Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 53 of 221
Found at i:15191521 original size:48 final size:47
Alignment explanation
Indices: 15191426--15191699 Score: 241
Period size: 48 Copynumber: 5.8 Consensus size: 47
15191416 CCACATAACA
15191426 TACATAACTCACATAACATACATAATAACTTATATATATCATAACTCAACT
1 TACATAACTCACATAAC-TAC---ATAACTTATATATATCATAACTCAACT
*
15191477 TACATAACTCACATAACTTACATAACTTATATATACCATAACTCAACT
1 TACATAACTCACATAAC-TACATAACTTATATATATCATAACTCAACT
15191525 TACAT-A---AC-T--C-ACATAACTTATATATATCATAACTCAACT
1 TACATAACTCACATAACTACATAACTTATATATATCATAACTCAACT
* * *
15191564 TACATAACTTACATAA-TACATAAATATATATCATATCATAGCTTACATAACT
1 TACATAACTCACATAACTACATAACT-TATAT-ATATCATAAC-T-C--AACT
* * * *
15191616 CACATAACTTACATAACTTA-ATAACTTATGTATATCATATCAT-AACT
1 TACATAACTCACATAAC-TACATAACTTATATATATCATAAC-TCAACT
** *
15191663 TACATAACTTGCATAA-TACATAA-ATATATATATCATA
1 TACATAACTCACATAACTACATAACTTATATATATCATA
15191700 TCATAAGTTA
Statistics
Matches: 192, Mismatches: 14, Indels: 40
0.78 0.06 0.16
Matches are distributed among these distances:
39 33 0.17
40 1 0.01
41 1 0.01
43 3 0.02
44 3 0.02
45 14 0.07
46 11 0.06
47 24 0.12
48 40 0.21
49 1 0.01
50 1 0.01
51 30 0.16
52 23 0.12
53 5 0.03
54 2 0.01
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (47 bp):
TACATAACTCACATAACTACATAACTTATATATATCATAACTCAACT
Found at i:15191530 original size:39 final size:39
Alignment explanation
Indices: 15191482--15191579 Score: 169
Period size: 39 Copynumber: 2.5 Consensus size: 39
15191472 CAACTTACAT
*
15191482 AACTCACATAACTTACATAACTTATATATACCATAACTC
1 AACTTACATAACTTACATAACTTATATATACCATAACTC
* *
15191521 AACTTACATAACTCACATAACTTATATATATCATAACTC
1 AACTTACATAACTTACATAACTTATATATACCATAACTC
15191560 AACTTACATAACTTACATAA
1 AACTTACATAACTTACATAA
15191580 TACATAAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTTACATAACTTATATATACCATAACTC
Found at i:15191572 original size:14 final size:14
Alignment explanation
Indices: 15191465--15191535 Score: 63
Period size: 14 Copynumber: 4.6 Consensus size: 14
15191455 TTATATATAT
15191465 CATAACTCAACTTA
1 CATAACTCAACTTA
15191479 CATAACTCACATAACTTA
1 CATAACT--C--AACTTA
*
15191497 CATAACTTATA-TATA
1 CATAACTCA-ACT-TA
15191512 CCATAACTCAACTTA
1 -CATAACTCAACTTA
15191527 CATAACTCA
1 CATAACTCA
15191536 CATAACTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
14 18 0.38
15 6 0.13
16 10 0.21
18 13 0.28
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.30
Consensus pattern (14 bp):
CATAACTCAACTTA
Found at i:15191586 original size:30 final size:30
Alignment explanation
Indices: 15191530--15191586 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15191520 CAACTTACAT
*
15191530 AACTCACATAACTTATATATATCATAACTC
1 AACTCACATAACTTACATATATCATAACTC
*
15191560 AACTTACATAACTTACATA-ATACATAA
1 AACTCACATAACTTACATATAT-CATAA
15191587 ATATATATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (30 bp):
AACTCACATAACTTACATATATCATAACTC
Found at i:15191672 original size:99 final size:102
Alignment explanation
Indices: 15191521--15191714 Score: 299
Period size: 99 Copynumber: 1.9 Consensus size: 102
15191511 ACCATAACTC
15191521 AACTTACATAACTCACATAACTTATATATATCATAACTCAACTTACATAACTTACATAATACAT-
1 AACTTACATAACTCACATAACTTATATATATCATAACTCAACTTACATAACTTACATAATACATA
15191585 AA-ATATATATCATATCAT-AGCTTACATAACTCACAT
66 AATATATATATCATATCATAAG-TTACATAACTCACAT
* * * *
15191621 AACTTACATAACTTA-ATAACTTATGTATATCATATCAT-AACTTACATAACTTGCATAATACAT
1 AACTTACATAACTCACATAACTTATATATATCATAAC-TCAACTTACATAACTTACATAATACAT
15191684 AAATATATATATCATATCATAAGTTACATAA
65 AAATATATATATCATATCATAAGTTACATAA
15191715 TTTAATTATA
Statistics
Matches: 86, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
99 43 0.50
100 17 0.20
101 24 0.28
102 2 0.02
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (102 bp):
AACTTACATAACTCACATAACTTATATATATCATAACTCAACTTACATAACTTACATAATACATA
AATATATATATCATATCATAAGTTACATAACTCACAT
Found at i:15191711 original size:45 final size:46
Alignment explanation
Indices: 15191441--15191714 Score: 207
Period size: 45 Copynumber: 5.9 Consensus size: 46
15191431 AACTCACATA
* * *
15191441 ACATACATA-ATAACTTATATATATCATAAC-TCAACTTACATAACTC
1 ACATA-ATACATAACATATATATATCATATCAT-AACTTACATAACTT
*
15191487 ACATAACTTACATAAC---T-TATAT-ATACCATAAC-T-C--AACTT
1 ACATAA--TACATAACATATATATATCATATCATAACTTACATAACTT
* *
15191526 ACATAACTCACATAACTTATATATATCATAAC-TCAACTTACATAACTT
1 ACATAA-T-ACATAACATATATATATCATATCAT-AACTTACATAACTT
* *
15191574 ACATAATACATAAATATATATCATATCATAGCTTACATAACTCACATAACTT
1 ACATAATACAT-AACATATAT-ATATCATA---T-CATAACTTACATAACTT
* *
15191626 ACATAACTTA-ATAACTTATGTATATCATATCATAACTTACATAACTT
1 ACATAA--TACATAACATATATATATCATATCATAACTTACATAACTT
* *
15191673 GCATAATACATAA-ATATATATATCATATCATAAGTTACATAA
1 ACATAATACATAACATATATATATCATATCATAACTTACATAA
15191715 TTTAATTATA
Statistics
Matches: 187, Mismatches: 16, Indels: 51
0.74 0.06 0.20
Matches are distributed among these distances:
38 1 0.01
39 17 0.09
41 1 0.01
42 2 0.01
43 13 0.07
44 13 0.07
45 31 0.17
46 14 0.07
47 31 0.17
48 25 0.13
51 8 0.04
52 26 0.14
53 3 0.02
54 2 0.01
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.34
Consensus pattern (46 bp):
ACATAATACATAACATATATATATCATATCATAACTTACATAACTT
Found at i:15194105 original size:27 final size:27
Alignment explanation
Indices: 15194075--15194252 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
15194065 ATATTGAGCC
* *
15194075 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
15194102 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
15194129 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
15194157 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
15194184 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
15194211 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
15194238 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15194253 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:15194187 original size:55 final size:54
Alignment explanation
Indices: 15194075--15194252 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
15194065 ATATTGAGCC
* * * * *
15194075 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
15194129 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
15194184 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
15194238 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15194253 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:15202112 original size:27 final size:27
Alignment explanation
Indices: 15202082--15202259 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
15202072 ATATTGAGCC
* *
15202082 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
15202109 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
15202136 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
15202164 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
15202191 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
15202218 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
15202245 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15202260 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:15202194 original size:55 final size:54
Alignment explanation
Indices: 15202082--15202259 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
15202072 ATATTGAGCC
* * * * *
15202082 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
15202136 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
15202191 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
15202245 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15202260 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:15206077 original size:43 final size:43
Alignment explanation
Indices: 15206013--15206162 Score: 142
Period size: 43 Copynumber: 3.5 Consensus size: 43
15206003 CGCTTTTAGT
* *
15206013 AAAGCGCCGCTAAAGAACATGACCTTTAGCAGCGTTTCTAATA
1 AAAGCGCCGCTAAAGATCATGACCTTTAGCAGCATTTCTAATA
* * * *
15206056 AAAGCGTCGCTAAAGGTCATGACCTTTAGCAGCATTTGTGATA
1 AAAGCGCCGCTAAAGATCATGACCTTTAGCAGCATTTCTAATA
* * ** * * *
15206099 AAAGCACCGCTAAAGTTCATGTTCTTTAACGATG-TTTTCT-ACA
1 AAAGCGCCGCTAAAGATCATGACCTTTAGC-A-GCATTTCTAATA
*
15206142 AAAGCACCGCTAAAGATCATG
1 AAAGCGCCGCTAAAGATCATG
15206163 TTCTTTAGTG
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
43 83 0.93
44 5 0.06
45 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGATCATGACCTTTAGCAGCATTTCTAATA
Found at i:15207473 original size:58 final size:56
Alignment explanation
Indices: 15207411--15207553 Score: 130
Period size: 58 Copynumber: 2.5 Consensus size: 56
15207401 ATTTTGCTAG
** *
15207411 ATTTAATATTAAATT-TTAAA-TTAATTTAATGTTTATCTTATAGATAAATA-TACTATTA
1 ATTTAATATTAAATTATTAAATTTAACCTAATATTTATC-T-T-GATAAATATTA-TA-TA
**
15207469 ATTTAATAATATTTATTATTAAATTTAACCTAATATTTATCTTGATAAATATTATATA
1 ATTTAAT-AT-TAAATTATTAAATTTAACCTAATATTTATCTTGATAAATATTATATA
* *
15207527 ATTTAATATTAAAGTGATTAAGTTTAA
1 ATTTAATATTAAA-TTATTAAATTTAA
15207554 TTATAATTGA
Statistics
Matches: 70, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
56 2 0.03
57 13 0.19
58 16 0.23
59 12 0.17
60 7 0.10
61 6 0.09
62 14 0.20
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (56 bp):
ATTTAATATTAAATTATTAAATTTAACCTAATATTTATCTTGATAAATATTATATA
Found at i:15207489 original size:21 final size:23
Alignment explanation
Indices: 15207464--15207508 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
15207454 ATAAATATAC
15207464 TATT-AATTTAA-TAATATTTAT
1 TATTAAATTTAACTAATATTTAT
15207485 TATTAAATTTAACCTAATATTTAT
1 TATTAAATTTAA-CTAATATTTAT
15207509 CTTGATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 7 0.33
24 10 0.48
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAAATTTAACTAATATTTAT
Found at i:15209288 original size:18 final size:18
Alignment explanation
Indices: 15209265--15209302 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
15209255 TCATGTTAAA
15209265 ATTTGATTATGAAATTCT
1 ATTTGATTATGAAATTCT
15209283 ATTTGATTATGAAATTCT
1 ATTTGATTATGAAATTCT
15209301 AT
1 AT
15209303 CGTTTAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (18 bp):
ATTTGATTATGAAATTCT
Found at i:15209859 original size:16 final size:16
Alignment explanation
Indices: 15209838--15209872 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
15209828 TAGTAATTTT
15209838 AATGTTAAAG-GACTAA
1 AATGTTAAAGTGA-TAA
15209854 AATGTTAAAGTGATAA
1 AATGTTAAAGTGATAA
15209870 AAT
1 AAT
15209873 TACAAGGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (16 bp):
AATGTTAAAGTGATAA
Found at i:15210757 original size:45 final size:45
Alignment explanation
Indices: 15210539--15210759 Score: 316
Period size: 45 Copynumber: 4.9 Consensus size: 45
15210529 TCATACTGGA
* * *
15210539 AATGAGTAAGACCATAGCTAAAAGATGTTATGGCATCACGATTTT
1 AATGAGTAAGACCATAGCTGAAAGACGTTATGGCATCATGATTTT
* * * **
15210584 AACGAGTAAGACCATAGCTTAAAGACGTTAAGGCATCACAATTTT
1 AATGAGTAAGACCATAGCTGAAAGACGTTATGGCATCATGATTTT
*
15210629 AACGAGTAAGACCATAGCTGAAAGACGTTATGGCATCATGATTTT
1 AATGAGTAAGACCATAGCTGAAAGACGTTATGGCATCATGATTTT
* * *
15210674 AATGAGTAAGACTATAGTTGAAAGACGTTATGGCATCATGATTCT
1 AATGAGTAAGACCATAGCTGAAAGACGTTATGGCATCATGATTTT
* *
15210719 AATGAGTAAGACCATAGCTGAAAGACATTATGACATCATGA
1 AATGAGTAAGACCATAGCTGAAAGACGTTATGGCATCATGA
15210760 ATCAGGGGAA
Statistics
Matches: 159, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 159 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (45 bp):
AATGAGTAAGACCATAGCTGAAAGACGTTATGGCATCATGATTTT
Found at i:15210785 original size:90 final size:90
Alignment explanation
Indices: 15210542--15210786 Score: 235
Period size: 90 Copynumber: 2.7 Consensus size: 90
15210532 TACTGGAAAT
* ** * * * * * *
15210542 GAGTAAGACCATAGCTAAAAGATGTTATGGCATCACGATTTTAACGAGTAAGACCATAGCTT-AA
1 GAGTAAGACCATAGCTGAAAGACATTATGACATCATGATATCAAGGAATAAGACCATAG-TTGAA
*
15210606 AGACGTTAAGGCATCACAATTTTAAC
65 AGACGTTAAGGCATCACAATTCTAAC
* * * * * * *
15210632 GAGTAAGACCATAGCTGAAAGACGTTATGGCATCATGATTTTAATGAGTAAGACTATAGTTGAAA
1 GAGTAAGACCATAGCTGAAAGACATTATGACATCATGATATCAAGGAATAAGACCATAGTTGAAA
* ** *
15210697 GACGTTATGGCATCATGATTCTAAT
66 GACGTTAAGGCATCACAATTCTAAC
* *
15210722 GAGTAAGACCATAGCTGAAAGACATTATGACATCATGA-ATCAGGGGAATAATACCAT-GATTGA
1 GAGTAAGACCATAGCTGAAAGACATTATGACATCATGATATCA-AGGAATAAGACCATAG-TTGA
15210785 AA
64 AA
15210787 TACACTATGG
Statistics
Matches: 133, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
89 5 0.04
90 128 0.96
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (90 bp):
GAGTAAGACCATAGCTGAAAGACATTATGACATCATGATATCAAGGAATAAGACCATAGTTGAAA
GACGTTAAGGCATCACAATTCTAAC
Found at i:15212500 original size:21 final size:21
Alignment explanation
Indices: 15212474--15212515 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
15212464 TTTTATGATG
*
15212474 ATTAGAAACATTTGTACATGA
1 ATTAGAAACATTTGTAAATGA
15212495 ATTAGAAACATTTGTAAATGA
1 ATTAGAAACATTTGTAAATGA
15212516 TTTGAGGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.33
Consensus pattern (21 bp):
ATTAGAAACATTTGTAAATGA
Found at i:15227399 original size:22 final size:22
Alignment explanation
Indices: 15227356--15227399 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
15227346 AGCGGATAAA
*
15227356 CAGAAAGCACAAATGTGCTAAT
1 CAGAAAGCACAAACGTGCTAAT
* * *
15227378 CAGAGAGCACTAACGTGGTAAT
1 CAGAAAGCACAAACGTGCTAAT
15227400 AGCGCACTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (22 bp):
CAGAAAGCACAAACGTGCTAAT
Found at i:15230574 original size:26 final size:26
Alignment explanation
Indices: 15230538--15230599 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
15230528 ACAAATTTTC
*
15230538 TCAAAATTTTACTAAGGGCAGAATCG
1 TCAAAATTTTACTAAGGGCAAAATCG
* *
15230564 TCAAAATTTTACTAAGGGTAAAATTG
1 TCAAAATTTTACTAAGGGCAAAATCG
*
15230590 TTAAAATTTT
1 TCAAAATTTT
15230600 GCTGGGAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (26 bp):
TCAAAATTTTACTAAGGGCAAAATCG
Found at i:15239031 original size:25 final size:26
Alignment explanation
Indices: 15238992--15239059 Score: 88
Period size: 25 Copynumber: 2.7 Consensus size: 26
15238982 TTCTTGAAAT
15238992 TTTACTAGGGG-AAAATAGTCAAA-A
1 TTTACTAGGGGTAAAATAGTCAAAGA
* *
15239016 TTTACTAGGGGTAAAATTGTCAAAGT
1 TTTACTAGGGGTAAAATAGTCAAAGA
*
15239042 TTTGCT-GGGGTAAAATAG
1 TTTACTAGGGGTAAAATAG
15239060 AAATGAGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 11 0.29
25 22 0.58
26 5 0.13
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (26 bp):
TTTACTAGGGGTAAAATAGTCAAAGA
Found at i:15239563 original size:62 final size:62
Alignment explanation
Indices: 15239490--15239614 Score: 214
Period size: 62 Copynumber: 2.0 Consensus size: 62
15239480 AAAGATAGAA
15239490 TTTTTGCTTTCACCCCAAAAGGAGAGAAACCTTTTTCTAGTTTGGTGTTTCAATCAATTGGT
1 TTTTTGCTTTCACCCCAAAAGGAGAGAAACCTTTTTCTAGTTTGGTGTTTCAATCAATTGGT
* * * *
15239552 TTTTTGTTTTCACCCCAAAATGAGAGAAACTTTTTTCTAGTTTGGTGTTTCGATCAATTGGT
1 TTTTTGCTTTCACCCCAAAAGGAGAGAAACCTTTTTCTAGTTTGGTGTTTCAATCAATTGGT
15239614 T
1 T
15239615 CGAGCCCACA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (62 bp):
TTTTTGCTTTCACCCCAAAAGGAGAGAAACCTTTTTCTAGTTTGGTGTTTCAATCAATTGGT
Found at i:15241748 original size:27 final size:27
Alignment explanation
Indices: 15241718--15241895 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
15241708 ATATTGAGCC
* *
15241718 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
15241745 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
15241772 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
15241800 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
15241827 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
15241854 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
15241881 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15241896 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:15241830 original size:55 final size:54
Alignment explanation
Indices: 15241718--15241895 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
15241708 ATATTGAGCC
* * * * *
15241718 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
15241772 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
15241827 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
15241881 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15241896 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:15249753 original size:27 final size:27
Alignment explanation
Indices: 15249723--15249900 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
15249713 ATATTGAGCC
* *
15249723 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
15249750 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
15249777 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
15249805 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
15249832 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
15249859 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
15249886 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15249901 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:15249835 original size:55 final size:54
Alignment explanation
Indices: 15249723--15249900 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
15249713 ATATTGAGCC
* * * * *
15249723 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
15249777 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
15249832 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
15249886 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15249901 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:15264300 original size:14 final size:13
Alignment explanation
Indices: 15264276--15264328 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 13
15264266 TTTTATGAAT
15264276 TAAAAAATAATTA
1 TAAAAAATAATTA
15264289 TAAAAGAATAATTA
1 TAAAA-AATAATTA
*
15264303 TATTAAAAATAAATCA
1 TA--AAAAAT-AATTA
15264319 TATAAAAATA
1 TA-AAAAATA
15264329 TTTAATATGC
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
13 5 0.14
14 11 0.31
15 10 0.29
16 9 0.26
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (13 bp):
TAAAAAATAATTA
Found at i:15264326 original size:16 final size:14
Alignment explanation
Indices: 15264276--15264326 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 14
15264266 TTTTATGAAT
15264276 TAAAAAATAAT-TA
1 TAAAAAATAATATA
15264289 TAAAAGAATAATTATA
1 TAAAA-AATAA-TATA
*
15264305 TTAAAAATAAATCATA
1 TAAAAAAT-AAT-ATA
15264321 TAAAAA
1 TAAAAA
15264327 TATTTAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 5 0.16
14 5 0.16
15 5 0.16
16 16 0.52
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (14 bp):
TAAAAAATAATATA
Found at i:15268102 original size:13 final size:13
Alignment explanation
Indices: 15268084--15268110 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15268074 CTTTTCTATT
15268084 ATTCAATGGGTTA
1 ATTCAATGGGTTA
15268097 ATTCAATGGGTTA
1 ATTCAATGGGTTA
15268110 A
1 A
15268111 CGTCTCAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (13 bp):
ATTCAATGGGTTA
Found at i:15279682 original size:31 final size:31
Alignment explanation
Indices: 15279644--15279703 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
15279634 CCTTAAACAC
15279644 AAATATAGTCTTTACAAATAAAAATATAAAA
1 AAATATAGTCTTTACAAATAAAAATATAAAA
15279675 AAATATAGTCTTTACAAATAAAAATATAA
1 AAATATAGTCTTTACAAATAAAAATATAA
15279704 TCTTAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (31 bp):
AAATATAGTCTTTACAAATAAAAATATAAAA
Found at i:15279725 original size:13 final size:14
Alignment explanation
Indices: 15279702--15279730 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15279692 ATAAAAATAT
15279702 AATCTTAAATATTA
1 AATCTTAAATATTA
15279716 AATC-TAAATATTA
1 AATCTTAAATATTA
15279729 AA
1 AA
15279731 AATAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (14 bp):
AATCTTAAATATTA
Found at i:15281760 original size:6 final size:6
Alignment explanation
Indices: 15281751--15281782 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
15281741 CTTTATCATT
15281751 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA AT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA AT
15281783 CGATTTAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATTTTA
Found at i:15293768 original size:26 final size:26
Alignment explanation
Indices: 15293739--15293820 Score: 112
Period size: 26 Copynumber: 3.2 Consensus size: 26
15293729 ATACCGCAGT
15293739 TCTTTGTGAGCTTCCT-ATTATATGGC
1 TCTTTGTGAGCTTCCTAATTA-ATGGC
* * *
15293765 TCTTCGTGAACTTCCTGATTAATGGC
1 TCTTTGTGAGCTTCCTAATTAATGGC
*
15293791 TCTTTTTGAGCTTCCTAATTAATGGC
1 TCTTTGTGAGCTTCCTAATTAATGGC
15293817 TCTT
1 TCTT
15293821 CAGGGTTTCC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
26 45 0.92
27 4 0.08
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (26 bp):
TCTTTGTGAGCTTCCTAATTAATGGC
Found at i:15293946 original size:24 final size:24
Alignment explanation
Indices: 15293745--15293949 Score: 73
Period size: 24 Copynumber: 8.3 Consensus size: 24
15293735 CAGTTCTTTG
*
15293745 TGAGCTTCCT-ATTATATGGCTCTTCG
1 TGAGCTTCCTGA-T-TATGGCTCTT-A
* *
15293771 TGAACTTCCTGATTAATGGCTCTTTT
1 TGAGCTTCCTGATT-ATGGCTC-TTA
*
15293797 TGAGCTTCCTAATTAATGGCTCTTCA
1 TGAGCTTCCTGATT-ATGGCTCTT-A
* * * * *
15293823 -GGGTTTCCTGATAATGACTCGCT-
1 TGAGCTTCCTGATTATGGCTC-TTA
* * * *
15293846 TGAACTTCCTAATATATAGCTATCTA
1 TGAGCTTCCTGAT-TATGGCTCT-TA
*
15293872 -GAGCTTCCCG-TTAATGGCTCTT-
1 TGAGCTTCCTGATT-ATGGCTCTTA
* * ***
15293894 TGGAGCTACTTG-TTATTGGCTCACG
1 T-GAGCTTCCTGATTA-TGGCTCTTA
15293919 TGAGCTTCCTGATTATGGCTCTTA
1 TGAGCTTCCTGATTATGGCTCTTA
15293943 TGAGCTT
1 TGAGCTT
15293950 TCCGTTATAC
Statistics
Matches: 129, Mismatches: 35, Indels: 32
0.66 0.18 0.16
Matches are distributed among these distances:
23 3 0.02
24 57 0.44
25 29 0.22
26 37 0.29
27 3 0.02
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.40
Consensus pattern (24 bp):
TGAGCTTCCTGATTATGGCTCTTA
Found at i:15294731 original size:8 final size:8
Alignment explanation
Indices: 15294718--15294746 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
15294708 TAGTTAAGTT
15294718 TGAATACA
1 TGAATACA
15294726 TGAATACA
1 TGAATACA
15294734 TGAATACA
1 TGAATACA
15294742 TGAAT
1 TGAAT
15294747 GTATTCAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (8 bp):
TGAATACA
Found at i:15296313 original size:27 final size:27
Alignment explanation
Indices: 15296274--15296342 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
15296264 TGTAATCCTT
** * **
15296274 GTGTTTATTGTCCCAACGATCTACTTC
1 GTGTTTAACGTCCCAACGAACTACCCC
15296301 GTGTTTAACGTCCCAACGAACTACCCC
1 GTGTTTAACGTCCCAACGAACTACCCC
15296328 GTGTTT-ACTGTCCCA
1 GTGTTTAAC-GTCCCA
15296343 GTAGACTACC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.33
Consensus pattern (27 bp):
GTGTTTAACGTCCCAACGAACTACCCC
Found at i:15302793 original size:27 final size:27
Alignment explanation
Indices: 15302763--15302940 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
15302753 ATATTGAGCC
* *
15302763 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
15302790 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
15302817 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
15302845 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
15302872 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
15302899 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
15302926 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
15302941 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:15302902 original size:82 final size:81
Alignment explanation
Indices: 15302784--15302939 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
15302774 TGCTATATAA
* * * *
15302784 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCA-AATCGCA
15302849 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
15302866 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCA
*
15302930 CCCTTAGTGC
65 CACTTAGTGC
15302940 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 17 0.27
82 47 0.73
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTGAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:15304243 original size:24 final size:24
Alignment explanation
Indices: 15304181--15304244 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
15304171 GGGGGGTGAG
* *
15304181 ACCATG-TTATTTTTTTTTTCATC
1 ACCATGCTTATTATTTTTTTAATC
* * *
15304204 ACCCTTCCTT-TCATTTTTTTAATC
1 A-CCATGCTTATTATTTTTTTAATC
15304228 ACCATGCTTATTATTTT
1 ACCATGCTTATTATTTT
15304245 ATTTTTCTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
23 7 0.23
24 21 0.70
25 2 0.07
ACGTcount: A:0.19, C:0.22, G:0.03, T:0.56
Consensus pattern (24 bp):
ACCATGCTTATTATTTTTTTAATC
Found at i:15326834 original size:14 final size:15
Alignment explanation
Indices: 15326806--15326846 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
15326796 ATAAAAAATG
15326806 AAAGAAGGATAAGAA
1 AAAGAAGGATAAGAA
*
15326821 AAAG-AGGATGAGAA
1 AAAGAAGGATAAGAA
15326835 AGAA-AAGGATAA
1 A-AAGAAGGATAA
15326847 AATACACTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.29, T:0.07
Consensus pattern (15 bp):
AAAGAAGGATAAGAA
Found at i:15340418 original size:30 final size:30
Alignment explanation
Indices: 15340384--15340477 Score: 152
Period size: 30 Copynumber: 3.1 Consensus size: 30
15340374 TCCATATTTA
* *
15340384 TGGAAAATCAAAGATATGTGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
15340414 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
15340444 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
15340475 TGG
1 TGG
15340478 CATAATAAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
30 52 0.87
31 8 0.13
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.28
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:15345070 original size:15 final size:15
Alignment explanation
Indices: 15345050--15345127 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
15345040 TTTATGGAAA
15345050 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
15345065 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
15345079 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
15345095 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
15345109 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
15345125 ATC
1 ATC
15345128 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:15345078 original size:30 final size:30
Alignment explanation
Indices: 15345044--15345137 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
15345034 TCCATATTTA
*
15345044 TGGAAAATCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
15345074 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
15345104 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
15345135 TGG
1 TGG
15345138 CATAATAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 53 0.87
31 8 0.13
ACGTcount: A:0.41, C:0.06, G:0.26, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:15347865 original size:17 final size:18
Alignment explanation
Indices: 15347832--15347865 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15347822 TATTAACACT
*
15347832 TAAAATAATATTATATAG
1 TAAAATAATAGTATATAG
15347850 TAAAATAAT-GTATATA
1 TAAAATAATAGTATATA
15347866 CAAAAATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
TAAAATAATAGTATATAG
Found at i:15349486 original size:50 final size:50
Alignment explanation
Indices: 15349423--15349766 Score: 213
Period size: 50 Copynumber: 6.9 Consensus size: 50
15349413 TGCAATGTCG
* * *
15349423 GGGAAGCAAGATTCATCGATGTGGCTTTAATCTGTTCCACTGCACCACCA
1 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAACGCCA
* * * * * * ** * *
15349473 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCA
1 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAACGCCA
* * * * * * * *
15349523 GGTAGGCCAGACTCACCGCTATGGCTTTAATCTGTTCCACTGCACCGCCT
1 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAACGCCA
* * * * * * * ** * ***
15349573 GGGAGGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTTG
1 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAACGCCA
* *
15349623 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCT
1 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAACGCCA
* * * * * * ** * **
15349673 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTGA
1 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAACGCCA
* * * *
15349723 GGGAGGCCAGATTCACC-ATTGTGGCTTTAATCTGCTCTACTGCA
1 GGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCACTGCA
15349767 CTGGCTGAGA
Statistics
Matches: 208, Mismatches: 85, Indels: 2
0.71 0.29 0.01
Matches are distributed among these distances:
50 208 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (50 bp):
GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCAACGCCA
Found at i:15349582 original size:100 final size:100
Alignment explanation
Indices: 15349405--15350057 Score: 669
Period size: 100 Copynumber: 6.6 Consensus size: 100
15349395 AACTTCAATA
* * *
15349405 TTTTTAACTGCAATGTCGGGGAAGCAAGATTCATCGATGTGGCTTTAATCTGTTCCACTGCACCA
1 TTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCG
* *
15349470 CCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATC
66 CCTGGGAGGTAAGATTCGCTGTTGTAGCTTTAATC
* * * * * * *
15349505 TTTTTAACTGCAATGTCAGGTAGGCCAGACTCACCGCTATGGCTTTAATCTGTTCCACTGCACCG
1 TTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCG
15349570 CCTGGGAGGTAAGATTCGCTGTTGTAGCTTTAATC
66 CCTGGGAGGTAAGATTCGCTGTTGTAGCTTTAATC
* * *
15349605 TTTTTAACTGCAATGTTGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCG
1 TTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCG
*
15349670 CCTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATC
66 CCTGGGAGGTAAGATTCGCTGTTGTAGCTTTAATC
* * * * * *
15349705 TTTTTAACTGCAATGT-GAGGGAGGCCAGATTCACCATTGTGGCTTTAATCTGCTCTACTGCACT
1 TTTTTAACTGCAATGTCG-GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACC
* * *
15349769 GGCTGAGAGAGTGAGATTCGTCACTG-TG-A-CTTTAATC
65 GCCTGGGAG-GTAAGATTCG---CTGTTGTAGCTTTAATC
* ** * * *
15349806 CTTTTAACTGCAATGTCGGAAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTCTACTGCACTA
1 TTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCAC-C
* *
15349871 G-CTGAGAGAGTGAGATTCGTCACTG-TG-A-CTTTAATC
65 GCCTGGGAG-GTAAGATTCG---CTGTTGTAGCTTTAATC
* * * * * **
15349907 CTTTTAACTGCAATGTCGGGAAAGCAAGA-TCACAGTTGTGGCTTTAATCTACTT-GACTGCATT
1 TTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCT-GTTCCACTGCACC
* *
15349970 GCCAGGGAGGTAAGATTCGCTGCTGTAGCTTTAA--
65 GCCTGGGAGGTAAGATTCGCTGTTGTAGCTTTAATC
* * *
15350004 ----T--CTGTAATGTCGAGGAAGCAAGATTTACCGTTGTGGCTTTAATCTGTTCC-CTGC
1 TTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGC
15350058 TCTTGCAGAT
Statistics
Matches: 482, Mismatches: 57, Indels: 37
0.84 0.10 0.06
Matches are distributed among these distances:
91 25 0.05
92 19 0.04
93 1 0.00
96 3 0.01
97 2 0.00
98 1 0.00
99 17 0.04
100 270 0.56
101 136 0.28
102 3 0.01
103 2 0.00
104 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (100 bp):
TTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCACCG
CCTGGGAGGTAAGATTCGCTGTTGTAGCTTTAATC
Found at i:15349805 original size:51 final size:51
Alignment explanation
Indices: 15349742--15349906 Score: 165
Period size: 51 Copynumber: 3.3 Consensus size: 51
15349732 GATTCACCAT
*
15349742 TGTGGCTTTAATCTGCTCTACTGCACTGGCTGAGAGAGTGAGATTCGTCAC
1 TGTGACTTTAATCTGCTCTACTGCACTGGCTGAGAGAGTGAGATTCGTCAC
* * * * * ** ** **
15349793 TGTGACTTTAATC--CTTTTAACTGCAATGTCGGA-AAAGCAAGATTCACCGT
1 TGTGACTTTAATCTGC-TCT-ACTGCACTGGCTGAGAGAGTGAGATTCGTCAC
* *
15349843 TGTGGCTTTAATCTGCTCTACTGCACTAGCTGAGAGAGTGAGATTCGTCAC
1 TGTGACTTTAATCTGCTCTACTGCACTGGCTGAGAGAGTGAGATTCGTCAC
15349894 TGTGACTTTAATC
1 TGTGACTTTAATC
15349907 CTTTTAACTG
Statistics
Matches: 83, Mismatches: 26, Indels: 10
0.70 0.22 0.08
Matches are distributed among these distances:
49 1 0.01
50 34 0.41
51 47 0.57
52 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (51 bp):
TGTGACTTTAATCTGCTCTACTGCACTGGCTGAGAGAGTGAGATTCGTCAC
Found at i:15349855 original size:50 final size:50
Alignment explanation
Indices: 15349580--15349955 Score: 160
Period size: 50 Copynumber: 7.5 Consensus size: 50
15349570 CCTGGGAGGT
* * * * * **
15349580 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGAAGC
1 AAGATTCACCGTTGTGGCTTTAATCCTTTTAACTGCAATGTCGGAAAAGC
* ** * * *
15349630 AAGATTCACCGATGTGGCTTTAAT-CTGTTCCACTGC-ATCGCCTGG-GAAGT
1 AAGATTCACCGTTGTGGCTTTAATCCT-TTTAACTGCAAT-GTC-GGAAAAGC
* * * * ** *
15349680 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGT-GAGGGAGGC
1 AAGATTCACCGTTGTGGCTTTAATCCTTTTAACTGCAATGTCG-GAAAAGC
* * * * * * * *
15349730 CAGATTCACCATTGTGGCTTTAAT-CTGCTCT-ACTGCACTGGCTGAGAGAGT
1 AAGATTCACCGTTGTGGCTTTAATCCT--TTTAACTGCAATGTCGGA-AAAGC
* ** ** *
15349781 GAGATTCGTCACTGTGACTTTAATCCTTTTAACTGCAATGTCGGAAAAGC
1 AAGATTCACCGTTGTGGCTTTAATCCTTTTAACTGCAATGTCGGAAAAGC
* * * * *
15349831 AAGATTCACCGTTGTGGCTTTAAT-CTGCTCT-ACTGCACTAG-CTGAGAGAGT
1 AAGATTCACCGTTGTGGCTTTAATCCT--TTTAACTGCAAT-GTCGGA-AAAGC
* ** ** * *
15349882 GAGATTCGTCACTGTGACTTTAATCCTTTTAACTGCAATGTCGGGAAAGC
1 AAGATTCACCGTTGTGGCTTTAATCCTTTTAACTGCAATGTCGGAAAAGC
*
15349932 AAGA-TCACAGTTGTGGCTTTAATC
1 AAGATTCACCGTTGTGGCTTTAATC
15349956 TACTTGACTG
Statistics
Matches: 230, Mismatches: 76, Indels: 41
0.66 0.22 0.12
Matches are distributed among these distances:
48 1 0.00
49 21 0.09
50 133 0.58
51 71 0.31
52 4 0.02
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (50 bp):
AAGATTCACCGTTGTGGCTTTAATCCTTTTAACTGCAATGTCGGAAAAGC
Found at i:15351327 original size:7 final size:7
Alignment explanation
Indices: 15351310--15351378 Score: 67
Period size: 6 Copynumber: 10.1 Consensus size: 7
15351300 TTAGCCTCTC
15351310 CATTTTT
1 CATTTTT
15351317 -ATTTTT
1 CATTTTT
15351323 CA-TTTT
1 CATTTTT
15351329 CATTTTT
1 CATTTTT
*
15351336 C-CTTTT
1 CATTTTT
15351342 C-TTTTT
1 CATTTTT
15351348 CA-TTTT
1 CATTTTT
15351354 CACTTTTTT
1 CA--TTTTT
15351363 CATTTTT
1 CATTTTT
15351370 CATGTTTT
1 CAT-TTTT
15351378 C
1 C
15351379 TGACTCAGAG
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
6 28 0.53
7 14 0.26
8 5 0.09
9 6 0.11
ACGTcount: A:0.12, C:0.17, G:0.01, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:15351334 original size:19 final size:19
Alignment explanation
Indices: 15351310--15351368 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
15351300 TTAGCCTCTC
15351310 CATTTTTATTTTTCATTTT
1 CATTTTTATTTTTCATTTT
** *
15351329 CATTTTTCCTTTTCTTTTT
1 CATTTTTATTTTTCATTTT
*
15351348 CATTTTCACTTTTTTCATTTT
1 CATTTTTA--TTTTTCATTTT
15351369 TCATGTTTTC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
19 22 0.71
21 9 0.29
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (19 bp):
CATTTTTATTTTTCATTTT
Found at i:15351346 original size:25 final size:26
Alignment explanation
Indices: 15351313--15351361 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
15351303 GCCTCTCCAT
15351313 TTTTATTTTTCATTTTCA-TTTTTCC
1 TTTTATTTTTCATTTTCACTTTTTCC
*
15351338 TTTTCTTTTTCATTTTCACTTTTT
1 TTTTATTTTTCATTTTCACTTTTT
15351362 TCATTTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTTATTTTTCATTTTCACTTTTTCC
Found at i:15351377 original size:16 final size:15
Alignment explanation
Indices: 15351318--15351368 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
15351308 TCCATTTTTA
15351318 TTTTTCATTTTCA--
1 TTTTTCATTTTCACT
*
15351331 TTTTTCCTTTT--C-
1 TTTTTCATTTTCACT
15351343 TTTTTCATTTTCACT
1 TTTTTCATTTTCACT
15351358 TTTTTCATTTT
1 TTTTTCATTTT
15351369 TCATGTTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 10 0.31
13 10 0.31
14 1 0.03
15 11 0.34
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTCATTTTCACT
Found at i:15352710 original size:19 final size:19
Alignment explanation
Indices: 15352686--15352723 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15352676 CTCTAGAGGT
15352686 CACTAATGTATGAAGAATA
1 CACTAATGTATGAAGAATA
15352705 CACTAATGTATGAAGAATA
1 CACTAATGTATGAAGAATA
15352724 ATCAAGTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (19 bp):
CACTAATGTATGAAGAATA
Found at i:15353113 original size:17 final size:18
Alignment explanation
Indices: 15353080--15353113 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15353070 TATTAACACT
*
15353080 TAAAATAATATTATATAG
1 TAAAATAATAGTATATAG
15353098 TAAAATAAT-GTATATA
1 TAAAATAATAGTATATA
15353114 CAAAAATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
TAAAATAATAGTATATAG
Found at i:15356461 original size:212 final size:203
Alignment explanation
Indices: 15356103--15356490 Score: 578
Period size: 212 Copynumber: 1.9 Consensus size: 203
15356093 TTACATAAAA
*
15356103 ATCCCAACTTTTATATTATTCTCAACCTTTTCTTTAATGACTTCCATGTTTATGTTCATTAAATT
1 ATCCCAACTTTTATATTATTCTCAACCTTTTCTTTAATGACTTCCATGTTTATGTTCACTAAATT
* *
15356168 TATTTTTAGTATGAGTAATTAAACTTTTAAGGGGATTGGTTGATGTAGATGTGGTGAGCTAATTT
66 TATTTTTAGTATGAGTAACTAAACTTTTAAGGGGATTGGTTGATGGAGATGTGGTGAGCTAATTT
* *
15356233 TTGGATGAGAGACCAAATCATAATAAATTGGGCTAATTTGAATGAATACCTAGGCAAGTGAGATC
131 TTGGATGAGAGACCAAATCATAAAAAATTGGACTAATTTGAATGAATACCTAGGCAAGTGAGATC
15356298 GAGAGAAG
196 GAGAGAAG
* * *
15356306 ATCCCAACTTTTATATTTTTCTCAAGCTTTTCTTTAATGGCTTCCATGTTATGCATTTTTATGTT
1 ATCCCAACTTTTATATTATTCTCAACCTTTTCTTTAATGACTTCC-----ATG----TTTATGTT
* * * *
15356371 CACTAACTTTATTTTTAGTATGAGTAACTATACTTTTCAGGGGGTTGGTTGATGGAGATGTGGTG
57 CACTAAATTTATTTTTAGTATGAGTAACTAAACTTTTAAGGGGATTGGTTGATGGAGATGTGGTG
*
15356436 AGCTAATTTTTGGATGAGAGACCAAATCGTAAAAAATTGGACTAATTTGAATGAA
122 AGCTAATTTTTGGATGAGAGACCAAATCATAAAAAATTGGACTAATTTGAATGAA
15356491 CCTAAAAACT
Statistics
Matches: 163, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
203 42 0.26
208 3 0.02
212 118 0.72
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (203 bp):
ATCCCAACTTTTATATTATTCTCAACCTTTTCTTTAATGACTTCCATGTTTATGTTCACTAAATT
TATTTTTAGTATGAGTAACTAAACTTTTAAGGGGATTGGTTGATGGAGATGTGGTGAGCTAATTT
TTGGATGAGAGACCAAATCATAAAAAATTGGACTAATTTGAATGAATACCTAGGCAAGTGAGATC
GAGAGAAG
Found at i:15359794 original size:13 final size:13
Alignment explanation
Indices: 15359735--15359794 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
15359725 GAAAAAATGC
*
15359735 ATAATAAAATAAA
1 ATAAAAAAATAAA
*
15359748 ATAAAAGAATAAA
1 ATAAAAAAATAAA
*
15359761 TCTAGAAAATAA-AAA
1 -ATA-AAAA-AATAAA
15359776 AT-AAAAAATAAA
1 ATAAAAAAATAAA
15359788 ATAAAAA
1 ATAAAAA
15359795 TAAAAATAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
11 2 0.05
12 9 0.24
13 15 0.41
14 3 0.08
15 6 0.16
16 2 0.05
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (13 bp):
ATAAAAAAATAAA
Found at i:15371091 original size:8 final size:9
Alignment explanation
Indices: 15371067--15371092 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
15371057 GAAAACTATA
15371067 GTGTTTTTG
1 GTGTTTTTG
15371076 GTGTTTTTG
1 GTGTTTTTG
15371085 GTGTTTTT
1 GTGTTTTT
15371093 TCTTGGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (9 bp):
GTGTTTTTG
Found at i:15380572 original size:41 final size:41
Alignment explanation
Indices: 15380527--15380626 Score: 191
Period size: 41 Copynumber: 2.4 Consensus size: 41
15380517 TATGGATACT
15380527 CCACAGCTCGTGTGAGCAGCATCATGTAGCTACGTTGTGAC
1 CCACAGCTCGTGTGAGCAGCATCATGTAGCTACGTTGTGAC
*
15380568 CCACAGCTCGTGTGAGCAGCATCATGTCGCTACGTTGTGAC
1 CCACAGCTCGTGTGAGCAGCATCATGTAGCTACGTTGTGAC
15380609 CCACAGCTCGTGTGAGCA
1 CCACAGCTCGTGTGAGCA
15380627 TACCGATTTA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.21, C:0.29, G:0.27, T:0.23
Consensus pattern (41 bp):
CCACAGCTCGTGTGAGCAGCATCATGTAGCTACGTTGTGAC
Found at i:15380641 original size:25 final size:25
Alignment explanation
Indices: 15380611--15380704 Score: 109
Period size: 25 Copynumber: 3.8 Consensus size: 25
15380601 GTTGTGACCC
*
15380611 ACAGCTCGTGTGAGCATACCGATTT
1 ACAGCTCGTGTGAGCATACCAATTT
* *
15380636 ATAGCTCGTGAT-AGCATACCAATCT
1 ACAGCTCGTG-TGAGCATACCAATTT
* * *
15380661 ACAGCTCGAGTGAGCATACCCATTC
1 ACAGCTCGTGTGAGCATACCAATTT
*
15380686 ACAGCTCGTATGAGCATAC
1 ACAGCTCGTGTGAGCATAC
15380705 ATGTACATGA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
24 1 0.02
25 55 0.96
26 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCATACCAATTT
Found at i:15383378 original size:69 final size:69
Alignment explanation
Indices: 15383236--15383380 Score: 152
Period size: 69 Copynumber: 2.1 Consensus size: 69
15383226 TTAATCACTT
* * * *
15383236 TAATATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAGATAATC
1 TAATATTAAATTAATAAAATACTTATCAAGATAAATATCAAATTAAATTTAATACTAAGATAATC
***
15383301 ACTT
66 AAAA
* *
15383305 TAATATTAAATTAATAAAATAC-TATCAAGCTAAGTATCAAATTAAA-TTACATACTAA-ATCTA
1 TAATATTAAATTAATAAAATACTTATCAAGATAAATATCAAATTAAATTTA-ATACTAAGA--TA
*
15383367 ATTAAAA
63 ATCAAAA
15383374 TAATATT
1 TAATATT
15383381 TTTATAGGAA
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
67 4 0.06
68 26 0.41
69 33 0.52
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (69 bp):
TAATATTAAATTAATAAAATACTTATCAAGATAAATATCAAATTAAATTTAATACTAAGATAATC
AAAA
Found at i:15383810 original size:19 final size:19
Alignment explanation
Indices: 15383772--15383811 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15383762 AAAATATCAT
* *
15383772 ATTAATTTTAATTAATTTG
1 ATTAATTTAAATTAACTTG
*
15383791 ATTAATTTAAATTTACTTG
1 ATTAATTTAAATTAACTTG
15383810 AT
1 AT
15383812 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTAATTTAAATTAACTTG
Found at i:15385194 original size:61 final size:61
Alignment explanation
Indices: 15385115--15385234 Score: 170
Period size: 61 Copynumber: 2.0 Consensus size: 61
15385105 TAAACTTAAA
* * *
15385115 ATTAAATTTAATATAATATTTATCTTGATAGTATTTTATTAACTCT-ATATTAATGTGAGAT
1 ATTAAATTTAATATAATATTTATCTTAATAATATTTTATTAA-TCTAATATTAATATGAGAT
* * *
15385176 ATTAAATTTGATTTAATATTTATCTTAATAATATTTTATTAATTTAATATTAATATGAG
1 ATTAAATTTAATATAATATTTATCTTAATAATATTTTATTAATCTAATATTAATATGAG
15385235 TAATTTCAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 2 0.04
61 50 0.96
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (61 bp):
ATTAAATTTAATATAATATTTATCTTAATAATATTTTATTAATCTAATATTAATATGAGAT
Found at i:15385223 original size:16 final size:17
Alignment explanation
Indices: 15385186--15385231 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 17
15385176 ATTAAATTTG
*
15385186 ATTTAATATTTATCTTA
1 ATTTAATATTTATATTA
15385203 A--TAATATTT-TATTA
1 ATTTAATATTTATATTA
*
15385217 ATTTAATATTAATAT
1 ATTTAATATTTATAT
15385232 GAGTAATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
14 5 0.21
15 8 0.33
16 7 0.29
17 4 0.17
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTAATATTTATATTA
Found at i:15387196 original size:26 final size:26
Alignment explanation
Indices: 15387167--15387221 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
15387157 AACACACCAA
*
15387167 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAATAATAG
*
15387193 TATCGCAGCGAAGCTGCCAATAATAG
1 TATCGCAGCAAAGCTGCCAATAATAG
15387219 TAT
1 TAT
15387222 ATGTGGCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAATAATAG
Found at i:15387418 original size:27 final size:27
Alignment explanation
Indices: 15387380--15387471 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
15387370 ACATAAGGCC
* * *
15387380 ATAACGGTCATTTCATCTTCTGGAGGT
1 ATAACGGTCATTTTATCTTATGGGGGT
*
15387407 ATAACAGTCATTTTATCTTATGGGGGT
1 ATAACGGTCATTTTATCTTATGGGGGT
**
15387434 ATTTCGGTCATTTTATCTTATGGGGGT
1 ATAACGGTCATTTTATCTTATGGGGGT
**
15387461 ATTTCGGTCAT
1 ATAACGGTCAT
15387472 CTTACCCTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (27 bp):
ATAACGGTCATTTTATCTTATGGGGGT
Found at i:15387471 original size:54 final size:54
Alignment explanation
Indices: 15387384--15387554 Score: 153
Period size: 54 Copynumber: 3.2 Consensus size: 54
15387374 AAGGCCATAA
* * * ** * *
15387384 CGGTCATTTCATCTTCTGGAGGTATAACAGTCATTTTATCTTATGGGGGTATTT
1 CGGTCATTTTATCTTATGGGGGTATTTCGGTCATTTTACCTTATGGGGGTATTT
* * * *
15387438 CGGTCATTTTATCTTATGGGGGTATTTCGGTCATCTTACCCTATGAGGATATTT
1 CGGTCATTTTATCTTATGGGGGTATTTCGGTCATTTTACCTTATGGGGGTATTT
* * * * * * * *
15387492 CAGTCATTTTACCCTATGAGGGCATTTTGGTCATTCTACCTTATGGCGGTATTT
1 CGGTCATTTTATCTTATGGGGGTATTTCGGTCATTTTACCTTATGGGGGTATTT
* *
15387546 TGATCATTT
1 CGGTCATTT
15387555 ATTGATCACT
Statistics
Matches: 91, Mismatches: 26, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
54 91 1.00
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (54 bp):
CGGTCATTTTATCTTATGGGGGTATTTCGGTCATTTTACCTTATGGGGGTATTT
Found at i:15387482 original size:27 final size:27
Alignment explanation
Indices: 15387413--15387554 Score: 140
Period size: 27 Copynumber: 5.3 Consensus size: 27
15387403 AGGTATAACA
* *
15387413 GTCATTTTATCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
15387440 GTCATTTTATCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
15387467 GTCATCTTACCCTATGAGGATATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
15387494 GTCATTTTACCCTATGAGGGCATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
15387521 GTCATTCTACCTTATGGCGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
15387548 ATCATTT
1 GTCATTT
15387555 ATTGATCACT
Statistics
Matches: 97, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:15390146 original size:69 final size:69
Alignment explanation
Indices: 15390073--15390227 Score: 265
Period size: 69 Copynumber: 2.2 Consensus size: 69
15390063 TCCATAGCTG
* *
15390073 AGCTATGGTCTTATACCCTACAATCCTAGTGTTTACTATCTTGGAAGACTCTTTTGGTTGCCATA
1 AGCTATGGTCTTATACCATACAATCCTAGTGTTTACTATCCTGGAAGACTCTTTTGGTTGCCATA
15390138 ACCA
66 ACCA
*
15390142 AGCTATGGTCTTATACCATACAATCCTAGTGTTTACTGTCCTGGAAGACTCTTTTGGTTGCCATA
1 AGCTATGGTCTTATACCATACAATCCTAGTGTTTACTATCCTGGAAGACTCTTTTGGTTGCCATA
*
15390207 ATCA
66 ACCA
*
15390211 GGCTATGGTCTTATACC
1 AGCTATGGTCTTATACC
15390228 TTATACCTCT
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 81 1.00
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (69 bp):
AGCTATGGTCTTATACCATACAATCCTAGTGTTTACTATCCTGGAAGACTCTTTTGGTTGCCATA
ACCA
Found at i:15392339 original size:89 final size:90
Alignment explanation
Indices: 15392186--15392566 Score: 285
Period size: 90 Copynumber: 4.3 Consensus size: 90
15392176 TTTAATTGCA
* * * *
15392186 AAAACTGGTGGTTTAT-C--CAAACTTACTGGC-AACTTTTATCTGCAAACTTGTTGTGTATGT-
1 AAAACTGGTGGTTCATCCATCAAACTTACT-GCTAGCTTTTATCTACAAACCTGTTGTGTAT-TC
* *
15392246 ACAACTACTGACAACGTATTAACTTGC
64 ACAACTACTGACAATGTATTAACCTGC
* * *
15392273 AAAACTGGTGGTTTATCCA-CAAACTTATTGCTAGTTTTTATCTACAAACCTGTTGTGTATTCAC
1 AAAACTGGTGGTTCATCCATCAAACTTACTGCTAGCTTTTATCTACAAACCTGTTGTGTATTCAC
* * *
15392337 AACTACTAATAGTGTATTAACCTGC
66 AACTACTGACAATGTATTAACCTGC
* * * * *** * * *
15392362 AACATTAGTGGTTCATCCATGATTTTTACTGGTAGTTTTTATCTACAAA-CTCGTTTTGTATTCA
1 AAAACTGGTGGTTCATCCATCAAACTTACTGCTAGCTTTTATCTACAAACCT-GTTGTGTATTCA
* * *
15392426 CAACTAATGGCAATGTATTAACCTAC
65 CAACTACTGACAATGTATTAACCTGC
* * * *** * ** *
15392452 AATACCGGTGGTTCATCCATGATTTTTACTGGTAGCTTTTATCTACAAACCCATTGTGTACTCAC
1 AAAACTGGTGGTTCATCCATCAAACTTACTGCTAGCTTTTATCTACAAACCTGTTGTGTATTCAC
* ** *
15392517 AACTAGTGGTAGTGTATTAACCTG-
66 AACTACTGACAATGTATTAACCTGC
* * *
15392541 AAATATTGTTAGTTCATCCA-CAAACT
1 AAA-ACTGGTGGTTCATCCATCAAACT
15392567 AGAGTGTCTG
Statistics
Matches: 237, Mismatches: 49, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
87 16 0.07
88 4 0.02
89 76 0.32
90 140 0.59
91 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (90 bp):
AAAACTGGTGGTTCATCCATCAAACTTACTGCTAGCTTTTATCTACAAACCTGTTGTGTATTCAC
AACTACTGACAATGTATTAACCTGC
Found at i:15392443 original size:90 final size:89
Alignment explanation
Indices: 15392304--15392540 Score: 312
Period size: 90 Copynumber: 2.6 Consensus size: 89
15392294 AACTTATTGC
* ** **
15392304 TAGTTTTTATCTACAAACCTGTTGTGTATTCACAACTACTAATAGTGTATTAACCTGCAACATTA
1 TAGTTTTTATCTACAAACC-GTTGTGTATTCACAACTAATGGTAGTGTATTAACCTGCAACACCA
15392369 GTGGTTCATCCATGATTTTTACTGG
65 GTGGTTCATCCATGATTTTTACTGG
* * * * * *
15392394 TAGTTTTTATCTACAAACTCGTTTTGTATTCACAACTAATGGCAATGTATTAACCTACAATACCG
1 TAGTTTTTATCTACAAAC-CGTTGTGTATTCACAACTAATGGTAGTGTATTAACCTGCAACACCA
15392459 GTGGTTCATCCATGATTTTTACTGG
65 GTGGTTCATCCATGATTTTTACTGG
* * * *
15392484 TAGCTTTTATCTACAAACCCATTGTGTACTCACAACTAGTGGTAGTGTATTAACCTG
1 TAGTTTTTATCTACAAA-CCGTTGTGTATTCACAACTAATGGTAGTGTATTAACCTG
15392541 AAATATTGTT
Statistics
Matches: 126, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
90 124 0.98
91 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (89 bp):
TAGTTTTTATCTACAAACCGTTGTGTATTCACAACTAATGGTAGTGTATTAACCTGCAACACCAG
TGGTTCATCCATGATTTTTACTGG
Found at i:15398530 original size:39 final size:39
Alignment explanation
Indices: 15398432--15398825 Score: 358
Period size: 39 Copynumber: 10.1 Consensus size: 39
15398422 AATAGAAATA
* * *
15398432 CGGTGATTATACGGGCTATGCGCCTAGCAGGCTTTGTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
** * *
15398471 CAATG-TTATTCGGGTTAAGTGCCTAGTAGGCTTTGTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
* * * * * *
15398509 CGGTGATTATTCAGGTTAAGTGCCTGGCCGTCTTTGTGT
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
* * * *
15398548 CAGTGACTATTCCGGCTAAGTGCCTAGCAGGCATTGTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
* * * * * *
15398587 TGTTGATTATTCAGGCTATGTGCCTAGCAGGCATTATGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
* * * *
15398626 CGGTGATTATTCGAGCTAAGTGCCCAACAGGCTTTGTGT
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
* * * *
15398665 TGCTGATTATTCGGGCTCAGTGCCTAGCAGGCTTTGTGT
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
** * * * *
15398704 CAATGATTATTTGGGCTAAGTACCTAGCAAGCTTTGTGT
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
* * * * *
15398743 CGGTGAGTATTTGGGCTATGTGCCTAGCAGGCTTTATAC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
* * **
15398782 AGGTGATTATTCAGGCTTTGTGCCTAGCAGGCTTTGTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
*
15398821 TGGTG
1 CGGTG
15398826 TATTGCAAGT
Statistics
Matches: 283, Mismatches: 71, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
38 31 0.11
39 252 0.89
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.34
Consensus pattern (39 bp):
CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
Found at i:15405682 original size:17 final size:17
Alignment explanation
Indices: 15405662--15405712 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
15405652 GCTTAGTATT
15405662 TTTGGATAAATTATTGA
1 TTTGGATAAATTATTGA
*
15405679 TTTGAGA-AAATTAGTTAA
1 TTTG-GATAAATTA-TTGA
15405697 TTT-GATAAATT-TTGA
1 TTTGGATAAATTATTGA
15405712 T
1 T
15405713 AAGGGACTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 4 0.14
16 2 0.07
17 15 0.52
18 8 0.28
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (17 bp):
TTTGGATAAATTATTGA
Found at i:15406068 original size:39 final size:39
Alignment explanation
Indices: 15406022--15406449 Score: 531
Period size: 39 Copynumber: 11.0 Consensus size: 39
15406012 AATAGAAATA
* * *
15406022 CGGTGATTATTCGGGCTAAGCGCCTAGCAGGCTTTATGC
1 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
* * *
15406061 CGATGATTATTCGGGATATGTGCCTAGTAGGCTTTGTGC
1 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
* * *
15406100 TGGTGATTATTTGGGCTAAGTGCCTAGCAGGCTTTGTGC
1 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
* *
15406139 TGGTGATTATTCGGGCTATGTGCCTAGCTGGCTTTGTGC
1 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
* * * *
15406178 TGGTGATTATTCAGACTAAGTGCCTAGCAGGCTTTGTGC
1 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
* * * *
15406217 TGCTAATTATTCAGGCT-TAGTGCCTAGCAGGCTTTGTGC
1 CGGTGATTATTCGGGCTAT-GTGCCTAGCAGGCTTTGTGC
*
15406256 CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
1 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
* * * *
15406295 CGGAT-ATTATTTGAGCTATGTACCTAGTAGGCTTTGTGC
1 CGG-TGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
*
15406334 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGT-T
1 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
* * **
15406372 AGGTGATTATTCGGGCTTTGTGCCTAAAAGG-TTTGTGC
1 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
* *
15406410 CGGTGATTATTCGGGCTTTGTGCCTAGCAGGCTATGTGC
1 CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
15406449 C
1 C
15406450 AGTGTATTGG
Statistics
Matches: 336, Mismatches: 47, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
37 5 0.01
38 56 0.17
39 274 0.82
40 1 0.00
ACGTcount: A:0.16, C:0.18, G:0.31, T:0.35
Consensus pattern (39 bp):
CGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
Found at i:15410122 original size:18 final size:16
Alignment explanation
Indices: 15410089--15410128 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 16
15410079 TTCAATATGG
15410089 ATTTTACTTTTATTTT
1 ATTTTACTTTTATTTT
15410105 ATTTTACTATTGTATTTT
1 ATTTTACT-TT-TATTTT
15410123 ATTTTA
1 ATTTTA
15410129 ATAAGGATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 8 0.36
17 2 0.09
18 12 0.55
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (16 bp):
ATTTTACTTTTATTTT
Found at i:15412270 original size:22 final size:22
Alignment explanation
Indices: 15412229--15412284 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
15412219 GATATTATAT
** *
15412229 GATATGATATGTTATAAGATGC
1 GATATGATATGACATAAGATCC
*
15412251 GATATGATATGACATGAGATCC
1 GATATGATATGACATAAGATCC
*
15412273 GATTTGATATGA
1 GATATGATATGA
15412285 TATGTTATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (22 bp):
GATATGATATGACATAAGATCC
Found at i:15413521 original size:19 final size:19
Alignment explanation
Indices: 15413497--15413534 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15413487 CCTTCAGTTG
15413497 GAATCTTCGTAAAATAATT
1 GAATCTTCGTAAAATAATT
15413516 GAATCTTCGTAAAATAATT
1 GAATCTTCGTAAAATAATT
15413535 TTGCATCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (19 bp):
GAATCTTCGTAAAATAATT
Found at i:15417656 original size:13 final size:13
Alignment explanation
Indices: 15417638--15417662 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15417628 TGTCGTTCCA
15417638 GTGACTTAATTTG
1 GTGACTTAATTTG
15417651 GTGACTTAATTT
1 GTGACTTAATTT
15417663 CATGGTTGTG
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:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (13 bp):
GTGACTTAATTTG
Found at i:15418043 original size:63 final size:60
Alignment explanation
Indices: 15417965--15418107 Score: 186
Period size: 61 Copynumber: 2.4 Consensus size: 60
15417955 TTTTTCTAAT
* * *
15417965 ATTATATATTTTTATTTTTATTAATTCATATTTTAATAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTTTTATTTTTATTAATT-ATA-TTTAATAATAATTAGATTAA-AATATAATTAA
15418028 ATTATATATTTTTA-TTTTATTAAATTATATTTAATAATAATTAGATTAAAATATAATTAA
1 ATTATATATTTTTATTTTTATT-AATTATATTTAATAATAATTAGATTAAAATATAATTAA
*
15418088 A--ATAT-TTATTATTTTTATTA
1 ATTATATATTTTTATTTTTATTA
15418108 CATTTAATAA
Statistics
Matches: 74, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
57 6 0.08
58 11 0.15
60 10 0.14
61 19 0.26
62 10 0.14
63 18 0.24
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (60 bp):
ATTATATATTTTTATTTTTATTAATTATATTTAATAATAATTAGATTAAAATATAATTAA
Found at i:15418777 original size:12 final size:12
Alignment explanation
Indices: 15418760--15418785 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15418750 CAAAATAGGC
15418760 TTTTAGCGGCAT
1 TTTTAGCGGCAT
15418772 TTTTAGCGGCAT
1 TTTTAGCGGCAT
15418784 TT
1 TT
15418786 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCAT
Found at i:15418885 original size:38 final size:40
Alignment explanation
Indices: 15418791--15418886 Score: 142
Period size: 39 Copynumber: 2.4 Consensus size: 40
15418781 CATTTGGATA
*
15418791 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTAC
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTAC
*
15418831 AAAAACGCCGCTAAAAAT-AAGCATTAGCGGCG-TTTTCC
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTAC
*
15418869 AAAAAGCGCCGCAAAAAA
1 AAAAA-CGCCGCTAAAAA
15418887 CCTAAGCTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
38 10 0.19
39 25 0.48
40 17 0.33
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.17
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTAC
Found at i:15418980 original size:41 final size:41
Alignment explanation
Indices: 15418920--15419085 Score: 190
Period size: 41 Copynumber: 4.0 Consensus size: 41
15418910 CAGAGTTTTG
*
15418920 GGGGCATTTAGTGGCGTTTTTGAAAAAGCACCGCTAATGCTC
1 GGGGC-TTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTC
** ** *
15418962 GGGGCTTTAGCGAAGTTTTTGAAAAAGTGCCGCTAATGCTT
1 GGGGCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTC
* * *
15419003 GGGGATTTAGCGGCGTTTTTTAAAAAG-AGCCCCTAATGCTC
1 GGGGCTTTAGCGGCGTTTTTGAAAAAGCA-CCGCTAATGCTC
* * * *
15419044 GAGCCTTTAGCGGCGTTTTTGGAAAAGCACTGCTAATGCTC
1 GGGGCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTC
15419085 G
1 G
15419086 TACCTTTTGC
Statistics
Matches: 102, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
41 96 0.94
42 6 0.06
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (41 bp):
GGGGCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTC
Found at i:15419092 original size:41 final size:41
Alignment explanation
Indices: 15418926--15419110 Score: 167
Period size: 41 Copynumber: 4.5 Consensus size: 41
15418916 TTTGGGGGCA
* **
15418926 TTTAGTGGCGTTTTTGAAAAAGCACCGCTAATGCTCGGGGC
1 TTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTCGGACC
** ** * ***
15418967 TTTAGCGAAGTTTTTGAAAAAGTGCCGCTAATGCTTGGGGA
1 TTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTCGGACC
* *
15419008 TTTAGCGGCGTTTTTTAAAAAG-AGCCCCTAATGCTC-GAGCC
1 TTTAGCGGCGTTTTTGAAAAAGCA-CCGCTAATGCTCGGA-CC
* * *
15419049 TTTAGCGGCGTTTTTGGAAAAGCACTGCTAATGCTCGTACC
1 TTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTCGGACC
* *
15419090 TTTTGCGGCATTTTTAGAAAA
1 TTTAGCGGCGTTTTT-GAAAA
15419111 GCGTCGGCGT
Statistics
Matches: 115, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
40 1 0.01
41 108 0.94
42 6 0.05
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTCGGACC
Found at i:15419098 original size:82 final size:82
Alignment explanation
Indices: 15418924--15419110 Score: 187
Period size: 82 Copynumber: 2.3 Consensus size: 82
15418914 GTTTTGGGGG
* * * *
15418924 CATTTAGTGGCGTTTTTGAAAAAGCACCGCTAATGCTCGGGGCTTTAGCGAAGTTTTTGAAAAAG
1 CATTTAGCGGCGTTTTTGAAAAAGCACCCCTAATGCTCGAGCCTTTAGCGAAGTTTTTGAAAAAG
** * *
15418989 TGCCGCTAATGCTTGGG
66 CACCGCTAATGCTCGGA
* * ** *
15419006 GATTTAGCGGCGTTTTTTAAAAAG-AGCCCCTAATGCTCGAGCCTTTAGCGGCGTTTTTGGAAAA
1 CATTTAGCGGCGTTTTTGAAAAAGCA-CCCCTAATGCTCGAGCCTTTAGCGAAGTTTTTGAAAAA
* *
15419070 GCACTGCTAATGCTCGTA
65 GCACCGCTAATGCTCGGA
* * *
15419088 CCTTTTGCGGCATTTTTAGAAAA
1 CATTTAGCGGCGTTTTT-GAAAA
15419111 GCGTCGGCGT
Statistics
Matches: 83, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 1 0.01
82 78 0.94
83 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (82 bp):
CATTTAGCGGCGTTTTTGAAAAAGCACCCCTAATGCTCGAGCCTTTAGCGAAGTTTTTGAAAAAG
CACCGCTAATGCTCGGA
Found at i:15420249 original size:6 final size:7
Alignment explanation
Indices: 15420225--15420284 Score: 59
Period size: 7 Copynumber: 8.7 Consensus size: 7
15420215 ATAGTTTTGA
15420225 GTTTAGG
1 GTTTAGG
15420232 GTTTAGG
1 GTTTAGG
15420239 GTTTA-G
1 GTTTAGG
15420245 GTTTAGG
1 GTTTAGG
* *
15420252 GCTTGGG
1 GTTTAGG
* *
15420259 GATTGGG
1 GTTTAGG
*
15420266 GTTTAAG
1 GTTTAGG
*
15420273 GTTTAGA
1 GTTTAGG
15420280 GTTTA
1 GTTTA
15420285 CATTTTAGTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
6 6 0.14
7 38 0.86
ACGTcount: A:0.17, C:0.02, G:0.40, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:15420733 original size:24 final size:25
Alignment explanation
Indices: 15420697--15420744 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
15420687 TTAAAATGAA
15420697 TTTTAAAAGATTT-TAAACTTTTAT
1 TTTTAAAAGATTTATAAACTTTTAT
* * *
15420721 TTTTATAATATTTATATACTTTTA
1 TTTTAAAAGATTTATAAACTTTTA
15420745 AAGAAAAGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (25 bp):
TTTTAAAAGATTTATAAACTTTTAT
Found at i:15421028 original size:41 final size:41
Alignment explanation
Indices: 15420966--15421052 Score: 138
Period size: 41 Copynumber: 2.1 Consensus size: 41
15420956 AAGTTCTACG
*
15420966 ATTTTGGGCCGACTTTATTATACGGGCAAATCCATATAAAA
1 ATTTTGGGCCAACTTTATTATACGGGCAAATCCATATAAAA
* **
15421007 ATTTTGGGCCAACTTTGTTATACGGGCTTATCCATATAAAA
1 ATTTTGGGCCAACTTTATTATACGGGCAAATCCATATAAAA
15421048 ATTTT
1 ATTTT
15421053 ATCCATATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (41 bp):
ATTTTGGGCCAACTTTATTATACGGGCAAATCCATATAAAA
Found at i:15424811 original size:43 final size:43
Alignment explanation
Indices: 15424732--15424887 Score: 215
Period size: 43 Copynumber: 3.6 Consensus size: 43
15424722 AATAATTTTT
* * * ** *
15424732 TAAAGGTTAT-GTTTTTAGCGGCGTTTGTGACAAAAAGCTCCGC
1 TAAAGGTCATGGTCTTTAGCAGCGTTTGTG-GGAAAAGCACCGC
* *
15424775 TAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCAGCGTTTGTGGGAAAAGCACCGC
*
15424818 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCACCGC
1 TAAAGGTCATGGTCTTTAGCAGCGTTTGTGGGAAAAGCACCGC
15424861 TAAAGGTCATGGTCTTTAGCAGCGTTT
1 TAAAGGTCATGGTCTTTAGCAGCGTTT
15424888 ATTTCTAAAA
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
43 85 0.84
44 16 0.16
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
TAAAGGTCATGGTCTTTAGCAGCGTTTGTGGGAAAAGCACCGC
Found at i:15433599 original size:27 final size:27
Alignment explanation
Indices: 15433575--15433716 Score: 184
Period size: 27 Copynumber: 5.3 Consensus size: 27
15433565 AGAAGTATAA
15433575 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
*
15433602 C-GATCATTTTACCC--TGAGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
* *
15433627 CAGTCATTTTACCTTATAGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * *
15433654 CGGTCATTTTACCCTATGAGGGCATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
15433681 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
15433708 C-GATCATTT
1 CAG-TCATTT
15433717 ATTGACCGCT
Statistics
Matches: 98, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
25 21 0.21
26 3 0.03
27 74 0.76
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTATTT
Found at i:15433636 original size:52 final size:53
Alignment explanation
Indices: 15433575--15433716 Score: 232
Period size: 54 Copynumber: 2.7 Consensus size: 53
15433565 AGAAGTATAA
*
15433575 CAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCC-TGAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCATGAGGGCATTT
* * *
15433627 CAGTCATTTTACCTTATAGGGGTATTTCGGTCATTTTACCCTATGAGGGCATTT
1 CAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCC-ATGAGGGCATTT
15433681 CAGTCATTTTACCCTATGGGGGTATTTCGATCATTT
1 CAGTCATTTTACCCTATGGGGGTATTTCGATCATTT
15433717 ATTGACCGCT
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
52 38 0.47
54 43 0.53
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (53 bp):
CAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCATGAGGGCATTT
Found at i:15434690 original size:34 final size:37
Alignment explanation
Indices: 15434638--15434719 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 37
15434628 GGTAGAAATC
*
15434638 AAAGACAGA-AAGAGAAAG-ATATTCGGCCA-AAG-AA
1 AAAGA-AGAGAAGAGAAAGAAGATTCGGCCAGAAGAAA
* *
15434672 GAAGAAGAGAAGAGAAAGAAGATTCGGCCAGTAGAAA
1 AAAGAAGAGAAGAGAAAGAAGATTCGGCCAGAAGAAA
15434709 AAAGAAGAGAA
1 AAAGAAGAGAA
15434720 AAAGAGAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 3 0.08
34 13 0.32
35 10 0.25
36 2 0.05
37 12 0.30
ACGTcount: A:0.56, C:0.09, G:0.28, T:0.07
Consensus pattern (37 bp):
AAAGAAGAGAAGAGAAAGAAGATTCGGCCAGAAGAAA
Found at i:15434714 original size:37 final size:36
Alignment explanation
Indices: 15434629--15434719 Score: 98
Period size: 37 Copynumber: 2.5 Consensus size: 36
15434619 ATAATAGGAG
*
15434629 GTAGAAATCAAAGACAGA-AAGAGAAAGATATTCGGCCA
1 GTAGAAA--AAAGA-AGAGAAGAGAAAGAGATTCGGCCA
* *
15434667 -AAG-AAGAAGAAGAGAAGAGAAAGAAGATTCGGCCA
1 GTAGAAAAAAGAAGAGAAGAGAAAG-AGATTCGGCCA
15434702 GTAGAAAAAAGAAGAGAA
1 GTAGAAAAAAGAAGAGAA
15434720 AAAGAGAGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
33 3 0.07
34 13 0.30
35 10 0.23
36 4 0.09
37 14 0.32
ACGTcount: A:0.55, C:0.09, G:0.27, T:0.09
Consensus pattern (36 bp):
GTAGAAAAAAGAAGAGAAGAGAAAGAGATTCGGCCA
Found at i:15441003 original size:28 final size:28
Alignment explanation
Indices: 15440937--15441015 Score: 94
Period size: 28 Copynumber: 3.0 Consensus size: 28
15440927 ATATCAGTAC
**
15440937 AGTGTGGGCC-TAGCCTGATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
**
15440964 AGTGTGATCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
15440992 AGTGTGGGCCTT---CCAATACAGTAA
1 AGTGTGGGCCTTAGCCCAATACAGTAA
15441016 CAGTACAGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
25 12 0.27
27 8 0.18
28 25 0.56
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAT
Found at i:15441391 original size:27 final size:27
Alignment explanation
Indices: 15441368--15441565 Score: 204
Period size: 27 Copynumber: 7.3 Consensus size: 27
15441358 AGAGGTATAA
15441368 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
**
15441395 C-GATCATTTTACCCTATAAGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
* *
15441422 CGGTTATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* **
15441449 CAGTCATTTTACCATATGAAGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
15441476 C-GATCATCTTACCCTATGGGGATATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
* *
15441503 AAGTCATTTTACCCTATGGGGATATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
** * * *
15441530 TGGTCATTCTACCTTATGGCGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
15441557 C-GATCATTT
1 CAG-TCATTT
15441566 ATTGATCGCT
Statistics
Matches: 141, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.02
27 136 0.96
28 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTATTT
Found at i:15441431 original size:54 final size:55
Alignment explanation
Indices: 15441370--15441565 Score: 233
Period size: 54 Copynumber: 3.6 Consensus size: 55
15441360 AGGTATAACA
15441370 GTCATTTTACCCTATGGGGGTATTTCGA-TCATTTTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGAGTCATTTTACCCTATAAGGGTATTTCG
* *
15441424 GTTATTTTACCCTATGGGGGTATTTC-AGTCATTTTACCATATGAA-GGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGAGTCATTTTACCCTAT-AAGGGTATTTCG
* * * * * *
15441478 ATCATCTTACCCTATGGGGATATTT-AAGTCATTTTACCCTAT-GGGGATATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCGAGTCATTTTACCCTATAAGGG-TATTTCG
* * *
15441532 GTCATTCTACCTTATGGCGGTATTTCGA-TCATTT
1 GTCATTTTACCCTATGGGGGTATTTCGAGTCATTT
15441566 ATTGATCGCT
Statistics
Matches: 120, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
53 3 0.03
54 114 0.95
55 3 0.03
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.42
Consensus pattern (55 bp):
GTCATTTTACCCTATGGGGGTATTTCGAGTCATTTTACCCTATAAGGGTATTTCG
Found at i:15441473 original size:81 final size:81
Alignment explanation
Indices: 15441368--15441565 Score: 254
Period size: 81 Copynumber: 2.4 Consensus size: 81
15441358 AGAGGTATAA
* * ** *
15441368 CAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAAGGG-TATTTCGGTTATTTT
1 CAGTCATTTTACCATATGGAGGTATTTCGATCATTTTACCCTAT-AGGGATATTTAAGTCATTTT
*
15441432 ACCCTATGGGGGTATTT
65 ACCCTATGGGGATATTT
* * *
15441449 CAGTCATTTTACCATATGAAGGTATTTCGATCATCTTACCCTATGGGGATATTTAAGTCATTTTA
1 CAGTCATTTTACCATATGGAGGTATTTCGATCATTTTACCCTATAGGGATATTTAAGTCATTTTA
15441514 CCCTATGGGGATATTT
66 CCCTATGGGGATATTT
** * * *
15441530 TGGTCATTCTACCTTATGGCGGTATTTCGATCATTT
1 CAGTCATTTTACCATATGGAGGTATTTCGATCATTT
15441566 ATTGATCGCT
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
80 3 0.03
81 97 0.97
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (81 bp):
CAGTCATTTTACCATATGGAGGTATTTCGATCATTTTACCCTATAGGGATATTTAAGTCATTTTA
CCCTATGGGGATATTT
Found at i:15442560 original size:27 final size:27
Alignment explanation
Indices: 15442530--15442592 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
15442520 GAAGAAGAAT
*
15442530 AGAAGAGAAAGAAGATTCAGCCAGCAG
1 AGAAGAGAAAGAAGATTCAGCCAACAG
** *
15442557 AGAAGAGAAAGAAGATTTGGCCAATAG
1 AGAAGAGAAAGAAGATTCAGCCAACAG
15442584 AGAAGAGAA
1 AGAAGAGAA
15442593 GAGAGAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.51, C:0.10, G:0.30, T:0.10
Consensus pattern (27 bp):
AGAAGAGAAAGAAGATTCAGCCAACAG
Found at i:15443299 original size:35 final size:35
Alignment explanation
Indices: 15443249--15443397 Score: 208
Period size: 35 Copynumber: 4.2 Consensus size: 35
15443239 CAATCCCTCA
* * *
15443249 AAACACACCAAATGCTCACAAGATCTAGTCGAACCG
1 AAACACGCC-AATGCTCACAAGAGCTAGTCCAACCG
*
15443285 AAACACGCCAATGCTCACAAGAACTAGTCCAACCG
1 AAACACGCCAATGCTCACAAGAGCTAGTCCAACCG
* * * *
15443320 AAACATGCTAATGCTCATAAGAGGTAGTCCAACCG
1 AAACACGCCAATGCTCACAAGAGCTAGTCCAACCG
*
15443355 AAACACGCCAATGCTCATAAGAGCTAGTCCAACCG
1 AAACACGCCAATGCTCACAAGAGCTAGTCCAACCG
15443390 AAACACGC
1 AAACACGC
15443398 AAAACAGAGA
Statistics
Matches: 102, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
35 94 0.92
36 8 0.08
ACGTcount: A:0.40, C:0.30, G:0.16, T:0.14
Consensus pattern (35 bp):
AAACACGCCAATGCTCACAAGAGCTAGTCCAACCG
Found at i:15445012 original size:18 final size:19
Alignment explanation
Indices: 15444971--15445017 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
15444961 TATTGAACAT
* *
15444971 AAAAATAAAATTCAAATTG
1 AAAATTAAAATTCAAAATG
*
15444990 GAAATTAAAATT-AAAATG
1 AAAATTAAAATTCAAAATG
*
15445008 AAAATGAAAA
1 AAAATTAAAA
15445018 ATTTCTTTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (19 bp):
AAAATTAAAATTCAAAATG
Found at i:15449215 original size:36 final size:36
Alignment explanation
Indices: 15449163--15449236 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
15449153 AGTAAACTCT
* * *
15449163 ATTCATTTCAGTAGCCTTTGGGATCTATTATGACTG
1 ATTCATTTCAATAGCCTTTCGAATCTATTATGACTG
*
15449199 ATTCCTTTCAATAGCCTTTCGAATCTATTATGACTG
1 ATTCATTTCAATAGCCTTTCGAATCTATTATGACTG
15449235 AT
1 AT
15449237 GCGCTCCTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.42
Consensus pattern (36 bp):
ATTCATTTCAATAGCCTTTCGAATCTATTATGACTG
Found at i:15451462 original size:20 final size:20
Alignment explanation
Indices: 15451437--15451501 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
15451427 CAATTAGATA
15451437 ACTGAGGAAAAGAGAAAGTT
1 ACTGAGGAAAAGAGAAAGTT
* *
15451457 ACTGAGTAACAAGTAG--A-TA
1 ACTGAGGAA-AAG-AGAAAGTT
**
15451476 ACCAAGGAAAAGAGAAAGTT
1 ACTGAGGAAAAGAGAAAGTT
15451496 ACTGAG
1 ACTGAG
15451502 TAGTCCTTGA
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
17 2 0.06
18 3 0.09
19 8 0.25
20 14 0.44
21 3 0.09
22 2 0.06
ACGTcount: A:0.49, C:0.09, G:0.26, T:0.15
Consensus pattern (20 bp):
ACTGAGGAAAAGAGAAAGTT
Found at i:15451484 original size:39 final size:39
Alignment explanation
Indices: 15451425--15451503 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
15451415 ATAGATCAAG
* **
15451425 AACAATTAGATAACTGAGGAAAAGAGAAAGTTACTGAGT
1 AACAAGTAGATAACCAAGGAAAAGAGAAAGTTACTGAGT
15451464 AACAAGTAGATAACCAAGGAAAAGAGAAAGTTACTGAGT
1 AACAAGTAGATAACCAAGGAAAAGAGAAAGTTACTGAGT
15451503 A
1 A
15451504 GTCCTTGAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.51, C:0.09, G:0.23, T:0.18
Consensus pattern (39 bp):
AACAAGTAGATAACCAAGGAAAAGAGAAAGTTACTGAGT
Found at i:15453066 original size:54 final size:54
Alignment explanation
Indices: 15453008--15453120 Score: 201
Period size: 54 Copynumber: 2.1 Consensus size: 54
15452998 TTTTTCTATT
*
15453008 TGAAGTTAAATGTTATGAATTGTACTATAATACTCTATAACCTTAA-TCTGATGA
1 TGAAGTTAAATGTTATGAATTGTACTATAATACTCTATAACCCTAATTC-GATGA
15453062 TGAAGTTAAATGTTATGAATTGTACTATAATACTCTATAACCCTAATTCGATGA
1 TGAAGTTAAATGTTATGAATTGTACTATAATACTCTATAACCCTAATTCGATGA
15453116 TGAAG
1 TGAAG
15453121 ATAGGTTAGG
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
54 55 0.96
55 2 0.04
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (54 bp):
TGAAGTTAAATGTTATGAATTGTACTATAATACTCTATAACCCTAATTCGATGA
Found at i:15465505 original size:20 final size:22
Alignment explanation
Indices: 15465461--15465508 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
15465451 CCTATATGTA
* *
15465461 TAAATTAACCTATATTAATAAC
1 TAAATTAACCTATATAAAAAAC
15465483 TAAATTAACC-AT-TAAAAAAC
1 TAAATTAACCTATATAAAAAAC
15465503 TAAATT
1 TAAATT
15465509 TAATAGTTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 12 0.50
21 2 0.08
22 10 0.42
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAATTAACCTATATAAAAAAC
Found at i:15467494 original size:55 final size:54
Alignment explanation
Indices: 15467399--15467548 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
15467389 CTACTTTGTT
* ** * *
15467399 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
15467453 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
15467508 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
15467549 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:15467511 original size:27 final size:27
Alignment explanation
Indices: 15467371--15467548 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
15467361 TAAATTGTAC
15467371 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
15467398 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
15467424 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
15467452 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
15467480 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
15467507 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
15467534 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
15467549 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:15467512 original size:82 final size:81
Alignment explanation
Indices: 15467372--15467527 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
15467362 AAATTGTACA
* * * *
15467372 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
15467437 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
15467453 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
15467516 TGTGCGAGTTGA
63 TGTGCGAATTGA
15467528 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:15486759 original size:50 final size:50
Alignment explanation
Indices: 15486588--15486758 Score: 220
Period size: 50 Copynumber: 3.4 Consensus size: 50
15486578 TATCCCAGAT
** * *
15486588 ATGGTCTTACATGGGATTTCTCATATCGGTGCCCA-TGCCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACT-CCATGTCCCAAAC
* * *
15486638 ATGGTCTTAC-GGAGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATG-GGACCTCTCATCTCGGTGCCAACTCCATGTCCCAAAC
* * *
15486688 ATGGTCTTACATGGGAGCTCTTATCTTGGTGCCAACTCCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACTCCATGTCCCAAAC
15486738 ATGGTCTTACATGGGACCTCT
1 ATGGTCTTACATGGGACCTCT
15486759 TTACCCAAAT
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 102 0.98
51 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACTCCATGTCCCAAAC
Found at i:15494138 original size:50 final size:50
Alignment explanation
Indices: 15494017--15494242 Score: 210
Period size: 50 Copynumber: 4.6 Consensus size: 50
15494007 AAAAACATGC
* **
15494017 CCAA-GCCATGTCCCAAACATGGTTTTACATGGGATGTTTTCTC-TA-C--TG
1 CCAATGCCATGTCCCAAACATGGTCTTACATGGGA---CCTCTCATATCGGTG
* * * **
15494065 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTG
* ** *
15494115 CCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTG
* * * * * **
15494165 CCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTTATCTCAATG
1 CCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTG
*
15494215 CCAATGCCATGTCCCATACATGGTCTTA
1 CCAATGCCATGTCCCAAACATGGTCTTA
15494243 TTGAGACCTT
Statistics
Matches: 147, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
46 5 0.03
47 2 0.01
48 5 0.03
49 26 0.18
50 109 0.74
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (50 bp):
CCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:15494197 original size:100 final size:100
Alignment explanation
Indices: 15494063--15494242 Score: 252
Period size: 100 Copynumber: 1.8 Consensus size: 100
15494053 TTTTCTCTAC
* * ** ** *
15494063 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTC
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCAATGCCAATGCCATGTC
15494128 CCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
66 CCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
* * * *
15494163 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTTATCTCAATGCCAATGCCATGTC
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCAATGCCAATGCCATGTC
*
15494228 CCATACATGGTCTTA
66 CCAAACATGGTCTTA
15494243 TTGAGACCTT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
100 68 1.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (100 bp):
TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCAATGCCAATGCCATGTC
CCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
Found at i:15498041 original size:9 final size:9
Alignment explanation
Indices: 15497953--15498162 Score: 98
Period size: 9 Copynumber: 23.2 Consensus size: 9
15497943 TAAGTATAAT
15497953 TAAGTTATG
1 TAAGTTATG
*
15497962 TAACTTATG
1 TAAGTTATG
* *
15497971 ATAAGAATATA
1 -TAAG-TTATG
15497982 TAA-TTATG
1 TAAGTTATG
15497990 T-A-TTATG
1 TAAGTTATG
*
15497997 CAAGTTATG
1 TAAGTTATG
* *
15498006 ATAATAGTATTTA
1 -T-A-AGT-TATG
*
15498019 TAAGTTGT-
1 TAAGTTATG
15498027 TAAGTTATG
1 TAAGTTATG
15498036 TAAGTTATG
1 TAAGTTATG
*
15498045 TGAGTTATG
1 TAAGTTATG
15498054 T-AGATTATG
1 TAAG-TTATG
* * *
15498063 ATATGATACATA
1 -TAAG-T-TATG
15498075 TAAGTTAT-
1 TAAGTTATG
*
15498083 TAAGTTAGG
1 TAAGTTATG
15498092 TAAGTTATG
1 TAAGTTATG
*
15498101 CAAGTTATG
1 TAAGTTATG
15498110 TAAGTTATG
1 TAAGTTATG
*
15498119 --A-TATATA
1 TAAGT-TATG
*
15498126 TAAGTTGT-
1 TAAGTTATG
*
15498134 TAACTTATG
1 TAAGTTATG
15498143 TAAGTTATG
1 TAAGTTATG
*
15498152 TGAGTTATG
1 TAAGTTATG
15498161 TA
1 TA
15498163 GATTATGATA
Statistics
Matches: 153, Mismatches: 29, Indels: 38
0.70 0.13 0.17
Matches are distributed among these distances:
6 1 0.01
7 10 0.07
8 27 0.18
9 84 0.55
10 12 0.08
11 11 0.07
12 6 0.04
13 2 0.01
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (9 bp):
TAAGTTATG
Found at i:15498086 original size:56 final size:56
Alignment explanation
Indices: 15498017--15498278 Score: 292
Period size: 56 Copynumber: 4.8 Consensus size: 56
15498007 TAATAGTATT
* *
15498017 TATAAGTTGTTAAGTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATACA
1 TATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATA
* ** *
15498073 TATAAGTTATTAAGTTAGGTAAGTTATGCAAGTTATGT--A--A-GTTATGATATA
1 TATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATA
* *
15498124 TATAAGTTGTTAACTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATA
1 TATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATA
* * * * * * *
15498180 TATAAGTTATT-A-TTCA-CTAATTTATGAGA-TACATTTA-AGTTACGGTATGATATA
1 TATAAGTTATTAAGTT-ATGTAAGTTATGTGAGT-TATGTAGA-TTATGATATGATATA
15498234 TATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAGATTAT
1 TATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAGATTAT
15498279 CAATCTAATA
Statistics
Matches: 167, Mismatches: 26, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
51 42 0.25
52 1 0.01
53 3 0.02
54 41 0.25
55 5 0.03
56 73 0.44
57 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.19, T:0.44
Consensus pattern (56 bp):
TATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATATA
Found at i:15498146 original size:51 final size:52
Alignment explanation
Indices: 15498017--15498179 Score: 195
Period size: 51 Copynumber: 3.1 Consensus size: 52
15498007 TAATAGTATT
**
15498017 TATAAGTTGTTAAGTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATACA
1 TATAAGTTGTTAAGTTATGTAAGTTATGCAAGTTATGTAGATTATG--AT-ATA-A
* *
15498073 TATAAGTTATTAAGTTAGGTAAGTTATGCAAGTTATGTA-AGTTATGATAT-A
1 TATAAGTTGTTAAGTTATGTAAGTTATGCAAGTTATGTAGA-TTATGATATAA
* ** *
15498124 TATAAGTTGTTAACTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGA
1 TATAAGTTGTTAAGTTATGTAAGTTATGCAAGTTATGTAGATTATGATATAA
15498176 TATA
1 TATA
15498180 TATAAGTTAT
Statistics
Matches: 95, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
51 44 0.46
52 6 0.06
53 2 0.02
54 2 0.02
55 1 0.01
56 40 0.42
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.43
Consensus pattern (52 bp):
TATAAGTTGTTAAGTTATGTAAGTTATGCAAGTTATGTAGATTATGATATAA
Found at i:15498175 original size:107 final size:105
Alignment explanation
Indices: 15497992--15498278 Score: 359
Period size: 107 Copynumber: 2.7 Consensus size: 105
15497982 TAATTATGTA
*
15497992 TTATGCAAGTTATGATAA-TA-G-TATTTATAAGTTGTTAAGTTATGTAAGTTATGTGAGTTATG
1 TTATGCAAGTTATGATAAGTATGATATATATAAGTTGTTAAGTTATGTAAGTTATGTGAGTTATG
*
15498054 TAGATTATGATATGATACATATAAGTTATTAAGTT-AGGTAAG
66 TAGATTATGATATGATACATATAAGTTATT-A-TTCA-CTAAG
*
15498096 TTATGCAAGTTATG-TAAGTTATGATATATATAAGTTGTTAACTTATGTAAGTTATGTGAGTTAT
1 TTATGCAAGTTATGATAAG-TATGATATATATAAGTTGTTAAGTTATGTAAGTTATGTGAGTTAT
* *
15498160 GTAGATTATGATATGATATATATAAGTTATTATTCACTAAT
65 GTAGATTATGATATGATACATATAAGTTATTATTCACTAAG
* * * * * *
15498201 TTATGAGATACATTTAAGTTACGGTATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAG
1 TTAT--G-CA-AGTTATGATA-AGTATGATATATATAAGTTGTTAAGTTATGTAAGTTATGTGAG
15498266 TTATGTAGATTAT
61 TTATGTAGATTAT
15498279 CAATCTAATA
Statistics
Matches: 161, Mismatches: 11, Indels: 16
0.86 0.06 0.09
Matches are distributed among these distances:
103 3 0.02
104 14 0.09
105 11 0.07
106 3 0.02
107 69 0.43
108 1 0.01
109 5 0.03
110 54 0.34
111 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (105 bp):
TTATGCAAGTTATGATAAGTATGATATATATAAGTTGTTAAGTTATGTAAGTTATGTGAGTTATG
TAGATTATGATATGATACATATAAGTTATTATTCACTAAG
Found at i:15498258 original size:9 final size:9
Alignment explanation
Indices: 15498236--15498272 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
15498226 ATGATATATA
15498236 TAAGTTAT-
1 TAAGTTATG
15498244 TAAGTTATG
1 TAAGTTATG
15498253 TAAGTTATG
1 TAAGTTATG
*
15498262 TGAGTTATG
1 TAAGTTATG
15498271 TA
1 TA
15498273 GATTATCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 8 0.31
9 18 0.69
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:15500180 original size:39 final size:38
Alignment explanation
Indices: 15500113--15500188 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 38
15500103 TGATACATTA
15500113 ATATGACATTATTTTTAATTGTTAAATTTTCTAAAATTTTC
1 ATATGACATTA-TTTTAATTGTTAAA-TTT-TAAAATTTTC
*
15500154 ATATGACATTA-TTTAATTGTTCAATTTTAAAATTT
1 ATATGACATTATTTTAATTGTTAAATTTTAAAATTT
15500189 AATATAATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
37 8 0.24
38 3 0.09
39 12 0.35
41 11 0.32
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.53
Consensus pattern (38 bp):
ATATGACATTATTTTAATTGTTAAATTTTAAAATTTTC
Found at i:15500689 original size:14 final size:13
Alignment explanation
Indices: 15500672--15500716 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
15500662 TTTAAACACT
15500672 AAACTCCAAACCTC
1 AAAC-CCAAACCTC
15500686 AAACCCTAAACCTC
1 AAACCC-AAACCTC
*
15500700 AATCCCAAACC-C
1 AAACCCAAACCTC
15500712 AAACC
1 AAACC
15500717 TTAAACCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 5 0.18
13 7 0.25
14 16 0.57
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.11
Consensus pattern (13 bp):
AAACCCAAACCTC
Found at i:15501102 original size:21 final size:21
Alignment explanation
Indices: 15501078--15501156 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
15501068 TCCAACCCTT
15501078 AACCCATAAACCTTAAATCCC
1 AACCCATAAACCTTAAATCCC
* *
15501099 AACCCTTAAACCAT-AATCCC
1 AACCCATAAACCTTAAATCCC
* *
15501119 TAATCCATAATCCTTAAAT-CC
1 -AACCCATAAACCTTAAATCCC
*
15501140 ACACTCCCTAAACCTTA
1 A-AC-CCATAAACCTTA
15501157 CACTATTAAC
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
20 7 0.16
21 25 0.56
22 13 0.29
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.24
Consensus pattern (21 bp):
AACCCATAAACCTTAAATCCC
Found at i:15501608 original size:41 final size:40
Alignment explanation
Indices: 15501536--15501749 Score: 232
Period size: 41 Copynumber: 5.2 Consensus size: 40
15501526 AAATGTTTTT
**
15501536 GCGGCGCATTTTCAAAAACGCTACTAAAGCCCCGAGCATTA
1 GCGGCGC-TTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * ** *
15501577 GCGACGCTCCTTGGAAAACGCCGCTATAGCCCCGAGCATTA
1 GCGGCGCT-TTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * *
15501618 GCGGCGCTTTTTCAAAAATGCCGCTAAATCCCCGA-CTTTA
1 GCGGCGC-TTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
*
15501658 GCGGCGCTTTTTCAACAACGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGC-TTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * * *
15501699 GCAGTGCTTTTTCTAAAACGCCGCTAAAGCCCTGAACATTA
1 GCGGCGC-TTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
15501740 GCGGCGCTTT
1 GCGGCGCTTT
15501750 CTAAAGCCCT
Statistics
Matches: 143, Mismatches: 27, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
40 40 0.28
41 102 0.71
42 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (40 bp):
GCGGCGCTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
Found at i:15501696 original size:81 final size:82
Alignment explanation
Indices: 15501539--15501749 Score: 255
Period size: 81 Copynumber: 2.6 Consensus size: 82
15501529 TGTTTTTGCG
* ** * * * **
15501539 GCGCATTTTCAAAAACGCTACTAAAGCCCCGAGCATTAGCGACGCTCCTTGGAA-AACGCCGCTA
1 GCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAACATTAGCGGCGCT-TTTTCAACAACGCCGCTA
* *
15501603 TAGCCCCGAGCATTAGCG
65 AAGCCCCGAGCATTAGCA
* * *
15501621 GCGCTTTTTCAAAAATGCCGCTAAATCCCCG-ACTTTAGCGGCGCTTTTTCAACAACGCCGCTAA
1 GCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAACATTAGCGGCGCTTTTTCAACAACGCCGCTAA
15501685 AGCCCCGAGCATTAGCA
66 AGCCCCGAGCATTAGCA
* * *
15501702 GTGCTTTTTCTAAAACGCCGCTAAAGCCCTGAACATTAGCGGCGCTTT
1 GCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAACATTAGCGGCGCTTT
15501750 CTAAAGCCCT
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
80 4 0.04
81 63 0.58
82 41 0.38
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (82 bp):
GCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAACATTAGCGGCGCTTTTTCAACAACGCCGCTAA
AGCCCCGAGCATTAGCA
Found at i:15510745 original size:31 final size:31
Alignment explanation
Indices: 15510708--15510773 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
15510698 AGATTTAATT
15510708 TTTTAAAAATTAATTAATAAAAAGAAATTTG
1 TTTTAAAAATTAATTAATAAAAAGAAATTTG
15510739 TTTTAAAAATTAATTAATAAAAAGAAATTTG
1 TTTTAAAAATTAATTAATAAAAAGAAATTTG
15510770 TTTT
1 TTTT
15510774 TCTCCTTATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (31 bp):
TTTTAAAAATTAATTAATAAAAAGAAATTTG
Done.