Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 71 of 144
Found at i:14930891 original size:30 final size:30
Alignment explanation
Indices: 14930857--14931000 Score: 134
Period size: 30 Copynumber: 4.8 Consensus size: 30
14930847 AAGAGGTCCC
*
14930857 TAAAC-TTCCTAAAAATCATATTTTAACCCT
1 TAAACTTTCC-AAAAATCACATTTTAACCCT
* *
14930887 TAAACCTTTCC-AAATTTACATTTTAACCC-
1 TAAA-CTTTCCAAAAATCACATTTTAACCCT
**
14930916 TAAACTTTTCC-AAAATTGCATTTTAACCCT
1 TAAAC-TTTCCAAAAATCACATTTTAACCCT
* * *
14930946 TGAACTTTCTAAAAATCACATTTTGACCCCT
1 TAAACTTTCCAAAAATCACATTTT-AACCCT
* *
14930977 TAAATTTTCCAAAAATAACATTTT
1 TAAACTTTCCAAAAATCACATTTT
14931001 GACTCCAAAT
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
28 1 0.01
29 29 0.31
30 34 0.36
31 26 0.28
32 4 0.04
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.38
Consensus pattern (30 bp):
TAAACTTTCCAAAAATCACATTTTAACCCT
Found at i:14930931 original size:59 final size:60
Alignment explanation
Indices: 14930868--14931000 Score: 137
Period size: 59 Copynumber: 2.2 Consensus size: 60
14930858 AAACTTCCTA
* * * *
14930868 AAAATCATATTTTAACCCTTAAACCTTTC-CAAATTTACATTTT-AACCC-TAAACTTTTCC
1 AAAATCACATTTTAACCCTTAAA-CTTTCTAAAAATCACATTTTGAACCCTTAAA-TTTTCC
** * *
14930927 AAAATTGCATTTTAACCCTTGAACTTTCTAAAAATCACATTTTGACCCCTTAAATTTTCC
1 AAAATCACATTTTAACCCTTAAACTTTCTAAAAATCACATTTTGAACCCTTAAATTTTCC
*
14930987 AAAAATAACATTTT
1 -AAAATCACATTTT
14931001 GACTCCAAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
58 5 0.08
59 30 0.50
60 10 0.17
61 15 0.25
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.38
Consensus pattern (60 bp):
AAAATCACATTTTAACCCTTAAACTTTCTAAAAATCACATTTTGAACCCTTAAATTTTCC
Found at i:14930954 original size:29 final size:29
Alignment explanation
Indices: 14930876--14931000 Score: 126
Period size: 29 Copynumber: 4.2 Consensus size: 29
14930866 TAAAAATCAT
*
14930876 ATTTTAACCCTTAAACCTTTCCAAATTTAC
1 ATTTTAACCCTTAAA-CTTTCCAAAATTAC
*
14930906 ATTTTAACCC-TAAACTTTTCCAAAATTGC
1 ATTTTAACCCTTAAAC-TTTCCAAAATTAC
* * *
14930935 ATTTTAACCCTTGAACTTTCTAAAAATCAC
1 ATTTTAACCCTTAAACTTTC-CAAAATTAC
* * *
14930965 ATTTTGACCCCTTAAATTTTCCAAAAATAAC
1 ATTTT-AACCCTTAAACTTTCC-AAAATTAC
14930996 ATTTT
1 ATTTT
14931001 GACTCCAAAT
Statistics
Matches: 79, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
28 1 0.01
29 29 0.37
30 25 0.32
31 24 0.30
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.39
Consensus pattern (29 bp):
ATTTTAACCCTTAAACTTTCCAAAATTAC
Found at i:14937714 original size:55 final size:55
Alignment explanation
Indices: 14937649--14937754 Score: 203
Period size: 55 Copynumber: 1.9 Consensus size: 55
14937639 ACCCCGAGTG
14937649 AGCTTCTGAAAATGAAAAAAGGACATTGAGAAGGCTTGCAAATGAATATGTAGCA
1 AGCTTCTGAAAATGAAAAAAGGACATTGAGAAGGCTTGCAAATGAATATGTAGCA
*
14937704 AGCTTCTGAAAATGCAAAAAGGACATTGAGAAGGCTTGCAAATGAATATGT
1 AGCTTCTGAAAATGAAAAAAGGACATTGAGAAGGCTTGCAAATGAATATGT
14937755 CCTAGTCGGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (55 bp):
AGCTTCTGAAAATGAAAAAAGGACATTGAGAAGGCTTGCAAATGAATATGTAGCA
Found at i:14948514 original size:9 final size:9
Alignment explanation
Indices: 14948502--14948530 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
14948492 AGAGTTTAAA
14948502 TTTTAATTT
1 TTTTAATTT
14948511 TTTTAATTT
1 TTTTAATTT
14948520 TTTTAATTT
1 TTTTAATTT
14948529 TT
1 TT
14948531 ATAGATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTAATTT
Found at i:14948597 original size:26 final size:26
Alignment explanation
Indices: 14948517--14948598 Score: 85
Period size: 26 Copynumber: 3.1 Consensus size: 26
14948507 ATTTTTTTAA
* *
14948517 TTTTTTTAATTTTTATAGATTAAAAT
1 TTTTTTTAATTTTTAAAGATTTAAAT
* * *
14948543 TTTTTTACTAACTTTT-AAGAACTTCAAT
1 TTTTTT--TAATTTTTAAAG-ATTTAAAT
14948571 TTTTTTTAATTTTTAAAGATTTAAAT
1 TTTTTTTAATTTTTAAAGATTTAAAT
14948597 TT
1 TT
14948599 ATTATTTTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
26 21 0.48
27 5 0.11
28 18 0.41
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.59
Consensus pattern (26 bp):
TTTTTTTAATTTTTAAAGATTTAAAT
Found at i:14948657 original size:6 final size:6
Alignment explanation
Indices: 14948646--14948683 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
14948636 TCTTTATTTT
14948646 ACCATC ACCATC ACCATC ACCATC ACCATC ACCATC AC
1 ACCATC ACCATC ACCATC ACCATC ACCATC ACCATC AC
14948684 TTAATTACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.34, C:0.50, G:0.00, T:0.16
Consensus pattern (6 bp):
ACCATC
Found at i:14952190 original size:26 final size:26
Alignment explanation
Indices: 14952161--14952212 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
14952151 ATTTGTATTC
14952161 ATTTCAATAATTTAATGACATATAAA
1 ATTTCAATAATTTAATGACATATAAA
14952187 ATTTCAATAATTTAATGACATATAAA
1 ATTTCAATAATTTAATGACATATAAA
14952213 CTTTTAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (26 bp):
ATTTCAATAATTTAATGACATATAAA
Found at i:14964355 original size:25 final size:25
Alignment explanation
Indices: 14964327--14964378 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
14964317 AATTTGTCTA
*
14964327 CACTCTTTTCTTTGGTCCTATTTTG
1 CACTCTTTTCTTTAGTCCTATTTTG
* *
14964352 CACTCTTTTCTTTAGTCTTGTTTTG
1 CACTCTTTTCTTTAGTCCTATTTTG
14964377 CA
1 CA
14964379 TGGAAATAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.10, C:0.23, G:0.12, T:0.56
Consensus pattern (25 bp):
CACTCTTTTCTTTAGTCCTATTTTG
Found at i:14966063 original size:21 final size:22
Alignment explanation
Indices: 14966039--14966080 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
14966029 AATCAAAAAG
14966039 AAAAGAAAAATGAGT-AGAAAT
1 AAAAGAAAAATGAGTAAGAAAT
**
14966060 AAAAGAATCATGAGTAAGAAA
1 AAAAGAAAAATGAGTAAGAAA
14966081 ACATGTGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.64, C:0.02, G:0.19, T:0.14
Consensus pattern (22 bp):
AAAAGAAAAATGAGTAAGAAAT
Found at i:14973554 original size:484 final size:482
Alignment explanation
Indices: 14972201--14973645 Score: 2064
Period size: 479 Copynumber: 3.0 Consensus size: 482
14972191 GAGAGAATAA
* * * *
14972201 ACCATAATAGAATATTGTTAAAGGTAGTACTAGAAGTTCTATTGGTTCAAAAAAGAATTTTTATT
1 ACCACAATAGAATGTTGTTAAAGCTAGTACTAGAAGTTCTATTGGTTCAAACAAGAATTTTTATT
* * *
14972266 TGTAAATGTTATAGTAAGCGTCATTAAGGCAAATATTGGAAAAAGTAAGGTGCATGCTTCAGATG
66 TGTAAATATTATAGTAAGCGTCATTAGGGCAAATATT-GAAAAAGTAAGGTGCATGCTTTAGATG
* * * * * *
14972331 AAGGTTCGTTGAGCATCATGTTAAAGATTGTTCACATCATTCTTTTAATGCAAGATTTTACTCAG
130 AAGGTCCGTTGAGCATTATGTTAAAGATCGTTCACATCATTCTTTTAATGCAAGCTTTGACTCAT
* * * * *
14972396 AAATGGAAT--TAGAGGTTGGTTTATATTGTTAGGCATCGAGAGGATCAAAACACATCTGGCATC
195 AAATGGAATCGTA-A-ATTGGTTTATGTTGCTAGGCATCGAGAGGATCGAGACACATCTGGCATC
* * * * *
14972459 AATGAAGGTACTTTTACGATCCATTCTAATTGTACCATGCATTAATTGAGAATTTGTTTTCCATA
258 AATGAAGGTACTTTTACGATCCATTCTAATTATACCTTGCATTGATTGAAAATTTGTTTTCCCTA
* * *
14972524 AATGTTTGTTGTTGATAGTGTATTTTTGAAATTGAGAGTTTGGGAATGAGGAAATCGTTAGTGAT
323 AATGTTTGTTGTTAATAGTGTATTTATGAAATTGAGAATTTGGGAATGAGGAAATCGTTAGTGAT
* * *
14972589 A-TTATATAGATAGTCCCTTGAGACAATCCATGTATGTAAATAG-GAAATCCATTGGAGATTTAA
388 ATTTATATAGATAGTCCCTTGAGACAATCCATGTAAGTAAATAGAAAAATCTATTGGAGATTTAA
* * *
14972652 GGTGAATTATTGGAATGACATCGAAATCAT
453 GGTGAAGTATTGGAATGACATTGGAATCAT
* *
14972682 ACCACAATAGAATGTTGTTAAAGCTAGTACTAAAAGTTCTATTGGTTCAAGCAAGAATTTTTATT
1 ACCACAATAGAATGTTGTTAAAGCTAGTACTAGAAGTTCTATTGGTTCAAACAAGAATTTTTATT
* * *
14972747 TGTAAATATTGTAGTAA-CGTCATTAGGGAAAATATTGGAAAAGTAAGGTGCATGCTTTAGATGA
66 TGTAAATATTATAGTAAGCGTCATTAGGGCAAATATTGAAAAAGTAAGGTGCATGCTTTAGATGA
* * *
14972811 ATGTCTGTTGAGCATTATGTTAAAGATCGTTCACATCATTATTTTAATGCAAGCTTTGACTCATA
131 AGGTCCGTTGAGCATTATGTTAAAGATCGTTCACATCATTCTTTTAATGCAAGCTTTGACTCATA
* * * * * * *
14972876 AACGAAATCAG-AGACTGGTTTATGTTGCTAGGCGTCGAGAGGATTGAGATACATCTGGCATCAA
196 AATGGAATC-GTAAATTGGTTTATGTTGCTAGGCATCGAGAGGATCGAGACACATCTGGCATCAA
* *
14972940 TGAAGGTACTTTTACGGTCCATTCTAATTATACCTTGCATTGATT-AAGAATTTGCTTTCCCTAA
260 TGAAGGTACTTTTACGATCCATTCTAATTATACCTTGCATTGATTGAA-AATTTGTTTTCCCTAA
* * *
14973004 ATGTTTGTTGTTAACAGTGTATTTATGGAATTAAGAATTTGGGAATGAGGAAATCGTTAGTGATA
324 ATGTTTGTTGTTAATAGTGTATTTATGAAATTGAGAATTTGGGAATGAGGAAATCGTTAGTGATA
* * *
14973069 TTTATATAGATAGTCCCTTGTGACAATACATGTAAGTAAATAGAAAAATCTATTGGAGGTTTAAG
389 TTTATATAGATAGTCCCTTGAGACAATCCATGTAAGTAAATAGAAAAATCTATTGGAGATTTAAG
14973134 GTGAAGTATTGGAATGACATTGGAATCAT
454 GTGAAGTATTGGAATGACATTGGAATCAT
* *
14973163 ACCACAATAAAATGTTGTTAAAGCTAGTACTCGAAGTTCTATTGGTTCAAACAAGAATTTTTATT
1 ACCACAATAGAATGTTGTTAAAGCTAGTACTAGAAGTTCTATTGGTTCAAACAAGAATTTTTATT
* *
14973228 TGTAAATACTT-TATTAAGCGTCATTAGGGCAAATATTGAAAAAGGTAAGGAGCATGCTTTAGAT
66 TGTAAATA-TTATAGTAAGCGTCATTAGGGCAAATATTGAAAAA-GTAAGGTGCATGCTTTAGAT
* * * * * *
14973292 GAAGGTCCGTTGAGCATTGTGTTAAAGATCATTTACATAATTCTTTTATTGCAAGCTTTGATTCA
129 GAAGGTCCGTTGAGCATTATGTTAAAGATCGTTCACATCATTCTTTTAATGCAAGCTTTGACTCA
* *
14973357 TAAATGGAATCGTAAATTGATTTATGTTGCTAGGCATCGAGACGATCGAGACACATTCTGGCATC
194 TAAATGGAATCGTAAATTGGTTTATGTTGCTAGGCATCGAGAGGATCGAGACACA-TCTGGCATC
* *
14973422 AATGAAGATACTTTTACGATCCATTTTAATTATACCTTGCATTGATTGAAAATTTGTTTTCCCTA
258 AATGAAGGTACTTTTACGATCCATTCTAATTATACCTTGCATTGATTGAAAATTTGTTTTCCCTA
* * *
14973487 AATGTTTGTTATTAATAGTGTATTTGTGAAATTGAGAATTTAGGAATGAGGAAATCGTTAGTGAT
323 AATGTTTGTTGTTAATAGTGTATTTATGAAATTGAGAATTTGGGAATGAGGAAATCGTTAGTGAT
* * **
14973552 ATTTATATAGATAGTCTCTTGAGACAATCCATGTAAGTAAAT--AAGAATCTATTTAAGATTTAA
388 ATTTATATAGATAGTCCCTTGAGACAATCCATGTAAGTAAATAGAAAAATCTATTGGAGATTTAA
14973615 GGTGAAGTATTGGAATGACATTGGAATCAT
453 GGTGAAGTATTGGAATGACATTGGAATCAT
14973645 A
1 A
14973646 GTTACGCAAC
Statistics
Matches: 854, Mismatches: 98, Indels: 23
0.88 0.10 0.02
Matches are distributed among these distances:
478 1 0.00
479 244 0.29
480 56 0.07
481 193 0.23
482 74 0.09
483 119 0.14
484 165 0.19
485 2 0.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (482 bp):
ACCACAATAGAATGTTGTTAAAGCTAGTACTAGAAGTTCTATTGGTTCAAACAAGAATTTTTATT
TGTAAATATTATAGTAAGCGTCATTAGGGCAAATATTGAAAAAGTAAGGTGCATGCTTTAGATGA
AGGTCCGTTGAGCATTATGTTAAAGATCGTTCACATCATTCTTTTAATGCAAGCTTTGACTCATA
AATGGAATCGTAAATTGGTTTATGTTGCTAGGCATCGAGAGGATCGAGACACATCTGGCATCAAT
GAAGGTACTTTTACGATCCATTCTAATTATACCTTGCATTGATTGAAAATTTGTTTTCCCTAAAT
GTTTGTTGTTAATAGTGTATTTATGAAATTGAGAATTTGGGAATGAGGAAATCGTTAGTGATATT
TATATAGATAGTCCCTTGAGACAATCCATGTAAGTAAATAGAAAAATCTATTGGAGATTTAAGGT
GAAGTATTGGAATGACATTGGAATCAT
Found at i:14986326 original size:48 final size:48
Alignment explanation
Indices: 14986274--14986385 Score: 197
Period size: 48 Copynumber: 2.3 Consensus size: 48
14986264 CTTCTTCTTC
14986274 AATTTATCATCCTTGTCTTCATCTTTGATTTTGATATTCTTTTCCTTT
1 AATTTATCATCCTTGTCTTCATCTTTGATTTTGATATTCTTTTCCTTT
* * *
14986322 AATTTATCATCCTTGTCTTCGTCTTTGATTTTGATCTTCTTTTTCTTT
1 AATTTATCATCCTTGTCTTCATCTTTGATTTTGATATTCTTTTCCTTT
14986370 AATTTATCATCCTTGT
1 AATTTATCATCCTTGT
14986386 TAGCATCGAT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 61 1.00
ACGTcount: A:0.16, C:0.19, G:0.07, T:0.58
Consensus pattern (48 bp):
AATTTATCATCCTTGTCTTCATCTTTGATTTTGATATTCTTTTCCTTT
Found at i:14986368 original size:22 final size:22
Alignment explanation
Indices: 14986295--14986374 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
14986285 CTTGTCTTCA
* *
14986295 TCTTTGATTTTGATATTCTTTT
1 TCTTTAATTTTGATCTTCTTTT
* * **
14986317 CCTTTAATTTATCATCCTTGTCTTCG
1 TCTTTAATTT-TGAT-C-T-TCTTTT
*
14986343 TCTTTGATTTTGATCTTCTTTT
1 TCTTTAATTTTGATCTTCTTTT
14986365 TCTTTAATTT
1 TCTTTAATTT
14986375 ATCATCCTTG
Statistics
Matches: 42, Mismatches: 12, Indels: 8
0.68 0.19 0.13
Matches are distributed among these distances:
22 21 0.50
23 4 0.10
24 1 0.02
25 4 0.10
26 12 0.29
ACGTcount: A:0.14, C:0.16, G:0.07, T:0.62
Consensus pattern (22 bp):
TCTTTAATTTTGATCTTCTTTT
Found at i:14988682 original size:21 final size:21
Alignment explanation
Indices: 14988658--14988698 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14988648 TTTTGGATAT
14988658 AAACCAACAAAGAAAATTGTA
1 AAACCAACAAAGAAAATTGTA
* *
14988679 AAACCAGCAAAGCAAATTGT
1 AAACCAACAAAGAAAATTGT
14988699 GCCTAAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.17, G:0.12, T:0.15
Consensus pattern (21 bp):
AAACCAACAAAGAAAATTGTA
Found at i:14989315 original size:23 final size:22
Alignment explanation
Indices: 14989263--14989315 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
14989253 TCACACATGG
* *
14989263 TTTACATTTTTCTGTCATTCTT
1 TTTACATTTATCTGTCATGCTT
*
14989285 TTTAACATTTATGTGTCATGCTT
1 TTT-ACATTTATCTGTCATGCTT
14989308 CTTTACAT
1 -TTTACAT
14989316 GGGGAATTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 3 0.12
23 20 0.77
24 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.08, T:0.57
Consensus pattern (22 bp):
TTTACATTTATCTGTCATGCTT
Found at i:14990273 original size:16 final size:16
Alignment explanation
Indices: 14990229--14990275 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
14990219 CGGGAATGTG
*
14990229 TAAAAAAACAT-AAATA
1 TAAATAAACATGAAA-A
*
14990245 TAAATAGACATGAAAA
1 TAAATAAACATGAAAA
*
14990261 TAAATAAATATGAAA
1 TAAATAAACATGAAA
14990276 TAAGAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 23 0.88
17 3 0.12
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.21
Consensus pattern (16 bp):
TAAATAAACATGAAAA
Found at i:14991138 original size:39 final size:39
Alignment explanation
Indices: 14991089--14991172 Score: 123
Period size: 39 Copynumber: 2.2 Consensus size: 39
14991079 ACTACTATGC
14991089 TAAAACAGGGGTACAAAATAATTATCCTATTGGCAATGA
1 TAAAACAGGGGTACAAAATAATTATCCTATTGGCAATGA
* * * * *
14991128 TAAATCAGGGGTACATAATAATTTTCTTATTGGTAATGA
1 TAAAACAGGGGTACAAAATAATTATCCTATTGGCAATGA
14991167 TAAAAC
1 TAAAAC
14991173 TACTGTGATC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.31
Consensus pattern (39 bp):
TAAAACAGGGGTACAAAATAATTATCCTATTGGCAATGA
Found at i:14992461 original size:130 final size:130
Alignment explanation
Indices: 14992228--14992468 Score: 437
Period size: 130 Copynumber: 1.9 Consensus size: 130
14992218 CAAAAGTATG
* * *
14992228 ATGTGATCCTCCAACACCCAAAGACCAATCATGATGAGCATTTAAATGATCAATAGAGGATTGAC
1 ATGTGATCCTCCAACACCCAAAGACCAATCATGATGAACATCTAAATGATCAACAGAGGATTGAC
*
14992293 TCAAAATGAAAAGAATCCACGAATCAATTTCAGGACAAAACACTTTACATGAACAGAAGGAAGGA
66 TCAAAATGAAAAGAATCCACGAATCAATTTCAAGACAAAACACTTTACATGAACAGAAGGAAGGA
*
14992358 ATGTGATCCTCCAACACCCAAAGACCAATCATTATGAACATCTAAATGATCAACAGAGGATTGAC
1 ATGTGATCCTCCAACACCCAAAGACCAATCATGATGAACATCTAAATGATCAACAGAGGATTGAC
14992423 TCAAAATGAAAAGAATCCACGAATCAATTTCAAGACAAAACACTTT
66 TCAAAATGAAAAGAATCCACGAATCAATTTCAAGACAAAACACTTT
14992469 TCTTCATGTA
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
130 106 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (130 bp):
ATGTGATCCTCCAACACCCAAAGACCAATCATGATGAACATCTAAATGATCAACAGAGGATTGAC
TCAAAATGAAAAGAATCCACGAATCAATTTCAAGACAAAACACTTTACATGAACAGAAGGAAGGA
Found at i:14999044 original size:24 final size:22
Alignment explanation
Indices: 14998998--14999054 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
14998988 AACTGGAATT
* **
14998998 TTTTTTTAAATCAAAAGTTTAC
1 TTTTTTTAAAACAAAAGACTAC
14999020 TCTTTTTTAAAACAAAAGCACTAC
1 T-TTTTTTAAAACAAAAG-ACTAC
*
14999044 TTTTCTTAAAA
1 TTTTTTTAAAA
14999055 ATCAAAACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 1 0.03
23 24 0.83
24 4 0.14
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.44
Consensus pattern (22 bp):
TTTTTTTAAAACAAAAGACTAC
Found at i:14999119 original size:19 final size:18
Alignment explanation
Indices: 14999082--14999123 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
14999072 GAAATAGTCA
14999082 AAAAATCAAACTTTGTTT
1 AAAAATCAAACTTTGTTT
* *
14999100 AAAAATTAAACTTTTTTT
1 AAAAATCAAACTTTGTTT
*
14999118 TAAAAT
1 AAAAAT
14999124 ACCTAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (18 bp):
AAAAATCAAACTTTGTTT
Found at i:14999316 original size:147 final size:145
Alignment explanation
Indices: 14999022--14999412 Score: 462
Period size: 147 Copynumber: 2.7 Consensus size: 145
14999012 AAGTTTACTC
* * *
14999022 TTTTTTAAAACAAAAGCACTACTTT-TCTTAAAAA-TCAAAACTTGTATTTCGAAATAG-TCAAA
1 TTTTTTAAAA-AAAA-TACTACTTTAT-TTAAAAATTC-AAACTTTTATTTCGAAATAGTTAAAA
*
14999084 AAATC-AAACTTTGTTTAAAAATTAAACTTTTT-TTTAAAATACCTAAAAATGGATTTTTTATTT
62 AAATCAAAACTTTGTTTAAAAATTAAACTTTTTCTTTAAAATACCTAAAAATAGATTTTTTATTT
14999147 TAAAAATCTAAACTTGC-T
127 TAAAAATCTAAACTTGCAT
*
14999165 TTTTTTCAAAAAAAATACTACTTTATTTAAAAATTCAAACTTTTATTTCAAAATAGTTAAAAAAA
1 TTTTTT-AAAAAAAATACTACTTTATTTAAAAATTCAAACTTTTATTTCGAAATAGTT-AAAAAA
* *
14999230 ATCAAAACTTTATTTAAAAATGTAAATTTTTTCTTTAAAATGA-CTAAAAATAGA-TTTTTATTT
64 ATCAAAACTTTGTTTAAAAAT-TAAACTTTTTCTTTAAAAT-ACCTAAAAATAGATTTTTTA-TT
14999293 TTAAAAATCTAAACTTTG-ATT
126 TTAAAAATCTAAAC-TTGCA-T
** * * * *
14999314 TTTTTTAATGAAAATCATTATTTTACTT-AAAATCCAAA-TATTTATTTCGAAATAGTTAAAAAA
1 TTTTTTAAAAAAAAT-ACTACTTTATTTAAAAATTCAAACT-TTTATTTCGAAATAGTTAAAAAA
14999377 ATCAAAACTTTGTTTAAAAATCTAAACTTTTTCTTT
64 ATCAAAACTTTGTTTAAAAAT-TAAACTTTTTCTTT
14999413 TTAAAGAAAA
Statistics
Matches: 216, Mismatches: 17, Indels: 26
0.83 0.07 0.10
Matches are distributed among these distances:
142 33 0.15
143 14 0.06
144 12 0.06
145 16 0.07
146 15 0.07
147 74 0.34
148 36 0.17
149 16 0.07
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.42
Consensus pattern (145 bp):
TTTTTTAAAAAAAATACTACTTTATTTAAAAATTCAAACTTTTATTTCGAAATAGTTAAAAAAAT
CAAAACTTTGTTTAAAAATTAAACTTTTTCTTTAAAATACCTAAAAATAGATTTTTTATTTTAAA
AATCTAAACTTGCAT
Found at i:14999471 original size:95 final size:96
Alignment explanation
Indices: 14999292--14999483 Score: 280
Period size: 96 Copynumber: 2.0 Consensus size: 96
14999282 GATTTTTATT
* * * *
14999292 TTTAAAAATCTAAACTTTGATTTTTTTTAATGAAAATCATTATTTTACTTAAAATCCAAATATTT
1 TTTAAAAATCTAAACTTT-ATTCTTTTTAAAGAAAATCACTATTTTACTTAAAATCAAAATATTT
*
14999357 ATTTCGAAATAGTTAAAAAAATCAAAACTTTG
65 ACTTCGAAATAGTTAAAAAAATCAAAACTTTG
*
14999389 TTTAAAAATCTAAACTTT-TTCTTTTTAAAGAAAATCACTATTTTTCTTAAAAATCAAAACT-TT
1 TTTAAAAATCTAAACTTTATTCTTTTTAAAGAAAATCACTATTTTACTT-AAAATCAAAA-TATT
*
14999452 TACTTCGAAATTGTTAAAAAAATCAAAACTTT
64 TACTTCGAAATAGTTAAAAAAATCAAAACTTT
14999484 TCCCAAAATC
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
95 26 0.30
96 41 0.48
97 19 0.22
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (96 bp):
TTTAAAAATCTAAACTTTATTCTTTTTAAAGAAAATCACTATTTTACTTAAAATCAAAATATTTA
CTTCGAAATAGTTAAAAAAATCAAAACTTTG
Found at i:14999504 original size:96 final size:95
Alignment explanation
Indices: 14999295--14999518 Score: 265
Period size: 96 Copynumber: 2.3 Consensus size: 95
14999285 TTTTATTTTT
* * * * *
14999295 AAAAATCTAAACTTTGATTTTTTTTAATGAAAATCATTATTTTACTTAAAATCCAAATATTTATT
1 AAAAATCTAAACTTT--TTCTTTTTAAAGAAAATCACTATTTTACTTAAAATCAAAATATTTACT
**
14999360 TCGAAATAGTTAAAAAAATCAAAACTTTGTTT
64 TCGAAATAGTTAAAAAAATCAAAACTTTGTCC
*
14999392 AAAAATCTAAACTTTTTCTTTTTAAAGAAAATCACTATTTTTCTTAAAAATCAAAACT-TTTACT
1 AAAAATCTAAACTTTTTCTTTTTAAAGAAAATCACTATTTTACTT-AAAATCAAAA-TATTTACT
*
14999456 TCGAAATTGTTAAAAAAATCAAAACTTT-TCC
64 TCGAAATAGTTAAAAAAATCAAAACTTTGTCC
* * *
14999487 CAAAATC-AAGCTATTTTTCTTTTAAAAGAAAA
1 AAAAATCTAAAC--TTTTTCTTTTTAAAGAAAA
14999519 CCTTTACTTT
Statistics
Matches: 111, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
94 3 0.03
95 33 0.30
96 59 0.53
97 16 0.14
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (95 bp):
AAAAATCTAAACTTTTTCTTTTTAAAGAAAATCACTATTTTACTTAAAATCAAAATATTTACTTC
GAAATAGTTAAAAAAATCAAAACTTTGTCC
Found at i:14999791 original size:15 final size:16
Alignment explanation
Indices: 14999771--14999803 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14999761 TGCATATATA
*
14999771 TTGTTT-TTTTTAATT
1 TTGTTTATTTGTAATT
14999786 TTGTTTATTTGTAATT
1 TTGTTTATTTGTAATT
14999802 TT
1 TT
14999804 TGTTACATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (16 bp):
TTGTTTATTTGTAATT
Found at i:14999906 original size:3 final size:3
Alignment explanation
Indices: 14999898--14999944 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
14999888 CATGAAACCC
14999898 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
14999945 TATTATTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:14999951 original size:3 final size:3
Alignment explanation
Indices: 14999945--14999969 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14999935 AATAATAATA
14999945 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
14999970 TGGGCCTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:15000463 original size:42 final size:42
Alignment explanation
Indices: 15000416--15000683 Score: 330
Period size: 42 Copynumber: 6.4 Consensus size: 42
15000406 ATAAATGGAT
15000416 CTCTAAATGCAATGAAAAGTAAATAAGCCTCCACACCTAGGC
1 CTCTAAATGCAATGAAAAGTAAATAAGCCTCCACACCTAGGC
* * * *
15000458 CTCTAAATGCAATGAAGAGTAAAT-GGACCTTCACA-CTTGGAC
1 CTCTAAATGCAATGAAAAGTAAATAAG-CCTCCACACCTAGG-C
*
15000500 CTCTAAATGCAACGAAAAGTAAAT-AGACCTCCACACCTAGGC
1 CTCTAAATGCAATGAAAAGTAAATAAG-CCTCCACACCTAGGC
* * * *
15000542 CTTTAACTGCAATGAAAAGTAAATAAACCTCCACACCTGGGC
1 CTCTAAATGCAATGAAAAGTAAATAAGCCTCCACACCTAGGC
* * **
15000584 CTCTAAATGAAATGAAGAGTAAATGGGCCTCCACACCTAGGC
1 CTCTAAATGCAATGAAAAGTAAATAAGCCTCCACACCTAGGC
*
15000626 CTCTAAATGTAATGAAAAGTAAATGAA-CCTCCACACCT-GAGC
1 CTCTAAATGCAATGAAAAGTAAAT-AAGCCTCCACACCTAG-GC
15000668 CTCTAAATGCAATGAA
1 CTCTAAATGCAATGAA
15000684 TGCTTTCCTT
Statistics
Matches: 193, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
41 6 0.03
42 182 0.94
43 5 0.03
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.21
Consensus pattern (42 bp):
CTCTAAATGCAATGAAAAGTAAATAAGCCTCCACACCTAGGC
Found at i:15000520 original size:84 final size:83
Alignment explanation
Indices: 15000411--15000683 Score: 377
Period size: 84 Copynumber: 3.3 Consensus size: 83
15000401 AATAAATAAA
* *
15000411 TGGATCTCTAAATGCAATGAAAAGTAAATAAGCCTCCACACCTAGGCCTCTAAATGCAATGAAGA
1 TGGACCTCTAAATGCAATGAAAAGTAAAT-AGCCTCCACACCTAGGCCTCTAAATGCAATGAAAA
* * *
15000476 GTAAATGGACCTTCACACT
65 GTAAATGAACCTCCACACC
* * *
15000495 TGGACCTCTAAATGCAACGAAAAGTAAATAGACCTCCACACCTAGGCCTTTAACTGCAATGAAAA
1 TGGACCTCTAAATGCAATGAAAAGTAAATAG-CCTCCACACCTAGGCCTCTAAATGCAATGAAAA
*
15000560 GTAAATAAACCTCCACACC
65 GTAAATGAACCTCCACACC
* * * * *
15000579 TGGGCCTCTAAATGAAATGAAGAGTAAATGGGCCTCCACACCTAGGCCTCTAAATGTAATGAAAA
1 TGGACCTCTAAATGCAATGAAAAGTAAAT-AGCCTCCACACCTAGGCCTCTAAATGCAATGAAAA
15000644 GTAAATGAACCTCCACACC
65 GTAAATGAACCTCCACACC
15000663 T-GAGCCTCTAAATGCAATGAA
1 TGGA-CCTCTAAATGCAATGAA
15000684 TGCTTTCCTT
Statistics
Matches: 166, Mismatches: 20, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
83 3 0.02
84 162 0.98
85 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.21
Consensus pattern (83 bp):
TGGACCTCTAAATGCAATGAAAAGTAAATAGCCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
TAAATGAACCTCCACACC
Found at i:15000564 original size:126 final size:126
Alignment explanation
Indices: 15000416--15000683 Score: 398
Period size: 126 Copynumber: 2.1 Consensus size: 126
15000406 ATAAATGGAT
* *
15000416 CTCTAAATGCAATGAAAAGTAAATAAGCCTCCACACCTAGGCCTCTAAATGCAATGAAGAGTAAA
1 CTCTAAATGCAATGAAAAGTAAATAAACCTCCACACCTAGGCCTCTAAATGAAATGAAGAGTAAA
* *
15000481 TGGACCTTCACA-CTTGGACCTCTAAATGCAACGAAAAGTAAAT-AGACCTCCACACCT-AGGC
66 TGGACCTCCACACCTAGG-CCTCTAAATGCAACGAAAAGTAAATGA-ACCTCCACACCTGA-GC
* * *
15000542 CTTTAACTGCAATGAAAAGTAAATAAACCTCCACACCTGGGCCTCTAAATGAAATGAAGAGTAAA
1 CTCTAAATGCAATGAAAAGTAAATAAACCTCCACACCTAGGCCTCTAAATGAAATGAAGAGTAAA
* * *
15000607 TGGGCCTCCACACCTAGGCCTCTAAATGTAATGAAAAGTAAATGAACCTCCACACCTGAGC
66 TGGACCTCCACACCTAGGCCTCTAAATGCAACGAAAAGTAAATGAACCTCCACACCTGAGC
15000668 CTCTAAATGCAATGAA
1 CTCTAAATGCAATGAA
15000684 TGCTTTCCTT
Statistics
Matches: 127, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
126 121 0.95
127 6 0.05
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.21
Consensus pattern (126 bp):
CTCTAAATGCAATGAAAAGTAAATAAACCTCCACACCTAGGCCTCTAAATGAAATGAAGAGTAAA
TGGACCTCCACACCTAGGCCTCTAAATGCAACGAAAAGTAAATGAACCTCCACACCTGAGC
Found at i:15001119 original size:18 final size:19
Alignment explanation
Indices: 15001092--15001127 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
15001082 CTCTCTCTAT
15001092 TATTTCTTCT-TTTTTTGA
1 TATTTCTTCTCTTTTTTGA
*
15001110 TATTTTTTCTCTTTTTTG
1 TATTTCTTCTCTTTTTTG
15001128 TGTGTGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.08, C:0.11, G:0.06, T:0.75
Consensus pattern (19 bp):
TATTTCTTCTCTTTTTTGA
Found at i:15012633 original size:58 final size:59
Alignment explanation
Indices: 15012571--15012707 Score: 154
Period size: 58 Copynumber: 2.3 Consensus size: 59
15012561 AAAATCGAGA
* *
15012571 TCAAAAACGGAATTTTTGGACA-CTCGAAGGTAAAATGGTAA-TTATTGAAAGTTTC-GGG
1 TCAAAAATGGAATCTTTGGACATC-CG-AGGTAAAATGGTAAGTTATTGAAAGTTTCGGGG
* * * * *
15012629 TCAAAAATGGAGTCTTTGGACATCCGGGGTGAAATGGTAAGTTTTTTAAAGTTTCGGGG
1 TCAAAAATGGAATCTTTGGACATCCGAGGTAAAATGGTAAGTTATTGAAAGTTTCGGGG
* *
15012688 TCAAAATTGGAATGTTTGGA
1 TCAAAAATGGAATCTTTGGA
15012708 AATTTGGGGG
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
57 12 0.18
58 33 0.50
59 21 0.32
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.31
Consensus pattern (59 bp):
TCAAAAATGGAATCTTTGGACATCCGAGGTAAAATGGTAAGTTATTGAAAGTTTCGGGG
Found at i:15012733 original size:59 final size:57
Alignment explanation
Indices: 15012599--15012742 Score: 155
Period size: 59 Copynumber: 2.5 Consensus size: 57
15012589 GACACTCGAA
* * *
15012599 GGTAAAATGGTAATTATTGAAAGTTTCGGGTCAAAAATGGAGTCTTTGGACATCCGG
1 GGTAAAATGGTAATTTTTGAAAGTTTCGGGTCAAAAATGGAATCTTTGGAAATCCGG
* * * * **
15012656 GGTGAAATGGTAAGTTTTTTAAAGTTTCGGGGTCAAAATTGGAATGTTTGGAAATTTGGG
1 GGTAAAATGGTAA-TTTTTGAAAGTTTC-GGGTCAAAAATGGAATCTTTGGAAA-TCCGG
*
15012716 GGTAAAAATGG-AATTTTTGGAAGTTTC
1 GGT-AAAATGGTAATTTTTGAAAGTTTC
15012743 AGGGAGTGCA
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
57 12 0.17
58 12 0.17
59 33 0.46
60 8 0.11
61 6 0.08
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.34
Consensus pattern (57 bp):
GGTAAAATGGTAATTTTTGAAAGTTTCGGGTCAAAAATGGAATCTTTGGAAATCCGG
Found at i:15016163 original size:21 final size:21
Alignment explanation
Indices: 15016120--15016163 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
15016110 CCTATGATAG
* * *
15016120 TTCTACCGATACAAGTGAAGC
1 TTCTACCGAAACAAATCAAGC
*
15016141 TTCTACCGAAACAAATCATGC
1 TTCTACCGAAACAAATCAAGC
15016162 TT
1 TT
15016164 TTACAGATAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (21 bp):
TTCTACCGAAACAAATCAAGC
Found at i:15033004 original size:42 final size:42
Alignment explanation
Indices: 15032945--15033030 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
15032935 TCACCCATTA
*
15032945 TCGTGGGGTTCCCCAACCCACAACAGTTCTAGGAAAGGAGCT
1 TCGTGGGGTTCCCCAACCCACAACAATTCTAGGAAAGGAGCT
15032987 TCGTGGGGTTCCCCAACCCACAACAATTCTAGGAAAGGAGCT
1 TCGTGGGGTTCCCCAACCCACAACAATTCTAGGAAAGGAGCT
15033029 TC
1 TC
15033031 ATTGCTCCTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (42 bp):
TCGTGGGGTTCCCCAACCCACAACAATTCTAGGAAAGGAGCT
Found at i:15036336 original size:11 final size:11
Alignment explanation
Indices: 15036312--15036345 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
15036302 ATTTATTGAA
*
15036312 ATTTTTATAGTT
1 ATTTTAATA-TT
15036324 ATTTTAATATT
1 ATTTTAATATT
15036335 ATTTTAATATT
1 ATTTTAATATT
15036346 TACATTAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (11 bp):
ATTTTAATATT
Found at i:15037206 original size:2 final size:2
Alignment explanation
Indices: 15037199--15037235 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
15037189 ATAGAAATAA
15037199 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15037236 AATTTAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15038402 original size:23 final size:24
Alignment explanation
Indices: 15038357--15038404 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
15038347 AAGTCCTCCA
* *
15038357 AAAACCACCATTGCTAACCCCATT
1 AAAACCACCACTGCTAACACCATT
15038381 AAAACC-CCACTGCTAACACCATT
1 AAAACCACCACTGCTAACACCATT
15038404 A
1 A
15038405 CTAAATCCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.40, C:0.38, G:0.04, T:0.19
Consensus pattern (24 bp):
AAAACCACCACTGCTAACACCATT
Found at i:15044872 original size:24 final size:24
Alignment explanation
Indices: 15044844--15044906 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
15044834 AGAAATAATC
15044844 TTTCAGTTAAACTCTATTTAATTG
1 TTTCAGTTAAACTCTATTTAATTG
* * *
15044868 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTATTTAATTG
* *
15044892 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
15044907 TATTAGTCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.27, C:0.14, G:0.10, T:0.49
Consensus pattern (24 bp):
TTTCAGTTAAACTCTATTTAATTG
Found at i:15048837 original size:14 final size:15
Alignment explanation
Indices: 15048818--15048848 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
15048808 CGTTATTTTA
15048818 TTTTATTTTTAT-CT
1 TTTTATTTTTATGCT
15048832 TTTTATTTTTATGCT
1 TTTTATTTTTATGCT
15048847 TT
1 TT
15048849 CAACCAACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.13, C:0.06, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTTATTTTTATGCT
Found at i:15050657 original size:21 final size:21
Alignment explanation
Indices: 15050631--15050688 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
15050621 AATAGTGTAA
** *
15050631 ACTTCTACCGATACTTGTGAT
1 ACTTCTACCGATACAAGTGAG
15050652 ACTTCTACCGATACAAGTGAG
1 ACTTCTACCGATACAAGTGAG
*
15050673 ACTTCTACCGAAACAA
1 ACTTCTACCGATACAA
15050689 ATCATACATC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTGAG
Found at i:15062868 original size:28 final size:28
Alignment explanation
Indices: 15062836--15062893 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
15062826 AGGTTAAGGG
15062836 TTTCTATCTCTAACTTTTTACTATTTTA
1 TTTCTATCTCTAACTTTTTACTATTTTA
15062864 TTTCTATCTCTAACTTTTTACTATTTTA
1 TTTCTATCTCTAACTTTTTACTATTTTA
15062892 TT
1 TT
15062894 AATATTACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.21, C:0.17, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTCTATCTCTAACTTTTTACTATTTTA
Found at i:15066046 original size:21 final size:21
Alignment explanation
Indices: 15066021--15066062 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15066011 CTGCTATGTT
15066021 GCGACACAAAACCTGGGTGTC
1 GCGACACAAAACCTGGGTGTC
* *
15066042 GCGACACAGAATCTGGGTGTC
1 GCGACACAAAACCTGGGTGTC
15066063 ACAACATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.31, T:0.17
Consensus pattern (21 bp):
GCGACACAAAACCTGGGTGTC
Found at i:15070260 original size:25 final size:25
Alignment explanation
Indices: 15070230--15070280 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
15070220 AAAACTGGAC
15070230 AAAATTAATAGCTAGCTTATGACAT
1 AAAATTAATAGCTAGCTTATGACAT
15070255 AAAATTAATAGCTAGCTTATGACAT
1 AAAATTAATAGCTAGCTTATGACAT
15070280 A
1 A
15070281 TTTAAGATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (25 bp):
AAAATTAATAGCTAGCTTATGACAT
Found at i:15091345 original size:22 final size:22
Alignment explanation
Indices: 15091320--15091362 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15091310 GTGGATTCTT
**
15091320 GTCTTTATTTATTTATTTCTAG
1 GTCTTTAGGTATTTATTTCTAG
*
15091342 GTCTTTAGGTGTTTATTTCTA
1 GTCTTTAGGTATTTATTTCTA
15091363 TTTCATAGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.16, C:0.09, G:0.14, T:0.60
Consensus pattern (22 bp):
GTCTTTAGGTATTTATTTCTAG
Found at i:15095339 original size:42 final size:43
Alignment explanation
Indices: 15095258--15095344 Score: 122
Period size: 42 Copynumber: 2.0 Consensus size: 43
15095248 AAAAAAACAA
* * * *
15095258 ATTTTAAATTTAAATTTATTTTAATTTTAAAATGTCCAA-TAC
1 ATTTTAAATTTAAATTTATTTAAATTTAAAAAGGCCCAATTAC
*
15095300 ATTTTGAATTTAAATTTATTTAAATTTAAAAAGGCCCAATTAC
1 ATTTTAAATTTAAATTTATTTAAATTTAAAAAGGCCCAATTAC
15095343 AT
1 AT
15095345 GTCTAAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 34 0.87
43 5 0.13
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (43 bp):
ATTTTAAATTTAAATTTATTTAAATTTAAAAAGGCCCAATTAC
Found at i:15097089 original size:29 final size:29
Alignment explanation
Indices: 15096982--15097126 Score: 134
Period size: 30 Copynumber: 4.9 Consensus size: 29
15096972 CCCAGAAGGT
*
15096982 CCCT-AAACTTTCCATAAATCATATTTTGA
1 CCCTCAAAC-TTCCAAAAATCATATTTTGA
* **
15097011 CCCCCAAACTTTTCC-AAAATTGTATTTTGA
1 CCCTCAAAC--TTCCAAAAATCATATTTTGA
* *
15097041 CCC-CTAAACTTCTCTAAAATTATATTTTGA
1 CCCTC-AAACTTC-CAAAAATCATATTTTGA
* *
15097071 CCCTCAAACTTCCAAAAATCACATTTTTA
1 CCCTCAAACTTCCAAAAATCATATTTTGA
* *
15097100 CCCTCGAACTTCCAAAAATCACATTTT
1 CCCTCAAACTTCCAAAAATCATATTTT
15097127 ATCCCGGATT
Statistics
Matches: 100, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
28 3 0.03
29 44 0.44
30 47 0.47
31 6 0.06
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (29 bp):
CCCTCAAACTTCCAAAAATCATATTTTGA
Found at i:15101938 original size:29 final size:29
Alignment explanation
Indices: 15101811--15102043 Score: 184
Period size: 29 Copynumber: 7.9 Consensus size: 29
15101801 CCTAGAAGGT
* * *
15101811 CCCTAAACTTTCAATAAATCATATTTTGAC
1 CCCTAAACTTCCAA-AAATCACATTTTTAC
** * * *
15101841 CCCTAAACTTTTATAAATTACATTTTGAC
1 CCCTAAACTTCCAAAAATCACATTTTTAC
* * *
15101870 CCCTAAACTTCTCCAAAATTACA-TTTTAA
1 CCCTAAACTTC-CAAAAATCACATTTTTAC
*
15101899 CCCTAAACTTCCAAAAACCACATTTTTAC
1 CCCTAAACTTCCAAAAATCACATTTTTAC
* *
15101928 CCCTAAACTTCTCAAAAATTATATTTTTA-
1 CCCTAAACTTC-CAAAAATCACATTTTTAC
*
15101957 CCCTGGAACTTCCAAAAATCACATTTTTA-
1 CCCT-AAACTTCCAAAAATCACATTTTTAC
* * **
15101986 CCATCATACTTCCAAAAATCTTTATTTTTAC
1 CCCT-AAACTTCCAAAAATC-ACATTTTTAC
* * *
15102017 CCATGAACTTTTCAAAAATCACATTTT
1 CCCTAAAC-TTCCAAAAATCACATTTT
15102044 ATCCCGGATT
Statistics
Matches: 165, Mismatches: 31, Indels: 14
0.79 0.15 0.07
Matches are distributed among these distances:
28 8 0.05
29 89 0.54
30 54 0.33
31 14 0.08
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.36
Consensus pattern (29 bp):
CCCTAAACTTCCAAAAATCACATTTTTAC
Found at i:15101985 original size:59 final size:58
Alignment explanation
Indices: 15101811--15102043 Score: 229
Period size: 59 Copynumber: 3.9 Consensus size: 58
15101801 CCTAGAAGGT
* * ** * * *
15101811 CCCTAAACTT-TCAATAAATCATATTTTGACCCCTAAACTTTTATAAATTACATTTTGAC
1 CCCTAAACTTCTCAA-AAATTATATTTTTA-CCCTAAACTTCCAAAAATCACATTTTTAC
* * * *
15101870 CCCTAAACTTCTCCAAAATTACATTTTAACCCTAAACTTCCAAAAACCACATTTTTAC
1 CCCTAAACTTCTCAAAAATTATATTTTTACCCTAAACTTCCAAAAATCACATTTTTAC
*
15101928 CCCTAAACTTCTCAAAAATTATATTTTTACCCTGGAACTTCCAAAAATCACATTTTTA-
1 CCCTAAACTTCTCAAAAATTATATTTTTACCCT-AAACTTCCAAAAATCACATTTTTAC
* * * * *
15101986 CCATCATACTTC-CAAAAATCTTTATTTTTACCCATGAACTTTTCAAAAATCACATTTT
1 CCCT-AAACTTCTCAAAAAT-TATATTTTTACCC-TAAAC-TTCCAAAAATCACATTTT
15102044 ATCCCGGATT
Statistics
Matches: 149, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
58 63 0.42
59 65 0.44
60 21 0.14
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.36
Consensus pattern (58 bp):
CCCTAAACTTCTCAAAAATTATATTTTTACCCTAAACTTCCAAAAATCACATTTTTAC
Found at i:15106065 original size:20 final size:20
Alignment explanation
Indices: 15106040--15106089 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
15106030 CAATTTCCCT
*
15106040 TTTCATCCATATTTGTGGAC
1 TTTCATCCATATTTGAGGAC
*
15106060 TTTCATCCAAATTTGAGGAC
1 TTTCATCCATATTTGAGGAC
*
15106080 TTTCTTCCAT
1 TTTCATCCAT
15106090 GGTGAAAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (20 bp):
TTTCATCCATATTTGAGGAC
Found at i:15109355 original size:37 final size:37
Alignment explanation
Indices: 15109279--15109378 Score: 103
Period size: 37 Copynumber: 2.7 Consensus size: 37
15109269 CAAAATAACA
* * * *
15109279 TCCAAATT-CACGTCTAAAACTGTCACTGCATCAGTACT
1 TCCAAATTGCAC--CTAAAACTATCGCCGCATCAGCACT
*
15109317 TCCAAATTGCACCTAAAACTATCGCCGCATGAGCACT
1 TCCAAATTGCACCTAAAACTATCGCCGCATCAGCACT
* * *
15109354 TCCAAAATGCACCCAAGACTATCGC
1 TCCAAATTGCACCTAAAACTATCGC
15109379 TGCTTAAGTA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
37 42 0.79
38 8 0.15
39 3 0.06
ACGTcount: A:0.33, C:0.32, G:0.12, T:0.23
Consensus pattern (37 bp):
TCCAAATTGCACCTAAAACTATCGCCGCATCAGCACT
Found at i:15109462 original size:26 final size:26
Alignment explanation
Indices: 15109412--15109462 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
15109402 CCTAGGAATG
* *
15109412 TCGCTGCATGAACATGTTCAGAATTA
1 TCGCTGCATGAACATGTCCAAAATTA
*
15109438 TCGCTGCATGAACGTGTCCAAAATT
1 TCGCTGCATGAACATGTCCAAAATT
15109463 GCACCCAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (26 bp):
TCGCTGCATGAACATGTCCAAAATTA
Found at i:15110284 original size:16 final size:16
Alignment explanation
Indices: 15110263--15110293 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15110253 TTGTTGATCC
15110263 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
15110279 CATTTTATCTTTATT
1 CATTTTACCTTTATT
15110294 TTCACATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:15113777 original size:13 final size:13
Alignment explanation
Indices: 15113759--15113786 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15113749 CAAATTTGAG
15113759 CCCAAAACTGTCA
1 CCCAAAACTGTCA
15113772 CCCAAAACTGTCA
1 CCCAAAACTGTCA
15113785 CC
1 CC
15113787 GCATGAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.43, G:0.07, T:0.14
Consensus pattern (13 bp):
CCCAAAACTGTCA
Found at i:15117327 original size:37 final size:37
Alignment explanation
Indices: 15117286--15117358 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
15117276 CTACAGCTAC
** * * *
15117286 AGTTTTAGGTGCAATCTGGAAGTTCTCATGCGGCGAT
1 AGTTTTAGGCACAATCTAGAAGTGCTCATGCAGCGAT
*
15117323 AGTTTTGGGCACAATCTAGAAGTGCTCATGCAGCGA
1 AGTTTTAGGCACAATCTAGAAGTGCTCATGCAGCGA
15117359 CATTAGTAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (37 bp):
AGTTTTAGGCACAATCTAGAAGTGCTCATGCAGCGAT
Found at i:15118428 original size:17 final size:17
Alignment explanation
Indices: 15118373--15118429 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
15118363 CAAAGATATG
*
15118373 GAAATGCAATGAC-AAG
1 GAAATGCAATGACAAAA
* *
15118389 GTAGATGCACTGACAATAA
1 G-AAATGCAATGACAA-AA
15118408 -AAATGCAATGACAAAA
1 GAAATGCAATGACAAAA
15118424 GAAATG
1 GAAATG
15118430 TGATGATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
16 3 0.09
17 27 0.84
18 1 0.03
19 1 0.03
ACGTcount: A:0.51, C:0.12, G:0.21, T:0.16
Consensus pattern (17 bp):
GAAATGCAATGACAAAA
Found at i:15120660 original size:16 final size:16
Alignment explanation
Indices: 15120639--15120669 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15120629 ATAGTGTGAA
15120639 AATAAAGATAAAATGT
1 AATAAAGATAAAATGT
*
15120655 AATAAAGGTAAAATG
1 AATAAAGATAAAATG
15120670 GGATCCATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAAAGATAAAATGT
Found at i:15121524 original size:26 final size:26
Alignment explanation
Indices: 15121488--15121538 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
15121478 TTTTAGGTGC
*
15121488 AATTTTGGACACGTTCATGCAGCGAT
1 AATTATGGACACGTTCATGCAGCGAT
*
15121514 AATTATGGACATGTTCATGCAGCGA
1 AATTATGGACACGTTCATGCAGCGA
15121539 CATTCTTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (26 bp):
AATTATGGACACGTTCATGCAGCGAT
Found at i:15121684 original size:37 final size:37
Alignment explanation
Indices: 15121643--15121718 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 37
15121633 AAAATATTCC
* * *
15121643 TGCGGCAACAATTTTGGGTGCAATTTGGAAGTGCTCA
1 TGCGGCAACAATTTTGGGCGCAATCTAGAAGTGCTCA
* * *
15121680 TGCGGGAACAGTTTTGGGCGTAATCTAGAAGTGCTCA
1 TGCGGCAACAATTTTGGGCGCAATCTAGAAGTGCTCA
15121717 TG
1 TG
15121719 TAGTGATATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.29
Consensus pattern (37 bp):
TGCGGCAACAATTTTGGGCGCAATCTAGAAGTGCTCA
Found at i:15121954 original size:12 final size:12
Alignment explanation
Indices: 15121937--15121962 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15121927 ACATAAGCGC
15121937 ATGATGTCATCT
1 ATGATGTCATCT
15121949 ATGATGTCATCT
1 ATGATGTCATCT
15121961 AT
1 AT
15121963 TTAACAAAAA
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:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (12 bp):
ATGATGTCATCT
Found at i:15125890 original size:26 final size:26
Alignment explanation
Indices: 15125853--15125965 Score: 120
Period size: 26 Copynumber: 4.3 Consensus size: 26
15125843 GTAGAAAATA
* *
15125853 AGTGAATCTATAGTAGGCCTTGAGCC
1 AGTGAATGTATAGTAGGCTTTGAGCC
* *
15125879 AGTGAATGTATAGCAGGCTTTAAGCC
1 AGTGAATGTATAGTAGGCTTTGAGCC
*
15125905 AATGAATGTATAGTAGGCTTTGAGCC
1 AGTGAATGTATAGTAGGCTTTGAGCC
* * * * *
15125931 GGTGAATGTGTAGCACGCTTAGAG-C
1 AGTGAATGTATAGTAGGCTTTGAGCC
15125956 AGGTGAATGT
1 A-GTGAATGT
15125966 TTAGCAAATA
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
25 1 0.01
26 71 0.99
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.27
Consensus pattern (26 bp):
AGTGAATGTATAGTAGGCTTTGAGCC
Found at i:15133064 original size:26 final size:26
Alignment explanation
Indices: 15133028--15133171 Score: 189
Period size: 26 Copynumber: 5.5 Consensus size: 26
15133018 TAGAAAATAA
* *
15133028 GTGAATCTATAGCAGGCCTTGAGCTG
1 GTGAATGTATAGCAGGCCTTGAGCCG
15133054 GTGAATGTATAGCAGGCCTTGAGCCG
1 GTGAATGTATAGCAGGCCTTGAGCCG
* *
15133080 CTGAATGTATAGCAAGCCTTGAGCCG
1 GTGAATGTATAGCAGGCCTTGAGCCG
* * *
15133106 GTGAATGTGTTGCAGGCTTTGAGCCG
1 GTGAATGTATAGCAGGCCTTGAGCCG
* *
15133132 GTGAATGTGTAGCAGGCCTAGAGCCG
1 GTGAATGTATAGCAGGCCTTGAGCCG
* *
15133158 GTGAACGTTTAGCA
1 GTGAATGTATAGCA
15133172 AGTACTTTGT
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (26 bp):
GTGAATGTATAGCAGGCCTTGAGCCG
Found at i:15134333 original size:2 final size:2
Alignment explanation
Indices: 15134328--15134362 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
15134318 GGTAAATATA
*
15134328 TG TG TG TG TG TG TG TG TG TG TG TC TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
15134363 ACTTTAGAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.03, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:15136306 original size:15 final size:15
Alignment explanation
Indices: 15136286--15136315 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15136276 TTTGCAAAGT
15136286 TGGCTCAATGGTGTC
1 TGGCTCAATGGTGTC
*
15136301 TGGCTCGATGGTGTC
1 TGGCTCAATGGTGTC
15136316 CATGCTTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.20, G:0.37, T:0.33
Consensus pattern (15 bp):
TGGCTCAATGGTGTC
Found at i:15138161 original size:11 final size:11
Alignment explanation
Indices: 15138131--15138162 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
15138121 TAATTAAGAG
*
15138131 TTTAAATTGAT
1 TTTAAATTTAT
15138142 TTTAAATTTAT
1 TTTAAATTTAT
15138153 TTTAAATTTA
1 TTTAAATTTA
15138163 AATTTACCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:15138162 original size:6 final size:6
Alignment explanation
Indices: 15138142--15138197 Score: 53
Period size: 6 Copynumber: 9.3 Consensus size: 6
15138132 TTAAATTGAT
* * *
15138142 TTTAAA TTT-AT TTTAAA TTTAAA TTTACCTA TTTAAA TTT-AC TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA
15138190 TTTAAA TT
1 TTTAAA TT
15138198 AATATTAAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
5 8 0.20
6 27 0.68
8 5 0.12
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:15138222 original size:18 final size:17
Alignment explanation
Indices: 15138185--15138224 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
15138175 TAAATTTACT
* *
15138185 TTAAATTTAAATTAATA
1 TTAAACTTAAATTAAAA
15138202 TTAAACTTAATATTAAAA
1 TTAAACTTAA-ATTAAAA
15138220 TTAAA
1 TTAAA
15138225 AGTCCAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAAACTTAAATTAAAA
Found at i:15140171 original size:30 final size:31
Alignment explanation
Indices: 15140135--15140233 Score: 93
Period size: 30 Copynumber: 3.4 Consensus size: 31
15140125 CTAAATTATC
** *
15140135 CAAAAATTGTACTTT-AACCCTCAAACTTCT
1 CAAAAATTACACTTTGAACCCTAAAACTTCT
* *
15140165 CAAAAATTACATTTTGACCCCTAAAACTTCT
1 CAAAAATTACACTTTGAACCCTAAAACTTCT
*
15140196 C-AAAATTACATTTTTG--CCCTAAAACTTC-
1 CAAAAATTACA-CTTTGAACCCTAAAACTTCT
15140224 C-AAAATTACA
1 CAAAAATTACA
15140234 TTTTTGCCCC
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
28 10 0.16
29 12 0.19
30 21 0.34
31 19 0.31
ACGTcount: A:0.39, C:0.25, G:0.03, T:0.32
Consensus pattern (31 bp):
CAAAAATTACACTTTGAACCCTAAAACTTCT
Found at i:15140238 original size:29 final size:29
Alignment explanation
Indices: 15140152--15140266 Score: 139
Period size: 29 Copynumber: 3.9 Consensus size: 29
15140142 TGTACTTTAA
*
15140152 CCCTCAAACTTCTCAAAAATTACA-TTTTG
1 CCCTAAAACTTCTC-AAAATTACATTTTTG
15140181 ACCCCTAAAACTTCTCAAAATTACATTTTTG
1 --CCCTAAAACTTCTCAAAATTACATTTTTG
15140212 CCCTAAAACTTC-CAAAATTACATTTTTG
1 CCCTAAAACTTCTCAAAATTACATTTTTG
*
15140240 CCCCT-AAACTT-TCCAAAATTTCATTTT
1 -CCCTAAAACTTCT-CAAAATTACATTTT
15140267 AACCCAAATT
Statistics
Matches: 78, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
28 22 0.28
29 29 0.37
30 9 0.12
31 18 0.23
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.37
Consensus pattern (29 bp):
CCCTAAAACTTCTCAAAATTACATTTTTG
Found at i:15140293 original size:29 final size:29
Alignment explanation
Indices: 15140252--15140411 Score: 150
Period size: 29 Copynumber: 5.6 Consensus size: 29
15140242 CCTAAACTTT
15140252 CCAAAATT-TCATTTTAACCCAAATTTTA
1 CCAAAATTATCATTTTAACCCAAATTTTA
* * *
15140280 CCAAAATTACCATTTTACCCCTAAACTTT-
1 CCAAAATTATCATTTTAACCC-AAATTTTA
* * *
15140309 CC-AAATTTTCATTTTTGACCCCAATTTTA
1 CCAAAATTATCA-TTTTAACCCAAATTTTA
* * * *
15140338 CCAAAATTACCATTTTACCCCTAACTTT-
1 CCAAAATTATCATTTTAACCCAAATTTTA
* *
15140366 CCAAAATT-TCATTTTTGACCCCAATTTTA
1 CCAAAATTATCA-TTTTAACCCAAATTTTA
15140395 CCAAAATTATCATTTTA
1 CCAAAATTATCATTTTA
15140412 CCCTTGAACT
Statistics
Matches: 103, Mismatches: 21, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
27 2 0.02
28 40 0.39
29 45 0.44
30 16 0.16
ACGTcount: A:0.34, C:0.26, G:0.01, T:0.39
Consensus pattern (29 bp):
CCAAAATTATCATTTTAACCCAAATTTTA
Found at i:15140342 original size:58 final size:58
Alignment explanation
Indices: 15140167--15140592 Score: 411
Period size: 58 Copynumber: 7.3 Consensus size: 58
15140157 AAACTTCTCA
* * **
15140167 AAAATTA-CATTTTGACCCCTAAAAC-TTCTCAAAATTACATTTTTG-CCCTAAAACTT-CC
1 AAAATTACCATTTT-ACCCCT-AAACTTTC-CAAAATTTCATTTTTGACCC-CAATTTTACC
* * *
15140225 AAAATTA-CATTTTTGCCCCTAAACTTTCCAAAATTTCA-TTTTAACCCAAATTTTACC
1 AAAATTACCA-TTTTACCCCTAAACTTTCCAAAATTTCATTTTTGACCCCAATTTTACC
*
15140282 AAAATTACCATTTTACCCCTAAACTTTCCAAATTTTCATTTTTGACCCCAATTTTACC
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTTGACCCCAATTTTACC
15140340 AAAATTACCATTTTACCCCT-AACTTTCCAAAATTTCATTTTTGACCCCAATTTTACC
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTTGACCCCAATTTTACC
* * * ** * * *
15140397 AAAATTATCATTTTACCCTTGAACTTTCCAAAGCTCCATTTTTTACCTCAATTTTACC
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTTGACCCCAATTTTACC
* * * * * *
15140455 AAAAATTATCATTTTTGCCCTTGAACTTTCCAAAA-TTCTATTTTTGACCCCGATTTTATC
1 -AAAATTACCA-TTTTACCCCTAAACTTTCCAAAATTTC-ATTTTTGACCCCAATTTTACC
* * * * ** * * *
15140515 AAAATTACTATTTTACCCCTGAACTCTCTAAAA-TTCTATTTTAAACCCCTATCTCACC
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTTC-ATTTTTGACCCCAATTTTACC
*
15140573 AAAAAGTACCATTTTACCCC
1 -AAAATTACCATTTTACCCC
15140593 CGGATATCTA
Statistics
Matches: 319, Mismatches: 38, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
56 9 0.03
57 105 0.33
58 126 0.39
59 41 0.13
60 38 0.12
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.38
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTTGACCCCAATTTTACC
Found at i:15140576 original size:29 final size:27
Alignment explanation
Indices: 15140484--15140576 Score: 69
Period size: 29 Copynumber: 3.2 Consensus size: 27
15140474 CTTGAACTTT
* * *
15140484 CCAAAATTCTATTTTTGACCCCGATTTTA
1 CCAAAATTCTA-TTTT-ACCCCTATCTCA
* * *
15140513 TCAAAATTACTATTTTACCCCTGAACTCT
1 CCAAAATT-CTATTTTACCCCT-ATCTCA
*
15140542 CTAAAATTCTATTTTAAACCCCTATCTCA
1 CCAAAATTCTATTTT--ACCCCTATCTCA
15140571 CCAAAA
1 CCAAAA
15140577 AGTACCATTT
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
28 12 0.24
29 28 0.57
30 9 0.18
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (27 bp):
CCAAAATTCTATTTTACCCCTATCTCA
Found at i:15153045 original size:6 final size:6
Alignment explanation
Indices: 15153034--15153081 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
15153024 TTAAATTGAT
* *
15153034 TTTAAA TTTAAA TTTACCTA TTTAAA TTT-AC TTTAAA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
15153082 TCAAATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 4 0.11
6 26 0.74
8 5 0.14
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:15153075 original size:17 final size:17
Alignment explanation
Indices: 15153023--15153080 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 17
15153013 TAATTAAGAG
* *
15153023 TTTAAATTGATTTTAAA
1 TTTAAATTTACTTTAAA
*
15153040 TTTAAATTTAC-CT--A
1 TTTAAATTTACTTTAAA
15153054 TTTAAATTTACTTTAAA
1 TTTAAATTTACTTTAAA
15153071 TTTAAATTTA
1 TTTAAATTTA
15153081 ATCAAATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 12 0.35
15 1 0.03
16 1 0.03
17 20 0.59
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (17 bp):
TTTAAATTTACTTTAAA
Found at i:15153111 original size:12 final size:12
Alignment explanation
Indices: 15153088--15153120 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
15153078 TTAATCAAAT
15153088 TTAAAA-TAATA
1 TTAAAATTAATA
*
15153099 TTAAACTTAATA
1 TTAAAATTAATA
15153111 TTAAAATTAA
1 TTAAAATTAA
15153121 AAGTCCAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (12 bp):
TTAAAATTAATA
Found at i:15153750 original size:64 final size:64
Alignment explanation
Indices: 15153677--15153805 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
15153667 AAATTCGAAG
15153677 TCTCAAATATTGAAGTTAGTCAGGTACATTCGATACATTTATTATCATTAATATTTTAAAACTC
1 TCTCAAATATTGAAGTTAGTCAGGTACATTCGATACATTTATTATCATTAATATTTTAAAACTC
15153741 TCTCAAATATTGAAGTTAGTCAGGTACATTCGATACATTTATTATCATTAATATTTTAAAACTC
1 TCTCAAATATTGAAGTTAGTCAGGTACATTCGATACATTTATTATCATTAATATTTTAAAACTC
15153805 T
1 T
15153806 ACCCATCAGT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (64 bp):
TCTCAAATATTGAAGTTAGTCAGGTACATTCGATACATTTATTATCATTAATATTTTAAAACTC
Found at i:15155216 original size:29 final size:28
Alignment explanation
Indices: 15155091--15155463 Score: 161
Period size: 29 Copynumber: 12.8 Consensus size: 28
15155081 AAAGTCCCTA
* * * *
15155091 AACTATCCAAAAATTATAATTTAACCCTCG
1 AACTTTCC-AAAATTACATTTTTACCC-CG
* * *
15155121 AACTTCTCAAAAATTACATTTTGACCCCAAA
1 AACTT-TCCAAAATTACATTTTTACCCC--G
* * ***
15155152 AACTTCCCAAAATTACATTTTTGCCTTAA
1 AACTTTCCAAAATTACATTTTTACC-CCG
15155181 AAC-TTCCAAAAATTACATTTTTACCCCG
1 AACTTTCC-AAAATTACATTTTTACCCCG
* * *
15155209 AACTTTCCACAATT-CTATTTTAACCTC-
1 AACTTTCCAAAATTAC-ATTTTTACCCCG
* * *
15155236 TATTTTACCAAAATTACCA-TTTTACCCTCA
1 AACTTT-CCAAAATTA-CATTTTTACCC-CG
* *
15155266 AACTTTCGAAAATTCCATTTTTGACCCCG
1 AACTTTCCAAAATTACATTTTT-ACCCCG
*
15155295 -A-TTTACCAAAATTACCA-TCTTACCCTCG
1 AACTTT-CCAAAATTA-CATTTTTACCC-CG
* * **
15155323 AACTTTCCAAAATTTCATTTTTAACCTT
1 AACTTTCCAAAATTACATTTTTACCCCG
* *
15155351 AATTTTACCAAAATTACCA-TTTTACCCCTA
1 AACTTT-CCAAAATTA-CATTTTTACCCC-G
* * *
15155381 AATTTTCCAAAACTCCATTTTTGACCCC-
1 AACTTTCCAAAATTACATTTTT-ACCCCG
* * *
15155409 AATTTTACCAAAAATTATTATTTTTCCCCTCG
1 AACTTT-CC-AAAATTA-CATTTTTACCC-CG
* *
15155441 AAATTTCCAAAATTCCATTTTTA
1 AACTTTCCAAAATTACATTTTTA
15155464 ACCCTGATTT
Statistics
Matches: 260, Mismatches: 53, Indels: 61
0.70 0.14 0.16
Matches are distributed among these distances:
27 12 0.05
28 63 0.24
29 90 0.35
30 74 0.28
31 16 0.06
32 5 0.02
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (28 bp):
AACTTTCCAAAATTACATTTTTACCCCG
Found at i:15155257 original size:57 final size:58
Alignment explanation
Indices: 15155189--15155561 Score: 332
Period size: 58 Copynumber: 6.4 Consensus size: 58
15155179 AAAACTTCCA
* * *
15155189 AAAATTA-CATTTTTACCC-CGAACTTTCCACAATTCTA-TTTTAACCTCTATTTTACC
1 AAAATTACCA-TTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCTATTTTACC
* * * *
15155245 AAAATTACCATTTTACCCTCAAACTTTCGAAAATTCCATTTTTGACCCCGA-TTTACC
1 AAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCTATTTTACC
* * *
15155302 AAAATTACCATCTTACCCTCGAACTTTCCAAAATTTCATTTTTAA-CCTTAATTTTACC
1 AAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCT-ATTTTACC
* * * * *
15155360 AAAATTACCATTTTACCC-CTAAATTTTCCAAAACTCCATTTTTGACCCCAATTTTACC
1 AAAATTACCATTTTACCCTC-GAACTTTCCAAAATTCCATTTTTAACCCCTATTTTACC
** * * *
15155418 AAAAATTATTATTTTTCCCCTCGAAATTTCCAAAATTCCATTTTTAA-CCCTGATTTTATCA
1 -AAAATTACCA-TTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCT-ATTTTA-CC
* * * * * * *
15155479 AAAATTATCATTTTACCC-CTAAACTCTCTAAAATTTCA-TTTTAAACCCTAATCTTACC
1 AAAATTACCATTTTACCCTC-GAACTTTCCAAAATTCCATTTTTAACCCCT-ATTTTACC
*
15155537 AAAAAGTACCATTTTACCCCTCGAA
1 -AAAATTACCATTTTA-CCCTCGAA
15155562 TATCTAAAAT
Statistics
Matches: 256, Mismatches: 44, Indels: 30
0.78 0.13 0.09
Matches are distributed among these distances:
56 17 0.07
57 65 0.25
58 68 0.27
59 55 0.21
60 48 0.19
61 3 0.01
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (58 bp):
AAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCTATTTTACC
Found at i:15155540 original size:29 final size:28
Alignment explanation
Indices: 15155225--15155540 Score: 119
Period size: 29 Copynumber: 10.9 Consensus size: 28
15155215 CCACAATTCT
*
15155225 ATTTTAACCTCT-ATTTTACCAAAATTACC
1 ATTTTAACC-CTAATTTTACCAAAATT-TC
* * *
15155254 ATTTT-ACCCTCAAACTTT-CGAAAATTCC
1 ATTTTAACCCT--AATTTTACCAAAATTTC
* ** *
15155282 ATTTTTGACCCCGA-TTTACCAAAATTACC
1 A-TTTTAACCCTAATTTTACCAAAATT-TC
* *
15155311 ATCTT-ACCCTCGAACTTT-CCAAAATTTC
1 ATTTTAACCCT--AATTTTACCAAAATTTC
* *
15155339 ATTTTTAACCTTAATTTTACCAAAATTACC
1 A-TTTTAACCCTAATTTTACCAAAATT-TC
* * *
15155369 ATTTTACCCCTAAATTTT-CCAAAACTCC
1 ATTTTAACCCT-AATTTTACCAAAATTTC
* * *
15155397 ATTTTTGACCCCAATTTTACCAAAAATTATT
1 A-TTTTAACCCTAATTTTACC-AAAATT-TC
** * *
15155428 ATTTTTCCCCTCGAAATTT-CCAAAATTCC
1 ATTTTAACCCT--AATTTTACCAAAATTTC
* *
15155457 ATTTTTAACCCTGATTTTATCAAAAATTATC
1 A-TTTTAACCCTAATTTTA-CCAAAATT-TC
* * * *
15155488 ATTTTACCCCTAAACTCT-CTAAAATTTC
1 ATTTTAACCCT-AATTTTACCAAAATTTC
*
15155516 ATTTTAAACCCTAATCTTACCAAAA
1 ATTTT-AACCCTAATTTTACCAAAA
15155541 AGTACCATTT
Statistics
Matches: 215, Mismatches: 44, Indels: 56
0.68 0.14 0.18
Matches are distributed among these distances:
27 9 0.04
28 47 0.22
29 81 0.38
30 65 0.30
31 8 0.04
32 5 0.02
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.39
Consensus pattern (28 bp):
ATTTTAACCCTAATTTTACCAAAATTTC
Found at i:15155571 original size:59 final size:59
Alignment explanation
Indices: 15155189--15155558 Score: 366
Period size: 57 Copynumber: 6.4 Consensus size: 59
15155179 AAAACTTCCA
* * *
15155189 AAAATTA-CATTTTTA-CCC-CGAACTTTCCACAATTCTA-TTTTAACCTCT-ATTTTACC
1 AAAATTACCA-TTTTACCCCTCAAACTTTCCAAAATTCCATTTTTAACC-CTAATTTTACC
* * **
15155245 AAAATTACCATTTTA-CCCTCAAACTTTCGAAAATTCCATTTTTGACCCCGA-TTTACC
1 AAAATTACCATTTTACCCCTCAAACTTTCCAAAATTCCATTTTTAACCCTAATTTTACC
* * * *
15155302 AAAATTACCATCTTA-CCCTCGAACTTTCCAAAATTTCATTTTTAACCTTAATTTTACC
1 AAAATTACCATTTTACCCCTCAAACTTTCCAAAATTCCATTTTTAACCCTAATTTTACC
* * * *
15155360 AAAATTACCATTTTACCCCT-AAATTTTCCAAAACTCCATTTTTGACCCCAATTTTACC
1 AAAATTACCATTTTACCCCTCAAACTTTCCAAAATTCCATTTTTAACCCTAATTTTACC
** * * *
15155418 AAAAATTATTATTTTTCCCCTCGAAA-TTTCCAAAATTCCATTTTTAACCCTGATTTTATCA
1 -AAAATTACCATTTTACCCCTC-AAACTTTCCAAAATTCCATTTTTAACCCTAATTTTA-CC
* * * * * *
15155479 AAAATTATCATTTTACCCCT-AAACTCTCTAAAATTTCATTTTAAACCCTAATCTTACC
1 AAAATTACCATTTTACCCCTCAAACTTTCCAAAATTCCATTTTTAACCCTAATTTTACC
*
15155537 AAAAAGTACCATTTTACCCCTC
1 -AAAATTACCATTTTACCCCTC
15155559 GAATATCTAA
Statistics
Matches: 260, Mismatches: 41, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
56 15 0.06
57 67 0.26
58 63 0.24
59 65 0.25
60 46 0.18
61 4 0.02
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.38
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCTCAAACTTTCCAAAATTCCATTTTTAACCCTAATTTTACC
Found at i:15155579 original size:59 final size:58
Alignment explanation
Indices: 15155186--15155571 Score: 222
Period size: 59 Copynumber: 6.6 Consensus size: 58
15155176 CTTAAAACTT
* * *
15155186 CCAAAAATTA-CATTTTTA-CCC-CGAACTTTCCACAATTCTATTTT-AACCTCT-ATTTTA
1 CCAAAAATTATCA-TTTTACCCCTCGAA-TATCTAAAATTC-ATTTTAAACC-CTAATTTTA
* * * * ** **
15155243 CC-AAAATTACCATTTTA-CCCTCAAACTTTCGAAAATTCCATTTTTGACCCCGA-TTTA
1 CCAAAAATTATCATTTTACCCCTCGAA-TATCTAAAATT-CATTTTAAACCCTAATTTTA
* * * * * *
15155300 CC-AAAATTACCATCTTA-CCCTCGAACTTTCCAAAATTTCATTTTTAACCTTAATTTTA
1 CCAAAAATTATCATTTTACCCCTCGAA-TATCTAAAA-TTCATTTTAAACCCTAATTTTA
* * * * * ** *
15155358 CC-AAAATTACCATTTTACCCCT-AAATTTTCCAAAACTCCATTTTTGACCCCAATTTTA
1 CCAAAAATTATCATTTTACCCCTCGAA-TATCTAAAA-TTCATTTTAAACCCTAATTTTA
* * * * * *
15155416 CCAAAAATTATTATTTTTCCCCTCGAAATTTCCAAAATTCCATTTTTAACCCTGATTTTA
1 CCAAAAATTATCATTTTACCCCTCG-AATATCTAAAATT-CATTTTAAACCCTAATTTTA
* * * *
15155476 TCAAAAATTATCATTTTACCCCT-AAACTCTCTAAAATTTCATTTTAAACCCTAATCTTA
1 CCAAAAATTATCATTTTACCCCTCGAA-TATCTAAAA-TTCATTTTAAACCCTAATTTTA
* *
15155535 CCAAAAAGTACCATTTTACCCCTCGAATATCTAAAAT
1 CCAAAAATTATCATTTTACCCCTCGAATATCTAAAAT
15155572 GTGATTTTTC
Statistics
Matches: 272, Mismatches: 42, Indels: 29
0.79 0.12 0.08
Matches are distributed among these distances:
56 15 0.06
57 70 0.26
58 61 0.22
59 74 0.27
60 50 0.18
61 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.38
Consensus pattern (58 bp):
CCAAAAATTATCATTTTACCCCTCGAATATCTAAAATTCATTTTAAACCCTAATTTTA
Found at i:15159672 original size:29 final size:30
Alignment explanation
Indices: 15159639--15159808 Score: 204
Period size: 30 Copynumber: 5.7 Consensus size: 30
15159629 AAAAATGGAG
* *
15159639 TTTTGGAGAGTTTGA-GGTCAAAATGTAAT
1 TTTTGGAAAGTTTGAGGGTTAAAATGTAAT
*
15159668 TTTTGGAAAGTTTGATGGTTAAAATGTAAT
1 TTTTGGAAAGTTTGAGGGTTAAAATGTAAT
*
15159698 TTTT-GAGAAGTTTAAGGGTTAAAATGTAAT
1 TTTTGGA-AAGTTTGAGGGTTAAAATGTAAT
* *
15159728 TTTTGGAAAG-TTCAGGATTAAAATGTAAT
1 TTTTGGAAAGTTTGAGGGTTAAAATGTAAT
* *
15159757 CTTTGGAAAGTTTGAGGGTCAAAATGTAAT
1 TTTTGGAAAGTTTGAGGGTTAAAATGTAAT
* *
15159787 TTTTAGAAA-TTTGGGGGGTTAA
1 TTTTGGAAAGTTT-GAGGGTTAA
15159809 CTGGGAAATA
Statistics
Matches: 122, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
29 45 0.37
30 75 0.61
31 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (30 bp):
TTTTGGAAAGTTTGAGGGTTAAAATGTAAT
Found at i:15159710 original size:59 final size:59
Alignment explanation
Indices: 15159639--15159799 Score: 213
Period size: 59 Copynumber: 2.7 Consensus size: 59
15159629 AAAAATGGAG
15159639 TTTTGGAGAGTTTGA-GGTCAAAATGTAATTTTTGGAAAGTTTGATGG-TTAAAATGTAAT
1 TTTTGGA-AGTTTGAGGGTCAAAATGTAATTTTTGGAAAGTTTGA-GGATTAAAATGTAAT
* * *
15159698 TTTTGAGAAGTTTAAGGGTTAAAATGTAATTTTTGGAAAG-TTCAGGATTAAAATGTAAT
1 TTTTG-GAAGTTTGAGGGTCAAAATGTAATTTTTGGAAAGTTTGAGGATTAAAATGTAAT
* *
15159757 CTTTGGAAAGTTTGAGGGTCAAAATGTAATTTTTAGAAA-TTTG
1 TTTTGG-AAGTTTGAGGGTCAAAATGTAATTTTTGGAAAGTTTG
15159800 GGGGGTTAAC
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
58 3 0.03
59 61 0.69
60 25 0.28
ACGTcount: A:0.34, C:0.02, G:0.24, T:0.40
Consensus pattern (59 bp):
TTTTGGAAGTTTGAGGGTCAAAATGTAATTTTTGGAAAGTTTGAGGATTAAAATGTAAT
Found at i:15168059 original size:30 final size:29
Alignment explanation
Indices: 15168011--15168274 Score: 212
Period size: 30 Copynumber: 8.9 Consensus size: 29
15168001 TAAGGACAAA
** *
15168011 TAGGGG-TAAAATAAAATTTTGGAAAGTTT
1 TAGGGGTTAAAATGTAATTTTAGAAAG-TT
*
15168040 TAGGGGTTAAAATGTAATTTTCTAAAAAGTT
1 TAGGGGTTAAAATGTAA-TTT-TAGAAAGTT
15168071 T-GGGAGTTAAAATGTAAATTTTAGAAAGTT
1 TAGGG-GTTAAAATGT-AATTTTAGAAAGTT
*
15168101 TAGGGGTTAAAATGAAATTTTTAGAAAGTT
1 TAGGGGTTAAAATGTAA-TTTTAGAAAGTT
* * *
15168131 TAAGGGCTAAAATGTAATTTTCAAAAAGTT
1 TAGGGGTTAAAATGTAATTTT-AGAAAGTT
* *
15168161 TAAGGGTTAAAATG-ACATTTCTAAAAAGTT
1 TAGGGGTTAAAATGTA-ATTT-TAGAAAGTT
* *
15168191 TAGGGGTCAAAATGATATTTTTAGAAAGTT
1 TAGGGGTTAAAATG-TAATTTTAGAAAGTT
* ** * * * *
15168221 CAATGGTCAAAATGACAATTTCAAAAAGTT
1 TAGGGGTTAAAATG-TAATTTTAGAAAGTT
* *
15168251 T-GGGGTCAAGATGTAATTTTAGAA
1 TAGGGGTTAAAATGTAATTTTAGAA
15168275 CAAACAAGGG
Statistics
Matches: 194, Mismatches: 29, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
28 8 0.04
29 22 0.11
30 130 0.67
31 26 0.13
32 8 0.04
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (29 bp):
TAGGGGTTAAAATGTAATTTTAGAAAGTT
Found at i:15168189 original size:90 final size:89
Alignment explanation
Indices: 15168011--15168251 Score: 276
Period size: 90 Copynumber: 2.7 Consensus size: 89
15168001 TAAGGACAAA
* * * *
15168011 TAGGGG-TAAAAT-AAAATTTTGGAAAGTTTTAGGGGTTAAAATGTAATTTTCTAAAAAGTTTGG
1 TAGGGGTTAAAATGAAATTTTTAGAAAG-TTTAAGGG-TAAAATGTAATTTTC-AAAAAGTTTAG
*
15168074 GAGTTAAAATGTAAATTTTAGAAAGTT
63 GAGTTAAAATGTAAATTTTAAAAAGTT
15168101 TAGGGGTTAAAATGAAATTTTTAGAAAGTTTAAGGGCTAAAATGTAATTTTCAAAAAGTTTAAGG
1 TAGGGGTTAAAATGAAATTTTTAGAAAGTTTAAGGG-TAAAATGTAATTTTCAAAAAGTTT-AGG
*
15168166 -GTTAAAATG-ACATTTCTAAAAAGTT
64 AGTTAAAATGTAAATTT-TAAAAAGTT
* * * * *
15168191 TAGGGGTCAAAATGATATTTTTAGAAAGTTCAATGGTCAAAATG-ACAATTTCAAAAAGTTT
1 TAGGGGTTAAAATGAAATTTTTAGAAAGTTTAAGGGT-AAAATGTA-ATTTTCAAAAAGTTT
15168252 GGGGTCAAGA
Statistics
Matches: 133, Mismatches: 12, Indels: 12
0.85 0.08 0.08
Matches are distributed among these distances:
89 7 0.05
90 84 0.63
91 30 0.23
92 12 0.09
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (89 bp):
TAGGGGTTAAAATGAAATTTTTAGAAAGTTTAAGGGTAAAATGTAATTTTCAAAAAGTTTAGGAG
TTAAAATGTAAATTTTAAAAAGTT
Found at i:15168203 original size:60 final size:58
Alignment explanation
Indices: 15168025--15168274 Score: 254
Period size: 60 Copynumber: 4.2 Consensus size: 58
15168015 GGTAAAATAA
* * *
15168025 AATTTTGGAAAGTTTTAGGGGTTAAAATGTA-ATTTTCTAAAAAGTTTGGGAGTTAAAATGT
1 AATTTTAGAAAG-TTTAAGGGTTAAAATG-ACA-TTTCTAAAAAGTTTGGG-GTCAAAATGT
* * * * *
15168086 AAATTTTAGAAAGTTTAGGGGTTAAAATGAAATTTTTAGAAAGTTTAAGGG-CTAAAATGT
1 -AATTTTAGAAAGTTTAAGGGTTAAAATGACATTTCTAAAAAGTTT-GGGGTC-AAAATGT
*
15168146 AATTTTCAAAAAGTTTAAGGGTTAAAATGACATTTCTAAAAAGTTTAGGGGTCAAAATGAT
1 AATTTT-AGAAAGTTTAAGGGTTAAAATGACATTTCTAAAAAGTTT-GGGGTCAAAATG-T
* * * * *
15168207 ATTTTTAGAAAGTTCAATGGTCAAAATGACAATTTC-AAAAAGTTTGGGGTCAAGATGT
1 AATTTTAGAAAGTTTAAGGGTTAAAATGAC-ATTTCTAAAAAGTTTGGGGTCAAAATGT
15168265 AATTTTAGAA
1 AATTTTAGAA
15168275 CAAACAAGGG
Statistics
Matches: 163, Mismatches: 18, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
58 10 0.06
59 17 0.10
60 94 0.58
61 31 0.19
62 11 0.07
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.35
Consensus pattern (58 bp):
AATTTTAGAAAGTTTAAGGGTTAAAATGACATTTCTAAAAAGTTTGGGGTCAAAATGT
Found at i:15169951 original size:40 final size:39
Alignment explanation
Indices: 15169885--15170336 Score: 223
Period size: 40 Copynumber: 11.3 Consensus size: 39
15169875 AAGATGATAG
* * *
15169885 CTTCAAT-TCGCCCCATGATCATGGTAAGAGATTGTTGTGT
1 CTTCAATCT-GCCCTATGATTAGGGTAAGAGATTG-TGTGT
* * *
15169925 CTTCAATATGCCCTTTGATTAGGGTAAAAGATTG-GATG-
1 CTTCAATCTGCCCTATGATTAGGGTAAGAGATTGTG-TGT
* * ** *
15169963 CTTTAATCTGCCCCATGATCGGGGTATGAGATTGGTGTGT
1 CTTCAATCTGCCCTATGATTAGGGTAAGAGATT-GTGTGT
* * * *
15170003 CTTCAATCTACCCTCTGATTAGCGTAAAAGATTG-GATG-
1 CTTCAATCTGCCCTATGATTAGGGTAAGAGATTGTG-TGT
* * ** *
15170041 CTTCAATCTACCCCATGATCGGGGTAAGAGATTGATATGT
1 CTTCAATCTGCCCTATGATTAGGGTAAGAGATTG-TGTGT
* *
15170081 CTTCAATCTGCCCTCTGATTAGGGTAAAAGATTG-GATG-
1 CTTCAATCTGCCCTATGATTAGGGTAAGAGATTGTG-TGT
* * **
15170119 CTTCAATCTACCCCATGATCGGGGTAAGAGATTG-GATTGT
1 CTTCAATCTGCCCTATGATTAGGGTAAGAGATTGTG--TGT
* * *
15170159 CTTCAATCTGCCTTCTGATTAAGGTAAGAGATTG-GATG-
1 CTTCAATCTGCCCTATGATTAGGGTAAGAGATTGTG-TGT
* * * * *
15170197 CTTCAAGTTTTCCC-ATGATCAGGGCAAGAGACTAGATG-G-
1 CTTCAA-TCTGCCCTATGATTAGGGTAAGAGA-TTG-TGTGT
* * *
15170236 CTTCAATCTACCGCTCTTGATTTACGGGTAAAAGATTG-GATGAT
1 CTTCAATCTGCC-CT-ATGA-TTA-GGGTAAGAGATTGTG-TG-T
* *
15170280 CTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTG-GATGTT
1 CTTCAATCTG-CCCT-ATGA-TTA-GGGTAAGAGATTGTG-TG-T
15170324 CTTCAATCTGCCC
1 CTTCAATCTGCCC
15170337 CTCTTGACTT
Statistics
Matches: 316, Mismatches: 70, Indels: 49
0.73 0.16 0.11
Matches are distributed among these distances:
38 107 0.34
39 30 0.09
40 109 0.34
41 5 0.02
42 5 0.02
43 11 0.03
44 47 0.15
45 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.32
Consensus pattern (39 bp):
CTTCAATCTGCCCTATGATTAGGGTAAGAGATTGTGTGT
Found at i:15169988 original size:38 final size:39
Alignment explanation
Indices: 15169946--15170337 Score: 262
Period size: 38 Copynumber: 9.8 Consensus size: 39
15169936 CCTTTGATTA
* *
15169946 GGGTAAAAGATTGGATG-CTTTAATCTGCCCCATGATCG
1 GGGTAAAAGATTGGATGTCTTCAATCTACCCCATGATCG
** * **
15169984 GGGTATGAGATTGGTGTGTCTTCAATCTACCCTC-TGATTA
1 GGGTAAAAGATTGG-ATGTCTTCAATCTACCC-CATGATCG
*
15170024 GCGTAAAAGATTGGATG-CTTCAATCTACCCCATGATCG
1 GGGTAAAAGATTGGATGTCTTCAATCTACCCCATGATCG
* * * **
15170062 GGGTAAGAGATTGATATGTCTTCAATCTGCCCTC-TGATTA
1 GGGTAAAAGATTG-GATGTCTTCAATCTACCC-CATGATCG
15170102 GGGTAAAAGATTGGATG-CTTCAATCTACCCCATGATCG
1 GGGTAAAAGATTGGATGTCTTCAATCTACCCCATGATCG
* * * **
15170140 GGGTAAGAGATTGGATTGTCTTCAATCTGCCTTC-TGATTA
1 GGGTAAAAGATTGGA-TGTCTTCAATCTACC-CCATGATCG
* * ** *
15170180 AGGTAAGAGATTGGATG-CTTCAAGT-TTTCCCATGATCA
1 GGGTAAAAGATTGGATGTCTTCAA-TCTACCCCATGATCG
* * * * * *
15170218 GGGCAAGAGACTAGATGGCTTCAATCTACCGCTCTTGATTTAC-
1 GGGTAAAAGATTGGATGTCTTCAATCTACC-C-CATGA--T-CG
* * *
15170261 GGGTAAAAGATTGGATGATCTTCAATCTGCCCCTCTTGACTTAG
1 GGGTAAAAGATTGGATG-TCTTCAATCT-ACCC-CATGA--TCG
*
15170305 GGGTAAAAGATTGGATGTTCTTCAATCTGCCCC
1 GGGTAAAAGATTGGATG-TCTTCAATCTACCCC
15170338 TCTTGACTTA
Statistics
Matches: 280, Mismatches: 51, Indels: 42
0.75 0.14 0.11
Matches are distributed among these distances:
37 3 0.01
38 97 0.35
39 23 0.08
40 84 0.30
41 7 0.03
42 1 0.00
43 17 0.06
44 46 0.16
45 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (39 bp):
GGGTAAAAGATTGGATGTCTTCAATCTACCCCATGATCG
Found at i:15169994 original size:78 final size:78
Alignment explanation
Indices: 15169895--15170621 Score: 561
Period size: 78 Copynumber: 8.8 Consensus size: 78
15169885 CTTCAATTCG
** * * *
15169895 CCCCATGATCATGGTAAGAGATTGTTGTGTCTTCAATATGCCCTTTGATTAGGGTAAAAGATTGG
1 CCCCATGATCGGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGG
* *
15169960 ATGCTTTAATCTG
66 ATGCTTCAATCTA
* * * *
15169973 CCCCATGATCGGGGTATGAGATTGGTGTGTCTTCAATCTACCCTCTGATTAGCGTAAAAGATTGG
1 CCCCATGATCGGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGG
15170038 ATGCTTCAATCTA
66 ATGCTTCAATCTA
*
15170051 CCCCATGATCGGGGTAAGAGATTGATATGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGG
1 CCCCATGATCGGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGG
15170116 ATGCTTCAATCTA
66 ATGCTTCAATCTA
* * *
15170129 CCCCATGATCGGGGTAAGAGATTGGAT-TGTCTTCAATCTGCCTTCTGATTAAGGTAAGAGATTG
1 CCCCATGATCGGGGTAAGAGATT-GATGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTG
*
15170193 GATGCTTCAAGT-TT
65 GATGCTTCAA-TCTA
* * * * *
15170207 TCCCATGATCAGGGCAAGAGACTAGATG-G-CTTCAATCTACCGCTCTTGATTTACGGGTAAAAG
1 CCCCATGATCGGGGTAAGAGA-TTGATGTGTCTTCAATCTGCC-CTC-TGA-TTA-GGGTAAAAG
*
15170270 ATTGGATGATCTTCAATCTGC
61 ATTGGATG--CTTCAATCT-A
* * * *
15170291 CCCTCTTGACTTAGGGGTAAAAGATTGGATGT-TCTTCAATCTGCCCCTCTTGACTTAGGAGTGA
1 CCC-CATGA--TCGGGGTAAGAGATT-GATGTGTCTTCAATCTG-CCCTC-TGA-TTAGG-GTAA
*
15170355 AAGATTGGATGGTCTTCAATCTGT
58 AAGATTGGAT-G-CTTCAATCT-A
** * * * *
15170379 CGTTCTTG-TCTTAGGGGTAAAATATTAGATGGTGGCTTCAATCTGCCCTTCTTGACTTAGGGGT
1 C-CCCATGATC---GGGGTAAGAGATT-GAT-GTGTCTTCAATCTGCCC-TC-TGA-TTA-GGGT
* * *
15170443 AAAAGATTTGAGGCTTCGATCTA
56 AAAAGATTGGATGCTTCAATCTA
* * * *
15170466 CCTCATGGTCGGGGTATA-AGGTTGGTGTGTCTTCAATCTGCCCCTCTTGATTTAAGGGTAAAAG
1 CCCCATGATCGGGGTA-AGAGATTGATGTGTCTTCAATCTG-CCCTC-TGA-TT-AGGGTAAAAG
*
15170530 ATTGGATGATCTTCAATATA
61 ATTGGATG--CTTCAATCTA
* * * * *
15170550 CCCTTCTTGACTCATGGGTAAAAGATTGGATGT-TCTTTAATCTGCCCCTCTTGACTCAGGGGTA
1 CCC--CATGA-TC-GGGGTAAGAGATT-GATGTGTCTTCAATCTG-CCCTC-TGA-TTA-GGGTA
15170614 AAAGATTG
57 AAAGATTG
15170622 AATGTTCTTC
Statistics
Matches: 537, Mismatches: 70, Indels: 74
0.79 0.10 0.11
Matches are distributed among these distances:
77 11 0.02
78 233 0.43
79 8 0.01
80 3 0.01
81 15 0.03
82 37 0.07
83 13 0.02
84 21 0.04
85 6 0.01
86 8 0.01
87 22 0.04
88 114 0.21
89 13 0.02
90 31 0.06
91 2 0.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (78 bp):
CCCCATGATCGGGGTAAGAGATTGATGTGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGG
ATGCTTCAATCTA
Found at i:15170299 original size:44 final size:44
Alignment explanation
Indices: 15169923--15170667 Score: 467
Period size: 44 Copynumber: 18.0 Consensus size: 44
15169913 AGATTGTTGT
*
15169923 GTCTTCAATATG-CCCT-TTGA-TTA-GGGTAAAAGATTGGAT-
1 GTCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATG
* * * **
15169962 G-CTTTAATCTG-CCC-CATGA--TCGGGGTATGAGATTGG-TG
1 GTCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATG
* *
15170000 TGTCTTCAATCT-ACCCTC-TGA-TTA-GCGTAAAAGATTGGAT-
1 -GTCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATG
* * * * *
15170040 G-CTTCAATCT-ACCC-CATGA--TCGGGGTAAGAGATT-GATAT
1 GTCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGAT-G
15170079 GTCTTCAATCTG-CCCTC-TGA-TTA-GGGTAAAAGATTGGAT-
1 GTCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATG
* * * * *
15170118 G-CTTCAATCT-ACCC-CATGA--TCGGGGTAAGAGATTGGATT
1 GTCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATG
* * *
15170157 GTCTTCAATCTG-CCTTC-TGA-TTA-AGGTAAGAGATTGGAT-
1 GTCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATG
** * * * * * *
15170196 G-CTTCAAGT-T-TTCC-CATGA-TCA-GGGCAAGAGACTAGATG
1 GTCTTCAA-TCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATG
* * * *
15170235 G-CTTCAATCTACCGCTCTTGATTTACGGGTAAAAGATTGGATG
1 GTCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATG
*
15170278 ATCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATG
1 GTCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATG
* * *
15170322 TTCTTCAATCTGCCCCTCTTGACTTAGGAGTGAAAGATTGGATG
1 GTCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATG
* ** * * *
15170366 GTCTTCAATCTGTCGTTCTTGTCTTAGGGGTAAAATATTAGATG
1 GTCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATG
* *
15170410 GTGGCTTCAATCTGCCCTTCTTGACTTAGGGGTAAAAGATTTGA-G
1 GT--CTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATG
* * * * * * *
15170455 G-CTTCGATCT--ACCTCATG--GTCGGGGTATAAGGTTGG-TG
1 GTCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATG
* *
15170493 TGTCTTCAATCTGCCCCTCTTGATTTAAGGGTAAAAGATTGGATG
1 -GTCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATG
* * * * * *
15170538 ATCTTCAATATACCCTTCTTGACTCATGGGTAAAAGATTGGATG
1 GTCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATG
* * * *
15170582 TTCTTTAATCTGCCCCTCTTGACTCAGGGGTAAAAGATTGAATG
1 GTCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATG
* * * *
15170626 TTCTTCAATATGCCCCTCTTAACTCAGGGGTAAAAGATTGGA
1 GTCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGA
15170668 CGATGATGTA
Statistics
Matches: 566, Mismatches: 94, Indels: 87
0.76 0.13 0.12
Matches are distributed among these distances:
37 10 0.02
38 122 0.22
39 17 0.03
40 94 0.17
41 14 0.02
42 16 0.03
43 13 0.02
44 241 0.43
45 4 0.01
46 35 0.06
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (44 bp):
GTCTTCAATCTGCCCCTCTTGACTTAGGGGTAAAAGATTGGATG
Found at i:15171104 original size:24 final size:24
Alignment explanation
Indices: 15171076--15171127 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
15171066 ATATGAGTCA
15171076 AATGCTCCTAACTAGATAGGCATG
1 AATGCTCCTAACTAGATAGGCATG
* * *
15171100 AATGCTTCTAACTAGATGGGTATG
1 AATGCTCCTAACTAGATAGGCATG
15171124 AATG
1 AATG
15171128 ATGAATACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (24 bp):
AATGCTCCTAACTAGATAGGCATG
Found at i:15171830 original size:11 final size:10
Alignment explanation
Indices: 15171817--15171869 Score: 65
Period size: 11 Copynumber: 5.3 Consensus size: 10
15171807 CGACCTCTCT
15171817 TTTTTCTTTC
1 TTTTTCTTTC
15171827 TTTTTC-TT-
1 TTTTTCTTTC
15171835 TTTTTCTTTTC
1 TTTTTC-TTTC
15171846 TTTTTCTCTTC
1 TTTTTCT-TTC
*
15171857 CTTTTCTTTC
1 TTTTTCTTTC
15171867 TTT
1 TTT
15171870 ATTGGGTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 6 0.16
9 2 0.05
10 14 0.38
11 15 0.41
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:15171846 original size:13 final size:14
Alignment explanation
Indices: 15171818--15171869 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 14
15171808 GACCTCTCTT
15171818 TTTTCTTTCTTTTTC
1 TTTTCTTTC-TTTTC
15171833 TTTT-TTTCTTTTC
1 TTTTCTTTCTTTTC
* *
15171846 TTTT-TCTC-TTCC
1 TTTTCTTTCTTTTC
15171858 TTTTCTTTCTTT
1 TTTTCTTTCTTT
15171870 ATTGGGTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 7 0.22
13 15 0.47
14 6 0.19
15 4 0.12
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTCTTTCTTTTC
Found at i:15179403 original size:91 final size:89
Alignment explanation
Indices: 15179295--15179515 Score: 266
Period size: 91 Copynumber: 2.5 Consensus size: 89
15179285 GGTAAAATCA
* * *
15179295 AAATTTTGGAAAGTTTTAGAGGTTAAAATGTAATTTTTAGAAAGTTTAAGGGTTAAAACAAAATT
1 AAATTTTAGAAA-TTTTAGGGGTCAAAATGTAATTTTTAGAAAGTTTAAGGGTTAAAACAAAATT
*
15179360 TTTAGAAAGTTTAGGGGTCAAAAATG
65 TTTAAAAAGTTTAGGGGTC-AAAATG
** * ** *
15179386 AAATTTTTAGAAATTTTAGGGGTCAAAATG-ACATTTCCAAAAAGTTTAAGGGTTAAAATGACAT
1 AAA-TTTTAGAAATTTTAGGGGTCAAAATGTA-ATTTTTAGAAAGTTTAAGGGTTAAAACAAAAT
15179450 TTTTAAAAAGTTTAGGGGTCAAAATG
64 TTTTAAAAAGTTTAGGGGTCAAAATG
* * * *
15179476 ATATTTTAGAAAGTTTGGGGGTCAAAATATAA-TTTTAGAA
1 AAATTTTAGAAATTTTAGGGGTCAAAATGTAATTTTTAGAA
15179516 CAAAACAAAG
Statistics
Matches: 110, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
88 5 0.05
89 24 0.22
90 10 0.09
91 63 0.57
92 8 0.07
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (89 bp):
AAATTTTAGAAATTTTAGGGGTCAAAATGTAATTTTTAGAAAGTTTAAGGGTTAAAACAAAATTT
TTAAAAAGTTTAGGGGTCAAAATG
Found at i:15179464 original size:60 final size:59
Alignment explanation
Indices: 15179304--15179481 Score: 185
Period size: 61 Copynumber: 2.9 Consensus size: 59
15179294 AAAATTTTGG
* * * ** ** *
15179304 AAAGTTTTAGAGGTTAAAATGTAATTTTTAGAAAGTTTAAGGGTTAAAACAAAATTTTTAG
1 AAAGTTTAAG-GGTTAAAATG-AATTTTTAGAAAGTTTAGGGGTCAAAATGAAATTTCCAA
* * * *
15179365 AAAGTTTAGGGGTCAAAAATGAAATTTTTAGAAATTTTAGGGGTCAAAATGACATTTCCAA
1 AAAGTTTAAGGGT-TAAAATG-AATTTTTAGAAAGTTTAGGGGTCAAAATGAAATTTCCAA
* *
15179426 AAAGTTTAAGGGTTAAAATGACATTTTTAAAAAGTTTAGGGGTCAAAATGATATTT
1 AAAGTTTAAGGGTTAAAATGA-ATTTTTAGAAAGTTTAGGGGTCAAAATGAAATTT
15179482 TAGAAAGTTT
Statistics
Matches: 97, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
59 1 0.01
60 40 0.41
61 56 0.58
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (59 bp):
AAAGTTTAAGGGTTAAAATGAATTTTTAGAAAGTTTAGGGGTCAAAATGAAATTTCCAA
Found at i:15179482 original size:29 final size:29
Alignment explanation
Indices: 15179297--15179503 Score: 182
Period size: 30 Copynumber: 6.9 Consensus size: 29
15179287 TAAAATCAAA
* * *
15179297 ATTTTGGAAAGTTTTAGAGGTTAAAATGTA-
1 ATTTTAGAAAG-TTTAGGGGTCAAAATG-AC
* * ** *
15179327 ATTTTTAGAAAGTTTAAGGGTTAAAACAAA
1 A-TTTTAGAAAGTTTAGGGGTCAAAATGAC
*
15179357 ATTTTTAGAAAGTTTAGGGGTCAAAAATGAA
1 A-TTTTAGAAAGTTTAGGGGTC-AAAATGAC
*
15179388 ATTTTTAGAAATTTTAGGGGTCAAAATGAC
1 A-TTTTAGAAAGTTTAGGGGTCAAAATGAC
* * * *
15179418 ATTTCCAAAAAGTTTAAGGGTTAAAATGAC
1 ATTT-TAGAAAGTTTAGGGGTCAAAATGAC
* *
15179448 ATTTTTAAAAAGTTTAGGGGTCAAAATGAT
1 A-TTTTAGAAAGTTTAGGGGTCAAAATGAC
*
15179478 ATTTTAGAAAGTTTGGGGGTCAAAAT
1 ATTTTAGAAAGTTTAGGGGTCAAAAT
15179504 ATAATTTTAG
Statistics
Matches: 150, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
29 27 0.18
30 84 0.56
31 39 0.26
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (29 bp):
ATTTTAGAAAGTTTAGGGGTCAAAATGAC
Found at i:15181234 original size:82 final size:82
Alignment explanation
Indices: 15181131--15181285 Score: 222
Period size: 82 Copynumber: 1.9 Consensus size: 82
15181121 TATATGATAG
* * * *
15181131 ATTAAATATTATTAAATATTAATTATCATTTAATTAATGTTATAGTTATATATTAATTAAAATTA
1 ATTAAATATTATTAAATATTAATTATCATTTAACTAATGTTACAATTATATATCAATTAAAATTA
15181196 AAATTTACTAGAATATT
66 AAATTTACTAGAATATT
* *
15181213 ATTAAATATTATTTTAA-ATTAATTATCATTTAACTAGTGTTACAATTATATATCAATTAAAATT
1 ATTAAATATTA-TTAAATATTAATTATCATTTAACTAATGTTACAATTATATATCAATTAAAATT
* *
15181277 CAGATTTAC
65 AAAATTTAC
15181286 CATTGTAAAC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
82 60 0.94
83 4 0.06
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (82 bp):
ATTAAATATTATTAAATATTAATTATCATTTAACTAATGTTACAATTATATATCAATTAAAATTA
AAATTTACTAGAATATT
Found at i:15181676 original size:20 final size:21
Alignment explanation
Indices: 15181651--15181692 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15181641 CAAAATCTCG
* *
15181651 AACATTGAA-CTCGAACCCTA
1 AACATTAAACCTCAAACCCTA
15181671 AACATTAAACCTCAAACCCTA
1 AACATTAAACCTCAAACCCTA
15181692 A
1 A
15181693 GATTCAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.45, C:0.31, G:0.05, T:0.19
Consensus pattern (21 bp):
AACATTAAACCTCAAACCCTA
Found at i:15191370 original size:3 final size:3
Alignment explanation
Indices: 15191364--15191391 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
15191354 AAAATATGAA
15191364 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
15191392 GCCTTGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:15193788 original size:7 final size:8
Alignment explanation
Indices: 15193774--15193798 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15193764 TAGAATGTAA
15193774 ATTTTTTT
1 ATTTTTTT
15193782 ATTTTTTT
1 ATTTTTTT
15193790 ATTTTTTT
1 ATTTTTTT
15193798 A
1 A
15193799 ATATTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
ATTTTTTT
Found at i:15200315 original size:19 final size:19
Alignment explanation
Indices: 15200293--15200329 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15200283 GCACAACTTT
*
15200293 CTTTGCTGTTTAGCACGTA
1 CTTTGCTGTTCAGCACGTA
*
15200312 CTTTGTTGTTCAGCACGT
1 CTTTGCTGTTCAGCACGT
15200330 TTTTCCTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.43
Consensus pattern (19 bp):
CTTTGCTGTTCAGCACGTA
Found at i:15209860 original size:126 final size:128
Alignment explanation
Indices: 15209611--15209861 Score: 380
Period size: 126 Copynumber: 2.0 Consensus size: 128
15209601 TTTTTTTACA
* * * * * *
15209611 TGTACATATACATACATAAACATAAATATGTTACACAAGGCATTTGCACAAGGAAGAGTAGAAGA
1 TGTACATATACATACATAAACATAAACATGTTACACAAGACACTTGCACAAAGAAGAGAAGAAAA
* *
15209676 AATTACAAAAATCCATTAATACACAAGTTGTGTCCACAAGCAAAGGAGCGTTCCCATATTATC
66 AATTACAAAAATCCATTAATACACAAGTTGTGTCCACAAGCAAAGGAGCATTCACATATTATC
* *
15209739 TGTACATATATATACATAAATATAAACATGTTACACAAGACACTTGCACAAAGAA-A-AAGAAAA
1 TGTACATATACATACATAAACATAAACATGTTACACAAGACACTTGCACAAAGAAGAGAAGAAAA
* *
15209802 AATTACAAAAATCCATTAATATACAAGTTGTGTCTACAAGCAAAGGAGCATTCACATATT
66 AATTACAAAAATCCATTAATACACAAGTTGTGTCCACAAGCAAAGGAGCATTCACATATT
15209862 CCCATCATCA
Statistics
Matches: 111, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
126 61 0.55
127 1 0.01
128 49 0.44
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.25
Consensus pattern (128 bp):
TGTACATATACATACATAAACATAAACATGTTACACAAGACACTTGCACAAAGAAGAGAAGAAAA
AATTACAAAAATCCATTAATACACAAGTTGTGTCCACAAGCAAAGGAGCATTCACATATTATC
Found at i:15213943 original size:40 final size:37
Alignment explanation
Indices: 15213876--15213967 Score: 96
Period size: 40 Copynumber: 2.4 Consensus size: 37
15213866 ACCAGAATGG
15213876 CACCCAGTGCCTCATCAGATAGTTCGAAGCAATAAAGTGA
1 CACCCAGTGCCTCATCAGATAGTTCGAAG---TAAAGTGA
* * *
15213916 CACCCAGTGTCTCATCGGCCTAG-TCGAAGTAAAGTGA
1 CACCCAGTGCCTCATCAG-ATAGTTCGAAGTAAAGTGA
* *
15213953 TACCCAGTACCTCAT
1 CACCCAGTGCCTCAT
15213968 TGAATCTATC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
37 20 0.44
40 22 0.49
41 3 0.07
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (37 bp):
CACCCAGTGCCTCATCAGATAGTTCGAAGTAAAGTGA
Found at i:15214137 original size:18 final size:18
Alignment explanation
Indices: 15214114--15214150 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15214104 ATAATTCATA
15214114 TCACTTTCAATTCCAATT
1 TCACTTTCAATTCCAATT
* *
15214132 TCACTTTCACTTTCAATT
1 TCACTTTCAATTCCAATT
15214150 T
1 T
15214151 TTCTCACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACTTTCAATTCCAATT
Found at i:15216592 original size:11 final size:11
Alignment explanation
Indices: 15216519--15216594 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
15216509 ATTCAAAAAA
*
15216519 TAATATTATTT
1 TAATATTAATT
15216530 TAATAGTTTAATAT
1 TAATA--TTAAT-T
15216544 TAA-ATTAAATT
1 TAATATT-AATT
*
15216555 TAATACTTATTT
1 TAATA-TTAATT
*
15216567 TAATAGT-ATT
1 TAATATTAATT
15216577 T--TATTAATT
1 TAATATTAATT
15216586 TAATATTAA
1 TAATATTAA
15216595 AGTGATTATC
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 3 0.06
11 18 0.35
12 12 0.24
13 7 0.14
14 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (11 bp):
TAATATTAATT
Found at i:15223145 original size:25 final size:25
Alignment explanation
Indices: 15223117--15223199 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
15223107 ATTCGCCTCA
* *
15223117 TAAGAGCGATATTTTGTCTGGCTCG
1 TAAGAGCGATATTCTGTTTGGCTCG
* * *
15223142 TAAGAGTGATGTTCTATTTGGCTCG
1 TAAGAGCGATATTCTGTTTGGCTCG
** * *
15223167 TAAGCTCGATACTGTGTTTGGACTCG
1 TAAGAGCGATATTCTGTTTGG-CTCG
15223193 TAAGAGC
1 TAAGAGC
15223200 TAAACTCTGT
Statistics
Matches: 43, Mismatches: 14, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
25 34 0.79
26 9 0.21
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.35
Consensus pattern (25 bp):
TAAGAGCGATATTCTGTTTGGCTCG
Found at i:15225704 original size:16 final size:16
Alignment explanation
Indices: 15225683--15225714 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15225673 ATAAATTTTT
*
15225683 ATGTTAAAGGACTAAA
1 ATGTTAAAGGAATAAA
15225699 ATGTTAAAGGAATAAA
1 ATGTTAAAGGAATAAA
15225715 TTTGTAAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.19, T:0.25
Consensus pattern (16 bp):
ATGTTAAAGGAATAAA
Found at i:15226479 original size:24 final size:24
Alignment explanation
Indices: 15226445--15226536 Score: 132
Period size: 24 Copynumber: 3.8 Consensus size: 24
15226435 TGGTTAGACT
*
15226445 CTATCTGGGCTCGTAAGAGCTAAC
1 CTATCTAGGCTCGTAAGAGCTAAC
*
15226469 CTATCTAGGCTTGTAAGAGCTAAC
1 CTATCTAGGCTCGTAAGAGCTAAC
*
15226493 CTATCTGGGCTCGTAAGAGCTAAC
1 CTATCTAGGCTCGTAAGAGCTAAC
*
15226517 CTATCTCA-GCTCGTATGAGC
1 CTATCT-AGGCTCGTAAGAGC
15226537 AAATTCTATT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (24 bp):
CTATCTAGGCTCGTAAGAGCTAAC
Found at i:15242076 original size:80 final size:80
Alignment explanation
Indices: 15241943--15242107 Score: 312
Period size: 80 Copynumber: 2.1 Consensus size: 80
15241933 CTAAGTAGTA
15241943 CAAAATTATTGCAAATAGCTTAAATGAGGCTTTCGGGTTTGAATTTGGCAAAATGGACAGCGGAT
1 CAAAATTATTGCAAATAGCTTAAATGAGGCTTTCGGGTTTGAATTTGGCAAAATGGACAGCGGAT
15242008 TTGGAATCAAGACAT
66 TTGGAATCAAGACAT
*
15242023 CAAAATTATTGCAAATAGCTTAAATGAGGCTTTCGGGTTTGCATTTGGCAAAATGGACAGCGGAT
1 CAAAATTATTGCAAATAGCTTAAATGAGGCTTTCGGGTTTGAATTTGGCAAAATGGACAGCGGAT
*
15242088 TTGGAGTCAAGACAT
66 TTGGAATCAAGACAT
15242103 CAAAA
1 CAAAA
15242108 AATGGTAGGA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 83 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (80 bp):
CAAAATTATTGCAAATAGCTTAAATGAGGCTTTCGGGTTTGAATTTGGCAAAATGGACAGCGGAT
TTGGAATCAAGACAT
Found at i:15243457 original size:13 final size:13
Alignment explanation
Indices: 15243425--15243463 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
15243415 TATCTTTAAC
*
15243425 TTAGATTAAGTTAGT
1 TTAGATTAA--TACT
15243440 TTAGATTAATACT
1 TTAGATTAATACT
15243453 TTAGATTAATA
1 TTAGATTAATA
15243464 TCCTTCACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
15 9 0.39
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (13 bp):
TTAGATTAATACT
Found at i:15245231 original size:20 final size:19
Alignment explanation
Indices: 15245206--15245255 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
15245196 TAATATTATT
*
15245206 TTATTAATTTAATATTAAA
1 TTATTAATTTAATAATAAA
15245225 GTTATT-ATCTTAATAATAAA
1 -TTATTAAT-TTAATAATAAA
15245245 -T-TTAATTTAAT
1 TTATTAATTTAAT
15245256 GTTTATCTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
17 7 0.26
18 3 0.11
19 2 0.07
20 15 0.56
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
TTATTAATTTAATAATAAA
Found at i:15245342 original size:59 final size:61
Alignment explanation
Indices: 15245234--15245349 Score: 164
Period size: 62 Copynumber: 1.9 Consensus size: 61
15245224 AGTTATTATC
* * * *
15245234 TTAATAATAAATTTAATTTAATGTTTATCTTGTAGATAAATATTTTATTATTTTAATAAGAT
1 TTAATAATAAATTTAATATAATATTTATC-TGTAGATAAATATTATATTATATTAATAAGAT
*
15245296 TTAATATTAAATTTAATATAATATTTATC-GT-GATAAATATTATATTATATTAAT
1 TTAATAATAAATTTAATATAATATTTATCTGTAGATAAATATTATATTATATTAAT
15245350 TTAACATTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 21 0.43
60 2 0.04
62 26 0.53
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (61 bp):
TTAATAATAAATTTAATATAATATTTATCTGTAGATAAATATTATATTATATTAATAAGAT
Found at i:15248370 original size:51 final size:52
Alignment explanation
Indices: 15248266--15248656 Score: 526
Period size: 52 Copynumber: 7.6 Consensus size: 52
15248256 TAAATGAAAA
*
15248266 AGGTCCGATGACTATGTGTCATTGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
15248318 AGGTACGATGACAATGTGTCA-CTGTGAGTA-ATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATC-GTGAGTATATGAATCCTTTACGGATTATG
* *
15248369 AGGTACGATGACAATGTGTCA-CTGTGAGTA-ATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATC-GTGAGTATATGAATCCTTTACGGATTATG
* *
15248420 AGGCCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
** * *
15248472 AGGTATGATGACTATCTATCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
15248524 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * * ** * *
15248576 AGGTCCGATAACTATGTGTCATCATGAGCATATGGATCCTTTTTTGAATT-TA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCC-TTTACGGATTATG
*
15248628 AGGTTCGATGAC--TGTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
15248657 TAAATGGGAA
Statistics
Matches: 306, Mismatches: 29, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
50 15 0.05
51 97 0.32
52 187 0.61
53 7 0.02
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:15254256 original size:30 final size:30
Alignment explanation
Indices: 15254222--15254285 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
15254212 CAAATTGGCT
* *
15254222 TTATTTTTCATTTTAGAATATTTAGCTTCC
1 TTATTTTTCATTTGAGAATATTCAGCTTCC
* * *
15254252 TTATTTTTCGTTTGAGATTATTCAGTTTCC
1 TTATTTTTCATTTGAGAATATTCAGCTTCC
15254282 TTAT
1 TTAT
15254286 AAAAAAACTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.20, C:0.12, G:0.09, T:0.58
Consensus pattern (30 bp):
TTATTTTTCATTTGAGAATATTCAGCTTCC
Found at i:15259382 original size:25 final size:23
Alignment explanation
Indices: 15259345--15259495 Score: 148
Period size: 23 Copynumber: 6.5 Consensus size: 23
15259335 ACACTAGCGC
*
15259345 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGTTTAGCACTGTGT-GT
15259368 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCACTGTGTGT
* *
15259393 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
15259416 GCTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
* *
15259439 GCTCTCTGTTGCCCAGCACT-TATGT
1 GCTCTCTGTT---TAGCACTGTGTGT
* *
15259464 GCTCTCTG-TTAGTACTTTG-GT
1 GCTCTCTGTTTAGCACTGTGTGT
*
15259485 ACTCTCTGTTT
1 GCTCTCTGTTT
15259496 GTTCCGCATA
Statistics
Matches: 109, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
21 14 0.13
22 3 0.03
23 52 0.48
24 2 0.02
25 29 0.27
26 9 0.08
ACGTcount: A:0.11, C:0.25, G:0.22, T:0.43
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTGTGT
Found at i:15261511 original size:9 final size:9
Alignment explanation
Indices: 15261487--15261612 Score: 57
Period size: 9 Copynumber: 13.6 Consensus size: 9
15261477 TTTAAAATCC
15261487 ATTA-AAAA
1 ATTATAAAA
15261495 ACTT-TAAAA
1 A-TTATAAAA
*
15261504 AGTATAAAA
1 ATTATAAAA
15261513 ATTAT-AAA
1 ATTATAAAA
15261521 A-TATAAAA
1 ATTATAAAA
15261529 ATTATATATATA
1 ATTATA-A-A-A
* *
15261541 TATATATATAT
1 -AT-TATAAAA
15261552 ATTATAAAA
1 ATTATAAAA
*
15261561 A-TATTTAAA
1 ATTA-TAAAA
*
15261570 ATTTTACAAA
1 ATTATA-AAA
15261580 A-TATAAAAA
1 ATTAT-AAAA
* *
15261589 ATGCAAAAAA
1 AT-TATAAAA
15261599 ATTATAAAA
1 ATTATAAAA
15261608 ATTAT
1 ATTAT
15261613 TGGAATTGCA
Statistics
Matches: 88, Mismatches: 14, Indels: 31
0.66 0.11 0.23
Matches are distributed among these distances:
7 3 0.03
8 12 0.14
9 48 0.55
10 15 0.17
11 2 0.02
12 2 0.02
13 2 0.02
14 4 0.05
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (9 bp):
ATTATAAAA
Found at i:15261527 original size:16 final size:17
Alignment explanation
Indices: 15261501--15261534 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
15261491 AAAAACTTTA
15261501 AAAAGTATAAAAATTAT
1 AAAAGTATAAAAATTAT
15261518 AAAA-TATAAAAATTAT
1 AAAAGTATAAAAATTAT
15261534 A
1 A
15261535 TATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
AAAAGTATAAAAATTAT
Found at i:15261813 original size:9 final size:9
Alignment explanation
Indices: 15261799--15261942 Score: 68
Period size: 9 Copynumber: 15.6 Consensus size: 9
15261789 TGAATGACAT
15261799 AAAATTATA
1 AAAATTATA
15261808 AAAATTATTA
1 AAAATTA-TA
* *
15261818 GAATAA-CAAA
1 -AA-AATTATA
*
15261828 AAAAGTATA
1 AAAATTATA
*
15261837 GAAATTA-A
1 AAAATTATA
*
15261845 AAAATTGAAA
1 AAAATT-ATA
*
15261855 AAAATTACGA
1 AAAATTA-TA
*
15261865 AAATATATTTA
1 AAA-AT-TATA
15261876 AAAA-TATA
1 AAAATTATA
15261884 GAAAATTATGA
1 -AAAATTAT-A
15261895 AAAATTATA
1 AAAATTATA
15261904 AAAA-TATA
1 AAAATTATA
*
15261912 GAAAAGTGA-A
1 -AAAA-TTATA
15261922 AAAATT-TA
1 AAAATTATA
15261930 AAAATTA-A
1 AAAATTATA
15261938 AAAAT
1 AAAAT
15261943 ATCATTACAA
Statistics
Matches: 105, Mismatches: 13, Indels: 35
0.69 0.08 0.23
Matches are distributed among these distances:
8 29 0.28
9 35 0.33
10 27 0.26
11 11 0.10
12 3 0.03
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.26
Consensus pattern (9 bp):
AAAATTATA
Found at i:15261836 original size:29 final size:29
Alignment explanation
Indices: 15261771--15261830 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
15261761 TAAAATATAG
* *
15261771 AAAATTAT-AAAATTATTATGAATGACAT
1 AAAATTATAAAAATTATTATGAATAACAA
15261799 AAAATTATAAAAATTATTA-GAATAACAA
1 AAAATTATAAAAATTATTATGAATAACAA
15261827 AAAA
1 AAAA
15261831 AGTATAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (29 bp):
AAAATTATAAAAATTATTATGAATAACAA
Found at i:15261888 original size:10 final size:10
Alignment explanation
Indices: 15261875--15261916 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
15261865 AAATATATTT
15261875 AAAAATATAG
1 AAAAATATAG
*
15261885 AAAATTAT-G
1 AAAAATATAG
*
15261894 AAAAAT-TAT
1 AAAAATATAG
15261903 AAAAATATAG
1 AAAAATATAG
15261913 AAAA
1 AAAA
15261917 GTGAAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
8 1 0.04
9 12 0.46
10 13 0.50
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (10 bp):
AAAAATATAG
Found at i:15261891 original size:30 final size:28
Alignment explanation
Indices: 15261855--15261916 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 28
15261845 AAAATTGAAA
*
15261855 AAAATTACGAAAATATATTTAAAAATATAG
1 AAAATTACGAAAA-AT-TATAAAAATATAG
*
15261885 AAAATTATGAAAAATTATAAAAATATAG
1 AAAATTACGAAAAATTATAAAAATATAG
15261913 AAAA
1 AAAA
15261917 GTGAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 16 0.53
29 2 0.07
30 12 0.40
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (28 bp):
AAAATTACGAAAAATTATAAAAATATAG
Done.