Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 109 of 444
Found at i:27285863 original size:28 final size:27
Alignment explanation
Indices: 27285824--27285902 Score: 115
Period size: 28 Copynumber: 2.9 Consensus size: 27
27285814 TTTAGAGATT
27285824 TACATATTATTTAATTTAATGTTATTA
1 TACATATTATTTAATTTAATGTTATTA
27285851 TACATAGTTATTTAATTTAATGTTATTA
1 TACATA-TTATTTAATTTAATGTTATTA
*
27285879 TACATACTTATATTAAATT-ATGTT
1 TACATA-TTAT-TTAATTTAATGTT
27285903 TACTTTAAGT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
27 6 0.12
28 36 0.75
29 6 0.12
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (27 bp):
TACATATTATTTAATTTAATGTTATTA
Found at i:27285877 original size:15 final size:15
Alignment explanation
Indices: 27285830--27285877 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
27285820 GATTTACATA
27285830 TTATTTAATTTAATG
1 TTATTTAATTTAATG
27285845 TTA-TT-A--TACATAG
1 TTATTTAATTTA-AT-G
27285858 TTATTTAATTTAATG
1 TTATTTAATTTAATG
27285873 TTATT
1 TTATT
27285878 ATACATACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 12
0.69 0.00 0.31
Matches are distributed among these distances:
11 2 0.07
12 2 0.07
13 5 0.19
14 4 0.15
15 10 0.37
16 2 0.07
17 2 0.07
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.58
Consensus pattern (15 bp):
TTATTTAATTTAATG
Found at i:27289038 original size:21 final size:22
Alignment explanation
Indices: 27289013--27289066 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
27289003 TAGAATGCAT
*
27289013 TAATATTATAAATATAGTA-AA
1 TAATAATATAAATATAGTACAA
**
27289034 TAATACGATAAATATAGTACAA
1 TAATAATATAAATATAGTACAA
27289056 TAATAATATAA
1 TAATAATATAA
27289067 TTCAATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (22 bp):
TAATAATATAAATATAGTACAA
Found at i:27289473 original size:113 final size:109
Alignment explanation
Indices: 27289312--27289521 Score: 314
Period size: 113 Copynumber: 1.9 Consensus size: 109
27289302 AAAAACAAAT
* * * * *
27289312 AAAATTACATCATAACAAATAAAATTACATTAAACTAAACAAATAATTTATAACCTAATGATAAA
1 AAAATTACATCATAAAAAATAAAATAACACTAAACTAAACAAACAATTTATAACCTAATAATAAA
27289377 TTACTAACAAAATAACTTT-AAAATAATTAAAAAAACACAAAAA
66 TTACTAACAAAATAACTTTAAAAATAATTAAAAAAACACAAAAA
*
27289420 AAAATTACATTCATAAAAAATCACAATAAACACTAAACTAAAGACAAACAATTTATAACCTAATA
1 AAAATTACA-TCATAAAAAAT-AAAAT-AACACTAAACT-AA-ACAAACAATTTATAACCTAATA
27289485 ATAAATTACTAACAAAATAACTTTAAAAATAATTAAA
61 ATAAATTACTAACAAAATAACTTTAAAAATAATTAAA
27289522 TTTTTTTTTA
Statistics
Matches: 90, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
108 9 0.10
109 10 0.11
110 4 0.04
111 9 0.10
112 2 0.02
113 44 0.49
114 12 0.13
ACGTcount: A:0.60, C:0.13, G:0.01, T:0.26
Consensus pattern (109 bp):
AAAATTACATCATAAAAAATAAAATAACACTAAACTAAACAAACAATTTATAACCTAATAATAAA
TTACTAACAAAATAACTTTAAAAATAATTAAAAAAACACAAAAA
Found at i:27289595 original size:106 final size:105
Alignment explanation
Indices: 27289424--27289618 Score: 327
Period size: 106 Copynumber: 1.8 Consensus size: 105
27289414 CAAAAAAAAA
*
27289424 TTACATTCATAAAAAATCACAATAAACACTAAACTAAAGACAAACAATTTATAACCTAATAATAA
1 TTACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAACCTAATAATAA
* *
27289489 ATTACTAACAAAATAACTTTAAAAATAATTAAATTTTTTT
66 ATTACAAAAAAAATAACTTTAAAAATAATTAAATTTTTTT
* * *
27289529 TTACATTCATAAAAAATACACAATAAACACTAAATTAAACACAAACAATTTATAATCTAATCATA
1 TTACATTCATAAAAAAT-CACAATAAACACTAAACTAAACACAAACAATTTATAACCTAATAATA
27289594 AATTACAAAAAAAATAACTTTAAAA
65 AATTACAAAAAAAATAACTTTAAAA
27289619 CAATTTTAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
105 17 0.20
106 66 0.80
ACGTcount: A:0.56, C:0.14, G:0.01, T:0.29
Consensus pattern (105 bp):
TTACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAACCTAATAATAA
ATTACAAAAAAAATAACTTTAAAAATAATTAAATTTTTTT
Found at i:27289710 original size:23 final size:22
Alignment explanation
Indices: 27289673--27289718 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
27289663 AACCAAACAC
* *
27289673 AAAAAAATTATAAAAATTACTA
1 AAAAAAATCATAAAAATAACTA
27289695 AAAAAAATCATAAAAAATAACTA
1 AAAAAAATCAT-AAAAATAACTA
27289718 A
1 A
27289719 TCCCTTCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAAAAATCATAAAAATAACTA
Found at i:27289806 original size:4 final size:4
Alignment explanation
Indices: 27289789--27289845 Score: 69
Period size: 4 Copynumber: 13.5 Consensus size: 4
27289779 AAACATACCT
* *
27289789 TTTC TTTT TTTC TTTC TTTC TTTC TTTTCC TTCC TTTCC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC TTT-C TTTC TTTC TTTC
27289840 TTTC TT
1 TTTC TT
27289846 CCTCTCCTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
4 36 0.78
5 9 0.20
6 1 0.02
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:27289832 original size:27 final size:25
Alignment explanation
Indices: 27289800--27289854 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 25
27289790 TTCTTTTTTT
*
27289800 CTTTCTTTCTTTCTTTTCCTTCCTTTC
1 CTTTCTTTCTTTC-TTT-CTTCCTCTC
27289827 CTTTCTTTCTTTCTTTCTTCCTCTC
1 CTTTCTTTCTTTCTTTCTTCCTCTC
27289852 CTT
1 CTT
27289855 ATGTCGAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 11 0.41
26 3 0.11
27 13 0.48
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (25 bp):
CTTTCTTTCTTTCTTTCTTCCTCTC
Found at i:27290310 original size:5 final size:6
Alignment explanation
Indices: 27290268--27290292 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
27290258 TTAAATATAA
27290268 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
27290293 AGAATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:27296421 original size:25 final size:25
Alignment explanation
Indices: 27296387--27296443 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
27296377 TATCCCTTGG
27296387 TTAGG-CAATACTTAGGATAACAAA
1 TTAGGACAATACTTAGGATAACAAA
* *
27296411 TTAGGACAATACTTATGATAGCAAA
1 TTAGGACAATACTTAGGATAACAAA
*
27296436 TTATGACA
1 TTAGGACA
27296444 GTTGAAGTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 5 0.17
25 24 0.83
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (25 bp):
TTAGGACAATACTTAGGATAACAAA
Found at i:27305203 original size:3 final size:3
Alignment explanation
Indices: 27305195--27305239 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
27305185 TATATGTATA
27305195 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
27305240 TTCACCTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:27306252 original size:6 final size:6
Alignment explanation
Indices: 27306193--27306260 Score: 50
Period size: 6 Copynumber: 11.5 Consensus size: 6
27306183 AGGAAGTCTA
* * * * * * *
27306193 AAAACAT AACAAT AAACAT AAAAAT AGAAAT TAAACT AAAACT AAAAGT
1 AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
27306242 AAAAAT -AAAA- AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAA
27306261 GAGACTCAAT
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
5 8 0.17
6 37 0.77
7 3 0.06
ACGTcount: A:0.74, C:0.07, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:27319427 original size:21 final size:21
Alignment explanation
Indices: 27319357--27319427 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
27319347 CATATATATC
*
27319357 ATGAACTCAAACCACAACTCA
1 ATGAACTCAGACCACAACTCA
** * *
27319378 ATGAGTTCGGATGCCACATATATC-
1 ATGAACTCAGA--CCACA-A-CTCA
27319402 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
27319423 ATGAA
1 ATGAA
27319428 TTTAGATCAC
Statistics
Matches: 36, Mismatches: 9, Indels: 10
0.65 0.16 0.18
Matches are distributed among these distances:
20 2 0.06
21 13 0.36
22 5 0.14
23 5 0.14
24 9 0.25
25 2 0.06
ACGTcount: A:0.41, C:0.27, G:0.13, T:0.20
Consensus pattern (21 bp):
ATGAACTCAGACCACAACTCA
Found at i:27321548 original size:28 final size:28
Alignment explanation
Indices: 27321508--27321564 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
27321498 CAATATGAGA
27321508 ACATAATTTGAAGTTTATGTGATTGTTG
1 ACATAATTTGAAGTTTATGTGATTGTTG
27321536 ACATAATTTGAAGTTTATGTGATTGTTG
1 ACATAATTTGAAGTTTATGTGATTGTTG
27321564 A
1 A
27321565 TGTTAACACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.46
Consensus pattern (28 bp):
ACATAATTTGAAGTTTATGTGATTGTTG
Found at i:27321881 original size:20 final size:21
Alignment explanation
Indices: 27321856--27321894 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27321846 ATTAAAAAAG
27321856 ATAAAAAT-AACTTTTTTTTT
1 ATAAAAATAAACTTTTTTTTT
*
27321876 ATAAAATTAAACTTTTTTT
1 ATAAAAATAAACTTTTTTT
27321895 AAAAGAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
ATAAAAATAAACTTTTTTTTT
Found at i:27326187 original size:29 final size:29
Alignment explanation
Indices: 27326123--27326225 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
27326113 GTGACGAGAT
* * *
27326123 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * * *
27326152 CGACACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
27326181 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
27326210 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
27326226 TGATTGAGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
28 3 0.05
29 56 0.95
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:27339493 original size:723 final size:722
Alignment explanation
Indices: 27338107--27339550 Score: 2084
Period size: 723 Copynumber: 2.0 Consensus size: 722
27338097 GTACTAACTC
** * **
27338107 TGTAACACCCCGTACCCGAGACCATTGTCGGAGTCAGACACGAGGGGTTCGCAGACTTAAATCAC
1 TGTAACACCCCGTACCCGAGACCATTACCGGAGTCAGACACGAGGGGCTAACAGACTTAAATCAC
* ** *
27338172 TTATTTGCACAGTCCATTTTAAATTTCCAGACGAGCTGGCTAACTGCGTCACTGTCACCTTAAAA
66 TTATCTGCACAGTCCATTAAAAATTTCCAGACGAGCTGGCTAACTGCATCACTGTCACCTTAAAA
* * *
27338237 ATCATATCTCGAGTTCCAAAACTCGAAAACCAGTTCCGTAAATTTTTCCTGAAACTAGACTCATA
131 ATCATAACTCGAGTTCCAAAACTCGAAAACCAGTTCCATAAATTTTTCCCGAAACTAGACTCATA
*
27338302 TGTTCATCTACAAATTTTTTTCTAGAATTTTTGGTTGAACCAATTAGTACAGTTTATTAGCTAAA
196 TGTCCATCTACAAATTTTTTTCTAGAATTTTTGGTTGAACCAATTAGTACAGTTTATTAGCTAAA
* ** * ** *
27338367 GTCTCCCCTGTTTCAGGGTTCGACTACACTGACCTTTGCGCATTACAACTTGGATATGTCCCTGT
261 GTCTCCCCTATTTCAGGGTTCGACTACACTGACCTTCACGCATTACAAATCAGATATATCCCTGT
* * *
27338432 ACAGGGCTTCAATACTGATGCCATTTGTTTATATAGAAACTAGACTCGAAAAGGAATCTATAAAT
326 ACAGGGATTCAATACTGATGCCATTTGTTTATATAGAAACTAGACCCAAAAAGGAATCTATAAAT
* *
27338497 ATATGGCATGACTTCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGAATAGGGAA
391 ATATGGCATGACTTCTAAATATCTCTGGTTAATTTATAATGAATTTCCAAAGTCAGAATAGGGAA
* * ** * *
27338562 TCCAGAAACTGTTCTGGCCCTGTTTTGCGAAAACTTAAATATCTCATAATATACTATTCATATGA
456 TCCAGAAACCGTTCTGGCCCTGTCTCACGAAAACTTAAACATCTCATAATATAATATTCATATGA
**
27338627 TTGTTTCGTTACTTCCATATGAAAATAGATTCATCAAGGTTCGATTACATAATTTATTCACTATT
521 ACGTTTCGTTACTTCCATATGAAAATAGATTCATCAAGGTTCGATTACATAATTTATTCACTATT
* * * *
27338692 TAATTCCATTCCTACTATTTTTAGTGATTTTTCAAATCCATACCACTGCTACTGTCAACATCTGT
586 TAATTCCATTCCTACTATTTTTAGAGATTTTTCAAATCCACACCACTGCTACTGCCAACATCTAT
* **
27338757 TTTTAAGGTAAACTTTACCTATTTCATGGTTTTCCATGAATCAACTAGAGGTTGTCATACATAGC
651 TTTTAAGGTAAACTTTACCTATTTCATGATCCTCCATGAATCAACTAGAGGTTGTCATACATA-C
27338822 ACCAAAAT
715 ACCAAAAT
* * * *
27338830 TGTAACACCCCGTACCCGAGACCGTTACCGGAGTC-GAACACGAGGTGCTAACCGAC-TAATTCA
1 TGTAACACCCCGTACCCGAGACCATTACCGGAGTCAG-ACACGAGGGGCTAACAGACTTAAATCA
*
27338893 TTTACTCT-CACAGTCCAATTAAAAATTTTCCAGACGA-CTGGCTAACTGCATCACTGTCACCTT
65 CTTA-TCTGCACAGTCC-ATTAAAAA-TTTCCAGACGAGCTGGCTAACTGCATCACTGTCACCTT
* * *
27338956 AAAAATCATAACTTGAGTTCCACAACTCGAAAATCAGATT-CAT-AATTTTTCCCCGAAACTAGA
127 AAAAATCATAACTCGAGTTCCAAAACTCGAAAACCAG-TTCCATAAATTTTT-CCCGAAACTAGA
* *
27339019 CTCATATGTCCATCTACATA-TTTTTTCTTAGAATTTTTGGTT-AGGCCAATTAGTACAGTTTAT
190 CTCATATGTCCATCTACAAATTTTTTTC-TAGAATTTTTGGTTGA-ACCAATTAGTACAGTTTAT
* * *
27339082 TAGTTAAAGTCTCCCCTA-TTCTAGGGTTCGACTACACTGACCTTCATGCATTTCAAATCAGATA
253 TAGCTAAAGTCTCCCCTATTTC-AGGGTTCGACTACACTGACCTTCACGCATTACAAATCAGATA
* *
27339146 TATCCCTGTACAGGGATTCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACCCAAAAAGGAA
317 TATCCCTGTACAGGGATTCAATACTGATGCCATTTGTTTATATAGAAACTAGACCCAAAAAGGAA
*
27339211 TCTATAAATATATGGCATGACTTCTAAATGTCTCTGGTTAATTTATAATGAATTTCCAAAGTCAG
382 TCTATAAATATATGGCATGACTTCTAAATATCTCTGGTTAATTTATAATGAATTTCCAAAGTCAG
* *
27339276 -ATCAGGGGATCCAGAAACCGTTCTGGCCCTGTCTCACGAAAACTTTAACATCTCATAATATAAT
447 AAT-AGGGAATCCAGAAACCGTTCTGGCCCTGTCTCACGAAAACTTAAACATCTCATAATATAAT
*
27339340 GTTCATATGAACGTTTCGTTACTTTCC-TATGAAAATAGATTCATCAAGGTTCGATTACATAATT
511 ATTCATATGAACGTTTCGTTAC-TTCCATATGAAAATAGATTCATCAAGGTTCGATTACATAATT
* * *
27339404 TATTCGA-TATTTAATTCCATTCCTACTATTTTTAGAGATTTTTCACATCCACATCACTGCTGCT
575 TATTC-ACTATTTAATTCCATTCCTACTATTTTTAGAGATTTTTCAAATCCACACCACTGCTACT
* * * *
27339468 GCCAGCATTTATTTTTAAGGTAAACTTTACCTATTTCATGATCCTCCATGGATCAACTAGAGTTT
639 GCCAACATCTATTTTTAAGGTAAACTTTACCTATTTCATGATCCTCCATGAATCAACTAGAGGTT
*
27339533 GTCATACATATACCAAAA
704 GTCATACATACACCAAAA
27339551 GTGATCATGA
Statistics
Matches: 642, Mismatches: 67, Indels: 25
0.87 0.09 0.03
Matches are distributed among these distances:
722 45 0.07
723 579 0.90
724 18 0.03
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (722 bp):
TGTAACACCCCGTACCCGAGACCATTACCGGAGTCAGACACGAGGGGCTAACAGACTTAAATCAC
TTATCTGCACAGTCCATTAAAAATTTCCAGACGAGCTGGCTAACTGCATCACTGTCACCTTAAAA
ATCATAACTCGAGTTCCAAAACTCGAAAACCAGTTCCATAAATTTTTCCCGAAACTAGACTCATA
TGTCCATCTACAAATTTTTTTCTAGAATTTTTGGTTGAACCAATTAGTACAGTTTATTAGCTAAA
GTCTCCCCTATTTCAGGGTTCGACTACACTGACCTTCACGCATTACAAATCAGATATATCCCTGT
ACAGGGATTCAATACTGATGCCATTTGTTTATATAGAAACTAGACCCAAAAAGGAATCTATAAAT
ATATGGCATGACTTCTAAATATCTCTGGTTAATTTATAATGAATTTCCAAAGTCAGAATAGGGAA
TCCAGAAACCGTTCTGGCCCTGTCTCACGAAAACTTAAACATCTCATAATATAATATTCATATGA
ACGTTTCGTTACTTCCATATGAAAATAGATTCATCAAGGTTCGATTACATAATTTATTCACTATT
TAATTCCATTCCTACTATTTTTAGAGATTTTTCAAATCCACACCACTGCTACTGCCAACATCTAT
TTTTAAGGTAAACTTTACCTATTTCATGATCCTCCATGAATCAACTAGAGGTTGTCATACATACA
CCAAAAT
Found at i:27340520 original size:49 final size:49
Alignment explanation
Indices: 27340456--27340599 Score: 225
Period size: 49 Copynumber: 2.9 Consensus size: 49
27340446 TATAGTACTA
* * *
27340456 ACTTCCACATCCATCACGTTGGCCACTAGGCCTTATCACATATATACAC
1 ACTTTCACATACATCACGTTGGCCATTAGGCCTTATCACATATATACAC
27340505 ACTTTCACATACATCACGTTGGCCATTAGGCCTTATCACATATATACAC
1 ACTTTCACATACATCACGTTGGCCATTAGGCCTTATCACATATATACAC
* * * *
27340554 AGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 ACTTTCACATACATCACGTTGGCCATTAGGCCTTATCACATATATA
27340600 TATCTCATAC
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.30
Consensus pattern (49 bp):
ACTTTCACATACATCACGTTGGCCATTAGGCCTTATCACATATATACAC
Found at i:27343404 original size:40 final size:40
Alignment explanation
Indices: 27343321--27343541 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
27343311 ACCCAAGTAT
** * *
27343321 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
27343359 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
27343399 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
27343439 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
27343479 CTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
* *
27343520 CTTCGGGACTTAGTCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
27343542 CATTCAAATA
Statistics
Matches: 154, Mismatches: 25, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 15 0.10
40 97 0.63
41 30 0.19
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:27349635 original size:45 final size:45
Alignment explanation
Indices: 27349571--27349700 Score: 192
Period size: 45 Copynumber: 2.9 Consensus size: 45
27349561 GTTGTACAGT
* *
27349571 ATTATTCGGGCCTTGGAGCCTAGCAGGCTATAATGCTGGTGAGAC
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* *
27349616 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* *
27349661 ATTTTTCGGGCC-TCGAGCCTAGCAGGC-AAAATGCCGGTGA
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
27349701 ATAAATTCGG
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
43 12 0.15
44 14 0.18
45 53 0.67
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (45 bp):
ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
Found at i:27352327 original size:29 final size:29
Alignment explanation
Indices: 27352293--27352366 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
27352283 TACTCAATCA
* *
27352293 CGCACACTTAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATACAGTACAAACT
* * *
27352322 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATACAGTACAAACT
*
27352351 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
27352367 ATCTCGTCAC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.28, C:0.34, G:0.16, T:0.22
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACAGTACAAACT
Found at i:27360666 original size:29 final size:29
Alignment explanation
Indices: 27360604--27360706 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
27360594 GTGACGAGAT
* * *
27360604 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
27360633 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
27360662 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
27360691 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
27360707 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:27368437 original size:29 final size:29
Alignment explanation
Indices: 27368375--27368477 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
27368365 GTGACGAGAT
* * *
27368375 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
27368404 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
27368433 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
27368462 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
27368478 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:27370344 original size:49 final size:49
Alignment explanation
Indices: 27370273--27370518 Score: 415
Period size: 49 Copynumber: 5.0 Consensus size: 49
27370263 ACATATATAG
*
27370273 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
**
27370322 ATATACATTTTCACATTCATCACA-CGGCTTTTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
27370370 ATATACA-TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
*
27370418 ATATACATTTTCACATTCATCACATCGGCCATTAGACCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
* *
27370467 ATATACATTTTCACATTTATCACATCGGCCATTAGGCCTTATATACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTAT-CACATAT
27370517 AT
1 AT
27370519 TATTATGTAC
Statistics
Matches: 185, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
47 16 0.09
48 58 0.31
49 103 0.56
50 8 0.04
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.35
Consensus pattern (49 bp):
ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
Found at i:27370396 original size:96 final size:98
Alignment explanation
Indices: 27370273--27370518 Score: 415
Period size: 96 Copynumber: 2.5 Consensus size: 98
27370263 ACATATATAG
27370273 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCACAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCACAT
** *
27370338 TCATCACA-CGGCTTTTAGGCCTTATCACATAT
66 TCATCACATCGGCCATTAGACCTTATCACATAT
27370370 ATATACA-TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCACAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCACAT
27370434 TCATCACATCGGCCATTAGACCTTATCACATAT
66 TCATCACATCGGCCATTAGACCTTATCACATAT
* * *
27370467 ATATACATTTTCACATTTATCACATCGGCCATTAGGCCTTATATACATATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-CACATATAT
27370519 TATTATGTAC
Statistics
Matches: 141, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
96 65 0.46
97 35 0.25
98 33 0.23
99 8 0.06
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.35
Consensus pattern (98 bp):
ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCACAT
TCATCACATCGGCCATTAGACCTTATCACATAT
Found at i:27386058 original size:21 final size:21
Alignment explanation
Indices: 27386034--27386078 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
27386024 GGAAAAAATC
* *
27386034 TTATTTTTATTTTATTTTATA
1 TTATTTTTATTTTATGTTAAA
27386055 TTATTTTTATTTTATGTTAAA
1 TTATTTTTATTTTATGTTAAA
27386076 TTA
1 TTA
27386079 GTTAAGGCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (21 bp):
TTATTTTTATTTTATGTTAAA
Found at i:27393371 original size:8 final size:9
Alignment explanation
Indices: 27393350--27393382 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
27393340 TCTTCCTCCC
*
27393350 TTATTAATT
1 TTATTTATT
27393359 TTATTTA-T
1 TTATTTATT
27393367 TTATTTATT
1 TTATTTATT
27393376 TTATTTA
1 TTATTTA
27393383 CTTCTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TTATTTATT
Found at i:27393376 original size:17 final size:17
Alignment explanation
Indices: 27393350--27393382 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27393340 TCTTCCTCCC
27393350 TTATTAATTTTATTTAT
1 TTATTAATTTTATTTAT
*
27393367 TTATTTATTTTATTTA
1 TTATTAATTTTATTTA
27393383 CTTCTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATTAATTTTATTTAT
Found at i:27393469 original size:16 final size:16
Alignment explanation
Indices: 27393448--27393480 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
27393438 TCTATTATTA
*
27393448 TTATTATTTTACTTTT
1 TTATTATTTTAATTTT
27393464 TTATTATTTTAATTTT
1 TTATTATTTTAATTTT
27393480 T
1 T
27393481 CTTCTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTATTTTAATTTT
Found at i:27396407 original size:25 final size:25
Alignment explanation
Indices: 27396379--27396429 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
27396369 CCCTTATAAT
* * *
27396379 GTGAAAATGACCTTTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
27396404 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
27396429 G
1 G
27396430 GTTATGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:27398005 original size:12 final size:12
Alignment explanation
Indices: 27397990--27398019 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
27397980 TGGACGAGGC
27397990 CGCGGACGTGGT
1 CGCGGACGTGGT
27398002 CGCGGACGTGGT
1 CGCGGACGTGGT
27398014 CGCGGA
1 CGCGGA
27398020 AGGGTGCAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.27, G:0.50, T:0.13
Consensus pattern (12 bp):
CGCGGACGTGGT
Found at i:27404225 original size:25 final size:25
Alignment explanation
Indices: 27404197--27404247 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
27404187 CCCTTATAAT
* *
27404197 GTGAAAATGACCTTTTTACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
27404222 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
27404247 G
1 G
27404248 GTTATGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:27407461 original size:663 final size:665
Alignment explanation
Indices: 27406034--27408948 Score: 4388
Period size: 663 Copynumber: 4.4 Consensus size: 665
27406024 GTTATGAGAG
* * *
27406034 AGTCAAGCATGATAAGTTATTTTTAGAATTAAAATATTTTAAGTTGTTTCCTTTAATTGAGGTAT
1 AGTCAAGCATGATAAGTTATTTTTAGAATTAAAATTTTTTAGGTTGTTTCCTTGAATTGAGGTAT
* *
27406099 TATCTTGAAGTTTTAAATCTGTAAGTTTGACATCAAAACCATGATTTTTTGTGAGATTTTGAGCC
66 TATCTTGAAGTTTTAAATTTGCAAGTTTGACATCAAAACCATGATTTTTTGTGAGATTTTGAGCC
** * * *
27406164 TCAAGAGAATACACTTTCATGATCATTCTATTATTGGTTATGAGTGTGTCAACTTGATTTGTTAT
131 TTTAGAGCATACATTTTCATGCTCATTCTATTATTGGTTATGAGTGTGTCAACTTGATTTGTTAT
* * *
27406229 TCTAGAACTTGCTTTGATTATTCATGTCGAGACCACACCTTTGATTTGATATACTAAGATGATAA
196 TCTAGAACTTGCTTCGATTATGCATGTCGAGACCGCACCTTTGATTTGA-ATACTAAGATGATAA
* * *
27406294 AGGCACTTAGGTTTTAACCCACTTATCCCATAAAAAGCCTCCATTTTTAGTTAACCCTTAGTGAA
260 AGGCACTTAGGTTTTAACCCACTTATCCCATAAAAAGCCTCCCTTTTTAATTAACCCTTAATGAA
* * ** ** *
27406359 CCCCGTTAAGA-ATAGCATCCTATTTCTTGATTAACCTTTTAATGTTAACTATAACCCATTTTTT
325 CCCCGTTAA-ACCTAACATCCCGTTTCTTGATTAACCCATTAATGTTAACCATAACCCA-TTTTT
* * * *
27406423 CTCATTGTGACTCTTCTCATTTTATTGACTCCCTTTTTGTTGATATTTGATTTGGTTAGTTACCT
388 -TCGTTGTGACTCTTCTCATTTTATTGACTCCCTTTTTGTCGATATTTGATTTCGTTAGTTGCCT
* * * * *
27406488 AGCTATGCTCTTCTATTTGATTTGCTGAGTTATTTGTTATTGTTC----T-AG--ATAAGAAAAA
452 AGCTATGCTATTCTGTTTGATTTGCTGAATTATTTCTTATTGTTCTAAATAAGAAAAAAGAAAAA
*
27406546 AATATTGATTATTAATTAGTTATTTTTTGATTGAGCTTGAACAATCAATTTCATATTTTGAGAAG
517 AATATTGATTATTAATTAGTTATTTTTTGATTGAGCTTGAACAGTCAATTTCATATTTTGAGAAG
* * * *
27406611 AAGCTCGTTTTTGTTCTTGAATAGATATTGATGCGCTTGTTTTTAATTTAGAATTTTTTTTAATT
582 AAGCTCATTTTTGTTCTTGAATAGTTATTGATGCGCTTGTTTTTAATTTAGCA-TTTGTTTAATT
** *
27406676 TTTATATTTTGGTAATTTCT
646 TTGCTAGTTTGGTAATTTCT
* * *
27406696 AGTCAAGTATGATAAGTTATTTTCAGAATTAAATTTTTTTAGGTTGTTTCCTTGAATTGAGGTAT
1 AGTCAAGCATGATAAGTTATTTTTAGAATTAAAATTTTTTAGGTTGTTTCCTTGAATTGAGGTAT
* *
27406761 TGTCTTGAAGTTTTAAATTTGCAAGTTTGACATCAAAACTATGATTTTTTGTGAGATTTTGAGCC
66 TATCTTGAAGTTTTAAATTTGCAAGTTTGACATCAAAACCATGATTTTTTGTGAGATTTTGAGCC
* * * * * *
27406826 TTAAGAGCATACACTTTCATGCTCATTCCATTCTTGGTTATGAATGTGTCAACTTAATTTGTTAT
131 TTTAGAGCATACATTTTCATGCTCATTCTATTATTGGTTATGAGTGTGTCAACTTGATTTGTTAT
* *
27406891 TCTAGAACTTGCTTCGATTATGCATGTCGAAACCGCACCTTTGATTTG-ATACTAAGATTATAAA
196 TCTAGAACTTGCTTCGATTATGCATGTCGAGACCGCACCTTTGATTTGAATACTAAGATGATAAA
* *
27406955 TGCACATAGGTTTTAACCCACTTATCCCATAAAAAGCCTCCCTTTTTAATTAACCCTTAATGAAC
261 GGCACTTAGGTTTTAACCCACTTATCCCATAAAAAGCCTCCCTTTTTAATTAACCCTTAATGAAC
**
27407020 CTTGTTAAACCTAACATCCCGTTTCTTGATTAACCCATTAATG-TAACCATAACCCATTTTTTTC
326 CCCGTTAAACCTAACATCCCGTTTCTTGATTAACCCATTAATGTTAACCATAACCCA-TTTTTTC
*
27407084 GTGGTGACTCTTCTCATTTTATTGACT-CCTTTTTGTCGATATTTGATTTCGTTAGTTGCCTAGC
390 GTTGTGACTCTTCTCATTTTATTGACTCCCTTTTTGTCGATATTTGATTTCGTTAGTTGCCTAGC
*
27407148 TATGCTCTTCTGTTTGATTTGCTGAATTATTTCTTATTGTTCTAAATAAGAAAAAAAGAAAAAAA
455 TATGCTATTCTGTTTGATTTGCTGAATTATTTCTTATTGTTCTAAATAAG-AAAAAAGAAAAAAA
* *
27407213 TATTGATTATTAATTAGTTATTTTTT-ATTGGGCTTTAACAGTCAATTTCATATTTTGAGAAGAA
519 TATTGATTATTAATTAGTTATTTTTTGATTGAGCTTGAACAGTCAATTTCATATTTTGAGAAGAA
* * * * *
27407277 GTTCGTTCTTCTTCTGGAATAGTTATTGATGCGCTTGTTTTTAATTTAGCATTTGTTTAATTTTG
584 GCTCATTTTTGTTCTTGAATAGTTATTGATGCGCTTGTTTTTAATTTAGCATTTGTTTAATTTTG
*
27407342 CTAGTTTGGTAATTCCT
649 CTAGTTTGGTAATTTCT
* * * *
27407359 AGTCAAGCATGACAAGTTATTTTCAGAATTAAATTTTTTTAAGTTGTTTCCTTGAATTGAGGTAT
1 AGTCAAGCATGATAAGTTATTTTTAGAATTAAAATTTTTTAGGTTGTTTCCTTGAATTGAGGTAT
* *
27407424 TATCTTGAGGTTTTAAATTTGCAAGTTTGACATCAAAACCATGATTTTTTGTGAGATTTTAAGCC
66 TATCTTGAAGTTTTAAATTTGCAAGTTTGACATCAAAACCATGATTTTTTGTGAGATTTTGAGCC
* *
27407489 TTTAGAGCATACATTTTCATGCTCATTCTATTATTGATTATGAATGTGTCAACTTGATTTGTTAT
131 TTTAGAGCATACATTTTCATGCTCATTCTATTATTGGTTATGAGTGTGTCAACTTGATTTGTTAT
* * *
27407554 TCTCGAACTTGGTTCGATTATGCATGTCAAGACCGCACCTTTGATTTG-ATACTAAGATGATAAA
196 TCTAGAACTTGCTTCGATTATGCATGTCGAGACCGCACCTTTGATTTGAATACTAAGATGATAAA
* * *
27407618 TGTACTTAGGTTTTAACCCACTTATCCCATAAAAAGCCTCCCTTTTTAATTAACTCTTAATGAAC
261 GGCACTTAGGTTTTAACCCACTTATCCCATAAAAAGCCTCCCTTTTTAATTAACCCTTAATGAAC
*
27407683 CCCGTTAAACCTAACATCCCGTTTCTTGATTAACCCGTTAATG-TAACCATAACCCATTTTTTCG
326 CCCGTTAAACCTAACATCCCGTTTCTTGATTAACCCATTAATGTTAACCATAACCCATTTTTTCG
* *
27407747 TTGTGACTCTTCTCGTTTTATAT-ACTCCCTTTTTGTCTATATTTGATTTCGTTAGTTGCCTAGC
391 TTGTGACTCTTCTCATTTTAT-TGACTCCCTTTTTGTCGATATTTGATTTCGTTAGTTGCCTAGC
* *
27407811 TATGCTATTCTGTTTGATTTGTTGAATTATTTCTTATTGTTCTAAATAAGAAAAAAAGGAAAAAA
455 TATGCTATTCTGTTTGATTTGCTGAATTATTTCTTATTGTTCTAAATAAG-AAAAAAGAAAAAAA
* * * *
27407876 TATTGATTATTAGTTACTTATTTTTTGATCGAGCTTGAACATTCAATTTCATATTTTGAGAAGAA
519 TATTGATTATTAATTAGTTATTTTTTGATTGAGCTTGAACAGTCAATTTCATATTTTGAGAAGAA
* *
27407941 GCTCATTTTTGTTCTTGAATAGTTATTGATGCGCTTGTTTTTAATTCAACATTTGTTTAATTTTG
584 GCTCATTTTTGTTCTTGAATAGTTATTGATGCGCTTGTTTTTAATTTAGCATTTGTTTAATTTTG
*
27408006 CTTGTTTGGTAATTTCT
649 CTAGTTTGGTAATTTCT
* * * * *
27408023 AGTCAAACGTGGTAAGTTATTTTTAGAATTAAAATTTTTTAGGTTGTTTCCATGAATTGAGATAT
1 AGTCAAGCATGATAAGTTATTTTTAGAATTAAAATTTTTTAGGTTGTTTCCTTGAATTGAGGTAT
*
27408088 TATCTTGAAGTTTTAAATTTGCAAGTTTGACATCAAAACCATGATTTTTTGTGAGATTTTAAGCC
66 TATCTTGAAGTTTTAAATTTGCAAGTTTGACATCAAAACCATGATTTTTTGTGAGATTTTGAGCC
* * * * *
27408153 TTTACAACATACATTTTCATGCTCATTTTATTGTTGGTTATGAGTGTGTCAACGTGATTTGTTAT
131 TTTAGAGCATACATTTTCATGCTCATTCTATTATTGGTTATGAGTGTGTCAACTTGATTTGTTAT
** ** * * *
27408218 TCTAGAACTAACTTTAATTATGCAAGTCGAGACCACACATTTGATTTGATATACTAAGATGATAA
196 TCTAGAACTTGCTTCGATTATGCATGTCGAGACCGCACCTTTGATTTGA-ATACTAAGATGATAA
* * * *
27408283 AGGAATTTAGGTTTTAACCCACTTATCCCAAAAAAAGCCTCCCTTTTTAATTAACCCTTAGTGAA
260 AGGCACTTAGGTTTTAACCCACTTATCCCATAAAAAGCCTCCCTTTTTAATTAACCCTTAATGAA
* * *
27408348 CCCCAG-TAAACCTAACATCTCGTTTCTTGATTAGCCCATTAATGTTAACCATAATCCATTTTTT
325 CCCC-GTTAAACCTAACATCCCGTTTCTTGATTAACCCATTAATGTTAACCATAACCCATTTTTT
* * * *
27408412 CGCTGTGACTCTTCTCGTTTTATTGACTCCCTTTTTGTCGATATTTGATTTGGTTAGTTGCCTAA
389 CGTTGTGACTCTTCTCATTTTATTGACTCCCTTTTTGTCGATATTTGATTTCGTTAGTTGCCTAG
* *
27408477 CTATACTATTCTGTTTGATTTGCTGAATTATTTCTTATTGTTCTAGATAAGAAAAAAGAAAAAAA
454 CTATGCTATTCTGTTTGATTTGCTGAATTATTTCTTATTGTTCTAAATAAGAAAAAAGAAAAAAA
*
27408542 TATTGATTATTAATTAGTTATTTGTTGATTGAGCTTGAACAGTCAATTTCATATTTTGAGAAGAA
519 TATTGATTATTAATTAGTTATTTTTTGATTGAGCTTGAACAGTCAATTTCATATTTTGAGAAGAA
* *
27408607 GTTCATTTTTGTTCTTGAATAGTTATTGATGCGCTTGTTTTTAATTAAGCATTTGTTTAATTTT-
584 GCTCATTTTTGTTCTTGAATAGTTATTGATGCGCTTGTTTTTAATTTAGCATTTGTTTAATTTTG
27408671 CTAGTTTGGTAATTTCT
649 CTAGTTTGGTAATTTCT
* *
27408688 AGTCAAGCATGGTAAGTTATTTTTAGAATTAAAATTTTTTAGGTTGTTTCCCTGAATTGAGGTAT
1 AGTCAAGCATGATAAGTTATTTTTAGAATTAAAATTTTTTAGGTTGTTTCCTTGAATTGAGGTAT
* * *
27408753 TGTATTGAAGTTTTAAATTTGCAAGTTTGACAGCAAAACCATGATTTTTTTGTGAGATTTTGAGC
66 TATCTTGAAGTTTTAAATTTGCAAGTTTGACATCAAAACCATGA-TTTTTTGTGAGATTTTGAGC
*
27408818 CTTTAGAGCATACATTTTCATGCTAATTCTATTATTGGTTATGAGTGTGTCAACTTGATTTGTTA
130 CTTTAGAGCATACATTTTCATGCTCATTCTATTATTGGTTATGAGTGTGTCAACTTGATTTGTTA
*
27408883 TTCTAGAACTTGCTTCGATTATGCATGTCGAGACTGCACCTTTGATTTGATATACTAAGATGATA
195 TTCTAGAACTTGCTTCGATTATGCATGTCGAGACCGCACCTTTGATTTGA-ATACTAAGATGATA
27408948 A
259 A
27408949 TACGAGCTTG
Statistics
Matches: 2055, Mismatches: 180, Indels: 32
0.91 0.08 0.01
Matches are distributed among these distances:
657 73 0.04
658 27 0.01
659 19 0.01
660 108 0.05
661 1 0.00
662 254 0.12
663 505 0.25
664 403 0.20
665 155 0.08
666 384 0.19
667 126 0.06
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (665 bp):
AGTCAAGCATGATAAGTTATTTTTAGAATTAAAATTTTTTAGGTTGTTTCCTTGAATTGAGGTAT
TATCTTGAAGTTTTAAATTTGCAAGTTTGACATCAAAACCATGATTTTTTGTGAGATTTTGAGCC
TTTAGAGCATACATTTTCATGCTCATTCTATTATTGGTTATGAGTGTGTCAACTTGATTTGTTAT
TCTAGAACTTGCTTCGATTATGCATGTCGAGACCGCACCTTTGATTTGAATACTAAGATGATAAA
GGCACTTAGGTTTTAACCCACTTATCCCATAAAAAGCCTCCCTTTTTAATTAACCCTTAATGAAC
CCCGTTAAACCTAACATCCCGTTTCTTGATTAACCCATTAATGTTAACCATAACCCATTTTTTCG
TTGTGACTCTTCTCATTTTATTGACTCCCTTTTTGTCGATATTTGATTTCGTTAGTTGCCTAGCT
ATGCTATTCTGTTTGATTTGCTGAATTATTTCTTATTGTTCTAAATAAGAAAAAAGAAAAAAATA
TTGATTATTAATTAGTTATTTTTTGATTGAGCTTGAACAGTCAATTTCATATTTTGAGAAGAAGC
TCATTTTTGTTCTTGAATAGTTATTGATGCGCTTGTTTTTAATTTAGCATTTGTTTAATTTTGCT
AGTTTGGTAATTTCT
Found at i:27409216 original size:12 final size:12
Alignment explanation
Indices: 27409199--27409225 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
27409189 AGATAGGAAC
27409199 CGATGGTATGGT
1 CGATGGTATGGT
27409211 CGATGGTATGGT
1 CGATGGTATGGT
27409223 CGA
1 CGA
27409226 ATGCCACACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.11, G:0.41, T:0.30
Consensus pattern (12 bp):
CGATGGTATGGT
Found at i:27434476 original size:50 final size:50
Alignment explanation
Indices: 27434422--27434649 Score: 271
Period size: 50 Copynumber: 4.6 Consensus size: 50
27434412 CTGGTATGCA
* *
27434422 TAGTAGCCTGCAGTTAGTACTACACATGCGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGGTACACG
* * * *
27434472 TAGTAGCCTGCACTTAGTAATACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGGTACACG
* * * * * * * *
27434522 TAGTAGGCTGCACCTAGTACTACACACGTGATCGAAGCTATC-GAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAA-CAATCTG-GTACACG
* * *
27434573 TAGTAGCCTGCACTTAGTATTACACATGCGACCTAATAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGGTACACG
27434623 TAGTAGCCTG-ACTTAGTACTACACACG
1 TAGTAGCCTGCACTTAGTACTACACACG
27434650 TGCCCAAAAC
Statistics
Matches: 147, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
49 15 0.10
50 94 0.64
51 38 0.26
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGGTACACG
Found at i:27434677 original size:50 final size:50
Alignment explanation
Indices: 27434422--27434697 Score: 254
Period size: 50 Copynumber: 5.5 Consensus size: 50
27434412 CTGGTATGCA
* * * * * *
27434422 TAGTAGCCTGCAGTTAGTACTACACATGCGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAACTATCTGATACACG
* * *
27434472 TAGTAGCCTGCACTTAGTAATACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAACTATCTGATACACG
* * * * * *
27434522 TAGTAGGCTGCACCTAGTACTACACACGTGATCGAAGCTATC-GAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAAACTATCTGA-TACACG
* * * * *
27434573 TAGTAGCCTGCACTTAGTATTACACATGCGACCTAA-TAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAACT-ATCTGATACACG
* * * *
27434623 TAGTAGCCTG-ACTTAGTACTACACACGTGCCCAAAACTATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AAACTATCTGATACACG
*
27434673 TAGTAGCCTGTA-TATAGTACTACAC
1 TAGTAGCCTGCACT-TAGTACTACAC
27434698 GTGTTCTCAA
Statistics
Matches: 183, Mismatches: 35, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
49 19 0.10
50 114 0.62
51 50 0.27
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAAACTATCTGATACACG
Found at i:27434677 original size:151 final size:151
Alignment explanation
Indices: 27434419--27434697 Score: 416
Period size: 151 Copynumber: 1.8 Consensus size: 151
27434409 TCTCTGGTAT
*
27434419 GCATAGTAGCCTGCAGTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCTGCA
1 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCTGCA
* * * * *
27434484 CTTAGTAATACACACGTGACCTAACCATCTGATACACGTAGTAGGCTGCACCTAGTACTACACAC
66 CTTAGTAATACACACGTGACCAAACCATCTGAAACACATAGTAGCCTGCACATAGTACTACACAC
27434549 GTGATCGAAGCTATCGAGTAC
131 GTGATCGAAGCTATCGAGTAC
* *
27434570 GCATAGTAGCCTGCACTTAGTATTACACATGCGACCTAATAATCTGGTACACGTAGTAGCCTG-A
1 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCTGCA
* * * * * *
27434634 CTTAGTACTACACACGTGCCCAAAACTATCTTAAACACATAGTAGCCTGTATATAGTACTACAC
66 CTTAGTAATACACACGTGACC-AAACCATCTGAAACACATAGTAGCCTGCACATAGTACTACAC
27434698 GTGTTCTCAA
Statistics
Matches: 113, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
150 20 0.18
151 93 0.82
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (151 bp):
GCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCTGCA
CTTAGTAATACACACGTGACCAAACCATCTGAAACACATAGTAGCCTGCACATAGTACTACACAC
GTGATCGAAGCTATCGAGTAC
Found at i:27438028 original size:10 final size:10
Alignment explanation
Indices: 27438013--27438046 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
27438003 GATTTATTTT
27438013 TTATCTTTAA
1 TTATCTTTAA
27438023 TTATCTTTAA
1 TTATCTTTAA
* *
27438033 TTATATTTAT
1 TTATCTTTAA
27438043 TTAT
1 TTAT
27438047 TTGTATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:27441913 original size:35 final size:38
Alignment explanation
Indices: 27441855--27441938 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 38
27441845 CAACCCAACC
* *
27441855 TTTATTTT-TTTTACTTTTCTTAAT-TTTCATTA-TTTA
1 TTTATTTTATTTCACTTTTATTAATATTT-ATTATTTTA
27441891 -TTATTTTATTTCA-TTTTATTAATATTTATTATTTTA
1 TTTATTTTATTTCACTTTTATTAATATTTATTATTTTA
27441927 TTTCATTTTATT
1 TTT-ATTTTATT
27441939 AGTATTTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
35 20 0.49
36 11 0.27
37 2 0.05
38 8 0.20
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (38 bp):
TTTATTTTATTTCACTTTTATTAATATTTATTATTTTA
Found at i:27441916 original size:28 final size:28
Alignment explanation
Indices: 27441885--27441953 Score: 129
Period size: 28 Copynumber: 2.5 Consensus size: 28
27441875 TAATTTTCAT
27441885 TATTTATTATTTTATTTCATTTTATTAA
1 TATTTATTATTTTATTTCATTTTATTAA
*
27441913 TATTTATTATTTTATTTCATTTTATTAG
1 TATTTATTATTTTATTTCATTTTATTAA
27441941 TATTTATTATTTT
1 TATTTATTATTTT
27441954 GTTTTATTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (28 bp):
TATTTATTATTTTATTTCATTTTATTAA
Found at i:27441959 original size:13 final size:13
Alignment explanation
Indices: 27441915--27441965 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
27441905 TTTATTAATA
*
27441915 TTTATTATTTTAT
1 TTTATTATTTTGT
*
27441928 TTCATT-TTATTAGT
1 TTTATTATT-TT-GT
27441942 ATTTATTATTTTGT
1 -TTTATTATTTTGT
27441956 TTTATTATTT
1 TTTATTATTT
27441966 ATTATTTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
12 2 0.06
13 17 0.55
14 3 0.10
15 7 0.23
16 2 0.06
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.73
Consensus pattern (13 bp):
TTTATTATTTTGT
Found at i:27441971 original size:10 final size:10
Alignment explanation
Indices: 27441883--27441971 Score: 57
Period size: 10 Copynumber: 9.3 Consensus size: 10
27441873 CTTAATTTTC
27441883 ATTATTTATT
1 ATTATTTATT
27441893 A-T-TTTATT
1 ATTATTTATT
*
27441901 -TCATTTTATT
1 ATTA-TTTATT
*
27441911 AATATTTATT
1 ATTATTTATT
27441921 A-T-TTTATT
1 ATTATTTATT
*
27441929 -TCATTTTATT
1 ATTA-TTTATT
*
27441939 AGTATTTATT
1 ATTATTTATT
*
27441949 ATT-TTGTTTT
1 ATTATT-TATT
27441959 ATTATTTATT
1 ATTATTTATT
27441969 ATT
1 ATT
27441972 TTGTTTTGGT
Statistics
Matches: 60, Mismatches: 9, Indels: 20
0.67 0.10 0.22
Matches are distributed among these distances:
8 12 0.20
9 4 0.07
10 40 0.67
11 4 0.07
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTATTTATT
Found at i:27441974 original size:20 final size:20
Alignment explanation
Indices: 27441941--27441978 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
27441931 ATTTTATTAG
27441941 TATTTATTATTTTGTTTTAT
1 TATTTATTATTTTGTTTTAT
27441961 TATTTATTATTTTGTTTT
1 TATTTATTATTTTGTTTT
27441979 GGTTATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (20 bp):
TATTTATTATTTTGTTTTAT
Found at i:27444033 original size:10 final size:10
Alignment explanation
Indices: 27444018--27444065 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
27444008 ATTTGTTTTT
27444018 TTATCTTTAA
1 TTATCTTTAA
27444028 TTATCTTTAA
1 TTATCTTTAA
* *
27444038 TTAACTTTAT
1 TTATCTTTAA
*
27444048 TTAT-TTGTAT
1 TTATCTT-TAA
27444058 TTATCTTT
1 TTATCTTT
27444066 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 2 0.06
10 29 0.88
11 2 0.06
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:27459412 original size:50 final size:50
Alignment explanation
Indices: 27459321--27459514 Score: 237
Period size: 50 Copynumber: 3.9 Consensus size: 50
27459311 ACCGAAGCTC
* *
27459321 TCTGGTACGCATAGTAGCCTGCACTTAG-ACTACACATGTGACCGAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAACAA
* * * *
27459370 TTTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAACAA
* * * * * * *
27459420 TCTGATACACGTAGTAGCCTTCACTCAGTACTACACATGTGATCGAAGCTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-CAA
* *
27459471 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
27459515 TAAAATCGTC
Statistics
Matches: 121, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
49 25 0.21
50 58 0.48
51 38 0.31
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAACAA
Found at i:27459489 original size:101 final size:99
Alignment explanation
Indices: 27459332--27459517 Score: 282
Period size: 101 Copynumber: 1.9 Consensus size: 99
27459322 CTGGTACGCA
* ** *
27459332 TAGTAGCCTGCACTTAGACTACACATGTGACCGAACAATTTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTCAGACTACACATGTGACCGAACAATCGGGTACACATAGTAGCCTGCACTTA
27459397 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGTGACCTAACCATCTGATACACG
* * * *
27459431 TAGTAGCCTTCACTCAGTACTACACATGTGATCGAAGCTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTCAG-ACTACACATGTGACCGAA-CAATCGGGTACACATAGTAGCCTGCACT
27459496 TAGTACTACACACGTGACCTAA
64 TAGTACTACACACGTGACCTAA
27459518 AATCGTCTTA
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
99 15 0.19
100 17 0.22
101 45 0.58
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTCAGACTACACATGTGACCGAACAATCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGTGACCTAACCATCTGATACACG
Found at i:27461771 original size:21 final size:21
Alignment explanation
Indices: 27461730--27461772 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
27461720 GGCAACCGAA
* *
27461730 TCATGCTATTTCATATACATT
1 TCATGCCATTTCATAAACATT
27461751 TCATGCCATTT-ATAAACCATT
1 TCATGCCATTTCATAAA-CATT
27461772 T
1 T
27461773 ATTCAACCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (21 bp):
TCATGCCATTTCATAAACATT
Found at i:27462063 original size:27 final size:27
Alignment explanation
Indices: 27462031--27462086 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
27462021 AGGCAACTAT
27462031 TACCACATATATCACTTATCAAACTCA
1 TACCACATATATCACTTATCAAACTCA
27462058 TACCACATATATCACTTATCAAACTCA
1 TACCACATATATCACTTATCAAACTCA
27462085 TA
1 TA
27462087 AATCAAGCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.29, G:0.00, T:0.30
Consensus pattern (27 bp):
TACCACATATATCACTTATCAAACTCA
Found at i:27465440 original size:43 final size:42
Alignment explanation
Indices: 27465393--27465542 Score: 165
Period size: 43 Copynumber: 3.5 Consensus size: 42
27465383 TATCCCAGAT
*
27465393 ATGGTCTTACATGTTATCACACATCGATGCCAATGTCCCAAAC
1 ATGGTCTTACATGTAATCACA-ATCGATGCCAATGTCCCAAAC
*** * * * *
27465436 ATGGTCTTACACAAAATCATATAACGATGACAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACA-ATCGATGCCAATGTCCCAAAC
* * * *
27465479 ATGATCTTACATGTAACCACAATACAATGCCAATGTCCCGAAC
1 ATGGTCTTACATGTAATCACAAT-CGATGCCAATGTCCCAAAC
27465522 ATGGTCTTACATGTAATCACA
1 ATGGTCTTACATGTAATCACA
27465543 TCTCGGTAAT
Statistics
Matches: 84, Mismatches: 22, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
42 1 0.01
43 83 0.99
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.26
Consensus pattern (42 bp):
ATGGTCTTACATGTAATCACAATCGATGCCAATGTCCCAAAC
Found at i:27475121 original size:55 final size:55
Alignment explanation
Indices: 27475055--27475158 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
27475045 ATTCAATGTC
27475055 ACATGTGAATTCATTAAATACTTCCCTTTTTAATACTCGTATGAATCTCATACAT
1 ACATGTGAATTCATTAAATACTTCCCTTTTTAATACTCGTATGAATCTCATACAT
27475110 ACATGTGAATTCATTAAATACTTCCCTTTTTAATACTCGTATGAATCTC
1 ACATGTGAATTCATTAAATACTTCCCTTTTTAATACTCGTATGAATCTC
27475159 GTACGTACCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (55 bp):
ACATGTGAATTCATTAAATACTTCCCTTTTTAATACTCGTATGAATCTCATACAT
Found at i:27477867 original size:20 final size:21
Alignment explanation
Indices: 27477834--27477876 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
27477824 TTTACCTCAA
*
27477834 TTTTCTCACCTTTTCCTTTCT
1 TTTTCTCACATTTTCCTTTCT
*
27477855 TTTTCTCA-ATTTTCTTTTCT
1 TTTTCTCACATTTTCCTTTCT
27477875 TT
1 TT
27477877 GTCTTTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.07, C:0.26, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTCTCACATTTTCCTTTCT
Found at i:27488014 original size:71 final size:71
Alignment explanation
Indices: 27487928--27488091 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
27487918 CGATTTGTCT
27487928 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
27487993 CTTTCA
66 CTTTCA
27487999 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
27488064 CTTTCA
66 CTTTCA
27488070 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
27488092 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:27488129 original size:71 final size:70
Alignment explanation
Indices: 27487928--27488125 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
27487918 CGATTTGTCT
* * * *
27487928 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
27487993 CTTTCA
65 CTTTCA
* * * *
27487999 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
27488064 CTTTCA
65 CTTTCA
* *
27488070 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
27488126 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:27495124 original size:71 final size:71
Alignment explanation
Indices: 27495038--27495201 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
27495028 CGATTTGTCT
27495038 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
27495103 CTTTCA
66 CTTTCA
27495109 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
27495174 CTTTCA
66 CTTTCA
27495180 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
27495202 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:27495239 original size:71 final size:70
Alignment explanation
Indices: 27495038--27495235 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
27495028 CGATTTGTCT
* * * *
27495038 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
27495103 CTTTCA
65 CTTTCA
* * * *
27495109 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
27495174 CTTTCA
65 CTTTCA
* *
27495180 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
27495236 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:27496221 original size:14 final size:13
Alignment explanation
Indices: 27496201--27496232 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
27496191 AATATTTAAC
27496201 TTGTTCTTAATTA
1 TTGTTCTTAATTA
27496214 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
27496228 TTGTT
1 TTGTT
27496233 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:27497599 original size:21 final size:22
Alignment explanation
Indices: 27497573--27497613 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
27497563 ACACACACTC
27497573 AACTTAATTGAGCT-ATTAATG
1 AACTTAATTGAGCTAATTAATG
27497594 AACTTAATTGAGCTAATTAA
1 AACTTAATTGAGCTAATTAA
27497614 AAACTACAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (22 bp):
AACTTAATTGAGCTAATTAATG
Found at i:27497618 original size:21 final size:21
Alignment explanation
Indices: 27497573--27497618 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
27497563 ACACACACTC
*
27497573 AACTTAATTGAGCTATTAATG
1 AACTTAATTGAGCTATTAATA
27497594 AACTTAATTGAGCTAATTAA-A
1 AACTTAATTGAGCT-ATTAATA
27497615 AACT
1 AACT
27497619 ACAAGACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (21 bp):
AACTTAATTGAGCTATTAATA
Found at i:27498245 original size:40 final size:40
Alignment explanation
Indices: 27498178--27498286 Score: 157
Period size: 40 Copynumber: 2.8 Consensus size: 40
27498168 TTCAGTGGCA
* *
27498178 TTAGCGGCGCTTTTTAAAAAACACCGCTAATGCTCGATCT
1 TTAGCGGCGCTTTTTAACAAACGCCGCTAATGCTCGATCT
*
27498218 TTAGTGGCGCTTTTTAACAAACGCCGCTAATGCTCGATCT
1 TTAGCGGCGCTTTTTAACAAACGCCGCTAATGCTCGATCT
** *
27498258 TTAGCAACGC-TTTGAACAAACGCCGCTAA
1 TTAGCGGCGCTTTTTAACAAACGCCGCTAA
27498287 AAATTTTGCA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 18 0.29
40 44 0.71
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (40 bp):
TTAGCGGCGCTTTTTAACAAACGCCGCTAATGCTCGATCT
Found at i:27498881 original size:15 final size:15
Alignment explanation
Indices: 27498863--27498894 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
27498853 TAAGGTTTAT
27498863 GGATTATGGGTTCAG
1 GGATTATGGGTTCAG
27498878 GGATTATGGGTTCAG
1 GGATTATGGGTTCAG
27498893 GG
1 GG
27498895 TTGGGGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.44, T:0.31
Consensus pattern (15 bp):
GGATTATGGGTTCAG
Found at i:27498903 original size:21 final size:22
Alignment explanation
Indices: 27498877--27498936 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
27498867 TATGGGTTCA
* *
27498877 GGGATTATGGGTTCAGGGTT-G
1 GGGATTAAGGGTTAAGGGTTAG
*
27498898 GGGATTAAGGTTTAAGGGTTAG
1 GGGATTAAGGGTTAAGGGTTAG
*
27498920 GGG-TTAGGGGTCTAAGG
1 GGGATTAAGGGT-TAAGG
27498937 TTAAGTGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 23 0.72
22 9 0.28
ACGTcount: A:0.20, C:0.03, G:0.47, T:0.30
Consensus pattern (22 bp):
GGGATTAAGGGTTAAGGGTTAG
Found at i:27502056 original size:23 final size:23
Alignment explanation
Indices: 27502026--27502295 Score: 152
Period size: 23 Copynumber: 12.0 Consensus size: 23
27502016 TGGCTACTGT
*
27502026 TGTTTAAATGCTGCAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
27502049 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
*
27502072 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
*
27502095 TGTCT--A----G-AAATTGAGA-
1 TGTTTAAATGCTGTAAATTGA-AG
* ** *
27502111 TGTTTTATCGCTGTA-ATTGAAT
1 TGTTTAAATGCTGTAAATTGAAG
* * * * *
27502133 TATATAAAAGTTGTTAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
*
27502155 ATG-TTAAAGTGCTGCAAATTGAAG
1 -TGTTTAAA-TGCTGTAAATTGAAG
**
27502179 TGTTTAAACACTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* * *
27502202 TGCTTAAATGTTGTAAATTAAAG
1 TGTTTAAATGCTGTAAATTGAAG
* * *
27502225 TGTTTTAAGTACTGCAAATTGAAG
1 TG-TTTAAATGCTGTAAATTGAAG
* ** *
27502249 AGTTTAGTTGCTGGAAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
* *
27502271 ATGTTT-TATCGCTGCAAATTGAAG
1 -TGTTTAAAT-GCTGTAAATTGAAG
27502295 T
1 T
27502296 ACTTAGTTGC
Statistics
Matches: 187, Mismatches: 42, Indels: 36
0.71 0.16 0.14
Matches are distributed among these distances:
16 11 0.06
17 2 0.01
21 2 0.01
22 22 0.12
23 125 0.67
24 25 0.13
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.38
Consensus pattern (23 bp):
TGTTTAAATGCTGTAAATTGAAG
Found at i:27502307 original size:23 final size:23
Alignment explanation
Indices: 27502236--27502307 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 23
27502226 GTTTTAAGTA
27502236 CTGCAAATTGAAG-AGTTTAGTTG
1 CTGCAAATTGAAGTA-TTTAGTTG
* *
27502259 CTGGAAATTGAGATGT-TTTA-TCG
1 CTGCAAATTGA-A-GTATTTAGTTG
*
27502282 CTGCAAATTGAAGTACTTAGTTG
1 CTGCAAATTGAAGTATTTAGTTG
27502305 CTG
1 CTG
27502308 GAAAAGAGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
21 2 0.05
22 4 0.10
23 27 0.69
24 5 0.13
25 1 0.03
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (23 bp):
CTGCAAATTGAAGTATTTAGTTG
Found at i:27502753 original size:19 final size:19
Alignment explanation
Indices: 27502730--27502776 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
27502720 ATTTAATCTA
*
27502730 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
27502748 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
27502768 ATTTTTATT
1 ATTTTTATT
27502777 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:27502778 original size:31 final size:30
Alignment explanation
Indices: 27502697--27502788 Score: 100
Period size: 31 Copynumber: 3.0 Consensus size: 30
27502687 AAAAGACTTG
*
27502697 CTATA-TTTTATTTATATCTTTATATTTAAT
1 CTATATTTTTATTTTTAT-TTTATATTTAAT
*
27502727 CTA-ATTTTTATTATTTATTTTAGT-TTTGATT
1 CTATATTTTTATT-TTTATTTTA-TATTT-AAT
27502758 CTATATTTTTATTTTTATTTTAATATTTAAT
1 CTATATTTTTATTTTTATTTT-ATATTTAAT
27502789 AACTTGAGTT
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
29 1 0.02
30 17 0.33
31 21 0.40
32 13 0.25
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.66
Consensus pattern (30 bp):
CTATATTTTTATTTTTATTTTATATTTAAT
Found at i:27502916 original size:23 final size:23
Alignment explanation
Indices: 27502886--27502932 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
27502876 GTTTTAAAGT
27502886 TAAATTTTTCATAGAAAATTTAA
1 TAAATTTTTCATAGAAAATTTAA
27502909 TAAATTTTTCATAGAAAATTTAA
1 TAAATTTTTCATAGAAAATTTAA
27502932 T
1 T
27502933 TTGATAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (23 bp):
TAAATTTTTCATAGAAAATTTAA
Found at i:27502957 original size:11 final size:11
Alignment explanation
Indices: 27502937--27502965 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
27502927 TTTAATTTGA
27502937 TAAT-GAATTT
1 TAATAGAATTT
27502947 TAATAGAATTT
1 TAATAGAATTT
27502958 TAATAGAA
1 TAATAGAA
27502966 AATTTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.41
Consensus pattern (11 bp):
TAATAGAATTT
Found at i:27504932 original size:668 final size:667
Alignment explanation
Indices: 27503532--27505278 Score: 2688
Period size: 668 Copynumber: 2.6 Consensus size: 667
27503522 GGATCGCATC
* *
27503532 AGATGATAAAGACACTTAGGTTTTAACCCCCTTATCCCATAAAAAGCCTCCCTTTTTAATTAACC
1 AGATGATAAAGGCACTTAGGTTTTAACCCACTTATCCCATAAAAAGCCTCCCTTTTTAATTAACC
*
27503597 CTTAGTG-AACGCCGTTAAACCTAACATCCTGTTTCTTGATTAACCCATTAATGTTAACCATAAC
66 CTTAGTGAAAC-CCGTTAAACCTAACATCCCGTTTCTTGATTAACCCATTAATGTTAACCATAAC
* * * * *
27503661 CCA-TTTTTTTAGTTGTGACTCATCTCGTTTTATTGACTCCCTTTTTGTCGACATTTGATTTTGT
130 CCATTTTTTTTCGTTGTGACTCTTCTCGTTTTATTGACTCCTTTTTTGTCGATATTTGATTTGGT
* * *
27503725 TAGTTGCCTAACTATGCTCTTTTGTTTGATTTGCTGAATTATTTCTTATTGCTCTAAATAAG---
195 TAGTTGCCTAACTATGCTCTTATGTTTGATTTGCTGAATTATTTCTTATTGTTCTAGATAAGAAA
* * * * *
27503787 AA-AAAAAATATCGATTATCAATTAGTTATTTGTTAATCGAGCTTGAATAGTCAATTTCATATTC
260 AAGAAAAAATATTGATTATTAATTAGTTATTTGTTGATTGAGCTTGAATAGTCAATTTCATATTT
* * **
27503851 TGAGAAGAAGCTCTTTTTTGTTCTTCAATAGTTATCAATGCGCTTGTTTTTAATTCAACATTTGT
325 TGAGAAGAAGCTCATTTTTGTTCTTGAATAGTTATTGATGCGCTTGTTTTTAATTCAACATTTGT
*
27503916 TTAATTTTGCTAGTTTGGTAATTTCTAGTCAAACATGATAAGTTATTTTTAAAATTAAAATTTTT
390 TTAATTTTTCTAGTTTGGTAATTTCTAGTCAAACATGATAAGTTATTTTTAAAATTAAAATTTTT
* * * *
27503981 TAGGTTGTTTCCTTGAATTGAGGTATTATCTTGAAGTTTTAAATTTGCAAGTTTGACATTAAAAC
455 TAGGCTGTTTCCCTAAATTGAGGTATTATCTTGAAGTTTTAAATTTGCAAGTTTGACATCAAAAC
27504046 CATGATTTTTTTGTGAGATTTTAAGCCTTTAGGGCATACATTTTCATGCTCATTTTATCGTTGGT
520 CATGATTTTTTTGTGAGATTTTAAGCCTTTAGGGCATACATTTTCATGCTCATTTTATCGTTGGT
27504111 TATATGTGTGTCAACTTGACTTGTTATTCTAGAACTTACTTCGATTATGCATGTCGAGACCACAC
585 TATATGTGTGTCAACTTGACTTGTTATTCTAGAACTTACTTCGATTATGCATGTCGAGACCACAC
*
27504176 CTTTGATTTGGTATACTA
650 CTTTGATTTGATATACTA
* *
27504194 AGATGATAAAGGCACTTAGGTTTTAACCCACTTATCCCGT-AAAAGCCTCCCTTTTTATTTAACC
1 AGATGATAAAGGCACTTAGGTTTTAACCCACTTATCCCATAAAAAGCCTCCCTTTTTAATTAACC
* *
27504258 CTTAGTGAAACCCATTAAACCTAACATCCCGTTTCTTGATTAACCCGTTAATG-TAACCATAACC
66 CTTAGTGAAACCCGTTAAACCTAACATCCCGTTTCTTGATTAACCCATTAATGTTAACCATAACC
* * *
27504322 CATTTTTTTTTCGTTGTGACTCTTCTCATTTTATTGACTCATTTTTTGTTGATATTTGATTTGGT
131 CA-TTTTTTTTCGTTGTGACTCTTCTCGTTTTATTGACTCCTTTTTTGTCGATATTTGATTTGGT
** * * *
27504387 TAGTTGCCTAGTTATACTCTTATGTTTGATTTGCTAAATTATTTCTTATTGTTATAGATAAGAAA
195 TAGTTGCCTAACTATGCTCTTATGTTTGATTTGCTGAATTATTTCTTATTGTTCTAGATAAGAAA
* *
27504452 AATGAAAATAATATTGATTATTAATTAGTAATTTGTTGATTGAGCTTGAACAGTCAATTTCATAT
260 AA-GAAAA-AATATTGATTATTAATTAGTTATTTGTTGATTGAGCTTGAATAGTCAATTTCATAT
27504517 TTTGAGAAGAAGCTCATTTTTGTTCTTGAATAGTTATTGATGCGCTTGTTTTTAATTCAACATTT
323 TTTGAGAAGAAGCTCATTTTTGTTCTTGAATAGTTATTGATGCGCTTGTTTTTAATTCAACATTT
* * *
27504582 GTTTAATTTTTCTAGTTTGATAATTTCTAGTCAAACATGCTAAGTTATTTTTAGAATTAAAATTT
388 GTTTAATTTTTCTAGTTTGGTAATTTCTAGTCAAACATGATAAGTTATTTTTAAAATTAAAATTT
*
27504647 TTTAGGCTGTTTCCCTAAATTGAGGTATTATCTTGAAGTTTTAAATTTGTAAGTTTGACATCAAA
453 TTTAGGCTGTTTCCCTAAATTGAGGTATTATCTTGAAGTTTTAAATTTGCAAGTTTGACATCAAA
* *
27504712 ACCATGA-TTTTTTGTGAGATTTTAAGCCTTTAGGGCATACATTTTCATGCTCATTTTGTTGTTG
518 ACCATGATTTTTTTGTGAGATTTTAAGCCTTTAGGGCATACATTTTCATGCTCATTTTATCGTTG
* * * *
27504776 GTTTTGA-GTGTGTCAACTTGATTTGTTATTTTAGAACTTATTTCGATTATGCATGTCGAGACCA
583 GTTAT-ATGTGTGTCAACTTGACTTGTTATTCTAGAACTTACTTCGATTATGCATGTCGAGACCA
27504840 CACCTTTGATTTGATATACTA
647 CACCTTTGATTTGATATACTA
* * *
27504861 AGATGATAAAGGCACTTAGGTTTTAACACACTTATCTCATAAAAAGGCTCCCTTTTTAATTAACC
1 AGATGATAAAGGCACTTAGGTTTTAACCCACTTATCCCATAAAAAGCCTCCCTTTTTAATTAACC
* * *
27504926 CTTAGTGAACCCCGTTAAACCAAACATCCCGTTTCTTGATTATCCCATTAATGTTAACCATAACC
66 CTTAGTGAAACCCGTTAAACCTAACATCCCGTTTCTTGATTAACCCATTAATGTTAACCATAACC
* * *
27504991 CATTTTTTTTCGTTGTGACTCTTCTTGTTTTATTGACTCCTTTTTTGTCAATATTTGATTTGATT
131 CATTTTTTTTCGTTGTGACTCTTCTCGTTTTATTGACTCCTTTTTTGTCGATATTTGATTTGGTT
* * ** *
27505056 AGTTGCCTAACTATGCTCTTCTATTTGATTTGCTGAATTATTTCTTATAATTCTAGATAAAAAAA
196 AGTTGCCTAACTATGCTCTTATGTTTGATTTGCTGAATTATTTCTTATTGTTCTAGATAAGAAAA
* *
27505121 GAGAAAACAAAAATATTGATTATTAATTAGTTATTTGTTGATTGAGTTTGGATAGTCAATTTCAT
261 -AG---A-AAAAATATTGATTATTAATTAGTTATTTGTTGATTGAGCTTGAATAGTCAATTTCAT
* * *
27505186 ATTTTGAGAAGAAGCTCGTTTTTTTTCTTGAATAGTTATTGATGCG-TGGATTTTTAATTCAACA
321 ATTTTGAGAAGAAGCTCATTTTTGTTCTTGAATAGTTATTGATGCGCTTG-TTTTTAATTCAACA
*
27505250 TTTGTTTAATGTTTCTAGTTTGGTAATTT
385 TTTGTTTAATTTTTCTAGTTTGGTAATTT
27505279 ATCAACTCAA
Statistics
Matches: 982, Mismatches: 85, Indels: 27
0.90 0.08 0.02
Matches are distributed among these distances:
660 13 0.01
661 69 0.07
662 147 0.15
665 2 0.00
667 174 0.18
668 422 0.43
669 14 0.01
670 2 0.00
671 136 0.14
672 3 0.00
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.44
Consensus pattern (667 bp):
AGATGATAAAGGCACTTAGGTTTTAACCCACTTATCCCATAAAAAGCCTCCCTTTTTAATTAACC
CTTAGTGAAACCCGTTAAACCTAACATCCCGTTTCTTGATTAACCCATTAATGTTAACCATAACC
CATTTTTTTTCGTTGTGACTCTTCTCGTTTTATTGACTCCTTTTTTGTCGATATTTGATTTGGTT
AGTTGCCTAACTATGCTCTTATGTTTGATTTGCTGAATTATTTCTTATTGTTCTAGATAAGAAAA
AGAAAAAATATTGATTATTAATTAGTTATTTGTTGATTGAGCTTGAATAGTCAATTTCATATTTT
GAGAAGAAGCTCATTTTTGTTCTTGAATAGTTATTGATGCGCTTGTTTTTAATTCAACATTTGTT
TAATTTTTCTAGTTTGGTAATTTCTAGTCAAACATGATAAGTTATTTTTAAAATTAAAATTTTTT
AGGCTGTTTCCCTAAATTGAGGTATTATCTTGAAGTTTTAAATTTGCAAGTTTGACATCAAAACC
ATGATTTTTTTGTGAGATTTTAAGCCTTTAGGGCATACATTTTCATGCTCATTTTATCGTTGGTT
ATATGTGTGTCAACTTGACTTGTTATTCTAGAACTTACTTCGATTATGCATGTCGAGACCACACC
TTTGATTTGATATACTA
Found at i:27509018 original size:24 final size:25
Alignment explanation
Indices: 27508991--27509038 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
27508981 AACATTAACA
*
27508991 ATTTTTTTTGTT-AATTTGATCATT
1 ATTTTTTTAGTTAAATTTGATCATT
*
27509015 ATTTTTTTAGTTAAATTTGGTCAT
1 ATTTTTTTAGTTAAATTTGATCAT
27509039 CAACCTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.23, C:0.04, G:0.10, T:0.62
Consensus pattern (25 bp):
ATTTTTTTAGTTAAATTTGATCATT
Found at i:27509220 original size:21 final size:22
Alignment explanation
Indices: 27509191--27509231 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
27509181 GTCAATAAAT
*
27509191 AATTTAAAAATT-ATAAAAAAA
1 AATTAAAAAATTCATAAAAAAA
*
27509212 AATTAAAAAGTTCATAAAAA
1 AATTAAAAAATTCATAAAAA
27509232 TTAAGAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (22 bp):
AATTAAAAAATTCATAAAAAAA
Found at i:27514359 original size:39 final size:39
Alignment explanation
Indices: 27514316--27514482 Score: 210
Period size: 39 Copynumber: 4.3 Consensus size: 39
27514306 TCTTTAACCT
** * *
27514316 GGATATTTTTCCAGCACGTAGCCTGTGGACCTCAAGTCC
1 GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCC
* * * *
27514355 GGATATATTTCTAGCATATAGCCTGTGGATCTCATGTCC
1 GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCC
* * *
27514394 GGATATATTTCTAGCATATAGCCTGCGGATCTCATGTCC
1 GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCC
*
27514433 AGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT-C
1 GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCC
27514471 GGATATATTTTC
1 GGATAT-TTTTC
27514483 AATCTCATAC
Statistics
Matches: 115, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 6 0.05
39 109 0.95
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (39 bp):
GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCC
Found at i:27517733 original size:22 final size:22
Alignment explanation
Indices: 27517705--27517767 Score: 85
Period size: 20 Copynumber: 3.0 Consensus size: 22
27517695 CCTTTAGTCG
*
27517705 TCCTGTCTATGGCATTGAGCCA
1 TCCTGTCTACGGCATTGAGCCA
* *
27517727 TCCTGTCTACGG--TTGAGTCG
1 TCCTGTCTACGGCATTGAGCCA
27517747 TCCTGTCTACGGCATTGAGCC
1 TCCTGTCTACGGCATTGAGCC
27517768 GTCTTGTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 18 0.51
22 17 0.49
ACGTcount: A:0.14, C:0.29, G:0.25, T:0.32
Consensus pattern (22 bp):
TCCTGTCTACGGCATTGAGCCA
Found at i:27517770 original size:22 final size:22
Alignment explanation
Indices: 27517703--27517770 Score: 95
Period size: 22 Copynumber: 3.2 Consensus size: 22
27517693 AGCCTTTAGT
*
27517703 CGTCCTGTCTATGGCATTGAGC
1 CGTCCTGTCTACGGCATTGAGC
* *
27517725 CATCCTGTCTACGG--TTGAGT
1 CGTCCTGTCTACGGCATTGAGC
27517745 CGTCCTGTCTACGGCATTGAGC
1 CGTCCTGTCTACGGCATTGAGC
27517767 CGTC
1 CGTC
27517771 TTGTTGACTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
20 18 0.46
22 21 0.54
ACGTcount: A:0.13, C:0.29, G:0.26, T:0.31
Consensus pattern (22 bp):
CGTCCTGTCTACGGCATTGAGC
Found at i:27521272 original size:18 final size:20
Alignment explanation
Indices: 27521236--27521282 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
27521226 AGTTGTAAGT
27521236 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
27521256 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
27521275 ATGATATA
1 AT-ATATA
27521283 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:27523493 original size:40 final size:40
Alignment explanation
Indices: 27523427--27523593 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
27523417 AAATTGAATG
* * *
27523427 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
27523466 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
27523506 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
27523546 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
27523586 ATATCCGG
1 ATATCCGG
27523594 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:27531505 original size:40 final size:40
Alignment explanation
Indices: 27531439--27531589 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
27531429 AAATTGAATG
* * *
27531439 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
27531478 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
27531518 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
27531558 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
27531590 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:27536677 original size:28 final size:29
Alignment explanation
Indices: 27536586--27536683 Score: 159
Period size: 28 Copynumber: 3.5 Consensus size: 29
27536576 ACAGTAAGTC
27536586 CGCACACTTAGTGCT-TA-ATATTCAAAC-
1 CGCACACTTAGTGCTATACA-ATTCAAACT
27536613 CGCACACTTAGTGCTATACAATTCAAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
27536642 CGCACACTTAGTGCTATACAATT-AAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
27536670 CGCACACTTAGTGC
1 CGCACACTTAGTGC
27536684 CAATCTCATT
Statistics
Matches: 68, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
27 15 0.22
28 29 0.43
29 24 0.35
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAATTCAAACT
Found at i:27544404 original size:28 final size:29
Alignment explanation
Indices: 27544313--27544410 Score: 159
Period size: 28 Copynumber: 3.5 Consensus size: 29
27544303 ACAGTAAGTC
27544313 CGCACACTTAGTGCT-TA-ATATTCAAAC-
1 CGCACACTTAGTGCTATACA-ATTCAAACT
27544340 CGCACACTTAGTGCTATACAATTCAAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
27544369 CGCACACTTAGTGCTATACAATT-AAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
27544397 CGCACACTTAGTGC
1 CGCACACTTAGTGC
27544411 CAATCTCATT
Statistics
Matches: 68, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
27 15 0.22
28 29 0.43
29 24 0.35
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAATTCAAACT
Found at i:27550054 original size:46 final size:45
Alignment explanation
Indices: 27549939--27550055 Score: 146
Period size: 46 Copynumber: 2.6 Consensus size: 45
27549929 AGGCTGATGT
* * * *
27549939 ATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAATGTCGATGC
1 ATGTCCTAGACATGTCTTACACTGGCTCTCATATC-ATGTCAATGC
**
27549985 ATGTCCCGGACATGTCTTACACTGGCTCTCATAATC-TGGTCAATGC
1 ATGTCCTAGACATGTCTTACACTGGCTCTCAT-ATCAT-GTCAATGC
27550031 ATGTCCTAGACATGTCTTACACTGG
1 ATGTCCTAGACATGTCTTACACTGG
27550056 TACACATACC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 1 0.02
46 58 0.95
47 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (45 bp):
ATGTCCTAGACATGTCTTACACTGGCTCTCATATCATGTCAATGC
Found at i:27552825 original size:92 final size:93
Alignment explanation
Indices: 27552715--27552915 Score: 341
Period size: 92 Copynumber: 2.2 Consensus size: 93
27552705 TGAGACTTAC
* *
27552715 CCTGGACTGGTAATCCTAATTGACTGGATTTAGCTTGGACTGGTAATCCAGATATGACTCTATAG
1 CCTGGACTGGTAATCCTAATTGACTGGATTTAGCCTGGACTGGTAATCCAGATATGACGCTATAG
*
27552780 G-GATTCTTTGTCTTATAAAGGATTTAG
66 GTAATTCTTTGTCTTATAAAGGATTTAG
* *
27552807 CCTGGACTGGTAATCCTAATTGACTGGATTTAGCCTGGATTGGTAATCCATATATGACGCTATAG
1 CCTGGACTGGTAATCCTAATTGACTGGATTTAGCCTGGACTGGTAATCCAGATATGACGCTATAG
27552872 GTAATTCTTTGTCTTATAAAGGATTTAG
66 GTAATTCTTTGTCTTATAAAGGATTTAG
*
27552900 CCTGGACTAGTAATCC
1 CCTGGACTGGTAATCC
27552916 GACAAAGCCC
Statistics
Matches: 102, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
92 62 0.61
93 40 0.39
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.35
Consensus pattern (93 bp):
CCTGGACTGGTAATCCTAATTGACTGGATTTAGCCTGGACTGGTAATCCAGATATGACGCTATAG
GTAATTCTTTGTCTTATAAAGGATTTAG
Found at i:27556381 original size:18 final size:19
Alignment explanation
Indices: 27556338--27556383 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
27556328 GGTTTTCTCC
*
27556338 AAAATGAAAATGACAATTGT
1 AAAATGAAAATGA-AATTGA
*
27556358 AAAATGAAAATG-ATTTGA
1 AAAATGAAAATGAAATTGA
27556376 AAAATGAA
1 AAAATGAA
27556384 TTTATGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.50
20 12 0.50
ACGTcount: A:0.59, C:0.02, G:0.15, T:0.24
Consensus pattern (19 bp):
AAAATGAAAATGAAATTGA
Found at i:27557081 original size:272 final size:272
Alignment explanation
Indices: 27556589--27557140 Score: 784
Period size: 272 Copynumber: 2.0 Consensus size: 272
27556579 ATAGAAAAAT
* *
27556589 AAATATTGGGTTGGATCAAATTATAAAGTATTGGATTAAAAGCCAAAGAATTACTTGTAACCAGG
1 AAATATTGGGTTGGATCAAATTATAAAGTATTGGATTAAAAGCCAAAGAAGTACTTGTAACCAGA
* * *
27556654 CCCGATAGGGAAGAGGCCTAAAAGTCCATTATGTTATAAGGTGGGATAACAAATCATAGTATCAT
66 CCCGATAGGGAAGAAGCCTAAAAGCCCATTATGTTATAAGGTGGGACAACAAATCATAGTATCAT
* ** *
27556719 TAACTAAAGTTGTTGCCGCCTACATCCTAGTTGAACTAAGGTTTCACTATTCTAGTTAAAATGAA
131 TAACTAAAGTTGTCGCCGCCTACATCCTAGTTGAACTAACATTTCACTATTCTAGTTAAAATAAA
27556784 CTCCTATAATTAAACAAAAGTTCTACATTCTCTCCTTAAAAATAGATGGCACCAGAAAGGCTATT
196 CTCCTATAATTAAACAAAAGTTCTACATTCTCTCCTTAAAAATAGATGGCACCAGAAAGGCTATT
27556849 TACACAACTTTA
261 TACACAACTTTA
* * **
27556861 AAATATTGGGTTGGATCAAATTATAAAGTATTGGATTGAAAGACC-GAGAAGTACTTGTAATTAG
1 AAATATTGGGTTGGATCAAATTATAAAGTATTGGATTAAAAG-CCAAAGAAGTACTTGTAACCAG
** * *
27556925 ACTTGATAGGGAATAAGCCTAAAAGCCCCTTATGTTATAAGGTGGGACAACAAATCATAGTATCA
65 ACCCGATAGGGAAGAAGCCTAAAAGCCCATTATGTTATAAGGTGGGACAACAAATCATAGTATCA
* * * *** *
27556990 TTAACTAAGGTTGTCG-CTCCTACATCGTAGTTGAACTAACATTTTGTTTTTCTAGTTAAAATAA
130 TTAACTAAAGTTGTCGCCGCCTACATCCTAGTTGAACTAACATTTCACTATTCTAGTTAAAATAA
** * ** * * *
27557054 ACTTTTTATAATTAAATAAGGGTTCTACATTCTCTCCTTATAAATAGATGGCACCAGCAGGGCTA
195 AC-TCCTATAATTAAACAAAAGTTCTACATTCTCTCCTTAAAAATAGATGGCACCAGAAAGGCTA
27557119 TTTACACAACTTTA
259 TTTACACAACTTTA
27557133 AAATATTG
1 AAATATTG
27557141 TTACTCTGCT
Statistics
Matches: 246, Mismatches: 32, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
271 41 0.17
272 203 0.83
273 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (272 bp):
AAATATTGGGTTGGATCAAATTATAAAGTATTGGATTAAAAGCCAAAGAAGTACTTGTAACCAGA
CCCGATAGGGAAGAAGCCTAAAAGCCCATTATGTTATAAGGTGGGACAACAAATCATAGTATCAT
TAACTAAAGTTGTCGCCGCCTACATCCTAGTTGAACTAACATTTCACTATTCTAGTTAAAATAAA
CTCCTATAATTAAACAAAAGTTCTACATTCTCTCCTTAAAAATAGATGGCACCAGAAAGGCTATT
TACACAACTTTA
Found at i:27561062 original size:7 final size:7
Alignment explanation
Indices: 27561050--27561079 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
27561040 TATAACTTGA
27561050 GTTTAGG
1 GTTTAGG
27561057 GTTTAGG
1 GTTTAGG
27561064 GTTTAGG
1 GTTTAGG
27561071 GTTTAGG
1 GTTTAGG
27561078 GT
1 GT
27561080 AAAGTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.43, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:27566793 original size:49 final size:50
Alignment explanation
Indices: 27566723--27566947 Score: 292
Period size: 49 Copynumber: 4.5 Consensus size: 50
27566713 TGAGGTCATG
* *
27566723 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* * * * * *
27566772 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGGTCACA
* * ** *
27566823 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* *
27566873 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
27566922 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
27566948 TGCATACCAG
Statistics
Matches: 151, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
49 67 0.44
50 47 0.31
51 37 0.25
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
Found at i:27566912 original size:101 final size:98
Alignment explanation
Indices: 27566722--27566947 Score: 308
Period size: 101 Copynumber: 2.3 Consensus size: 98
27566712 GTGAGGTCAT
* * *
27566722 GTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCACATGTGTAGTACTAAGT
* *
27566787 GCAGGCTACTATGCGTACCTGATAACTTCGATCAC
66 GCAGGCTACTACGCGTACCGGATAA-TT-GATCAC
* ** *
27566822 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATT-GGTCACATGTGTAGTACTAAG
* * *
27566887 TGCAGGCTACTACGTGTACCGGATAATTGGTCGC
65 TGCAGGCTACTACGCGTACCGGATAATTGATCAC
*
27566921 ATGTGTAGTACTAAGTGCAGGCTACTA
1 GTGTGTAGTACTAAGTGCAGGCTACTA
27566948 TGCATACCAG
Statistics
Matches: 112, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
99 30 0.27
100 40 0.36
101 42 0.38
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (98 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCACATGTGTAGTACTAAGT
GCAGGCTACTACGCGTACCGGATAATTGATCAC
Found at i:27569733 original size:16 final size:15
Alignment explanation
Indices: 27569695--27569733 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
27569685 TGGATTCTCG
*
27569695 TATCATGGATTTCTT
1 TATCTTGGATTTCTT
27569710 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
27569725 TATTCTTGG
1 TA-TCTTGG
27569734 CTTCTCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:27572537 original size:50 final size:50
Alignment explanation
Indices: 27572417--27572660 Score: 305
Period size: 50 Copynumber: 4.9 Consensus size: 50
27572407 GCTATTGTGA
* * *
27572417 GGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAA-TC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTC
* * * *
27572466 GGTCGCATGTGTAGTACTAAGTGCA-GCTACTATGCGTACCTGATAACTTC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTC
* * ** *
27572516 GATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTC
* *
27572566 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTC
* * *
27572615 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
27572661 GCTTCGGCTA
Statistics
Matches: 166, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
48 18 0.11
49 63 0.38
50 70 0.42
51 15 0.09
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTC
Found at i:27572624 original size:99 final size:99
Alignment explanation
Indices: 27572419--27572660 Score: 308
Period size: 99 Copynumber: 2.4 Consensus size: 99
27572409 TATTGTGAGG
* * * * *
27572419 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATCGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATAGGTCACATGTGTAGTACT
* *
27572484 AAGTGCAGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGCTACTACGCGTACCGGATAACTTCGA
* ** *
27572518 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AATAGGTCACATGTGTAGTAC
* *
27572583 TAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GG
65 TAAGTGCA-GCTACTACGCGTACCGGATAACTTCGA
* * *
27572617 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
27572661 GCTTCGGCTA
Statistics
Matches: 123, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
99 79 0.64
100 26 0.21
101 18 0.15
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (99 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATAGGTCACATGTGTAGTACT
AAGTGCAGCTACTACGCGTACCGGATAACTTCGA
Found at i:27574192 original size:40 final size:40
Alignment explanation
Indices: 27574114--27574337 Score: 272
Period size: 40 Copynumber: 5.5 Consensus size: 40
27574104 ACCCAAGTAT
* * *
27574114 CTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAATC-ACTAGCACAAATGC
* **
27574153 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
*
27574193 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
* * *
27574233 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATA--ATC-ACTAGCACAAATGC
* * * *
27574276 CTTCGGGACTTAGCTCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
27574316 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
27574338 CATCCGAATA
Statistics
Matches: 159, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
39 11 0.07
40 111 0.70
41 2 0.01
42 1 0.01
43 34 0.21
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
Found at i:27574298 original size:83 final size:79
Alignment explanation
Indices: 27574114--27574337 Score: 297
Period size: 83 Copynumber: 2.8 Consensus size: 79
27574104 ACCCAAGTAT
* * * *
27574114 CTTCGGGATTTAGCCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAAA
**
27574178 CACTAGCATGAATGC
65 CACTAGCACAAATGC
*
27574193 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGC
1 CTTCGGGACTTAG-CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA--
*
27574258 AACTACTCGCACAAATGC
63 AAC-ACTAGCACAAATGC
* *
27574276 CTTCGGGACTTAGCTCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGC-CGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
27574338 CATCCGAATA
Statistics
Matches: 128, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
79 12 0.09
80 44 0.34
81 1 0.01
82 3 0.02
83 68 0.53
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAAAC
ACTAGCACAAATGC
Found at i:27592225 original size:3 final size:3
Alignment explanation
Indices: 27592217--27592254 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
27592207 ACATTATCAA
27592217 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
27592255 AAGTTTAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27593787 original size:25 final size:24
Alignment explanation
Indices: 27593733--27593787 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
27593723 TTTTTTTAAG
*
27593733 CAAAATTTTATAACATTATTTTAT
1 CAAAATTTTATAACATTATCTTAT
* *
27593757 CTAAATTTTATAACAATTCTCTTAT
1 CAAAATTTTATAAC-ATTATCTTAT
*
27593782 GAAAAT
1 CAAAAT
27593788 AAACCAAGCT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (24 bp):
CAAAATTTTATAACATTATCTTAT
Found at i:27597495 original size:37 final size:36
Alignment explanation
Indices: 27597444--27597518 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 36
27597434 TTTCAAAAAA
*
27597444 AATATTATTTTAATAGT-TTAATATTAAATTTAAT-TT
1 AATATTATCTTAATAGTATT-ATATT-AATTTAATATT
*
27597480 AATATTTATCTTAATAGTATTTTATTAATTTAATATT
1 AATA-TTATCTTAATAGTATTATATTAATTTAATATT
27597517 AA
1 AA
27597519 AATGATTAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 12 0.35
37 20 0.59
38 2 0.06
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (36 bp):
AATATTATCTTAATAGTATTATATTAATTTAATATT
Found at i:27601614 original size:37 final size:36
Alignment explanation
Indices: 27601568--27601675 Score: 116
Period size: 37 Copynumber: 2.9 Consensus size: 36
27601558 ATTCCAAAAA
27601568 TAATATTATTTTAATAGTTTAATATTACATTTAAT-T
1 TAATATTATTTTAATAGTTTAATATTA-ATTTAATAT
*
27601604 TAATACTTATTTTAATAGTATT-TTATTAATTTAATAT
1 TAATA-TTATTTTAATAGT-TTAATATTAATTTAATAT
*
27601641 TAAAGTGATTATCTTAATA-TTTAAT-TTAATTTAAT
1 T-AA-T-ATTATTTTAATAGTTTAATATTAATTTAAT
27601676 GTTTATCTTG
Statistics
Matches: 62, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
36 12 0.19
37 32 0.52
38 6 0.10
39 11 0.18
40 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.55
Consensus pattern (36 bp):
TAATATTATTTTAATAGTTTAATATTAATTTAATAT
Found at i:27601641 original size:11 final size:11
Alignment explanation
Indices: 27601568--27601643 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
27601558 ATTCCAAAAA
*
27601568 TAATATTATTT
1 TAATATTAATT
27601579 TAATAGTTTAATAT
1 TAATA--TTAAT-T
27601593 TACAT-TTAATT
1 TA-ATATTAATT
*
27601604 TAATACTTATTT
1 TAATA-TTAATT
*
27601616 TAATAGT-ATT
1 TAATATTAATT
27601626 T--TATTAATT
1 TAATATTAATT
27601635 TAATATTAA
1 TAATATTAA
27601644 AGTGATTATC
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 5 0.10
11 15 0.29
12 15 0.29
13 4 0.08
14 3 0.06
15 2 0.04
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:27603765 original size:74 final size:74
Alignment explanation
Indices: 27603678--27603896 Score: 338
Period size: 74 Copynumber: 3.0 Consensus size: 74
27603668 AAAGTAATAC
* * *
27603678 TGAGATGCCTTTATTGGTCCTTTGTCATAAAGTTGTGTAACAATTATTATTATTTAAATCATCTT
1 TGAGATGCCTTTATTGGTCCTTTATCATATAGTTGTGTTACAATTATTATTATTTAAATCATCTT
27603743 GTCTTGTCT
66 GTCTTGTCT
* * * *
27603752 TGAGATGTCTTTATTGGTCCTTTATCATGTAGTTGTGTTACAGTTATTATAATTTAAATCATCTT
1 TGAGATGCCTTTATTGGTCCTTTATCATATAGTTGTGTTACAATTATTATTATTTAAATCATCTT
27603817 GTCTTGTCT
66 GTCTTGTCT
*
27603826 TGAGATGCCTTTATTGGTCCTTTATCACATAGTTGTGTTAC-A--ATTATTATTTAAATCATCTT
1 TGAGATGCCTTTATTGGTCCTTTATCATATAGTTGTGTTACAATTATTATTATTTAAATCATCTT
27603888 GTCTT-TCT
66 GTCTTGTCT
27603896 T
1 T
27603897 AAGGCTAAGA
Statistics
Matches: 133, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
70 4 0.03
71 24 0.18
74 105 0.79
ACGTcount: A:0.23, C:0.14, G:0.15, T:0.49
Consensus pattern (74 bp):
TGAGATGCCTTTATTGGTCCTTTATCATATAGTTGTGTTACAATTATTATTATTTAAATCATCTT
GTCTTGTCT
Found at i:27604468 original size:15 final size:15
Alignment explanation
Indices: 27604445--27604479 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
27604435 CCGGCTTCGA
* *
27604445 TTTTCCTTTTTTCTT
1 TTTTTCTTTTTTATT
27604460 TTTTTCTTTTTTATT
1 TTTTTCTTTTTTATT
27604475 TTTTT
1 TTTTT
27604480 TTACATCTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTCTTTTTTATT
Found at i:27605457 original size:26 final size:26
Alignment explanation
Indices: 27605427--27605478 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
27605417 AAATTAGTTT
27605427 TTATAACTTTAATGTAATCATACTTC
1 TTATAACTTTAATGTAATCATACTTC
27605453 TTATAACTTTAATGTAATCATACTTC
1 TTATAACTTTAATGTAATCATACTTC
27605479 CGAATTAAAA
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:0.15, G:0.04, T:0.46
Consensus pattern (26 bp):
TTATAACTTTAATGTAATCATACTTC
Found at i:27606996 original size:7 final size:7
Alignment explanation
Indices: 27606984--27607029 Score: 65
Period size: 7 Copynumber: 6.1 Consensus size: 7
27606974 ACCATAAATT
27606984 TTTATTA
1 TTTATTA
27606991 TTTATTAGA
1 TTTATT--A
27607000 TTTTATTA
1 -TTTATTA
27607008 TTTATTA
1 TTTATTA
27607015 TTTATTA
1 TTTATTA
27607022 TTTATTA
1 TTTATTA
27607029 T
1 T
27607030 ATTCTTTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 28 0.78
8 1 0.03
9 1 0.03
10 6 0.17
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (7 bp):
TTTATTA
Found at i:27607005 original size:17 final size:16
Alignment explanation
Indices: 27606983--27607028 Score: 69
Period size: 17 Copynumber: 2.9 Consensus size: 16
27606973 AACCATAAAT
27606983 TTTTATTATTTATTAGA
1 TTTTATTATTTATTA-A
27607000 TTTTATTATTTATT-A
1 TTTTATTATTTATTAA
27607015 -TTTATTATTTATTA
1 TTTTATTATTTATTA
27607029 TATTCTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 13 0.46
15 1 0.04
17 14 0.50
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTTATTATTTATTAA
Found at i:27607746 original size:26 final size:27
Alignment explanation
Indices: 27607709--27607762 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
27607699 GTTACTCAAG
*
27607709 CTGTTGTTGATTGCCTTCTAGAG-CTT
1 CTGTTGTCGATTGCCTTCTAGAGTCTT
*
27607735 CTGTTGTCGATTGTCTTCTAGAGTCTT
1 CTGTTGTCGATTGCCTTCTAGAGTCTT
27607762 C
1 C
27607763 AATTGAAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.46
Consensus pattern (27 bp):
CTGTTGTCGATTGCCTTCTAGAGTCTT
Found at i:27615981 original size:40 final size:40
Alignment explanation
Indices: 27615923--27616062 Score: 108
Period size: 40 Copynumber: 3.5 Consensus size: 40
27615913 ATTGAATGAT
* * * *
27615923 ATCCGGGCTAA-ATTCCGAAGACAATTATGCTGGAGATTAT
1 ATCCGGGCTAAGA-CCCGAAGACAATTATGCTAGAGACTAC
* * * * *
27615963 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 ATCCGGGCTAAGACCCGAAGACAATTATGCTAGAGACTAC
* * *
27616003 ATCCGGGCTAAGACCCGAAGGC-ATT-CG-TACGAGACATTC
1 ATCCGGGCTAAGACCCGAAGACAATTATGCTA-GAGAC-TAC
27616042 TATCCGGGCTAAGACCCGAAG
1 -ATCCGGGCTAAGACCCGAAG
27616063 GCATTTGTGC
Statistics
Matches: 82, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
37 2 0.02
38 4 0.05
39 5 0.06
40 70 0.85
41 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGACAATTATGCTAGAGACTAC
Found at i:27616086 original size:40 final size:40
Alignment explanation
Indices: 27615957--27616088 Score: 144
Period size: 40 Copynumber: 3.3 Consensus size: 40
27615947 TTATGCTGGA
* *
27615957 GATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTA-GT
1 GATTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGT
** * * *
27615997 GGCTACATCCGGGCTAAGACCCGAAGGCATTCGT--ACGA
1 GATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACGT
*
27616035 GACATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGT
1 G--ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACGT
27616077 GATTATATCCGG
1 GATTATATCCGG
27616089 TTATATTCCG
Statistics
Matches: 73, Mismatches: 14, Indels: 10
0.75 0.14 0.10
Matches are distributed among these distances:
37 1 0.01
38 2 0.03
40 66 0.90
42 4 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
GATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACGT
Found at i:27622704 original size:17 final size:19
Alignment explanation
Indices: 27622684--27622721 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
27622674 CAGGGGAAGG
27622684 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
27622701 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
27622720 AA
1 AA
27622722 ATTAAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:27639676 original size:22 final size:22
Alignment explanation
Indices: 27639651--27639692 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
27639641 CCATATGGTA
27639651 TTGGCTAATATTGGTTAAGTTG
1 TTGGCTAATATTGGTTAAGTTG
27639673 TTGGCTAATATTGGTTAAGT
1 TTGGCTAATATTGGTTAAGT
27639693 ATATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.05, G:0.26, T:0.45
Consensus pattern (22 bp):
TTGGCTAATATTGGTTAAGTTG
Found at i:27647942 original size:41 final size:41
Alignment explanation
Indices: 27647897--27648014 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
27647887 TGAAAGATAA
27647897 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
27647938 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
27647968 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
27648009 ATGTAG
1 ATGTAG
27648015 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:27647954 original size:71 final size:71
Alignment explanation
Indices: 27647865--27648028 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
27647855 GAGATGTATC
27647865 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
27647930 AGGACA
66 AGGACA
27647936 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
27648001 AGGACA
66 AGGACA
27648007 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
27648029 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:27654662 original size:22 final size:23
Alignment explanation
Indices: 27654629--27654683 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
27654619 TAAATATAAA
*
27654629 AAAATAAGAAAATA-ATAATTTTT
1 AAAATAA-AAAATACATAATTTTC
*
27654652 TAAATAAAAAATACATAATTTTC
1 AAAATAAAAAATACATAATTTTC
27654675 AAAATAAAA
1 AAAATAAAA
27654684 GTTTTACGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 6 0.21
23 22 0.79
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAATAAAAAATACATAATTTTC
Found at i:27659960 original size:49 final size:48
Alignment explanation
Indices: 27659766--27659974 Score: 173
Period size: 46 Copynumber: 4.5 Consensus size: 48
27659756 TGAGTGTCAG
* * * *
27659766 TGTAATACATGTCTGGGACAT-GCATCGACA-TTGAGATGAGAGCTAA
1 TGTAAGACCTGTCTGGGACATGGCATCGACACTTTAGATGAGAGCCAA
* ** * * * *
27659812 TGTAAGACATGTCTGGGACAT-GCATCGAC-CTTGGGATATACAAGCTAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACACTTTAGAT-GA-GAGCCAA
* * * * * * *
27659860 TATAAGACCTGTATGGGACATGGCGTC-A-AC-TTA-TTGTGTGTCAA
1 TGTAAGACCTGTCTGGGACATGGCATCGACACTTTAGATGAGAGCCAA
27659904 TGTAAGACCTGTCTGGGACATGGCATCGACACTGTTAGATGAGAGCCAA
1 TGTAAGACCTGTCTGGGACATGGCATCGACACT-TTAGATGAGAGCCAA
27659953 TGTAAGACCTGTCTGGGACATG
1 TGTAAGACCTGTCTGGGACATG
27659975 AAATCGGCCT
Statistics
Matches: 127, Mismatches: 26, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
44 26 0.20
45 1 0.01
46 37 0.29
47 2 0.02
48 28 0.22
49 33 0.26
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (48 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACACTTTAGATGAGAGCCAA
Found at i:27660007 original size:49 final size:49
Alignment explanation
Indices: 27659901--27660023 Score: 133
Period size: 49 Copynumber: 2.5 Consensus size: 49
27659891 TATTGTGTGT
** * *
27659901 CAATGTAAGACCTGTCTGGGACATGGCATCGACACTGTTAGATGAGAGC
1 CAATGTAAGACCTGTCTGGGACATGAAATCGACACTGATAGATGAAAGC
* * *
27659950 CAATGTAAGACCTGTCTGGGACATGAAATCGGC-CTCGATATATGAAAGT
1 CAATGTAAGACCTGTCTGGGACATGAAATCGACACT-GATAGATGAAAGC
* *
27659999 CAGA-GTAAGACCTGCCTGGAACATG
1 CA-ATGTAAGACCTGTCTGGGACATG
27660024 GCATCGACTT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
48 2 0.03
49 60 0.95
50 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (49 bp):
CAATGTAAGACCTGTCTGGGACATGAAATCGACACTGATAGATGAAAGC
Found at i:27661288 original size:21 final size:20
Alignment explanation
Indices: 27661256--27661295 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
27661246 GTCATAATGG
27661256 CCACAAGAACGTGTTGCCTTT
1 CCACAAGAACGTG-TGCCTTT
27661277 CCACACAG-ACGTGTGCCTT
1 CCACA-AGAACGTGTGCCTT
27661296 GCTTCAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 10 0.56
22 2 0.11
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.25
Consensus pattern (20 bp):
CCACAAGAACGTGTGCCTTT
Found at i:27663273 original size:16 final size:16
Alignment explanation
Indices: 27663252--27663284 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
27663242 TAACAACATG
27663252 TTGTCAATGTGTTGAC
1 TTGTCAATGTGTTGAC
27663268 TTGTCAATGTGTTGAC
1 TTGTCAATGTGTTGAC
27663284 T
1 T
27663285 GCTTATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.45
Consensus pattern (16 bp):
TTGTCAATGTGTTGAC
Found at i:27667740 original size:23 final size:21
Alignment explanation
Indices: 27667702--27667746 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 21
27667692 ATGTTTAAAA
27667702 ATAATATAAAAATAATAATAC
1 ATAATATAAAAATAATAATAC
27667723 ATAATATTAAAAACTAATAATAC
1 ATAATA-TAAAAA-TAATAATAC
27667746 A
1 A
27667747 ATTCATAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 6 0.27
22 6 0.27
23 10 0.45
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (21 bp):
ATAATATAAAAATAATAATAC
Found at i:27671223 original size:12 final size:12
Alignment explanation
Indices: 27671180--27671247 Score: 52
Period size: 12 Copynumber: 5.7 Consensus size: 12
27671170 TTAATGAAAT
*
27671180 AACAATAATAATC
1 AACAATAATAA-G
27671193 AA-AATAATAA-
1 AACAATAATAAG
27671203 AACACATAATAAG
1 AACA-ATAATAAG
*
27671216 AATAATAATAAG
1 AACAATAATAAG
* *
27671228 TAGAA-AATGAAG
1 AACAATAAT-AAG
27671240 AACAATAA
1 AACAATAA
27671248 AAATAACAGC
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
10 2 0.04
11 4 0.09
12 32 0.71
13 7 0.16
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.19
Consensus pattern (12 bp):
AACAATAATAAG
Found at i:27671330 original size:31 final size:32
Alignment explanation
Indices: 27671290--27671424 Score: 102
Period size: 31 Copynumber: 4.2 Consensus size: 32
27671280 AAGCTAGTGC
*
27671290 AAAAAATAATAATAATAGGAAAA-ATAATAAG
1 AAAAAATAATAATAATAAGAAAATATAATAAG
* *
27671321 AAAATATAATAATATTAAGAAAATATAATAAAAG
1 AAAAAATAATAATAATAAGAAAATATAAT--AAG
* *
27671355 TAAAAATAA-AATAATAA-AAAATAAAATAGTAGG
1 AAAAAATAATAATAATAAGAAAATATAATA--A-G
*
27671388 AAAATAA-AATAAGAAATAA-AAAATA-AATAAAG
1 AAAA-AATAATAA-TAATAAGAAAATATAAT-AAG
27671420 AAAAA
1 AAAAA
27671425 GGGTAAACGG
Statistics
Matches: 85, Mismatches: 9, Indels: 20
0.75 0.08 0.18
Matches are distributed among these distances:
30 1 0.01
31 21 0.25
32 20 0.24
33 14 0.16
34 17 0.20
35 12 0.14
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (32 bp):
AAAAAATAATAATAATAAGAAAATATAATAAG
Found at i:27671333 original size:16 final size:16
Alignment explanation
Indices: 27671310--27671399 Score: 85
Period size: 15 Copynumber: 5.4 Consensus size: 16
27671300 AATAATAGGA
27671310 AAAATAATAAGAAAATAT
1 AAAATAATAAG-AAA-AT
*
27671328 AATAATATTAAGAAAAT
1 AA-AATAATAAGAAAAT
*
27671345 ATAATAA-AAGTAAAAAT
1 AAAATAATAAG--AAAAT
27671362 AAAATAATAA-AAAAT
1 AAAATAATAAGAAAAT
* *
27671377 AAAATAGTAGGAAAAT
1 AAAATAATAAGAAAAT
27671393 AAAATAA
1 AAAATAA
27671400 GAAATAAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
15 16 0.27
16 15 0.25
17 14 0.23
18 7 0.12
19 8 0.13
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (16 bp):
AAAATAATAAGAAAAT
Found at i:27671339 original size:19 final size:19
Alignment explanation
Indices: 27671312--27671371 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
27671302 TAATAGGAAA
27671312 AATAATAAGAAAATATAAT
1 AATAATAAGAAAATATAAT
*
27671331 AATATTAAGAAAATATAAT
1 AATAATAAGAAAATATAAT
*
27671350 AA-AAGT-A-AAAATAAAAT
1 AATAA-TAAGAAAATATAAT
27671367 AATAA
1 AATAA
27671372 AAAATAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 11 0.31
18 4 0.11
19 21 0.58
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (19 bp):
AATAATAAGAAAATATAAT
Found at i:27671344 original size:48 final size:48
Alignment explanation
Indices: 27671292--27671424 Score: 128
Period size: 48 Copynumber: 2.7 Consensus size: 48
27671282 GCTAGTGCAA
* * *
27671292 AAAATAATAATAATAGGAAAAAT-AATAAGAAAATATAATAATATTAAG
1 AAAATAATAATAAAAGGAAAAATAAATAAGAAAAAATAA-AATAGTAAG
* * *
27671340 AAAAT-ATAATAAAAGTAAAAATAAAATAATAAAAAATAAAATAGTAGG
1 AAAATAATAATAAAAGGAAAAAT-AAATAAGAAAAAATAAAATAGTAAG
**
27671388 AAAATAA-AATAAGAAATAAAAAATAAATAAAGAAAAA
1 AAAATAATAAT-A-AAAGGAAAAATAAAT-AAGAAAAA
27671425 GGGTAAACGG
Statistics
Matches: 70, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
47 15 0.21
48 20 0.29
49 19 0.27
50 16 0.23
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (48 bp):
AAAATAATAATAAAAGGAAAAATAAATAAGAAAAAATAAAATAGTAAG
Found at i:27671424 original size:49 final size:48
Alignment explanation
Indices: 27671309--27671424 Score: 123
Period size: 49 Copynumber: 2.4 Consensus size: 48
27671299 TAATAATAGG
* * *
27671309 AAAAAT-AAT-AAGAAAATATAATAATATTAAGAAAATATAATAAAAGT
1 AAAAATAAATAAAGAAAA-ATAATAATAGTAAGAAAATAAAATAAAAAT
*
27671356 AAAAATAAAATAATA-AAAAATAA-AATAGTAGGAAAATAAAATAAGAAAT
1 AAAAAT-AAATAA-AGAAAAATAATAATAGTAAGAAAATAAAATAA-AAAT
27671405 AAAAAATAAATAAAGAAAAA
1 -AAAAATAAATAAAGAAAAA
27671425 GGGTAAACGG
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
47 6 0.10
48 19 0.33
49 21 0.36
50 11 0.19
51 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (48 bp):
AAAAATAAATAAAGAAAAATAATAATAGTAAGAAAATAAAATAAAAAT
Found at i:27672543 original size:27 final size:26
Alignment explanation
Indices: 27672471--27672545 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 26
27672461 AGCATGGCTG
* **
27672471 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAACCA
27672497 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAACCA
27672525 CCAGAACAGATATATGTGGCA
1 CCAGAACAGATA-ATGTGGCA
27672546 AAGCCATCAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 5 0.12
27 22 0.51
28 16 0.37
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAACCA
Done.