Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 100 of 345
Found at i:27126991 original size:31 final size:29
Alignment explanation
Indices: 27126923--27126977 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
27126913 TTAAAATCTG
*
27126923 AAAAGTAGAGAGACTAAATTCCTAAAAAT
1 AAAAGTATAGAGACTAAATTCCTAAAAAT
27126952 AAAAGTATAGAGACTAAATTCC-AAAA
1 AAAAGTATAGAGACTAAATTCCTAAAA
27126978 TTTTAAAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.56, C:0.11, G:0.13, T:0.20
Consensus pattern (29 bp):
AAAAGTATAGAGACTAAATTCCTAAAAAT
Found at i:27131745 original size:6 final size:6
Alignment explanation
Indices: 27131734--27131758 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
27131724 TTAGGGCTGC
27131734 AATGCA AATGCA AATGCA AATGCA A
1 AATGCA AATGCA AATGCA AATGCA A
27131759 TTTTTCTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AATGCA
Found at i:27134218 original size:16 final size:18
Alignment explanation
Indices: 27134181--27134219 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
27134171 TAATTTGAAT
27134181 AAATGATCCTAAAACTTA
1 AAATGATCCTAAAACTTA
*
27134199 AAATGA-CCTAAATC-TA
1 AAATGATCCTAAAACTTA
27134215 AAATG
1 AAATG
27134220 TCAAGAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 7 0.35
18 6 0.30
ACGTcount: A:0.51, C:0.15, G:0.08, T:0.26
Consensus pattern (18 bp):
AAATGATCCTAAAACTTA
Found at i:27135259 original size:28 final size:30
Alignment explanation
Indices: 27135211--27135267 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 30
27135201 ATTTCAATTC
27135211 TTTATATTATTTTTAAATTTAA-AATTTAA
1 TTTATATTATTTTTAAATTTAAGAATTTAA
**
27135240 TTTAT-TTATTTTTATTTTTAAGAATTTA
1 TTTATATTATTTTTAAATTTAAGAATTTA
27135268 GTTCTTTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (30 bp):
TTTATATTATTTTTAAATTTAAGAATTTAA
Found at i:27135275 original size:28 final size:28
Alignment explanation
Indices: 27135212--27135276 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
27135202 TTTCAATTCT
*
27135212 TTATATTATTTTTAAATTTAAAATTTAAT
1 TTAT-TTATTTTTAAATTTAAAATTTAAG
**
27135241 TTATTTATTTTTATTTTTAAGAATTT-AG
1 TTATTTATTTTTAAATTTAA-AATTTAAG
*
27135269 TTCTTTAT
1 TTATTTAT
27135277 GCAAATTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 22 0.71
29 9 0.29
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (28 bp):
TTATTTATTTTTAAATTTAAAATTTAAG
Found at i:27140662 original size:2 final size:2
Alignment explanation
Indices: 27140655--27140688 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
27140645 GATGAGCTGA
27140655 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27140689 CTTTAACTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27140983 original size:19 final size:20
Alignment explanation
Indices: 27140946--27140983 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
27140936 TATTTTTAAA
*
27140946 AAAATGAATCAATCGGATCT
1 AAAATCAATCAATCGGATCT
*
27140966 AAAATCAAT-AATCTGATC
1 AAAATCAATCAATCGGATC
27140984 AGTTTGGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (20 bp):
AAAATCAATCAATCGGATCT
Found at i:27154357 original size:21 final size:21
Alignment explanation
Indices: 27154331--27154370 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
27154321 CAAAACAATG
27154331 TAGTTTTG-TCTTTTAACTTGA
1 TAGTTTTGAT-TTTTAACTTGA
27154352 TAGTTTTGATTTTTAACTT
1 TAGTTTTGATTTTTAACTT
27154371 TAGAAAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.20, C:0.07, G:0.12, T:0.60
Consensus pattern (21 bp):
TAGTTTTGATTTTTAACTTGA
Found at i:27154710 original size:19 final size:18
Alignment explanation
Indices: 27154675--27154723 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
27154665 TTTTTAAAAA
*
27154675 TATAAATA-TTAGAATTT
1 TATAAATATTTTGAATTT
27154692 CTATAAATATTTTGAATTT
1 -TATAAATATTTTGAATTT
*
27154711 TAAAAATTATTTT
1 TATAAA-TATTTT
27154724 CAAAATTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (18 bp):
TATAAATATTTTGAATTT
Found at i:27155331 original size:2 final size:2
Alignment explanation
Indices: 27155324--27155357 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
27155314 TCTATTTTAT
27155324 TA TA TA TA TA TGA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA T
27155358 TATGATTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27156828 original size:29 final size:31
Alignment explanation
Indices: 27156790--27156851 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 31
27156780 CACAAATTTG
27156790 AAATGTAGTCCTTATACTTTT-A-TTTTTAA
1 AAATGTAGTCCTTATACTTTTCAGTTTTTAA
* * *
27156819 AAATGTAGTCTTTCTATTTTTCAGTTTTTAA
1 AAATGTAGTCCTTATACTTTTCAGTTTTTAA
27156850 AA
1 AA
27156852 TTTAGGTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 18 0.64
30 1 0.04
31 9 0.32
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.52
Consensus pattern (31 bp):
AAATGTAGTCCTTATACTTTTCAGTTTTTAA
Found at i:27158527 original size:32 final size:33
Alignment explanation
Indices: 27158491--27158558 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
27158481 AGCTTTTATG
27158491 AAATATTTT-CAGGAAATTTA-CCAAACAACAGA
1 AAATATTTTACA-GAAATTTATCCAAACAACAGA
* * *
27158523 AAATATTTTACATAGATTTATCCAAACACCAGA
1 AAATATTTTACAGAAATTTATCCAAACAACAGA
27158556 AAA
1 AAA
27158559 GTAAATCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.50, C:0.16, G:0.07, T:0.26
Consensus pattern (33 bp):
AAATATTTTACAGAAATTTATCCAAACAACAGA
Found at i:27158595 original size:20 final size:19
Alignment explanation
Indices: 27158551--27158588 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
27158541 TATCCAAACA
27158551 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
27158570 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
27158589 TCTAGAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:27159385 original size:2 final size:2
Alignment explanation
Indices: 27159373--27159414 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
27159363 GATTACAGTT
*
27159373 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27159415 AAGATAGGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:27161097 original size:26 final size:26
Alignment explanation
Indices: 27161061--27161222 Score: 279
Period size: 26 Copynumber: 6.2 Consensus size: 26
27161051 TGATACAAAT
27161061 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
27161087 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
27161113 TGATAATAGGTTAGATAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
27161139 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
27161165 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
27161191 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
27161217 TGATAA
1 TGATAA
27161223 GAATTTCATG
Statistics
Matches: 131, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 131 1.00
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:27170041 original size:5 final size:5
Alignment explanation
Indices: 27170031--27170058 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
27170021 TTGTGTGTTC
27170031 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
27170059 TTCACAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:27176836 original size:23 final size:23
Alignment explanation
Indices: 27176788--27176836 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
27176778 TACATGGCCA
* * *
27176788 TGTCATGCCCGTGTGCCAGGCTG
1 TGTCATGCCCATGTGCCAGACCG
27176811 TGTCATGCCCATGTGCCAGACCG
1 TGTCATGCCCATGTGCCAGACCG
27176834 TGT
1 TGT
27176837 GTTAGGTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.12, C:0.31, G:0.31, T:0.27
Consensus pattern (23 bp):
TGTCATGCCCATGTGCCAGACCG
Found at i:27179505 original size:24 final size:25
Alignment explanation
Indices: 27179459--27179505 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27179449 TGGCTCTCAT
*
27179459 GAGCTTCCCATTATATAGTTCTTGC
1 GAGCTTCCCATTATATAGCTCTTGC
*
27179484 GAGCTTCCCGTTA-ATAGCTCTT
1 GAGCTTCCCATTATATAGCTCTT
27179506 CAGAGCATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (25 bp):
GAGCTTCCCATTATATAGCTCTTGC
Found at i:27179511 original size:24 final size:25
Alignment explanation
Indices: 27179451--27179517 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 25
27179441 TTGATATTTG
*
27179451 GCTC-TCATGAGCTTCCCATTATATA
1 GCTCTTCA-GAGCTTCCCGTTATATA
*
27179476 GTTCTTGC-GAGCTTCCCGTTA-ATA
1 GCTCTT-CAGAGCTTCCCGTTATATA
*
27179500 GCTCTTCAGAGCATCCCG
1 GCTCTTCAGAGCTTCCCG
27179518 ATTGATTGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
23 1 0.03
24 17 0.49
25 15 0.43
26 1 0.03
27 1 0.03
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.33
Consensus pattern (25 bp):
GCTCTTCAGAGCTTCCCGTTATATA
Found at i:27179679 original size:25 final size:25
Alignment explanation
Indices: 27179645--27179735 Score: 87
Period size: 25 Copynumber: 3.7 Consensus size: 25
27179635 CTCTCCGGAG
*
27179645 CTTCTCGATATTGGCTCGCTTGAAC
1 CTTCCCGATATTGGCTCGCTTGAAC
* * * **
27179670 CTTCCTGATATTAGTTTTCTTGAAC
1 CTTCCCGATATTGGCTCGCTTGAAC
* *
27179695 CTTCCCGATATTGGCTC-ATAT-AAG
1 CTTCCCGATATTGGCTCGCT-TGAAC
27179719 CTTCCCGATATTGGCTC
1 CTTCCCGATATTGGCTC
27179736 ATATAAGGTT
Statistics
Matches: 53, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
24 20 0.38
25 33 0.62
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.38
Consensus pattern (25 bp):
CTTCCCGATATTGGCTCGCTTGAAC
Found at i:27179724 original size:24 final size:24
Alignment explanation
Indices: 27179695--27179747 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
27179685 TTTCTTGAAC
27179695 CTTCCCGATATTGGCTCATATAAG
1 CTTCCCGATATTGGCTCATATAAG
27179719 CTTCCCGATATTGGCTCATATAAG
1 CTTCCCGATATTGGCTCATATAAG
*
27179743 GTTCC
1 CTTCC
27179748 TGTTAATGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (24 bp):
CTTCCCGATATTGGCTCATATAAG
Found at i:27179757 original size:24 final size:24
Alignment explanation
Indices: 27179695--27179759 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
27179685 TTTCTTGAAC
*
27179695 CTTCCCGATATTGGCTCATATAAG
1 CTTCCCGATAATGGCTCATATAAG
*
27179719 CTTCCCGATATTGGCTCATATAAG
1 CTTCCCGATAATGGCTCATATAAG
* * *
27179743 GTTCCTGTTAATGGCTC
1 CTTCCCGATAATGGCTC
27179760 TCCAAAGCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (24 bp):
CTTCCCGATAATGGCTCATATAAG
Found at i:27182815 original size:26 final size:26
Alignment explanation
Indices: 27182772--27182839 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 26
27182762 TTTTTTAAAC
* * * *
27182772 TACCCCTAAGTATGAAAATTACCATTT
1 TACCCCT-AGGATTAAAATGACCATTA
* *
27182799 TACTCCTAGGATTAAAATGACCGTTA
1 TACCCCTAGGATTAAAATGACCATTA
*
27182825 TACCCCTAGGGTTAA
1 TACCCCTAGGATTAA
27182840 TTTTGACTGA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
26 27 0.82
27 6 0.18
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (26 bp):
TACCCCTAGGATTAAAATGACCATTA
Found at i:27188343 original size:21 final size:21
Alignment explanation
Indices: 27188277--27188344 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
27188267 TCATGAGAGC
* *
27188277 TAAACAGAAACCCATAAGGGT
1 TAAACGGAAACCCATAAAGGT
* * * * * * *
27188298 TGAATGGAAGCTCGTAAAAGC
1 TAAACGGAAACCCATAAAGGT
27188319 TAAACGGAAACCCATAAAGGT
1 TAAACGGAAACCCATAAAGGT
27188340 TAAAC
1 TAAAC
27188345 AAAAGCTTAA
Statistics
Matches: 31, Mismatches: 16, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.16
Consensus pattern (21 bp):
TAAACGGAAACCCATAAAGGT
Found at i:27188351 original size:42 final size:41
Alignment explanation
Indices: 27188258--27188433 Score: 138
Period size: 42 Copynumber: 4.2 Consensus size: 41
27188248 CCGAAGGCTG
* * *
27188258 AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGGGTTG
1 AACAGAAGCTC-TAAAAGCTAAACAGAAACCCATAAGGGTTA
** * *
27188300 AATGGAAGCTCGTAAAAGCTAAACGGAAACCCATAAAGGTTA
1 AACAGAAGCTC-TAAAAGCTAAACAGAAACCCATAAGGGTTA
* * * *
27188342 AACAAAAGCT-TAAAAGTTTTGAATAGAAACCCATAAGGGTTA
1 AACAGAAGCTCTAAAAG--CTAAACAGAAACCCATAAGGGTTA
* * ** * * *
27188384 AACAGAAGCTCAAAAGAGCTGAATGGAAACTCATATGAGTTA
1 AACAGAAGCTCTAAA-AGCTAAACAGAAACCCATAAGGGTTA
27188426 AACAGAAG
1 AACAGAAG
27188434 TCGTGAAATC
Statistics
Matches: 107, Mismatches: 23, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
40 6 0.06
42 96 0.90
43 3 0.03
44 2 0.02
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (41 bp):
AACAGAAGCTCTAAAAGCTAAACAGAAACCCATAAGGGTTA
Found at i:27196938 original size:11 final size:11
Alignment explanation
Indices: 27196912--27196976 Score: 62
Period size: 11 Copynumber: 6.1 Consensus size: 11
27196902 ATTTTGATAT
27196912 ACATGATATG-
1 ACATGATATGC
27196922 ACATGATATGC
1 ACATGATATGC
27196933 ACATGATATG-
1 ACATGATATGC
** *
27196943 TTATGAGATGC
1 ACATGATATGC
*
27196954 ACATGATATAC
1 ACATGATATGC
* *
27196965 TCATTATATGC
1 ACATGATATGC
27196976 A
1 A
27196977 TGGGTTGGGT
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
10 17 0.40
11 25 0.60
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:27196938 original size:21 final size:21
Alignment explanation
Indices: 27196912--27196962 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
27196902 ATTTTGATAT
*
27196912 ACATGATATGACATGATATGC
1 ACATGATATGACATGAGATGC
**
27196933 ACATGATATGTTATGAGATGC
1 ACATGATATGACATGAGATGC
27196954 ACATGATAT
1 ACATGATAT
27196963 ACTCATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (21 bp):
ACATGATATGACATGAGATGC
Found at i:27196974 original size:32 final size:31
Alignment explanation
Indices: 27196914--27196974 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
27196904 TTTGATATAC
* *
27196914 ATGATATGACATGATATGCACATGATATGTT
1 ATGAGATGACATGATATACACATGATATGTT
* *
27196945 ATGAGATGCACATGATATACTCATTATATG
1 ATGAGATG-ACATGATATACACATGATATG
27196975 CATGGGTTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 7 0.28
32 18 0.72
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (31 bp):
ATGAGATGACATGATATACACATGATATGTT
Found at i:27197044 original size:25 final size:25
Alignment explanation
Indices: 27197008--27197075 Score: 102
Period size: 25 Copynumber: 2.7 Consensus size: 25
27196998 GGAGGAAGTG
*
27197008 CAAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAAAGGCTTTGCCCCAGTTTAC
*
27197033 CGAAAAAA-GCTTTGCCCCAGTTTAT
1 C-AAAAAAGGCTTTGCCCCAGTTTAC
27197058 CAAAAAAGGCTTTGCCCC
1 CAAAAAAGGCTTTGCCCC
27197076 GGTTATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 6 0.15
25 28 0.72
26 5 0.13
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (25 bp):
CAAAAAAGGCTTTGCCCCAGTTTAC
Found at i:27197081 original size:24 final size:25
Alignment explanation
Indices: 27197008--27197092 Score: 93
Period size: 25 Copynumber: 3.4 Consensus size: 25
27196998 GGAGGAAGTG
* * *
27197008 CAAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAAAGGCTTTGCCCCAGGTTAT
*
27197033 CGAAAAAA-GCTTTGCCCCAGTTTAT
1 C-AAAAAAGGCTTTGCCCCAGGTTAT
27197058 CAAAAAAGGCTTTGCCCC-GGTTAT
1 CAAAAAAGGCTTTGCCCCAGGTTAT
* *
27197082 TAAAAGAGGCT
1 CAAAAAAGGCT
27197093 AGGCCTCCGG
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
24 20 0.38
25 28 0.53
26 5 0.09
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (25 bp):
CAAAAAAGGCTTTGCCCCAGGTTAT
Found at i:27197365 original size:30 final size:31
Alignment explanation
Indices: 27197298--27197375 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
27197288 CACTTACAGT
*
27197298 AAAGGCTTCGGCCCAGTGATTTGAATTTTGA
1 AAAGGCTTCGGCCCAGTGATTTGAATTATGA
*
27197329 AAAGGCTTCGGCCTAGTG-TTGTGAATTATG-
1 AAAGGCTTCGGCCCAGTGATT-TGAATTATGA
*
27197359 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCGGCCCAGT
27197376 ATATGTTGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
30 17 0.40
31 25 0.60
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATTTGAATTATGA
Found at i:27198770 original size:12 final size:11
Alignment explanation
Indices: 27198747--27198801 Score: 65
Period size: 12 Copynumber: 4.7 Consensus size: 11
27198737 TAAGTCTAAG
*
27198747 AAAATAACAAT
1 AAAATAAAAAT
27198758 AAACATAAAAAT
1 AAA-ATAAAAAT
*
27198770 AGAAATAAAACT
1 A-AAATAAAAAT
27198782 AAAAATAAAAAT
1 -AAAATAAAAAT
27198794 AAAATAAA
1 AAAATAAA
27198802 TGGACTCAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
11 11 0.29
12 24 0.63
13 3 0.08
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.16
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:27198770 original size:18 final size:16
Alignment explanation
Indices: 27198747--27198801 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 16
27198737 TAAGTCTAAG
27198747 AAAATAACAATAAACATA
1 AAAATAA-AATAAA-ATA
27198765 AAAATAGAAATAAAACTA
1 AAAATA-AAATAAAA-TA
27198783 AAAATAAAAATAAAATA
1 AAAAT-AAAATAAAATA
27198800 AA
1 AA
27198802 TGGACTCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
17 5 0.15
18 27 0.79
19 2 0.06
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.16
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:27204434 original size:41 final size:43
Alignment explanation
Indices: 27204347--27204505 Score: 148
Period size: 45 Copynumber: 3.7 Consensus size: 43
27204337 TGCCAACGTA
* * *
27204347 CCAGACGTGGTCTTACATGTAGTCAC--ATATCGATGCCACTGTC
1 CCAGACATGGTCTTACACG-AATCACATATATCGATGCCA-TGTC
*
27204390 CCAGACAAGGTCTTACACGAATCA-A-ATA-CGATGCCGATGTC
1 CCAGACATGGTCTTACACGAATCACATATATCGATGCC-ATGTC
* **
27204431 CCAGACATGGTCTTACACATAATCACATATATCGATGCCAACATC
1 CCAGACATGGTCTTACAC-GAATCACATATATCGATGCC-ATGTC
* *
27204476 CCAGACGTGGTCTTACACGAGAACACATAT
1 CCAGACATGGTCTTACACGA-ATCACATAT
27204506 CGGAGATCCT
Statistics
Matches: 97, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
41 28 0.29
42 13 0.13
43 17 0.18
44 4 0.04
45 35 0.36
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
CCAGACATGGTCTTACACGAATCACATATATCGATGCCATGTC
Found at i:27208110 original size:46 final size:47
Alignment explanation
Indices: 27208048--27208183 Score: 197
Period size: 46 Copynumber: 3.0 Consensus size: 47
27208038 TTTGACATGA
* * * * *
27208048 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
27208094 TTCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
27208140 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
27208184 AGAGCACACT
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 4 0.05
46 78 0.95
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:27211831 original size:25 final size:25
Alignment explanation
Indices: 27211778--27211838 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
27211768 AAAGGAGCTT
* * * *
27211778 TAAAATAAATAATATATATAAATTT
1 TAAAATAAATAACATATAAAAAGTG
*
27211803 TAAAATGAATAACATATAAAAAGTG
1 TAAAATAAATAACATATAAAAAGTG
*
27211828 TAAATTAAATA
1 TAAAATAAATA
27211839 CTATACATGA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (25 bp):
TAAAATAAATAACATATAAAAAGTG
Found at i:27219081 original size:2 final size:2
Alignment explanation
Indices: 27219076--27219144 Score: 120
Period size: 2 Copynumber: 34.5 Consensus size: 2
27219066 TATATATATA
27219076 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* *
27219118 TG TG TG TG TG TG TA TT TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
27219145 ATGTTTTGGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.01, C:0.00, G:0.46, T:0.52
Consensus pattern (2 bp):
TG
Found at i:27232601 original size:32 final size:32
Alignment explanation
Indices: 27232551--27232643 Score: 109
Period size: 32 Copynumber: 2.9 Consensus size: 32
27232541 TTTTTGGGGG
*
27232551 GGTTC-AATTAAGTACTTGAACTTGATTTTCTT
1 GGTTCAAATCAAGTACTTGAACTTG-TTTTCTT
* *
27232583 GG-TCTAATCAAGTACTTGAACTTGGTTTCTT
1 GGTTCAAATCAAGTACTTGAACTTGTTTTCTT
* *
27232614 GGTTCAAATCTAGTGCTTGAACTTGGTTTT
1 GGTTCAAATCAAGTACTTGAACTT-GTTTT
27232644 TTTTGGTCCA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
31 10 0.19
32 38 0.73
33 4 0.08
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (32 bp):
GGTTCAAATCAAGTACTTGAACTTGTTTTCTT
Found at i:27234492 original size:20 final size:20
Alignment explanation
Indices: 27234469--27234507 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27234459 AATCCAAATT
*
27234469 AAAATCCTGAAATTCAGGAC
1 AAAATCCTAAAATTCAGGAC
*
27234489 AAAATCTTAAAATTCAGGA
1 AAAATCCTAAAATTCAGGA
27234508 TAAGAATACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.15, G:0.13, T:0.23
Consensus pattern (20 bp):
AAAATCCTAAAATTCAGGAC
Found at i:27238264 original size:6 final size:6
Alignment explanation
Indices: 27238253--27238294 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
27238243 AATTGATTAT
* *
27238253 ATTAAA ATTAAA ATTAAA ATTAAA A-TATA ATTAAA AATAAA A
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA A
27238295 AAATATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
ATTAAA
Found at i:27238276 original size:18 final size:17
Alignment explanation
Indices: 27238253--27238294 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
27238243 AATTGATTAT
27238253 ATTAAAATTAAAATTAAA
1 ATTAAAA-TAAAATTAAA
*
27238271 ATTAAAATATAATTAAA
1 ATTAAAATAAAATTAAA
*
27238288 AATAAAA
1 ATTAAAA
27238295 AAATATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATTAAAATAAAATTAAA
Found at i:27246146 original size:11 final size:11
Alignment explanation
Indices: 27246127--27246160 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
27246117 TAAAAATATC
27246127 TAATAATAAAA
1 TAATAATAAAA
*
27246138 TAATTATAAAA
1 TAATAATAAAA
*
27246149 TAATCATAAAA
1 TAATAATAAAA
27246160 T
1 T
27246161 TATTCTAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:27246713 original size:19 final size:18
Alignment explanation
Indices: 27246689--27246727 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
27246679 ACCTAAACAA
27246689 ATAATTAAAAAAATTATTT
1 ATAATT-AAAAAATTATTT
**
27246708 ATAATTTTAAAATTATTT
1 ATAATTAAAAAATTATTT
27246726 AT
1 AT
27246728 CAAAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATAATTAAAAAATTATTT
Found at i:27249406 original size:16 final size:16
Alignment explanation
Indices: 27249381--27249422 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
27249371 TATATAATAT
*
27249381 AATAAT-AAACTAATG
1 AATAATAAAACAAATG
*
27249396 TATAATAAAACAAATG
1 AATAATAAAACAAATG
27249412 AATAAGTAAAA
1 AATAA-TAAAA
27249423 GAACAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 5 0.23
16 12 0.55
17 5 0.23
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (16 bp):
AATAATAAAACAAATG
Found at i:27249494 original size:21 final size:22
Alignment explanation
Indices: 27249447--27249494 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
27249437 AAAACGAAAC
* *
27249447 AGAAAGGAAAGAAAGAGAAGAA
1 AGAAGGGAAACAAAGAGAAGAA
27249469 A-AAGGGAAACAAA-AGAAGAA
1 AGAAGGGAAACAAAGAGAAGAA
27249489 AGAAGG
1 AGAAGG
27249495 AGACGAGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.35
21 14 0.61
22 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (22 bp):
AGAAGGGAAACAAAGAGAAGAA
Found at i:27254490 original size:23 final size:22
Alignment explanation
Indices: 27254463--27254519 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
27254453 AAGTAAAAGA
* *
27254463 AAAAGAAAGATAAAAATGAAAC
1 AAAAGAAAGAAAAAAAAGAAAC
*
27254485 ACAAAGAAAAGAAAAAAAAGAAAG
1 A-AAAG-AAAGAAAAAAAAGAAAC
27254509 AAAAG-AAGAAA
1 AAAAGAAAGAAA
27254520 GAAGGAGACG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 6 0.20
22 1 0.03
23 8 0.27
24 15 0.50
ACGTcount: A:0.77, C:0.04, G:0.16, T:0.04
Consensus pattern (22 bp):
AAAAGAAAGAAAAAAAAGAAAC
Found at i:27254517 original size:12 final size:12
Alignment explanation
Indices: 27254462--27254522 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
27254452 TAAGTAAAAG
27254462 AAAAAGAAAGATA
1 AAAAAGAAAGA-A
* * *
27254475 AAAATGAAACAC
1 AAAAAGAAAGAA
*
27254487 AAAGA-AAAGAAA
1 AAAAAGAAAG-AA
27254499 AAAAAGAAAGAA
1 AAAAAGAAAGAA
*
27254511 AAGAAGAAAGAA
1 AAAAAGAAAGAA
27254523 GGAGACGAAC
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
11 3 0.08
12 21 0.57
13 13 0.35
ACGTcount: A:0.77, C:0.03, G:0.16, T:0.03
Consensus pattern (12 bp):
AAAAAGAAAGAA
Found at i:27256675 original size:15 final size:15
Alignment explanation
Indices: 27256650--27256687 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
27256640 AGATTTTTAA
*
27256650 AATATATATTATTTAT
1 AATAAATATTATTT-T
27256666 AA-AAATATTATTTT
1 AATAAATATTATTTT
27256680 AATAAATA
1 AATAAATA
27256688 AATTTCATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 3 0.15
15 15 0.75
16 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAAATATTATTTT
Found at i:27256684 original size:17 final size:19
Alignment explanation
Indices: 27256648--27256685 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
27256638 GTAGATTTTT
*
27256648 AAAATATATATTATTTATA
1 AAAATATATATTATTAATA
27256667 AAAATAT-TATT-TTAATA
1 AAAATATATATTATTAATA
27256684 AA
1 AA
27256686 TAAATTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 4 0.22
19 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAATATATATTATTAATA
Found at i:27257081 original size:2 final size:2
Alignment explanation
Indices: 27257074--27257098 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27257064 TCTAAAGATC
27257074 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 A
27257099 ATACCAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27258019 original size:21 final size:19
Alignment explanation
Indices: 27257993--27258031 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
27257983 TTAAAAAAAT
27257993 ATTTTTAATGTAATATTTTAG
1 ATTTTTAAT-TAA-ATTTTAG
*
27258014 ATTTTTTATTAAATTTTA
1 ATTTTTAATTAAATTTTA
27258032 AGGGATGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 3 0.18
21 8 0.47
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
ATTTTTAATTAAATTTTAG
Found at i:27261294 original size:39 final size:39
Alignment explanation
Indices: 27261240--27261319 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
27261230 AAGAGATTAC
* *
27261240 ATAGTTTTGTTCGTCAAAAACATCAGTTGCATATCAATG
1 ATAGTTTTCTTCGTCAAAAACATCAGTTGCATATAAATG
*
27261279 ATAGTTTTCTTCGTCAAAAACATCTGTTGCATATAAATG
1 ATAGTTTTCTTCGTCAAAAACATCAGTTGCATATAAATG
27261318 AT
1 AT
27261320 TAAAATTATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.38
Consensus pattern (39 bp):
ATAGTTTTCTTCGTCAAAAACATCAGTTGCATATAAATG
Found at i:27262203 original size:58 final size:59
Alignment explanation
Indices: 27262091--27262204 Score: 133
Period size: 58 Copynumber: 1.9 Consensus size: 59
27262081 TTTGATAGTT
* * * *
27262091 GTCTTCAATTTTAGGATCGTTTTCTGTTAAAACCTTTATAGTGGCAAGTTTCACATCTA
1 GTCTTCAATTTCAGGATCATTTTCTATTAAAACCTTTATAGTGGCAAGTATCACATCTA
* * * *
27262150 GTCTTCAATTTCAGGTTCATTTT-TATTAAAGCTTTTATAAG-GGCATGTATCACAT
1 GTCTTCAATTTCAGGATCATTTTCTATTAAAACCTTTAT-AGTGGCAAGTATCACAT
27262205 TCTTTCAAGA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
58 24 0.52
59 22 0.48
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (59 bp):
GTCTTCAATTTCAGGATCATTTTCTATTAAAACCTTTATAGTGGCAAGTATCACATCTA
Found at i:27263841 original size:16 final size:17
Alignment explanation
Indices: 27263822--27263855 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27263812 GAGATGAAAG
*
27263822 AAAATG-AAACTTTTGA
1 AAAATGCAAAATTTTGA
27263838 AAAATGCAAAATTTTGA
1 AAAATGCAAAATTTTGA
27263855 A
1 A
27263856 TTTAAATGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (17 bp):
AAAATGCAAAATTTTGA
Found at i:27263866 original size:51 final size:51
Alignment explanation
Indices: 27263808--27263909 Score: 159
Period size: 51 Copynumber: 2.0 Consensus size: 51
27263798 TTGAGTTGAA
27263808 AAATGAGATGAAAGAAAATGAAACTTTTGAAAAATGCAAAATTTTGAATTT
1 AAATGAGATGAAAGAAAATGAAACTTTTGAAAAATGCAAAATTTTGAATTT
* * * **
27263859 AAATGAGATGAAAGAAATTGGAACTTTTGAAAATTGCGTAATTTTGAATTT
1 AAATGAGATGAAAGAAAATGAAACTTTTGAAAAATGCAAAATTTTGAATTT
27263910 GCTTTTGTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.46, C:0.04, G:0.18, T:0.32
Consensus pattern (51 bp):
AAATGAGATGAAAGAAAATGAAACTTTTGAAAAATGCAAAATTTTGAATTT
Found at i:27270943 original size:11 final size:11
Alignment explanation
Indices: 27270923--27270956 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
27270913 TAGGTTAAAA
27270923 TTTT-AATAAT
1 TTTTAAATAAT
27270933 TTTTAAATAAT
1 TTTTAAATAAT
27270944 TTTTAAAATAAT
1 TTTT-AAATAAT
27270956 T
1 T
27270957 AAAAAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.18
11 10 0.45
12 8 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAATAAT
Found at i:27270977 original size:20 final size:20
Alignment explanation
Indices: 27270935--27270980 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
27270925 TTAATAATTT
*
27270935 TTAAATAATTTTTAAAATAA
1 TTAAAAAATTTTTAAAATAA
27270955 TTAAAAAATTTTTAAAA-ATA
1 TTAAAAAATTTTTAAAATA-A
27270975 TTAAAA
1 TTAAAA
27270981 TGATAGTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAAAAATTTTTAAAATAA
Found at i:27272017 original size:20 final size:20
Alignment explanation
Indices: 27271980--27272017 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27271970 TGATGGGGAG
*
27271980 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
27272000 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
27272018 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:27273958 original size:46 final size:46
Alignment explanation
Indices: 27273906--27274028 Score: 228
Period size: 46 Copynumber: 2.7 Consensus size: 46
27273896 AGTGTGCTCT
*
27273906 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
27273952 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
27273998 CTGATATGAAATGTGTAAGGCCATGGTTGAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAA
27274029 CTGATATGAA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:27274034 original size:31 final size:31
Alignment explanation
Indices: 27273998--27274059 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
27273988 CCATGGCAAC
*
27273998 CTGATATGAAATGTGTAAGGCCATGGTTGAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAA
27274029 CTGATATGAAATGTGTAAGACCATGGTTGAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAA
27274060 AGATACCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (31 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAA
Found at i:27274082 original size:77 final size:77
Alignment explanation
Indices: 27273952--27274105 Score: 290
Period size: 77 Copynumber: 2.0 Consensus size: 77
27273942 CCATGGCAGC
*
27273952 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTGTAAG
*
27274017 GCCATGGTTGAA
66 ACCATGGTTGAA
27274029 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTGTAAG
27274094 ACCATGGTTGAA
66 ACCATGGTTGAA
27274106 AGATACCATG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (77 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTGTAAG
ACCATGGTTGAA
Found at i:27274086 original size:46 final size:46
Alignment explanation
Indices: 27274030--27274215 Score: 239
Period size: 46 Copynumber: 4.0 Consensus size: 46
27274020 ATGGTTGAAC
* *
27274030 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
27274076 TAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
** *
27274122 TGATATGAAATGAACAAGACCATGGTTAAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
27274168 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
27274214 TG
1 TG
27274216 TCAAAGATAA
Statistics
Matches: 123, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
45 1 0.01
46 122 0.99
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:27274126 original size:123 final size:123
Alignment explanation
Indices: 27273906--27274133 Score: 429
Period size: 123 Copynumber: 1.9 Consensus size: 123
27273896 AGTGTGCTCT
* *
27273906 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTGTAAG
27273971 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGGCCATGGTTGAA
66 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGGCCATGGTTGAA
27274029 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTGTAAG
*
27274094 ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATG
66 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATG
27274134 AACAAGACCA
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 102 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (123 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTGTAAG
ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGGCCATGGTTGAA
Found at i:27285801 original size:29 final size:30
Alignment explanation
Indices: 27285758--27285819 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
27285748 AGTGAAGAGT
27285758 TCGCAGGTAAGCTCTCATGC-TTGGTGAGC
1 TCGCAGGTAAGCTCTCATGCTTTGGTGAGC
27285787 TCGCAGGTGAA-CTCTCATGCTTTGGTGAGC
1 TCGCAGGT-AAGCTCTCATGCTTTGGTGAGC
27285817 TCG
1 TCG
27285820 TATATTTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.16, C:0.24, G:0.31, T:0.29
Consensus pattern (30 bp):
TCGCAGGTAAGCTCTCATGCTTTGGTGAGC
Found at i:27285828 original size:18 final size:18
Alignment explanation
Indices: 27285807--27285853 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
27285797 ACTCTCATGC
*
27285807 TTTGGTGAGCTCGTA-TAT
1 TTTGGTGAGCTAGTAGT-T
*
27285825 TTTGGTGAACTAGTAGTT
1 TTTGGTGAGCTAGTAGTT
27285843 TTTGGTGAGCT
1 TTTGGTGAGCT
27285854 GTTCTGGTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 24 0.96
19 1 0.04
ACGTcount: A:0.17, C:0.09, G:0.30, T:0.45
Consensus pattern (18 bp):
TTTGGTGAGCTAGTAGTT
Found at i:27288378 original size:18 final size:17
Alignment explanation
Indices: 27288340--27288393 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
27288330 TAATTTTCAG
*
27288340 AAATTCAAAATAATTTTTA
1 AAATT-AAAAT-ATTTATA
*
27288359 AACTTTAAAATATTTATA
1 AA-ATTAAAATATTTATA
*
27288377 AAATTACAATATTTATA
1 AAATTAAAATATTTATA
27288394 TATATTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 13 0.43
18 8 0.27
19 7 0.23
20 2 0.07
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATTAAAATATTTATA
Found at i:27288854 original size:11 final size:11
Alignment explanation
Indices: 27288840--27288879 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
27288830 TGTTTTCTCC
27288840 CTATTTTGCTA
1 CTATTTTGCTA
*
27288851 CTATTTTACTA
1 CTATTTTGCTA
* *
27288862 TTATGTTGCTA
1 CTATTTTGCTA
27288873 CTATTTT
1 CTATTTT
27288880 ATTGTTATTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.57
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:27289572 original size:28 final size:29
Alignment explanation
Indices: 27289519--27289594 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
27289509 TAATAGTCTA
*
27289519 TAATTTTATAATTTTTAAAAGATTAAA-T-
1 TAATTTTATCA-TTTTAAAAGATTAAAGTG
27289547 TAAATTTTATCATTTTAAAATG-TTAAAGTG
1 T-AATTTTATCATTTTAAAA-GATTAAAGTG
27289577 TAATTTTATCATTATTAA
1 TAATTTTATCATT-TTAA
27289595 TTTAAAATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
28 14 0.33
29 23 0.55
30 5 0.12
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (29 bp):
TAATTTTATCATTTTAAAAGATTAAAGTG
Found at i:27300934 original size:23 final size:26
Alignment explanation
Indices: 27300890--27300944 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 26
27300880 TGTTTTAATA
*
27300890 ATTATTTATCTCTATTTGTTTTGTCT
1 ATTATTTATCTCTATTTATTTTGTCT
* *
27300916 ATTATTTAT-T-T-TTTATTTTTTTT
1 ATTATTTATCTCTATTTATTTTGTCT
27300939 ATTATT
1 ATTATT
27300945 CTTCCTGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 15 0.58
24 1 0.04
25 1 0.04
26 9 0.35
ACGTcount: A:0.18, C:0.05, G:0.04, T:0.73
Consensus pattern (26 bp):
ATTATTTATCTCTATTTATTTTGTCT
Found at i:27300944 original size:26 final size:25
Alignment explanation
Indices: 27300873--27300944 Score: 63
Period size: 27 Copynumber: 2.7 Consensus size: 25
27300863 TTTACTTTTG
*
27300873 TTTATTTTGTTTTAATAATTATTTATC
1 TTTATTTT-TTTT-ATTATTATTTATC
* * * *
27300900 TCTATTTGTTTTGTCTATTATTTATTT
1 TTTATTTTTTTTAT-TATTATTTA-TC
27300927 TTTATTTTTTTTATTATT
1 TTTATTTTTTTTATTATT
27300945 CTTCCTGTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
25 1 0.03
26 16 0.46
27 18 0.51
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.72
Consensus pattern (25 bp):
TTTATTTTTTTTATTATTATTTATC
Found at i:27301744 original size:21 final size:21
Alignment explanation
Indices: 27301718--27301768 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
27301708 CCACACGAGA
* *
27301718 GTGTGCTTCTGTTATAAGGCC
1 GTGTGCTACTGTTACAAGGCC
27301739 GTGTGCTACTGTTACAAGGCC
1 GTGTGCTACTGTTACAAGGCC
27301760 GTGTGCTAC
1 GTGTGCTAC
27301769 CCTTCACACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
GTGTGCTACTGTTACAAGGCC
Found at i:27307720 original size:20 final size:20
Alignment explanation
Indices: 27307681--27307720 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
27307671 AGCCACACTA
* *
27307681 GCGTGTGGGAGGTTATACGG
1 GCGTGTGGGAGGTCACACGG
*
27307701 GCGTGTGTGAGGTCACACGG
1 GCGTGTGGGAGGTCACACGG
27307721 ACATGAGAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.15, G:0.47, T:0.23
Consensus pattern (20 bp):
GCGTGTGGGAGGTCACACGG
Found at i:27308539 original size:13 final size:13
Alignment explanation
Indices: 27308518--27308557 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
27308508 GGAGCAATCG
*
27308518 CACATGGGCGTGT
1 CACACGGGCGTGT
27308531 CACACGGGCGTGT
1 CACACGGGCGTGT
*
27308544 CACACAGGCGTGT
1 CACACGGGCGTGT
27308557 C
1 C
27308558 CCTGCTGAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.17, C:0.30, G:0.35, T:0.17
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:27317201 original size:55 final size:53
Alignment explanation
Indices: 27317084--27317212 Score: 134
Period size: 55 Copynumber: 2.4 Consensus size: 53
27317074 TACGACATGG
* * *
27317084 CCGTGGGCGAACTTGCCAAAACAACACGGGCGTTCGACACACTCGTGCCTCGAAA
1 CCGTGGGCGAACCTGTC-AAACAACACGGGCGTTCGACACACCCGTGCCTC-AAA
* * * *
27317139 CCATGGGCGAACCTGTCAAACTAGCACGGGCGTTCGACACACCCTTGCC-CATCAT
1 CCGTGGGCGAACCTGTCAAAC-AACACGGGCGTTCGACACACCCGTGCCTCA--AA
*
27317194 CCGTGGGCGAACCTATCAA
1 CCGTGGGCGAACCTGTCAA
27317213 GTTAACACGG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
53 1 0.02
54 5 0.08
55 56 0.90
ACGTcount: A:0.26, C:0.34, G:0.24, T:0.16
Consensus pattern (53 bp):
CCGTGGGCGAACCTGTCAAACAACACGGGCGTTCGACACACCCGTGCCTCAAA
Found at i:27321313 original size:47 final size:47
Alignment explanation
Indices: 27321249--27321373 Score: 164
Period size: 47 Copynumber: 2.7 Consensus size: 47
27321239 ATCCATAAGT
* * *
27321249 GAACTCGGACTCAACTCAACGAGCTCGGATGCTT-ACTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTTCACATACATAT-AC
* * * *
27321296 GAACTCGGACTCAACTCAACGAGTTCGGACG-TTCCCATCCATATAT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTTCACATACATATAC
27321342 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
27321374 CCAAATATCC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 33 0.49
47 35 0.51
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTTCACATACATATAC
Found at i:27321329 original size:93 final size:93
Alignment explanation
Indices: 27321205--27321373 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
27321195 CCATAAGCGG
* * *
27321205 ACTCGGACTCAACTCAATGAGCTTGGGCGTTCGCATCCATA-AGTGAACTCGGACTCAACTCAAC
1 ACTCGGACTCAACTCAACGAGCTTGGACGTTCCCATCCATATA-TGAACTCGGACTCAACTCAAC
27321269 GAGCTCGGATGCTTACTTACATCTCACGA
65 GAGCTCGGATGCTTACTTACATCTCACGA
27321298 ACTCGGACTCAACTCAACGAG-TTCGGACGTTCCCATCCATATATGAACTCGGACTCAACTCAAC
1 ACTCGGACTCAACTCAACGAGCTT-GGACGTTCCCATCCATATATGAACTCGGACTCAACTCAAC
*
27321362 GAGTTCGGATGC
65 GAGCTCGGATGC
27321374 CCAAATATCC
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 2 0.03
93 67 0.96
94 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (93 bp):
ACTCGGACTCAACTCAACGAGCTTGGACGTTCCCATCCATATATGAACTCGGACTCAACTCAACG
AGCTCGGATGCTTACTTACATCTCACGA
Found at i:27321365 original size:46 final size:46
Alignment explanation
Indices: 27321205--27321370 Score: 185
Period size: 46 Copynumber: 3.6 Consensus size: 46
27321195 CCATAAGCGG
* * *
27321205 ACTCGGACTCAACTCAATGAGCTT-GGGCGTTCGCATCCATA-AGTGA
1 ACTCGGACTCAACTCAACGAG-TTCGGACGTTCACATCCATATA-TGA
* * * * * *
27321251 ACTCGGACTCAACTCAACGAGCTCGGATGCTT-ACTTACATCTCACGA
1 ACTCGGACTCAACTCAACGAGTTCGGACG-TTCACATCCATAT-ATGA
*
27321298 ACTCGGACTCAACTCAACGAGTTCGGACGTTCCCATCCATATATGA
1 ACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCCATATATGA
27321344 ACTCGGACTCAACTCAACGAGTTCGGA
1 ACTCGGACTCAACTCAACGAGTTCGGA
27321371 TGCCCAAATA
Statistics
Matches: 99, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 60 0.61
47 37 0.37
48 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (46 bp):
ACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCCATATATGA
Found at i:27323867 original size:16 final size:15
Alignment explanation
Indices: 27323826--27323877 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 15
27323816 TGAAACATAA
27323826 ATAATATAATAGATGAT
1 ATAATATAAT-GAT-AT
27323843 ATACGATATACATGATAT
1 ATA--ATATA-ATGATAT
27323861 ATAATATAAT-ATAT
1 ATAATATAATGATAT
27323875 ATA
1 ATA
27323878 CATGCATAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
14 7 0.22
15 2 0.06
16 5 0.16
17 3 0.09
18 5 0.16
19 8 0.25
20 2 0.06
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.37
Consensus pattern (15 bp):
ATAATATAATGATAT
Found at i:27324296 original size:19 final size:19
Alignment explanation
Indices: 27324248--27324359 Score: 129
Period size: 19 Copynumber: 5.8 Consensus size: 19
27324238 AAATTAAATC
* *
27324248 TCTAAGATTACAAGATCATA
1 TCTAAGATTGC-ATATCATA
27324268 TCTTCAAGATTGCATATCATA
1 TC-T-AAGATTGCATATCATA
* * *
27324289 TCCAAGATTGCATGTTATA
1 TCTAAGATTGCATATCATA
27324308 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
27324325 TCTAAGATTGCATATCGTA
1 TCTAAGATTGCATATCATA
27324344 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
27324360 CTTAAAGATT
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
17 15 0.19
19 45 0.57
20 2 0.03
21 10 0.13
22 7 0.09
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:27324324 original size:36 final size:37
Alignment explanation
Indices: 27324262--27324359 Score: 117
Period size: 36 Copynumber: 2.6 Consensus size: 37
27324252 AGATTACAAG
27324262 ATCATATCTTCAAGATTGCATATCATATCCAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCCAAGATTGCAT
* * *
27324302 GTTATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCCAAGATTGCAT
*
27324338 ATCGTATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
27324360 CTTAAAGATT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
36 32 0.64
38 11 0.22
39 1 0.02
40 6 0.12
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCCAAGATTGCAT
Found at i:27324369 original size:17 final size:19
Alignment explanation
Indices: 27324273--27324369 Score: 76
Period size: 19 Copynumber: 5.3 Consensus size: 19
27324263 TCATATCTTC
* *
27324273 AAGATTGCATATCATATCC
1 AAGATTGCATATCCTATCA
* ** *
27324292 AAGATTGCATGTTATATCT
1 AAGATTGCATATCCTATCA
* *
27324311 AAGATTG--TATCATATCT
1 AAGATTGCATATCCTATCA
* *
27324328 AAGATTGCATATCGTATCT
1 AAGATTGCATATCCTATCA
27324347 AAGATTGCATATCCT-T-A
1 AAGATTGCATATCCTATCA
27324364 AAGATT
1 AAGATT
27324370 ACATTTCCAT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
17 21 0.31
18 1 0.01
19 46 0.68
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.37
Consensus pattern (19 bp):
AAGATTGCATATCCTATCA
Found at i:27325247 original size:44 final size:44
Alignment explanation
Indices: 27325175--27325282 Score: 153
Period size: 44 Copynumber: 2.4 Consensus size: 44
27325165 ACACGTGAAA
* * * *
27325175 GCCAAATCAGCTATGTCTTCGATCTGCTCTCCGCCAATACAGAGAT
1 GCCAAATCTGCTA--TCTTCGATATGCTCTCCGACAATACAAAGAT
*
27325221 GCCAAATCTGCTATCTTCGATATGCTCTCTGACAATACAAAGAT
1 GCCAAATCTGCTATCTTCGATATGCTCTCCGACAATACAAAGAT
27325265 GCCAAATCTGCTATCTTC
1 GCCAAATCTGCTATCTTC
27325283 AACTTGTTCC
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 45 0.79
46 12 0.21
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.29
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATATGCTCTCCGACAATACAAAGAT
Found at i:27325310 original size:44 final size:44
Alignment explanation
Indices: 27325262--27325537 Score: 226
Period size: 44 Copynumber: 6.3 Consensus size: 44
27325252 ACAATACAAA
27325262 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
** * * * *
27325306 GATGCC--ATGCTGAAATCCTCGAAC-TGCTTCGCTGTAAGCACA-G
1 GATGCCAAAT-CTGCTATCTTC-AACTTG-TTCCCTATAAACACAGG
* ** *
27325349 GAGTGCCAGATCTATTATCTTCGA-TCTGTTCCCTATAAACACAGG
1 GA-TGCCAAATCTGCTATCTTCAACT-TGTTCCCTATAAACACAGG
27325394 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
** * * * * *
27325438 GATGCC--ATGCTGAAATCTTCGATTTGCTTCGCTGTAAGCACAGG
1 GATGCCAAAT-CTGCTATCTTCAACTTG-TTCCCTATAAACACAGG
* * * * *
27325482 AATGTCAGATCTGCTATCTTCGA-TCTGTTCCCTATAAACACAAG
1 GATGCCAAATCTGCTATCTTCAACT-TGTTCCCTATAAACACAGG
27325526 GATGCCAAATCT
1 GATGCCAAATCT
27325538 TGTTTCTTTG
Statistics
Matches: 181, Mismatches: 36, Indels: 30
0.73 0.15 0.12
Matches are distributed among these distances:
42 4 0.02
43 26 0.14
44 121 0.67
45 26 0.14
46 4 0.02
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (44 bp):
GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGG
Found at i:27325466 original size:132 final size:132
Alignment explanation
Indices: 27325257--27325537 Score: 481
Period size: 132 Copynumber: 2.1 Consensus size: 132
27325247 CTCTGACAAT
*
27325257 ACAAAGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
1 ACAAGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
* *
27325322 CCTCGAACTGCTTCGCTGTAAGCACAGGAGTGCCAGATCTATTATCTTCGATCTGTTCCCTATAA
66 CCTCGAACTGCTTCGCTGTAAGCACAGGAATGCCAGATCTACTATCTTCGATCTGTTCCCTATAA
27325387 AC
131 AC
*
27325389 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
1 ACAAGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
* ** * *
27325454 CTTCGATTTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAA
66 CCTCGAACTGCTTCGCTGTAAGCACAGGAATGCCAGATCTACTATCTTCGATCTGTTCCCTATAA
27325519 AC
131 AC
27325521 ACAAGGATGCCAAATCT
1 ACAAGGATGCCAAATCT
27325538 TGTTTCTTTG
Statistics
Matches: 139, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 139 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
ACAAGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
CCTCGAACTGCTTCGCTGTAAGCACAGGAATGCCAGATCTACTATCTTCGATCTGTTCCCTATAA
AC
Found at i:27326444 original size:1 final size:1
Alignment explanation
Indices: 27326434--27326497 Score: 83
Period size: 1 Copynumber: 64.0 Consensus size: 1
27326424 GGCCTCTCTA
* * * * *
27326434 TTTTTCTTTTTTTTTTTTCTTTTTTCTTTTTTTTTTCTTTTTTTTTTCTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
27326498 GAAATAGAAG
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (1 bp):
T
Found at i:27326456 original size:11 final size:11
Alignment explanation
Indices: 27326434--27326497 Score: 98
Period size: 11 Copynumber: 6.1 Consensus size: 11
27326424 GGCCTCTCTA
27326434 TTTTTC-TTTT
1 TTTTTCTTTTT
*
27326444 TTTTT-TTTCT
1 TTTTTCTTTTT
27326454 TTTTTCTTTTT
1 TTTTTCTTTTT
27326465 TTTTTCTTTTT
1 TTTTTCTTTTT
27326476 TTTTTCTTTTT
1 TTTTTCTTTTT
27326487 TTTTT-TTTTT
1 TTTTTCTTTTT
27326497 T
1 T
27326498 GAAATAGAAG
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
10 19 0.38
11 31 0.62
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:27326467 original size:29 final size:29
Alignment explanation
Indices: 27326434--27326497 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 29
27326424 GGCCTCTCTA
*
27326434 TTTTTCTT-TTTTTTTTTTCTTTTTTCTT
1 TTTTTTTTCTTTTTTTTTTCTTTTTTCTT
27326462 TTTTTTTTCTTTTTTTTTTCTTTTTT-TT
1 TTTTTTTTCTTTTTTTTTTCTTTTTTCTT
27326490 TTTTTTTT
1 TTTTTTTT
27326498 GAAATAGAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 17 0.50
29 17 0.50
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (29 bp):
TTTTTTTTCTTTTTTTTTTCTTTTTTCTT
Found at i:27332763 original size:28 final size:28
Alignment explanation
Indices: 27332732--27332791 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
27332722 AATAACATTT
*
27332732 AATACATAAATGATATATAC-A-ATATAAA
1 AATACATAAAAGA-AT-TACTATATATAAA
*
27332760 AATATATAAAAGAATTACTATATATAAA
1 AATACATAAAAGAATTACTATATATAAA
27332788 AATA
1 AATA
27332792 TAAAATAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 3 0.11
27 3 0.11
28 22 0.79
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (28 bp):
AATACATAAAAGAATTACTATATATAAA
Found at i:27332955 original size:16 final size:15
Alignment explanation
Indices: 27332914--27332965 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 15
27332904 TGAAACATAA
27332914 ATAATATAATAGATGAT
1 ATAATATAAT-GAT-AT
27332931 ATACGATATACATGATAT
1 ATA--ATATA-ATGATAT
27332949 ATAATATAAT-ATAT
1 ATAATATAATGATAT
27332963 ATA
1 ATA
27332966 CATGCATAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
14 7 0.22
15 2 0.06
16 5 0.16
17 3 0.09
18 5 0.16
19 8 0.25
20 2 0.06
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.37
Consensus pattern (15 bp):
ATAATATAATGATAT
Found at i:27333363 original size:22 final size:21
Alignment explanation
Indices: 27333333--27333398 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
27333323 TACAAATTAA
27333333 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
27333355 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
27333376 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
27333395 ATCT
1 ATCT
27333399 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:27333385 original size:19 final size:19
Alignment explanation
Indices: 27333350--27333446 Score: 162
Period size: 19 Copynumber: 5.1 Consensus size: 19
27333340 AGATTACAAG
27333350 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
27333371 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
27333390 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
27333407 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
27333426 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
27333445 AT
1 AT
27333447 TCTTAAAGAT
Statistics
Matches: 74, Mismatches: 0, Indels: 6
0.93 0.00 0.08
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:27333414 original size:36 final size:37
Alignment explanation
Indices: 27333350--27333446 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 37
27333340 AGATTACAAG
27333350 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
27333390 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
27333426 ATCATATCTAAGATTGCATAT
1 ATCATATCTAAGATTG-ATAT
27333447 TCTTAAAGAT
Statistics
Matches: 55, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
36 36 0.65
38 10 0.18
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:27333446 original size:14 final size:15
Alignment explanation
Indices: 27333372--27333428 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
27333362 AGATTGCATA
27333372 TCATATCTAAGATTG
1 TCATATCTAAGATTG
27333387 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
27333406 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
27333423 -CATATC
1 TCATATC
27333429 ATATCTAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:27337744 original size:602 final size:602
Alignment explanation
Indices: 27336600--27337784 Score: 2120
Period size: 602 Copynumber: 2.0 Consensus size: 602
27336590 TACATATCTT
* *
27336600 GAGTTACGAAACTCGAAATCCAATTCCGTAAATTTTCCTTGAAATTAGACTCATATATATACTTA
1 GAGTTACGAAACTCGAAATCCAATTCCATAAATTTTCCTTGAAACTAGACTCATATATATACTTA
*
27336665 CTAATTTTTTTCTAGAATTTTTGGTCTAGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCCTG
66 CTAATTTGTTTCTAGAATTTTTGGTCTAGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCCTG
*
27336730 TTTCAAGGTTCAGCTACTCTGACCCCTGTGAATTACGAATCAGATATCTCCCTGTGCACTATTTC
131 TTTCAAGGTTCAGCTACTCTGACCCCTGTGAATTACGAATCAGATATATCCCTGTGCACTATTTC
* * *
27336795 AATGACTATTCCATTTATTTCTAATAAAACTAGACTCAATAAGGAATTCATACATATAACATTTG
196 AATGACTATTCCATTTATTTCTAATAAAACTAGACTCAATAAGGAATCCATACATATAAAATGTG
* *
27336860 AGTCCTAATTATTTTTACACAATTTATGGTGAATTTATAAATTCAGAACAGGGGATCTAGAAATC
261 AGTCCTAATTATTTTTACACAATTTATGGTGAATTTATAAAGTCAGAACAGGGGATCCAGAAATC
* *
27336925 GCTCTGACCCTGTTTCACCAAAACGTAAATATCTCATAAAATACAACTTTTTTACCTATTTTGTT
326 GCTCTGACCCTGTTTCACCAAAACGTAAATATCTCATAAAATACAACTTTGTTAACTATTTTGTT
*
27336990 TCTTCCACATGAAAATAGATTCATTAAGATTAAATTAAATATTTTATTAATCATCTAATTCTATT
391 TCTTCCACATGAAAATAGATTAATTAAGATTAAATTAAATATTTTATTAATCATCTAATTCTATT
27337055 TCTACTATTTTTAGTGATTTTTCAAATTCACGTCACTGCTGCTGTGTGATTCTGTTTTATAGCCA
456 TCTACTATTTTTAGTGATTTTTCAAATTCACGTCACTGCTGCTGTGTGATTCTGTTTTATAGCCA
*
27337120 ATTTCACTATTTTATGGATTTCCATAGATTAGTTAGCACATAAAGCATACGTGTTATCAAATAAT
521 ATTTCACCATTTTATGGATTTCCATAGATTAGTTAGCACATAAAGCATACGTGTTATCAAATAAT
27337185 ATCTAATTACGAATCAC
586 ATCTAATTACGAATCAC
* * * *
27337202 GAGTTACGAAACTTGAAATCCAATTCTATAAATTTTTCTTGAAACTAGACTCATATATCTACTTA
1 GAGTTACGAAACTCGAAATCCAATTCCATAAATTTTCCTTGAAACTAGACTCATATATATACTTA
*
27337267 CTAATTTGTTTCTAGAATTTTTGGTCTGGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCCTG
66 CTAATTTGTTTCTAGAATTTTTGGTCTAGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCCTG
*
27337332 TTTCAAGGTTCAGCTACTCTGACCCCTGTGAATTACGAATCATATATATCCCTGTGCACTATTTC
131 TTTCAAGGTTCAGCTACTCTGACCCCTGTGAATTACGAATCAGATATATCCCTGTGCACTATTTC
* *
27337397 AATGACTATTCCATTTGCTTT-TCATAAAACTAGACTCAATAAGGAATCCATACATATAAAATGT
196 AATGACTATTCCATTT-ATTTCTAATAAAACTAGACTCAATAAGGAATCCATACATATAAAATGT
*
27337461 GAGTCCTAATTATTTTTACACAATTTATGGTGAATTTATAAAGTCAGAATAGGGGATCCAGAAAT
260 GAGTCCTAATTATTTTTACACAATTTATGGTGAATTTATAAAGTCAGAACAGGGGATCCAGAAAT
*
27337526 CGCTTTGACCCTGTTTCACCAAAACGTAAATATCTCATAAAATACAACTTTGTTAACTATTTTGT
325 CGCTCTGACCCTGTTTCACCAAAACGTAAATATCTCATAAAATACAACTTTGTTAACTATTTTGT
* * *
27337591 TTCTTCCACATGAAAATATATTAATTAAGATTCAATTACATATTTTATTAATCATCTAATTCTAT
390 TTCTTCCACATGAAAATAGATTAATTAAGATTAAATTAAATATTTTATTAATCATCTAATTCTAT
27337656 TTCTACTATTTTTAGTGATTTTTCAAATTCACGTCACTGCTGCTGTGTGATTCTGTTTTATAGCC
455 TTCTACTATTTTTAGTGATTTTTCAAATTCACGTCACTGCTGCTGTGTGATTCTGTTTTATAGCC
27337721 AATTTCACCATTTTATGGATTTCCATAGATTAGTTAGCACATAAAGCATACGTGTTATCAAATA
520 AATTTCACCATTTTATGGATTTCCATAGATTAGTTAGCACATAAAGCATACGTGTTATCAAATA
27337785 TAATCTCGAT
Statistics
Matches: 556, Mismatches: 26, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
602 553 0.99
603 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.39
Consensus pattern (602 bp):
GAGTTACGAAACTCGAAATCCAATTCCATAAATTTTCCTTGAAACTAGACTCATATATATACTTA
CTAATTTGTTTCTAGAATTTTTGGTCTAGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCCTG
TTTCAAGGTTCAGCTACTCTGACCCCTGTGAATTACGAATCAGATATATCCCTGTGCACTATTTC
AATGACTATTCCATTTATTTCTAATAAAACTAGACTCAATAAGGAATCCATACATATAAAATGTG
AGTCCTAATTATTTTTACACAATTTATGGTGAATTTATAAAGTCAGAACAGGGGATCCAGAAATC
GCTCTGACCCTGTTTCACCAAAACGTAAATATCTCATAAAATACAACTTTGTTAACTATTTTGTT
TCTTCCACATGAAAATAGATTAATTAAGATTAAATTAAATATTTTATTAATCATCTAATTCTATT
TCTACTATTTTTAGTGATTTTTCAAATTCACGTCACTGCTGCTGTGTGATTCTGTTTTATAGCCA
ATTTCACCATTTTATGGATTTCCATAGATTAGTTAGCACATAAAGCATACGTGTTATCAAATAAT
ATCTAATTACGAATCAC
Found at i:27338521 original size:93 final size:93
Alignment explanation
Indices: 27338360--27338532 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
27338350 CACCCATAAG
* *
27338360 CGAACTCGGACTCAACCCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACCCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
27338425 ACGAGCTT-GGATGCCTACTTACATCTCA
66 ACGAG-TTCGGATGCCTACTTACATCTCA
* * *
27338453 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTGA
1 CGAACTCGGACTCAACCCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
27338518 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
27338533 CAAATATCCG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACCCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTACTTACATCTCA
Found at i:27338528 original size:46 final size:46
Alignment explanation
Indices: 27338353--27338528 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
27338343 TGTGACCCAC
* * * *
27338353 CCATAAGCGAACTCGGACTCAACCCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * **
27338399 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGATGCCTACTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGA--CGT--TCGCAT
*
27338449 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
27338492 CCATAAGTGAACTCGGACTCAACTGAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
27338529 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 4 0.04
46 60 0.57
47 27 0.26
48 4 0.04
49 1 0.01
50 4 0.04
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:27340696 original size:31 final size:31
Alignment explanation
Indices: 27340658--27340767 Score: 202
Period size: 31 Copynumber: 3.5 Consensus size: 31
27340648 TTTAACGGTT
27340658 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
27340689 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
27340720 ACTGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
27340751 TCTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
27340768 ACTGTAAACG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:27340838 original size:42 final size:42
Alignment explanation
Indices: 27340791--27340882 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
27340781 TGGCCCATAG
* * ** *
27340791 GCCCATTTTAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
27340833 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
27340875 GCCCATTT
1 GCCCATTT
27340883 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:27341099 original size:26 final size:26
Alignment explanation
Indices: 27341015--27341150 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
27341005 CTGAAGGCCT
27341015 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
27341039 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
27341064 AGCCGTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
27341090 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
27341116 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
27341142 AGCCCTTTT
1 AGCCCTTTT
27341151 GCACTTCCTC
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 32 0.32
26 57 0.58
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:27341140 original size:52 final size:51
Alignment explanation
Indices: 27341015--27341150 Score: 224
Period size: 52 Copynumber: 2.7 Consensus size: 51
27341005 CTGAAGGCCT
27341015 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
*
27341064 AGCCGTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-A
27341116 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
27341151 GCACTTCCTC
Statistics
Matches: 81, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
48 4 0.05
49 7 0.09
50 10 0.12
51 25 0.31
52 35 0.43
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
Found at i:27341225 original size:20 final size:20
Alignment explanation
Indices: 27341200--27341286 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
27341190 TTATGAATAC
27341200 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
27341220 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
27341240 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
27341260 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
27341280 ATCATGT
1 ATCATGT
27341287 ATATCATATC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:27342055 original size:27 final size:27
Alignment explanation
Indices: 27341994--27342056 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
27341984 GGCGTATTCA
27341994 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* *
27342021 TCACTTTACCCTACAAGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
27342048 TCTTTTTAC
1 TCATTTTAC
27342057 TTATTAGGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:27342141 original size:27 final size:28
Alignment explanation
Indices: 27342111--27342218 Score: 109
Period size: 27 Copynumber: 3.9 Consensus size: 28
27342101 GTAAATCTAC
27342111 AAACCAAGGGTATTT-TAGTAATTTTGT
1 AAACCAAGGGTATTTCTAGTAATTTTGT
*
27342138 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTCTAGTAATTTTGT
*
27342164 AGAAGGTCAAGGGTATTTCT-GTAATTTTGT
1 A-AA--CCAAGGGTATTTCTAGTAATTTTGT
* * *
27342194 AAATCAGGGGTATTT-TGGTAATTTT
1 AAACCAAGGGTATTTCTAGTAATTTT
27342219 ACAAATTGAG
Statistics
Matches: 70, Mismatches: 4, Indels: 14
0.80 0.05 0.16
Matches are distributed among these distances:
26 3 0.04
27 42 0.60
28 2 0.03
29 21 0.30
30 2 0.03
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (28 bp):
AAACCAAGGGTATTTCTAGTAATTTTGT
Found at i:27342216 original size:56 final size:55
Alignment explanation
Indices: 27342108--27342277 Score: 168
Period size: 54 Copynumber: 3.1 Consensus size: 55
27342098 TTGGTAAATC
* * *
27342108 TACAAACCAAGGGTATTT-TAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTCT-GTAATTTTGTAAACCAGTGGTATTT-TGGTAATTTT
* * * *
27342163 TAGAAGGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAA-TTT
1 TACAA-ATCAAGGGTATTTCTGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
** * ***
27342218 TACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAA-TTT
1 TACAAATCAAGGGTATTTCTGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
27342272 TACAAA
1 TACAAA
27342278 CTAGGGGTGT
Statistics
Matches: 95, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
54 46 0.48
55 12 0.13
56 36 0.38
57 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (55 bp):
TACAAATCAAGGGTATTTCTGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
Found at i:27342224 original size:27 final size:27
Alignment explanation
Indices: 27342174--27342297 Score: 128
Period size: 27 Copynumber: 4.6 Consensus size: 27
27342164 AGAAGGTCAA
**
27342174 GGGTATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAATCAG
*
27342201 GGGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTTGGTAATTTTACAAATCAG
* * *
27342227 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAATCAG
*
27342255 TGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATC-AG
*
27342282 GGGTGTTTTGGTAATT
1 GGGTATTTTGGTAATT
27342298 CTACCCTATA
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
26 3 0.04
27 77 0.95
28 1 0.01
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAG
Found at i:27342372 original size:27 final size:27
Alignment explanation
Indices: 27342337--27342405 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
27342327 ACAATTGAGG
27342337 GTAAAACAGTAATTTTGTAAATCAAGC
1 GTAAAACAGTAATTTTGTAAATCAAGC
* * * *
27342364 GTAAAACAGTAATTCTGTATATCGAGG
1 GTAAAACAGTAATTTTGTAAATCAAGC
27342391 GTAAAACAGTAATTT
1 GTAAAACAGTAATTT
27342406 ATAAATCGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (27 bp):
GTAAAACAGTAATTTTGTAAATCAAGC
Found at i:27342443 original size:28 final size:27
Alignment explanation
Indices: 27342398--27342528 Score: 135
Period size: 28 Copynumber: 4.9 Consensus size: 27
27342388 AGGGTAAAAC
* *
27342398 AGTAATTTATA-AATCGAGGGTACTTT
1 AGTAATTTTTACAATCGAGGGTATTTT
*
27342424 GGTAATTTTTACAAGTCGAGGGTATTTT
1 AGTAATTTTTACAA-TCGAGGGTATTTT
* *
27342452 AGTAA-TTTTACAAATTAGGGGGTATTTT
1 AGTAATTTTTAC-AA-TCGAGGGTATTTT
* *
27342480 AGTAA-TTTTACAAACTAGGGTATTTT
1 AGTAATTTTTACAATCGAGGGTATTTT
27342506 AGTAATTTTGTA-AATCGAGGGTA
1 AGTAATTTT-TACAATCGAGGGTA
27342529 AAACGGTAAT
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
26 23 0.26
27 22 0.25
28 42 0.48
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.40
Consensus pattern (27 bp):
AGTAATTTTTACAATCGAGGGTATTTT
Found at i:27342456 original size:54 final size:53
Alignment explanation
Indices: 27342398--27342528 Score: 156
Period size: 54 Copynumber: 2.4 Consensus size: 53
27342388 AGGGTAAAAC
* *
27342398 AGTAA-TTTATAAATCGAGGGTACTTTGGTAATTTTTACAAGTCGAGGGTATTTT
1 AGTAATTTTATAAATCGAGGGTACTTTAGTAA-TTTTACAA-ACGAGGGTATTTT
* * * * *
27342452 AGTAATTTTACAAATTAGGGGGTATTTTAGTAATTTTACAAACTAGGGTATTTT
1 AGTAATTTTATAAA-TCGAGGGTACTTTAGTAATTTTACAAACGAGGGTATTTT
*
27342506 AGTAATTTTGTAAATCGAGGGTA
1 AGTAATTTTATAAATCGAGGGTA
27342529 AAACGGTAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
53 7 0.11
54 28 0.44
55 15 0.23
56 14 0.22
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.40
Consensus pattern (53 bp):
AGTAATTTTATAAATCGAGGGTACTTTAGTAATTTTACAAACGAGGGTATTTT
Found at i:27344906 original size:31 final size:31
Alignment explanation
Indices: 27344868--27344946 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
27344858 TTTAACGGTT
27344868 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
27344899 ACTGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
27344930 TCTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
27344947 ACTGTAAACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:27345017 original size:42 final size:42
Alignment explanation
Indices: 27344970--27345061 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
27344960 TGGCCCATAG
* ** *
27344970 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
27345012 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
27345054 GCCCATTT
1 GCCCATTT
27345062 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:27345303 original size:26 final size:26
Alignment explanation
Indices: 27345217--27345354 Score: 217
Period size: 26 Copynumber: 5.4 Consensus size: 26
27345207 AACTAGGACA
27345217 AAGCCCTTTTCGGTAAACTGGGGCA-
1 AAGCCCTTTTCGGTAAACTGGGGCAT
27345242 AAGCCCTTTTCGGTAAACTGGGGCA-
1 AAGCCCTTTTCGGTAAACTGGGGCAT
** *
27345267 AAGCCCTTTTCAATAAATTGGGGCAT
1 AAGCCCTTTTCGGTAAACTGGGGCAT
27345293 AAGCCCTTTTCGGTAAACTGGGGCAT
1 AAGCCCTTTTCGGTAAACTGGGGCAT
**
27345319 AAGCCCTTTTCAATAAACTGGGGCAT
1 AAGCCCTTTTCGGTAAACTGGGGCAT
27345345 AAGCCCTTTT
1 AAGCCCTTTT
27345355 GCACTTCCTC
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 47 0.45
26 57 0.55
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (26 bp):
AAGCCCTTTTCGGTAAACTGGGGCAT
Found at i:27345462 original size:19 final size:20
Alignment explanation
Indices: 27345404--27345489 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
27345394 TTATGAATAC
27345404 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
27345424 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
27345444 ATCATGTGCATTT-ATACAT
1 ATCATGTGCATTTCATACAT
*
27345463 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
27345483 ATCATGT
1 ATCATGT
27345490 ATATCATATC
Statistics
Matches: 63, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
19 18 0.29
20 43 0.68
21 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:27345469 original size:39 final size:40
Alignment explanation
Indices: 27345404--27345489 Score: 140
Period size: 39 Copynumber: 2.2 Consensus size: 40
27345394 TTATGAATAC
*
27345404 ATCATGTGCATTTCATACATATCATGTGCATTTCATA-CA
1 ATCATGTGCATTTCATACATATCATGTGCATATCATATCA
27345443 TATCATGTGCATTT-ATACATATCATGTGCATATCATATCA
1 -ATCATGTGCATTTCATACATATCATGTGCATATCATATCA
27345483 ATCATGT
1 ATCATGT
27345490 ATATCATATC
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
39 29 0.66
40 15 0.34
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (40 bp):
ATCATGTGCATTTCATACATATCATGTGCATATCATATCA
Found at i:27346209 original size:27 final size:27
Alignment explanation
Indices: 27346179--27346230 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
27346169 TATTCATCAT
27346179 TTTACCATACAAGGG-TATTACGGTCAC
1 TTTACCATACAAGGGCT-TTACGGTCAC
* *
27346206 TTTACCCTACAGGGGCTTTACGGTC
1 TTTACCATACAAGGGCTTTACGGTC
27346231 TTTTTTCCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (27 bp):
TTTACCATACAAGGGCTTTACGGTCAC
Found at i:27346368 original size:27 final size:27
Alignment explanation
Indices: 27346328--27346397 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
27346318 AGAAAGTCAA
* **
27346328 GGGTATTTTTGTAATTTTGTAAA-TCAG
1 GGGTATTTTGGTAATTTTACAAACT-AG
27346355 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
27346382 GGGTGTTTTGGTAATT
1 GGGTATTTTGGTAATT
27346398 CTACCCTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.24, C:0.04, G:0.26, T:0.46
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:27346459 original size:27 final size:27
Alignment explanation
Indices: 27346429--27346710 Score: 142
Period size: 27 Copynumber: 10.4 Consensus size: 27
27346419 GTAATTTCAC
* *
27346429 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
27346456 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* *
27346483 AATCGAGGGTAAAACAGTAATGCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
***** *
27346510 AATCGAGGGTACTTTGGTAATT-TTTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*** * **
27346536 CAAGTCGAGGGTATTTCAGTAATTTTACA
1 -AA-TCGAGGGTAAAACAGTAATTCTGTA
* ****
27346565 AATCAGGGGGTATTTTAGTAATT-T-TA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
* * **** * *
27346591 CAAACCAGGGGTATTTTAGTAATTTTTTA
1 -AATCGA-GGGTAAAACAGTAATTCTGTA
*
27346620 AATCGAGGGTAAAAC-GATAATTCTATA
1 AATCGAGGGTAAAACAG-TAATTCTGTA
** *
27346647 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* **
27346674 AATCGAGGGTAGAACAACAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
27346701 AATCG-GGGTA
1 AATCGAGGGTA
27346711 CTTTGGTAAT
Statistics
Matches: 206, Mismatches: 39, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
26 10 0.05
27 151 0.73
28 41 0.20
29 4 0.02
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:27346568 original size:55 final size:54
Alignment explanation
Indices: 27346509--27346630 Score: 138
Period size: 55 Copynumber: 2.2 Consensus size: 54
27346499 GTAATGCTAT
* **
27346509 AAATCGAGGGTACTTTGGTAATTTTTACAAGTC-GAGGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTACTTTAGTAA-TTTTACAAACCAG-GGGTATTTCAGTAATTTTAC
* * * **
27346564 AAATCAGGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTTT
1 AAATC-GAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTTCAGTAATTTTAC
27346619 AAATCGAGGGTA
1 AAATCGAGGGTA
27346631 AAACGATAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
54 6 0.11
55 36 0.64
56 14 0.25
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTTCAGTAATTTTAC
Found at i:27348010 original size:2 final size:2
Alignment explanation
Indices: 27348003--27348032 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
27347993 AGTATAGTTG
27348003 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27348033 GTATGCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27348614 original size:29 final size:29
Alignment explanation
Indices: 27348575--27348649 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
27348565 GGTTGAGAGA
* *
27348575 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
27348604 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
27348633 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
27348650 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:27355366 original size:18 final size:18
Alignment explanation
Indices: 27355343--27355445 Score: 80
Period size: 18 Copynumber: 5.4 Consensus size: 18
27355333 ACATCGTGAT
27355343 CTGAAGCCCGAAGTCTAA
1 CTGAAGCCCGAAGTCTAA
**
27355361 CTGAAGCACATAAGTGCTAAA
1 CTGAAGC-CCGAAGT-CT-AA
* *
27355382 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCCGAAGTCTAA
**
27355400 CTGAAGCACATAAGTGCTATA
1 CTGAAGC-CCGAAGT-CTA-A
* *
27355421 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCCGAAGTCTAA
27355439 CTGAAGC
1 CTGAAGC
27355446 TCACCAGAGC
Statistics
Matches: 64, Mismatches: 15, Indels: 12
0.70 0.16 0.13
Matches are distributed among these distances:
18 22 0.34
19 14 0.22
20 13 0.20
21 15 0.23
ACGTcount: A:0.36, C:0.24, G:0.25, T:0.15
Consensus pattern (18 bp):
CTGAAGCCCGAAGTCTAA
Done.