGATGTATGCCTGTGTGTTTGTG
326 GTACTTATCTTTTATTTGCAAGAAACAGATTTAGGTAATGGAAGATGTATGCCTGTGTGTTTGTG
42050184 TCTCTATATATGTATGTATTTGGTACTAGATGAAAGCTTTACTCCAGTTTTGAAATATAGACCAG
391 TCTCTATATATGTATGTATTTGGTACTAGATGAAAGCTTTACTCCAGTTTTGAAATATAGACCAG
*
42050249 GTTTTGCATACATTGATCATTTTCTGGCTCTTTTCCTTCGAATACATGGTTCTCTTGAAATTAAA
456 GTTTTGCATACATTGATCATTTTCTGGCTCTTTTCCTTCAAATACATGGTTCTCTTGAAATTAAA
42050314 TGCTCAGGTACTTTCTGCACATTCTGTGATTCTTATTAGATAAGTTATAAATCAACAGTTATGTT
521 TGCTCAGGTACTTTCTGCACATTCTGTGATTCTTATTAGATAAGTTATAAATCAACAGTTATGTT
42050379 AGTTTTGATCAAGGCCTCTGTAAACATAAAGTTGGTATTCTGGTTAGGAG
586 AGTTTTGATCAAGGCCTCTGTAAACATAAAGTTGGTATTCTGGTTAGGAG
42050429 AAGTTAATGTTTATGAGTTTTGTGGAGTATGATTCTGCACATGCAAAGTTGGTTTGTTTAAAGCT
1 AAGTTAATGTTTATGAGTTTTGTGGAGTATGATTCTGCACATGCAAAGTTGGTTTGTTTAAAGCT
*
42050494 GTGCATTTTCATGTTTACATAATAATGGTGATTCCATTTTTGTTTTTTAGATGTTCTTTTGGTCT
66 GTGCATTTTCATGTTTACATACTAATGGTGATTCCATTTTTGTTTTTTAGATGTTCTTTTGGTCT
*
42050559 ATTTTCATGTTTCTATCCAACTTCTGTGTTTACTATGCAGTTTTGCCATATTTTGCTAAGGTGTA
131 ATTTTCATGTTTCTATCCAACTTCTGTGTTTACTGTGCAGTTTTGCCATATTTTGCTAAGGTGTA
42050624 TAGCTTCATTGGCAGTGTCTTTGATCCTGGTACAAGTGGGCACTTGCAAAACTGATATAGGTAAA
196 TAGCTTCATTGGCAGTGTCTTTGATCCTGGTACAAGTGGGCACTTGCAAAACTGATATAGGTAAA
*
42050689 GTTTCTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTACATCTATTCTAG
261 GTTTCTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTACATCTGTTCTAG
*
42050754 GTACTTATCTTTTATTTGCAAGAAACAGATTTAGGTAATGGAAGATGTATGCTTGTGTGTTTGTG
326 GTACTTATCTTTTATTTGCAAGAAACAGATTTAGGTAATGGAAGATGTATGCCTGTGTGTTTGTG
42050819 TCTCTATATATGTATGTATTTGGTACTAGATGAAAGCTTTACTCCAGTTTTGAAATATAGACCAG
391 TCTCTATATATGTATGTATTTGGTACTAGATGAAAGCTTTACTCCAGTTTTGAAATATAGACCAG
42050884 GTTTTGCATACATTGATCATTTTCTGGCTCTTTTCCTTCAAATACATGGTTCTCTTGAAATTAAA
456 GTTTTGCATACATTGATCATTTTCTGGCTCTTTTCCTTCAAATACATGGTTCTCTTGAAATTAAA
42050949 TGCTCAGGTACTTTCTGCACATTCTGTGATTCTTATTAGATAAGTTATAAATCAACAGTTATGTT
521 TGCTCAGGTACTTTCTGCACATTCTGTGATTCTTATTAGATAAGTTATAAATCAACAGTTATGTT
42051014 AGTTTTGATCAAGGCCTCTGTAAACATAAAGTTGGTATTCTGGTTAGGAG
586 AGTTTTGATCAAGGCCTCTGTAAACATAAAGTTGGTATTCTGGTTAGGAG
42051064 AAGTTAATGTTTATGAGTTTTGTGGAGTATGATTCTGCACATGCAAAGTTGGTTTGTTTAAAGCT
1 AAGTTAATGTTTATGAGTTTTGTGGAGTATGATTCTGCACATGCAAAGTTGGTTTGTTTAAAGCT
42051129 GTGCATTTTCATGTTTACATACTAATGGTGATTCCATTTTTGTTTTTTAGATGTTCTTTTGGTCT
66 GTGCATTTTCATGTTTACATACTAATGGTGATTCCATTTTTGTTTTTTAGATGTTCTTTTGGTCT
* *
42051194 GTTTTCATGTTTCTATCCAACTTATGTGTTTACTGTGCAGTTTTGCCATATTTTGCTAAGGTGTA
131 ATTTTCATGTTTCTATCCAACTTCTGTGTTTACTGTGCAGTTTTGCCATATTTTGCTAAGGTGTA
42051259 TAGCTTCATTGGCAGTGTCTTTGATCCTGGTACAAGTGGGCACTTGCAAAACTGATATAGGTAAA
196 TAGCTTCATTGGCAGTGTCTTTGATCCTGGTACAAGTGGGCACTTGCAAAACTGATATAGGTAAA
42051324 GTTTCTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTACATCTGTTCTAG
261 GTTTCTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTACATCTGTTCTAG
42051389 GTACT
326 GTACT
42051394 ATCGAGCACC
Statistics
Matches: 954, Mismatches: 11, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
635 954 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (635 bp):
AAGTTAATGTTTATGAGTTTTGTGGAGTATGATTCTGCACATGCAAAGTTGGTTTGTTTAAAGCT
GTGCATTTTCATGTTTACATACTAATGGTGATTCCATTTTTGTTTTTTAGATGTTCTTTTGGTCT
ATTTTCATGTTTCTATCCAACTTCTGTGTTTACTGTGCAGTTTTGCCATATTTTGCTAAGGTGTA
TAGCTTCATTGGCAGTGTCTTTGATCCTGGTACAAGTGGGCACTTGCAAAACTGATATAGGTAAA
GTTTCTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTACATCTGTTCTAG
GTACTTATCTTTTATTTGCAAGAAACAGATTTAGGTAATGGAAGATGTATGCCTGTGTGTTTGTG
TCTCTATATATGTATGTATTTGGTACTAGATGAAAGCTTTACTCCAGTTTTGAAATATAGACCAG
GTTTTGCATACATTGATCATTTTCTGGCTCTTTTCCTTCAAATACATGGTTCTCTTGAAATTAAA
TGCTCAGGTACTTTCTGCACATTCTGTGATTCTTATTAGATAAGTTATAAATCAACAGTTATGTT
AGTTTTGATCAAGGCCTCTGTAAACATAAAGTTGGTATTCTGGTTAGGAG
Found at i:42058457 original size:13 final size:14
Alignment explanation
Indices: 42058441--42058469 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
42058431 TTCTAAATAT
42058441 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
42058454 TTATAATTGTTTAA
1 TTATAATTGTTTAA
42058468 TT
1 TT
42058470 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:42058914 original size:21 final size:21
Alignment explanation
Indices: 42058881--42058931 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
42058871 ACAACTTAGA
*
42058881 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
42058902 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
42058923 GCAGAGGCA
1 GCAGAGGCA
42058932 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:42059232 original size:31 final size:31
Alignment explanation
Indices: 42059186--42059252 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
42059176 TGGTTGTATT
* *
42059186 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
42059217 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
42059248 TTTTA
1 TTTTA
42059253 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:42059351 original size:43 final size:42
Alignment explanation
Indices: 42059327--42059446 Score: 186
Period size: 43 Copynumber: 2.8 Consensus size: 42
42059317 GTAAAAAAAG
*
42059327 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCG-TTTTCCCACAAA
* * *
42059370 TGCTGCTAAAAGCCTTGACCTTTAGCGGCACTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGC-GTTTTCCCACAAA
42059413 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTT
42059447 TTTCCAATAA
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 4 0.06
43 65 0.94
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (42 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTCCCACAAA
Found at i:42066094 original size:17 final size:19
Alignment explanation
Indices: 42066067--42066104 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
42066057 AAAGTATCAC
42066067 TTTCATATCAA-TTAAGTG
1 TTTCATATCAACTTAAGTG
42066085 TTTC-TATCAACTTAAGTG
1 TTTCATATCAACTTAAGTG
42066103 TT
1 TT
42066105 AAATACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (19 bp):
TTTCATATCAACTTAAGTG
Found at i:42068675 original size:4 final size:4
Alignment explanation
Indices: 42068666--42068690 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
42068656 TAATTGGTTA
42068666 TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT T
42068691 TTTAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:42069570 original size:31 final size:31
Alignment explanation
Indices: 42069505--42069571 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
42069495 AATTTAACTG
* * * *
42069505 GTGACCAAAAAAGAAATATTCGAATAGTTAA
1 GTGACCAAAAAAGAAAAAGTCAAATAATTAA
* *
42069536 GTGATCAAAAAAGAAAAAGTCAAATAATTGA
1 GTGACCAAAAAAGAAAAAGTCAAATAATTAA
42069567 GTGAC
1 GTGAC
42069572 TATTTTATCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.52, C:0.09, G:0.18, T:0.21
Consensus pattern (31 bp):
GTGACCAAAAAAGAAAAAGTCAAATAATTAA
Found at i:42086102 original size:18 final size:17
Alignment explanation
Indices: 42086069--42086107 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
42086059 TTGTATAAAT
42086069 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
42086087 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
42086104 TGTG
1 TGTG
42086108 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:42086364 original size:23 final size:23
Alignment explanation
Indices: 42086334--42086430 Score: 142
Period size: 23 Copynumber: 4.3 Consensus size: 23
42086324 GTGTTATTGA
42086334 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* *
42086357 TCAATGGTAGCTTTGGCTACA-T
1 TCAGTGGTAGCTTCGGCTACATT
* *
42086379 CCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
*
42086402 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
42086425 TCAGTG
1 TCAGTG
42086431 TGGCACTTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
22 19 0.29
23 47 0.71
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.32
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:42086399 original size:45 final size:45
Alignment explanation
Indices: 42086335--42086423 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
42086325 TGTTATTGAT
* *
42086335 CAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAATGGTAGCTTCGGCTACATC
*
42086380 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAATGGTAGCTTCGGCTACAT
42086424 ATCAGTGTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAATGGTAGCTTCGGCTACATC
Found at i:42093475 original size:18 final size:17
Alignment explanation
Indices: 42093442--42093480 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
42093432 TTGTATAAAT
42093442 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
42093460 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
42093477 TGTG
1 TGTG
42093481 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:42093737 original size:23 final size:23
Alignment explanation
Indices: 42093707--42093803 Score: 142
Period size: 23 Copynumber: 4.3 Consensus size: 23
42093697 GTGTTATTGA
42093707 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* *
42093730 TCAATGGTAGCTTTGGCTACA-T
1 TCAGTGGTAGCTTCGGCTACATT
* *
42093752 CCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
*
42093775 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
42093798 TCAGTG
1 TCAGTG
42093804 TGGCACTTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
22 19 0.29
23 47 0.71
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.32
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:42093772 original size:45 final size:45
Alignment explanation
Indices: 42093708--42093796 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
42093698 TGTTATTGAT
* *
42093708 CAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAATGGTAGCTTCGGCTACATC
*
42093753 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAATGGTAGCTTCGGCTACAT
42093797 ATCAGTGTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAATGGTAGCTTCGGCTACATC
Found at i:42096103 original size:592 final size:592
Alignment explanation
Indices: 42094974--42096134 Score: 2079
Period size: 592 Copynumber: 2.0 Consensus size: 592
42094964 GGGTGTTACA
*
42094974 AAAAATTCAAATTGCTATGTGGAAATTCCTAAAACATTTTTTGCCTACAAGGTCAAGTTTATACA
1 AAAAATTCAAATTGCTATGTGGAAATTCCTAAAACATTTTTTGCCTACAAGATCAAGTTTATACA
42095039 ATAAGCGTATTACAAATGATCCTTTGTGTCTTAGATGTTATCAAGCTATTAAGGATATGAATTAT
66 ATAAGCGTATTACAAATGATCCTTTGTGTCTTAGATGTTATCAAGCTATTAAGGATATGAATTAT
*
42095104 GTCCTACGATACTGTGTTTTTGCAAAGGATGTGTGGTTAGCTTTACATTATGTTAGCTCAGGAAA
131 ATCCTACGATACTGTGTTTTTGCAAAGGATGTGTGGTTAGCTTTACATTATGTTAGCTCAGGAAA
* * *
42095169 TAATGAACATATCAACTTTCATTAATGGCTATCATGGATGTTTGAAAATCATTCTATGAATAAAA
196 TAATGAACAGATCAACTTTCATGAATGGCTATCATGAATGTTTGAAAATCATTCTATGAATAAAA
*
42095234 GAACTGAGATTGCAGTTGTGTTGTAGGCTATCTGGTATGCTAGAAATAAGATGCTATATAAGGGT
261 GAACTGAGATTGCAGTTGTGTTGTAGGCTATCTGGTATGCTAGAAATAAGATGCTACATAAGGGT
* * *
42095299 ACAAATGAGAAGATAGAGGATTTGGTTGCTTTTGTCTGAGGTTACTATGCGAAGATTAATGCGCT
326 ACAAACGAGAAGATAGAGGATTTGGTTGCTTTTGTCTGAGGTTACTATGCAAAGATTAAAGCGCT
* *
42095364 GGCTGAAAGTATATATTTGTCTCCTCCACCTCAAATTGTTCGCTAATGCCTTCTGTCGACATCTC
391 GGCTGAAAGTATATATTTGTCGCCTCCACCTCAAATTGTTCGCTAATCCCTTCTGTCGACATCTC
* * * * * *
42095429 TTGTCAAGATAAAAGTTGATGTTAGCTTTTCTCTTGCATAGAGAAAGGCATGTTCAAGAGTAATC
456 TTATCAAGATAAAAATTGATGCTAGCTTTTCCCTTGCATAAAAAAAGGCATGTTCAAGAGTAATC
*
42095494 ATTTGGGACGGACATGGACAAATTATGGGGGTGTTATAGTATCTAATACGCATGAATGCTCTCTT
521 ATTTGGGACGAACATGGACAAATTATGGGGGTGTTATAGTATCTAATACGCATGAATGCTCTCTT
42095559 GCCCTCT
586 GCCCTCT
** *
42095566 AAAAATTTGAATTGGTATGTGGAAATTCCTAAAACATTTTTTGCCTACAAGATCAAGTTTATACA
1 AAAAATTCAAATTGCTATGTGGAAATTCCTAAAACATTTTTTGCCTACAAGATCAAGTTTATACA
*
42095631 ATAAGCGTATTGCAAATGATCCTTTGTGTCTTAGATGTTATCAAGCTATTAAGGATATGAATTAT
66 ATAAGCGTATTACAAATGATCCTTTGTGTCTTAGATGTTATCAAGCTATTAAGGATATGAATTAT
42095696 ATCCTACGATACTGTGTTTTTGCAAAGGATGTGTGGTTAGCTTTACATTATGTTAGCTCAGGAAA
131 ATCCTACGATACTGTGTTTTTGCAAAGGATGTGTGGTTAGCTTTACATTATGTTAGCTCAGGAAA
*
42095761 TAATGAACAGATCAACTTTCATGAATGGCTATCATGAATGTTTGAAAATTATTCTATGAATAAAA
196 TAATGAACAGATCAACTTTCATGAATGGCTATCATGAATGTTTGAAAATCATTCTATGAATAAAA
* *
42095826 GAATTGAGATTGCAGTTGTGTTGTAGGCTATCTGGTATGCTAGAAATAAGCTGCTACATAAGGGT
261 GAACTGAGATTGCAGTTGTGTTGTAGGCTATCTGGTATGCTAGAAATAAGATGCTACATAAGGGT
* *
42095891 ACAAACGAGAGGGTAGAGGATTTGGTTGCTTTTGTCTGAGGTTACTATGCAAAGATTAAAGCGCT
326 ACAAACGAGAAGATAGAGGATTTGGTTGCTTTTGTCTGAGGTTACTATGCAAAGATTAAAGCGCT
42095956 GGCTGAAAGTATATATTTGTCGCCTCCACCTCAAATTGTTCGCTAATCCCTTCTGTCGACATCTC
391 GGCTGAAAGTATATATTTGTCGCCTCCACCTCAAATTGTTCGCTAATCCCTTCTGTCGACATCTC
42096021 TTATCAAGATAAAAATTGATGCTAGCTTTTCCCTTGCATAAAAAAAGGCATGTTCAAGAGTAATC
456 TTATCAAGATAAAAATTGATGCTAGCTTTTCCCTTGCATAAAAAAAGGCATGTTCAAGAGTAATC
42096086 ATTTGGGACGAACATGGACAAATTATGGGGGTGTTATAGTATCTAATAC
521 ATTTGGGACGAACATGGACAAATTATGGGGGTGTTATAGTATCTAATAC
42096135 AAACGTGATT
Statistics
Matches: 542, Mismatches: 27, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
592 542 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (592 bp):
AAAAATTCAAATTGCTATGTGGAAATTCCTAAAACATTTTTTGCCTACAAGATCAAGTTTATACA
ATAAGCGTATTACAAATGATCCTTTGTGTCTTAGATGTTATCAAGCTATTAAGGATATGAATTAT
ATCCTACGATACTGTGTTTTTGCAAAGGATGTGTGGTTAGCTTTACATTATGTTAGCTCAGGAAA
TAATGAACAGATCAACTTTCATGAATGGCTATCATGAATGTTTGAAAATCATTCTATGAATAAAA
GAACTGAGATTGCAGTTGTGTTGTAGGCTATCTGGTATGCTAGAAATAAGATGCTACATAAGGGT
ACAAACGAGAAGATAGAGGATTTGGTTGCTTTTGTCTGAGGTTACTATGCAAAGATTAAAGCGCT
GGCTGAAAGTATATATTTGTCGCCTCCACCTCAAATTGTTCGCTAATCCCTTCTGTCGACATCTC
TTATCAAGATAAAAATTGATGCTAGCTTTTCCCTTGCATAAAAAAAGGCATGTTCAAGAGTAATC
ATTTGGGACGAACATGGACAAATTATGGGGGTGTTATAGTATCTAATACGCATGAATGCTCTCTT
GCCCTCT
Found at i:42109052 original size:20 final size:20
Alignment explanation
Indices: 42109027--42109065 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
42109017 AAAGCTGGCC
42109027 ACATGTTTAAGCATAATCAT
1 ACATGTTTAAGCATAATCAT
42109047 ACATGTTTAAGCATAATCA
1 ACATGTTTAAGCATAATCA
42109066 CATAATATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (20 bp):
ACATGTTTAAGCATAATCAT
Found at i:42113814 original size:21 final size:22
Alignment explanation
Indices: 42113790--42113835 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
42113780 AAAGTTAAAT
42113790 TTTATTATTAACAAAT-TTTAG
1 TTTATTATTAACAAATATTTAG
**
42113811 TTTATTATTAATTAATATTTAG
1 TTTATTATTAACAAATATTTAG
42113833 TTT
1 TTT
42113836 TAAGTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (22 bp):
TTTATTATTAACAAATATTTAG
Found at i:42114008 original size:38 final size:37
Alignment explanation
Indices: 42113966--42114071 Score: 85
Period size: 34 Copynumber: 2.9 Consensus size: 37
42113956 ATCGAATTTC
42113966 ATTTTAATTGAAATTTAAATTGAATATTTTAAATTTTT
1 ATTTTAATT-AAATTTAAATTGAATATTTTAAATTTTT
* **
42114004 ATTTTGAAATAAATTTACTTTGAAT-TTTT--A-TTTT
1 ATTTT-AATTAAATTTAAATTGAATATTTTAAATTTTT
* * * * *
42114038 ATTCTAATTCAAATATATATTAAATATTTAAAAT
1 ATTTTAATT-AAATTTAAATTGAATATTTTAAAT
42114072 AAATTACATA
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
33 3 0.06
34 19 0.37
35 4 0.08
37 5 0.10
38 18 0.35
39 3 0.06
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (37 bp):
ATTTTAATTAAATTTAAATTGAATATTTTAAATTTTT
Found at i:42116143 original size:20 final size:20
Alignment explanation
Indices: 42116115--42116154 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
42116105 ATATATCTTG
* *
42116115 ATTTTATTTTATTCTAATCA
1 ATTTGATTTGATTCTAATCA
*
42116135 ATTTGATTTGATTTTAATCA
1 ATTTGATTTGATTCTAATCA
42116155 GATTGACTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (20 bp):
ATTTGATTTGATTCTAATCA
Found at i:42116650 original size:20 final size:21
Alignment explanation
Indices: 42116608--42116664 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
42116598 TGAATTTTAA
*
42116608 ATATAAATATTTATTTTATTTT
1 ATATAAATATTT-GTTTATTTT
42116630 ATATAAATATTTGTTTA-TTT
1 ATATAAATATTTGTTTATTTT
**
42116650 ATATTCATATTTGTT
1 ATATAAATATTTGTT
42116665 CGCTATCGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 16 0.50
21 4 0.12
22 12 0.38
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (21 bp):
ATATAAATATTTGTTTATTTT
Found at i:42117033 original size:87 final size:86
Alignment explanation
Indices: 42116779--42117029 Score: 310
Period size: 87 Copynumber: 2.9 Consensus size: 86
42116769 TGAAATAAAA
* * * * * * * *
42116779 ATTAAAATTGAATAAAATCTATTTTGGGATTTATTCCCGCTGTTCAACAGATTTTATTCTATTTT
1 ATTAAAATTAAATAAAATCTGTTTTGAGATTTATTCCCTCTGTTTAATA-ATTTTATTCCAATTT
* *
42116844 TTATTTTATTTCCAAAATAAGT
65 TGATTTTATTTCCAAAACAAGT
*
42116866 ATTAAAATTAAATAAAATCTG-TTTCAGGATTTATTCCCGTC-GTTTAACTAATTTTATTCCAAT
1 ATTAAAATTAAATAAAATCTGTTTTGA-GATTTATTCCC-TCTGTTTAA-TAATTTTATTCCAAT
* *
42116929 TTTGATTTTGTTTCCAAAACGAGT
63 TTTGATTTTATTTCCAAAACAAGT
*
42116953 ATTAAAATTAAATAAAATCTGTTTTGAGATTTATTCTCTCTGTTTAATGAATTTTATTCCAATTT
1 ATTAAAATTAAATAAAATCTGTTTTGAGATTTATTCCCTCTGTTTAAT-AATTTTATTCCAATTT
42117018 TGATTTT-TTTCC
65 TGATTTTATTTCC
42117030 CAAATGAGAA
Statistics
Matches: 143, Mismatches: 15, Indels: 13
0.84 0.09 0.08
Matches are distributed among these distances:
86 11 0.08
87 126 0.88
88 6 0.04
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.47
Consensus pattern (86 bp):
ATTAAAATTAAATAAAATCTGTTTTGAGATTTATTCCCTCTGTTTAATAATTTTATTCCAATTTT
GATTTTATTTCCAAAACAAGT
Found at i:42117361 original size:91 final size:95
Alignment explanation
Indices: 42117180--42117365 Score: 218
Period size: 91 Copynumber: 2.0 Consensus size: 95
42117170 CTCATTTTGA
* * * *
42117180 AAATAAAATAAAAAATGGAATGAAATCTATTGAAGGACAGTAATAAATTCCGGAACAGATTTTAT
1 AAATAAAAT-AAAAATGGAATGAAATCCATTGAAGGACAGGAATAAATCCCGAAACAGATTTTAT
* * *
42117245 TTAACTTTAATTCTTGTTTGGAAATAAAATG
65 TCAACTTTAATTCTTATTTGCAAATAAAATG
* *
42117276 AAATAAAAT-AAAAT-GAATGAAATCCGTTGAA-G-CAGGAATAAATCCCGAAATAGATTTTATT
1 AAATAAAATAAAAATGGAATGAAATCCATTGAAGGACAGGAATAAATCCCGAAACAGATTTTATT
* * * *
42117337 CAATTTTTATTTTTATTTTCAAATAAAAT
66 CAACTTTAATTCTTATTTGCAAATAAAAT
42117366 ACAATTCGTT
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
91 47 0.61
92 1 0.01
93 15 0.19
94 5 0.06
96 9 0.12
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (95 bp):
AAATAAAATAAAAATGGAATGAAATCCATTGAAGGACAGGAATAAATCCCGAAACAGATTTTATT
CAACTTTAATTCTTATTTGCAAATAAAATG
Found at i:42118668 original size:20 final size:20
Alignment explanation
Indices: 42118631--42118669 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
42118621 ATAGGGACTA
* * *
42118631 TATTAAATTAGTCTATTTAT
1 TATTAAATGAATCAATTTAT
42118651 TATTAAATGAATCAATTTA
1 TATTAAATGAATCAATTTA
42118670 GTCCTTTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (20 bp):
TATTAAATGAATCAATTTAT
Found at i:42119018 original size:58 final size:58
Alignment explanation
Indices: 42118956--42119074 Score: 211
Period size: 58 Copynumber: 2.1 Consensus size: 58
42118946 TATAATATAG
* *
42118956 GGATCTCCCAAGTACTTAATAATAAAGGGGTCTGTTTGTTTCATTGAAAGTAACTTTT
1 GGATCTCCCAAGTACTTAATAATAAAGGGATCTGTTTGTTTCACTGAAAGTAACTTTT
*
42119014 GGATCTCCCAAGTACTTAATAATAAAGGGATCTGTTTGTTTCACTGAAAGTAGCTTTT
1 GGATCTCCCAAGTACTTAATAATAAAGGGATCTGTTTGTTTCACTGAAAGTAACTTTT
42119072 GGA
1 GGA
42119075 AAATGATTTA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.36
Consensus pattern (58 bp):
GGATCTCCCAAGTACTTAATAATAAAGGGATCTGTTTGTTTCACTGAAAGTAACTTTT
Found at i:42123004 original size:3 final size:3
Alignment explanation
Indices: 42122996--42123033 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
42122986 TAATATGTAA
42122996 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
42123034 ATAAATAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:42123198 original size:3 final size:3
Alignment explanation
Indices: 42123190--42123352 Score: 82
Period size: 3 Copynumber: 53.0 Consensus size: 3
42123180 TATATGAATA
* * *
42123190 AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AGTT AAGT AGAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA-T A-AT AAT
* * * * * * *
42123238 AAT AAT AGT ACATT AAC AAG ACA- AAT AAT -AT AAT AAC AGT GAT AGT
1 AAT AAT AAT A-A-T AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * **
42123284 ATT AA- AGAA AAT AAT AAT ACT AAT AAT AGT AAT AA- ATAT AAT GGT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
42123329 AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
42123353 CATCTAAACT
Statistics
Matches: 120, Mismatches: 28, Indels: 24
0.70 0.16 0.14
Matches are distributed among these distances:
2 5 0.04
3 103 0.86
4 9 0.08
5 3 0.03
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:42123619 original size:3 final size:3
Alignment explanation
Indices: 42123605--42123676 Score: 58
Period size: 3 Copynumber: 23.7 Consensus size: 3
42123595 ATAATGACAG
* * *
42123605 TAA TAG TAA TAA TAA TAAA TAA TAAA TAA TAC TAG TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* *
42123651 TAA TAA TAG TAAA TAA -AA TAA AAA TA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TA
42123677 GCAATGAGAA
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
2 4 0.07
3 43 0.78
4 8 0.15
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:42123643 original size:20 final size:19
Alignment explanation
Indices: 42123605--42123677 Score: 85
Period size: 20 Copynumber: 3.8 Consensus size: 19
42123595 ATAATGACAG
* *
42123605 TAATAGTAATAATAATAAA
1 TAATAATAATAATAGTAAA
*
42123624 TAATAAATAATACTAGTAAAA
1 TAAT-AATAATAATAGT-AAA
42123645 TAATAATAATAATAGTAAA
1 TAATAATAATAATAGTAAA
*
42123664 TAA-AATAAAAATAG
1 TAATAATAATAATAG
42123678 CAATGAGAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
18 10 0.21
19 10 0.21
20 20 0.43
21 7 0.15
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.29
Consensus pattern (19 bp):
TAATAATAATAATAGTAAA
Found at i:42123672 original size:9 final size:10
Alignment explanation
Indices: 42123612--42123676 Score: 57
Period size: 10 Copynumber: 6.7 Consensus size: 10
42123602 CAGTAATAGT
42123612 AATAATAATA
1 AATAATAATA
42123622 AATAATAA-A
1 AATAATAATA
* *
42123631 TAATACTAGTAA
1 -AATAATAAT-A
42123643 AATAATAAT-
1 AATAATAATA
*
42123652 AATAATAGTA
1 AATAATAATA
42123662 AATAA-AATA
1 AATAATAATA
42123671 AA-AATA
1 AATAATA
42123677 GCAATGAGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
8 2 0.05
9 15 0.34
10 19 0.43
11 7 0.16
12 1 0.02
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.28
Consensus pattern (10 bp):
AATAATAATA
Found at i:42125414 original size:67 final size:67
Alignment explanation
Indices: 42125306--42125440 Score: 225
Period size: 67 Copynumber: 2.0 Consensus size: 67
42125296 AGCATAAGTA
* * *
42125306 AATGTAACCCCTCGAATTGAACTTGTGAGTCTGTGATAGGCTATGACCGAGGCTTCGTACTAATC
1 AATGTAACCCCTCGAATTGAACTCGTGAGCCTGTGATAGGCTATGACCGAGGCTCCGTACTAATC
42125371 TT
66 TT
**
42125373 AATGTAACCCCTCGAATTGAACTCGTGAGCCTGTGATAGGCTATGACCGAGGCTCCGTGTTAATC
1 AATGTAACCCCTCGAATTGAACTCGTGAGCCTGTGATAGGCTATGACCGAGGCTCCGTACTAATC
42125438 TT
66 TT
42125440 A
1 A
42125441 GTAGATGATA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (67 bp):
AATGTAACCCCTCGAATTGAACTCGTGAGCCTGTGATAGGCTATGACCGAGGCTCCGTACTAATC
TT
Found at i:42130333 original size:102 final size:102
Alignment explanation
Indices: 42130157--42130360 Score: 390
Period size: 102 Copynumber: 2.0 Consensus size: 102
42130147 TGTAGGACTG
*
42130157 AACTTCTTCTGTACCAATAATATCGCAGAATATGAGGCCTGTATCATGGGGCTTCGTGCAGCTAT
1 AACTTCATCTGTACCAATAATATCGCAGAATATGAGGCCTGTATCATGGGGCTTCGTGCAGCTAT
42130222 CGAACGAAACATCGAGATCTTGGAGGTGTACGGGGAC
66 CGAACGAAACATCGAGATCTTGGAGGTGTACGGGGAC
42130259 AACTTCATCTGTACCAATAATATCGCAGAATATGAGGCCTGTATCATGGGGCTTCGTGCAGCTAT
1 AACTTCATCTGTACCAATAATATCGCAGAATATGAGGCCTGTATCATGGGGCTTCGTGCAGCTAT
*
42130324 CTAACGAAACATCGAGATCTTGGAGGTGTACGGGGAC
66 CGAACGAAACATCGAGATCTTGGAGGTGTACGGGGAC
42130361 TCAGCCCTAG
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 100 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (102 bp):
AACTTCATCTGTACCAATAATATCGCAGAATATGAGGCCTGTATCATGGGGCTTCGTGCAGCTAT
CGAACGAAACATCGAGATCTTGGAGGTGTACGGGGAC
Found at i:42132893 original size:71 final size:70
Alignment explanation
Indices: 42132771--42132946 Score: 221
Period size: 71 Copynumber: 2.5 Consensus size: 70
42132761 CTTTCCAAGG
** *
42132771 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
*
42132835 TTTTTT
65 TGTTTT
** *
42132841 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
42132906 TGTTTT
65 TGTTTT
** * *
42132912 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
42132947 TTTAATTTTT
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
69 31 0.33
71 60 0.65
72 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTT
Done.