Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 73 of 325
Found at i:20186593 original size:50 final size:50
Alignment explanation
Indices: 20186534--20186684 Score: 212
Period size: 50 Copynumber: 3.0 Consensus size: 50
20186524 AGGTTACTTG
* * *
20186534 GGAAGCCTTTGTGGCTAATCTTATGGAAAGCCTTTGTGGCATGTTATTTA
1 GGAAGCCTTTGTGGCTAATCTTGTGGAAAGCCTTTGTGGCGTGTTATCTA
* *
20186584 GGAAGCCTTTGTGGCTAATCTTGTGGAAAGACTTTGTGACGTGTTATCTA
1 GGAAGCCTTTGTGGCTAATCTTGTGGAAAGCCTTTGTGGCGTGTTATCTA
* * * * *
20186634 GGAAGCCTTTATGGTTAACCTTGTGGAAAGCATTCGTGGCGTGTTATCTA
1 GGAAGCCTTTGTGGCTAATCTTGTGGAAAGCCTTTGTGGCGTGTTATCTA
20186684 G
1 G
20186685 AAAATCCATA
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 89 1.00
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.36
Consensus pattern (50 bp):
GGAAGCCTTTGTGGCTAATCTTGTGGAAAGCCTTTGTGGCGTGTTATCTA
Found at i:20186836 original size:22 final size:22
Alignment explanation
Indices: 20186806--20186847 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
20186796 ACCAACTGAT
20186806 GAATCTGAAATATGGTGTAATG
1 GAATCTGAAATATGGTGTAATG
*
20186828 GAATTTGAAATATGGTGTAA
1 GAATCTGAAATATGGTGTAA
20186848 AGTCTGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.33
Consensus pattern (22 bp):
GAATCTGAAATATGGTGTAATG
Found at i:20188651 original size:35 final size:35
Alignment explanation
Indices: 20188605--20188675 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
20188595 GGTGTATGTT
*
20188605 GGTTGTACATCGTTCTTTGAAGTGTACTATTGATG
1 GGTTGTACATCGTTCTCTGAAGTGTACTATTGATG
20188640 GGTTGTACATCGTTCTCTGAAGTGTACTATTGATG
1 GGTTGTACATCGTTCTCTGAAGTGTACTATTGATG
20188675 G
1 G
20188676 AGTACGGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.41
Consensus pattern (35 bp):
GGTTGTACATCGTTCTCTGAAGTGTACTATTGATG
Found at i:20194685 original size:47 final size:47
Alignment explanation
Indices: 20194628--20194907 Score: 425
Period size: 47 Copynumber: 6.0 Consensus size: 47
20194618 TTAGGATTTT
* * *
20194628 ATGTGATGAATGTGAGCATGCATATGTGTGGTAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
20194675 ATGTGGTGAATATGAACATGCATATATGTGATAGGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
20194722 ATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
20194769 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
20194816 ATGTGATGAATGTGAGCATGCATATTTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
20194863 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
20194908 TAGTGTGAAA
Statistics
Matches: 212, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 212 1.00
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:20194755 original size:25 final size:25
Alignment explanation
Indices: 20194721--20194800 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
20194711 CCGAATGGCC
20194721 TATGTGATGAATGTGAACATGCATA
1 TATGTGATGAATGTGAACATGCATA
* * *
20194746 TATGTGATG-AGGCCG-A-ATGGC-CA
1 TATGTGATGAATG-TGAACAT-GCATA
*
20194769 -ATGTGATGAATGTGAGCATGCATA
1 TATGTGATGAATGTGAACATGCATA
20194793 TATGTGAT
1 TATGTGAT
20194801 AAGGCCGAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 9 0.22
23 7 0.17
24 8 0.20
25 17 0.41
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.30
Consensus pattern (25 bp):
TATGTGATGAATGTGAACATGCATA
Found at i:20195120 original size:37 final size:37
Alignment explanation
Indices: 20195070--20195183 Score: 176
Period size: 37 Copynumber: 3.1 Consensus size: 37
20195060 GGAAATATAT
*
20195070 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
20195107 TCCGGGTAAGACCCGATGACTACGTGTGGAGA-TTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * * *
20195143 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATTTCG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
20195180 TCCG
1 TCCG
20195184 AGCTAAAGGT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
36 33 0.47
37 37 0.53
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:20195150 original size:36 final size:36
Alignment explanation
Indices: 20195070--20195183 Score: 174
Period size: 36 Copynumber: 3.1 Consensus size: 36
20195060 GGAAATATAT
*
20195070 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGA-TTTG
20195107 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTG
* * *
20195143 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATTTCG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT-G
20195180 TCCG
1 TCCG
20195184 AGCTAAAGGT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 36 0.51
37 35 0.49
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.27
Consensus pattern (36 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTG
Found at i:20198760 original size:26 final size:27
Alignment explanation
Indices: 20198704--20198760 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
20198694 TGACTGTTTA
* * **
20198704 ATCATTTTGGCCCTTTATTTTTTTTTG
1 ATCACTTTGGCCCTTAACGTTTTTTTG
20198731 ATCACTTTGGCCCTTAACGTTTTTTT-
1 ATCACTTTGGCCCTTAACGTTTTTTTG
20198757 ATCA
1 ATCA
20198761 AATTGGTCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.16, C:0.19, G:0.11, T:0.54
Consensus pattern (27 bp):
ATCACTTTGGCCCTTAACGTTTTTTTG
Found at i:20199640 original size:2 final size:2
Alignment explanation
Indices: 20199635--20199669 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
20199625 AAGAACCTAG
20199635 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20199670 CAACAAAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20204900 original size:20 final size:20
Alignment explanation
Indices: 20204877--20204914 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20204867 CACATCCAAA
*
20204877 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
20204897 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
20204915 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:20211789 original size:18 final size:19
Alignment explanation
Indices: 20211766--20211807 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
20211756 TAATTTGTAA
20211766 TTTGAA-TTATTA-TTCTAT
1 TTTGAACTTA-TACTTCTAT
20211784 TTTGAACTTATACGTTCTAT
1 TTTGAACTTATAC-TTCTAT
20211804 TTTG
1 TTTG
20211808 TATAGTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 8 0.38
19 3 0.14
20 10 0.48
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.57
Consensus pattern (19 bp):
TTTGAACTTATACTTCTAT
Found at i:20217156 original size:16 final size:17
Alignment explanation
Indices: 20217129--20217161 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
20217119 GGTCTCTTGT
*
20217129 ATTTATGGTTAACATGG
1 ATTTATGGTTAAAATGG
20217146 ATTTA-GGTTAAAATGG
1 ATTTATGGTTAAAATGG
20217162 TTAGGTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.33, C:0.03, G:0.24, T:0.39
Consensus pattern (17 bp):
ATTTATGGTTAAAATGG
Found at i:20220151 original size:20 final size:20
Alignment explanation
Indices: 20220126--20220168 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
20220116 TTTAAAATAT
20220126 AAATTTATTAATATATATAA
1 AAATTTATTAATATATATAA
*
20220146 AAATTTATTAATATATGTAA
1 AAATTTATTAATATATATAA
20220166 AAA
1 AAA
20220169 CAGCTTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
AAATTTATTAATATATATAA
Found at i:20221470 original size:25 final size:25
Alignment explanation
Indices: 20221442--20221494 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
20221432 TTAGAGAGTT
20221442 ACACGGCCTGGCACACGGGCATGTG
1 ACACGGCCTGGCACACGGGCATGTG
* *
20221467 ACACGGCTTGGCACACGGGCGTGTG
1 ACACGGCCTGGCACACGGGCATGTG
20221492 ACA
1 ACA
20221495 TGGCAGTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.21, C:0.30, G:0.36, T:0.13
Consensus pattern (25 bp):
ACACGGCCTGGCACACGGGCATGTG
Found at i:20225490 original size:16 final size:17
Alignment explanation
Indices: 20225463--20225495 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
20225453 GGTCCCTTGT
*
20225463 ATTTATGGTTAACATGG
1 ATTTATGGTTAAAATGG
20225480 ATTTA-GGTTAAAATGG
1 ATTTATGGTTAAAATGG
20225496 TTAGATTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.33, C:0.03, G:0.24, T:0.39
Consensus pattern (17 bp):
ATTTATGGTTAAAATGG
Found at i:20230379 original size:21 final size:21
Alignment explanation
Indices: 20230355--20230451 Score: 90
Period size: 21 Copynumber: 4.5 Consensus size: 21
20230345 ATTAACCTTA
20230355 AATTAATAAACCTTAAACCCT
1 AATTAATAAACCTTAAACCCT
* *
20230376 AATTTATAAACACTAAAACCCT
1 AATTAATAAAC-CTTAAACCCT
*
20230398 AA-TAATAAAATCATT-AACCCT
1 AATTAAT-AAA-CCTTAAACCCT
* *
20230419 AATTTAACAAACCATAAACCCT
1 AA-TTAATAAACCTTAAACCCT
*
20230441 AATTAACAAAC
1 AATTAATAAAC
20230452 ACTAATGACC
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
21 32 0.52
22 26 0.42
23 4 0.06
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (21 bp):
AATTAATAAACCTTAAACCCT
Found at i:20230392 original size:65 final size:65
Alignment explanation
Indices: 20230323--20230527 Score: 250
Period size: 65 Copynumber: 3.1 Consensus size: 65
20230313 AAATCCTATC
* * * *
20230323 CTAAAAACCTAATAATAAAATCATTAACCTTAAATTAATAAACCTTAAACCCTAATTTATAAACA
1 CTAAAAACCTAATAATAAAATCATTAACCATAATTTAACAAACCTTAAACCCTAATTAATAAACA
* * * *
20230388 CTAAAACCCTAATAATAAAATCATTAACCCTAATTTAACAAACCATAAACCCTAATTAACAAACA
1 CTAAAAACCTAATAATAAAATCATTAACCATAATTTAACAAACCTTAAACCCTAATTAATAAACA
** * *
20230453 CTAATGACCATAATAATAAAATTC-TTAACCATAATTTAACAAACCCTAAAAACCTAATTAATAA
1 CTAAAAACC-TAATAATAAAA-TCATTAACCATAATTTAACAAA-CCTTAAACCCTAATTAATAA
*
20230517 ATA
63 ACA
20230520 CTTAAAAA
1 C-TAAAAA
20230528 TAATAAAATC
Statistics
Matches: 118, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
65 64 0.54
66 29 0.25
67 21 0.18
68 4 0.03
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (65 bp):
CTAAAAACCTAATAATAAAATCATTAACCATAATTTAACAAACCTTAAACCCTAATTAATAAACA
Found at i:20230394 original size:22 final size:21
Alignment explanation
Indices: 20230355--20230517 Score: 75
Period size: 21 Copynumber: 7.5 Consensus size: 21
20230345 ATTAACCTTA
*
20230355 AATTAATAAACCTTAAACCCT
1 AATTAATAAACCTAAAACCCT
*
20230376 AATTTATAAACACTAAAACCCT
1 AATTAATAAAC-CTAAAACCCT
* *
20230398 AA-TAATAAA-ATCATTAACCCT
1 AATTAATAAACCT-A-AAACCCT
*
20230419 AATTTAACAAACC-ATAAACCCT
1 AA-TTAATAAACCTA-AAACCCT
* * *
20230441 AATTAACAAACACTAATGACCAT
1 AATTAATAAAC-CTAA-AACCCT
* * *
20230464 AA-TAATAAAATTCT-TAACCAT
1 AATTAAT-AAA-CCTAAAACCCT
* *
20230485 AATTTAACAAACCCTAAAAACCT
1 AA-TTAATAAA-CCTAAAACCCT
20230508 AATTAATAAA
1 AATTAATAAA
20230518 TACTTAAAAA
Statistics
Matches: 107, Mismatches: 21, Indels: 27
0.69 0.14 0.17
Matches are distributed among these distances:
19 1 0.01
20 1 0.01
21 40 0.37
22 38 0.36
23 27 0.25
ACGTcount: A:0.52, C:0.21, G:0.01, T:0.26
Consensus pattern (21 bp):
AATTAATAAACCTAAAACCCT
Found at i:20230531 original size:44 final size:45
Alignment explanation
Indices: 20230443--20230531 Score: 101
Period size: 45 Copynumber: 2.0 Consensus size: 45
20230433 TAAACCCTAA
** * **
20230443 TTAACAAACACTAATGACCATAATAATAAAATTCTTAACCATAAT
1 TTAACAAACACTAAAAACCATAATAATAAAATACTTAAAAATAAT
*
20230488 TTAACAAACCCTAAAAACC-TAATTAAT-AAATACTTAAAAATAAT
1 TTAACAAACACTAAAAACCATAA-TAATAAAATACTTAAAAATAAT
20230532 AAAATCCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
44 17 0.46
45 20 0.54
ACGTcount: A:0.54, C:0.17, G:0.01, T:0.28
Consensus pattern (45 bp):
TTAACAAACACTAAAAACCATAATAATAAAATACTTAAAAATAAT
Found at i:20233563 original size:44 final size:44
Alignment explanation
Indices: 20233500--20233588 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
20233490 AAGGAAAAAT
*
20233500 GTTATCGAAGAAGACATCATCTCTAGATTCACAAATAGAATATA
1 GTTATCGAAGAAGACATCATCTCTAGATTCACAAATAAAATATA
20233544 GTTATCGAAGAAGACATCATCTCTAGATTCACAAATAAAATATA
1 GTTATCGAAGAAGACATCATCTCTAGATTCACAAATAAAATATA
20233588 G
1 G
20233589 CAGCCCATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (44 bp):
GTTATCGAAGAAGACATCATCTCTAGATTCACAAATAAAATATA
Found at i:20236502 original size:25 final size:25
Alignment explanation
Indices: 20236474--20236543 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
20236464 CTCTTTTAAT
*
20236474 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
20236499 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
20236524 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
20236544 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:20236602 original size:10 final size:10
Alignment explanation
Indices: 20236589--20236627 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
20236579 ATATATGAAT
20236589 ATATCATGGC
1 ATATCATGGC
*
20236599 ATATTATGTGC
1 ATATCATG-GC
20236610 ATATCATGGC
1 ATATCATGGC
20236620 ATATCATG
1 ATATCATG
20236628 TATAAAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (10 bp):
ATATCATGGC
Found at i:20236613 original size:21 final size:21
Alignment explanation
Indices: 20236589--20236628 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
20236579 ATATATGAAT
*
20236589 ATATCATGGCATATTATGTGC
1 ATATCATGGCATATCATGTGC
20236610 ATATCATGGCATATCATGT
1 ATATCATGGCATATCATGT
20236629 ATAAAACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:20236695 original size:25 final size:25
Alignment explanation
Indices: 20236667--20236714 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
20236657 ATAACATATC
* *
20236667 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
20236692 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
20236715 CACATTATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:20242038 original size:40 final size:40
Alignment explanation
Indices: 20241953--20242103 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
20241943 AATTGAATGA
* * *
20241953 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
20241993 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
20242034 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
20242073 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
20242104 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:20242117 original size:40 final size:40
Alignment explanation
Indices: 20241989--20242119 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
20241979 TATGCTGGAA
* * *
20241989 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
20242029 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
20242069 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
20242109 ATTATATCCGG
1 ATTATATCCGG
20242120 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:20250079 original size:80 final size:79
Alignment explanation
Indices: 20249947--20250095 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
20249937 ATTGAATGAT
*
20249947 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAATT
1 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
20250012 GTGCTAGTGGCTAC
66 GTGCTAGTGGCTAC
* * * *
20250026 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGCA
*
20250089 TTTGTGC
63 ATTGTGC
20250096 ACGTGATTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 16 0.26
80 45 0.74
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (79 bp):
ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
GTGCTAGTGGCTAC
Found at i:20250109 original size:40 final size:40
Alignment explanation
Indices: 20249945--20250111 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
20249935 AAATTGAATG
* * *
20249945 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGAGATT
* * * **
20249984 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAGATT
* *
20250024 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGAGATT
* * *
20250064 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GAGATT
20250104 ATATCCGG
1 ATATCCGG
20250112 TTATATTCCG
Statistics
Matches: 102, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
39 17 0.17
40 83 0.81
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAGATT
Found at i:20250110 original size:80 final size:79
Alignment explanation
Indices: 20249945--20250111 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 79
20249935 AAATTGAATG
*
20249945 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
20250010 TTGTGCTAGTGGCT
66 TTGTGCTAGTGACT
* * * * *
20250024 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
20250087 CATTTGTGC-ACGTGATT
63 CAATTGTGCTA-GTGACT
20250104 ATATCCGG
1 ATATCCGG
20250112 TTATATTCCG
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
79 18 0.24
80 56 0.76
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGACT
Found at i:20253488 original size:21 final size:21
Alignment explanation
Indices: 20253458--20253503 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
20253448 CATAGTTGGA
*
20253458 CACACGGGCGTGTGGAGTAGT
1 CACACCGGCGTGTGGAGTAGT
20253479 CACACCGGCGTGTGGAGTAGT
1 CACACCGGCGTGTGGAGTAGT
20253500 CACA
1 CACA
20253504 TGGGCATGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.24, G:0.37, T:0.17
Consensus pattern (21 bp):
CACACCGGCGTGTGGAGTAGT
Found at i:20253513 original size:21 final size:21
Alignment explanation
Indices: 20253458--20253514 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
20253448 CATAGTTGGA
*
20253458 CACACGGGCGTGTGGAGTAGT
1 CACACGGGCATGTGGAGTAGT
* *
20253479 CACACCGGCGTGTGGAGTAGT
1 CACACGGGCATGTGGAGTAGT
*
20253500 CACATGGGCATGTGG
1 CACACGGGCATGTGG
20253515 GATAGCCACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.21, G:0.40, T:0.19
Consensus pattern (21 bp):
CACACGGGCATGTGGAGTAGT
Found at i:20256087 original size:4 final size:4
Alignment explanation
Indices: 20256078--20256102 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
20256068 TAATATGGAA
20256078 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
20256103 TTACGCCGTG
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:20257194 original size:2 final size:2
Alignment explanation
Indices: 20257189--20257227 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
20257179 CTATTGGTCC
20257189 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20257228 TCTCATTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20259934 original size:79 final size:82
Alignment explanation
Indices: 20259794--20259978 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
20259784 TCGAATGATG
* * *
20259794 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
20259858 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
20259874 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
20259936 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
20259954 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20259979 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:20259986 original size:40 final size:40
Alignment explanation
Indices: 20259795--20259986 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
20259785 CGAATGATGT
* * * * *
20259795 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
20259835 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
20259875 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
20259914 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
20259954 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
20259987 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:20261884 original size:25 final size:29
Alignment explanation
Indices: 20261846--20261906 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 29
20261836 GTGATTTTTA
20261846 GTGAAAATGCTTAAA-T-AAGATTAAATT
1 GTGAAAATGCTTAAATTGAAGATTAAATT
*
20261873 GTGAAAA-G-TTAAATTGAAGGTTAAATT
1 GTGAAAATGCTTAAATTGAAGATTAAATT
20261900 GT-AAAAT
1 GTGAAAAT
20261907 AAATGAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 5 0.17
26 6 0.20
27 19 0.63
ACGTcount: A:0.48, C:0.02, G:0.18, T:0.33
Consensus pattern (29 bp):
GTGAAAATGCTTAAATTGAAGATTAAATT
Found at i:20262447 original size:43 final size:43
Alignment explanation
Indices: 20262391--20262511 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 43
20262381 ATCGATTTTT
* *
20262391 GATTACATG-AAGACCATGTCTGGGACATTGGCATTG-TATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTTAAT-A
* *
20262433 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAATC
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTTAATA
* * * *
20262476 GATTTCGCGTAAGACCCTGTCTGGGACAGTGGCATT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATT
20262512 AATATGTGAT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 8 0.12
43 57 0.84
44 3 0.04
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTTAATA
Found at i:20270510 original size:22 final size:21
Alignment explanation
Indices: 20270475--20270550 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
20270465 AAAAGGTATC
* *
20270475 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
20270496 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
20270519 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
20270538 TGC-AATCATATCT
1 TACAAATCATATCT
20270551 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:20270567 original size:35 final size:37
Alignment explanation
Indices: 20270504--20270582 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
20270494 ATTACAAAAT
20270504 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
20270540 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
20270575 CATATCAT
1 CATATCAT
20270583 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:20270580 original size:14 final size:15
Alignment explanation
Indices: 20270525--20270580 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
20270515 AGATTGCATA
20270525 TCATATCTAAGATTG
1 TCATATCTAAGATTG
20270540 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
20270558 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
20270575 -CATATC
1 TCATATC
20270581 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:20270590 original size:17 final size:19
Alignment explanation
Indices: 20270511--20270582 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
20270501 AATCATATCT
20270511 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
20270530 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
20270548 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
20270565 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
20270583 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:20271139 original size:87 final size:86
Alignment explanation
Indices: 20270978--20271139 Score: 193
Period size: 87 Copynumber: 1.9 Consensus size: 86
20270968 ATACAGAGAT
* *
20270978 GCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTGTGTCTTCAATT
1 GCCAAATCATCTTAGATCTGCTTCA-CGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCAATC
*
20271043 TTCTCCTTGTGAAAACAAGGAC
65 TGCTCCTTGTGAAAACAAGGAC
* * * * *
20271065 GCCAAATCATCTTGGATCTGCTTCA-GTAAAATCATC-TGAAGGTCAGATCTGCTATGTCTTTAA
1 GCCAAATCATCTTAGATCTGCTTCACGT-AAA-CA-CGTGAAAGCCAAATCTGCTATGTCTTCAA
*
20271128 TCTGCTTCTTGT
63 TCTGCTCCTTGT
20271140 AAACTTATGA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
85 2 0.03
86 3 0.05
87 57 0.90
88 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (86 bp):
GCCAAATCATCTTAGATCTGCTTCACGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCAATCT
GCTCCTTGTGAAAACAAGGAC
Found at i:20271351 original size:261 final size:256
Alignment explanation
Indices: 20270887--20271377 Score: 662
Period size: 261 Copynumber: 1.9 Consensus size: 256
20270877 GCAAACTCAA
* * *
20270887 GACTGTCATGTTGATATCTTCGATCTACTCTTCGTCGAACACAGAGACGCCAAATCTGCTTCTTC
1 GACTGTCATGTTGATATCTTCGATCTACTCTCCGCCGAACACAGAGACACCAAATCTGCTTCTTC
* * * * *
20270952 GATTTGTTTTCTGACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGA
66 GATTTATTCTCTAACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCATAAACACGCGA
* * * * *
20271017 AAGCCAAATCTGCTGTGTCTTCAATTTTCTCCTTGTGAAAACAAGGACGCCAAATCATCTTGGAT
131 AAACCAAATCAGCTATGTCTTCAATTTTCTCCTTGTGAAAACAAGGACGCCAAACCATCTTAGAT
20271082 CTGCTTCAGTAAAATCATCTGAAGGTCAGATCTGCTATGTCTTTAATCTGCTTCTTGTAAACTTA
196 CTGCTTCAG-----TCATCTGAAGGTCAGATCTGCTATGTCTTTAATCTGCTTCTTGTAAACTTA
20271147 T
256 T
* * * * *
20271148 GACTGTCCTGTTGATATCTTCGATCTGCTCTCCGCCGAATACAGAGACACCAAATTTGTTTCTTC
1 GACTGTCATGTTGATATCTTCGATCTACTCTCCGCCGAACACAGAGACACCAAATCTGCTTCTTC
* *
20271213 GATTTATTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCATAAGCACGCGA
66 GATTTATTCTCTAACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCATAAACACGCGA
* ** * *
20271278 AAACCAAATCAGCTATTTCTTTGATTTGT-TCCTTGT-AAGCACAAGGATGCCAAACCATCTTAG
131 AAACCAAATCAGCTATGTCTTCAATTT-TCTCCTTGTGAA-AACAAGGACGCCAAACCATCTTAG
* *
20271341 ATTTGCTTCAGTCATCTGAAGGTTAGATCTGCTATGT
194 ATCTGCTTCAGTCATCTGAAGGTCAGATCTGCTATGT
20271378 ATCTGCTCTC
Statistics
Matches: 201, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
256 25 0.12
260 2 0.01
261 173 0.86
262 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (256 bp):
GACTGTCATGTTGATATCTTCGATCTACTCTCCGCCGAACACAGAGACACCAAATCTGCTTCTTC
GATTTATTCTCTAACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCATAAACACGCGA
AAACCAAATCAGCTATGTCTTCAATTTTCTCCTTGTGAAAACAAGGACGCCAAACCATCTTAGAT
CTGCTTCAGTCATCTGAAGGTCAGATCTGCTATGTCTTTAATCTGCTTCTTGTAAACTTAT
Found at i:20271680 original size:190 final size:192
Alignment explanation
Indices: 20271219--20271947 Score: 950
Period size: 190 Copynumber: 3.7 Consensus size: 192
20271209 CTTCGATTTA
* * * *
20271219 TTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCATAAGCACGCGAAAACCA
1 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGTGAAAGCCA
* * * *
20271284 AATCAGCTATTTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTAGATTTGCTT
66 AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTT
* * *
20271349 CAG--T---CATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGA
131 CAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCATCAAAATGGAGAT----GA
20271409 C
192 C
* *
20271410 TTCGATTTGTTATTTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACG
1 TTC---------TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACG
*
20271475 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAATGATGCCAAACCATCTTG
57 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
20271540 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCATCAAAATGGA
122 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCATCAAAATGGA
20271605 GATG-C
187 GATGAC
*
20271610 -TCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCA
1 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGTGAAAGCCA
*
20271674 AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATTCCAAACCATCTTGGATCTGCTT
66 AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTT
* * * *
20271739 CAGTATAAACATCTGAAGTTTAGATCTGCTATGTATTTACTCTCCGTCGAAATGGAGATGCCAAA
131 CAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCATCAAAATGGAGATG----A
20271804 C
192 C
*
20271805 TTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTGGCTTCAGCGTAAGCACG
1 ---------TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACG
* * *
20271870 CGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
57 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
20271935 GATCTTGCTTCAG
122 GATC-TGCTTCAG
20271948 CCAGATCTGC
Statistics
Matches: 479, Mismatches: 29, Indels: 45
0.87 0.05 0.08
Matches are distributed among these distances:
190 178 0.37
191 3 0.01
195 1 0.00
199 2 0.00
200 120 0.25
201 1 0.00
202 1 0.00
205 165 0.34
206 8 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (192 bp):
TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGTGAAAGCCA
AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTT
CAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCATCAAAATGGAGATGAC
Found at i:20272917 original size:18 final size:18
Alignment explanation
Indices: 20272890--20272934 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
20272880 GGCCTCTCCA
20272890 TTTTTCTTTTTATTTT-T
1 TTTTTCTTTTTATTTTCT
20272907 TTTTCTCTTTTTATTTTCT
1 TTTT-TCTTTTTATTTTCT
20272926 TTTTT-TTTT
1 TTTTTCTTTT
20272935 GAAATAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.31
18 13 0.50
19 5 0.19
ACGTcount: A:0.04, C:0.09, G:0.00, T:0.87
Consensus pattern (18 bp):
TTTTTCTTTTTATTTTCT
Found at i:20289609 original size:19 final size:19
Alignment explanation
Indices: 20289582--20289622 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
20289572 TATTTTAAAG
*
20289582 TTATTTAGGTAGATAAATC
1 TTATCTAGGTAGATAAATC
20289601 TTATCTAGGTAGATAAATC
1 TTATCTAGGTAGATAAATC
20289620 TTA
1 TTA
20289623 GAATAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (19 bp):
TTATCTAGGTAGATAAATC
Found at i:20297835 original size:23 final size:23
Alignment explanation
Indices: 20297808--20297861 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
20297798 CCGACTGGAG
*
20297808 TTTGAGATCAAAGACTTGGGTCC
1 TTTGAAATCAAAGACTTGGGTCC
20297831 TTTGAAATCAAAGACTTGGGTCC
1 TTTGAAATCAAAGACTTGGGTCC
20297854 TTTGAAAT
1 TTTGAAAT
20297862 ACTTTCTTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (23 bp):
TTTGAAATCAAAGACTTGGGTCC
Found at i:20298815 original size:20 final size:20
Alignment explanation
Indices: 20298790--20298827 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
20298780 TTATCTAGGT
*
20298790 ACTGCTTGGTACTGAATTGC
1 ACTGCTTGGTACTAAATTGC
20298810 ACTGCTTGGTACTAAATT
1 ACTGCTTGGTACTAAATT
20298828 TTAACGTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (20 bp):
ACTGCTTGGTACTAAATTGC
Found at i:20305285 original size:16 final size:15
Alignment explanation
Indices: 20305258--20305287 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
20305248 AAATTCACAT
20305258 TTATACTATATATAA
1 TTATACTATATATAA
20305273 TTATACATATATATA
1 TTATAC-TATATATA
20305288 TATCCAACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATACTATATATAA
Found at i:20306128 original size:3 final size:3
Alignment explanation
Indices: 20306122--20306197 Score: 152
Period size: 3 Copynumber: 25.3 Consensus size: 3
20306112 TTTTTTTCAT
20306122 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
20306170 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
20306198 AACATATGCT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:20317566 original size:36 final size:36
Alignment explanation
Indices: 20317518--20317597 Score: 124
Period size: 36 Copynumber: 2.2 Consensus size: 36
20317508 ATTGACTTAG
20317518 TCAATTACATGCCAAAACAATACCAAACAACATGAA
1 TCAATTACATGCCAAAACAATACCAAACAACATGAA
* * *
20317554 TCAATTAGATGCCAAAACAATACCAAACAATATGGA
1 TCAATTACATGCCAAAACAATACCAAACAACATGAA
*
20317590 TCATTTAC
1 TCAATTAC
20317598 CATAATTCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.49, C:0.23, G:0.07, T:0.21
Consensus pattern (36 bp):
TCAATTACATGCCAAAACAATACCAAACAACATGAA
Found at i:20319363 original size:47 final size:47
Alignment explanation
Indices: 20319291--20319421 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 47
20319281 CACAAACAAT
* * *
20319291 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
* * * * *
20319338 GAGTACCTATACCATGGCCTGTAGCCAAATCTAGGTAACTCCTCTCA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
* * *
20319385 AAATACGTATATCATGGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
20319422 TTATTCACAC
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
Found at i:20323637 original size:10 final size:10
Alignment explanation
Indices: 20323624--20323652 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
20323614 AATATTCTAA
20323624 TAAAATTATT
1 TAAAATTATT
20323634 TAAAATTATT
1 TAAAATTATT
20323644 TAAAATTAT
1 TAAAATTAT
20323653 AATTATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TAAAATTATT
Found at i:20323730 original size:13 final size:14
Alignment explanation
Indices: 20323707--20323735 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
20323697 AATTTAAATA
20323707 TATACTTAATATTT
1 TATACTTAATATTT
20323721 TATA-TTAATATTT
1 TATACTTAATATTT
20323734 TA
1 TA
20323736 ATAATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
TATACTTAATATTT
Found at i:20323745 original size:21 final size:21
Alignment explanation
Indices: 20323712--20323768 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 21
20323702 AAATATATAC
* * *
20323712 TTAATATTTTATATTAATATT
1 TTAATAATATATATTAATAAT
*
20323733 TTAATAATATATACTAA-AAT
1 TTAATAATATATATTAATAAT
20323753 TT-ATAA-ATAT-TTAATA
1 TTAATAATATATATTAATA
20323769 GGAAATATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
17 3 0.10
18 5 0.17
19 4 0.13
20 4 0.13
21 14 0.47
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAATAATATATATTAATAAT
Found at i:20330705 original size:43 final size:43
Alignment explanation
Indices: 20330657--20330742 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
20330647 ATAGTACAGG
*
20330657 TCAATGTCATCAACAGTCATGATATTTTGTATCCATTTGCATA
1 TCAATGTCATCAACAGTCATGATATTTTGTATCCATTTACATA
*
20330700 TCAATGTCATCAACAGTTATGATATTTTGTATCCATTTACATA
1 TCAATGTCATCAACAGTCATGATATTTTGTATCCATTTACATA
20330743 CTCACAATTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.41
Consensus pattern (43 bp):
TCAATGTCATCAACAGTCATGATATTTTGTATCCATTTACATA
Found at i:20334129 original size:26 final size:26
Alignment explanation
Indices: 20334093--20334144 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
20334083 ACGTTAGACA
20334093 ACCAATGAGCAACATTTGCTACCATT
1 ACCAATGAGCAACATTTGCTACCATT
20334119 ACCAATGAGCAACATTTGCTACCATT
1 ACCAATGAGCAACATTTGCTACCATT
20334145 TTGCTTTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.27
Consensus pattern (26 bp):
ACCAATGAGCAACATTTGCTACCATT
Found at i:20334592 original size:27 final size:27
Alignment explanation
Indices: 20334538--20334592 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
20334528 GGTGTAATTA
* *
20334538 ATCAAAATTTATATCTTTTGGTTATTG
1 ATCAAAATTTATATCATTTGATTATTG
*
20334565 ATCAAAAGTTT-TATCATTTGATTTTTG
1 ATCAAAA-TTTATATCATTTGATTATTG
20334592 A
1 A
20334593 AAAAAAAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.31, C:0.07, G:0.11, T:0.51
Consensus pattern (27 bp):
ATCAAAATTTATATCATTTGATTATTG
Found at i:20334609 original size:24 final size:24
Alignment explanation
Indices: 20334582--20334629 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
20334572 GTTTTATCAT
20334582 TTGATTTTTGAAAAAAAAGTATAA
1 TTGATTTTTGAAAAAAAAGTATAA
*
20334606 TTGATTTTTGACAAAAAAGTATAA
1 TTGATTTTTGAAAAAAAAGTATAA
20334630 CTATATTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (24 bp):
TTGATTTTTGAAAAAAAAGTATAA
Found at i:20336881 original size:28 final size:28
Alignment explanation
Indices: 20336841--20336919 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
20336831 GCAATCAAAT
* * *
20336841 ATGGTACTCAGTGTATGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
20336869 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
20336897 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
20336920 CGAATGATTC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:20339521 original size:42 final size:42
Alignment explanation
Indices: 20339462--20339612 Score: 158
Period size: 42 Copynumber: 3.6 Consensus size: 42
20339452 AATTATGTGC
* *
20339462 AAGACCATATCTGGGATATGGCATCGATTTGAGACTCCGTGT
1 AAGACCATATCTGGGATATAGCATCGATATGAGACTCCGTGT
* *
20339504 AAGACCATATTTGGGATATAGCATCGATATGAGACTTCGTGT
1 AAGACCATATCTGGGATATAGCATCGATATGAGACTCCGTGT
* * * * ** * * *
20339546 AAGACCATAACCGGGCTATTGGCATCGATACAAGATTACATGT
1 AAGACCATATCTGGGATA-TAGCATCGATATGAGACTCCGTGT
* *
20339589 AAGACCATATCTGAGATATGGCAT
1 AAGACCATATCTGGGATATAGCAT
20339613 TGGTACGGTA
Statistics
Matches: 90, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 58 0.64
43 32 0.36
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (42 bp):
AAGACCATATCTGGGATATAGCATCGATATGAGACTCCGTGT
Found at i:20346058 original size:22 final size:23
Alignment explanation
Indices: 20346033--20346077 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
20346023 TAGACACAGT
20346033 AATT-AACTAAAAAATTAAATGA
1 AATTCAACTAAAAAATTAAATGA
*
20346055 AATTCAAGTAAAAAATTAAATGA
1 AATTCAACTAAAAAATTAAATGA
20346078 GTAACAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (23 bp):
AATTCAACTAAAAAATTAAATGA
Found at i:20347390 original size:22 final size:21
Alignment explanation
Indices: 20347362--20347415 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
20347352 GTTCGTGTAA
*
20347362 TTAAATTGTATACTTATATGTT
1 TTAAATTGTATA-TAATATGTT
20347384 TTAAATTG-A-ATAATATGTT
1 TTAAATTGTATATAATATGTT
*
20347403 TGTAAATTCTATA
1 T-TAAATTGTATA
20347416 ATTTCCATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 9 0.33
20 7 0.26
21 2 0.07
22 9 0.33
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (21 bp):
TTAAATTGTATATAATATGTT
Found at i:20347416 original size:20 final size:19
Alignment explanation
Indices: 20347377--20347417 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
20347367 TTGTATACTT
*
20347377 ATATGTTTTAAATTGAATA
1 ATATGTTTTAAATTCAATA
*
20347396 ATATGTTTGTAAATTCTATA
1 ATATGTTT-TAAATTCAATA
20347416 AT
1 AT
20347418 TTCCATGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATGTTTTAAATTCAATA
Found at i:20347559 original size:25 final size:25
Alignment explanation
Indices: 20347531--20347597 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
20347521 TACCGATTTT
* *
20347531 AGCTCGTATGAGCTTACTGATACTC
1 AGCTCGCATGAGCTTACAGATACTC
* * *
20347556 AGCTCACATGAGCTTACAGTTATTC
1 AGCTCGCATGAGCTTACAGATACTC
* *
20347581 AGCTCGGAGGAGCTTAC
1 AGCTCGCATGAGCTTAC
20347598 CATTTATAGC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.28
Consensus pattern (25 bp):
AGCTCGCATGAGCTTACAGATACTC
Found at i:20356203 original size:20 final size:20
Alignment explanation
Indices: 20356154--20356203 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
20356144 GGGCACACGC
20356154 CCGTGTGGCCTGGGACATGA
1 CCGTGTGGCCTGGGACATGA
* *
20356174 CTGTGTGGCCTGGGACATGG
1 CCGTGTGGCCTGGGACATGA
*
20356194 CCGTGGGGCC
1 CCGTGTGGCC
20356204 AGGCCATGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.10, C:0.26, G:0.44, T:0.20
Consensus pattern (20 bp):
CCGTGTGGCCTGGGACATGA
Found at i:20364255 original size:15 final size:16
Alignment explanation
Indices: 20364230--20364263 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
20364220 TGAATGTATT
20364230 TTTATTATTTTAATAA
1 TTTATTATTTTAATAA
*
20364246 TTTA-TATTTTTATAA
1 TTTATTATTTTAATAA
20364261 TTT
1 TTT
20364264 TTAAAGGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTATTTTAATAA
Found at i:20364349 original size:17 final size:17
Alignment explanation
Indices: 20364327--20364360 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20364317 TCATTATTAA
* *
20364327 TTTAAAATTTTATAAAT
1 TTTAAAAATATATAAAT
20364344 TTTAAAAATATATAAAT
1 TTTAAAAATATATAAAT
20364361 GAATTTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAAAAATATATAAAT
Found at i:20369305 original size:26 final size:26
Alignment explanation
Indices: 20369276--20369340 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
20369266 GTTTGGCGAG
*
20369276 CTAGGGTTCACTAGGTAAGTTGTGAA
1 CTAGGGTTCACCAGGTAAGTTGTGAA
* *
20369302 CTAGGGTTCACCAGTTGAGTTGTGAA
1 CTAGGGTTCACCAGGTAAGTTGTGAA
*
20369328 CTGGGGTTCACCA
1 CTAGGGTTCACCA
20369341 ATAAAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (26 bp):
CTAGGGTTCACCAGGTAAGTTGTGAA
Found at i:20393825 original size:20 final size:20
Alignment explanation
Indices: 20393777--20393834 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
20393767 ACTTGTACAG
* *
20393777 GTTTGCACTTCGATGCCCCT
1 GTTTGCACTTCGGTGCCCAT
** *
20393797 GTTCACACTTCGGTGTCCAT
1 GTTTGCACTTCGGTGCCCAT
*
20393817 GTTTGCACTTTGGTGCCC
1 GTTTGCACTTCGGTGCCC
20393835 TTGATAGCAC
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.10, C:0.31, G:0.22, T:0.36
Consensus pattern (20 bp):
GTTTGCACTTCGGTGCCCAT
Found at i:20395531 original size:21 final size:21
Alignment explanation
Indices: 20395502--20395556 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
20395492 GGTGTTACAA
20395502 ATATCGTGATACCCAAAGTGG
1 ATATCGTGATACCCAAAGTGG
* *
20395523 ATATTGTGATACCTAAAGTGG
1 ATATCGTGATACCCAAAGTGG
20395544 ATATCGTGATACC
1 ATATCGTGATACC
20395557 ACTGAAGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (21 bp):
ATATCGTGATACCCAAAGTGG
Found at i:20397360 original size:26 final size:24
Alignment explanation
Indices: 20397329--20397378 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
20397319 AAATAAAAAA
*
20397329 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
20397355 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
20397379 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:20399077 original size:51 final size:49
Alignment explanation
Indices: 20399001--20399132 Score: 183
Period size: 49 Copynumber: 2.7 Consensus size: 49
20398991 AGGTCGCATG
*
20399001 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTC
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAA-TT-GATCACATC
* * * * * *
20399052 TGTAGTACTAAGTGCAGACTACTATGTGTACCGGATAATTGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAATTGATCACATC
20399101 TGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACC
20399133 AAATAGCTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
49 35 0.49
50 2 0.03
51 35 0.49
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (49 bp):
TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAATTGATCACATC
Found at i:20399123 original size:49 final size:51
Alignment explanation
Indices: 20398992--20399132 Score: 205
Period size: 51 Copynumber: 2.8 Consensus size: 51
20398982 TCTATTGTGA
20398992 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTC
* * * * * * *
20399043 GATCACGTCTGTAGTACTAAGTGCAGACTACTATGTGTACCGGATAA-TT-
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTC
20399092 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
20399133 AAATAGCTTT
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
49 35 0.45
50 2 0.03
51 40 0.52
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTC
Found at i:20402875 original size:26 final size:27
Alignment explanation
Indices: 20402845--20402896 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
20402835 TTTAATTGGG
*
20402845 AATTAGGAAT-TCATTAGT-AATTAGTA
1 AATTAGAAATATC-TTAGTCAATTAGTA
20402871 AATTAGAAATATCTTAGTCAATTAGT
1 AATTAGAAATATCTTAGTCAATTAGT
20402897 TTTGTTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.38
Consensus pattern (27 bp):
AATTAGAAATATCTTAGTCAATTAGTA
Found at i:20404091 original size:62 final size:62
Alignment explanation
Indices: 20404021--20404140 Score: 195
Period size: 62 Copynumber: 1.9 Consensus size: 62
20404011 CACGAGAGCA
*
20404021 TCTCTAAACCATGCTTTTCGGCGTAGTAAGTCATTGCCGACCCAAGGTTCACCATGCAGTTC
1 TCTCTAAACCATGCCTTTCGGCGTAGTAAGTCATTGCCGACCCAAGGTTCACCATGCAGTTC
* * **
20404083 TCTCTAAACCATGCCTTTCTGCGTAGTGAGTCATTTTCGACCCAAGGTTCACCATGCA
1 TCTCTAAACCATGCCTTTCGGCGTAGTAAGTCATTGCCGACCCAAGGTTCACCATGCA
20404141 CTAATCAGGT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (62 bp):
TCTCTAAACCATGCCTTTCGGCGTAGTAAGTCATTGCCGACCCAAGGTTCACCATGCAGTTC
Found at i:20405483 original size:26 final size:26
Alignment explanation
Indices: 20405453--20405502 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
20405443 TTGTGGATTC
20405453 TCTGAAGCTAGTGTTAGCAACCCTGA
1 TCTGAAGCTAGTGTTAGCAACCCTGA
* *
20405479 TCTGAATCTAGTGTTAGCAGCCCT
1 TCTGAAGCTAGTGTTAGCAACCCT
20405503 ATAATGTCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (26 bp):
TCTGAAGCTAGTGTTAGCAACCCTGA
Found at i:20424361 original size:20 final size:20
Alignment explanation
Indices: 20424333--20424382 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
20424323 AATTTTAATT
* *
20424333 TTTTTAATTTTAAATATATA
1 TTTTAAATTTTAAATAAATA
* **
20424353 TTTTGAATTTTTTATAAATA
1 TTTTAAATTTTAAATAAATA
20424373 TTTTAAATTT
1 TTTTAAATTT
20424383 AATTTAATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTAAATTTTAAATAAATA
Found at i:20426985 original size:49 final size:49
Alignment explanation
Indices: 20426918--20427114 Score: 216
Period size: 50 Copynumber: 4.0 Consensus size: 49
20426908 GTAGACAAGG
* *
20426918 TTATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
* * *
20426967 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
** * ** * * * *
20427017 CCATCTGATACACGCAGTAGACTGCACTTAGTACTACACACGTGATCGAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA
*
20427067 GTTAT-TGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 -TTATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
20427115 TCACAATAGA
Statistics
Matches: 121, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
49 42 0.35
50 44 0.36
51 35 0.29
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
Found at i:20427099 original size:101 final size:99
Alignment explanation
Indices: 20426933--20427115 Score: 258
Period size: 101 Copynumber: 1.8 Consensus size: 99
20426923 TGGTACGCAT
* * *
20426933 AGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTAG
1 AGTAGACTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTAG
*
20426998 TACTACACATGTGACCTAACCATCTGATACACGC
66 TACTACACATGCGACCTAACCATCTGATACACGC
* * * ** *
20427032 AGTAGACTGCACTTAGTACTACACACGTGATCGAAGTTATTGGGTACGCATAGTAGCCTGCACTT
1 AGTAGACTGCACATAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACTT
20427097 AGTACTACACATGCGACCT
64 AGTACTACACATGCGACCT
20427116 CACAATAGAT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 26 0.36
100 3 0.04
101 43 0.60
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
AGTAGACTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTAG
TACTACACATGCGACCTAACCATCTGATACACGC
Found at i:20427682 original size:42 final size:42
Alignment explanation
Indices: 20427635--20427721 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
20427625 TTTAAGCCCG
*
20427635 AATCTCTATTTCCTTCATCTATAATATCTAATTTAGCCTAAT
1 AATCTCTATTTCCTTCATCTATAATATCTAATTTAGACTAAT
20427677 AATCTCTATTTCCTTCATCTATAATATCTAATTTAGACTAAT
1 AATCTCTATTTCCTTCATCTATAATATCTAATTTAGACTAAT
20427719 AAT
1 AAT
20427722 TAGTCACACT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.33, C:0.20, G:0.02, T:0.45
Consensus pattern (42 bp):
AATCTCTATTTCCTTCATCTATAATATCTAATTTAGACTAAT
Found at i:20427700 original size:22 final size:22
Alignment explanation
Indices: 20427639--20427706 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
20427629 AGCCCGAATC
20427639 TCTATTTCCTTCATCTATAATA
1 TCTATTTCCTTCATCTATAATA
*
20427661 TCTAATTTAGCC-T-A---ATAATC
1 TCT-ATTT--CCTTCATCTATAATA
20427681 TCTATTTCCTTCATCTATAATA
1 TCTATTTCCTTCATCTATAATA
20427703 TCTA
1 TCTA
20427707 ATTTAGACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 16
0.67 0.04 0.30
Matches are distributed among these distances:
17 2 0.06
18 1 0.03
19 5 0.14
20 8 0.22
22 12 0.33
23 5 0.14
24 1 0.03
25 2 0.06
ACGTcount: A:0.29, C:0.22, G:0.01, T:0.47
Consensus pattern (22 bp):
TCTATTTCCTTCATCTATAATA
Found at i:20429816 original size:15 final size:15
Alignment explanation
Indices: 20429760--20429824 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
20429750 TAAAGATAAC
*
20429760 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
20429774 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
20429789 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
20429804 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
20429819 AAGAAA
1 AAGAAA
20429825 CCAAATATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:20429826 original size:30 final size:30
Alignment explanation
Indices: 20429760--20429826 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
20429750 TAAAGATAAC
*
20429760 AAGAAAACCGAATAAAGAAATCCAAGATAG
1 AAGAAACCCGAATAAAGAAATCCAAGATAG
20429790 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCC-GAATAAAGAAATCCAAG-ATAG
20429819 AAGAAACC
1 AAGAAACC
20429827 AAATATACGA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.61, C:0.16, G:0.13, T:0.09
Consensus pattern (30 bp):
AAGAAACCCGAATAAAGAAATCCAAGATAG
Found at i:20434477 original size:46 final size:46
Alignment explanation
Indices: 20434427--20434602 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
20434417 TGGTTGAGCA
20434427 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
20434473 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
20434518 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
20434566 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20434603 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:20434583 original size:93 final size:93
Alignment explanation
Indices: 20434424--20434595 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
20434414 GGATGGTTGA
*
20434424 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
20434489 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
20434517 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
20434581 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
20434596 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:20439199 original size:28 final size:28
Alignment explanation
Indices: 20439167--20439401 Score: 131
Period size: 28 Copynumber: 8.3 Consensus size: 28
20439157 AAGATCATAA
*
20439167 ATGTGGAAGTCTTCCAAGACTATCTTAT
1 ATGTGGAAGTCTTCCAGGACTATCTTAT
* * * *
20439195 ATGTGGAAGCCTGT-CAGGGCTATCATAA
1 ATGTGGAAGTCT-TCCAGGACTATCTTAT
* *
20439223 ATGTGGAAGTCTGCTAGGACTATCTTAT
1 ATGTGGAAGTCTTCCAGGACTATCTTAT
* * * * *
20439251 ATATAGGAAGTATGT-TAGGACTATCGTAA
1 ATGT-GGAAGTCT-TCCAGGACTATCTTAT
* *
20439280 ATGTGGAAG--TTCGCTAAGACTATCTTTT
1 ATGTGGAAGTCTTC-C-AGGACTATCTTAT
* * * *
20439308 ATGCGAGAAGTTCGT-CAGGACTATCGTCT
1 ATGTG-GAAG-TCTTCCAGGACTATCTTAT
** *
20439337 ATGTGGAAGTCCGCTAGGACTATCTTAT
1 ATGTGGAAGTCTTCCAGGACTATCTTAT
* * *
20439365 ATGAGGGAAGT-TTGTCAAGACTATCTTAT
1 ATG-TGGAAGTCTT-CCAGGACTATCTTAT
20439394 ATGTGGAA
1 ATGTGGAA
20439402 AGTTCTCTTG
Statistics
Matches: 153, Mismatches: 40, Indels: 28
0.69 0.18 0.13
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
27 2 0.01
28 85 0.56
29 62 0.41
30 1 0.01
32 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (28 bp):
ATGTGGAAGTCTTCCAGGACTATCTTAT
Found at i:20439287 original size:57 final size:55
Alignment explanation
Indices: 20439164--20439401 Score: 226
Period size: 57 Copynumber: 4.2 Consensus size: 55
20439154 TGAAAGATCA
* * * * * *
20439164 TAAATGTGGAAGTCTTCCAAGACTATCTTATATGTGGAAGCCTGTCAGGGCTATCA
1 TAAATGTGGAAGTCTGCTAAGACTATCTTATATATGGAAG-TTGTCAGGACTATCG
* *
20439220 TAAATGTGGAAGTCTGCTAGGACTATCTTATATATAGGAAGTATGTTAGGACTATCG
1 TAAATGTGGAAGTCTGCTAAGACTATCTTATATAT-GGAAGT-TGTCAGGACTATCG
* **
20439277 TAAATGTGGAAGT-TCGCTAAGACTATCTTTTATGCGAGAAGTTCGTCAGGACTATCG
1 TAAATGTGGAAGTCT-GCTAAGACTATCTTATATATG-GAAGTT-GTCAGGACTATCG
** * * * * *
20439334 TCTATGTGGAAGTCCGCTAGGACTATCTTATATGAGGGAAGTTTGTCAAGACTATCT
1 TAAATGTGGAAGTCTGCTAAGACTATCTTATAT-ATGGAAG-TTGTCAGGACTATCG
*
20439391 TATATGTGGAA
1 TAAATGTGGAA
20439402 AGTTCTCTTG
Statistics
Matches: 151, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
56 34 0.23
57 114 0.75
58 3 0.02
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.32
Consensus pattern (55 bp):
TAAATGTGGAAGTCTGCTAAGACTATCTTATATATGGAAGTTGTCAGGACTATCG
Found at i:20439363 original size:114 final size:111
Alignment explanation
Indices: 20439164--20439406 Score: 274
Period size: 114 Copynumber: 2.1 Consensus size: 111
20439154 TGAAAGATCA
* *
20439164 TAAATGTGGAAGTCTTCCAAGACTATCTTATATGTGGAAGCCTGTCAGGGCTATCATAAATGTGG
1 TAAATGTGGAAG--TTCCAAGACTATCTTATATGCGGAAGCCTGTCAGGACTATCATAAATGTGG
* * *
20439229 AAGTCTGCTAGGACTATCTTATAT-ATAGGAAGTATGTTAGGACTATCG
64 AAGTCCGCTAGGACTATCTTATATGA-AGGAAGTATGTCAAGACTATCG
* * * **
20439277 TAAATGTGGAAGTTCGCTAAGACTATCTTTTATGCGAGAAG-TTCGTCAGGACTATCGTCTATGT
1 TAAATGTGGAAGTTC-C-AAGACTATCTTATATGCG-GAAGCCT-GTCAGGACTATCATAAATGT
* * *
20439341 GGAAGTCCGCTAGGACTATCTTATATGAGGGAAGTTTGTCAAGACTATCT
62 GGAAGTCCGCTAGGACTATCTTATATGAAGGAAGTATGTCAAGACTATCG
*
20439391 TATATGTGGAAAGTTC
1 TAAATGTGG-AAGTTC
20439407 TCTTGAACTA
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
111 3 0.03
112 1 0.01
113 29 0.26
114 70 0.64
115 7 0.06
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (111 bp):
TAAATGTGGAAGTTCCAAGACTATCTTATATGCGGAAGCCTGTCAGGACTATCATAAATGTGGAA
GTCCGCTAGGACTATCTTATATGAAGGAAGTATGTCAAGACTATCG
Found at i:20439431 original size:114 final size:114
Alignment explanation
Indices: 20439223--20439434 Score: 250
Period size: 114 Copynumber: 1.9 Consensus size: 114
20439213 GCTATCATAA
* * *
20439223 ATGTGGAAGTCTGCTAGGACTATCTTATATATAGGAAGTATGTTAGGACTATCGTAAATGTGGAA
1 ATGTGGAAGTCCGCTAGGACTATCTTATATATAGGAAGTATGTCAAGACTATCGTAAATGTGGAA
****
20439288 GTTCGCTAAGACTATCTTTTATGCGAGAAGTTCGTCAGGACTATCGTCT
66 GTTCGCTAAGACTATAAAGTATGCGAGAAGTTCGTCAGGACTATCGTCT
* * * *
20439337 ATGTGGAAGTCCGCTAGGACTATCTTATATGA-GGGAAGTTTGTCAAGACTATCTTATATGTGGA
1 ATGTGGAAGTCCGCTAGGACTATCTTATAT-ATAGGAAGTATGTCAAGACTATCGTAAATGTGG-
* * *
20439401 AAGTTCTCT-TGAACTATAAAGTATG-TAGAAGTTC
64 AAGTTCGCTAAG-ACTATAAAGTATGCGAGAAGTTC
20439435 AGGATTATCT
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
114 63 0.78
115 18 0.22
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.33
Consensus pattern (114 bp):
ATGTGGAAGTCCGCTAGGACTATCTTATATATAGGAAGTATGTCAAGACTATCGTAAATGTGGAA
GTTCGCTAAGACTATAAAGTATGCGAGAAGTTCGTCAGGACTATCGTCT
Found at i:20455766 original size:12 final size:12
Alignment explanation
Indices: 20455749--20455773 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20455739 ATGTAAGTGA
20455749 TCTTGATGATTT
1 TCTTGATGATTT
20455761 TCTTGATGATTT
1 TCTTGATGATTT
20455773 T
1 T
20455774 TTACATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:20456520 original size:46 final size:48
Alignment explanation
Indices: 20456470--20456639 Score: 156
Period size: 47 Copynumber: 3.6 Consensus size: 48
20456460 TGTGTGCTAG
20456470 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAAGCCAA
* * ** *
20456516 TGTAAGA-CATGTTTGGGACAT-GCATCGG-GTACGAGATG-ATATTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTA-AGCCAA
* * * * * * *
20456562 TGTAAGACCATATCTGGAACATGGCATC-GACTTGAGATATGAGCCAC
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAAGCCAA
*
20456609 TATAAGACCATGTCTGGGACATGGCATCGGC
1 TGTAAGACCATGTCTGGGACATGGCATCGGC
20456640 ACCCTACCTA
Statistics
Matches: 98, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
45 2 0.02
46 44 0.45
47 45 0.46
48 7 0.07
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAAGCCAA
Found at i:20456599 original size:93 final size:94
Alignment explanation
Indices: 20456468--20456638 Score: 222
Period size: 93 Copynumber: 1.8 Consensus size: 94
20456458 TGTGTGTGCT
* * * * * *
20456468 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAATGTAAGA-CATGTTTGG
1 AGTGTAAGACATATCTGGAACATGCATCGGACTCGAGATATAAGCCAATATAAGACCATGTCTGG
20456532 GACAT-GCATCGGGTACGAGATGATATTC
66 GACATGGCATCGGGTACGAGATGATATTC
* * *
20456560 AGTGTAAGACCATATCTGGAACATGGCATC-GACTTGAGATATGAGCCACTATAAGACCATGTCT
1 AGTGTAAGA-CATATCTGGAACAT-GCATCGGACTCGAGATATAAGCCAATATAAGACCATGTCT
20456624 GGGACATGGCATCGG
64 GGGACATGGCATCGG
20456639 CACCCTACCT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
92 9 0.14
93 32 0.48
94 18 0.27
95 7 0.11
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATATCTGGAACATGCATCGGACTCGAGATATAAGCCAATATAAGACCATGTCTGG
GACATGGCATCGGGTACGAGATGATATTC
Found at i:20464243 original size:9 final size:10
Alignment explanation
Indices: 20464229--20464292 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
20464219 AATAATCATA
20464229 AAAAATTA-T
1 AAAAATTATT
20464238 AAAAA-TATT
1 AAAAATTATT
*
20464247 TAAAATTATT
1 AAAAATTATT
*
20464257 AAGAATTATT
1 AAAAATTATT
* *
20464267 ATAAATTAGT
1 AAAAATTATT
*
20464277 GAAAATTATTT
1 AAAAATTA-TT
20464288 AAAAA
1 AAAAA
20464293 AAACAATTGA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
8 2 0.05
9 10 0.24
10 25 0.60
11 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.38
Consensus pattern (10 bp):
AAAAATTATT
Found at i:20464834 original size:11 final size:10
Alignment explanation
Indices: 20464781--20464849 Score: 50
Period size: 10 Copynumber: 6.8 Consensus size: 10
20464771 TCTAAACGTT
*
20464781 ATTTTTAATA
1 ATTTCTAATA
*
20464791 ATTTGTAATA
1 ATTTCTAATA
* * *
20464801 CTTTTTTATA
1 ATTTCTAATA
*
20464811 ATTTCTTATA
1 ATTTCTAATA
20464821 ATTTCTAAATA
1 ATTTCT-AATA
20464832 ATTTTCT-ATA
1 A-TTTCTAATA
*
20464842 AGTTCTAA
1 ATTTCTAA
20464850 ATAAATTTCC
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
9 4 0.08
10 35 0.73
11 4 0.08
12 5 0.10
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (10 bp):
ATTTCTAATA
Found at i:20464856 original size:22 final size:22
Alignment explanation
Indices: 20464808--20464858 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
20464798 ATACTTTTTT
*
20464808 ATAA-TTTCTTATAATTTCTAA
1 ATAATTTTCTTATAAGTTCTAA
20464829 ATAATTTTC-TATAAGTTCTAA
1 ATAATTTTCTTATAAGTTCTAA
*
20464850 ATAAATTTC
1 ATAATTTTC
20464859 CATATTCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (22 bp):
ATAATTTTCTTATAAGTTCTAA
Found at i:20465237 original size:30 final size:31
Alignment explanation
Indices: 20465180--20465238 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
20465170 GCGGCATAAG
*
20465180 TATATTATTATAAAATTTTAAAGTTAAAAAA
1 TATATTATTATAAAATTATAAAGTTAAAAAA
*
20465211 TATA-TATTATAATATTATAATA-TTAAAA
1 TATATTATTATAAAATTATAA-AGTTAAAA
20465239 CTTAAGTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (31 bp):
TATATTATTATAAAATTATAAAGTTAAAAAA
Found at i:20465273 original size:5 final size:5
Alignment explanation
Indices: 20465263--20465304 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
20465253 ATATATATAT
20465263 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA
20465305 ATAAAGAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:20465316 original size:4 final size:4
Alignment explanation
Indices: 20465307--20465396 Score: 51
Period size: 4 Copynumber: 22.2 Consensus size: 4
20465297 ATATTATAAT
* * * * *
20465307 AAAG AAAG AAAG AAAT AGAA- ATAG AAAG AAACA AAAG CAA- AAAC AAA-
1 AAAG AAAG AAAG AAAG A-AAG AAAG AAAG AAA-G AAAG AAAG AAAG AAAG
* * *
20465354 ACAG AAAGG GAAG GAAAG AAAG AAAG AAAG AAAG AACG AAAG A
1 AAAG AAA-G AAAG -AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
20465397 GACGAAGGCT
Statistics
Matches: 66, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
3 5 0.08
4 50 0.76
5 11 0.17
ACGTcount: A:0.70, C:0.06, G:0.22, T:0.02
Consensus pattern (4 bp):
AAAG
Found at i:20466317 original size:41 final size:38
Alignment explanation
Indices: 20466255--20466392 Score: 125
Period size: 40 Copynumber: 3.5 Consensus size: 38
20466245 ACTTCGAGTT
*
20466255 GATGAGACACTGGGTGTCAATTTACTACTTTGAATTAATTC
1 GATGAGACACTGGGTGCCAA-TTA-TACTTTGAATT-ATTC
* * ** *
20466296 GATGAGGCACTGGGTGCCAATT-TACTTCGGTTTAGTC
1 GATGAGACACTGGGTGCCAATTATACTTTGAATTATTC
* * *
20466333 GATGAGACATTGGGTGTCAAATTATTACTTTGAATTATCC
1 GATGAGACACTGGGTG-CCAATTA-TACTTTGAATTATTC
* *
20466373 GATGAGGCAGTGGGTGCCAA
1 GATGAGACACTGGGTGCCAA
20466393 ACTGGTGTGT
Statistics
Matches: 77, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
37 17 0.22
38 13 0.17
39 3 0.04
40 26 0.34
41 18 0.23
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (38 bp):
GATGAGACACTGGGTGCCAATTATACTTTGAATTATTC
Found at i:20482901 original size:18 final size:19
Alignment explanation
Indices: 20482849--20482901 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
20482839 ATTCATATTC
*
20482849 TTCTCTCAACTCT-TTAAA
1 TTCTCTCAACTCTCTCAAA
*
20482867 TTCTCTCAAACTTTCTCAAA
1 TTCTCTC-AACTCTCTCAAA
20482887 -TCTCTCAACTCTCTC
1 TTCTCTCAACTCTCTC
20482902 GTTTTTAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 15 0.50
19 11 0.37
20 4 0.13
ACGTcount: A:0.25, C:0.34, G:0.00, T:0.42
Consensus pattern (19 bp):
TTCTCTCAACTCTCTCAAA
Found at i:20484564 original size:37 final size:37
Alignment explanation
Indices: 20484506--20484577 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
20484496 GAGAAGAGTT
* *
20484506 GGCAAATTTAAGCGAATAGGTCATGTCGACTGCCATA
1 GGCAAATTCAAGCGAAGAGGTCATGTCGACTGCCATA
* *
20484543 GGCAAATTCAAGTGAAGAGGTCATGTCGATTGCCA
1 GGCAAATTCAAGCGAAGAGGTCATGTCGACTGCCA
20484578 CAGCATACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (37 bp):
GGCAAATTCAAGCGAAGAGGTCATGTCGACTGCCATA
Found at i:20487311 original size:71 final size:71
Alignment explanation
Indices: 20487230--20487381 Score: 286
Period size: 71 Copynumber: 2.1 Consensus size: 71
20487220 CTATTCATCC
20487230 ATGTATGTATGTGCCAATTCTATTATGATATGGCCTATGGTTATTGATGATTGAATGTTTATGAA
1 ATGTATGTATGTGCCAATTCTATTATGATATGGCCTATGGTTATTGATGATTGAATGTTTATGAA
20487295 TGTCTT
66 TGTCTT
*
20487301 ATGTATGTATGTGTCAATTCTATTATGATATGGCCTATGGTTATTGATGATTGAATGTTTATGAA
1 ATGTATGTATGTGCCAATTCTATTATGATATGGCCTATGGTTATTGATGATTGAATGTTTATGAA
20487366 TGTCTT
66 TGTCTT
*
20487372 GTGTATGTAT
1 ATGTATGTAT
20487382 AAGATGGTAT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 79 1.00
ACGTcount: A:0.25, C:0.07, G:0.22, T:0.46
Consensus pattern (71 bp):
ATGTATGTATGTGCCAATTCTATTATGATATGGCCTATGGTTATTGATGATTGAATGTTTATGAA
TGTCTT
Found at i:20493557 original size:29 final size:30
Alignment explanation
Indices: 20493489--20493557 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 30
20493479 AGATCTGGTT
* * * **
20493489 AAATCGACCTATATCCCTAATTAATTTTAA
1 AAATAGACCTAAAACCCTAATTAATAATAA
*
20493519 AATTAG-CCTAAAACCCTAATTAA-AATAA
1 AAATAGACCTAAAACCCTAATTAATAATAA
20493547 AAATAGACCTA
1 AAATAGACCTA
20493558 TAGGCCTTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
28 8 0.26
29 19 0.61
30 4 0.13
ACGTcount: A:0.48, C:0.19, G:0.04, T:0.29
Consensus pattern (30 bp):
AAATAGACCTAAAACCCTAATTAATAATAA
Found at i:20493888 original size:21 final size:21
Alignment explanation
Indices: 20493859--20493909 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
20493849 TTTTTTTTTT
20493859 AAATCTAAA-AATTCTATAAA-A
1 AAAT-TAAAGAATTC-ATAAACA
20493880 GAAATTAAAGAATTCATAAACA
1 -AAATTAAAGAATTCATAAACA
20493902 AAATTAAA
1 AAATTAAA
20493910 TGAAAAGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.25
Consensus pattern (21 bp):
AAATTAAAGAATTCATAAACA
Found at i:20499676 original size:42 final size:42
Alignment explanation
Indices: 20499630--20499782 Score: 189
Period size: 42 Copynumber: 3.6 Consensus size: 42
20499620 AGCTCTCACG
* * * *
20499630 AGCTTCTGTTTAACTCATATGAGTTTCCATTCAGCTCTTTTA
1 AGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTTTA
* * *
20499672 AGCTTCTGTTTGACCCTTATGGGTTTCCGTTCAACTCTTTTG
1 AGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTTTA
* ***
20499714 AGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGTTCTTACG
1 AGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTTTA
* *
20499756 AGCTTATGTTCAACCCTTATGGGTTTC
1 AGCTTCTGTTTAACCCTTATGGGTTTC
20499783 TATTTAGCTT
Statistics
Matches: 97, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 97 1.00
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.44
Consensus pattern (42 bp):
AGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTTTA
Found at i:20499760 original size:84 final size:84
Alignment explanation
Indices: 20499629--20499782 Score: 209
Period size: 84 Copynumber: 1.8 Consensus size: 84
20499619 TAGCTCTCAC
* ** * **
20499629 GAGCTTCTGTTTAACTCATATGAGTTTCCATTCAGCTCTTTTAAGCTTCTGTTTGACCCTTATGG
1 GAGCTTCTGTTTAACCCATATGAGTTTCCATTCAGCTCTTACAAGCTTATGTTCAACCCTTATGG
20499694 GTTTCCGTTCAACTCTTTT
66 GTTTCCGTTCAACTCTTTT
* * * * *
20499713 GAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGTTCTTACGAGCTTATGTTCAACCCTTATGG
1 GAGCTTCTGTTTAACCCATATGAGTTTCCATTCAGCTCTTACAAGCTTATGTTCAACCCTTATGG
20499778 GTTTC
66 GTTTC
20499783 TATTTAGCTT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
84 59 1.00
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.44
Consensus pattern (84 bp):
GAGCTTCTGTTTAACCCATATGAGTTTCCATTCAGCTCTTACAAGCTTATGTTCAACCCTTATGG
GTTTCCGTTCAACTCTTTT
Found at i:20499800 original size:84 final size:84
Alignment explanation
Indices: 20499611--20499804 Score: 201
Period size: 84 Copynumber: 2.3 Consensus size: 84
20499601 TTGTGTTTAC
* * * * **
20499611 TTTCCTTTTAGCTCTCACGAGCTTCTGTTTAACTCATATGAGTTTCCATTCAGCTCTTTTAAGCT
1 TTTCCATTTAGCTTTCATGAGCTTCTGTTTAACCCATATGAGTTTCCATTCAGCTCTTACAAGCT
* **
20499676 TCTGTTTGACCCTTATGGG
66 TATGTTCAACCCTTATGGG
* * * * * * * * *
20499695 TTTCCGTTCAACTCTT-TTGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGTTCTTACGAGC
1 TTTCCATTTAGCT-TTCATGAGCTTCTGTTTAACCCATATGAGTTTCCATTCAGCTCTTACAAGC
20499759 TTATGTTCAACCCTTATGGG
65 TTATGTTCAACCCTTATGGG
*
20499779 TTTCTATTTAGCTTTCATGAGCTTCT
1 TTTCCATTTAGCTTTCATGAGCTTCT
20499805 ATTCAGCTTT
Statistics
Matches: 86, Mismatches: 22, Indels: 4
0.77 0.20 0.04
Matches are distributed among these distances:
83 2 0.02
84 83 0.97
85 1 0.01
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.45
Consensus pattern (84 bp):
TTTCCATTTAGCTTTCATGAGCTTCTGTTTAACCCATATGAGTTTCCATTCAGCTCTTACAAGCT
TATGTTCAACCCTTATGGG
Found at i:20499801 original size:42 final size:42
Alignment explanation
Indices: 20499623--20499802 Score: 119
Period size: 42 Copynumber: 4.3 Consensus size: 42
20499613 TCCTTTTAGC
* * * * * * *
20499623 TCTCACGAGCTTCTGTTTAACTCATATGAGTTTCCATTCAGC
1 TCTCATGAGCTTATGTTCAACCCTTATGGGTTTCCATTCAGT
** * * ** * **
20499665 TCTTTTAAGCTTCTGTTTGACCCTTATGGGTTTCCGTTCAAC
1 TCTCATGAGCTTATGTTCAACCCTTATGGGTTTCCATTCAGT
** * * *
20499707 TCTTTTGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGT
1 TCTCATGAGCTTATGTTCAACCCTTATGGGTTTCCATTCAGT
* * * *
20499749 TCTTACGAGCTTATGTTCAACCCTTATGGGTTTCTATTTAGCT
1 TCTCATGAGCTTATGTTCAACCCTTATGGGTTTCCATTCAG-T
20499792 T-TCATGAGCTT
1 TCTCATGAGCTT
20499803 CTATTCAGCT
Statistics
Matches: 114, Mismatches: 23, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
42 112 0.98
43 2 0.02
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.44
Consensus pattern (42 bp):
TCTCATGAGCTTATGTTCAACCCTTATGGGTTTCCATTCAGT
Found at i:20503047 original size:54 final size:54
Alignment explanation
Indices: 20502948--20503081 Score: 198
Period size: 54 Copynumber: 2.5 Consensus size: 54
20502938 TATCTTACAA
* * * *
20502948 CGGGATTACTAGTCCAGGCTAAAT-TCCCGTAGTAGTAACTTATAGAGCATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTAGTAACTAATAGAGCAATGT
* *
20503001 CGGGATTACCAGTTCAGGCTAAATCCCCCGTAGTAGTAACTAATAGAGTAATGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTAGTAACTAATAGAGCAATGT
*
20503055 CGGGATTGCCAGTCCAGGCTAAATCCC
1 CGGGATTACCAGTCCAGGCTAAATCCC
20503082 TTTTTAACGA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 22 0.31
54 50 0.69
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (54 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTAGTAACTAATAGAGCAATGT
Found at i:20510385 original size:10 final size:10
Alignment explanation
Indices: 20510368--20510398 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
20510358 CCCCTCCCCC
20510368 ACACATATAT
1 ACACATATAT
*
20510378 ATACATATAT
1 ACACATATAT
20510388 ACACATATAT
1 ACACATATAT
20510398 A
1 A
20510399 AAGTATTGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (10 bp):
ACACATATAT
Found at i:20511219 original size:23 final size:23
Alignment explanation
Indices: 20511189--20511234 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
20511179 ATTGAAAAAC
*
20511189 AAATATAACAAATCTTACAATTT
1 AAATATAACAAATCTTAAAATTT
20511212 AAATATAACAAATCTTAAAATTT
1 AAATATAACAAATCTTAAAATTT
20511235 TCAAACCAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (23 bp):
AAATATAACAAATCTTAAAATTT
Found at i:20514224 original size:23 final size:22
Alignment explanation
Indices: 20514197--20514246 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 22
20514187 ATTTTTTTTA
20514197 AAATTTTAAATTTAAATCAAGTT
1 AAATTTTAAATTTAAAT-AAGTT
* *
20514220 AAATTTTTAAATTTGAATAATTT
1 AAA-TTTTAAATTTAAATAAGTT
20514243 AAAT
1 AAAT
20514247 AAATCAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 1 0.04
23 10 0.42
24 13 0.54
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (22 bp):
AAATTTTAAATTTAAATAAGTT
Found at i:20516661 original size:16 final size:16
Alignment explanation
Indices: 20516622--20516662 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
20516612 GGAAGTGGCG
*
20516622 GGAAGAAGGTTAGAAA
1 GGAAGAATGTTAGAAA
20516638 GGAAGAATGTTAGAAA
1 GGAAGAATGTTAGAAA
20516654 GGAAGAATG
1 GGAAGAATG
20516663 GTATAACAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.37, T:0.15
Consensus pattern (16 bp):
GGAAGAATGTTAGAAA
Found at i:20522332 original size:2 final size:2
Alignment explanation
Indices: 20522325--20522370 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
20522315 ACCATTGACG
*
20522325 TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20522367 TA TA
1 TA TA
20522371 CAAACCAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20529723 original size:2 final size:2
Alignment explanation
Indices: 20529716--20529763 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
20529706 ACCATTGACG
20529716 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20529758 TA TA TA
1 TA TA TA
20529764 CAAACCAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20532838 original size:43 final size:43
Alignment explanation
Indices: 20532773--20532892 Score: 186
Period size: 43 Copynumber: 2.8 Consensus size: 43
20532763 CTCGTACAAT
*
20532773 GCCAACGTCCCAGACGTAGTCTTACATGTAATCAACTATCGAA
1 GCCAACGTCCCAGACGTGGTCTTACATGTAATCAACTATCGAA
* * * *
20532816 GCCAATGTCCCAGACGTGGTCTTACATGTAATCAAGTATCTAT
1 GCCAACGTCCCAGACGTGGTCTTACATGTAATCAACTATCGAA
*
20532859 GCCAACGTCCCAGACGTGGTCTTACATGAAATCA
1 GCCAACGTCCCAGACGTGGTCTTACATGTAATCA
20532893 CATATCGGAG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACATGTAATCAACTATCGAA
Found at i:20534730 original size:27 final size:27
Alignment explanation
Indices: 20534700--20534775 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
20534690 ACACGACATA
*
20534700 AAAGAATAACCTTTGTGGCGAAT-TATG
1 AAAGAATAACCTTCGTGGC-AATCTATG
* *
20534727 AAAGAATAGCCTTCGTGGCAATCTCTG
1 AAAGAATAACCTTCGTGGCAATCTATG
* *
20534754 AAAGAATAGCCCTCGTGGCAAT
1 AAAGAATAACCTTCGTGGCAAT
20534776 AATTTGAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.07
27 41 0.93
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (27 bp):
AAAGAATAACCTTCGTGGCAATCTATG
Found at i:20534799 original size:28 final size:28
Alignment explanation
Indices: 20534720--20534787 Score: 93
Period size: 27 Copynumber: 2.4 Consensus size: 28
20534710 CTTTGTGGCG
20534720 AATTATGAAAGAATAGCCTTCGTGGCAAT
1 AATT-TGAAAGAATAGCCTTCGTGGCAAT
* * *
20534749 -CTCTGAAAGAATAGCCCTCGTGGCAAT
1 AATTTGAAAGAATAGCCTTCGTGGCAAT
20534776 AATTTGAAAGAA
1 AATTTGAAAGAA
20534788 ATGCCTTTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
27 23 0.70
28 10 0.30
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (28 bp):
AATTTGAAAGAATAGCCTTCGTGGCAAT
Found at i:20534854 original size:27 final size:26
Alignment explanation
Indices: 20534725--20534854 Score: 66
Period size: 27 Copynumber: 4.8 Consensus size: 26
20534715 TGGCGAATTA
* *
20534725 TGAAAGAATAG-CCTTCGTGGCAATCTC
1 TGAAAGAAT-GCCCTT-GTGGAAAACTC
* *
20534752 TGAAAGAATAGCCCTCGTGGCAATAA-TT
1 TGAAAGAAT-GCCCTTGTGG-AA-AACTC
* ***
20534780 TGAAAGAAATGCCTTTGTGGTGTACTC
1 TGAAAG-AATGCCCTTGTGGAAAACTC
* ** *
20534807 TGAAAGAACGACTATTATGGAAAACTC
1 TGAAAGAATG-CCCTTGTGGAAAACTC
20534834 TGAAAGAAATGCCCTTGTGGA
1 TGAAAG-AATGCCCTTGTGGA
20534855 GCATCGAAAT
Statistics
Matches: 75, Mismatches: 21, Indels: 14
0.68 0.19 0.13
Matches are distributed among these distances:
26 4 0.05
27 45 0.60
28 22 0.29
29 4 0.05
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (26 bp):
TGAAAGAATGCCCTTGTGGAAAACTC
Done.