Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 34 of 136
Found at i:11145438 original size:54 final size:54
Alignment explanation
Indices: 11145336--11145443 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
11145326 TATCACTGAA
* * * * *
11145336 TTGCACCGAAGTGCCACTATAACTTAGTTGCACCTTAGTGTCATTATCACTATG
1 TTGCACAGAAGTGCCACTATAACTGAGTTGCACCTAAGTGCCAGTATCACTATG
*
11145390 TTGCACAGAAGTGCCACTATCACTGAGTTGCA-CTAAAGTGCCAGTATCACTATG
1 TTGCACAGAAGTGCCACTATAACTGAGTTGCACCT-AAGTGCCAGTATCACTATG
11145444 AGCACTGAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 2 0.04
54 45 0.96
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (54 bp):
TTGCACAGAAGTGCCACTATAACTGAGTTGCACCTAAGTGCCAGTATCACTATG
Found at i:11145454 original size:27 final size:28
Alignment explanation
Indices: 11145316--11145455 Score: 91
Period size: 27 Copynumber: 5.2 Consensus size: 28
11145306 GAAATGCTCC
* * *
11145316 AAAGAGCCACTATCACTGA-ATTGCACCG
1 AAAGTGCCACTATCACT-ATGTTGCACTG
*
11145344 -AAGTGCCACTATAACT-TAGTTGCACCT-
1 AAAGTGCCACTATCACTAT-GTTGCA-CTG
* * * *
11145371 -TAGTGTCATTATCACTATGTTGCACAG
1 AAAGTGCCACTATCACTATGTTGCACTG
11145398 -AAGTGCCACTATCACTGA-GTTGCACT-
1 AAAGTGCCACTATCACT-ATGTTGCACTG
* *
11145424 AAAGTGCCAGTATCACTATG-AGCACTG
1 AAAGTGCCACTATCACTATGTTGCACTG
11145451 AAAGT
1 AAAGT
11145456 TTCTTAATAA
Statistics
Matches: 88, Mismatches: 15, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
26 7 0.08
27 78 0.89
28 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (28 bp):
AAAGTGCCACTATCACTATGTTGCACTG
Found at i:11155258 original size:43 final size:43
Alignment explanation
Indices: 11155195--11155466 Score: 391
Period size: 43 Copynumber: 6.3 Consensus size: 43
11155185 GCGTCGCTAA
* * *
11155195 CTTTAGCGGCACTTTTCCCACAAACGCCGCTAAAAACCACGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* *
11155238 CTTTAGCGGCGCTTTCCCCACAAACGCAGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * *
11155281 CTTTAGCGGCGCTTTTCTCACAAATGCTGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
11155324 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCACGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* *
11155367 TTTTATCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
** * * *
11155410 CTTTAGCGGCGCTTTTATCACAAACGTCGCTATAGACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
11155453 CTTTAGCGACGCTT
1 CTTTAGCGGCGCTT
11155467 CTAGCAAAAA
Statistics
Matches: 205, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 205 1.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:11155498 original size:129 final size:129
Alignment explanation
Indices: 11155216--11155498 Score: 338
Period size: 129 Copynumber: 2.2 Consensus size: 129
11155206 CTTTTCCCAC
** *
11155216 AAACGCCGCTAAA-AACCACGACCTTTAGCGGCGCTTTCCCCACAAACGCAGCTAAAGACCAAGA
1 AAACGCCGCTAAAGAA-CAAAACTTTTAGCGGCGCTTTCCCCACAAACGCAGCTAAAGACCAAGA
* * * * * *
11155280 CCTTTAGCGGCGCTTTTCTCACAAATGCTGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
65 CCTTTAGCGGCGCTTTTATCACAAACGCTGCTAAAGACCAAGACCTTTAGCGACGCTTCTACCAA
* ** * * *
11155345 AAACGCCGCTAAAGACCACGACTTTTATCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
1 AAACGCCGCTAAAGAACAAAACTTTTAGCGGCGCTTTCCCCACAAACGCAGCTAAAGACCAAGAC
* * *
11155410 CTTTAGCGGCGCTTTTATCACAAACG-TCGCTATAGACCATGACCTTTAGCGACGCTTCTAGCAA
66 CTTTAGCGGCGCTTTTATCACAAACGCT-GCTAAAGACCAAGACCTTTAGCGACGCTTCTACCAA
**
11155474 AAACGCTTCTAAA-AACATAAACTTT
1 AAACGCCGCTAAAGAACA-AAACTTT
11155499 AAAAAAAATA
Statistics
Matches: 132, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
128 4 0.03
129 127 0.96
130 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (129 bp):
AAACGCCGCTAAAGAACAAAACTTTTAGCGGCGCTTTCCCCACAAACGCAGCTAAAGACCAAGAC
CTTTAGCGGCGCTTTTATCACAAACGCTGCTAAAGACCAAGACCTTTAGCGACGCTTCTACCAA
Found at i:11158048 original size:41 final size:41
Alignment explanation
Indices: 11158003--11158187 Score: 275
Period size: 41 Copynumber: 4.5 Consensus size: 41
11157993 TTTTATTATT
*
11158003 ATTAGCGGCGCTTTTTAAAAAATGCCGCTAAAGGCACGAGC
1 ATTAGCGGCGCTTTTTAAAAAATGCCGCTAAAGGCCCGAGC
* *
11158044 ATTAGCGGCAC-TTTTCAAAAATGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTAAAAAATGCCGCTAAAGGCCCGAGC
*
11158084 ATTAGCGGCGCTTCTTTAAAAACT-CCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTT-TTTAAAAAATGCCGCTAAAGGCCCGAGC
* *
11158125 ATTGGCGGCGCTTTTTTAAAAATGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTAAAAAATGCCGCTAAAGGCCCGAGC
* *
11158166 ATTAGAGGCGCTTTTTCAAAAA
1 ATTAGCGGCGCTTTTTAAAAAA
11158188 CGCTGTTAAA
Statistics
Matches: 129, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
40 45 0.35
41 76 0.59
42 8 0.06
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTAAAAAATGCCGCTAAAGGCCCGAGC
Found at i:11158373 original size:40 final size:40
Alignment explanation
Indices: 11158246--11158374 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
11158236 GGTTTTTTGT
*
11158246 GGCGCTTTTTGAAAAA-CGCCGCTAATGCTT-ATTTTTAGC
1 GGCG-TTTTTTAAAAAGCGCCGCTAATGCTTGATTTTTAGC
* ** * **
11158285 AGCGTTTTCCAAAAAGCGCCGCTAATGCTAGACCTTTAGC
1 GGCGTTTTTTAAAAAGCGCCGCTAATGCTTGATTTTTAGC
*
11158325 GGCGTTTTTTAAAAAGCGCCGCTAATGCTTGATTTTTAGT
1 GGCGTTTTTTAAAAAGCGCCGCTAATGCTTGATTTTTAGC
11158365 GGCGTTTTTT
1 GGCGTTTTTT
11158375 GTCCAAACGC
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
38 9 0.12
39 16 0.21
40 50 0.67
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (40 bp):
GGCGTTTTTTAAAAAGCGCCGCTAATGCTTGATTTTTAGC
Found at i:11161202 original size:21 final size:21
Alignment explanation
Indices: 11161177--11161217 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11161167 TTTCTAAAAC
11161177 AAGTTTTTTTTAAAAATTTTG
1 AAGTTTTTTTTAAAAATTTTG
* *
11161198 AAGTTTTTTTTTACAATTTT
1 AAGTTTTTTTTAAAAATTTT
11161218 TAGAATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.61
Consensus pattern (21 bp):
AAGTTTTTTTTAAAAATTTTG
Found at i:11165770 original size:9 final size:9
Alignment explanation
Indices: 11165701--11165817 Score: 69
Period size: 9 Copynumber: 12.6 Consensus size: 9
11165691 TACTAATCAT
*
11165701 AATAATAAG
1 AATAATAAA
11165710 AATAAT-AA
1 AATAATAAA
11165718 AATAATAAA
1 AATAATAAA
11165727 CAATAATAAAA
1 -AATAAT-AAA
* *
11165738 AAGAAAGAAAA
1 AA-TAA-TAAA
* *
11165749 AATACTAAG
1 AATAATAAA
11165758 AATAATAAA
1 AATAATAAA
*
11165767 AATAATAGTA
1 AATAATA-AA
*
11165777 AA-AATAAT
1 AATAATAAA
11165785 AATAGA-AATA
1 AATA-ATAA-A
*
11165795 AACAATAAA
1 AATAATAAA
*
11165804 AATAATAGA
1 AATAATAAA
11165813 AATAA
1 AATAA
11165818 ACAATAATAA
Statistics
Matches: 82, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
8 9 0.11
9 45 0.55
10 18 0.22
11 10 0.12
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.20
Consensus pattern (9 bp):
AATAATAAA
Found at i:11165782 original size:21 final size:20
Alignment explanation
Indices: 11165716--11165786 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
11165706 TAAGAATAAT
11165716 AAAATAATAAACAATAATA-A
1 AAAATAATAAA-AATAATATA
*
11165736 AAAAGAA-AGAAAA-AATACTA
1 AAAATAATA-AAAATAATA-TA
*
11165756 AGAATAATAAAAATAATAGTA
1 AAAATAATAAAAATAATA-TA
11165777 AAAATAATAA
1 AAAATAATAA
11165787 TAGAAATAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
18 4 0.10
19 3 0.07
20 18 0.44
21 16 0.39
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (20 bp):
AAAATAATAAAAATAATATA
Found at i:11171689 original size:27 final size:27
Alignment explanation
Indices: 11171659--11171868 Score: 226
Period size: 27 Copynumber: 7.7 Consensus size: 27
11171649 ACCCTTCGGG
** *
11171659 GGGTATTTTAATAATTTAACCCATCGA
1 GGGTATTTCGATAATTTTACCCATCGA
* *
11171686 GGGTATTTCGACAATTTTACCCTTC-A
1 GGGTATTTCGATAATTTTACCCATCGA
*
11171712 GGAGGTATTTCAATAATTTTACCCATCGA
1 -G-GGTATTTCGATAATTTTACCCATCGA
* * * *
11171741 GGTTATTTTGGTAATTTTACCCATTGA
1 GGGTATTTCGATAATTTTACCCATCGA
*
11171768 GGGTATTTCGATAATTTTACCCTTCG-
1 GGGTATTTCGATAATTTTACCCATCGA
*
11171794 GAGGTATTTCGGTAATTTTACCCATCGA
1 G-GGTATTTCGATAATTTTACCCATCGA
* * *
11171822 GGGTATTTTGGTAATTTTACCCGTCGA
1 GGGTATTTCGATAATTTTACCCATCGA
* *
11171849 GGGTATTTCGGTAATCTTAC
1 GGGTATTTCGATAATTTTAC
11171869 AACCTTTCTG
Statistics
Matches: 154, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
26 2 0.01
27 128 0.83
28 23 0.15
29 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACCCATCGA
Found at i:11171833 original size:81 final size:82
Alignment explanation
Indices: 11171659--11171868 Score: 314
Period size: 81 Copynumber: 2.6 Consensus size: 82
11171649 ACCCTTCGGG
** * *
11171659 GGGTATTTTAATAATTTAACCCATCGAGGGTATTTCGACAATTTTACCCTTCAGGAGGTATTTCA
1 GGGTATTTTGGTAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCTTCAGGAGGTATTTCA
11171724 ATAATTTTACCCATCGA
66 ATAATTTTACCCATCGA
* * *
11171741 GGTTATTTTGGTAATTTTACCCATTGAGGGTATTTCGATAATTTTACCCTTC-GGAGGTATTTCG
1 GGGTATTTTGGTAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCTTCAGGAGGTATTTCA
*
11171805 GTAATTTTACCCATCGA
66 ATAATTTTACCCATCGA
* * *
11171822 GGGTATTTTGGTAATTTTACCCGTCGAGGGTATTTCGGTAATCTTAC
1 GGGTATTTTGGTAATTTTACCCATCGAGGGTATTTCGATAATTTTAC
11171869 AACCTTTCTG
Statistics
Matches: 115, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 69 0.60
82 46 0.40
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.40
Consensus pattern (82 bp):
GGGTATTTTGGTAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCTTCAGGAGGTATTTCA
ATAATTTTACCCATCGA
Found at i:11173869 original size:9 final size:9
Alignment explanation
Indices: 11173855--11173901 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
11173845 TTAAATTTTA
11173855 ATTTTATAC
1 ATTTTATAC
11173864 ATTTTATAC
1 ATTTTATAC
11173873 ATTTT-TA-
1 ATTTTATAC
*
11173880 ATTTTATAT
1 ATTTTATAC
11173889 ACTTATTATAC
1 A-TT-TTATAC
11173900 AT
1 AT
11173902 ATATAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
7 5 0.15
8 4 0.12
9 15 0.45
10 3 0.09
11 6 0.18
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (9 bp):
ATTTTATAC
Found at i:11173884 original size:25 final size:27
Alignment explanation
Indices: 11173850--11173901 Score: 81
Period size: 25 Copynumber: 2.0 Consensus size: 27
11173840 TATCATTAAA
11173850 TTTTAATTTTATACA-TT-TTATACAT
1 TTTTAATTTTATACACTTATTATACAT
*
11173875 TTTTAATTTTATATACTTATTATACAT
1 TTTTAATTTTATACACTTATTATACAT
11173902 ATATAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 14 0.58
26 2 0.08
27 8 0.33
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTTAATTTTATACACTTATTATACAT
Found at i:11175013 original size:15 final size:16
Alignment explanation
Indices: 11174982--11175020 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
11174972 GGCTCAATTT
*
11174982 AAAAACAAAATATAAA
1 AAAAAGAAAATATAAA
*
11174998 AGAAAGAAAA-ATAAA
1 AAAAAGAAAATATAAA
11175013 AAAAAGAA
1 AAAAAGAA
11175021 GTTGCACAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.82, C:0.03, G:0.08, T:0.08
Consensus pattern (16 bp):
AAAAAGAAAATATAAA
Found at i:11191109 original size:5 final size:5
Alignment explanation
Indices: 11191099--11191130 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
11191089 CCTGTTGTAA
11191099 TATTT TATTT TATTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TATTT TA
11191131 AATAATATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:11193482 original size:73 final size:72
Alignment explanation
Indices: 11193351--11193485 Score: 166
Period size: 72 Copynumber: 1.9 Consensus size: 72
11193341 GTAAACAAGA
* * *
11193351 GTAAGACCATAGCTGAAAGACGCTATGTCATCCTAGTAGTCTACGAGGACAGTAAACACAGGGTT
1 GTAAGACCATAGCTGAAAGACGCTATGGCATCATAGTAGTCTAAGAGGACAGTAAACACAGGGTT
11193416 ATATTGT
66 ATATTGT
* * * *
11193423 GTAAGACCATAGTTGAAGGATGTTATGGCATCATAGTTAGTCTGAAG-GGAC-GCTAAACACAGG
1 GTAAGACCATAGCTGAAAGACGCTATGGCATCATAG-TAGTCT-AAGAGGACAG-TAAACACAGG
11193486 ACATTCTGAC
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
72 31 0.58
73 20 0.38
74 2 0.04
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.24
Consensus pattern (72 bp):
GTAAGACCATAGCTGAAAGACGCTATGGCATCATAGTAGTCTAAGAGGACAGTAAACACAGGGTT
ATATTGT
Found at i:11200042 original size:37 final size:37
Alignment explanation
Indices: 11200001--11200076 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
11199991 GGTGTATTTC
11200001 ATGCATACTTTTCATTTGTCAATGATGTTGGAATTCA
1 ATGCATACTTTTCATTTGTCAATGATGTTGGAATTCA
11200038 ATGCATACTTTTCATTTGTCAATGATGTTGGAATTCA
1 ATGCATACTTTTCATTTGTCAATGATGTTGGAATTCA
11200075 AT
1 AT
11200077 TATGCTTTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (37 bp):
ATGCATACTTTTCATTTGTCAATGATGTTGGAATTCA
Found at i:11202353 original size:11 final size:11
Alignment explanation
Indices: 11202314--11202354 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
11202304 ACAATAACAA
11202314 CAAAATAGTAG
1 CAAAATAGTAG
* *
11202325 CAACATAATAG
1 CAAAATAGTAG
*
11202336 TAAAATAGTAG
1 CAAAATAGTAG
11202347 CAAAATAG
1 CAAAATAG
11202355 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:11206056 original size:45 final size:44
Alignment explanation
Indices: 11206004--11206088 Score: 134
Period size: 45 Copynumber: 1.9 Consensus size: 44
11205994 TTAGTAACGG
*
11206004 TAGCAGTAACAGTAACAGTATTCAACACGCAAAGTGCTCAATCTA
1 TAGCAGTAACAGTAACAGTATTCAACACACAAAGTG-TCAATCTA
* *
11206049 TAGCAGTAACTGTAATAGTATTCAACACACAAAGTGTCAA
1 TAGCAGTAACAGTAACAGTATTCAACACACAAAGTGTCAA
11206089 ATTGGTAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 4 0.11
45 33 0.89
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (44 bp):
TAGCAGTAACAGTAACAGTATTCAACACACAAAGTGTCAATCTA
Found at i:11206353 original size:40 final size:41
Alignment explanation
Indices: 11206307--11206394 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 41
11206297 AATTCATTAC
*
11206307 TTCAGTAATTTCA-AAGTTCAATGCAGTACAC-AAAACAATA
1 TTCAGTAACTTCACAA-TTCAATGCAGTACACAAAAACAATA
* *
11206347 TTCAGTAACTTCACAATTCAATTCAGTACTCAAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAAACAATA
11206388 TTCAGTA
1 TTCAGTA
11206395 TTCCATAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
40 25 0.58
41 18 0.42
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (41 bp):
TTCAGTAACTTCACAATTCAATGCAGTACACAAAAACAATA
Found at i:11206361 original size:23 final size:22
Alignment explanation
Indices: 11206335--11206394 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 22
11206325 CAATGCAGTA
11206335 CACAAAACAATATTCAGTAACTT
1 CACAAAACAATATTCAGTAAC-T
**
11206358 CACAATTC-A-ATTCAGT-ACT
1 CACAAAACAATATTCAGTAACT
11206377 CA-AAAACAATATTCAGTA
1 CACAAAACAATATTCAGTA
11206395 TTCCATAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
18 3 0.10
19 4 0.13
20 9 0.30
21 7 0.23
22 1 0.03
23 6 0.20
ACGTcount: A:0.47, C:0.22, G:0.05, T:0.27
Consensus pattern (22 bp):
CACAAAACAATATTCAGTAACT
Found at i:11207223 original size:18 final size:17
Alignment explanation
Indices: 11207173--11207221 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
11207163 CTTTTGTTTC
*
11207173 TTTTTCTTTTATTTATT
1 TTTTTATTTTATTTATT
** *
11207190 TACTTACTTTACTTTATT
1 TTTTTATTTTA-TTTATT
11207208 TTTTTATTTTATTT
1 TTTTTATTTTATTT
11207222 TAACTAATAA
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTATTTTATTTATT
Found at i:11209608 original size:2 final size:2
Alignment explanation
Indices: 11209603--11209630 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11209593 CAAAAAATTA
11209603 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11209631 TAACAACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11210161 original size:66 final size:66
Alignment explanation
Indices: 11210050--11210181 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 66
11210040 ACAGTACATT
* *
11210050 GATTAATGTAATAAATGTTGTATTAAAAAGTTTGTACTAAGAACTTAAAGCTTAAGTTTATTAAA
1 GATTAATGTAATAAATGTTGTATTAAAAAGTTTCTACTAACAACTTAAAGCTTAAGTTTATTAAA
11210115 A
66 A
*
11210116 GATTAATGTAATAAATGTTGTATTAAAAAGTTTCTACTAACAACTTGAAGCTTAAGTTTATTAAA
1 GATTAATGTAATAAATGTTGTATTAAAAAGTTTCTACTAACAACTTAAAGCTTAAGTTTATTAAA
11210181 A
66 A
11210182 ACAAAAAGAA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (66 bp):
GATTAATGTAATAAATGTTGTATTAAAAAGTTTCTACTAACAACTTAAAGCTTAAGTTTATTAAA
A
Found at i:11210481 original size:21 final size:20
Alignment explanation
Indices: 11210442--11210498 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 20
11210432 TTATTTATAT
* **
11210442 TTTAATTAATCATGTTTTAGC
1 TTTAATTAATCTTAATTTA-C
11210463 TTTAATTAATCTTAATTTAC
1 TTTAATTAATCTTAATTTAC
*
11210483 -TTAATTAAGCTTAATT
1 TTTAATTAATCTTAATT
11210499 GTTAATTTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 15 0.47
20 1 0.03
21 16 0.50
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (20 bp):
TTTAATTAATCTTAATTTAC
Found at i:11211347 original size:14 final size:14
Alignment explanation
Indices: 11211330--11211357 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11211320 GTAAAACAAT
11211330 GAAAATATTTTACA
1 GAAAATATTTTACA
11211344 GAAAATATTTTACA
1 GAAAATATTTTACA
11211358 TTCAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (14 bp):
GAAAATATTTTACA
Found at i:11216428 original size:16 final size:16
Alignment explanation
Indices: 11216407--11216455 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
11216397 ATTTATAGGC
11216407 ATAAGAAGTATAAATA
1 ATAAGAAGTATAAATA
* *
11216423 ATAAGAATTATAAATG
1 ATAAGAAGTATAAATA
*
11216439 ACAAGAAGTATAAATA
1 ATAAGAAGTATAAATA
11216455 A
1 A
11216456 AGTAGAGATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.61, C:0.02, G:0.12, T:0.24
Consensus pattern (16 bp):
ATAAGAAGTATAAATA
Found at i:11216886 original size:20 final size:21
Alignment explanation
Indices: 11216851--11216889 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
11216841 TTCTGCTTCT
*
11216851 TTTTCTTTCTTTTTATTTTTC
1 TTTTCTTTCCTTTTATTTTTC
11216872 TTTTC-TTCCTTTTATTTT
1 TTTTCTTTCCTTTTATTTT
11216890 ACTTCTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTCTTTCCTTTTATTTTTC
Found at i:11223995 original size:42 final size:42
Alignment explanation
Indices: 11223936--11224016 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
11223926 TGCTTTAAAA
11223936 CCACACGGACAAGGACATGGGCGTGTGCCCAGGCCGTGTAAG
1 CCACACGGACAAGGACATGGGCGTGTGCCCAGGCCGTGTAAG
* * *
11223978 CCACACGGGCAAGGACATGGGCGTGTGTCTAGGCCGTGT
1 CCACACGGACAAGGACATGGGCGTGTGCCCAGGCCGTGT
11224017 GGCGTATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.21, C:0.27, G:0.37, T:0.15
Consensus pattern (42 bp):
CCACACGGACAAGGACATGGGCGTGTGCCCAGGCCGTGTAAG
Found at i:11224119 original size:19 final size:19
Alignment explanation
Indices: 11224095--11224151 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
11224085 CCGCATTATA
11224095 TGAATGGTTTGAATTTGAC
1 TGAATGGTTTGAATTTGAC
*
11224114 TGAAT-G-AT-AA-TT-A-
1 TGAATGGTTTGAATTTGAC
11224127 TGAATGGTTTGAATTTGAC
1 TGAATGGTTTGAATTTGAC
11224146 TGAATG
1 TGAATG
11224152 ATAACTCTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
13 5 0.17
14 2 0.07
15 3 0.10
16 4 0.13
17 3 0.10
18 2 0.07
19 11 0.37
ACGTcount: A:0.32, C:0.04, G:0.25, T:0.40
Consensus pattern (19 bp):
TGAATGGTTTGAATTTGAC
Found at i:11224129 original size:32 final size:32
Alignment explanation
Indices: 11224093--11224155 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
11224083 GTCCGCATTA
11224093 TATGAATGGTTTGAATTTGACTGAATGATAAT
1 TATGAATGGTTTGAATTTGACTGAATGATAAT
11224125 TATGAATGGTTTGAATTTGACTGAATGATAA
1 TATGAATGGTTTGAATTTGACTGAATGATAA
11224156 CTCTCTAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.40
Consensus pattern (32 bp):
TATGAATGGTTTGAATTTGACTGAATGATAAT
Found at i:11227792 original size:22 final size:22
Alignment explanation
Indices: 11227766--11227809 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
11227756 TTGATGCCAA
11227766 AACTTAGGATTATTTTTACATG
1 AACTTAGGATTATTTTTACATG
11227788 AACTTAGGATTATTTTTACATG
1 AACTTAGGATTATTTTTACATG
11227810 TAGTTGTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (22 bp):
AACTTAGGATTATTTTTACATG
Found at i:11238881 original size:44 final size:44
Alignment explanation
Indices: 11238830--11238983 Score: 166
Period size: 44 Copynumber: 3.5 Consensus size: 44
11238820 TTTGGTTCTG
11238830 CTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCGACCTA
1 CTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCGACCTA
* ** * * * * * * *
11238874 TTCCACTACTGCTTAGAGAAGATAAGATTC-ACCATCTTTGATCTG
1 CTCCACTACTGCTTAG-GGTGA-CAGAATCTGCAATCTTCGACCTA
* * *
11238919 CTCCACTACTGATTAGGGTGACAGAATCTGTAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCGACCTA
11238963 CTCCACTACTGCTTAGGGTGA
1 CTCCACTACTGCTTAGGGTGA
11238984 TAGGAATAAT
Statistics
Matches: 83, Mismatches: 24, Indels: 6
0.73 0.21 0.05
Matches are distributed among these distances:
43 5 0.06
44 46 0.55
45 27 0.33
46 5 0.06
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCGACCTA
Found at i:11238923 original size:89 final size:89
Alignment explanation
Indices: 11238802--11238978 Score: 293
Period size: 89 Copynumber: 2.0 Consensus size: 89
11238792 ACTGTATTGG
* *
11238802 GAAGATAAGATTACCATCTTTGGTTCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
1 GAAGATAAGATTACCATCTTTGGATCTGCTCCACTACTGATTAGGGTGACAGAATCTGCAATCTT
* *
11238867 CGACCTATTCCACTACTGCTTAGA
66 CAACCTACTCCACTACTGCTTAGA
*
11238891 GAAGATAAGATTCACCATCTTT-GATCTGCTCCACTACTGATTAGGGTGACAGAATCTGTAATCT
1 GAAGATAAGATT-ACCATCTTTGGATCTGCTCCACTACTGATTAGGGTGACAGAATCTGCAATCT
11238955 TCAACCTACTCCACTACTGCTTAG
65 TCAACCTACTCCACTACTGCTTAG
11238979 GGTGATAGGA
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
89 73 0.89
90 9 0.11
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (89 bp):
GAAGATAAGATTACCATCTTTGGATCTGCTCCACTACTGATTAGGGTGACAGAATCTGCAATCTT
CAACCTACTCCACTACTGCTTAGA
Found at i:11239500 original size:46 final size:45
Alignment explanation
Indices: 11239039--11239493 Score: 595
Period size: 46 Copynumber: 9.9 Consensus size: 45
11239029 AAGATTCACC
* * *
11239039 ATCTTTGATCTACTCCGCTGCCAAATACATGAAGATAAGATCTGCT
1 ATCTTCGATCT-CTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
11239085 ATCTTCGATCCCCTTCGCTGCCAAATACAGGAAAACAAGATCTGTT
1 ATCTTCGAT-CTCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
11239131 ATCTTCGATATCCTCTGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCT-CTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
11239177 ATCTTCGATCCTCTCCGCCGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGAT-CTCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
11239223 ATATTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGAT-CTCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
11239269 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAAACAAGATCTGTT
1 ATCTTCGATCT-CTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
11239315 ATCTTCGATATCCTCTGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCT-CTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
11239361 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAATATAAGAACTGCT
1 ATCTTCGAT-CTCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
11239407 ATCTTCGATCTCTTCCGCTGCCAAATATAGGAAGATAATATCTGCT
1 ATCTTCGATCTC-TCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
11239453 ATCTTCGATCTCATTCGCTGCCAAATACAGGAAGATAAGAT
1 ATCTTCGATCTC-TCCGCTGCCAAATACAGGAAGACAAGAT
11239494 TCGCTATAAC
Statistics
Matches: 361, Mismatches: 42, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
45 3 0.01
46 356 0.99
47 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (45 bp):
ATCTTCGATCTCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:11242691 original size:7 final size:7
Alignment explanation
Indices: 11242679--11242725 Score: 71
Period size: 7 Copynumber: 7.0 Consensus size: 7
11242669 TTAGCCTCTC
11242679 CATTTTT
1 CATTTTT
11242686 CA-TTTT
1 CATTTTT
11242692 CATTTTT
1 CATTTTT
11242699 CATTTTT
1 CATTTTT
*
11242706 CA-TTCT
1 CATTTTT
11242712 CATTTTT
1 CATTTTT
11242719 CATTTTT
1 CATTTTT
11242726 TTACTCCGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 11 0.31
7 25 0.69
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:11242697 original size:13 final size:13
Alignment explanation
Indices: 11242682--11242724 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
11242672 GCCTCTCCAT
11242682 TTTTCA-TTTTCA
1 TTTTCATTTTTCA
11242694 TTTTTCATTTTTCA
1 -TTTTCATTTTTCA
*
11242708 TTCTCATTTTTCA
1 TTTTCATTTTTCA
11242721 TTTT
1 TTTT
11242725 TTTACTCCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 21 0.78
14 6 0.22
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:11242702 original size:20 final size:20
Alignment explanation
Indices: 11242679--11242725 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
11242669 TTAGCCTCTC
*
11242679 CATTTTTCATTTTCATTTTT
1 CATTTTTCATTCTCATTTTT
11242699 CATTTTTCATTCTCATTTTT
1 CATTTTTCATTCTCATTTTT
11242719 CATTTTT
1 CATTTTT
11242726 TTACTCCGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (20 bp):
CATTTTTCATTCTCATTTTT
Found at i:11243575 original size:26 final size:26
Alignment explanation
Indices: 11243546--11243600 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
11243536 TTTTTTCCTA
11243546 TTTTTG-ACTTTGATTTTT-TTTTTG
1 TTTTTGTACTTTGATTTTTGTTTTTG
**
11243570 ATTTTTGTTTTTTGATTTTTGTTTTTG
1 -TTTTTGTACTTTGATTTTTGTTTTTG
11243597 TTTT
1 TTTT
11243601 GTTTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 6 0.23
26 14 0.54
27 6 0.23
ACGTcount: A:0.07, C:0.02, G:0.13, T:0.78
Consensus pattern (26 bp):
TTTTTGTACTTTGATTTTTGTTTTTG
Found at i:11243580 original size:14 final size:13
Alignment explanation
Indices: 11243554--11243607 Score: 69
Period size: 12 Copynumber: 4.2 Consensus size: 13
11243544 TATTTTTGAC
11243554 TTTGATTTT-TTT
1 TTTGATTTTGTTT
11243566 TTTGATTTTTGTTT
1 TTTGA-TTTTGTTT
11243580 TTTGATTTT-TGTT
1 TTTGATTTTGT-TT
11243593 TTTG-TTTTGTTT
1 TTTGATTTTGTTT
11243605 TTT
1 TTT
11243608 TTTTGTCTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
12 15 0.39
13 15 0.39
14 8 0.21
ACGTcount: A:0.06, C:0.00, G:0.13, T:0.81
Consensus pattern (13 bp):
TTTGATTTTGTTT
Found at i:11243608 original size:14 final size:13
Alignment explanation
Indices: 11243559--11243609 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
11243549 TTGACTTTGA
11243559 TTTTTTTTTTGATT
1 TTTTTTTTTTG-TT
* *
11243573 TTTGTTTTTTGAT
1 TTTTTTTTTTGTT
*
11243586 TTTTGTTTTTGTT
1 TTTTTTTTTTGTT
11243599 TTGTTTTTTTT
1 TT-TTTTTTTT
11243610 TTGTCTGAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
13 13 0.43
14 17 0.57
ACGTcount: A:0.04, C:0.00, G:0.12, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTTGTT
Found at i:11243608 original size:26 final size:26
Alignment explanation
Indices: 11243554--11243607 Score: 85
Period size: 25 Copynumber: 2.1 Consensus size: 26
11243544 TATTTTTGAC
11243554 TTTGATTTTTTTTTTGATTTTTGTTT
1 TTTGATTTTTTTTTTGATTTTTGTTT
11243580 TTTGATTTTTGTTTTTG--TTTTGTTT
1 TTTGATTTTT-TTTTTGATTTTTGTTT
11243605 TTT
1 TTT
11243608 TTTTGTCTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 11 0.41
26 10 0.37
27 6 0.22
ACGTcount: A:0.06, C:0.00, G:0.13, T:0.81
Consensus pattern (26 bp):
TTTGATTTTTTTTTTGATTTTTGTTT
Found at i:11247971 original size:4 final size:4
Alignment explanation
Indices: 11247962--11247988 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
11247952 TTGTATTTCG
11247962 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
11247989 CGAGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:11248834 original size:3 final size:3
Alignment explanation
Indices: 11248826--11248858 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
11248816 ACCTTGAACC
*
11248826 CAT CAT CAT CAT CAT CAT CAT CAC CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
11248859 AGTGATTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.30
Consensus pattern (3 bp):
CAT
Found at i:11253744 original size:24 final size:25
Alignment explanation
Indices: 11253708--11253758 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
11253698 AGTAAACTGC
**
11253708 ATATCAAAGTTAACTTATATTTTGTT
1 ATATCAAAGTTAAAATATA-TTTGTT
11253734 ATAT-AAA-TTAAAATATATTTGTT
1 ATATCAAAGTTAAAATATATTTGTT
11253757 AT
1 AT
11253759 GCTTATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 8 0.35
25 3 0.13
26 4 0.17
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (25 bp):
ATATCAAAGTTAAAATATATTTGTT
Found at i:11254257 original size:64 final size:64
Alignment explanation
Indices: 11254155--11254297 Score: 241
Period size: 64 Copynumber: 2.2 Consensus size: 64
11254145 ATGGACAAAT
11254155 ATCGACATCCTAGTCCTACACCATTCGATTTCTACATCTCTGGCAAGAACTGATTGTGATTCTTG
1 ATCGACATCCTA-TCCTACACCATTCGATTTCTACATCTCTGGCAAGAACTGATTGTGATTCTTG
* *
11254220 ATCGACATCCTATTCTACATCATTCGATTTCTACATCTCTGGCAAGAACTGATTGTGATTCTTG
1 ATCGACATCCTATCCTACACCATTCGATTTCTACATCTCTGGCAAGAACTGATTGTGATTCTTG
*
11254284 ATCAGACATGCTAT
1 ATC-GACATCCTAT
11254298 GGCTTGTACT
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
64 53 0.72
65 21 0.28
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (64 bp):
ATCGACATCCTATCCTACACCATTCGATTTCTACATCTCTGGCAAGAACTGATTGTGATTCTTG
Found at i:11261642 original size:22 final size:23
Alignment explanation
Indices: 11261617--11261660 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11261607 TTTAAGGGTT
11261617 TGAAAAAATC-ATCAAACTTTTC
1 TGAAAAAATCAATCAAACTTTTC
* *
11261639 TGAAGAAATCAATTAAACTTTT
1 TGAAAAAATCAATCAAACTTTT
11261661 ACCTTTTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (23 bp):
TGAAAAAATCAATCAAACTTTTC
Found at i:11262960 original size:17 final size:17
Alignment explanation
Indices: 11262938--11262972 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
11262928 CATTGCTACC
11262938 TAAGTCACAAGAAATCA
1 TAAGTCACAAGAAATCA
11262955 TAAGTCACAAGAAATCA
1 TAAGTCACAAGAAATCA
11262972 T
1 T
11262973 GATTCGACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.17, G:0.11, T:0.20
Consensus pattern (17 bp):
TAAGTCACAAGAAATCA
Found at i:11268884 original size:13 final size:13
Alignment explanation
Indices: 11268866--11268890 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11268856 ATGCAGGAAT
11268866 CACACAGGTGTGA
1 CACACAGGTGTGA
11268879 CACACAGGTGTG
1 CACACAGGTGTG
11268891 TGTCCAGGCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.24, G:0.32, T:0.16
Consensus pattern (13 bp):
CACACAGGTGTGA
Found at i:11269955 original size:25 final size:25
Alignment explanation
Indices: 11269927--11269977 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
11269917 TAAATATACA
11269927 TGCTCTGGTTCA-TTCTACTCTACTC
1 TGCTCT-GTTCAGTTCTACTCTACTC
* *
11269952 TGCTCTGTTCAGTTCTGCTCTGCTC
1 TGCTCTGTTCAGTTCTACTCTACTC
11269977 T
1 T
11269978 ATACCATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.08, C:0.31, G:0.16, T:0.45
Consensus pattern (25 bp):
TGCTCTGTTCAGTTCTACTCTACTC
Found at i:11269998 original size:25 final size:25
Alignment explanation
Indices: 11269970--11270022 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
11269960 TCAGTTCTGC
11269970 TCTGCTCTATACCATTTTGTTTTGT
1 TCTGCTCTATACCATTTTGTTTTGT
****
11269995 TCTGCTCTATTTTGTTTTGTTTTGT
1 TCTGCTCTATACCATTTTGTTTTGT
11270020 TCT
1 TCT
11270023 ATTGTACTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.08, C:0.17, G:0.13, T:0.62
Consensus pattern (25 bp):
TCTGCTCTATACCATTTTGTTTTGT
Found at i:11270008 original size:20 final size:20
Alignment explanation
Indices: 11269983--11270025 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
11269973 GCTCTATACC
11269983 ATTTTGTTTTGTTCTGCTCT
1 ATTTTGTTTTGTTCTGCTCT
* *
11270003 ATTTTGTTTTGTTTTGTTCT
1 ATTTTGTTTTGTTCTGCTCT
11270023 ATT
1 ATT
11270026 GTACTACGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.07, C:0.09, G:0.14, T:0.70
Consensus pattern (20 bp):
ATTTTGTTTTGTTCTGCTCT
Found at i:11270997 original size:43 final size:43
Alignment explanation
Indices: 11270912--11270999 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 43
11270902 GTTGAAATAA
** ** *
11270912 AATAGAAGTTTTGATAATTGTACATTTAAAATAATTATAATTT
1 AATAGAAGTTGAGATAATTACACATTTAAAATAATTAGAATTT
11270955 AATAGAAGTTGAGATAATTACACATTTAAAATAATTAGAATTT
1 AATAGAAGTTGAGATAATTACACATTTAAAATAATTAGAATTT
11270998 AA
1 AA
11271000 GTTACAATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.39
Consensus pattern (43 bp):
AATAGAAGTTGAGATAATTACACATTTAAAATAATTAGAATTT
Found at i:11271047 original size:17 final size:18
Alignment explanation
Indices: 11271010--11271047 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
11271000 GTTACAATTA
* *
11271010 CTAATTTTAAAAATTGTG
1 CTAATTTTAAAAATAGAG
11271028 CTAATTTT-AAAATAGAG
1 CTAATTTTAAAAATAGAG
11271045 CTA
1 CTA
11271048 TTGCTTGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (18 bp):
CTAATTTTAAAAATAGAG
Found at i:11271738 original size:8 final size:9
Alignment explanation
Indices: 11271711--11271739 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
11271701 ATGTATTATT
11271711 AATTAATAA
1 AATTAATAA
11271720 AATTAATAA
1 AATTAATAA
11271729 AATT-ATAA
1 AATTAATAA
11271737 AAT
1 AAT
11271740 CATTAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AATTAATAA
Found at i:11281035 original size:34 final size:34
Alignment explanation
Indices: 11280991--11281076 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 34
11280981 TTACAGTGTT
*
11280991 ATTTGATGTGCTGGATGGATTAGCTCATACGAGC
1 ATTTGGTGTGCTGGATGGATTAGCTCATACGAGC
**
11281025 ATTTGGTGTGCTGGATGGATTAGCTTGTACGAGC
1 ATTTGGTGTGCTGGATGGATTAGCTCATACGAGC
* *
11281059 ATGTGGTGTGTTGGATGG
1 ATTTGGTGTGCTGGATGG
11281077 TTAACAGTGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.19, C:0.10, G:0.36, T:0.35
Consensus pattern (34 bp):
ATTTGGTGTGCTGGATGGATTAGCTCATACGAGC
Found at i:11281088 original size:34 final size:34
Alignment explanation
Indices: 11280997--11281088 Score: 98
Period size: 34 Copynumber: 2.7 Consensus size: 34
11280987 TGTTATTTGA
* * *
11280997 TGTGCTGGATGGATTAGC-TCATACGAGCATTTGG
1 TGTGCTGGATGGATTAACGT-GTACGAGCATGTGG
* *
11281031 TGTGCTGGATGGATTAGCTTGTACGAGCATGTGG
1 TGTGCTGGATGGATTAACGTGTACGAGCATGTGG
*
11281065 TGTGTTGGATGG-TTAACAGTGTAC
1 TGTGCTGGATGGATTAAC-GTGTAC
11281089 TAGTATCCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
33 4 0.08
34 46 0.90
35 1 0.02
ACGTcount: A:0.20, C:0.12, G:0.35, T:0.34
Consensus pattern (34 bp):
TGTGCTGGATGGATTAACGTGTACGAGCATGTGG
Found at i:11285754 original size:14 final size:14
Alignment explanation
Indices: 11285715--11285762 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
11285705 GTTTTTATTA
11285715 TTATTTTATGTTAT
1 TTATTTTATGTTAT
11285729 ATATATTATTTATGTTAT
1 -T-TA-T-TTTATGTTAT
*
11285747 TTATTTTATGGTAT
1 TTATTTTATGTTAT
11285761 TT
1 TT
11285763 TTATTTTTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 11 0.38
15 2 0.07
16 4 0.14
17 2 0.07
18 10 0.34
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (14 bp):
TTATTTTATGTTAT
Found at i:11285755 original size:18 final size:19
Alignment explanation
Indices: 11285691--11285754 Score: 62
Period size: 18 Copynumber: 3.5 Consensus size: 19
11285681 AGGAATTAAT
*
11285691 TTTATTTGAGTTT-TGTT-
1 TTTATTTTAGTTTATGTTA
*
11285708 TTTATTATTATTTTATGTTA
1 TTTATT-TTAGTTTATGTTA
* *
11285728 TATATATTA-TTTATGTTA
1 TTTATTTTAGTTTATGTTA
11285746 TTTATTTTA
1 TTTATTTTA
11285755 TGGTATTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 6 0.16
18 21 0.55
19 7 0.18
20 4 0.11
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (19 bp):
TTTATTTTAGTTTATGTTA
Found at i:11293348 original size:22 final size:21
Alignment explanation
Indices: 11293316--11293360 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
11293306 AAAAAAAAAC
*
11293316 ATTGTTAAATTTAAGGATTAA
1 ATTGTTAAATTTAAGAATTAA
11293337 ATTGATTAAATTTAAGAATTAA
1 ATTG-TTAAATTTAAGAATTAA
11293359 AT
1 AT
11293361 ATTACTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (21 bp):
ATTGTTAAATTTAAGAATTAA
Found at i:11294359 original size:17 final size:17
Alignment explanation
Indices: 11294321--11294353 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11294311 AAAATATTTA
*
11294321 CAAATATTAAATACTCT
1 CAAATATAAAATACTCT
11294338 CAAATATAAAATACTC
1 CAAATATAAAATACTC
11294354 ATAAATTATA
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:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (17 bp):
CAAATATAAAATACTCT
Found at i:11299791 original size:25 final size:25
Alignment explanation
Indices: 11299763--11299878 Score: 81
Period size: 25 Copynumber: 4.6 Consensus size: 25
11299753 CGAGCTGTAT
11299763 ATCAGGAAGCTCATAAGAGCCAAAA
1 ATCAGGAAGCTCATAAGAGCCAAAA
** ** **
11299788 ATCAAAAAGCTCATGCGAGCCAATT
1 ATCAGGAAGCTCATAAGAGCCAAAA
* **
11299813 ATCGGGAAGCTCA-AGAGAGCCATTA
1 ATCAGGAAGCTCATA-AGAGCCAAAA
* * * *
11299838 ATCTGGAAGCTCGTGAGAGCCAAAT
1 ATCAGGAAGCTCATAAGAGCCAAAA
* *
11299863 ATCAGTATGCTCATAA
1 ATCAGGAAGCTCATAA
11299879 AAGCTGTGTT
Statistics
Matches: 65, Mismatches: 24, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.19
Consensus pattern (25 bp):
ATCAGGAAGCTCATAAGAGCCAAAA
Found at i:11303615 original size:29 final size:29
Alignment explanation
Indices: 11303574--11303632 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
11303564 TGACCCAACT
11303574 CGTGTGGCCCACACGGCCTATCACATGAC
1 CGTGTGGCCCACACGGCCTATCACATGAC
* * * *
11303603 CGTGTGGCTCACATGGTCTGTCACATGAC
1 CGTGTGGCCCACACGGCCTATCACATGAC
11303632 C
1 C
11303633 TGGTACATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.19, C:0.34, G:0.25, T:0.22
Consensus pattern (29 bp):
CGTGTGGCCCACACGGCCTATCACATGAC
Found at i:11304875 original size:29 final size:29
Alignment explanation
Indices: 11304842--11304958 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
11304832 AAATGAATAG
* *
11304842 CTTCGGCTATCGAATATGGAAAGGGATAA
1 CTTCGGCTATCGAATATGAAAAGGGATGA
*
11304871 CTTCGGCTATCGATTATGAAAAGGGATGA
1 CTTCGGCTATCGAATATGAAAAGGGATGA
* * *
11304900 -TGACGACTATCGAACTATGAAAAGGGATGG
1 CT-TCGGCTATCGAA-TATGAAAAGGGATGA
* *
11304930 CTTCGGCTATCAATATATGAAAGGGGATG
1 CTTCGGCTATCGA-ATATGAAAAGGGATG
11304959 GTTTTGGCTA
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
28 1 0.01
29 35 0.48
30 35 0.48
31 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.25
Consensus pattern (29 bp):
CTTCGGCTATCGAATATGAAAAGGGATGA
Found at i:11304940 original size:30 final size:30
Alignment explanation
Indices: 11304841--11305049 Score: 142
Period size: 30 Copynumber: 7.0 Consensus size: 30
11304831 AAAATGAATA
* *
11304841 GCTTCGGCTATCGAA-TATGGAAAGGGATA
1 GCTTCGGCTATCGAACTATGAAAAGGGATG
* *
11304870 ACTTCGGCTATCG-ATTATGAAAAGGGAT-
1 GCTTCGGCTATCGAACTATGAAAAGGGATG
* * *
11304898 GATGACGACTATCGAACTATGAAAAGGGATG
1 GCT-TCGGCTATCGAACTATGAAAAGGGATG
* *
11304929 GCTTCGGCTATC-AATATATGAAAGGGGATG
1 GCTTCGGCTATCGAA-CTATGAAAAGGGATG
* * * * * *
11304959 GTTTTGGCTATC-AATCTCTAAAAAAGGATA
1 GCTTCGGCTATCGAA-CTATGAAAAGGGATG
* * *
11304989 GCTTCGGCTCTCAAATTATGAAAAGGGATG
1 GCTTCGGCTATCGAACTATGAAAAGGGATG
* ** *
11305019 G-TGACAACCATCGAACTATGAAAAGGGATG
1 GCT-TCGGCTATCGAACTATGAAAAGGGATG
11305049 G
1 G
11305050 TGGTGACCAT
Statistics
Matches: 138, Mismatches: 35, Indels: 13
0.74 0.19 0.07
Matches are distributed among these distances:
28 2 0.01
29 35 0.25
30 97 0.70
31 4 0.03
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (30 bp):
GCTTCGGCTATCGAACTATGAAAAGGGATG
Found at i:11305077 original size:31 final size:30
Alignment explanation
Indices: 11304999--11305078 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
11304989 GCTTCGGCTC
11304999 TCAAATTATGAAAAGGGATGGTGACAACCA
1 TCAAATTATGAAAAGGGATGGTGACAACCA
* * ***
11305029 TCGAACTATGAAAAGGGATGGTGGTGACCA
1 TCAAATTATGAAAAGGGATGGTGACAACCA
*
11305059 TCAAATTATAAAAAAGGGAT
1 TCAAATTAT-GAAAAGGGAT
11305079 AGCTTTGGCT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 32 0.78
31 9 0.22
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.21
Consensus pattern (30 bp):
TCAAATTATGAAAAGGGATGGTGACAACCA
Found at i:11306432 original size:213 final size:213
Alignment explanation
Indices: 11306065--11306492 Score: 820
Period size: 213 Copynumber: 2.0 Consensus size: 213
11306055 AAAAATAACT
11306065 TGTAAAATGACCTACTTTCGTCCACACAAGCAGAGACACGGGCGTGTGTCTCAGCCGTGTGTGAT
1 TGTAAAATGACCTACTTTCGTCCACACAAGCAGAGACACGGGCGTGTGTCTCAGCCGTGTGTGAT
11306130 CCCATGTAGCTTTCGAAGGGTTGTAAGTTAGGTAGTTGTACGGCCTAGCACACGACCTGCACACA
66 CCCATGTAGCTTTCGAAGGGTTGTAAGTTAGGTAGTTGTACGGCCTAGCACACGACCTGCACACA
* *
11306195 GGCGTGTGGAGTTATTTCGAAGGGTACACAGCCTGGCACACAAACGCGTGGCATTGCCATGTGAC
131 GGCGTGTGGAGTTATTTCGAAGGGTACACAGCCTGGAACACAAACGCGTGGCATGGCCATGTGAC
11306260 CCAAGTCAGTGAGTTACA
196 CCAAGTCAGTGAGTTACA
11306278 TGTAAAATGACCTACTTTCGTCCACACAAGCAGAGACACGGGCGTGTGTCTCAGCCGTGTGTGAT
1 TGTAAAATGACCTACTTTCGTCCACACAAGCAGAGACACGGGCGTGTGTCTCAGCCGTGTGTGAT
11306343 CCCATGTAGCTTTCGAAGGGTTGTAAGTTAGGTAGTTGTACGGCCTAGCACACGACCTGCACACA
66 CCCATGTAGCTTTCGAAGGGTTGTAAGTTAGGTAGTTGTACGGCCTAGCACACGACCTGCACACA
*
11306408 GGCGTGTGGAGTTATTTTGAAGGGTACACAGCCTGGAACACAAACGCGTGGCATGGCCATGTGAC
131 GGCGTGTGGAGTTATTTCGAAGGGTACACAGCCTGGAACACAAACGCGTGGCATGGCCATGTGAC
*
11306473 CCAAGTTAGTGAGTTACA
196 CCAAGTCAGTGAGTTACA
11306491 TG
1 TG
11306493 GACACGGACA
Statistics
Matches: 211, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
213 211 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (213 bp):
TGTAAAATGACCTACTTTCGTCCACACAAGCAGAGACACGGGCGTGTGTCTCAGCCGTGTGTGAT
CCCATGTAGCTTTCGAAGGGTTGTAAGTTAGGTAGTTGTACGGCCTAGCACACGACCTGCACACA
GGCGTGTGGAGTTATTTCGAAGGGTACACAGCCTGGAACACAAACGCGTGGCATGGCCATGTGAC
CCAAGTCAGTGAGTTACA
Found at i:11308877 original size:19 final size:19
Alignment explanation
Indices: 11308850--11308888 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11308840 AAAAATATCA
*
11308850 CAAAAATCATCATTATCTT
1 CAAAAATCATCATTACCTT
*
11308869 CAAACATCATCATTACCTT
1 CAAAAATCATCATTACCTT
11308888 C
1 C
11308889 TAGAATTCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.33
Consensus pattern (19 bp):
CAAAAATCATCATTACCTT
Found at i:11311236 original size:24 final size:24
Alignment explanation
Indices: 11311187--11311236 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
11311177 AAAAATTGAT
* *
11311187 TGTTTTCAATTGCATATTTGCAAA
1 TGTTATCAATTGCATATTTACAAA
* *
11311211 TGTTATCAATTGCGTATTTACGAA
1 TGTTATCAATTGCATATTTACAAA
11311235 TG
1 TG
11311237 CTTTATTGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (24 bp):
TGTTATCAATTGCATATTTACAAA
Found at i:11319850 original size:13 final size:14
Alignment explanation
Indices: 11319802--11319851 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
11319792 TTAATAAAAA
11319802 TAAATTATACCAAAT
1 TAAA-TATACCAAAT
*
11319817 TAAAATATAACAAA-
1 T-AAATATACCAAAT
*
11319831 TACATAT-CCAAAT
1 TAAATATACCAAAT
11319844 TAAATATA
1 TAAATATA
11319852 TCATAGAGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
12 4 0.14
13 11 0.39
14 1 0.04
15 9 0.32
16 3 0.11
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAATATACCAAAT
Found at i:11324234 original size:28 final size:28
Alignment explanation
Indices: 11324198--11324306 Score: 121
Period size: 28 Copynumber: 3.9 Consensus size: 28
11324188 AGTAAGAACC
* * * *
11324198 TTCATGCAATAGTCCACATGGGCTATCT
1 TTCAAGCAAGAGTCCGCATGGACTATCT
* *
11324226 TTCAAGCAAGAGTCTGCATAGACTATCT
1 TTCAAGCAAGAGTCCGCATGGACTATCT
*
11324254 CTT-AAGCAAGAGTCTGCATGGACTATCT
1 -TTCAAGCAAGAGTCCGCATGGACTATCT
* *
11324282 CTCAAGCAAGAGTCCGCATGAACTA
1 TTCAAGCAAGAGTCCGCATGGACTA
11324307 ATTGAAGAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
27 1 0.01
28 66 0.96
29 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (28 bp):
TTCAAGCAAGAGTCCGCATGGACTATCT
Found at i:11324469 original size:28 final size:28
Alignment explanation
Indices: 11324412--11324477 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
11324402 TACAAATTTG
* * *
11324412 CATGTATGAATCTGTATCTATAAATTCA
1 CATGTATGAATCCGTATATATAAATCCA
*
11324440 CATGTATGAATCCGTATATATGAATCCA
1 CATGTATGAATCCGTATATATAAATCCA
11324468 CATGTATGAA
1 CATGTATGAA
11324478 ATCAATACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (28 bp):
CATGTATGAATCCGTATATATAAATCCA
Found at i:11324475 original size:14 final size:14
Alignment explanation
Indices: 11324438--11324477 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
11324428 TCTATAAATT
11324438 CACATGTATGAATC
1 CACATGTATGAATC
** *
11324452 CGTATATATGAATC
1 CACATGTATGAATC
11324466 CACATGTATGAA
1 CACATGTATGAA
11324478 ATCAATACAT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (14 bp):
CACATGTATGAATC
Found at i:11327515 original size:25 final size:25
Alignment explanation
Indices: 11327481--11327541 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
11327471 CAAACATGTA
*
11327481 AACGGGAAGCTCTTCCGAGCCATAT
1 AACGGGAAGCTCATCCGAGCCATAT
** **
11327506 AACGGGAAGCTCATGTGAGCTGTAT
1 AACGGGAAGCTCATCCGAGCCATAT
11327531 AACGGGAAGCT
1 AACGGGAAGCT
11327542 TAATCAAGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.20
Consensus pattern (25 bp):
AACGGGAAGCTCATCCGAGCCATAT
Found at i:11327594 original size:25 final size:25
Alignment explanation
Indices: 11327560--11327625 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
11327550 CTGTATATCA
*
11327560 GGAATCTCATAAGAGCCAAAAATTG
1 GGAAGCTCATAAGAGCCAAAAATTG
* *
11327585 GGAAGCTCATGCA-AGCCAAATATTG
1 GGAAGCTCAT-AAGAGCCAAAAATTG
*
11327610 GGATGCTCATAAGAGC
1 GGAAGCTCATAAGAGC
11327626 TGTGGTGTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.03
25 32 0.94
26 1 0.03
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (25 bp):
GGAAGCTCATAAGAGCCAAAAATTG
Found at i:11328244 original size:21 final size:21
Alignment explanation
Indices: 11328220--11328290 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
11328210 AAGTTGTTTA
11328220 TCTAACAATAACCTTTCATTT
1 TCTAACAATAACCTTTCATTT
* * * *
11328241 TCTACCATAAAACAAAATTT-GTTT
1 TCTAACA-ATAAC---CTTTCATTT
11328265 ATCTAACAATAACCTTTCATTT
1 -TCTAACAATAACCTTTCATTT
11328287 TCTA
1 TCTA
11328291 CCATAAAACT
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
21 13 0.36
22 7 0.19
24 7 0.19
25 9 0.25
ACGTcount: A:0.37, C:0.21, G:0.01, T:0.41
Consensus pattern (21 bp):
TCTAACAATAACCTTTCATTT
Found at i:11328263 original size:46 final size:46
Alignment explanation
Indices: 11328206--11328299 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
11328196 AATTCTCTTT
11328206 ACAAAAGTTGTTTATCTAACAATAACCTTTCATTTTCTACCATAAA
1 ACAAAAGTTGTTTATCTAACAATAACCTTTCATTTTCTACCATAAA
*
11328252 ACAAAATTTGTTTATCTAACAATAACCTTTCATTTTCTACCATAAA
1 ACAAAAGTTGTTTATCTAACAATAACCTTTCATTTTCTACCATAAA
11328298 AC
1 AC
11328300 TTCAAAAATA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.39, C:0.20, G:0.03, T:0.37
Consensus pattern (46 bp):
ACAAAAGTTGTTTATCTAACAATAACCTTTCATTTTCTACCATAAA
Found at i:11330571 original size:39 final size:39
Alignment explanation
Indices: 11330528--11330629 Score: 116
Period size: 39 Copynumber: 2.6 Consensus size: 39
11330518 CATGATTTTA
**
11330528 AGTATTGTGATATATGCTTAAATGTTATGTAATTATATG
1 AGTATTGTGATATATGCTTAAATGTTACATAATTATATG
* * *
11330567 AGTATTATGATATATGCTTGAATGTTACATGATTATATG
1 AGTATTGTGATATATGCTTAAATGTTACATAATTATATG
*
11330606 TGTAATATGAT-ATATATGCTTAAA
1 AGT-AT-TG-TGATATATGCTTAAA
11330630 AGTGAATATG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
39 36 0.69
40 2 0.04
41 13 0.25
42 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.44
Consensus pattern (39 bp):
AGTATTGTGATATATGCTTAAATGTTACATAATTATATG
Found at i:11334280 original size:21 final size:22
Alignment explanation
Indices: 11334256--11334302 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
11334246 GTGGGGAGTG
*
11334256 ATTTTTTTAA-TTATTTATTTA
1 ATTTTATTAATTTATTTATTTA
* *
11334277 ATTTTATTAATTTATTTTTTTT
1 ATTTTATTAATTTATTTATTTA
11334299 ATTT
1 ATTT
11334303 ATCTTCTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (22 bp):
ATTTTATTAATTTATTTATTTA
Found at i:11334302 original size:13 final size:13
Alignment explanation
Indices: 11334266--11334304 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
11334256 ATTTTTTTAA
11334266 TTATTTATTTAATT
1 TTATTTATTT-ATT
*
11334280 TTATTAATTTATT
1 TTATTTATTTATT
*
11334293 TTTTTTATTTAT
1 TTATTTATTTAT
11334305 CTTCTTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTATTTATTTATT
Found at i:11334530 original size:14 final size:16
Alignment explanation
Indices: 11334506--11334537 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11334496 TGACTCTCTC
11334506 TTTTTTAAATA-TTTA
1 TTTTTTAAATACTTTA
11334521 TTTTTT-AATACTTTA
1 TTTTTTAAATACTTTA
11334536 TT
1 TT
11334538 ATACCTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTTAAATACTTTA
Found at i:11337668 original size:32 final size:33
Alignment explanation
Indices: 11337632--11337704 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
11337622 TAGATTTTAC
*
11337632 AAAATATTTT-CAAAAAATC-TACCAAATAACAG
1 AAAATATTTTACAAAAAATCAT-CCAAACAACAG
* * *
11337664 AAAATATTTTACACAGATTCATCCAAACAACAG
1 AAAATATTTTACAAAAAATCATCCAAACAACAG
11337697 AAAATATT
1 AAAATATT
11337705 AATTTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 10 0.29
33 24 0.69
34 1 0.03
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.26
Consensus pattern (33 bp):
AAAATATTTTACAAAAAATCATCCAAACAACAG
Found at i:11339784 original size:94 final size:94
Alignment explanation
Indices: 11339679--11339889 Score: 244
Period size: 94 Copynumber: 2.2 Consensus size: 94
11339669 CGCAACCTTG
* **
11339679 TGTTTACTGTCCTGGCAGACTACCCCATGTTTACTGTTCC-GGTGGACTACCTATGTCGCCATAA
1 TGTTTAATGTCCTGGCAGACTACCCCATGTTTACTG-TCCTAATGGACTACCTATGTCGCCATAA
* * * *
11339743 TCGAGTTAAGGTCTTACACATATAATCCCT
65 CCGAGCTAAGGTCTTACACATATAACCCCA
* * * * * *
11339773 TGTTTAATGTCCTGACGGACTACCCCGTGTTTATTGTCCTAATGGATTACCTATGTCGCCATAGC
1 TGTTTAATGTCCTGGCAGACTACCCCATGTTTACTGTCCTAATGGACTACCTATGTCGCCATAAC
* *
11339838 CGAGCTAATGTCTTACACATGTAACCCCA
66 CGAGCTAAGGTCTTACACATATAACCCCA
* * *
11339867 TATTTAATATCTTGGCAGACTAC
1 TGTTTAATGTCCTGGCAGACTAC
11339890 TTTGGTTTCC
Statistics
Matches: 96, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
93 3 0.03
94 93 0.97
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (94 bp):
TGTTTAATGTCCTGGCAGACTACCCCATGTTTACTGTCCTAATGGACTACCTATGTCGCCATAAC
CGAGCTAAGGTCTTACACATATAACCCCA
Found at i:11346931 original size:16 final size:18
Alignment explanation
Indices: 11346890--11346984 Score: 60
Period size: 17 Copynumber: 5.4 Consensus size: 18
11346880 TAAAATTATA
11346890 TTAAATA-TATTAATAAT
1 TTAAATATTATTAATAAT
*
11346907 TTATTATATTATT-A-AAT
1 TTA-AATATTATTAATAAT
*
11346924 TTAAATATGTGTTTAATAAT
1 TTAAATAT-T-ATTAATAAT
*
11346944 ATTTAATATTA-TAAT-AT
1 -TTAAATATTATTAATAAT
*
11346961 TTGAAATATT-TTAA-AAA
1 TT-AAATATTATTAATAAT
11346978 TTAAATA
1 TTAAATA
11346985 AAATTTTACT
Statistics
Matches: 61, Mismatches: 7, Indels: 21
0.69 0.08 0.24
Matches are distributed among these distances:
16 11 0.18
17 24 0.39
18 10 0.16
19 5 0.08
20 4 0.07
21 7 0.11
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TTAAATATTATTAATAAT
Found at i:11357411 original size:39 final size:39
Alignment explanation
Indices: 11357365--11357441 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
11357355 GGGCTTAGGG
11357365 TTTTTGGTTATTGGGCTGGGGTGTATTGGGTAATTCGGT
1 TTTTTGGTTATTGGGCTGGGGTGTATTGGGTAATTCGGT
*
11357404 TTTTTGGTTATTGGGTTGGGGTGTATTGGGTAATTCGG
1 TTTTTGGTTATTGGGCTGGGGTGTATTGGGTAATTCGG
11357442 GTTAGACTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.10, C:0.04, G:0.39, T:0.47
Consensus pattern (39 bp):
TTTTTGGTTATTGGGCTGGGGTGTATTGGGTAATTCGGT
Found at i:11358106 original size:173 final size:173
Alignment explanation
Indices: 11357798--11358149 Score: 551
Period size: 173 Copynumber: 2.0 Consensus size: 173
11357788 ATTTAGTCGG
* * ** * *
11357798 TAAGACTTGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATTCGCT
1 TAAGACCTGATGAGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGAT
* *
11357863 CCACTACAACTTCAAGGAGATAGGATTATCGAATTCAATCTGCTCCACTGCAACCTCAGGGAGAT
66 CCACTACAACTTCAAGGAGATAGGATTATCGAATTCAATCTACTCCACTGAAACCTCAGGGAGAT
* *
11357928 AAGATTTGCTTCTTCAGTCTGCTCCACTGCAACTTCAGTGAGA
131 AAGATTTGCTTCTTCAGTCTGCCCCACTGCAACTTCAGGGAGA
* *
11357971 TAAGACCTGATGAGATCCACTCTACTGCAGCTTCAGAGAGATAAGCTCTATTACTTTAATCCGAT
1 TAAGACCTGATGAGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGAT
* *
11358036 CCACTATAACTTCAGGGAGATAGGATTATCGAATTCAATCTACTCCACTGAAACCTCAGGGAGAT
66 CCACTACAACTTCAAGGAGATAGGATTATCGAATTCAATCTACTCCACTGAAACCTCAGGGAGAT
* **
11358101 AAGATTTGCTTCTTCAGTCTGCCCCATTGTGACTTCAGGGAGA
131 AAGATTTGCTTCTTCAGTCTGCCCCACTGCAACTTCAGGGAGA
11358144 TAAGAC
1 TAAGAC
11358150 TCGTTTCTCA
Statistics
Matches: 162, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
173 162 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (173 bp):
TAAGACCTGATGAGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGAT
CCACTACAACTTCAAGGAGATAGGATTATCGAATTCAATCTACTCCACTGAAACCTCAGGGAGAT
AAGATTTGCTTCTTCAGTCTGCCCCACTGCAACTTCAGGGAGA
Found at i:11358209 original size:216 final size:217
Alignment explanation
Indices: 11357918--11358322 Score: 623
Period size: 216 Copynumber: 1.9 Consensus size: 217
11357908 CACTGCAACC
* * * * *
11357918 TCAGGGAGATAAGATTTGCTTCTTCAGTCTGCTCCACTGCAACTTCAGTGAGATAAGACCTGATG
1 TCAGGGAGATAAGACTCGCTTCTTCAGTCTGCTCCACTGCAACCTCAGGGAGACAAGACCTGATG
* * * *
11357983 AGATCCACTCTACTGCAGCTTCAGAGAGATAAGCTCTATTACTTTAATCCGATCCACTATAACTT
66 AGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAATCCGATCCACTACAACTT
11358048 CAGGGAGATAGGATTATCGAATTCAATCTACTCCACTGAAACCTCAGGGAGATAAGATTTGCTTC
131 CAGGGAGATAGGATTATCGAATTCAATCTACTCCACTGAAACCTCAGGGAGATAAGATTTGCTTC
11358113 TTCAGTCTGCCCCATTGTGACT
196 TTCAGTCTGCCCCATTGTGACT
* * *
11358135 TCAGGGAGATAAGACTCGTTTC-TCAGTCTGGTCCGCTGCAACCTCAGGGAGACAAGACCTGATG
1 TCAGGGAGATAAGACTCGCTTCTTCAGTCTGCTCCACTGCAACCTCAGGGAGACAAGACCTGATG
* **
11358199 CGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAATCCTCTCCACTACAACTT
66 AGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAATCCGATCCACTACAACTT
* * * * *
11358264 CAGGGAGATAGGATTATTGACTTCAATCTGCTCCATTGCAACCTCAGGGAGATAAGATT
131 CAGGGAGATAGGATTATCGAATTCAATCTACTCCACTGAAACCTCAGGGAGATAAGATT
11358323 GGTCATCTTC
Statistics
Matches: 168, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
216 149 0.89
217 19 0.11
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (217 bp):
TCAGGGAGATAAGACTCGCTTCTTCAGTCTGCTCCACTGCAACCTCAGGGAGACAAGACCTGATG
AGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAATCCGATCCACTACAACTT
CAGGGAGATAGGATTATCGAATTCAATCTACTCCACTGAAACCTCAGGGAGATAAGATTTGCTTC
TTCAGTCTGCCCCATTGTGACT
Found at i:11358298 original size:44 final size:44
Alignment explanation
Indices: 11357812--11358523 Score: 300
Period size: 44 Copynumber: 16.5 Consensus size: 44
11357802 ACTTGATGTG
* * *
11357812 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATT-ACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATTGACTTCA
* * * * *
11357856 AT-TCGCTCCACTACAACTTCAAGGAGATAGGATTATCGAATTCA
1 ATCT-GCTCCACTGCAACTTCAGGGAGATAAGATTATTGACTTCA
* *
11357900 ATCTGCTCCACTGCAACCTCAGGGAGATAAGA-T-TTGCTTCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTG--ACTTCA
* * * ** *
11357944 GTCTGCTCCACTGCAACTTCAGTGAGATAAGACCTGA-TGAGATCC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA--TTATTGACTTCA
* * * *
11357989 A-CT-CT--ACTGCAGCTTCAGAGAGATAAGCTCTATT-ACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATTGACTTCA
* * ** * * *
11358029 ATCCGATCCACTATAACTTCAGGGAGATAGGATTATCGAATTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGACTTCA
* * * *
11358073 ATCTACTCCACTGAAACCTCAGGGAGATAAGA-T-TTGCTTCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTG--ACTTCA
* * * ** ** *
11358117 GTCTGCCCCATTGTGACTTCAGGGAGATAAGACTCGTT-TC-TCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTATTGACTTCA
* * * * * ** * *
11358160 GTCTGGTCCGCTGCAACCTCAGGGAGACAAGA--CCTGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGACTTCA
** * * * *
11358201 ATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATT-ACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATTGACTTCA
* *
11358245 ATCCT-CTCCACTACAACTTCAGGGAGATAGGATTATTGACTTCA
1 AT-CTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGACTTCA
* * ** * *
11358289 ATCTGCTCCATTGCAACCTCAGGGAGATAAGATTGGTCATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGA-CTTCA
* * **
11358334 ATCTGCCCCACTGCAACTTCATCGG-GATAAGGACCTGCTT-ACTT-A
1 ATCTGCTCCACTGCAACTTCA-GGGAGATAA-GA--TTATTGACTTCA
* * * * **
11358379 GTCTGCTCTACTGTAACTTTAGGGAGATAAGACCA-T--C--C-
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGACTTCA
* * * *
11358417 A-CT-CT--ACTACAACTTCAGGGAGATAGGATTATCGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGACTTCA
* ** * *
11358457 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTCATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGA-CTTCA
*
11358502 ATCTGCCCCACTGCAACTTCAG
1 ATCTGCTCCACTGCAACTTCAG
11358524 TCGGGATAAG
Statistics
Matches: 481, Mismatches: 139, Indels: 95
0.67 0.19 0.13
Matches are distributed among these distances:
34 20 0.04
36 2 0.00
37 3 0.01
39 2 0.00
40 7 0.01
41 49 0.10
42 7 0.01
43 44 0.09
44 257 0.53
45 76 0.16
46 7 0.01
47 5 0.01
48 2 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGACTTCA
Found at i:11358404 original size:90 final size:90
Alignment explanation
Indices: 11358309--11358578 Score: 295
Period size: 90 Copynumber: 3.1 Consensus size: 90
11358299 TTGCAACCTC
11358309 AGGGAGATAAGATTGGTCATCTTCGATCTGCCCCACTGCAACTTCATCGGGATAAGGACCTGCTT
1 AGGGAGATAAGATTGGTCATCTTCGATCTGCCCCACTGCAACTTCATCGGGATAAGGACCTGCTT
11358374 ACTTAGTCTGCTCTACTGTAACTTT
66 ACTTAGTCTGCTCTACTGTAACTTT
* * * * * *
11358399 AGGGAGATAAGA----CCATC--C-A-CT---CTACTACAACTTCA-GGGAGAT-AGGATTATCG
1 AGGGAGATAAGATTGGTCATCTTCGATCTGCCCCACTGCAACTTCATCGG-GATAAGG---ACCT
* * *
11358451 GCTT-C--AATCTGCTCCACTGTAACTTC
62 GCTTACTTAGTCTGCTCTACTGTAACTTT
11358477 AGGGAGATAAGATTGGTCATCTTCGATCTGCCCCACTGCAACTTCAGTCGGGATAA-GACCTGCT
1 AGGGAGATAAGATTGGTCATCTTCGATCTGCCCCACTGCAACTTCA-TCGGGATAAGGACCTGCT
11358541 TACTTAGTCTGCTCTACTGTAACTTT
65 TACTTAGTCTGCTCTACTGTAACTTT
11358567 AGGGAGATAAGA
1 AGGGAGATAAGA
11358579 CCTGATGTGA
Statistics
Matches: 141, Mismatches: 18, Indels: 42
0.70 0.09 0.21
Matches are distributed among these distances:
78 35 0.25
79 15 0.11
80 1 0.01
81 6 0.04
82 6 0.04
83 1 0.01
84 2 0.01
85 1 0.01
86 6 0.04
87 6 0.04
88 1 0.01
89 12 0.09
90 46 0.33
91 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (90 bp):
AGGGAGATAAGATTGGTCATCTTCGATCTGCCCCACTGCAACTTCATCGGGATAAGGACCTGCTT
ACTTAGTCTGCTCTACTGTAACTTT
Found at i:11358446 original size:168 final size:168
Alignment explanation
Indices: 11358245--11358580 Score: 593
Period size: 168 Copynumber: 2.0 Consensus size: 168
11358235 CATTACTTTA
* * *
11358245 ATCCTCTCCACTACAACTTCAGGGAGATAGGATTATTGACTTCAATCTGCTCCATTGCAACCTCA
1 ATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCA
11358310 GGGAGATAAGATTGGTCATCTTCGATCTGCCCCACTGCAACTTCA-TCGGGATAAGGACCTGCTT
66 GGGAGATAAGATTGGTCATCTTCGATCTGCCCCACTGCAACTTCAGTCGGGATAA-GACCTGCTT
11358374 ACTTAGTCTGCTCTACTGTAACTTTAGGGAGATAAGACC
130 ACTTAGTCTGCTCTACTGTAACTTTAGGGAGATAAGACC
* * * *
11358413 ATCCACTCTACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACTTCA
1 ATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCA
11358478 GGGAGATAAGATTGGTCATCTTCGATCTGCCCCACTGCAACTTCAGTCGGGATAAGACCTGCTTA
66 GGGAGATAAGATTGGTCATCTTCGATCTGCCCCACTGCAACTTCAGTCGGGATAAGACCTGCTTA
11358543 CTTAGTCTGCTCTACTGTAACTTTAGGGAGATAAGACC
131 CTTAGTCTGCTCTACTGTAACTTTAGGGAGATAAGACC
11358581 TGATGTGATC
Statistics
Matches: 160, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
168 151 0.94
169 9 0.06
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (168 bp):
ATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCA
GGGAGATAAGATTGGTCATCTTCGATCTGCCCCACTGCAACTTCAGTCGGGATAAGACCTGCTTA
CTTAGTCTGCTCTACTGTAACTTTAGGGAGATAAGACC
Found at i:11358507 original size:45 final size:44
Alignment explanation
Indices: 11358427--11358578 Score: 130
Period size: 45 Copynumber: 3.4 Consensus size: 44
11358417 ACTCTACTAC
* * *
11358427 AACTTCAGGGAGATAGGATT-ATCGGCTTCAATCTGCTCCACTGT
1 AACTTCAGGGAGATAAGATTGATC-ACTTCGATCTGCTCCACTGT
* * *
11358471 AACTTCAGGGAGATAAGATTGGTCATCTTCGATCTGCCCCACTGC
1 AACTTCAGGGAGATAAGATTGATCA-CTTCGATCTGCTCCACTGT
* * * * *
11358516 AACTTCAGTCGG-GATAAGACCTGCTTACTTAG-TCTGCTCTACTGT
1 AACTTCAG--GGAGATAAGA-TTGATCACTTCGATCTGCTCCACTGT
*
11358561 AACTTTAGGGAGATAAGA
1 AACTTCAGGGAGATAAGA
11358579 CCTGATGTGA
Statistics
Matches: 88, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
43 2 0.02
44 26 0.30
45 43 0.49
46 11 0.12
47 6 0.07
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATTGATCACTTCGATCTGCTCCACTGT
Found at i:11358770 original size:43 final size:43
Alignment explanation
Indices: 11358650--11359049 Score: 511
Period size: 43 Copynumber: 9.3 Consensus size: 43
11358640 CCTTACACTT
* *
11358650 GAAGATAAGATTCGCCGTCTTCGATCTGTTTCCCTACTCTTGGG
1 GAAGATAAGATCCGCCG-CTTAGATCTGTTTCCCTACTCTTGGG
* * * **
11358694 AAAGATAAGATTCG-TGCTTAGATCTGCCTCCCTACTCTTGGG
1 GAAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCTTGGG
* *
11358736 AAAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCCTGGG
1 GAAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCTTGGG
* * ** * *
11358779 GAAGATAATATCCG-TGCTTAGATCTGCCTCCCTACTCCTGAG
1 GAAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCTTGGG
* * **
11358821 AAAGATAAGATTCGCCGCTTAGATCTGCCTCCCTACTCTTGGG
1 GAAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCTTGGG
*
11358864 GAAGATAAGATCCGCCGCTTAGATCCGTTTCCCTACTCTTGGG
1 GAAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCTTGGG
* *
11358907 GAAGATAAGATCCGCCGTTTAGATCTGTTTCCCTACTCCTGGG
1 GAAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCTTGGG
* * *
11358950 GAAGATAAGATTCG-TGCTTAGATCTGTTTCCCTACT-TCTGGA
1 GAAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCT-TGGG
* *
11358992 GAAGATAAGATCCGCCGCTTAGATCCGTTTCCCTACTCCTGGG
1 GAAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCTTGGG
11359035 GAAGATAAGATCCGC
1 GAAGATAAGATCCGC
11359050 AATCTTCACT
Statistics
Matches: 311, Mismatches: 40, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
42 107 0.34
43 191 0.61
44 13 0.04
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (43 bp):
GAAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCTTGGG
Found at i:11358771 original size:85 final size:85
Alignment explanation
Indices: 11358651--11359048 Score: 548
Period size: 85 Copynumber: 4.7 Consensus size: 85
11358641 CTTACACTTG
* * * * *
11358651 AAGATAAGATTCGCCGTCTTCGATCTGTTTCCCTACTCTTGGGAAAGATAAGATTCGTGCTTAGA
1 AAGATAAGATCCGCCG-CTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCCGTGCTTAGA
11358716 TCTGCCTCCCTACTCTTGGGA
65 TCTGCCTCCCTACTCTTGGGA
*
11358737 AAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAATATCCGTGCTTAGAT
1 AAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCCGTGCTTAGAT
* *
11358802 CTGCCTCCCTACTCCTGAGA
66 CTGCCTCCCTACTCTTGGGA
* ** * *
11358822 AAGATAAGATTCGCCGCTTAGATCTGCCTCCCTACTCTTGGGGAAGATAAGATCCGCCGCTTAGA
1 AAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCCG-TGCTTAGA
* ** *
11358887 TCCGTTTCCCTACTCTTGGGG
65 TCTGCCTCCCTACTCTTGGGA
* *
11358908 AAGATAAGATCCGCCGTTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGTGCTTAGAT
1 AAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCCGTGCTTAGAT
**
11358973 CTGTTTCCCTACT-TCT-GGA
66 CTGCCTCCCTACTCT-TGGGA
*
11358992 GAAGATAAGATCCGCCGCTTAGATCCGTTTCCCTACTCCTGGGGAAGATAAGATCCG
1 -AAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCCG
11359049 CAATCTTCAC
Statistics
Matches: 277, Mismatches: 32, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
84 3 0.01
85 187 0.68
86 87 0.31
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (85 bp):
AAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCCGTGCTTAGAT
CTGCCTCCCTACTCTTGGGA
Found at i:11358869 original size:128 final size:128
Alignment explanation
Indices: 11358650--11359049 Score: 588
Period size: 128 Copynumber: 3.1 Consensus size: 128
11358640 CCTTACACTT
* * ** *
11358650 GAAGATAAGATTCGCCGTCTTCGATCTGTTTCCCTACTCTTGGGAAAGATAAGATTCGTGCTTAG
1 GAAGATAAGATCCGCCG-CTTAGATCTGCCTCCCTACTCCTGGGAAAGATAAGATTCGTGCTTAG
* *
11358715 ATCTGCCTCCCTACTCTTGGGAAAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCCTGGG
65 ATCTGCCTCCCTACTCTTGGGGAAGATAAGATCCGCCGCTTAGATCCGTTTCCCTACTCCTGGG
* * * *
11358779 GAAGATAATATCCG-TGCTTAGATCTGCCTCCCTACTCCTGAGAAAGATAAGATTCGCCGCTTAG
1 GAAGATAAGATCCGCCGCTTAGATCTGCCTCCCTACTCCTGGGAAAGATAAGATTCG-TGCTTAG
*
11358843 ATCTGCCTCCCTACTCTTGGGGAAGATAAGATCCGCCGCTTAGATCCGTTTCCCTACTCTTGGG
65 ATCTGCCTCCCTACTCTTGGGGAAGATAAGATCCGCCGCTTAGATCCGTTTCCCTACTCCTGGG
* ** *
11358907 GAAGATAAGATCCGCCGTTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGTGCTTAGA
1 GAAGATAAGATCCGCCGCTTAGATCTGCCTCCCTACTCCTGGGAAAGATAAGATTCGTGCTTAGA
** *
11358972 TCTGTTTCCCTACT-TCTGGAGAAGATAAGATCCGCCGCTTAGATCCGTTTCCCTACTCCTGGG
66 TCTGCCTCCCTACTCT-TGGGGAAGATAAGATCCGCCGCTTAGATCCGTTTCCCTACTCCTGGG
11359035 GAAGATAAGATCCGC
1 GAAGATAAGATCCGC
11359050 AATCTTCACT
Statistics
Matches: 244, Mismatches: 24, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
127 36 0.15
128 160 0.66
129 48 0.20
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (128 bp):
GAAGATAAGATCCGCCGCTTAGATCTGCCTCCCTACTCCTGGGAAAGATAAGATTCGTGCTTAGA
TCTGCCTCCCTACTCTTGGGGAAGATAAGATCCGCCGCTTAGATCCGTTTCCCTACTCCTGGG
Found at i:11358887 original size:171 final size:171
Alignment explanation
Indices: 11358650--11359049 Score: 597
Period size: 171 Copynumber: 2.3 Consensus size: 171
11358640 CCTTACACTT
* * * *
11358650 GAAGATAAGATTCGCCGTCTTCGATCTGTTTCCCTACTCTTGGGAAAGATAAGATTCG-TGCTTA
1 GAAGATAAGATTCGCCG-CTTAGATCTGTTTCCCTACTCTTGGGGAAGATAAGATCCGCCGCTTA
*
11358714 GATCTGCCTCCCTACTCTTGGGAAAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCCTGGG
65 GATCCGCCTCCCTACTCTTGGGAAAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCCTGGG
*
11358779 GAAGATAATATCCGTGCTTAGATCTGCCTCCCTACTCCT-GA
130 GAAGATAAGATCCGTGCTTAGATCTGCCTCCCTACTCCTGGA
**
11358820 GAAAGATAAGATTCGCCGCTTAGATCTGCCTCCCTACTCTTGGGGAAGATAAGATCCGCCGCTTA
1 G-AAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCTTGGGGAAGATAAGATCCGCCGCTTA
** * *
11358885 GATCCGTTTCCCTACTCTTGGGGAAGATAAGATCCGCCGTTTAGATCTGTTTCCCTACTCCTGGG
65 GATCCGCCTCCCTACTCTTGGGAAAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCCTGGG
* ** *
11358950 GAAGATAAGATTCGTGCTTAGATCTGTTTCCCTACTTCTGGA
130 GAAGATAAGATCCGTGCTTAGATCTGCCTCCCTACTCCTGGA
* * *
11358992 GAAGATAAGATCCGCCGCTTAGATCCGTTTCCCTACTCCTGGGGAAGATAAGATCCGC
1 GAAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCTTGGGGAAGATAAGATCCGC
11359050 AATCTTCACT
Statistics
Matches: 206, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
170 36 0.17
171 167 0.81
172 3 0.01
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (171 bp):
GAAGATAAGATTCGCCGCTTAGATCTGTTTCCCTACTCTTGGGGAAGATAAGATCCGCCGCTTAG
ATCCGCCTCCCTACTCTTGGGAAAGATAAGATCCGCCGCTTAGATCTGTTTCCCTACTCCTGGGG
AAGATAAGATCCGTGCTTAGATCTGCCTCCCTACTCCTGGA
Found at i:11360275 original size:6 final size:7
Alignment explanation
Indices: 11360258--11360286 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
11360248 GCCTCTCCAT
11360258 TTTTTCA
1 TTTTTCA
11360265 TTTTTCA
1 TTTTTCA
11360272 TTTTTCA
1 TTTTTCA
11360279 -TTTTCA
1 TTTTTCA
11360285 TT
1 TT
11360287 CTTCTTCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTTCA
Found at i:11361211 original size:58 final size:57
Alignment explanation
Indices: 11361135--11361281 Score: 148
Period size: 58 Copynumber: 2.6 Consensus size: 57
11361125 TGGCCTCTCC
* *
11361135 TTTTCTT-TTTTATT-TTTTCTTTTTCATTCTGATTTTTTCATCTAGA-TTT-CTTTT
1 TTTTCTTCTTTT-TTCTTTTCTTTTTCATTTTGATTTTTTCATCTAGATTTTGATTTT
* * * *
11361189 TTTTCTTTCTTTTTCTCATTTTCATTTTCATTTTCA--TTTTGATCTTGATTTTGATTTT
1 TTTTC-TTCTTTTT-TC-TTTTCTTTTTCATTTTGATTTTTTCATCTAGATTTTGATTTT
11361247 TTTTCTTCTTTTTTCTTTT-TTTTT-ATTTTGATTTT
1 TTTTCTTCTTTTTTCTTTTCTTTTTCATTTTGATTTT
11361282 GATTTTTGAT
Statistics
Matches: 76, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
53 6 0.08
54 9 0.12
55 9 0.12
56 17 0.22
57 11 0.14
58 24 0.32
ACGTcount: A:0.10, C:0.12, G:0.04, T:0.73
Consensus pattern (57 bp):
TTTTCTTCTTTTTTCTTTTCTTTTTCATTTTGATTTTTTCATCTAGATTTTGATTTT
Found at i:11361213 original size:6 final size:6
Alignment explanation
Indices: 11361204--11361228 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11361194 TTTCTTTTTC
11361204 TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT T
11361229 GATCTTGATT
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:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:11361239 original size:18 final size:18
Alignment explanation
Indices: 11361204--11361246 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
11361194 TTTCTTTTTC
*
11361204 TCATTTTCATTTTCATTT
1 TCATTTTCATCTTCATTT
* *
11361222 TCATTTTGATCTTGATTT
1 TCATTTTCATCTTCATTT
*
11361240 TGATTTT
1 TCATTTT
11361247 TTTTCTTCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.16, C:0.12, G:0.07, T:0.65
Consensus pattern (18 bp):
TCATTTTCATCTTCATTT
Found at i:11361281 original size:12 final size:12
Alignment explanation
Indices: 11361206--11361295 Score: 58
Period size: 12 Copynumber: 7.5 Consensus size: 12
11361196 TCTTTTTCTC
* *
11361206 ATTTTCATTTTC
1 ATTTTTATTTTG
*
11361218 ATTTTCATTTTG
1 ATTTTTATTTTG
* *
11361230 ATCTTGATTTTG
1 ATTTTTATTTTG
* *
11361242 ATTTTTTTTCTTC
1 ATTTTTATT-TTG
* *
11361255 TTTTTTCTTTT-
1 ATTTTTATTTTG
11361266 -TTTTTATTTTG
1 ATTTTTATTTTG
*
11361277 ATTTTGATTTTTG
1 ATTTTTA-TTTTG
11361290 ATTTTT
1 ATTTTT
11361296 TTTAAATTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
10 9 0.15
12 34 0.55
13 19 0.31
ACGTcount: A:0.12, C:0.08, G:0.07, T:0.73
Consensus pattern (12 bp):
ATTTTTATTTTG
Found at i:11366265 original size:19 final size:19
Alignment explanation
Indices: 11366237--11366273 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11366227 GACAGATTTC
*
11366237 TTTTGATTTTTTGATTTTA
1 TTTTGATTTTTTCATTTTA
*
11366256 TTTTGTTTTTTTCATTTT
1 TTTTGATTTTTTCATTTT
11366274 TGGCTATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.03, G:0.08, T:0.78
Consensus pattern (19 bp):
TTTTGATTTTTTCATTTTA
Found at i:11375687 original size:21 final size:21
Alignment explanation
Indices: 11375649--11375712 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
11375639 TAGATAATGT
**
11375649 TTATTAATTATATGTTTTAATA
1 TTATTAA-TATAAATTTTAATA
11375671 TTATTAATATAAATTTTAAATA
1 TTATTAATATAAATTTT-AATA
*
11375693 TT-TT-ATAATAAATTTAAATA
1 TTATTAAT-ATAAATTTTAATA
11375713 AAAATATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.16
21 18 0.49
22 13 0.35
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TTATTAATATAAATTTTAATA
Found at i:11375692 original size:22 final size:22
Alignment explanation
Indices: 11375649--11375712 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
11375639 TAGATAATGT
* *
11375649 TTATTAAT-TATATGTTTTAATA
1 TTATTAATATAAAT-TTTAAATA
11375671 TTATTAATATAAATTTTAAATA
1 TTATTAATATAAATTTTAAATA
11375693 TT-TT-ATAATAAA-TTTAAATA
1 TTATTAAT-ATAAATTTTAAATA
11375713 AAAATATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
20 10 0.26
21 7 0.18
22 17 0.45
23 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTATTAATATAAATTTTAAATA
Found at i:11390634 original size:1 final size:1
Alignment explanation
Indices: 11390628--11390727 Score: 65
Period size: 1 Copynumber: 100.0 Consensus size: 1
11390618 ACAGTGGAGG
* * * * * * * * * *
11390628 AAAAAAAAACAAAAGAATAAAAAAAACAAGAAAAAACAAGAAAATAAAAAATAAAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
11390693 AAAACAAGAAAATAAAAAATAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11390728 CTCTACCGGG
Statistics
Matches: 69, Mismatches: 30, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.85, C:0.06, G:0.04, T:0.05
Consensus pattern (1 bp):
A
Found at i:11390661 original size:25 final size:26
Alignment explanation
Indices: 11390628--11390720 Score: 93
Period size: 27 Copynumber: 3.5 Consensus size: 26
11390618 ACAGTGGAGG
*
11390628 AAAAAAAAACAAAAG-AATAAAAAAA
1 AAAAAAAAACAAAAGAAATAAAAAAT
*
11390653 ACAAGAAAAAACAAGA-AAATAAAAAAT
1 A-AA-AAAAAACAAAAGAAATAAAAAAT
*
11390680 AAAAAAAAACAAAA-AAACAAGAAAAT
1 AAAAAAAAACAAAAGAAATAA-AAAAT
*
11390706 AAAAAATAAAAAAAA
1 AAAAAA-AAACAAAA
11390721 CAAAAAACTC
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
25 16 0.28
26 15 0.26
27 27 0.47
ACGTcount: A:0.85, C:0.05, G:0.04, T:0.05
Consensus pattern (26 bp):
AAAAAAAAACAAAAGAAATAAAAAAT
Found at i:11390661 original size:27 final size:24
Alignment explanation
Indices: 11390628--11390727 Score: 96
Period size: 23 Copynumber: 4.1 Consensus size: 24
11390618 ACAGTGGAGG
11390628 AAAAAAAAACAAAAGAATAAAAAAA
1 AAAAAAAAACAAAA-AATAAAAAAA
*
11390653 ACAAGAAAAAACAAGAAAATAAAAAAT
1 A-AA-AAAAAACAA-AAAATAAAAAAA
* *
11390680 AAAAAAAAACAAAAAA-ACAAGAA
1 AAAAAAAAACAAAAAATAAAAAAA
* * *
11390703 AATAAAAAATAAAAAA-AACAAAA
1 AAAAAAAAACAAAAAATAAAAAAA
11390726 AA
1 AA
11390728 CTCTACCGGG
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
23 24 0.38
24 4 0.06
25 10 0.16
26 4 0.06
27 19 0.30
28 2 0.03
ACGTcount: A:0.85, C:0.06, G:0.04, T:0.05
Consensus pattern (24 bp):
AAAAAAAAACAAAAAATAAAAAAA
Found at i:11390695 original size:33 final size:32
Alignment explanation
Indices: 11390633--11390727 Score: 145
Period size: 33 Copynumber: 2.8 Consensus size: 32
11390623 GGAGGAAAAA
*
11390633 AAAACAAAAGAATAAAAAAAACAAGAAAAAACAAG
1 AAAATAAAA-AATAAAAAAAAC-A-AAAAAACAAG
11390668 AAAATAAAAAATAAAAAAAAACAAAAAAACAAG
1 AAAATAAAAAAT-AAAAAAAACAAAAAAACAAG
11390701 AAAATAAAAAATAAAAAAAACAAAAAA
1 AAAATAAAAAATAAAAAAAACAAAAAA
11390728 CTCTACCGGG
Statistics
Matches: 58, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
32 15 0.26
33 22 0.38
34 4 0.07
35 17 0.29
ACGTcount: A:0.84, C:0.06, G:0.04, T:0.05
Consensus pattern (32 bp):
AAAATAAAAAATAAAAAAAACAAAAAAACAAG
Found at i:11390725 original size:8 final size:8
Alignment explanation
Indices: 11390630--11390727 Score: 83
Period size: 8 Copynumber: 11.8 Consensus size: 8
11390620 AGTGGAGGAA
11390630 AAAAAAAC
1 AAAAAAAC
11390638 AAAAGAATA-
1 AAAA-AA-AC
11390647 AAAAAAAC
1 AAAAAAAC
11390655 AAGAAAAAAC
1 -A-AAAAAAC
* *
11390665 AAGAAAAT
1 AAAAAAAC
*
11390673 AAAAAATAA
1 AAAAAA-AC
11390682 AAAAAAAC
1 AAAAAAAC
11390690 AAAAAAAC
1 AAAAAAAC
* *
11390698 AAGAAAAT
1 AAAAAAAC
11390706 AAAAAATA-
1 AAAAAA-AC
11390714 AAAAAAAC
1 AAAAAAAC
11390722 AAAAAA
1 AAAAAA
11390728 CTCTACCGGG
Statistics
Matches: 74, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
7 2 0.03
8 48 0.65
9 16 0.22
10 8 0.11
ACGTcount: A:0.85, C:0.06, G:0.04, T:0.05
Consensus pattern (8 bp):
AAAAAAAC
Found at i:11392179 original size:24 final size:24
Alignment explanation
Indices: 11392152--11392197 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11392142 TACAATTGAC
*
11392152 TGAACCTTGAAGATTACAGTGGAT
1 TGAAACTTGAAGATTACAGTGGAT
* *
11392176 TGAAATTTGAAGATTATAGTGG
1 TGAAACTTGAAGATTACAGTGG
11392198 GGGCAATCCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.33
Consensus pattern (24 bp):
TGAAACTTGAAGATTACAGTGGAT
Found at i:11392528 original size:44 final size:43
Alignment explanation
Indices: 11392474--11393019 Score: 328
Period size: 44 Copynumber: 12.7 Consensus size: 43
11392464 ACAATCCTAA
* *
11392474 CTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCACAGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAGATCTTAT
* * * * * *
11392518 CTCTCTGAAGTTGCAGTAGAGCAGATCACATC-CAG-GCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCTTAT
* * *
11392559 CTCCTTGAAGTTGCAGTGGAGCAGCA-AACGAAAC-CA-ATCCTAT
1 CTCCCTGAAGTTGCAGTGGAGCAG-ATAA--AACCACAGATCTTAT
* *
11392602 CTCCCTGAAGTTGCAGTGGAGCGGATAAAAACCATAGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGAT-AAAACCACAGATCTTAT
* * * *** *
11392646 CTCTCTGAAGTTGCAGTAGACCAGATCGCATC-CAG-TCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCTTAT
* * ** *
11392687 CTCCCTGAAGTTGCAATGGAGCAGACAAAAGAAACCA-ATCCTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATAAAA-CCA-CAGATCTTAT
* * *
11392731 CTCCCTGAAGTTGCAATGGAGCGGATTAAAACCATAGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAGATCTTAT
** * * *** *
11392775 CTCTTTGAAGTTACAGTAGAGCAGATCGCATC-CAG-TCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCTTAT
* * ** *
11392816 CTCCCTGAAGTTGCAGTGGAGTAGACAAAAGGAACCA-ATCCTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATAAAA-CCA-CAGATCTTAT
* * ** * *
11392860 CTCCCTAAAGTTGCAATGGAGTGGATTAAAACCAGAAATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAGATCTTAT
* * * *** *
11392904 CTCTCTGAAGTTGCAGTAGAGTAGATCGCATC-CAG-TCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCTTAT
* * * *
11392945 CTCCCTGAAGTTGCAGTGGAGCAGACTGAAGCTACTA-ATCCTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCAC-AGATCTTAT
* *
11392989 CTCCCTGAAGTTACAGTGGAGCGGATTAAAA
1 CTCCCTGAAGTTGCAGTGGAGCAGA-TAAAA
11393020 TGATGAATCT
Statistics
Matches: 374, Mismatches: 104, Indels: 48
0.71 0.20 0.09
Matches are distributed among these distances:
41 110 0.29
42 14 0.04
43 46 0.12
44 196 0.52
45 8 0.02
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (43 bp):
CTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCTTAT
Found at i:11392707 original size:85 final size:83
Alignment explanation
Indices: 11392512--11392966 Score: 315
Period size: 85 Copynumber: 5.3 Consensus size: 83
11392502 AAACCACAGA
* * * * * * * *
11392512 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAG-GCTTATCTCCTTGAAGTTGCAGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATAAAAACCAGATCTTATCTCCCTGAAGTTGCAGT
* * * *
11392576 GGAGCAGCAAACGAAACCAA
66 AGAGCAG--ATCGCAACCAG
* *
11392596 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATAAAAACCATAGATCTTATCTCTCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATAAAAACC--AGATCTTATCTCCCTGAAGTTGCA
* *
11392661 GTAGACCAGATCGCATCCAG
64 GTAGAGCAGATCGCAACCAG
* * * *
11392681 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACAAAAGAAACCA-ATCCTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGC-G-GATAA-AAACCAGATCTTATCTCCCTGAAGTTGC
* * * ***
11392745 AATGGAGCGGATTAAAACCATAG
63 AGTAGAGCAGATCGCAACC--AG
** * * * *** *
11392768 ATCTTATCTCTTTGAAGTTACAGTAGAGCAGATCGCATCCAG-TCTTATCTCCCTGAAGTTGCAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATAAAAACCAGATCTTATCTCCCTGAAGTTGCAG
** * *
11392832 TGGAGTAGACA-AAAGGAACCAA
65 T--AG-AG-CAGATCGCAACCAG
* * * * * *
11392854 TCCTATCTCCCTAAAGTTGCAATGGAGTGGATTAAAACCAGAAATCTTATCTCTCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATAAAAACCAG--ATCTTATCTCCCTGAAGTTGCA
* *
11392919 GTAGAGTAGATCGCATCCAG
64 GTAGAGCAGATCGCAACCAG
11392939 TCTTATCTCCCTGAAGTTGCAGTGGAGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGC
11392967 AGACTGAAGC
Statistics
Matches: 278, Mismatches: 75, Indels: 35
0.72 0.19 0.09
Matches are distributed among these distances:
84 33 0.12
85 148 0.53
86 8 0.03
87 31 0.11
88 57 0.21
89 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (83 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATAAAAACCAGATCTTATCTCCCTGAAGTTGCAGT
AGAGCAGATCGCAACCAG
Found at i:11393048 original size:129 final size:129
Alignment explanation
Indices: 11392465--11393019 Score: 860
Period size: 129 Copynumber: 4.3 Consensus size: 129
11392455 AGTAAAGCTA
* * *
11392465 CAATCCTAACTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTT
* * * *
11392530 GCAGTAGAGCAGATCACATCCAGGCTTATCTCCTTGAAGTTGCAGTGGAGCAG-CAAACGAAAC
66 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAAC
*
11392593 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATAAAAACCATAGATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTT
* *
11392658 GCAGTAGACCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAAAAGAAAC
66 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAAC
* *
11392722 CAATCCTATCTCCCTGAAGTTGCAATGGAGCGGATTAAAACCATAGATCTTATCTCTTTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTT
* * *
11392787 ACAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAAAAGGAAC
66 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAAC
* * * * *
11392851 CAATCCTATCTCCCTAAAGTTGCAATGGAGTGGATTAAAACCAGAAATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTT
* ** **
11392916 GCAGTAGAGTAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGCTAC
66 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAAC
* *
11392980 TAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
11393020 TGATGAATCT
Statistics
Matches: 391, Mismatches: 35, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
128 109 0.28
129 282 0.72
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (129 bp):
CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTT
GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAAC
Found at i:11395975 original size:22 final size:23
Alignment explanation
Indices: 11395950--11395994 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
11395940 TATTTTTTAT
*
11395950 ATAC-CTTATAATTTATATATAC
1 ATACACTTATAATATATATATAC
*
11395972 ATACATTTTATAATATATATATA
1 ATACA-CTTATAATATATATATA
11395995 TATGGACATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
24 15 0.79
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (23 bp):
ATACACTTATAATATATATATAC
Found at i:11400048 original size:55 final size:55
Alignment explanation
Indices: 11399989--11400110 Score: 181
Period size: 55 Copynumber: 2.2 Consensus size: 55
11399979 ACAGAATCAA
* * *
11399989 CACAAAGGCTCCCACTTAACATATTTTGCCATGAAAGCGCATTCATAGAGTCGAC
1 CACAAAGGCTCCCACTTAACATATTTCGCCACGAAAGCACATTCATAGAGTCGAC
** *
11400044 CACAAAGGCTTTCACTTAACATATTTCGCCACGAAAGCACATTCATAGAGTCGAT
1 CACAAAGGCTCCCACTTAACATATTTCGCCACGAAAGCACATTCATAGAGTCGAC
*
11400099 CACTAAGGCTCC
1 CACAAAGGCTCC
11400111 ATATAACATA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (55 bp):
CACAAAGGCTCCCACTTAACATATTTCGCCACGAAAGCACATTCATAGAGTCGAC
Found at i:11404119 original size:26 final size:27
Alignment explanation
Indices: 11404073--11404137 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 27
11404063 TTAACTCTTA
* * *
11404073 TGAGCGTCCCG-TTATATGGCTCTTCG
1 TGAGCTTCCCGATTATAAGGCTATTCG
*
11404099 TGAGCTTCCCGATTA-AAGGCTATTTG
1 TGAGCTTCCCGATTATAAGGCTATTCG
* *
11404125 TGAGTTTCTCGAT
1 TGAGCTTCCCGAT
11404138 ATGGCTCGCT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 29 0.91
27 3 0.09
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.37
Consensus pattern (27 bp):
TGAGCTTCCCGATTATAAGGCTATTCG
Found at i:11404247 original size:24 final size:24
Alignment explanation
Indices: 11404220--11404318 Score: 78
Period size: 24 Copynumber: 4.1 Consensus size: 24
11404210 ATTAGCTTGC
11404220 ATGAGCTTCCTGATTATGGCTCTT
1 ATGAGCTTCCTGATTATGGCTCTT
* **
11404244 ATGAGCTTCCT-ATTATAGCTCGA
1 ATGAGCTTCCTGATTATGGCTCTT
* *
11404267 ATAAGCTTTCC-G-TTACATGGCTCAT
1 ATGAGC-TTCCTGATT--ATGGCTCTT
* *
11404292 ATGAGCTTCCTGTTTATGTGCTTTT
1 ATGAGCTTCCTGATTATG-GCTCTT
11404317 AT
1 AT
11404319 AAGCACTCCT
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
23 16 0.28
24 22 0.38
25 18 0.31
26 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (24 bp):
ATGAGCTTCCTGATTATGGCTCTT
Found at i:11404273 original size:23 final size:24
Alignment explanation
Indices: 11404223--11404274 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
11404213 AGCTTGCATG
* ** *
11404223 AGCTTCCTGATTATGGCTCTTATG
1 AGCTTCCTGATTATAGCTCGAATA
11404247 AGCTTCCT-ATTATAGCTCGAATA
1 AGCTTCCTGATTATAGCTCGAATA
11404270 AGCTT
1 AGCTT
11404275 TCCGTTACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (24 bp):
AGCTTCCTGATTATAGCTCGAATA
Found at i:11411860 original size:11 final size:13
Alignment explanation
Indices: 11411836--11411867 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
11411826 TAGTTTATTA
11411836 ATATTTTAATATG
1 ATATTTTAATATG
11411849 AT-TTTTAA-ATG
1 ATATTTTAATATG
11411860 ATATTTTA
1 ATATTTTA
11411868 TTAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:11414724 original size:51 final size:51
Alignment explanation
Indices: 11414660--11415457 Score: 956
Period size: 51 Copynumber: 15.7 Consensus size: 51
11414650 TATCGATGAA
* *
11414660 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
* * * * *
11414711 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAA-ATATTGGT
* * *
11414762 CACGTGAGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
* * * * *
11414813 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAA-ATATTGGT
* * *
11414864 CACGTGAGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
* * * * *
11414915 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAA-ATATTGGT
* * *
11414966 CACGTGAGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
* * * * *
11415017 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAA-ATATTGGT
* * *
11415068 CACGTGAGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
* * * * *
11415119 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAA-ATATTGGT
* *
11415170 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTACCTATAAATGA-TGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-ATTGGT
* *
11415221 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGTACCGATAAATGA-TGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-ATTGGT
* *
11415272 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATA-TTGGT
* *
11415322 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATA-TTGGT
* * *
11415372 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-ATTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATA-TTGGT
*
11415422 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
11415458 TCGGANNNNN
Statistics
Matches: 646, Mismatches: 88, Indels: 27
0.85 0.12 0.04
Matches are distributed among these distances:
48 1 0.00
50 144 0.22
51 496 0.77
52 5 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
Found at i:11414836 original size:102 final size:102
Alignment explanation
Indices: 11414660--11415457 Score: 1232
Period size: 102 Copynumber: 7.9 Consensus size: 102
11414650 TATCGATGAA
*
11414660 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGAGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACATGTGTAGTAC
11414725 TAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGGT
11414762 CACGTGAGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGAGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACATGTGTAGTAC
11414827 TAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGGT
11414864 CACGTGAGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGAGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACATGTGTAGTAC
11414929 TAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGGT
11414966 CACGTGAGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGAGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACATGTGTAGTAC
11415031 TAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGGT
11415068 CACGTGAGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGAGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACATGTGTAGTAC
11415133 TAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGGT
* * * *
11415170 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTACCTATAAATGATGGTCACGTGTGTAGTAC
1 CACGTGAGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACATGTGTAGTAC
** * * *
11415235 TGTGTGAAGGCTACTATGTGTACCGATAA-ATGATGGT
66 TAAGTGAAGGCTACTATGTGTACCGAGAAGCT-TTGGT
* * * * * *
11415272 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACGTGTGTAGTA
1 CACGTGAGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATA-ATGGTCACATGTGTAGTA
* * * * *
11415335 CTATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGAT
65 CTAAGTGAAGGCTACTATGTGTACCG-AGAAGCTTTGGT
* * * * * * *
11415372 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-ATTTGATCACGTGTGTAGTA
1 CACGTGAGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATA-ATGGTCACATGTGTAGTA
* * *
11415435 CTATGTGCAGGCTACTACGTGTA
65 CTAAGTGAAGGCTACTATGTGTA
11415458 TCGGANNNNN
Statistics
Matches: 666, Mismatches: 26, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
100 85 0.13
101 46 0.07
102 535 0.80
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (102 bp):
CACGTGAGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGGT
Done.