Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 31 of 295
Found at i:9264067 original size:20 final size:18
Alignment explanation
Indices: 9264017--9264068 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
9264007 ATATAAGATA
9264017 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
9264034 AATATTAAGA-TAATCATTTT
1 AATATTAA-ATTAAT-A-TTT
9264054 AATATTAAATTAATA
1 AATATTAAATTAATA
9264069 AATTACTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:9264594 original size:13 final size:13
Alignment explanation
Indices: 9264578--9264613 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
9264568 TTTTTCAGGA
9264578 AAATTATTTAATC
1 AAATTATTTAATC
9264591 AAATTATTTAATC
1 AAATTATTTAATC
*
9264604 AAATTCTTTA
1 AAATTATTTA
9264614 GTTGAACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATTATTTAATC
Found at i:9270683 original size:100 final size:100
Alignment explanation
Indices: 9270510--9270710 Score: 366
Period size: 100 Copynumber: 2.0 Consensus size: 100
9270500 AGTTTGACCC
*
9270510 TTATTTTGACTTTTCTTTTCTTTCTTTTTAATGTGTTATCTCTTCAAACACGAGAGTGTATAGCT
1 TTATTTTGACTTTTCTTTTCTTTCTTTTTAATCTGTTATCTCTTCAAACACGAGAGTGTATAGCT
*
9270575 TAGATTCGATGTTTATCCTTTTCCACGATTTAAAA
66 TAGATTCGATGTTTATCCGTTTCCACGATTTAAAA
* *
9270610 TTATTTTGGCTTTTCTTTTCTTTCTTTTTAATCTTTTATCTCTTCAAACACGAGAGTGTATAGCT
1 TTATTTTGACTTTTCTTTTCTTTCTTTTTAATCTGTTATCTCTTCAAACACGAGAGTGTATAGCT
9270675 TAGATTCGATGTTTATCCGTTTCCACGATTTAAAA
66 TAGATTCGATGTTTATCCGTTTCCACGATTTAAAA
9270710 T
1 T
9270711 CACTGATTTT
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.49
Consensus pattern (100 bp):
TTATTTTGACTTTTCTTTTCTTTCTTTTTAATCTGTTATCTCTTCAAACACGAGAGTGTATAGCT
TAGATTCGATGTTTATCCGTTTCCACGATTTAAAA
Found at i:9271074 original size:28 final size:28
Alignment explanation
Indices: 9271034--9271095 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
9271024 TAAGTTCACC
9271034 GCAAATTCTGGATTTGTACTCTTAACTT
1 GCAAATTCTGGATTTGTACTCTTAACTT
9271062 GCAAATTCTGGATTTGTACTCTTAACTT
1 GCAAATTCTGGATTTGTACTCTTAACTT
*
9271090 ACAAAT
1 GCAAAT
9271096 AGTATGTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (28 bp):
GCAAATTCTGGATTTGTACTCTTAACTT
Found at i:9274319 original size:12 final size:12
Alignment explanation
Indices: 9274297--9274345 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
9274287 TTAATATAAA
9274297 AAAATTA-TATT
1 AAAATTATTATT
9274308 AAAATTATTATT
1 AAAATTATTATT
9274320 -AAATT-TTAATT
1 AAAATTATT-ATT
* *
9274331 ATAATTTTTATT
1 AAAATTATTATT
9274343 AAA
1 AAA
9274346 TTACATTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
10 2 0.06
11 15 0.47
12 13 0.41
13 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
AAAATTATTATT
Found at i:9274552 original size:46 final size:43
Alignment explanation
Indices: 9274468--9274559 Score: 123
Period size: 46 Copynumber: 2.1 Consensus size: 43
9274458 AACAACATCT
*
9274468 ATTTCATTCACCAAACACAAGAATACTATTACAGTTCTATTCC
1 ATTTCATTCACCAAACACAAGAATACTAATACAGTTCTATTCC
*
9274511 ATTTCATTCAGCCAAACA-ATTGAATTACTAAATACAGTTCTATTCC
1 ATTTCATTCA-CCAAACACA-AGAA-TACT-AATACAGTTCTATTCC
9274557 ATT
1 ATT
9274560 ACAATTTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
43 11 0.26
44 10 0.23
45 4 0.09
46 18 0.42
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (43 bp):
ATTTCATTCACCAAACACAAGAATACTAATACAGTTCTATTCC
Found at i:9277719 original size:15 final size:15
Alignment explanation
Indices: 9277695--9277765 Score: 115
Period size: 15 Copynumber: 4.7 Consensus size: 15
9277685 TAACTTTGGA
*
9277695 GGTGGCGGCTACGGT
1 GGTGGTGGCTACGGT
9277710 GGTGGTGGCTACGGT
1 GGTGGTGGCTACGGT
9277725 GGTGGTGGCTACGGT
1 GGTGGTGGCTACGGT
*
9277740 GGTGGTGGCTACGGC
1 GGTGGTGGCTACGGT
*
9277755 GGTGGAGGCTA
1 GGTGGTGGCTA
9277766 TGGAAGTGGT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 53 1.00
ACGTcount: A:0.08, C:0.15, G:0.54, T:0.23
Consensus pattern (15 bp):
GGTGGTGGCTACGGT
Found at i:9277775 original size:30 final size:30
Alignment explanation
Indices: 9277695--9277778 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 30
9277685 TAACTTTGGA
* ** *
9277695 GGTGGCGGCTACGGTGGTGGTGGCTACGGT
1 GGTGGAGGCTACGGAAGTGGTGGCTACGGC
* **
9277725 GGTGGTGGCTACGGTGGTGGTGGCTACGGC
1 GGTGGAGGCTACGGAAGTGGTGGCTACGGC
*
9277755 GGTGGAGGCTATGGAAGTGGTGGC
1 GGTGGAGGCTACGGAAGTGGTGGC
9277779 GGTGGATATG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.10, C:0.14, G:0.54, T:0.23
Consensus pattern (30 bp):
GGTGGAGGCTACGGAAGTGGTGGCTACGGC
Found at i:9283470 original size:29 final size:31
Alignment explanation
Indices: 9283438--9283502 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 31
9283428 AAAATTATAA
* *
9283438 AAAATTA-ATATATATAATTAAA-AAATATT
1 AAAATTACATAAAAATAATTAAATAAATATT
* *
9283467 AAAA-AACATAAAAATAATTAAATATATATT
1 AAAATTACATAAAAATAATTAAATAAATATT
9283497 AAAATT
1 AAAATT
9283503 TATTAAAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
28 1 0.04
29 17 0.61
30 10 0.36
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAATTACATAAAAATAATTAAATAAATATT
Found at i:9283511 original size:11 final size:11
Alignment explanation
Indices: 9283449--9283516 Score: 56
Period size: 10 Copynumber: 6.5 Consensus size: 11
9283439 AAATTAATAT
9283449 ATATAATTAAAA
1 ATAT-ATTAAAA
9283461 A-ATATTAAAA
1 ATATATTAAAA
*
9283471 A-ACA-TAAAA
1 ATATATTAAAA
*
9283480 ATA-ATTAAAT
1 ATATATTAAAA
9283490 ATATATT-AAA
1 ATATATTAAAA
*
9283500 ATTTATTAAAA
1 ATATATTAAAA
*
9283511 AGATAT
1 ATATAT
9283517 ATAATAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
9 7 0.15
10 26 0.57
11 12 0.26
12 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (11 bp):
ATATATTAAAA
Found at i:9285500 original size:34 final size:34
Alignment explanation
Indices: 9285461--9285529 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
9285451 GTGATCTTTG
9285461 TTTTATTTTTGCAAAAGAGATGAAATGAATGCCA
1 TTTTATTTTTGCAAAAGAGATGAAATGAATGCCA
9285495 TTTTATTTTTGCAAAAGAGATGAAATGAATGCCA
1 TTTTATTTTTGCAAAAGAGATGAAATGAATGCCA
9285529 T
1 T
9285530 CTTTTTTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (34 bp):
TTTTATTTTTGCAAAAGAGATGAAATGAATGCCA
Found at i:9288210 original size:22 final size:22
Alignment explanation
Indices: 9288182--9288226 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
9288172 AACCAATGTG
9288182 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
9288204 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
9288226 T
1 T
9288227 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:9291983 original size:22 final size:22
Alignment explanation
Indices: 9291953--9291997 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9291943 AGGGGGAGTG
*
9291953 TAGGTATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
9291975 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
9291997 T
1 T
9291998 TTTATTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.02, G:0.16, T:0.51
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:9292373 original size:97 final size:98
Alignment explanation
Indices: 9292207--9292403 Score: 369
Period size: 97 Copynumber: 2.0 Consensus size: 98
9292197 CCAAGTCCAA
9292207 GTAAACATACAAGTATAAGAAACCGTTTCTAAGGCAGTTTAACTCATTATAAAGATGGAGGAAAA
1 GTAAACATACAAGTATAAGAAACCGTTTCTAAGGCAGTTTAACTCATTATAAAGATGGAGGAAAA
*
9292272 GGTAATCAATTCAATATC-TATTCTCTTTCTAT
66 GGTAATCAATTCAACATCTTATTCTCTTTCTAT
*
9292304 GTAAATATACAAGTATAAGAAACCGTTTCTAAGGCAGTTTAACTCATTATAAAGATGGAGGAAAA
1 GTAAACATACAAGTATAAGAAACCGTTTCTAAGGCAGTTTAACTCATTATAAAGATGGAGGAAAA
9292369 GGTAATCAATTCAACATCTTATTCTCTTTCTAT
66 GGTAATCAATTCAACATCTTATTCTCTTTCTAT
9292402 GT
1 GT
9292404 TGAACTCTGA
Statistics
Matches: 97, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
97 81 0.84
98 16 0.16
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (98 bp):
GTAAACATACAAGTATAAGAAACCGTTTCTAAGGCAGTTTAACTCATTATAAAGATGGAGGAAAA
GGTAATCAATTCAACATCTTATTCTCTTTCTAT
Found at i:9294953 original size:30 final size:32
Alignment explanation
Indices: 9294917--9294976 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
9294907 TACTTATCTC
*
9294917 ATATTTTTACT-TT-TTTTTATGTTATATCAT
1 ATATTTTGACTATTATTTTTATGTTATATCAT
* *
9294947 ATATTTTGATTATTATTTTTATTTTATATC
1 ATATTTTGACTATTATTTTTATGTTATATC
9294977 CCACCTTGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 9 0.36
31 2 0.08
32 14 0.56
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (32 bp):
ATATTTTGACTATTATTTTTATGTTATATCAT
Found at i:9300149 original size:133 final size:133
Alignment explanation
Indices: 9299911--9300183 Score: 546
Period size: 133 Copynumber: 2.1 Consensus size: 133
9299901 TTTTTTCATC
9299911 ATAGTGGGGGCAGATTGTGATGCCCAAAGTACTATTATTCTTGGTACATGTGAGTTTGTAGAGGG
1 ATAGTGGGGGCAGATTGTGATGCCCAAAGTACTATTATTCTTGGTACATGTGAGTTTGTAGAGGG
9299976 TATTGAAAATAAGCAACACAATATGTGTTGTTTTGGCCCACATAATAGGGGTCATTATGAGTGGC
66 TATTGAAAATAAGCAACACAATATGTGTTGTTTTGGCCCACATAATAGGGGTCATTATGAGTGGC
9300041 ATA
131 ATA
9300044 ATAGTGGGGGCAGATTGTGATGCCCAAAGTACTATTATTCTTGGTACATGTGAGTTTGTAGAGGG
1 ATAGTGGGGGCAGATTGTGATGCCCAAAGTACTATTATTCTTGGTACATGTGAGTTTGTAGAGGG
9300109 TATTGAAAATAAGCAACACAATATGTGTTGTTTTGGCCCACATAATAGGGGTCATTATGAGTGGC
66 TATTGAAAATAAGCAACACAATATGTGTTGTTTTGGCCCACATAATAGGGGTCATTATGAGTGGC
9300174 ATA
131 ATA
9300177 ATAGTGG
1 ATAGTGG
9300184 CTTTACTAGT
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
133 140 1.00
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (133 bp):
ATAGTGGGGGCAGATTGTGATGCCCAAAGTACTATTATTCTTGGTACATGTGAGTTTGTAGAGGG
TATTGAAAATAAGCAACACAATATGTGTTGTTTTGGCCCACATAATAGGGGTCATTATGAGTGGC
ATA
Found at i:9311132 original size:918 final size:915
Alignment explanation
Indices: 9309221--9311068 Score: 3396
Period size: 918 Copynumber: 2.0 Consensus size: 915
9309211 TTTCTTTTTT
* * * *
9309221 AATTTTAATTTTAATTTTCCTTC-TTTCATTATTCAACTCGACCAAATAACGGATGGAAAGAAAA
1 AATTTAAATTTTAATTTT-C-TCAGTTAATTATTCAACTTGA-CAAATAACGGATGGAAAGAAAA
9309285 TTACTT-TT-TTTTTTTTAATCTTTCCAACCAAGACACCAATGGAAGGAATATATAGATGTATAT
63 TTA-TTCTTCTTTTTTTTAATCTTTCCAACCAAGACACCAATGGAAGGAATATATAGATGTATAT
9309348 ATATTTTCTATCTTTTCATCTTTCTCCTCCTCCAGTTTTCCATCATTACAATTTTCTTTCACCTT
127 ATATTTTCTATCTTTTCATCTTTCTCCTCCTCCAGTTTTCCATCATTACAATTTTCTTTCACCTT
*
9309413 AAACAATCAAAGTCTAAAGGCACCTGAGTGCTCAAAATTCTCTTATGGCTATTCGTTCTTGGTCA
192 AAACAATCAAAGTCTAAAGGCACCTGAGTGCTCAAAATTCTCTTATGGCTATCCGTTCTTGGTCA
9309478 TCCAAATACATTGTACAAAGAGATACTAAATGATTTACCCTGGCAAATGACTCACGGTACCTCAA
257 TCCAAATACATTGTACAAAGAGATACTAAATGATTTACCCTGGCAAATGACTCACGGTACCTCAA
9309543 AACCCAACAACAAAGTCAAAAAATAAGTAAATCAAACCAAGATTCAATCAAAGATAATATGTGAG
322 AACCCAACAACAAAGTCAAAAAATAAGTAAATCAAACCAAGATTCAATCAAAGATAATATGTGAG
*
9309608 AATGAATCTTTTCGAGGAAACATGGAATATGCACGGTACCTCGGAACACACTTCAAATCACTAGA
387 AATGAATCTTTTCGAGGAAACATGGAATATGCACGGTACCTCGAAACACACTTCAAATCACTAGA
*
9309673 TTTCGAGTTTGGGAGCTCATGTTATGACCATTTTAGTGAAGATTGCGCGAGCAGAATTACTCGAT
452 TTTCGAGTTTGGGAGCTCATGTTATGACCATTTTAGTGAAGATTGCGCGAGCAAAATTACTCGAT
9309738 GGAATTATGACAAAAACTACGAATTTTAGACTTTTAATTCGAGTTTAAATCAAATTGAGTTTGGT
517 GGAATTATGACAAAAACTACGAATTTTAGACTTTTAATTCGAGTTTAAATCAAATTGAGTTTGGT
9309803 TTTTAGGCTTAATTTTTATTTATATATGAGCCCAATATTGTATTTATTAAGTTTTATTATTTTAT
582 TTTTAGGCTTAATTTTTATTTATATATGAGCCCAATATTGTATTTATTAAGTTTTATTATTTTAT
9309868 TATTTATTTATTCTTAATTTTAGATATTGTTTAAGTATTTTAAGTTGTTTAGGAATTTTTGTTTC
647 TATTTATTTATTCTTAATTTTAGATATTGTTTAAGTATTTTAAGTTGTTTAGGAATTTTTGTTTC
9309933 TTAGTCAAACAAGAAAATTTAGTTGAAAACTACTTATTGTTTAGATTAATTAGAGCTTTAGTATA
712 TTAGTCAAACAAGAAAATTTAGTTGAAAACTACTTATTGTTTAGATTAATTAGAGCTTTAGTATA
9309998 CTTTAAAGCTCTATTTGTATGTACTTAGCTAGCCTAGCTTTTTCATTGTTCATTAAGATACAATT
777 CTTTAAAGCTCTATTTGTATGTACTTAGCTAGCCTAGCTTTTTCATTGTTCATTAAGATACAATT
* **
9310063 GTTTTCATTAATAAGGTTCAATTAGACATTTATCCATCTATCCATCAAATCTATCGGTTTATTTT
842 ATTTTCATTAATAAGGTTCAATTAGACATTTATCCATCTATCCATCAAATCTATCGGTTTATTGA
* * **
9310128 TTCTTTTTT
907 TCCTCTTCC
* ** *
9310137 AATTTTAATTTTAATTTTCCTCCTTTCATTATTCAACTTGACCAAATAACGGATGGAAAGAAAAT
1 AATTTAAATTTTAATTTT-CTCAGTTAATTATTCAACTTGA-CAAATAACGGATGGAAAGAAAAT
9310202 TACTTCTTCTTTTTTTTAATCTTTCCAACCAAGACACCAATGGAAGGAATATATAGATGTATATA
64 TA-TTCTTCTTTTTTTTAATCTTTCCAACCAAGACACCAATGGAAGGAATATATAGATGTATATA
9310267 TATTTTCTATCTTTTCATCTTTCTCCTCCTCCAGTTTTCCATCATTACAATTTTCTTTCACCTTA
128 TATTTTCTATCTTTTCATCTTTCTCCTCCTCCAGTTTTCCATCATTACAATTTTCTTTCACCTTA
9310332 AACAATCAAAGTCTAAAGGCACCTGAGTGCTCAAAATTCTCTTATGGCTATCCGTTCTTGGTCAT
193 AACAATCAAAGTCTAAAGGCACCTGAGTGCTCAAAATTCTCTTATGGCTATCCGTTCTTGGTCAT
9310397 CCAAATACATTGTACAAAGAGATACTAAATGATTTACCCTGGCAAATGACTCACGGTACCTCAAA
258 CCAAATACATTGTACAAAGAGATACTAAATGATTTACCCTGGCAAATGACTCACGGTACCTCAAA
* *
9310462 ACCCAACAACAAAGTCAAAAACTAAGTAAATCAAACCAAGATTCAATCCAAGATAATATGTGAGA
323 ACCCAACAACAAAGTCAAAAAATAAGTAAATCAAACCAAGATTCAATCAAAGATAATATGTGAGA
9310527 ATGAATCTTTTCGAGGAAACATGGAATATGCACGGTACCTCGAAACACACTTCAAATCACTAGAT
388 ATGAATCTTTTCGAGGAAACATGGAATATGCACGGTACCTCGAAACACACTTCAAATCACTAGAT
9310592 TTCGAGTTTGGGAGCTCATGTTATGACCATTTTAGTGAAGATTGCGCGAGCAAAATTACTCGATG
453 TTCGAGTTTGGGAGCTCATGTTATGACCATTTTAGTGAAGATTGCGCGAGCAAAATTACTCGATG
9310657 GAATTATGACAAAAACTACGAATTTTAGACTTTTAATTCGAGTTTAAATCAAATTGAGTTTGGTT
518 GAATTATGACAAAAACTACGAATTTTAGACTTTTAATTCGAGTTTAAATCAAATTGAGTTTGGTT
9310722 TTTAGGCTTAATTTTTATTTATATATGAGCCCAATATTGTATTTATTAAGTTTTATTATTTTATT
583 TTTAGGCTTAATTTTTATTTATATATGAGCCCAATATTGTATTTATTAAGTTTTATTATTTTATT
9310787 ATTTATTTATTCTTAATTTTAGATATTGTTTAAGTATTTTAAGTTGTTTAGGAATTTTTGTTTCT
648 ATTTATTTATTCTTAATTTTAGATATTGTTTAAGTATTTTAAGTTGTTTAGGAATTTTTGTTTCT
9310852 TAGTCAAACAAGAAAATTTAGTTGAAAACTACTTATTGTTTAGATTAATTAGAGCTTTAGTATAC
713 TAGTCAAACAAGAAAATTTAGTTGAAAACTACTTATTGTTTAGATTAATTAGAGCTTTAGTATAC
9310917 TTTAAAGCTCTATTTGTATGTACTTAGCTAGCCTAGCTTTTTCATTGTTCATTAAGATACAATTA
778 TTTAAAGCTCTATTTGTATGTACTTAGCTAGCCTAGCTTTTTCATTGTTCATTAAGATACAATTA
9310982 TTTTCATTAATAAGGTTCAATTAGACATTTATCCATCTATCCATCAAATCTATCGGTTTATTCGA
843 TTTTCATTAATAAGGTTCAATTAGACATTTATCCATCTATCCATCAAATCTATCGGTTTATT-GA
9311047 TCCATCTTCC
907 TCC-TCTTCC
*
9311057 ACGTTTAAATTT
1 A-ATTTAAATTT
9311069 CGTTTATTTA
Statistics
Matches: 911, Mismatches: 15, Indels: 7
0.98 0.02 0.01
Matches are distributed among these distances:
915 2 0.00
916 66 0.07
917 2 0.00
918 827 0.91
919 2 0.00
920 4 0.00
921 8 0.01
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.39
Consensus pattern (915 bp):
AATTTAAATTTTAATTTTCTCAGTTAATTATTCAACTTGACAAATAACGGATGGAAAGAAAATTA
TTCTTCTTTTTTTTAATCTTTCCAACCAAGACACCAATGGAAGGAATATATAGATGTATATATAT
TTTCTATCTTTTCATCTTTCTCCTCCTCCAGTTTTCCATCATTACAATTTTCTTTCACCTTAAAC
AATCAAAGTCTAAAGGCACCTGAGTGCTCAAAATTCTCTTATGGCTATCCGTTCTTGGTCATCCA
AATACATTGTACAAAGAGATACTAAATGATTTACCCTGGCAAATGACTCACGGTACCTCAAAACC
CAACAACAAAGTCAAAAAATAAGTAAATCAAACCAAGATTCAATCAAAGATAATATGTGAGAATG
AATCTTTTCGAGGAAACATGGAATATGCACGGTACCTCGAAACACACTTCAAATCACTAGATTTC
GAGTTTGGGAGCTCATGTTATGACCATTTTAGTGAAGATTGCGCGAGCAAAATTACTCGATGGAA
TTATGACAAAAACTACGAATTTTAGACTTTTAATTCGAGTTTAAATCAAATTGAGTTTGGTTTTT
AGGCTTAATTTTTATTTATATATGAGCCCAATATTGTATTTATTAAGTTTTATTATTTTATTATT
TATTTATTCTTAATTTTAGATATTGTTTAAGTATTTTAAGTTGTTTAGGAATTTTTGTTTCTTAG
TCAAACAAGAAAATTTAGTTGAAAACTACTTATTGTTTAGATTAATTAGAGCTTTAGTATACTTT
AAAGCTCTATTTGTATGTACTTAGCTAGCCTAGCTTTTTCATTGTTCATTAAGATACAATTATTT
TCATTAATAAGGTTCAATTAGACATTTATCCATCTATCCATCAAATCTATCGGTTTATTGATCCT
CTTCC
Found at i:9311266 original size:16 final size:16
Alignment explanation
Indices: 9311245--9311276 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9311235 CGCACTTTAC
*
9311245 CGTATCAATGTGTACT
1 CGTATCAAGGTGTACT
9311261 CGTATCAAGGTGTACT
1 CGTATCAAGGTGTACT
9311277 TGATTGAGTG
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:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (16 bp):
CGTATCAAGGTGTACT
Found at i:9314738 original size:15 final size:15
Alignment explanation
Indices: 9314718--9314751 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
9314708 AAAGAAAGTC
9314718 CAAACTTAATGTCCA
1 CAAACTTAATGTCCA
*
9314733 CAAACTTAATGTCCC
1 CAAACTTAATGTCCA
9314748 CAAA
1 CAAA
9314752 ACCAGTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.29, G:0.06, T:0.24
Consensus pattern (15 bp):
CAAACTTAATGTCCA
Found at i:9317973 original size:36 final size:36
Alignment explanation
Indices: 9317926--9317995 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
9317916 TTTTGCAACA
*
9317926 CTTAGAAAATTTTCACACTTTGGAGAGTCACACGCC
1 CTTAGAAAATTTTCACACTTTAGAGAGTCACACGCC
9317962 CTTAGAAAATTTTCACACTTTAGAGAGTCACACG
1 CTTAGAAAATTTTCACACTTTAGAGAGTCACACG
9317996 GCCGTGTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (36 bp):
CTTAGAAAATTTTCACACTTTAGAGAGTCACACGCC
Found at i:9318217 original size:10 final size:10
Alignment explanation
Indices: 9318202--9318229 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
9318192 ACTTATCTTG
9318202 ATTTCATACT
1 ATTTCATACT
9318212 ATTTCATACT
1 ATTTCATACT
9318222 ATTTCATA
1 ATTTCATA
9318230 TTTAAGCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (10 bp):
ATTTCATACT
Found at i:9318723 original size:42 final size:42
Alignment explanation
Indices: 9318660--9318773 Score: 160
Period size: 42 Copynumber: 2.7 Consensus size: 42
9318650 CTTCGTTTTC
** * *
9318660 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTTACATA-A
1 TCGATGCCATAGCCCAGCTATGGTCTTACACAT-ATT-CATATA
9318703 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
9318744 TCGATGCCATAGCCCAGCTATGGTCTTACA
1 TCGATGCCATAGCCCAGCTATGGTCTTACA
9318774 TGAATCACAT
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
40 4 0.06
41 4 0.06
42 56 0.86
43 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
Found at i:9318813 original size:46 final size:45
Alignment explanation
Indices: 9318745--9318864 Score: 141
Period size: 47 Copynumber: 2.6 Consensus size: 45
9318735 ATTCATATAT
* * * *
9318745 CGATGCCATAGCCCAGCTATGGTCTTACATGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTACA-GAAGCACATATCACAC
* * * *
9318791 TGATGCCATATCCTAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTC-T-TACAGAAGCACATATCACAC
9318838 CGATGCCATATCCCAGATATGGTCTTA
1 CGATGCCATATCCCAGATATGGTCTTA
9318865 TACGAAAATC
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
45 2 0.03
46 21 0.34
47 35 0.56
48 4 0.06
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (45 bp):
CGATGCCATATCCCAGATATGGTCTTACAGAAGCACATATCACAC
Found at i:9318921 original size:31 final size:31
Alignment explanation
Indices: 9318886--9319003 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
9318876 CTTGTCACTT
*
9318886 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
9318917 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
9318948 GTAGCCGGAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
9318979 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
9319004 TGTCATTTGT
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 81 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:9319083 original size:50 final size:50
Alignment explanation
Indices: 9318979--9319155 Score: 300
Period size: 50 Copynumber: 3.5 Consensus size: 50
9318969 CACTAATCAG
* *
9318979 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
9319030 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
9319080 GTAGCCAAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
9319130 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
9319156 GTTGCCATGG
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 94 0.80
51 24 0.20
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:9322381 original size:22 final size:22
Alignment explanation
Indices: 9322333--9322381 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 22
9322323 CATTCAAGAT
*
9322333 AAAATAATATATAAAACTTCTTTA
1 AAAATAATATATAAAAATTC--TA
9322357 AAAATAATATATAAACAATTC-A
1 AAAATAATATATAAA-AATTCTA
9322379 AAA
1 AAA
9322382 TATATAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 4 0.17
24 15 0.65
25 4 0.17
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATAATATATAAAAATTCTA
Found at i:9322631 original size:23 final size:24
Alignment explanation
Indices: 9322564--9322634 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 24
9322554 TAAGGGAAAA
*
9322564 AGTAAT-AAT-GAAA-ATAATATT
1 AGTAATAAATAGAAATATAATAAT
9322585 AGTATATAAATAGAAATA-AA-AAT
1 AGTA-ATAAATAGAAATATAATAAT
9322608 A-TAATAAATAGAAATATAATAAT
1 AGTAATAAATAGAAATATAATAAT
9322631 AGTA
1 AGTA
9322635 GAAATATAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
21 17 0.40
22 6 0.14
23 10 0.24
24 8 0.19
25 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (24 bp):
AGTAATAAATAGAAATATAATAAT
Found at i:9322631 original size:29 final size:28
Alignment explanation
Indices: 9322590--9322661 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 28
9322580 ATATTAGTAT
9322590 ATAAATAGA-AATA-AAAATATAATAAATAG
1 ATAAATA-ATAATAGAAAA-AT-ATAAATAG
*
9322619 A-AATATAATAATAGTAGAAATATAAATAG
1 ATAA-ATAATAATAG-AAAAATATAAATAG
9322648 ATAAATAATAATAG
1 ATAAATAATAATAG
9322662 TATTAGAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
28 3 0.08
29 27 0.73
30 4 0.11
31 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.26
Consensus pattern (28 bp):
ATAAATAATAATAGAAAAATATAAATAG
Found at i:9322638 original size:17 final size:15
Alignment explanation
Indices: 9322598--9322643 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
9322588 ATATAAATAG
*
9322598 AAATAAAAATATAAT
1 AAATAGAAATATAAT
9322613 AAATAGAAATATAAT
1 AAATAGAAATATAAT
9322628 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
9322644 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:9322643 original size:14 final size:15
Alignment explanation
Indices: 9322623--9322663 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
9322613 AAATAGAAAT
9322623 ATAATAATAGTAGAA
1 ATAATAATAGTAGAA
*
9322638 AT-ATAAATAG-ATAA
1 ATAAT-AATAGTAGAA
9322652 ATAATAATAGTA
1 ATAATAATAGTA
9322664 TTAGAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (15 bp):
ATAATAATAGTAGAA
Found at i:9322658 original size:15 final size:14
Alignment explanation
Indices: 9322598--9322658 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 14
9322588 ATATAAATAG
*
9322598 AAATAAAAATATAAT
1 AAATAGAAA-ATAAT
9322613 AAATAGAAATATAAT
1 AAATAGAAA-ATAAT
9322628 -AATAGTAGAAAT-AT
1 AAATAG-A-AAATAAT
9322642 AAATAGATAAATAAT
1 AAATAGA-AAATAAT
9322657 AA
1 AA
9322659 TAGTATTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 12 0.30
15 26 0.65
16 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
AAATAGAAAATAAT
Found at i:9323477 original size:39 final size:38
Alignment explanation
Indices: 9323434--9323507 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
9323424 AAATTGGCCT
* *
9323434 ATTACATAATTCTTTTTAAAAT-TATTTCATGTTTTACGA
1 ATTACATAATT-TCTTAAAAATCT-TTTCATGTTTTACGA
*
9323473 ATTACTTAATTTCTTAAAAATCTTTTCATGTTTTA
1 ATTACATAATTTCTTAAAAATCTTTTCATGTTTTA
9323508 AATAACTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 20 0.65
39 11 0.35
ACGTcount: A:0.32, C:0.11, G:0.04, T:0.53
Consensus pattern (38 bp):
ATTACATAATTTCTTAAAAATCTTTTCATGTTTTACGA
Found at i:9329289 original size:16 final size:16
Alignment explanation
Indices: 9329268--9329335 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
9329258 TTTGGTTCGC
9329268 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
9329284 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
9329299 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
9329316 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
9329332 TGTA
1 TGTA
9329336 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:9329307 original size:32 final size:32
Alignment explanation
Indices: 9329268--9329335 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
9329258 TTTGGTTCGC
9329268 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
9329300 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
9329332 TGTA
1 TGTA
9329336 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:9345488 original size:31 final size:31
Alignment explanation
Indices: 9345412--9345473 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
9345402 TAGAAATTTG
9345412 ATTTCTATGTAAAGTAAAATATTGAGATAAA
1 ATTTCTATGTAAAGTAAAATATTGAGATAAA
9345443 ATTTCTATGTAAAGTAAAATATTGAGATAAA
1 ATTTCTATGTAAAGTAAAATATTGAGATAAA
9345474 TTATGTGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.35
Consensus pattern (31 bp):
ATTTCTATGTAAAGTAAAATATTGAGATAAA
Found at i:9346999 original size:42 final size:42
Alignment explanation
Indices: 9346951--9347097 Score: 188
Period size: 42 Copynumber: 3.3 Consensus size: 42
9346941 CATAGTTTAA
9346951 CTATGGTCTTACACATCTTCACATAAT-GATGCCATAGCCCAG
1 CTATGGTCTTACACATCTTCACAT-ATCGATGCCATAGCCCAG
* * *
9346993 CTATGGTCTTATACATATTCATATATCGATGCCATAGCCCAG
1 CTATGGTCTTACACATCTTCACATATCGATGCCATAGCCCAG
9347035 CTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAG
1 CTATGGTCTTACAC---AT--C-T-TCACATATCGATGCCATAGCCCAG
9347084 CTATGGTCTTACAC
1 CTATGGTCTTACAC
9347098 GAATCACATA
Statistics
Matches: 91, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
41 2 0.02
42 49 0.54
45 2 0.02
48 1 0.01
49 37 0.41
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
CTATGGTCTTACACATCTTCACATATCGATGCCATAGCCCAG
Found at i:9347078 original size:49 final size:48
Alignment explanation
Indices: 9347005--9347140 Score: 195
Period size: 49 Copynumber: 2.8 Consensus size: 48
9346995 ATGGTCTTAT
*
9347005 ACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATC
1 ACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATC
9347055 ACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATC
1 ACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATC
* * * *
9347103 ACATATCTCA-CT-GATGCCATATCCCAGATATGGTCTTA
1 ACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTA
9347141 TACAGTAGCA
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
46 24 0.30
47 1 0.01
48 13 0.16
49 38 0.47
50 5 0.06
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (48 bp):
ACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATC
Found at i:9347136 original size:46 final size:47
Alignment explanation
Indices: 9347019--9347186 Score: 178
Period size: 47 Copynumber: 3.6 Consensus size: 47
9347009 ATTCATATAT
* * * *
9347019 CGATGCCATAGCCCAGCTATGGTCTTACAC-GTAATCACATATCACATAT
1 CGATGCCATATCCCAGATATGGTCTTACACAG-AAGCACATATCAC--AC
* * * *
9347068 CGATGCCATAGCCCAGCTATGGTCTTACAC-GAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
* * * *
9347114 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
*
9347161 CGATGCCATATCTCAGATATGGTCTT
1 CGATGCCATATCCCAGATATGGTCTT
9347187 GTACGGAAAT
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
46 27 0.25
47 36 0.34
48 12 0.11
49 31 0.29
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
Found at i:9347199 original size:95 final size:94
Alignment explanation
Indices: 9346978--9347186 Score: 225
Period size: 95 Copynumber: 2.3 Consensus size: 94
9346968 TTCACATAAT
* * * * *
9346978 GATGCCATAGCCCAGCTATGGTCTTATAC-ATAT-TCATATAT--C-GATGCCATAGCCCAGCTA
1 GATGCCATAGCCCAGATATGGTCTTACACGA-ATCACATATCTCACTGATGCCATAGCCCAGATA
* *
9347038 TGGTCTTACACGTAATCACATATCACATATC
65 TGGTCTTACACGTAAGCACATATCACA-ACC
* *
9347069 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACTGATGCCATATCCCAGATAT
1 GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAGATAT
* *
9347134 GGTCTTATACAGT-AGCATATATCAC-ACC
66 GGTCTTACAC-GTAAGCACATATCACAACC
* *
9347162 GATGCCATATCTCAGATATGGTCTT
1 GATGCCATAGCCCAGATATGGTCTT
9347187 GTACGGAAAT
Statistics
Matches: 100, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
91 30 0.30
92 7 0.07
93 24 0.24
94 1 0.01
95 36 0.36
96 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (94 bp):
GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAGATAT
GGTCTTACACGTAAGCACATATCACAACC
Found at i:9347244 original size:31 final size:31
Alignment explanation
Indices: 9347209--9347357 Score: 237
Period size: 31 Copynumber: 4.8 Consensus size: 31
9347199 CTTGCCACTT
*
9347209 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
9347240 GTAGCCGGTA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
9347271 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
9347302 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
9347333 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
9347358 TGTCATTTGT
Statistics
Matches: 111, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
30 2 0.02
31 107 0.96
32 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:9347439 original size:50 final size:51
Alignment explanation
Indices: 9347333--9347461 Score: 181
Period size: 50 Copynumber: 2.5 Consensus size: 51
9347323 CACTGATCAG
* * * *
9347333 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
9347384 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
*
9347434 GTAGCCGGAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
9347462 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 43 0.61
51 27 0.39
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:9350561 original size:22 final size:19
Alignment explanation
Indices: 9350529--9350576 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
9350519 TTGTTGAGAT
9350529 ATTGATGAATTAAGCTTGAA
1 ATTGATGAATTAAG-TTGAA
*
9350549 ATTGATAGAAATTAAGTTTAA
1 ATTGAT-G-AATTAAGTTGAA
9350570 ATT-ATGA
1 ATTGATGA
9350577 TAAGGACTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
19 1 0.04
20 8 0.32
21 8 0.32
22 7 0.28
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.38
Consensus pattern (19 bp):
ATTGATGAATTAAGTTGAA
Found at i:9352686 original size:16 final size:16
Alignment explanation
Indices: 9352665--9352697 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9352655 TTTTTTCCTT
9352665 TTTCTTTATATTT-TTA
1 TTTCTTT-TATTTATTA
9352681 TTTCTTTTATTTATTA
1 TTTCTTTTATTTATTA
9352697 T
1 T
9352698 AACTATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTCTTTTATTTATTA
Found at i:9352714 original size:24 final size:23
Alignment explanation
Indices: 9352687--9352737 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 23
9352677 TTTATTTCTT
9352687 TTATTTATTATAACTATTAT-ATTA
1 TTATTTATTATAA--ATTATAATTA
*
9352711 TTA--TATTTTAAATTATAATTA
1 TTATTTATTATAAATTATAATTA
9352732 TTATTT
1 TTATTT
9352738 CTTAAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
20 5 0.22
21 7 0.30
22 7 0.30
23 1 0.04
24 3 0.13
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATTTATTATAAATTATAATTA
Found at i:9352734 original size:21 final size:21
Alignment explanation
Indices: 9352702--9352749 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
9352692 TATTATAACT
9352702 ATTAT-ATTATTATATT-TTAA
1 ATTATAATTATTAT-TTCTTAA
9352722 ATTATAATTATTATTTCTTAA
1 ATTATAATTATTATTTCTTAA
*
9352743 ATAATAA
1 ATTATAA
9352750 GTAAATACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTATAATTATTATTTCTTAA
Found at i:9354812 original size:9 final size:9
Alignment explanation
Indices: 9354800--9354833 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
9354790 GAGAAAATTG
9354800 AGAGAGTTA
1 AGAGAGTTA
*
9354809 AGAGAGTTC
1 AGAGAGTTA
*
9354818 AGAGAATTA
1 AGAGAGTTA
9354827 AGAGAGT
1 AGAGAGT
9354834 AGGATTTGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.44, C:0.03, G:0.32, T:0.21
Consensus pattern (9 bp):
AGAGAGTTA
Found at i:9355163 original size:27 final size:23
Alignment explanation
Indices: 9355112--9355164 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 23
9355102 TAGTAATTTG
*
9355112 AATTTATTTTTAATATTTTAAAA
1 AATTTATTTTGAATATTTTAAAA
9355135 AATTTATTTTAGAATAATTATTAAGAA
1 AATTTATTTT-GAAT-ATT-TTAA-AA
9355162 AAT
1 AAT
9355165 AATTAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 10 0.40
24 3 0.12
25 3 0.12
26 4 0.16
27 5 0.20
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
AATTTATTTTGAATATTTTAAAA
Found at i:9355403 original size:24 final size:22
Alignment explanation
Indices: 9355357--9355404 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
9355347 TTAAAGATAA
* *
9355357 TAAATATAATTTATCCTATTTT
1 TAAATATAATTTATCCAAATTT
9355379 TAAATATATATTTATCACAAATTT
1 TAAATATA-ATTTATC-CAAATTT
9355403 TA
1 TA
9355405 TTTTATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 7 0.32
24 7 0.32
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (22 bp):
TAAATATAATTTATCCAAATTT
Found at i:9361201 original size:22 final size:23
Alignment explanation
Indices: 9361142--9361205 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 23
9361132 GTTCTATTAT
* * *
9361142 TAGCACGTTAAGTGCTCTCTGTT
1 TAGCACATTTAGTGCTCTCTGTA
* *
9361165 TAGCACATCT-CTGCTCTCTGTA
1 TAGCACATTTAGTGCTCTCTGTA
9361187 TAGCAC-TTTAGTGCTCTCT
1 TAGCACATTTAGTGCTCTCT
9361206 ATTCGTTTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 2 0.06
22 24 0.73
23 7 0.21
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.39
Consensus pattern (23 bp):
TAGCACATTTAGTGCTCTCTGTA
Found at i:9369007 original size:2 final size:2
Alignment explanation
Indices: 9369000--9369038 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
9368990 ATGGACAGGT
* * *
9369000 TC TC TC TC TC TG TC TC TT TC TC TC TC TT TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
9369039 TGGCATTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.41, G:0.03, T:0.56
Consensus pattern (2 bp):
TC
Found at i:9375192 original size:18 final size:18
Alignment explanation
Indices: 9375169--9375255 Score: 129
Period size: 18 Copynumber: 4.8 Consensus size: 18
9375159 CCCAACTACT
* *
9375169 GTATACGTGAACAGTCCC
1 GTATACGTGAATAGTGCC
9375187 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
* *
9375205 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTGCC
*
9375223 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTGCC
9375241 GTATACGTGAATAGT
1 GTATACGTGAATAGT
9375256 ACTGTAAACG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTGCC
Found at i:9375227 original size:36 final size:36
Alignment explanation
Indices: 9375169--9375261 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
9375159 CCCAACTACT
* * * *
9375169 GTATACGTGAACAGTCCCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTGTATACGTAAATAGTGCC
9375205 GTATACGTGAATAGTACTGTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACTGTATACGTAAATAGTGCC
9375241 GTATACGTGAATAGTACTGTA
1 GTATACGTGAATAGTACTGTA
9375262 AACGGTCGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (36 bp):
GTATACGTGAATAGTACTGTATACGTAAATAGTGCC
Found at i:9377564 original size:13 final size:14
Alignment explanation
Indices: 9377534--9377572 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
9377524 TTTTTATACT
9377534 ATTTATATTTTTTGA
1 ATTTA-ATTTTTTGA
9377549 ATTTAATTTTTT-A
1 ATTTAATTTTTTGA
9377562 ATTTTAATTTT
1 A-TTTAATTTT
9377573 CAAAAATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 16 0.70
15 5 0.22
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (14 bp):
ATTTAATTTTTTGA
Found at i:9378559 original size:14 final size:13
Alignment explanation
Indices: 9378528--9378568 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
9378518 ATATGTAACT
9378528 TTTAATATT--TA
1 TTTAATATTAATA
9378539 TTTAATATTAATA
1 TTTAATATTAATA
*
9378552 TATTAATATAAATA
1 T-TTAATATTAATA
9378566 TTT
1 TTT
9378569 TTCAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 9 0.35
13 5 0.19
14 12 0.46
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTAATATTAATA
Found at i:9379222 original size:18 final size:18
Alignment explanation
Indices: 9379175--9379223 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 18
9379165 AAATTATAAT
9379175 AAAATTAA-TATTTAAAA
1 AAAATTAATTATTTAAAA
9379192 AAAACTATAAATTATTTAAAA
1 AAAA-T-T-AATTATTTAAAA
*
9379213 ATAATTAATTA
1 AAAATTAATTA
9379224 AGATTAAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
17 4 0.15
18 6 0.22
19 2 0.07
20 3 0.11
21 12 0.44
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATTAATTATTTAAAA
Found at i:9384220 original size:21 final size:21
Alignment explanation
Indices: 9384194--9384234 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9384184 AGACGAGCGA
* *
9384194 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
9384215 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
9384235 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:9400209 original size:147 final size:147
Alignment explanation
Indices: 9399942--9400221 Score: 350
Period size: 147 Copynumber: 1.9 Consensus size: 147
9399932 AAAAGTGTTT
* * **
9399942 GAATTCAATCATGGCAGAACAGTATTAACCTTGGCATCTTTCCCCCAATCCGTAATGTAAGATAT
1 GAATTCAATCATGGCAGAACAGTATTAACCTTGGCATCTTCCCCCCAAACCGTAACATAAGATAT
*** * * *
9400007 AACATAAATGTGAATGAAACATAGAATGTTGAATCAACGGCGAAATACATTTGCATTGTTCATTA
66 AACATAAATGTGAATGAAACATAGAATCAAGAATCAACAGCAAAAGACATTTGCATTGTTCATTA
9400072 GATAAACAAAGGCATTA
131 GATAAACAAAGGCATTA
* * **
9400089 GAATTCAATCATGGCAGAGCAGTATTCATTTTGGCATCTTCCCCCCAAACCGTAACATAAGATAT
1 GAATTCAATCATGGCAGAACAGTATTAACCTTGGCATCTTCCCCCCAAACCGTAACATAAGATAT
* * * *
9400154 -AGATACAA-GTTGGAATGAAATATAGAA-CAAGAATCAATAGCAAAAGGCATTTGCATTGTTCA
66 AACATA-AATG-T-GAATGAAACATAGAATCAAGAATCAACAGCAAAAGACATTTGCATTGTTCA
9400216 TTAGAT
128 TTAGAT
9400222 GGCATTTGTG
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
146 5 0.04
147 93 0.83
148 14 0.12
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (147 bp):
GAATTCAATCATGGCAGAACAGTATTAACCTTGGCATCTTCCCCCCAAACCGTAACATAAGATAT
AACATAAATGTGAATGAAACATAGAATCAAGAATCAACAGCAAAAGACATTTGCATTGTTCATTA
GATAAACAAAGGCATTA
Found at i:9402057 original size:26 final size:26
Alignment explanation
Indices: 9402028--9402135 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
9402018 TGGTACAAAT
*
9402028 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
9402054 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
9402080 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
9402106 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
9402132 TGAT
1 TGAT
9402136 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:9403774 original size:27 final size:27
Alignment explanation
Indices: 9403734--9403874 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
9403724 AGGAAGCGTC
*
9403734 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
9403761 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
9403787 CCTGGCGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
9403815 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
9403842 CTGGTGGCTCTGCCACAA-TATCTATAT
1 CTGGTGGCTCTGCCACAATTATCT-GAT
9403869 CTGGTG
1 CTGGTG
9403875 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
26 10 0.10
27 85 0.86
28 4 0.04
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:9403813 original size:54 final size:54
Alignment explanation
Indices: 9403731--9403874 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
9403721 TGGAGGAAGC
9403731 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
9403785 GTCCTGGCGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
9403839 GTTCTGGTGGCTCTGCCACAA-TATCTATATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCT-GATCTGGTG
9403875 ACTTCGTCAC
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 79 0.94
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:9403886 original size:81 final size:80
Alignment explanation
Indices: 9403734--9403892 Score: 198
Period size: 81 Copynumber: 2.0 Consensus size: 80
9403724 AGGAAGCGTC
* *
9403734 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGCGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATCCTGGCGACTAT
9403799 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * * *
9403815 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTATATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTAT-CCTGGCGACT
*
9403878 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
9403893 GCAGCCTCGC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
80 16 0.24
81 52 0.76
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.33
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATCCTGGCGACTAT
GCCACAATATCTGAT
Found at i:9417545 original size:30 final size:30
Alignment explanation
Indices: 9417493--9417564 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
9417483 ATCCCTAATA
*
9417493 ATTATGTATTATGTAAATA-TTTTAATATTAT
1 ATTATGTA-TATCTAAATATTTTTAATA-TAT
* **
9417524 ATTATGTATATCTATATATTTTTCGTATAT
1 ATTATGTATATCTAAATATTTTTAATATAT
9417554 ATTATGTATAT
1 ATTATGTATAT
9417565 ATGTTTTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 22 0.61
31 14 0.39
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.56
Consensus pattern (30 bp):
ATTATGTATATCTAAATATTTTTAATATAT
Found at i:9417577 original size:24 final size:25
Alignment explanation
Indices: 9417536--9417591 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
9417526 TATGTATATC
*
9417536 TATATATTTTTCGTATATAT-TATG-
1 TATATATTTTTCGAATAT-TGTATGT
9417560 TATATATGTTTTC-AATATTGTATGT
1 TATATAT-TTTTCGAATATTGTATGT
9417585 TATATAT
1 TATATAT
9417592 ATTATTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 15 0.54
25 12 0.43
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (25 bp):
TATATATTTTTCGAATATTGTATGT
Found at i:9417619 original size:22 final size:21
Alignment explanation
Indices: 9417592--9417688 Score: 56
Period size: 22 Copynumber: 4.5 Consensus size: 21
9417582 TGTTATATAT
9417592 ATTATTGTGTATATATTTTAAC
1 ATTATTGT-TATATATTTTAAC
* *
9417614 ATTATTAGTTATACATCTTTTAC
1 ATTATT-GTTATATAT-TTTAAC
* *
9417637 ACTATT-TATATATATTTCTAAT
1 ATTATTGT-TATATATTT-TAAC
* *
9417659 ATCATTG-TATAT-TTCTAAC
1 ATTATTGTTATATATTTTAAC
* *
9417678 ATCATTATTAT
1 ATTATTGTTAT
9417689 TTATATATAT
Statistics
Matches: 58, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
19 9 0.16
20 5 0.09
21 8 0.14
22 24 0.41
23 12 0.21
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.53
Consensus pattern (21 bp):
ATTATTGTTATATATTTTAAC
Found at i:9417671 original size:19 final size:19
Alignment explanation
Indices: 9417647--9417683 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9417637 ACTATTTATA
*
9417647 TATATTTCTAATATCATTG
1 TATATTTCTAACATCATTG
9417666 TATATTTCTAACATCATT
1 TATATTTCTAACATCATT
9417684 ATTATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTTCTAACATCATTG
Found at i:9417768 original size:9 final size:9
Alignment explanation
Indices: 9417750--9417789 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
9417740 TCATTTCTAA
9417750 TATATATAT
1 TATATATAT
*
9417759 TATATGTAT
1 TATATATAT
*
9417768 TTTATATAT
1 TATATATAT
9417777 TATATATA-
1 TATATATAT
9417785 TATAT
1 TATAT
9417790 TTTAATGTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
8 5 0.19
9 22 0.81
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
TATATATAT
Found at i:9417774 original size:22 final size:22
Alignment explanation
Indices: 9417749--9417793 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
9417739 ATCATTTCTA
*
9417749 ATATA-TATATTATATGTATTTT
1 ATATATTATA-TATATATATTTT
9417771 ATATATTATATATATATATTTT
1 ATATATTATATATATATATTTT
9417793 A
1 A
9417794 ATGTTATTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATATATTATATATATATATTTT
Found at i:9417784 original size:11 final size:11
Alignment explanation
Indices: 9417749--9417790 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
9417739 ATCATTTCTA
9417749 ATATATATATT
1 ATATATATATT
* *
9417760 ATATGTATTTT
1 ATATATATATT
9417771 ATATAT-TA-T
1 ATATATATATT
9417780 ATATATATATT
1 ATATATATATT
9417791 TTAATGTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
9 7 0.28
10 3 0.12
11 15 0.60
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (11 bp):
ATATATATATT
Found at i:9418080 original size:37 final size:35
Alignment explanation
Indices: 9418015--9418084 Score: 81
Period size: 37 Copynumber: 1.9 Consensus size: 35
9418005 TTATATATAG
9418015 TATTATTTTCATACATTATCATATTTATTATTATACC
1 TATTATTTTCATA-ATTATCATATTTATT-TTATACC
9418052 TATTATTTTCACT-ATTATCACT-TATTATTTTAT
1 TATTATTTTCA-TAATTATCA-TAT-TTATTTTAT
9418085 TTTAATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
36 12 0.40
37 17 0.57
38 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (35 bp):
TATTATTTTCATAATTATCATATTTATTTTATACC
Found at i:9418219 original size:25 final size:24
Alignment explanation
Indices: 9418191--9418246 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
9418181 GTTATATTTT
*
9418191 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
9418216 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
9418239 CACTATTA
1 CACTATTA
9418247 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:9421876 original size:44 final size:45
Alignment explanation
Indices: 9421842--9421930 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 45
9421832 CATGAAGTAT
*
9421842 TCCTGTCTCCAATGCCATA-TATAATATGGACTTACATGGCTCAA
1 TCCTGTCTCCAAAGCCATATTATAATATGGACTTACATGGCTCAA
* *
9421886 TCCTGTCTCTAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TCCTGTCTCCAAAGCCATA-TTATAATATGGACTTACATGGCTCA
9421931 TTTCTGTTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 17 0.43
46 23 0.57
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (45 bp):
TCCTGTCTCCAAAGCCATATTATAATATGGACTTACATGGCTCAA
Found at i:9429258 original size:44 final size:45
Alignment explanation
Indices: 9429191--9429298 Score: 128
Period size: 44 Copynumber: 2.4 Consensus size: 45
9429181 TGTCTTTGAC
** * * *
9429191 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTATAAT
* *
9429235 ATGGGCTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA-TTATAAT
*
9429281 ATGGACTTACGTGGCTCA
1 ATGGACTTACATGGCTCA
9429299 TTTCTGTTCT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 32 0.60
46 21 0.40
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (45 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:9440237 original size:75 final size:72
Alignment explanation
Indices: 9440044--9440279 Score: 267
Period size: 74 Copynumber: 3.2 Consensus size: 72
9440034 ATTTTGATAT
* * * * **
9440044 TTTTTATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGCGTTGAGCCTCAAGACACGT
1 TTTTAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACAC
9440109 TGAGGTA
66 TGAGGTA
* *
9440116 TTTTCAATCTAT-TTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAACCTCAGGACA
1 TTTT-AAT-T-TCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACA
9440180 CACTGAGGTA
63 CACTGAGGTA
** *
9440190 GTTTTAATTTCTGTTCATCAAAAAAATCAACTCATATTATGAGAGGTGAGTTGAACCTCAGGTCA
1 -TTTTAATTTCTGTT--TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACA
*
9440255 CATGTCGAGGTA
63 CA-CT-GAGGTA
*
9440267 TTTACAATTTCTG
1 TTT-TAATTTCTG
9440280 CTTTTCAATT
Statistics
Matches: 139, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
72 5 0.04
73 6 0.04
74 59 0.42
75 51 0.37
76 4 0.03
77 14 0.10
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (72 bp):
TTTTAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACAC
TGAGGTA
Found at i:9440359 original size:90 final size:90
Alignment explanation
Indices: 9440210--9440429 Score: 255
Period size: 90 Copynumber: 2.4 Consensus size: 90
9440200 CTGTTCATCA
* ** * *
9440210 AAAAAATCAACTCATATTATGAGAGGTGAGTTGAACCTCAGGTCACATGTCGAGGTATTTACAAT
1 AAAAAATCAACTCATAGTGCGAGAAGTGAGTTGAGCCTCAGGTCACATGTCGAGGTATTTACAAT
** *
9440275 TTCTGCTTTTCAATTTATGTTTTTC
66 TAATGCTTTTCAATTTATGCTTTTC
* * * *
9440300 -AAAAATCAATTCATAGTGCTAGAAGTGAATTGAGCCTCAGGATCACATG-CGGAGGTATTTTCA
1 AAAAAATCAACTCATAGTGCGAGAAGTGAGTTGAGCCTCAGG-TCACATGTC-GAGGTATTTACA
* *
9440363 ATTAATGTTTTTTAATTTATGCTTTTC
64 ATTAATGCTTTTCAATTTATGCTTTTC
* *
9440390 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 -AAAAAATCAACTCATAGTGCGAGAAGTGAGTTGAGCCTC
9440430 GGGACACGCT
Statistics
Matches: 107, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
89 34 0.32
90 40 0.37
92 33 0.31
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (90 bp):
AAAAAATCAACTCATAGTGCGAGAAGTGAGTTGAGCCTCAGGTCACATGTCGAGGTATTTACAAT
TAATGCTTTTCAATTTATGCTTTTC
Found at i:9440507 original size:71 final size:71
Alignment explanation
Indices: 9440392--9440531 Score: 201
Period size: 71 Copynumber: 2.0 Consensus size: 71
9440382 TGCTTTTCAA
** **
9440392 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTT-AATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATT-TTCAATTT
*
9440456 TTGTTTC
65 CTGTTTC
* *
9440463 AAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
9440528 TGTT
66 TGTT
9440532 CAATTTATGT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
70 2 0.03
71 59 0.97
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.32
Consensus pattern (71 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
TGTTTC
Found at i:9440658 original size:89 final size:85
Alignment explanation
Indices: 9440451--9440760 Score: 324
Period size: 89 Copynumber: 3.6 Consensus size: 85
9440441 AGGTATTGTT
* * * * *
9440451 AATTTTTG-TTTCAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTATGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGG
* * *
9440515 TATTTTC--AATTTCTGTTC
66 TATTTTCAAAATTTTTTTTA
* * *
9440533 AATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAG
1 AATTTATG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAG
*
9440598 ATATTTTCAATTAATGTTTTTTTA
65 GTATTTTCAA--AAT-TTTTTTTA
* * * * *
9440622 AATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTTAGCCTCAGGTCACATGCCG
1 AATTTATG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG--ACACGCTG
**
9440687 AGGTATTTTCAAAATCTATTTTGCA
63 AGGTATTTTCAAAAT-T-TTTTTTA
9440712 AATTCTA--TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 AATT-TATGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
9440761 TTGCTCACGT
Statistics
Matches: 191, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
82 7 0.04
84 55 0.29
88 42 0.22
89 60 0.31
90 9 0.05
91 18 0.09
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (85 bp):
AATTTATGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGG
TATTTTCAAAATTTTTTTTA
Found at i:9440674 original size:336 final size:326
Alignment explanation
Indices: 9440056--9440760 Score: 784
Period size: 336 Copynumber: 2.1 Consensus size: 326
9440046 TTTATTTCTG
* *
9440056 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGCGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
* ** *
9440121 AATCTATTTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAACCTCAGGACACACTGA
66 AATCTATTTTTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACACTGA
*
9440186 GGTAGTTTTAATTTCTGTTCATCAAAAAAATCAACTCATATTATGAGAGGTGAGTTGAACCTCAG
130 GGTAGTTTTAATTTCTGTTCATCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAACCTCAG
* * * * *
9440251 GTCACATGTCGAGGTATTTACAATTTCTGCTTTTCAATTTATGTTTTTCAAAAATCAATTCATAG
195 GGCACA-GTCGAGATATTTACAATTTCTGCTTTTAAATTTATGCTTTTCAAAAATCAACTCATAG
* * * * * *
9440316 TGCTAGAAGTGAATTGAGCCTCAGGATCACATGCGGAGGTATTTTCAATTAATGT-TTTT-TAAT
259 TACGAGAAGTGAATTGAGCCTCAGG-TCACATGCCGAGGTATTTTCAA--AATCTATTTTGCAAA
*
9440379 TTATGCT
321 TTAT-AT
**
9440386 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATT-TT
* * **
9440451 -AAT-T-TTTGTTTC-AAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
65 CAATCTATTT-TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACACTG
* * *
9440512 AGGTA-TTTTCAATTTCTGTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
129 AGGTAGTTTT-AATTTCTGTTC-A-TCA-------AAAAAATCAACTCATATTACGAGAGGTGAG
* * * * **
9440576 TTGAGCCTCGGGGCAC-G-CTGAGATATTTTCAATTAATGTTTTTTTAAATTTATGCTTTTCAAA
184 TTGAACCTCAGGGCACAGTC-GAGATATTTACAATT--TCTGCTTTTAAATTTATGCTTTTCAAA
* * * *
9440639 AATCAACTCATATTACGAGAGGTGAGTTTAGCCTCAGGTCACATGCCGAGGTATTTTCAAAATCT
246 AATCAACTCATAGTACGAGAAGTGAATTGAGCCTCAGGTCACATGCCGAGGTATTTTCAAAATCT
*
9440704 ATTTTGCAAATTCTAT
311 ATTTTGCAAATTATAT
*
9440720 TTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
9440761 TTGCTCACGT
Statistics
Matches: 318, Mismatches: 40, Indels: 32
0.82 0.10 0.08
Matches are distributed among these distances:
326 4 0.01
327 57 0.18
328 4 0.01
329 7 0.02
330 61 0.19
331 2 0.01
332 36 0.11
333 5 0.02
334 23 0.07
335 26 0.08
336 93 0.29
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (326 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
AATCTATTTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACACTGAG
GTAGTTTTAATTTCTGTTCATCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAACCTCAGG
GCACAGTCGAGATATTTACAATTTCTGCTTTTAAATTTATGCTTTTCAAAAATCAACTCATAGTA
CGAGAAGTGAATTGAGCCTCAGGTCACATGCCGAGGTATTTTCAAAATCTATTTTGCAAATTATA
T
Found at i:9440718 original size:14 final size:13
Alignment explanation
Indices: 9440690--9440727 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
9440680 CATGCCGAGG
9440690 TATTTTCAAAATC
1 TATTTTCAAAATC
*
9440703 TATTTTGCAAATTC
1 TATTTT-CAAAATC
9440717 TATTTTCAAAA
1 TATTTTCAAAA
9440728 ATCAACTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (13 bp):
TATTTTCAAAATC
Found at i:9442681 original size:23 final size:22
Alignment explanation
Indices: 9442650--9442693 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
9442640 TATTTTTTTA
9442650 TTTTTATATATATATGTATATG
1 TTTTTATATATATATGTATATG
*
9442672 TTTTTAATATATTTATGTATAT
1 TTTTT-ATATATATATGTATAT
9442694 ACTTATGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (22 bp):
TTTTTATATATATATGTATATG
Found at i:9442786 original size:30 final size:30
Alignment explanation
Indices: 9442734--9442805 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
9442724 ATCCCTAATA
*
9442734 ATTATGTATTATGTAAATA-TTTTAATATTAT
1 ATTATGTA-TATCTAAATATTTTTAATA-TAT
* **
9442765 ATTATGTATATCTATATATTTTTCGTATAT
1 ATTATGTATATCTAAATATTTTTAATATAT
9442795 ATTATGTATAT
1 ATTATGTATAT
9442806 ATGTTTTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 22 0.61
31 14 0.39
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.56
Consensus pattern (30 bp):
ATTATGTATATCTAAATATTTTTAATATAT
Found at i:9442806 original size:24 final size:25
Alignment explanation
Indices: 9442777--9442847 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 25
9442767 TATGTATATC
9442777 TATATATTTTTCGTATATATTATG-
1 TATATATTTTTCGTATATATTATGT
*
9442801 TATATATGTTTTC-AATAT-TGTATGT
1 TATATAT-TTTTCGTATATAT-TATGT
9442826 TATATATTATTGT-GTATATATT
1 TATATATT-TT-TCGTATATATT
9442848 TTAACATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
23 1 0.03
24 16 0.42
25 14 0.37
26 6 0.16
27 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.58
Consensus pattern (25 bp):
TATATATTTTTCGTATATATTATGT
Found at i:9442909 original size:19 final size:19
Alignment explanation
Indices: 9442885--9442921 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9442875 CACTATTTTA
*
9442885 TATATTTCTAATATCATTG
1 TATATTTCTAACATCATTG
9442904 TATATTTCTAACATCATT
1 TATATTTCTAACATCATT
9442922 ATTATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTTCTAACATCATTG
Found at i:9443013 original size:18 final size:18
Alignment explanation
Indices: 9442990--9443027 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
9442980 ATTTCTAATG
*
9442990 TATATATTATATGTATTT
1 TATATATTATATATATTT
9443008 TATATATTATATATATTT
1 TATATATTATATATATTT
9443026 TA
1 TA
9443028 ATGTTATTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
TATATATTATATATATTT
Found at i:9443015 original size:9 final size:9
Alignment explanation
Indices: 9442990--9443024 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
9442980 ATTTCTAATG
9442990 TATATATTA
1 TATATATTA
* *
9442999 TATGTATTT
1 TATATATTA
9443008 TATATATTA
1 TATATATTA
9443017 TATATATT
1 TATATATT
9443025 TTAATGTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (9 bp):
TATATATTA
Found at i:9447567 original size:26 final size:26
Alignment explanation
Indices: 9447538--9447605 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
9447528 TGGTACAAAT
*
9447538 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
9447564 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
9447590 TGATAATGGGTTAGGT
1 TGATAATGGGTTAGGT
9447606 CACTTGGGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:9448963 original size:27 final size:26
Alignment explanation
Indices: 9448918--9448968 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
9448908 CTATGTATGA
* *
9448918 AAAATTACTGTTATACCCTTAGGTGT
1 AAAATTACCGTTATACCCTAAGGTGT
9448944 AAAATTACCGTTATACCCCTAAGGT
1 AAAATTACCGTTATA-CCCTAAGGT
9448969 TAATTTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (26 bp):
AAAATTACCGTTATACCCTAAGGTGT
Found at i:9449110 original size:27 final size:27
Alignment explanation
Indices: 9449070--9449156 Score: 108
Period size: 27 Copynumber: 3.2 Consensus size: 27
9449060 AGGAAGCGTC
*
9449070 CTGGTGGCTATGCCACAATTATCTGATT
1 CTGGTGGCTCTGCCACAATTATCTG-TT
9449098 -TGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGTT
*
9449124 CTGGTGGCTCTGCCACAA-TATCTATAT
1 CTGGTGGCTCTGCCACAATTATCTGT-T
9449151 CTGGTG
1 CTGGTG
9449157 ACTTCGTCAC
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
26 10 0.19
27 42 0.79
28 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:9460086 original size:12 final size:12
Alignment explanation
Indices: 9460069--9460094 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9460059 ACACCTGCAA
9460069 CAAATTAAATGC
1 CAAATTAAATGC
9460081 CAAATTAAATGC
1 CAAATTAAATGC
9460093 CA
1 CA
9460095 CAAAAGCAAC
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:0.50, C:0.19, G:0.08, T:0.23
Consensus pattern (12 bp):
CAAATTAAATGC
Found at i:9463297 original size:16 final size:16
Alignment explanation
Indices: 9463276--9463327 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
9463266 TTTGGTTCGC
9463276 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9463292 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
9463308 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
9463324 TGTA
1 TGTA
9463328 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:9463374 original size:45 final size:44
Alignment explanation
Indices: 9463308--9463402 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
9463298 GGATTAGAGG
* * *
9463308 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
9463353 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
9463397 TGTAAT
1 TGTAAT
9463403 AGAGGTATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:9463584 original size:18 final size:17
Alignment explanation
Indices: 9463563--9463597 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9463553 TTATTATTTA
*
9463563 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
9463581 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
9463598 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:9463591 original size:28 final size:27
Alignment explanation
Indices: 9463520--9463593 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
9463510 TATTTATTAT
*
9463520 CAAAATAAATAATTTAATCATATTTAAA
1 CAAAATATATAATTTAAT-ATATTTAAA
* * *
9463548 CATAAT-TATTATTTAATATATTTTAAT
1 CAAAATATATAATTTAATATA-TTTAAA
*
9463575 TAAAATATATAATTTAATA
1 CAAAATATATAATTTAATA
9463594 AAATTCTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 3 0.08
27 18 0.49
28 16 0.43
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (27 bp):
CAAAATATATAATTTAATATATTTAAA
Found at i:9463674 original size:147 final size:148
Alignment explanation
Indices: 9463483--9463756 Score: 507
Period size: 147 Copynumber: 1.9 Consensus size: 148
9463473 ATGATTATTG
*
9463483 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAATAAATAATTTAATCATATTTAAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAATAAATAATTTAATCATATTTAAA
*
9463548 CATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCA
66 CATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCA
9463613 GAAATTTGTTTTGGTAAA
131 GAAATTTGTTTTGGTAAA
9463631 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAA-AATAAATAATTTAATCATATTTAA
9463694 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
65 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
9463757 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
146 9 0.07
147 109 0.89
148 5 0.04
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (148 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAATAAATAATTTAATCATATTTAAA
CATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCA
GAAATTTGTTTTGGTAAA
Found at i:9463731 original size:18 final size:17
Alignment explanation
Indices: 9463710--9463744 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9463700 TTATTATTAA
*
9463710 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
9463728 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
9463745 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:9463790 original size:61 final size:61
Alignment explanation
Indices: 9463725--9463912 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
9463715 TTTTAATTAA
9463725 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
9463786 AATATATGATACT-GTAAAA-TATAAATTAA--AATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATTAAT-ATTCTTATATGAATTTACTCA-AATCAT
*
9463845 AATATATAATTTAATAAAATTCTTAATAATTAATAGTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
9463906 AATATAT
1 AATATAT
9463913 GATACTATAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.32
60 21 0.22
61 37 0.39
62 3 0.03
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:9463830 original size:15 final size:16
Alignment explanation
Indices: 9463809--9463851 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
9463799 GTAAAATATA
9463809 AATTAAAATA-ATTAT
1 AATTAAAATATATTAT
*
9463824 TATT-AAATATATTAT
1 AATTAAAATATATTAT
9463839 AATTAAAATATAT
1 AATTAAAATATAT
9463852 AATTTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.21
15 11 0.46
16 8 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTAAAATATATTAT
Found at i:9463832 original size:120 final size:120
Alignment explanation
Indices: 9463688--9463985 Score: 508
Period size: 120 Copynumber: 2.5 Consensus size: 120
9463678 ATTTAATCAT
9463688 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAA-ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
9463753 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
65 ATTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
*
9463810 A-TTAAAATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
9463874 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* * *
9463929 ATTTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
9463986 TAAAATAATT
Statistics
Matches: 167, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
119 3 0.02
120 158 0.95
121 5 0.03
122 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (120 bp):
ATTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:9463996 original size:54 final size:54
Alignment explanation
Indices: 9463803--9463996 Score: 151
Period size: 54 Copynumber: 3.4 Consensus size: 54
9463793 GATACTGTAA
* * *
9463803 AATATAAA-TTAAAATAATTATTATTAAATATATTATAATTAAAATATATAATTT
1 AATA-AAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
* * * *
9463857 AATAAAATTCT-TAATAATTAATAGTCT-TATATGAATTTACTCAAATCATAATATATGATACTA
1 AATAAAATT-TAAAATAATTAATA-T-TAAATAT--ATTT--T--AATTAAAATATATGAT--T-
9463920 T
54 T
* *
9463921 AAAAGAAAATTTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
1 --AATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
9463977 AATAAAATTTAAAATAATTA
1 AATAAAATTTAAAATAATTA
9463997 TAACTAATAA
Statistics
Matches: 109, Mismatches: 14, Indels: 34
0.69 0.09 0.22
Matches are distributed among these distances:
53 3 0.03
54 33 0.30
55 6 0.06
56 2 0.02
57 4 0.04
59 15 0.14
61 14 0.13
63 5 0.05
64 2 0.02
65 6 0.06
66 19 0.17
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (54 bp):
AATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
Found at i:9464723 original size:16 final size:16
Alignment explanation
Indices: 9464702--9464737 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
9464692 TAAGAAATCA
9464702 CAGCCATGTACTCCTG
1 CAGCCATGTACTCCTG
9464718 CAGCCATGTACTCCTG
1 CAGCCATGTACTCCTG
9464734 CAGC
1 CAGC
9464738 TCCTGAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.39, G:0.19, T:0.22
Consensus pattern (16 bp):
CAGCCATGTACTCCTG
Found at i:9478165 original size:26 final size:26
Alignment explanation
Indices: 9478136--9478190 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
9478126 GGCCCTAAAC
9478136 GAATTGCGCATAAAGTACTTGAATGT
1 GAATTGCGCATAAAGTACTTGAATGT
*
9478162 GAATTGCGCATAAAGTATTTGAATGT
1 GAATTGCGCATAAAGTACTTGAATGT
9478188 GAA
1 GAA
9478191 CTGTGCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (26 bp):
GAATTGCGCATAAAGTACTTGAATGT
Found at i:9478202 original size:26 final size:26
Alignment explanation
Indices: 9478140--9478202 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
9478130 CTAAACGAAT
* *
9478140 TGCGCATAAAGTACTTGAATGTGAAT
1 TGCGCAAAAAGTACTTGAATGTGAAC
* *
9478166 TGCGCATAAAGTATTTGAATGTGAAC
1 TGCGCAAAAAGTACTTGAATGTGAAC
*
9478192 TGTGCAAAAAG
1 TGCGCAAAAAG
9478203 ATAAGATCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.29
Consensus pattern (26 bp):
TGCGCAAAAAGTACTTGAATGTGAAC
Found at i:9479556 original size:36 final size:36
Alignment explanation
Indices: 9479509--9479583 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
9479499 TGTTTCAGGG
*
9479509 TTTGGCTACTCTGACCGCTATGTACTACGAATCAAA
1 TTTGGCTACTCTGACCCCTATGTACTACGAATCAAA
*
9479545 TTTGGCTACTCTGACCCCTGTGTACTACGAATCAAA
1 TTTGGCTACTCTGACCCCTATGTACTACGAATCAAA
9479581 TTT
1 TTT
9479584 CTTCCTGTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.33
Consensus pattern (36 bp):
TTTGGCTACTCTGACCCCTATGTACTACGAATCAAA
Found at i:9480508 original size:47 final size:47
Alignment explanation
Indices: 9480399--9480509 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
9480389 CCGGGATAAG
* * *
9480399 CACATAGTGCTTCATCCGAACAAATCCGAAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCAGAAACTTTAACAGTATAGTA
* * *
9480446 CACAAAGTACTTCATCGGAACAAATCAGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCAGAAACTTTAACAGTA-TAGTA
9480493 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
9480510 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCAGAAACTTTAACAGTATAGTA
Found at i:9483342 original size:7 final size:7
Alignment explanation
Indices: 9483330--9483356 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9483320 ATTATTTTAT
9483330 TTTATTA
1 TTTATTA
9483337 TTTATTA
1 TTTATTA
9483344 TTTATTA
1 TTTATTA
9483351 TTTATT
1 TTTATT
9483357 TTATTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTATTA
Found at i:9500380 original size:40 final size:38
Alignment explanation
Indices: 9500275--9500441 Score: 163
Period size: 35 Copynumber: 4.6 Consensus size: 38
9500265 CATGGCAAAG
*
9500275 TGTGAAATGTAGATATGG---TATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATCATCCATACTGAGT
* *
9500310 TGTGAAATGTTGGTATGGTATTATC-T--ATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCATCCATACTGAGT
9500345 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATC--ATCCATACTGAGT
** ** *
9500385 TAAGAAATGTAGGTATGACATT-TC--CCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTATCATCCATACTGAGT
**
9500420 TGAAAAATGTAGGTATGGTATT
1 TGTGAAATGTAGGTATGGTATT
9500442 TCAATGAGGA
Statistics
Matches: 110, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
35 76 0.69
37 1 0.01
38 5 0.05
39 2 0.02
40 26 0.24
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (38 bp):
TGTGAAATGTAGGTATGGTATTATCATCCATACTGAGT
Found at i:9500393 original size:75 final size:75
Alignment explanation
Indices: 9500275--9500445 Score: 185
Period size: 75 Copynumber: 2.4 Consensus size: 75
9500265 CATGGCAAAG
* ** * **
9500275 TGTGAAATGTAGATATGG---TATC--ATCCATACTGAGTTGTGAAATGTTGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGACATT-TC
* *
9500334 CTATACTGAGC
65 CCATACCGAGC
9500345 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGACATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGACATTTCC
*
9500410 CATACCGAGT
66 CATACCGAGC
**
9500420 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
9500446 TGAGGAAAAC
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
70 17 0.20
73 4 0.05
74 5 0.06
75 58 0.69
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.35
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGACATTTCC
CATACCGAGC
Found at i:9504299 original size:44 final size:45
Alignment explanation
Indices: 9504234--9504488 Score: 245
Period size: 44 Copynumber: 5.8 Consensus size: 45
9504224 TCATGGCGAA
9504234 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAAC
* *
9504279 T-TTATCTCCCTAAAGTTGCAGTGGAGCATATTGAAGCCACAAAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAAC
* * ** *
9504323 -C-T-TCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAAC
* * * * *
9504364 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATAGAAACCAC-TAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAAC
* ** * **
9504408 TCTCATCTCCCTGAAGTTGCAGTGGAGTGGACTGAAGATAGCAAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAAC
* * * * *
9504453 TCTTATTTTCCTGAAGTTGCAGAGAAGAAGATTGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
9504489 AATACGAGTC
Statistics
Matches: 168, Mismatches: 35, Indels: 14
0.77 0.16 0.06
Matches are distributed among these distances:
42 33 0.20
43 3 0.02
44 101 0.60
45 30 0.18
46 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAAC
Found at i:9504387 original size:86 final size:88
Alignment explanation
Indices: 9504238--9504434 Score: 247
Period size: 86 Copynumber: 2.3 Consensus size: 88
9504228 GGCGAATCTT
*
9504238 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAACTTTATCTCCCTAAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAACTTTATCTCCCTAAAGTTACAGTGG
* * *
9504303 AGCATATTGAAGCCAC-AAAC-C
66 AGCAGATAGAAACCACTAAACTC
* * * ** * *
9504324 TTCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACGAA-TCTTATCTCCCTGAAGTTACAGTG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAACT-TTATCTCCCTAAAGTTACAGTG
**
9504388 GAGCAGATAGAAACCACTAGTCTC
65 GAGCAGATAGAAACCACTAAACTC
9504412 ATCTCCCTGAAGTTGCAGTGGAG
1 ATCTCCCTGAAGTTGCAGTGGAG
9504435 TGGACTGAAG
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
85 1 0.01
86 68 0.73
87 2 0.02
88 22 0.24
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (88 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAACTTTATCTCCCTAAAGTTACAGTGG
AGCAGATAGAAACCACTAAACTC
Found at i:9504503 original size:89 final size:87
Alignment explanation
Indices: 9504325--9504524 Score: 222
Period size: 89 Copynumber: 2.3 Consensus size: 87
9504315 CCACAAACCT
* * * * * * *
9504325 TCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACGAATCTTATCTCCCTGAAGTTACAGTGGA
1 TCTCCCTGAAGTTGCAGTGGAG-TGGCTGAAGATACAAATCTTATCTCCCTGAAGTTACAGAGAA
* * *
9504390 GCAGATAGAAACCACTAGTCTCA
65 GAAGATAGAAAACACGAGTCTCA
* * *
9504413 TCTCCCTGAAGTTGCAGTGGAGTGGACTGAAGATAGCAAATCTTATTTTCCTGAAGTTGCAGAGA
1 TCTCCCTGAAGTTGCAGTGGAGTGG-CTGAAGATA-CAAATCTTATCTCCCTGAAGTTACAGAGA
* *
9504478 AGAAGATTGAAAATACGAGTCTCA
64 AGAAGATAGAAAACACGAGTCTCA
9504502 TC-CCACTGAAGTTGCAGTGGAGT
1 TCTCC-CTGAAGTTGCAGTGGAGT
9504525 AGATCGAAGC
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
87 2 0.02
88 30 0.32
89 62 0.66
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (87 bp):
TCTCCCTGAAGTTGCAGTGGAGTGGCTGAAGATACAAATCTTATCTCCCTGAAGTTACAGAGAAG
AAGATAGAAAACACGAGTCTCA
Found at i:9506285 original size:16 final size:16
Alignment explanation
Indices: 9506266--9506304 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9506256 AAATTTTCCC
* *
9506266 TTTTTCCTTCTTTCTT
1 TTTTTCCTCCCTTCTT
9506282 TTTTTCCTCCCTTCTT
1 TTTTTCCTCCCTTCTT
*
9506298 TCTTTCC
1 TTTTTCC
9506305 CCTGCTCTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTCCTCCCTTCTT
Found at i:9506364 original size:16 final size:17
Alignment explanation
Indices: 9506333--9506378 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
9506323 TCATCCTTTC
*
9506333 TTTCTTTTTCTATTCTT
1 TTTCTTTTTATATTCTT
9506350 TTTCTTTTTAT-TTCTT
1 TTTCTTTTTATATTCTT
* *
9506366 TTACTTTATATAT
1 TTTCTTTTTATAT
9506379 ATATATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTTTTTATATTCTT
Found at i:9506367 original size:10 final size:10
Alignment explanation
Indices: 9506329--9506366 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
9506319 CGTTTCATCC
9506329 TTTCTTTCTT
1 TTTCTTTCTT
9506339 TTTCTATTCTT
1 TTTCT-TTCTT
9506350 TTTCTTT-TT
1 TTTCTTTCTT
9506359 ATTTCTTT
1 -TTTCTTT
9506367 TACTTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.08
10 14 0.54
11 10 0.38
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:9507911 original size:12 final size:13
Alignment explanation
Indices: 9507880--9507924 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
9507870 TTCACTTCGT
*
9507880 ATTTCAATATCTCA
1 ATTTCAAT-TCACA
9507894 ATTTCAATTCAC-
1 ATTTCAATTCACA
*
9507906 ATTTCAATTCATA
1 ATTTCAATTCACA
9507919 ATTTCA
1 ATTTCA
9507925 CTTTCTCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 11 0.39
13 9 0.32
14 8 0.29
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTCAATTCACA
Found at i:9508512 original size:16 final size:17
Alignment explanation
Indices: 9508491--9508524 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
9508481 ACACATTCAC
9508491 CATTCAATTC-AATTCT
1 CATTCAATTCAAATTCT
9508507 CATTCAATTCAAATTCT
1 CATTCAATTCAAATTCT
9508524 C
1 C
9508525 TTTTCCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.41
Consensus pattern (17 bp):
CATTCAATTCAAATTCT
Found at i:9509190 original size:14 final size:15
Alignment explanation
Indices: 9509162--9509194 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
9509152 TTTCGAATGG
9509162 CTTTTGCTATTCTTT
1 CTTTTGCTATTCTTT
9509177 CTTTTGCT-TTCTTT
1 CTTTTGCTATTCTTT
9509191 CTTT
1 CTTT
9509195 ATTTCATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.03, C:0.21, G:0.06, T:0.70
Consensus pattern (15 bp):
CTTTTGCTATTCTTT
Found at i:9509248 original size:9 final size:9
Alignment explanation
Indices: 9509234--9509258 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9509224 ATATATTAGT
9509234 TAATAATGA
1 TAATAATGA
9509243 TAATAATGA
1 TAATAATGA
9509252 TAATAAT
1 TAATAAT
9509259 AATTATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (9 bp):
TAATAATGA
Found at i:9509895 original size:20 final size:19
Alignment explanation
Indices: 9509849--9509895 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
9509839 AGCCCTTTTT
*
9509849 CCTAATTTCTCTTAATTAAG
1 CCTAA-TTCACTTAATTAAG
9509869 -CTAAATTCACTTAATTAAAG
1 CCT-AATTCACTTAATT-AAG
9509889 CCTAATT
1 CCTAATT
9509896 AAACACACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 12 0.52
20 9 0.39
21 2 0.09
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.40
Consensus pattern (19 bp):
CCTAATTCACTTAATTAAG
Found at i:9515240 original size:29 final size:29
Alignment explanation
Indices: 9515208--9515263 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
9515198 CTTTTTCAAT
9515208 TAATTAATAACATTATAAAAATATAAAAC
1 TAATTAATAACATTATAAAAATATAAAAC
* *
9515237 TAATTAGTAACATTATAAAAATGTAAA
1 TAATTAATAACATTATAAAAATATAAA
9515264 GAGATAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (29 bp):
TAATTAATAACATTATAAAAATATAAAAC
Found at i:9524568 original size:21 final size:21
Alignment explanation
Indices: 9524542--9524585 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
9524532 ATTACTAAAG
9524542 TATCTACACATATTTAACCCA
1 TATCTACACATATTTAACCCA
*
9524563 TATCTACACATATTTGACCCA
1 TATCTACACATATTTAACCCA
9524584 TA
1 TA
9524586 CTTTATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.34
Consensus pattern (21 bp):
TATCTACACATATTTAACCCA
Found at i:9529573 original size:17 final size:17
Alignment explanation
Indices: 9529551--9529587 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
9529541 TTGACAATTA
9529551 AGCTATTTAATCCTTTT
1 AGCTATTTAATCCTTTT
9529568 AGCTATTTAATCCTTTT
1 AGCTATTTAATCCTTTT
9529585 AGC
1 AGC
9529588 AACTTTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.19, G:0.08, T:0.49
Consensus pattern (17 bp):
AGCTATTTAATCCTTTT
Done.