Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 143 of 172
Found at i:41343588 original size:10 final size:10
Alignment explanation
Indices: 41343565--41343606 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
41343555 TTGATCGCTA
41343565 AAAAACTTAT
1 AAAAACTTAT
*
41343575 -AAAATTTAT
1 AAAAACTTAT
41343584 AAAAA-TTAAT
1 AAAAACTT-AT
41343594 AAAAACTTAT
1 AAAAACTTAT
41343604 AAA
1 AAA
41343607 TATTACAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 10 0.36
10 16 0.57
11 2 0.07
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAAACTTAT
Found at i:41343606 original size:29 final size:30
Alignment explanation
Indices: 41343565--41343623 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
41343555 TTGATCGCTA
*
41343565 AAAAACTTATAAA-ATTTATAAAAAT-TAAT
1 AAAAACTTATAAATA-TTACAAAAATCTAAT
41343594 AAAAACTTATAAATATTACAAAAATCTAAT
1 AAAAACTTATAAATATTACAAAAATCTAAT
41343624 GAATGTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAAACTTATAAATATTACAAAAATCTAAT
Found at i:41343714 original size:19 final size:19
Alignment explanation
Indices: 41343690--41343741 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
41343680 ATAAAAAAAT
41343690 TATTAACAATTAT-TAAACA
1 TATTAA-AATTATATAAACA
*
41343709 TATTAAAATTTATATAAACT
1 TATTAAAA-TTATATAAACA
*
41343729 TATAAAAATTATA
1 TATTAAAATTATA
41343742 AAAAATCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 2 0.07
19 15 0.52
20 12 0.41
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (19 bp):
TATTAAAATTATATAAACA
Found at i:41343745 original size:10 final size:10
Alignment explanation
Indices: 41343663--41343754 Score: 53
Period size: 10 Copynumber: 9.2 Consensus size: 10
41343653 AAAACCATTT
*
41343663 AAAATTTTACA
1 AAAATTATA-A
*
41343674 AAAATAATAAA
1 AAAATTAT-AA
*
41343685 AAAATTATTA
1 AAAATTATAA
* *
41343695 ACAATTATTA
1 AAAATTATAA
* *
41343705 AACA-TATTA
1 AAAATTATAA
* *
41343714 AAATTTATAT
1 AAAATTATAA
*
41343724 AAACTTAT-A
1 AAAATTATAA
41343733 AAAATTATAA
1 AAAATTATAA
*
41343743 AAAATCATAA
1 AAAATTATAA
41343753 AA
1 AA
41343755 GCTTGAATTG
Statistics
Matches: 63, Mismatches: 15, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
9 14 0.22
10 34 0.54
11 14 0.22
12 1 0.02
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTATAA
Found at i:41347010 original size:10 final size:10
Alignment explanation
Indices: 41346995--41347089 Score: 68
Period size: 10 Copynumber: 9.3 Consensus size: 10
41346985 CTAGTTCATG
41346995 TTTTTATAAT
1 TTTTTATAAT
41347005 TTTTTATAAT
1 TTTTTATAAT
*
41347015 TTTATATCAA-
1 TTTTTAT-AAT
*
41347025 TTTTAAT-AT
1 TTTTTATAAT
* *
41347034 TTTTAATAAG
1 TTTTTATAAT
**
41347044 TTTTTATTCT
1 TTTTTATAAT
41347054 TTTCTTATAAT
1 TTT-TTATAAT
* *
41347065 TTTTTTTAGAA
1 TTTTTATA-AT
41347076 TTTTTATATAT
1 TTTTTATA-AT
41347087 TTT
1 TTT
41347090 CATAAAATTT
Statistics
Matches: 65, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
8 1 0.02
9 7 0.11
10 35 0.54
11 22 0.34
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:41347171 original size:12 final size:12
Alignment explanation
Indices: 41347154--41347178 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41347144 TCTTTTAGAT
41347154 TTATTATAGAGC
1 TTATTATAGAGC
41347166 TTATTATAGAGC
1 TTATTATAGAGC
41347178 T
1 T
41347179 GTCATATGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TTATTATAGAGC
Found at i:41349043 original size:10 final size:10
Alignment explanation
Indices: 41349028--41349061 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
41349018 GCGTGCGCGC
41349028 GTGCCTGCCT
1 GTGCCTGCCT
41349038 GTGCCTGCCT
1 GTGCCTGCCT
*
41349048 GTGCCTGCGT
1 GTGCCTGCCT
41349058 GTGC
1 GTGC
41349062 GTGTGCGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.35, T:0.29
Consensus pattern (10 bp):
GTGCCTGCCT
Found at i:41349052 original size:6 final size:6
Alignment explanation
Indices: 41349053--41349084 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
41349043 TGCCTGTGCC
41349053 TGCGTG TGCGTG TGCGTG TGCGTG TGCGTG TG
1 TGCGTG TGCGTG TGCGTG TGCGTG TGCGTG TG
41349085 TGTTGCACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.16, G:0.50, T:0.34
Consensus pattern (6 bp):
TGCGTG
Found at i:41351329 original size:136 final size:135
Alignment explanation
Indices: 41351084--41351355 Score: 517
Period size: 136 Copynumber: 2.0 Consensus size: 135
41351074 TAAATTCTAA
41351084 TATGGAAACAAGTAAAGAGTCCTGCTTGTGTCTTTTAAATGTACTTGATACAATAAGTATTTTGA
1 TATGGAAACAAGTAAAGAGTCCTGCTTGTGTCTTTTAAATGTACTTGATACAATAAGTATTTTGA
*
41351149 AATCTTAGATGGACCTTTTAAATTTGACCCAAACCTAAATAAAACCATTTCCGAACAAAGCATTT
66 AATCTTAGATGGACCTTTTAAATTTGACCCAAACCTAAACAAAACCATTTCCGAACAAAGCATTT
41351214 GGATT
131 GGATT
*
41351219 TATGGAAACAAGTAAATAGTCCTGCTTGTGTCTTTTAAATGTACTTGATACAATTAAGTATTTTG
1 TATGGAAACAAGTAAAGAGTCCTGCTTGTGTCTTTTAAATGTACTTGATACAA-TAAGTATTTTG
41351284 AAATCTTAGATGGACCTTTTAAATTTGACCCAAACCTAAACAAAACCATTTCCGAACAAAGCATT
65 AAATCTTAGATGGACCTTTTAAATTTGACCCAAACCTAAACAAAACCATTTCCGAACAAAGCATT
41351349 TGGATT
130 TGGATT
41351355 T
1 T
41351356 TGAAATCCAA
Statistics
Matches: 134, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
135 52 0.39
136 82 0.61
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (135 bp):
TATGGAAACAAGTAAAGAGTCCTGCTTGTGTCTTTTAAATGTACTTGATACAATAAGTATTTTGA
AATCTTAGATGGACCTTTTAAATTTGACCCAAACCTAAACAAAACCATTTCCGAACAAAGCATTT
GGATT
Found at i:41355028 original size:28 final size:28
Alignment explanation
Indices: 41354993--41355062 Score: 131
Period size: 28 Copynumber: 2.5 Consensus size: 28
41354983 TAATGTTTTA
41354993 AAATTTAAAATTTTAATAATAAAAACAT
1 AAATTTAAAATTTTAATAATAAAAACAT
*
41355021 AAATTTAAAATTTCAATAATAAAAACAT
1 AAATTTAAAATTTTAATAATAAAAACAT
41355049 AAATTTAAAATTTT
1 AAATTTAAAATTTT
41355063 TTAAAGGGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (28 bp):
AAATTTAAAATTTTAATAATAAAAACAT
Found at i:41361391 original size:34 final size:34
Alignment explanation
Indices: 41361348--41361417 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
41361338 AGTGTCGGCC
41361348 ATCTGCTACATAACACCAAAAAAATAATTTTTTT
1 ATCTGCTACATAACACCAAAAAAATAATTTTTTT
* *
41361382 ATCTGCTACATAGCACCCAAAAAATAATTTTTTT
1 ATCTGCTACATAACACCAAAAAAATAATTTTTTT
41361416 AT
1 AT
41361418 ACTTGGTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.19, G:0.04, T:0.36
Consensus pattern (34 bp):
ATCTGCTACATAACACCAAAAAAATAATTTTTTT
Found at i:41371467 original size:70 final size:71
Alignment explanation
Indices: 41371380--41371523 Score: 272
Period size: 70 Copynumber: 2.0 Consensus size: 71
41371370 CATTTATTTG
41371380 TTAAAATTTAATCTTTTTATTGGATTAAACAAAATTATAGGGAAAATAATGAAAACC-TTTTTTA
1 TTAAAATTTAATCTTTTTATTGGATTAAACAAAATTATAGGGAAAATAATGAAAACCTTTTTTTA
41371444 GTTTCT
66 GTTTCT
*
41371450 TTAAAATTTAATCTTTTTATTGGATTAAACAAAATTATAGGGAAATTAATGAAAACCTTTTTTTA
1 TTAAAATTTAATCTTTTTATTGGATTAAACAAAATTATAGGGAAAATAATGAAAACCTTTTTTTA
41371515 GTTTCT
66 GTTTCT
41371521 TTA
1 TTA
41371524 TTTTTTAACA
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
70 56 0.78
71 16 0.22
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (71 bp):
TTAAAATTTAATCTTTTTATTGGATTAAACAAAATTATAGGGAAAATAATGAAAACCTTTTTTTA
GTTTCT
Found at i:41373398 original size:21 final size:21
Alignment explanation
Indices: 41373350--41373403 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
41373340 CACCATTGTT
41373350 TCTAATCTCACTGCTACAGTA
1 TCTAATCTCACTGCTACAGTA
*
41373371 TCCAATCTCA-TCGCTACAGTAA
1 TCTAATCTCACT-GCTACAGT-A
41373393 T-TAATCTCACT
1 TCTAATCTCACT
41373404 ACCACCGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 1 0.04
21 24 0.86
22 3 0.11
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (21 bp):
TCTAATCTCACTGCTACAGTA
Found at i:41379009 original size:209 final size:210
Alignment explanation
Indices: 41378637--41379059 Score: 679
Period size: 209 Copynumber: 2.0 Consensus size: 210
41378627 AACCATATAA
* * * *
41378637 ATGTTGTCTCGGGGTACAAACAAACTAGACCAAGAGCTTTAAACTAGTAATTGTTGTCTGGACGC
1 ATGTTGTCTCGAGGTACAAACAAACTAGACCAAGAGCTTTAAACAAATAATTGTTGTCTAGACGC
*
41378702 CAAGAAAAACAATCATGCGAAATTCTTAACAAGAAGTCCTCATTCATACCTCTTCATGAATTTTA
66 CAAGAAAAACAATCATGCAAAATTCTTAACAAGAAGTCCTCATTCATACCTCTTCATGAATTTTA
* * *
41378767 TCCATTAGCAACTACTTTCTCTAAGAGCAATTAGAACTCGATTTTTCGCAACAATTTTGAGAAGC
131 TCCATTAGCAACTACTTTCTCTAAAAACAATTAGAACTCGATTTTTCGCAACAATTTTGAGAAAC
41378832 TCTTCATCTATGATT
196 TCTTCATCTATGATT
* *
41378847 ATGTTGTCTTGAGGTACAAACGAACTAGACCAAGAGCTTTAAACAAATAATTGTTGTCTAGACGC
1 ATGTTGTCTCGAGGTACAAACAAACTAGACCAAGAGCTTTAAACAAATAATTGTTGTCTAGACGC
* **
41378912 CAAGGAAAACAAT-ATGCAAAATTCTTAAC-AGAAAGTCCTCATTTGTACCTCTTCATGAATTTT
66 CAAGAAAAACAATCATGCAAAATTCTTAACAAG-AAGTCCTCATTCATACCTCTTCATGAATTTT
* *
41378975 ATCCATTAGCAATTACTTTCTCTAAAAACAATTAGAACTCGATTTTTCGCAACAATTTTTAGAAA
130 ATCCATTAGCAACTACTTTCTCTAAAAACAATTAGAACTCGATTTTTCGCAACAATTTTGAGAAA
*
41379040 CTTTTCATCTATGATT
195 CTCTTCATCTATGATT
41379056 ATGT
1 ATGT
41379060 GGAAGATTAC
Statistics
Matches: 196, Mismatches: 16, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
208 2 0.01
209 123 0.63
210 71 0.36
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (210 bp):
ATGTTGTCTCGAGGTACAAACAAACTAGACCAAGAGCTTTAAACAAATAATTGTTGTCTAGACGC
CAAGAAAAACAATCATGCAAAATTCTTAACAAGAAGTCCTCATTCATACCTCTTCATGAATTTTA
TCCATTAGCAACTACTTTCTCTAAAAACAATTAGAACTCGATTTTTCGCAACAATTTTGAGAAAC
TCTTCATCTATGATT
Found at i:41379428 original size:10 final size:9
Alignment explanation
Indices: 41379401--41379472 Score: 54
Period size: 9 Copynumber: 7.4 Consensus size: 9
41379391 TTATTTTTTT
41379401 AAATATAAA
1 AAATATAAA
*
41379410 AAATTTAAA
1 AAATATAAA
41379419 AAAGTATAAA
1 AAA-TATAAA
* *
41379429 AATTATTTAA
1 AAATA-TAAA
*
41379439 AAATAAAAA
1 AAATATAAA
41379448 AAAGTATTAAA
1 AAA-TA-TAAA
*
41379459 AATTATAAA
1 AAATATAAA
41379468 TAAAT
1 -AAAT
41379473 TTTAATATTT
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
9 22 0.46
10 21 0.44
11 5 0.10
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (9 bp):
AAATATAAA
Found at i:41379477 original size:20 final size:18
Alignment explanation
Indices: 41379401--41379477 Score: 73
Period size: 19 Copynumber: 4.0 Consensus size: 18
41379391 TTATTTTTTT
*
41379401 AAATATAAAAAATTTAAA
1 AAATATAAAAAATTTTAA
*
41379419 AAAGTATAAAAATTATTTAA
1 AAA-TATAAAAAAT-TTTAA
* *
41379439 AAATAAAAAAAAGTATTAA
1 AAATATAAAAAA-TTTTAA
41379458 AAATTATAAATAAATTTTAA
1 AAA-TATAAA-AAATTTTAA
41379478 TATTTTTCAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
18 3 0.06
19 23 0.49
20 18 0.38
21 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
AAATATAAAAAATTTTAA
Found at i:41383333 original size:129 final size:129
Alignment explanation
Indices: 41383101--41383357 Score: 442
Period size: 129 Copynumber: 2.0 Consensus size: 129
41383091 TTATAGGGTC
* *
41383101 ACAGTTATTGACCCTGGATTTTGCTTGTAATTGCCGGTTTGCTTCAGACTGACAGTTCCTATCTG
1 ACAGTTATTGACCCAGGACTTTGCTTGTAATTGCCGGTTTGCTTCAGACTGACAGTTCCTATCTG
*
41383166 ATTGTTCAATTGGCTGGAGTAAGGGCAGGGCCTGTTGATCAATGATGACAGCATGGTTATGACT
66 ATTGTTCAATTGGCTGGAGTAAGGGCAGGGCCTGTTGATCAATAATGACAGCATGGTTATGACT
* *
41383230 ACAGTTATTGACCCAGGACTTTGCTTGTAATTGCTGGTTTGCTTCAGGCTGACAGTTCCTATCTG
1 ACAGTTATTGACCCAGGACTTTGCTTGTAATTGCCGGTTTGCTTCAGACTGACAGTTCCTATCTG
* * *
41383295 ATTGTTCAATTGGCTGGGGTAGGGGCAGGGCCTTTTGATCAATAATGACAGCATGGTTATGAC
66 ATTGTTCAATTGGCTGGAGTAAGGGCAGGGCCTGTTGATCAATAATGACAGCATGGTTATGAC
41383358 CAGGTTTTCT
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 120 1.00
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (129 bp):
ACAGTTATTGACCCAGGACTTTGCTTGTAATTGCCGGTTTGCTTCAGACTGACAGTTCCTATCTG
ATTGTTCAATTGGCTGGAGTAAGGGCAGGGCCTGTTGATCAATAATGACAGCATGGTTATGACT
Found at i:41387192 original size:39 final size:39
Alignment explanation
Indices: 41387127--41387263 Score: 166
Period size: 39 Copynumber: 3.5 Consensus size: 39
41387117 TGTATAGAGA
*
41387127 ACAAGTGCATTCTGCTCTTTGTATCTCATATTGTAGGGG
1 ACAACTGCATTCTGCTCTTTGTATCTCATATTGTAGGGG
* * * *
41387166 ACAACTGCATTCTGCTCCTTGCATCTCAGATTGTAAGGG
1 ACAACTGCATTCTGCTCTTTGTATCTCATATTGTAGGGG
* * *
41387205 ACGATTGCATTCTGCTTTTTGTATCTCATATTGTAGGGG
1 ACAACTGCATTCTGCTCTTTGTATCTCATATTGTAGGGG
** * *
41387244 ATGATTGCCTTCTGCTCTTT
1 ACAACTGCATTCTGCTCTTT
41387264 ATGTGTAATA
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.39
Consensus pattern (39 bp):
ACAACTGCATTCTGCTCTTTGTATCTCATATTGTAGGGG
Found at i:41392698 original size:20 final size:20
Alignment explanation
Indices: 41392673--41392712 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
41392663 TGGGTGGACA
*
41392673 AGTTAACTTGCCACATCAGT
1 AGTTAACTTACCACATCAGT
41392693 AGTTAACTTACCACATCAGT
1 AGTTAACTTACCACATCAGT
41392713 GAAACATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (20 bp):
AGTTAACTTACCACATCAGT
Found at i:41392801 original size:29 final size:31
Alignment explanation
Indices: 41392746--41392805 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
41392736 TTAATAACTG
*
41392746 TTTTGTTACTTTTTTACAACGTTAGTAATTA
1 TTTTGTTACTTTTTTACAACATTAGTAATTA
41392777 TTTTGTTA-TTTTTTA-AA-ATTGAGTAATTA
1 TTTTGTTACTTTTTTACAACATT-AGTAATTA
41392806 AAATAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 2 0.07
29 10 0.37
30 7 0.26
31 8 0.30
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.57
Consensus pattern (31 bp):
TTTTGTTACTTTTTTACAACATTAGTAATTA
Found at i:41398981 original size:67 final size:67
Alignment explanation
Indices: 41398869--41398995 Score: 200
Period size: 67 Copynumber: 1.9 Consensus size: 67
41398859 TTTATATTAC
*
41398869 AGGGGATTTAGCCTAGACTAGTAATCCCGTTGTAAGAAATGAGGTTCGCGGAAGTGTGCTCTCTT
1 AGGGGATTTAGCCTAGACTAGTAATCCCGCTGTAAGAAATGAGGTTCGCGGAAGTGTGCTCTCTT
41398934 GT
66 GT
* * * * *
41398936 AGGGGATTTAGCCTGGACTGGTAATCTCGCTGTAAGAAATTAGGTTCGCGGGAGTGTGCT
1 AGGGGATTTAGCCTAGACTAGTAATCCCGCTGTAAGAAATGAGGTTCGCGGAAGTGTGCT
41398996 GTGTGCATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 54 1.00
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.29
Consensus pattern (67 bp):
AGGGGATTTAGCCTAGACTAGTAATCCCGCTGTAAGAAATGAGGTTCGCGGAAGTGTGCTCTCTT
GT
Found at i:41405770 original size:44 final size:45
Alignment explanation
Indices: 41405685--41405778 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 45
41405675 TAATATAAAT
*
41405685 TTCATAAAAATTAAATGATAAACATTTCATTTATGAATTATGATA
1 TTCATAAAAATTAAATGATAAACATTTCATATATGAATTATGATA
**
41405730 TTCAT-AAAATTAAATGAT-AA-ATTTCATATACTGTTTTTATGATA
1 TTCATAAAAATTAAATGATAAACATTTCATATA-TG-AATTATGATA
41405774 TTCAT
1 TTCAT
41405779 TTTATTTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
42 9 0.20
43 4 0.09
44 26 0.59
45 5 0.11
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (45 bp):
TTCATAAAAATTAAATGATAAACATTTCATATATGAATTATGATA
Found at i:41405777 original size:22 final size:22
Alignment explanation
Indices: 41405752--41405795 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
41405742 AATGATAAAT
41405752 TTCA-TATACTGTTTTTATGATA
1 TTCATTATA-TGTTTTTATGATA
* *
41405774 TTCATTTTATTTTTTTATGATA
1 TTCATTATATGTTTTTATGATA
41405796 CATATCATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.61
Consensus pattern (22 bp):
TTCATTATATGTTTTTATGATA
Found at i:41413001 original size:19 final size:19
Alignment explanation
Indices: 41412979--41413042 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
41412969 AATATTACGG
41412979 AAATATTATTTTATAATTA
1 AAATATTATTTTATAATTA
* *
41412998 AAATA-AATTATA-ATATTA
1 AAATATTATTTTATA-ATTA
41413016 CGGAAATATTATTTTATAATTA
1 ---AAATATTATTTTATAATTA
41413038 AAATA
1 AAATA
41413043 AATTATATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
17 1 0.03
18 9 0.26
19 10 0.29
21 5 0.14
22 9 0.26
23 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (19 bp):
AAATATTATTTTATAATTA
Found at i:41413008 original size:21 final size:21
Alignment explanation
Indices: 41412983--41413053 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
41412973 TTACGGAAAT
*
41412983 ATTATTTTATAATTAAAATAA
1 ATTATATTATAATTAAAATAA
* * ***
41413004 ATTATAATATTACGGAAAT--
1 ATTATATTATAATTAAAATAA
*
41413023 ATTATTTTATAATTAAAATAA
1 ATTATATTATAATTAAAATAA
41413044 ATTATATTAT
1 ATTATATTAT
41413054 TTCAGAGTAA
Statistics
Matches: 35, Mismatches: 13, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
19 13 0.37
21 22 0.63
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (21 bp):
ATTATATTATAATTAAAATAA
Found at i:41413024 original size:40 final size:40
Alignment explanation
Indices: 41412964--41413054 Score: 164
Period size: 40 Copynumber: 2.3 Consensus size: 40
41412954 CATCAACTTG
*
41412964 ATTAAAATATTACGGAAATATTATTTTATAATTAAAATAA
1 ATTATAATATTACGGAAATATTATTTTATAATTAAAATAA
41413004 ATTATAATATTACGGAAATATTATTTTATAATTAAAATAA
1 ATTATAATATTACGGAAATATTATTTTATAATTAAAATAA
*
41413044 ATTATATTATT
1 ATTATAATATT
41413055 TCAGAGTAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (40 bp):
ATTATAATATTACGGAAATATTATTTTATAATTAAAATAA
Found at i:41415079 original size:21 final size:21
Alignment explanation
Indices: 41415055--41415124 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
41415045 ATGAGGATTG
*
41415055 AACGGAAGCTCATAAGAGCTG
1 AACGGAAGCTCATAAGAGCTA
* * * *
41415076 AACGGAAACCCATAAGGGTTA
1 AACGGAAGCTCATAAGAGCTA
* *
41415097 AACTGAAGCTCAAAAGAGCTA
1 AACGGAAGCTCATAAGAGCTA
41415118 AACGGAA
1 AACGGAA
41415125 ACCCATTAGG
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (21 bp):
AACGGAAGCTCATAAGAGCTA
Found at i:41415084 original size:42 final size:42
Alignment explanation
Indices: 41415038--41415141 Score: 136
Period size: 42 Copynumber: 2.5 Consensus size: 42
41415028 GTGCTAAATA
* * * *
41415038 GAAACCCATGAGGATTGAACGGAAGCTCATAAGAGCTGAACG
1 GAAACCCATAAGGATTAAACGGAAGCTCAAAAGAGCTAAACG
* *
41415080 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTAAACG
1 GAAACCCATAAGGATTAAACGGAAGCTCAAAAGAGCTAAACG
* *
41415122 GAAACCCATTAGGGTTAAAC
1 GAAACCCATAAGGATTAAAC
41415142 AAAAACTCAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.15
Consensus pattern (42 bp):
GAAACCCATAAGGATTAAACGGAAGCTCAAAAGAGCTAAACG
Found at i:41415140 original size:21 final size:21
Alignment explanation
Indices: 41415038--41415141 Score: 73
Period size: 21 Copynumber: 5.0 Consensus size: 21
41415028 GTGCTAAATA
* * *
41415038 GAAACCCATGAGGATTGAACG
1 GAAACCCATAAGGGTTAAACG
* * * * *
41415059 GAAGCTCATAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACG
*
41415080 GAAACCCATAAGGGTTAAACT
1 GAAACCCATAAGGGTTAAACG
* * * * *
41415101 GAAGCTCAAAAGAGCTAAACG
1 GAAACCCATAAGGGTTAAACG
*
41415122 GAAACCCATTAGGGTTAAAC
1 GAAACCCATAAGGGTTAAAC
41415142 AAAAACTCAT
Statistics
Matches: 59, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.15
Consensus pattern (21 bp):
GAAACCCATAAGGGTTAAACG
Found at i:41416976 original size:18 final size:18
Alignment explanation
Indices: 41416926--41416976 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 18
41416916 TTTTAGAGAT
*
41416926 TATAAAAGAAGAAAA-AA
1 TATAAAAGAAAAAAATAA
* * *
41416943 TAAAAAAGAGATAAATAA
1 TATAAAAGAAAAAAATAA
*
41416961 TGTAAAAGAAAAAAAT
1 TATAAAAGAAAAAAAT
41416977 TTAAAATATA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.16
Consensus pattern (18 bp):
TATAAAAGAAAAAAATAA
Found at i:41417139 original size:29 final size:28
Alignment explanation
Indices: 41417070--41417140 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
41417060 ATTGAGTAAC
*
41417070 AAAAAAATTATTTAGGTACAACTTGTGAT
1 AAAAAAA-TGTTTAGGTACAACTTGTGAT
41417099 AAAAAAATGTTTAGGTACTAACTT-TGA-
1 AAAAAAATGTTTAGGTAC-AACTTGTGAT
41417126 AAAACAAATAGTTTA
1 AAAA-AAAT-GTTTA
41417141 AGTATCAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
27 4 0.11
28 17 0.45
29 17 0.45
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.32
Consensus pattern (28 bp):
AAAAAAATGTTTAGGTACAACTTGTGAT
Found at i:41421221 original size:17 final size:18
Alignment explanation
Indices: 41421189--41421223 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
41421179 AACATTAATC
*
41421189 TTAATTATTCTAAATATT
1 TTAATTAATCTAAATATT
41421207 TTAATTAAT-TAAATATT
1 TTAATTAATCTAAATATT
41421224 ATAGTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAATTAATCTAAATATT
Found at i:41421808 original size:21 final size:19
Alignment explanation
Indices: 41421782--41421821 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
41421772 CCGGCCCGGT
41421782 TTTTAATAAACACAAAAAATA
1 TTTTAA-AAACA-AAAAAATA
*
41421803 TTTTAAAAATAAAAAAATA
1 TTTTAAAAACAAAAAAATA
41421822 AAAAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TTTTAAAAACAAAAAAATA
Found at i:41426074 original size:15 final size:15
Alignment explanation
Indices: 41426054--41426088 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
41426044 TTGTAAAGTA
* *
41426054 ACATTCCCGATAATC
1 ACATTCCCAACAATC
41426069 ACATTCCCAACAATC
1 ACATTCCCAACAATC
41426084 ACATT
1 ACATT
41426089 AAGTTAGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.34, G:0.03, T:0.26
Consensus pattern (15 bp):
ACATTCCCAACAATC
Found at i:41427689 original size:13 final size:13
Alignment explanation
Indices: 41427671--41427695 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41427661 GAATTGTTCA
41427671 ATTAAAGAATTTG
1 ATTAAAGAATTTG
41427684 ATTAAAGAATTT
1 ATTAAAGAATTT
41427696 TCTTGAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
ATTAAAGAATTTG
Found at i:41428161 original size:37 final size:39
Alignment explanation
Indices: 41428120--41428212 Score: 102
Period size: 37 Copynumber: 2.4 Consensus size: 39
41428110 TAATAATATT
* *
41428120 TTAATAGTTTAATATTAAATTAA-ATTTAA-TACTTATC
1 TTAATAGTTTAATATTAAATTAATATTAAAGTAATTATC
* *
41428157 TTAATAGTATT-TTATTAATTTAATATTAAAGTAATTATC
1 TTAATAGT-TTAATATTAAATTAATATTAAAGTAATTATC
*
41428196 TTAATAAATTTAATATT
1 TTAAT-AGTTTAATATT
41428213 TATCTTGTAG
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
37 18 0.40
38 7 0.16
39 14 0.31
40 6 0.13
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (39 bp):
TTAATAGTTTAATATTAAATTAATATTAAAGTAATTATC
Found at i:41430061 original size:19 final size:21
Alignment explanation
Indices: 41430037--41430092 Score: 82
Period size: 19 Copynumber: 2.8 Consensus size: 21
41430027 ATTATGTTTT
41430037 TATATTATATTAT-TATTA-A
1 TATATTATATTATATATTATA
41430056 TATATTATATTATATATTATA
1 TATATTATATTATATATTATA
41430077 TATA-TATATATATATA
1 TATATTATAT-TATATA
41430093 ACAAAAGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.38
20 10 0.29
21 11 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATATTATATTATATATTATA
Found at i:41430071 original size:2 final size:2
Alignment explanation
Indices: 41430037--41430092 Score: 56
Period size: 2 Copynumber: 32.0 Consensus size: 2
41430027 ATTATGTTTT
41430037 TA TA T- TA TA T- TA T- TA T- TA -A TA TA T- TA TA T- 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
41430072 T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
41430093 ACAAAAGAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
1 8 0.17
2 38 0.83
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:41430185 original size:22 final size:22
Alignment explanation
Indices: 41430144--41430186 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
41430134 CAAACGAAAC
*
41430144 AGAGAAGGAAAGAAGGAAAGGA
1 AGAGAAGGAAAGAAGAAAAGGA
41430166 AGAGAA-GAAAGAAAGAAAAGG
1 AGAGAAGGAAAG-AAGAAAAGG
41430187 GGAAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (22 bp):
AGAGAAGGAAAGAAGAAAAGGA
Found at i:41431009 original size:19 final size:19
Alignment explanation
Indices: 41430985--41431059 Score: 68
Period size: 19 Copynumber: 4.0 Consensus size: 19
41430975 TTATGTGTGA
41430985 ATATGTGAATTGTGAATTG
1 ATATGTGAATTGTGAATTG
*
41431004 ATATGTGAATTG-GAAATCG
1 ATATGTGAATTGTG-AATTG
* *
41431023 AGATATGAGATT-TGAA-T-
1 ATATGTGA-ATTGTGAATTG
41431040 ATATGTGAATATGTGAATTG
1 ATATGTGAAT-TGTGAATTG
41431060 TGTATTGATT
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
16 2 0.05
17 7 0.16
18 5 0.12
19 25 0.58
20 4 0.09
ACGTcount: A:0.36, C:0.01, G:0.25, T:0.37
Consensus pattern (19 bp):
ATATGTGAATTGTGAATTG
Found at i:41442020 original size:24 final size:21
Alignment explanation
Indices: 41441981--41442029 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
41441971 TTAAAAAATT
*
41441981 TTTATATAACAAATTTTAACTA
1 TTTATATAAAAAATTTTAA-TA
*
41442003 TTTATATAAAAATTATTTTTATA
1 TTTATATAAAAA--ATTTTAATA
41442026 TTTA
1 TTTA
41442030 ATGTAATCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 11 0.48
23 6 0.26
24 6 0.26
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTATATAAAAAATTTTAATA
Found at i:41447675 original size:44 final size:44
Alignment explanation
Indices: 41447625--41447712 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
41447615 TTTCTGTTGT
41447625 AAAATACACTGCATTTGTTCAGGTTTTCCTGGGGAGCTGTATCC
1 AAAATACACTGCATTTGTTCAGGTTTTCCTGGGGAGCTGTATCC
41447669 AAAATACACTGCATTTGTTCAGGTTTTCCTGGGGAGCTGTATCC
1 AAAATACACTGCATTTGTTCAGGTTTTCCTGGGGAGCTGTATCC
41447713 CTGTGGATGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (44 bp):
AAAATACACTGCATTTGTTCAGGTTTTCCTGGGGAGCTGTATCC
Found at i:41448195 original size:62 final size:62
Alignment explanation
Indices: 41448098--41448220 Score: 237
Period size: 62 Copynumber: 2.0 Consensus size: 62
41448088 CTTCCTCTGC
41448098 GGTATTTATTCATCCTAATGATTCTATTGTGAATAATGTTTTTATCATTGTAAGGTAGTGGT
1 GGTATTTATTCATCCTAATGATTCTATTGTGAATAATGTTTTTATCATTGTAAGGTAGTGGT
*
41448160 GGTATTTATTCATCCTAATGATTCTATTGTGAATAATGTTTTTATCATTGTAATGTAGTGG
1 GGTATTTATTCATCCTAATGATTCTATTGTGAATAATGTTTTTATCATTGTAAGGTAGTGG
41448221 CCTTTACCAA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.26, C:0.08, G:0.19, T:0.47
Consensus pattern (62 bp):
GGTATTTATTCATCCTAATGATTCTATTGTGAATAATGTTTTTATCATTGTAAGGTAGTGGT
Found at i:41452151 original size:15 final size:15
Alignment explanation
Indices: 41452133--41452185 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
41452123 CACTGCCTCA
* * *
41452133 TCATCGTCGTCTTCG
1 TCATCGTCCTCATCC
* *
41452148 TCATCATCCTCGTCC
1 TCATCGTCCTCATCC
*
41452163 TCATCGTCCTCATCT
1 TCATCGTCCTCATCC
41452178 TCATCGTC
1 TCATCGTC
41452186 ATCCTCTTCT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.11, C:0.40, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATCGTCCTCATCC
Found at i:41454626 original size:20 final size:21
Alignment explanation
Indices: 41454598--41454637 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
41454588 GATAAAATAT
*
41454598 ATAGAGAAATCGAAT-CTATC
1 ATAGAGAAAGCGAATGCTATC
*
41454618 ATAGCGAAAGCGAATGCTAT
1 ATAGAGAAAGCGAATGCTAT
41454638 ATTACAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (21 bp):
ATAGAGAAAGCGAATGCTATC
Found at i:41454845 original size:8 final size:7
Alignment explanation
Indices: 41454820--41454844 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
41454810 TTTTAATGAT
41454820 TTTTCAA
1 TTTTCAA
41454827 TTTTCAA
1 TTTTCAA
41454834 TTTTCAA
1 TTTTCAA
41454841 TTTT
1 TTTT
41454845 TTGGTTTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTTCAA
Found at i:41458937 original size:6 final size:6
Alignment explanation
Indices: 41458926--41458959 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
41458916 ATTTTTTCTA
*
41458926 AAATAT AAATAT AAATAT AAATAT AAATAA AAAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAAT
41458960 GAAAATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAATAT
Found at i:41458965 original size:18 final size:17
Alignment explanation
Indices: 41458924--41458965 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
41458914 CAATTTTTTC
*
41458924 TAAAATATAAATATAAA
1 TAAAATATAAATAAAAA
41458941 TATAAATATAAATAAAAA
1 TA-AAATATAAATAAAAA
41458959 TGAAAAT
1 T-AAAAT
41458966 TTATTTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 2 0.09
18 19 0.86
19 1 0.05
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
TAAAATATAAATAAAAA
Found at i:41459642 original size:37 final size:36
Alignment explanation
Indices: 41459600--41459673 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 36
41459590 AAACCCGCTC
41459600 ATATTTAA-A-AAATAATAATTTTACTATTTTTAATTTA
1 ATATTTAATATAAATAAT--TTTTA-TATTTTTAATTTA
*
41459637 ATATTTAATATTAAATAATTTTTATATTTTTTATTTA
1 ATATTTAATA-TAAATAATTTTTATATTTTTAATTTA
41459674 TTAAAATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
37 20 0.61
38 6 0.18
40 7 0.21
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (36 bp):
ATATTTAATATAAATAATTTTTATATTTTTAATTTA
Found at i:41469337 original size:28 final size:26
Alignment explanation
Indices: 41469305--41469364 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
41469295 CCTTATCTCA
41469305 TTATTTAATATATCAATC-TCAATTTCTT
1 TTATTTAATAT-TCAA-CATC-ATTTCTT
*
41469333 TTATTTTAATATTCAACATCATTTTTT
1 TTA-TTTAATATTCAACATCATTTCTT
41469360 TTATT
1 TTATT
41469365 AAAAAGTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
26 2 0.07
27 10 0.34
28 9 0.31
29 8 0.28
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.58
Consensus pattern (26 bp):
TTATTTAATATTCAACATCATTTCTT
Found at i:41476225 original size:132 final size:130
Alignment explanation
Indices: 41475840--41476246 Score: 456
Period size: 132 Copynumber: 3.1 Consensus size: 130
41475830 CGCTTTTTCA
* * * * * * * **
41475840 GCTGCATAGTCTTTATACTCGGTCGCTTTTTCCATTGTAGTATCTTTTGTTTCCTTAGCTTTCTG
1 GCTGCATAATCCTTATATTCAGTCGCTTTTCCCATTGTAGCATCCTTTGCATCCTTAGCTTTCTG
* * * * *
41475905 CGCTGCGTAGTCTGTCA-ACTCGGAAGCCTTCTGCGCTGTCGTATCCTTTGCTCCCTTGGCTTTC
66 TGCTGCATAGTCTGT-ATACTCGGAAGCCTTCTG-GCAGTAGTATCTTTTGCT-CCTTGGCTTTC
**
41475969 TCA
128 TGG
* * *
41475972 GCTGCATAGTCCTTATATTCAGTCGCTTTTCCAATTGCAGCATCCTTTGCATCCTTAGCTTTCTG
1 GCTGCATAATCCTTATATTCAGTCGCTTTTCCCATTGTAGCATCCTTTGCATCCTTAGCTTTCTG
* * * * *
41476037 TGCTGCATAATCTGTATACTCAGAAGCCTTTTGGGATGTAGTATCTCTTGCCTCCTTGGCTTTCT
66 TGCTGCATAGTCTGTATACTCGGAAGCCTTCTGGCA-GTAGTATCTTTTG-CTCCTTGGCTTTCT
41476102 GG
129 GG
* * *
41476104 GCTGTATAATCCTTATATTCAGTCGCTTTCCCCATTGTAGCATCCTTTGCATCCTTAGTTTTCTG
1 GCTGCATAATCCTTATATTCAGTCGCTTTTCCCATTGTAGCATCCTTTGCATCCTTAGCTTTCTG
* * * *
41476169 TGCTGCATAGCCTGTATACTCGGAAGCCTTCTGTGCAGTGGTGTCTTTTGCGTCCTTAGCTTTCT
66 TGCTGCATAGTCTGTATACTCGGAAGCCTTCTG-GCAGTAGTATCTTTTGC-TCCTTGGCTTTCT
41476234 GG
129 GG
*
41476236 GCAGCATAATC
1 GCTGCATAATC
41476247 TGTATACTCA
Statistics
Matches: 231, Mismatches: 39, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
131 3 0.01
132 224 0.97
133 4 0.02
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.40
Consensus pattern (130 bp):
GCTGCATAATCCTTATATTCAGTCGCTTTTCCCATTGTAGCATCCTTTGCATCCTTAGCTTTCTG
TGCTGCATAGTCTGTATACTCGGAAGCCTTCTGGCAGTAGTATCTTTTGCTCCTTGGCTTTCTGG
Found at i:41476227 original size:198 final size:198
Alignment explanation
Indices: 41476014--41476459 Score: 766
Period size: 198 Copynumber: 2.3 Consensus size: 198
41476004 AATTGCAGCA
* * *
41476014 TCCTTTGCATCCTTAGCTTTCTGTGCTGCATAATCTGTATACTCAGAAGCCTTTTGGGATGTAGT
1 TCCTTTGCGTCCTTAGCTTTCTGGGCAGCATAATCTGTATACTCAGAAGCCTTTTGGGATGTAGT
*
41476079 ATCTCTTGCCTCCTTGGCTTTCTGGGCTGTATAATCCTTATATTCAGTCGCTTTCCCCATTGTAG
66 ATCTCTTGCCTCCTTGGCTTTCTCGGCTGTATAATCCTTATATTCAGTCGCTTTCCCCATTGTAG
* *
41476144 CATCCTTTGCATCCTTAGTTTTCTGTGCTGCATAGCCTGTATACTCGGAAGCCTTCTGTGCAGTG
131 CATCCTTTGCACCCTTAGTTTGCTGTGCTGCATAGCCTGTATACTCGGAAGCCTTCTGTGCAGTG
41476209 GTG
196 GTG
* * *
41476212 TCTTTTGCGTCCTTAGCTTTCTGGGCAGCATAATCTGTATACTCAGAAGCCTTTTGGGCTGTGGT
1 TCCTTTGCGTCCTTAGCTTTCTGGGCAGCATAATCTGTATACTCAGAAGCCTTTTGGGATGTAGT
*
41476277 ATCTCTTGCCTCCTTGGCTTTCTCGGCTGTATAATCCTTATATTCAGTCGCTTTCCCCGTTGTAG
66 ATCTCTTGCCTCCTTGGCTTTCTCGGCTGTATAATCCTTATATTCAGTCGCTTTCCCCATTGTAG
* * * *
41476342 CATCCTTTGCACCCTTAGTTTGCTGTGCTGCATAGTCTGTATACTCGGAAGCCTTTTTTGCTGTG
131 CATCCTTTGCACCCTTAGTTTGCTGTGCTGCATAGCCTGTATACTCGGAAGCCTTCTGTGCAGTG
41476407 GTG
196 GTG
41476410 TCCTTTGCGTCCTTAGCTTTCTGGGCAGCATAATCTGTATACTCAGAAGC
1 TCCTTTGCGTCCTTAGCTTTCTGGGCAGCATAATCTGTATACTCAGAAGC
41476460 TTTACCTGTT
Statistics
Matches: 233, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
198 233 1.00
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (198 bp):
TCCTTTGCGTCCTTAGCTTTCTGGGCAGCATAATCTGTATACTCAGAAGCCTTTTGGGATGTAGT
ATCTCTTGCCTCCTTGGCTTTCTCGGCTGTATAATCCTTATATTCAGTCGCTTTCCCCATTGTAG
CATCCTTTGCACCCTTAGTTTGCTGTGCTGCATAGCCTGTATACTCGGAAGCCTTCTGTGCAGTG
GTG
Found at i:41476459 original size:66 final size:66
Alignment explanation
Indices: 41475875--41476459 Score: 357
Period size: 66 Copynumber: 8.9 Consensus size: 66
41475865 CTTTTTCCAT
* ** * * * * *
41475875 TGTAGTATCTTTTGTTTCCTTAGCTTTCTGCGCTGCGTAGTCTGTCA-ACTCGGAAGCCTTCTGC
1 TGTAGTATCCTTTGCATCCTTAGCTTTCTGGGCTGCATAATCTGT-ATACTCAGAAGCCTTTTGC
41475939 GC
65 GC
* * ** * * ** *
41475941 TGTCGTATCCTTTGC-TCCCTTGGCTTTCTCAGCTGCATAGTCCT-TATATTCAGTCG-CTTTTC
1 TGTAGTATCCTTTGCAT-CCTTAGCTTTCTGGGCTGCATAAT-CTGTATACTCAGAAGCCTTTTG
**
41476003 CAAT
64 C-GC
* * * *
41476007 TGCAGCATCCTTTGCATCCTTAGCTTTCTGTGCTGCATAATCTGTATACTCAGAAGCCTTTTGGG
1 TGTAGTATCCTTTGCATCCTTAGCTTTCTGGGCTGCATAATCTGTATACTCAGAAGCCTTTTGCG
*
41476072 A
66 C
* * * * ** *
41476073 TGTAGTAT-CTCTTGCCTCCTTGGCTTTCTGGGCTGTATAATCCT-TATATTCAGTCG-C-TTTC
1 TGTAGTATCCT-TTGCATCCTTAGCTTTCTGGGCTGCATAAT-CTGTATACTCAGAAGCCTTTTG
*
41476134 CCC
64 CGC
* * * ** * *
41476137 ATTGTAGCATCCTTTGCATCCTTAGTTTTCTGTGCTGCATAGCCTGTATACTCGGAAGCCTTCTG
1 --TGTAGTATCCTTTGCATCCTTAGCTTTCTGGGCTGCATAATCTGTATACTCAGAAGCCTTTTG
*
41476202 TGC
64 CGC
* * * * * * *
41476205 AGTGGTGTCTTTTGCGTCCTTAGCTTTCTGGGCAGCATAATCTGTATACTCAGAAGCCTTTTGGG
1 TGTAGTATCCTTTGCATCCTTAGCTTTCTGGGCTGCATAATCTGTATACTCAGAAGCCTTTTGCG
41476270 C
66 C
* * * * * * ** *
41476271 TGTGGTAT-CTCTTGCCTCCTTGGCTTTCTCGGCTGTATAATCCT-TATATTCAGTCG-CTTTCC
1 TGTAGTATCCT-TTGCATCCTTAGCTTTCTGGGCTGCATAAT-CTGTATACTCAGAAGCCTTT-T
* *
41476333 CCGT
63 GCGC
* * * * * **
41476337 TGTAGCATCCTTTGCACCCTTAG-TTTGCTGTGCTGCATAGTCTGTATACTCGGAAGCCTTTTTT
1 TGTAGTATCCTTTGCATCCTTAGCTTT-CTGGGCTGCATAATCTGTATACTCAGAAGCCTTTTGC
41476401 GC
65 GC
* * * *
41476403 TGTGGTGTCCTTTGCGTCCTTAGCTTTCTGGGCAGCATAATCTGTATACTCAGAAGC
1 TGTAGTATCCTTTGCATCCTTAGCTTTCTGGGCTGCATAATCTGTATACTCAGAAGC
41476460 TTTACCTGTT
Statistics
Matches: 383, Mismatches: 113, Indels: 46
0.71 0.21 0.08
Matches are distributed among these distances:
64 3 0.01
65 24 0.06
66 329 0.86
67 24 0.06
68 3 0.01
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (66 bp):
TGTAGTATCCTTTGCATCCTTAGCTTTCTGGGCTGCATAATCTGTATACTCAGAAGCCTTTTGCG
C
Found at i:41479111 original size:17 final size:16
Alignment explanation
Indices: 41479089--41479124 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
41479079 CTTAATACAA
41479089 ATTATATATAAAATAGT
1 ATTATATA-AAAATAGT
*
41479106 ATTATATAAAAATATT
1 ATTATATAAAAATAGT
41479122 ATT
1 ATT
41479125 GACTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
ATTATATAAAAATAGT
Found at i:41479855 original size:109 final size:109
Alignment explanation
Indices: 41479725--41479971 Score: 359
Period size: 109 Copynumber: 2.3 Consensus size: 109
41479715 GGCACGTTCA
* * * * * *
41479725 TCGAATTTTCAAACGCAAAACATTGCCTTATTTGAGAATTTTTAAAATGATATTTAGCCATTTGA
1 TCGAATTTCCAAACGCAAAACATTGCCTTATTTGAAAAATTTTAAAAAGATATTAAACCATTTGA
* *
41479790 TTGAATGAGAAAAATCGACACCCAACACCTTAGGGTATGTTTTC
66 TTGAACGAGAAAAATCGACACCCAACACCTTAGGGCATGTTTTC
* *
41479834 TCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAATTTTAAAAAGATATTAAACCATTTGG
1 TCGAATTTCCAAACGCAAAACATTGCCTTATTTGAAAAATTTTAAAAAGATATTAAACCATTTGA
*
41479899 TTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTC
66 TTGAACGAGAAAAATCGACACCCAACACCTTAGGGCATGTTTTC
* * *
41479943 TTGAATTTCCCAAACGCTAAATATTGCCT
1 TCGAATTT-CCAAACGCAAAACATTGCCT
41479972 CAATTAGAAA
Statistics
Matches: 123, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
109 105 0.85
110 18 0.15
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.32
Consensus pattern (109 bp):
TCGAATTTCCAAACGCAAAACATTGCCTTATTTGAAAAATTTTAAAAAGATATTAAACCATTTGA
TTGAACGAGAAAAATCGACACCCAACACCTTAGGGCATGTTTTC
Found at i:41480309 original size:17 final size:18
Alignment explanation
Indices: 41480289--41480322 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41480279 TATATGTTTT
41480289 AAGGATAT-TAAATATAA
1 AAGGATATGTAAATATAA
*
41480306 AAGGTTATGTAAATATA
1 AAGGATATGTAAATATA
41480323 TATACATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (18 bp):
AAGGATATGTAAATATAA
Found at i:41482806 original size:173 final size:173
Alignment explanation
Indices: 41482610--41485445 Score: 3338
Period size: 173 Copynumber: 16.4 Consensus size: 173
41482600 CCACCGTAAT
* * ** * ** *
41482610 CGATAGAGGCAAGACTTTGTTTTTTATCTGCTTCACTGTTAACGCAGGAATACAAGATCTGCTTA
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTC
* * *
41482675 TTTGACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATA
66 TTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATG
*
41482740 CAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAAC
131 CAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAC
* * *
41482783 CGATGGAGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAATGCAGGAATGCAAGATCTGCTTC
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTC
* *
41482848 TTTGACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATG
66 TTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATG
* * *
41482913 CAAGAAGGCAAGATCTGCTATCTTTAACCAGCTCCATTGCAAC
131 CAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAC
* * * * * * * *
41482956 TGATGGAGGCAAGGCTTGCGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAAATATGTTG
1 CGATGGAGGCAAGGCTT-TGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-
* * * *
41483021 TCTTCAACCAGCTCCACTACAACCGA-GAGAGGCAAGGCTTGCGTCTTCGATCTGCTTCGCTGTC
64 TCTTTAACCAGCTCCACTACAACCGATG-GAGGCAAGGCTT-TGTTTTCGATCTGCTTCGCTGTT
* * * * * * *
41483085 AAGGCAGGAAGGCAAAATATGTTGTCTTCAACCAGCTCCAATACAAC
127 AATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAC
* * * * *
41483132 CGA-GAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCGGTCAAGGCAGGAAGGCAAGATTTGT
1 CGATG-GAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGC
* * * * * * *
41483195 TGTCTTCAACCAACTCCACTACAACCGATAGAGGCAAGG-TTTGTGTCTTTGATATTCTTTGCTG
63 T-TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTG
* * * * *
41483259 TTAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAACTCCACTACAAC
125 TTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAC
* * * *
41483308 CGA-GAAAGGCAAGG-TTTGTATCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGG
1 CGATG-GAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGC
* * *
41483371 TGTCTTCAACCAGCTCCACTACAACCGA-GAGATGCAAGG-TTTGTTTTCGGTCTGCTTCGCTGT
63 T-TCTTTAACCAGCTCCACTACAACCGATG-GAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGT
* * * *
41483434 TAACGCAGAAAGGCAAGATCTGTTATCTTTAACTAGCTCCACTACAAC
126 TAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAC
* * *
41483482 CGATGGAGGCAAGGCTTTATTTTCGATCTGCTTCGCTGTTAACGCAAGAAGGCAATATCTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-T
41483547 CTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
65 CTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
41483612 GCAGGAAGGCAAGATCTGCTATCTTT----A-----ACTACAAC
130 GCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAC
* *
41483647 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGACAAGATCTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-T
* * *
41483712 CTTTAACCAGCTCCACTACAACTGATGGAGGCAAGGCTTTGTTTTTGATCTGTTTCGCTGTTAAT
65 CTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
* * * *
41483777 GTAGGAATGCAAGATCTGCT-TCTTTGACCAGCTCCACTGCAAC
130 GCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAC
* * *
41483820 CGATGGAGGCAATGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAAGAAGGCAAGATCTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-T
* * * * * *
41483885 CTTTAATCAGCTCCATTGCAACCGATGGAGGCAAGACTTTATTTTCGATCTGCTTCGCTGTTAAC
65 CTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
* * * *
41483950 GCAGGAAGACAAGATTTGCTATCTTCAACCAGTTCCACTACAAC
130 GCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAC
* * * * * * * *
41483994 TGATGGAGGCAAGGCTTGCGTCTTCGATCTGCTTCGCTGTCAAGGCAAGAAGGCAAAATCTGTTG
1 CGATGGAGGCAAGGCTT-TGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-
* * *
41484059 TCTTCAACCAACTCCACTACAACCGA-GAAAGGCAAGG-TTTGTATCTTCGATCTGCTTCGCTGT
64 TCTTTAACCAGCTCCACTACAACCGATG-GAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGT
* * * * * * *
41484122 CAAGGTAGGAAGGTAAGATCTGGTGTCTTCAACCAGCTCCACTACAAC
126 TAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAC
* * * * *
41484170 CGA-GAGAGGCAAGG-TTTATTTTCGGTCTGCTTCGCTGTTAACGTAAGAAGGCAAGATCTGTTA
1 CGATG-GAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-
* *
41484233 TCTTTAACTAGCTCCACTACAACCGATGGAGGCAAGGCTTTATTTTCGATCTGCTTCGCTGTTAA
64 TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAA
*
41484298 CGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAC
129 TGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAC
* *
41484343 CGATGGAGGCAATGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-T
41484408 CTTT----A-----ACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
65 CTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
* * *
41484464 GCAGGAAGGTAAGATCTTCTATCTTTAACCAGCTCCACTGCAAC
130 GCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAC
** * * * * *
41484508 CGATGGAGGCAAGGCTTTGTTTTTTATCTGTTTCACTGTTAATGCAGGAATGTAAGATCTGCTTC
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTC
* * * *
41484573 TTTGACCAGTTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTACTTCGCTGTTAATG
66 TTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATG
* * * * * *
41484638 TAAGAAGGCAAGATCTGCTATCTTTAATCAGCTCTATTGCAAC
131 CAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAC
* * *
41484681 CGATGGAGGCAAGACTTTATTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATTTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-T
* * * * *
41484746 CTTCAACCAGCTCCACTACAACTGATGGAGGCAAGGCTTGCGTCTTCGATCTGCTTCGCTGTCAA
65 CTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTT-TGTTTTCGATCTGCTTCGCTGTTAA
* * * * * *
41484811 GGCAGGAAGGTAAAATCTGTTGTCTTCAACCAGCTCCACTACAAC
129 TGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAC
* * ** * * *
41484856 TGA-GAGAGGCAAGG-TTTGTGTCTTTGATCTGCTTCGCAATCAAGGCAGGAAGGCAAGATCTGT
1 CGATG-GAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGC
* * *
41484919 TGTCTTCAACCAGCTCCACTACAATCGA-GAGAGGCAAGG-TTTGTATCTTCGATCTGCTTCACT
63 T-TCTTTAACCAGCTCCACTACAACCGATG-GAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCT
* * * * *
41484982 GTCAAGGCAGGAAGGCAAGATCTAG-TGTCTTCAACCAGCTCTACTACAAC
124 GTTAATGCAGGAAGGCAAGATCT-GCTATCTTTAACCAGCTCCACTACAAC
* ** * *
41485032 CGA-GAGAGGCGAGG-TTTGTTTTTAATCTGCTTTGCTGTTAACGCAGGAAGGCAAGATCTGTTA
1 CGATG-GAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-
* * * *
41485095 TCTTTAACCAGCTCCACTACAACTGATGGAGGCAACGTTTTATTTTCGATCTGCTTCGCTGTTAA
64 TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAA
*
41485160 CGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAC
129 TGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAC
* *
41485205 CGAAGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-T
* *
41485270 CTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAAT
65 CTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
* *
41485335 GCAGGAAGGCAATATCTGCT-TCTTTAACCAGCTCCACTGCAAC
130 GCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAC
* * * *
41485378 CGATAGAGGCAAGACTTTGCTTTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-T
41485443 CTT
65 CTT
41485446 CACTAATCTG
Statistics
Matches: 2321, Mismatches: 285, Indels: 114
0.85 0.10 0.04
Matches are distributed among these distances:
164 10 0.00
165 294 0.13
168 2 0.00
170 2 0.00
172 1 0.00
173 752 0.32
174 551 0.24
175 197 0.08
176 511 0.22
177 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (173 bp):
CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTC
TTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATG
CAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAC
Found at i:41483031 original size:88 final size:87
Alignment explanation
Indices: 41482610--41485445 Score: 3398
Period size: 87 Copynumber: 32.8 Consensus size: 87
41482600 CCACCGTAAT
* * ** * * **
41482610 CGATAGAGGCAAGACTTTGTTTTTTATCTGCTTCACTGTTAACGCAGGAATACAAGATCTGCT-T
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
* * *
41482674 ATTTGACCAGCTCCACTGCAAC
66 CTTTAACCAGCTCCACTACAAC
*
41482696 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATACAGGAAGGCAAGATCTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
*
41482761 CTTTAACCAGCTCCACTGCAAC
66 CTTTAACCAGCTCCACTACAAC
* *
41482783 CGATGGAGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAATGCAGGAATGCAAGATCTGCT-T
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
* *
41482847 CTTTGACCAGCTCCACTGCAAC
66 CTTTAACCAGCTCCACTACAAC
*
41482869 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAAGAAGGCAAGATCTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
* *
41482934 CTTTAACCAGCTCCATTGCAAC
66 CTTTAACCAGCTCCACTACAAC
* * * * * * * * *
41482956 TGATGGAGGCAAGGCTTGCGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAAATATGTTG
1 CGATGGAGGCAAGGCTT-TGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTA
*
41483021 TCTTCAACCAGCTCCACTACAAC
65 TCTTTAACCAGCTCCACTACAAC
* * * * * * *
41483044 CGA-GAGAGGCAAGGCTTGCGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAAATATGTT
1 CGATG-GAGGCAAGGCTT-TGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCT
* * *
41483108 GTCTTCAACCAGCTCCAATACAAC
64 ATCTTTAACCAGCTCCACTACAAC
* * * * *
41483132 CGA-GAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCGGTCAAGGCAGGAAGGCAAGATTTGT
1 CGATG-GAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGC
* * *
41483195 TGTCTTCAACCAACTCCACTACAAC
63 TATCTTTAACCAGCTCCACTACAAC
* * * * * * *
41483220 CGATAGAGGCAAGG-TTTGTGTCTTTGATATTCTTTGCTGTTAAGGCAGGAAGGCAAGATCTGTT
1 CGATGGAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCT
* * *
41483284 GTCTTCAACCAACTCCACTACAAC
64 ATCTTTAACCAGCTCCACTACAAC
* * * *
41483308 CGA-GAAAGGCAAGG-TTTGTATCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGG
1 CGATG-GAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGC
* *
41483371 TGTCTTCAACCAGCTCCACTACAAC
63 TATCTTTAACCAGCTCCACTACAAC
* * * * *
41483396 CGA-GAGATGCAAGG-TTTGTTTTCGGTCTGCTTCGCTGTTAACGCAGAAAGGCAAGATCTGTTA
1 CGATG-GAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTA
*
41483459 TCTTTAACTAGCTCCACTACAAC
65 TCTTTAACCAGCTCCACTACAAC
* * * *
41483482 CGATGGAGGCAAGGCTTTATTTTCGATCTGCTTCGCTGTTAACGCAAGAAGGCAATATCTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
41483547 CTTTAACCAGCTCCACTACAAC
66 CTTTAACCAGCTCCACTACAAC
41483569 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
41483634 CTTT----A-----ACTACAAC
66 CTTTAACCAGCTCCACTACAAC
*
41483647 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGACAAGATCTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
41483712 CTTTAACCAGCTCCACTACAAC
66 CTTTAACCAGCTCCACTACAAC
* * * * *
41483734 TGATGGAGGCAAGGCTTTGTTTTTGATCTGTTTCGCTGTTAATGTAGGAATGCAAGATCTGCT-T
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
* *
41483798 CTTTGACCAGCTCCACTGCAAC
66 CTTTAACCAGCTCCACTACAAC
* *
41483820 CGATGGAGGCAATGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAAGAAGGCAAGATCTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
* * *
41483885 CTTTAATCAGCTCCATTGCAAC
66 CTTTAACCAGCTCCACTACAAC
* * * * *
41483907 CGATGGAGGCAAGACTTTATTTTCGATCTGCTTCGCTGTTAACGCAGGAAGACAAGATTTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
* *
41483972 CTTCAACCAGTTCCACTACAAC
66 CTTTAACCAGCTCCACTACAAC
* * * * * * * * *
41483994 TGATGGAGGCAAGGCTTGCGTCTTCGATCTGCTTCGCTGTCAAGGCAAGAAGGCAAAATCTGTTG
1 CGATGGAGGCAAGGCTT-TGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTA
* *
41484059 TCTTCAACCAACTCCACTACAAC
65 TCTTTAACCAGCTCCACTACAAC
* * * * * *
41484082 CGA-GAAAGGCAAGG-TTTGTATCTTCGATCTGCTTCGCTGTCAAGGTAGGAAGGTAAGATCTGG
1 CGATG-GAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGC
* *
41484145 TGTCTTCAACCAGCTCCACTACAAC
63 TATCTTTAACCAGCTCCACTACAAC
* * * * * *
41484170 CGA-GAGAGGCAAGG-TTTATTTTCGGTCTGCTTCGCTGTTAACGTAAGAAGGCAAGATCTGTTA
1 CGATG-GAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTA
*
41484233 TCTTTAACTAGCTCCACTACAAC
65 TCTTTAACCAGCTCCACTACAAC
* *
41484256 CGATGGAGGCAAGGCTTTATTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
41484321 CTTTAACCAGCTCCACTACAAC
66 CTTTAACCAGCTCCACTACAAC
*
41484343 CGATGGAGGCAATGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
41484408 CTTT----A-----ACTACAAC
66 CTTTAACCAGCTCCACTACAAC
* *
41484421 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGTAAGATCTTCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
*
41484486 CTTTAACCAGCTCCACTGCAAC
66 CTTTAACCAGCTCCACTACAAC
** * * * *
41484508 CGATGGAGGCAAGGCTTTGTTTTTTATCTGTTTCACTGTTAATGCAGGAATGTAAGATCTGCT-T
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
* * *
41484572 CTTTGACCAGTTCCACTGCAAC
66 CTTTAACCAGCTCCACTACAAC
* * *
41484594 CGATGGAGGCAAGGCTTTGTTTTCGATCTACTTCGCTGTTAATGTAAGAAGGCAAGATCTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
* * * *
41484659 CTTTAATCAGCTCTATTGCAAC
66 CTTTAACCAGCTCCACTACAAC
* * * *
41484681 CGATGGAGGCAAGACTTTATTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATTTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
*
41484746 CTTCAACCAGCTCCACTACAAC
66 CTTTAACCAGCTCCACTACAAC
* * * * * * * * *
41484768 TGATGGAGGCAAGGCTTGCGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGTAAAATCTGTTG
1 CGATGGAGGCAAGGCTT-TGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTA
*
41484833 TCTTCAACCAGCTCCACTACAAC
65 TCTTTAACCAGCTCCACTACAAC
* * ** * * *
41484856 TGA-GAGAGGCAAGG-TTTGTGTCTTTGATCTGCTTCGCAATCAAGGCAGGAAGGCAAGATCTGT
1 CGATG-GAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGC
* * *
41484919 TGTCTTCAACCAGCTCCACTACAAT
63 TATCTTTAACCAGCTCCACTACAAC
* * *
41484944 CGA-GAGAGGCAAGG-TTTGTATCTTCGATCTGCTTCACTGTCAAGGCAGGAAGGCAAGATCTAG
1 CGATG-GAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCT-G
* * *
41485007 -TGTCTTCAACCAGCTCTACTACAAC
62 CTATCTTTAACCAGCTCCACTACAAC
* ** * * *
41485032 CGA-GAGAGGCGAGG-TTTGTTTTTAATCTGCTTTGCTGTTAACGCAGGAAGGCAAGATCTGTTA
1 CGATG-GAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTA
41485095 TCTTTAACCAGCTCCACTACAAC
65 TCTTTAACCAGCTCCACTACAAC
* * * * *
41485118 TGATGGAGGCAACGTTTTATTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
41485183 CTTTAACCAGCTCCACTACAAC
66 CTTTAACCAGCTCCACTACAAC
*
41485205 CGAAGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
*
41485270 CTTTAACCAGCTCCACTGCAAC
66 CTTTAACCAGCTCCACTACAAC
* *
41485292 CGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAATATCTGCT-T
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
*
41485356 CTTTAACCAGCTCCACTGCAAC
66 CTTTAACCAGCTCCACTACAAC
* * * * *
41485378 CGATAGAGGCAAGACTTTGCTTTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTAT
1 CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
41485443 CTT
66 CTT
41485446 CACTAATCTG
Statistics
Matches: 2447, Mismatches: 258, Indels: 89
0.88 0.09 0.03
Matches are distributed among these distances:
78 150 0.06
82 2 0.00
83 2 0.00
85 1 0.00
86 575 0.23
87 954 0.39
88 762 0.31
89 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (87 bp):
CGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTAT
CTTTAACCAGCTCCACTACAAC
Found at i:41483186 original size:44 final size:45
Alignment explanation
Indices: 41482975--41483377 Score: 142
Period size: 44 Copynumber: 9.1 Consensus size: 45
41482965 CAAGGCTTGC
* * *
41482975 GTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAAATATGTT
1 GTCTTCGATCTGCTTCGCAGTCAAGGCAGGAAGGCAAGATTTGTT
* * * * * ** *
41483020 GTCTTCAACCAGC-TC-CACTACAA--CCGAGAGAGGCAAGGCTTG-C
1 GTCTTCGATCTGCTTCGCAGT-CAAGGCAG-GA-AGGCAAGATTTGTT
* * *
41483063 GTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAAATATGTT
1 GTCTTCGATCTGCTTCGCAGTCAAGGCAGGAAGGCAAGATTTGTT
* * * * * *
41483108 GTCTTCAACCAGC-TC-CAATACAA--CCGAGAGAGGCAAGGTTTG-T
1 GTCTTCGATCTGCTTCGCAGT-CAAGGCAG-GA-AGGCAAGATTTGTT
*
41483151 GTCTTCGATCTGCTTCGCGGTCAAGGCAGGAAGGCAAGATTTGTT
1 GTCTTCGATCTGCTTCGCAGTCAAGGCAGGAAGGCAAGATTTGTT
* * ** * * * *
41483196 GTCTTCAACCAAC-TC-CACTACAA--CCGATAGAGGCAAGGTTTG-T
1 GTCTTCGATCTGCTTCGCAGT-CAAGGCAG-GA-AGGCAAGATTTGTT
* * * * * * *
41483239 GTCTTTGATATTCTTTGCTGTTAAGGCAGGAAGGCAAGATCTGTT
1 GTCTTCGATCTGCTTCGCAGTCAAGGCAGGAAGGCAAGATTTGTT
* * ** * * * *
41483284 GTCTTCAACCAAC-TC-CACTACAA-CCGAGAAAGGCAAGGTTTG-T
1 GTCTTCGATCTGCTTCGCAGT-CAAGGC-AGGAAGGCAAGATTTGTT
* * * *
41483327 ATCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGGT
1 GTCTTCGATCTGCTTCGCAGTCAAGGCAGGAAGGCAAGATTTGTT
41483372 GTCTTC
1 GTCTTC
41483378 AACCAGCTCC
Statistics
Matches: 241, Mismatches: 87, Indels: 60
0.62 0.22 0.15
Matches are distributed among these distances:
42 6 0.02
43 52 0.22
44 119 0.49
45 58 0.24
46 6 0.02
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (45 bp):
GTCTTCGATCTGCTTCGCAGTCAAGGCAGGAAGGCAAGATTTGTT
Found at i:41484184 original size:774 final size:776
Alignment explanation
Indices: 41482636--41485445 Score: 4118
Period size: 774 Copynumber: 3.6 Consensus size: 776
41482626 TTGTTTTTTA
* ** * *
41482636 TCTGCTTCACTGTTAACGCAGGAATACAAGATCTGCTTA--TTTGACCAGCTCCACTGCAACCGA
1 TCTGCTTCACTGTTAACGCAGAAAGGCAAGATCTG-TTATCTTTAACCAGCTCCACTACAACCGA
* **
41482699 TGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATACAGGAAGGCAAGATCTGCTATCTT
65 TGGAGGCAAGGCTTTATTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTT
* *
41482764 TAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAATGCA
130 TAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCA
* *
41482829 GGAATGCAAGATCTGCT-TCTTTGACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTC
195 GGAAGGCAAGATCTGCTATCTTT-A--A----CACTACAACCGATGGAGGCAAGGCTTTGTTTTC
* * *
41482893 GATCTGCTTCGCTGTTAATGCAAGAAGGCAAGATCTGCTATCTTTAACCAGCTCCATTGCAACTG
253 GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCG
* * * * * *
41482958 ATGGAGGCAAGGCTTGCGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAAATATGTTGTC
318 ATGGAGGCAAGGCTT-CGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCT-TC
* * * * *
41483023 TTCAACCAGCTCCACTACAACCGA-GAGAGGCAAGGCTTGCGTCTTCGATCTGCTTCGCTGTCAA
381 TTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGCTT-TGTTTTCGATCTGCTTCGCTGTTAA
* * * * * * * * * * * *
41483087 GGCAGGAAGGCAAAATATGTTGTCTTCAACCAGCTCCAATACAACCGA-GAGAGGCAAG-GTTTG
444 TGCAAGAAGGCAAGATCTGCTATCTTTAATCAGCTCCATTGCAACCGATG-GAGGCAAGACTTTA
* * * * * *
41483150 TGTCTTCGATCTGCTTCGCGGTCAAGGCAGGAAGGCAAGATTTGTTGTCTTCAACCAACTCCACT
508 T-T-TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATTTGCTATCTTCAACCAGCTCCACT
* * * * * * * * * *
41483215 ACAACCGATAGAGGCAAGGTTTGTGTCTTTGATATTCTTTGCTGTTAAGGCAGGAAGGCAAGATC
571 ACAACTGATGGAGGCAAGGCTTGCGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAAATC
41483280 TGTTGTCTTCAACCAACTCCACTACAACCGAGAAAGGCAAGGTTTGTATCTTCGATCTGCTTCGC
636 TGTTGTCTTCAACCAACTCCACTACAACCGAGAAAGGCAAGGTTTGTATCTTCGATCTGCTTCGC
*
41483345 TGTCAAGGCAGGAAGGCAAGATCTGGTGTCTTCAACCAGCTCCACTACAACCGAGAGATGCAAGG
701 TGTCAAGGCAGGAAGGCAAGATCTGGTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGG
41483410 TTTGTTTTCGG
766 TTTGTTTTCGG
* *
41483421 TCTGCTTCGCTGTTAACGCAGAAAGGCAAGATCTGTTATCTTTAACTAGCTCCACTACAACCGAT
1 TCTGCTTCACTGTTAACGCAGAAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGAT
* *
41483486 GGAGGCAAGGCTTTATTTTCGATCTGCTTCGCTGTTAACGCAAGAAGGCAATATCTGCTATCTTT
66 GGAGGCAAGGCTTTATTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTT
41483551 AACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAG
131 AACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAG
41483616 GAAGGCAAGATCTGCTATCTTT-A-ACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCT
196 GAAGGCAAGATCTGCTATCTTTAACACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCT
* * *
41483679 TCGCTGTTAATGCAGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTACAACTGATGGAGGC
261 TCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGC
* * * * * *
41483744 AAGGCTTTGTTTTTGATCTGTTTCGCTGTTAATGTAGGAATGCAAGATCTGCTTCTTTGACCAGC
326 AAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGC
*
41483809 TCCACTGCAACCGATGGAGGCAATGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAAGAAGGCA
391 TCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAAGAAGGCA
41483874 AGATCTGCTATCTTTAATCAGCTCCATTGCAACCGATGGAGGCAAGACTTTATTTTCGATCTGCT
456 AGATCTGCTATCTTTAATCAGCTCCATTGCAACCGATGGAGGCAAGACTTTATTTTCGATCTGCT
* *
41483939 TCGCTGTTAACGCAGGAAGACAAGATTTGCTATCTTCAACCAGTTCCACTACAACTGATGGAGGC
521 TCGCTGTTAACGCAGGAAGGCAAGATTTGCTATCTTCAACCAGCTCCACTACAACTGATGGAGGC
*
41484004 AAGGCTTGCGTCTTCGATCTGCTTCGCTGTCAAGGCAAGAAGGCAAAATCTGTTGTCTTCAACCA
586 AAGGCTTGCGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAAATCTGTTGTCTTCAACCA
*
41484069 ACTCCACTACAACCGAGAAAGGCAAGGTTTGTATCTTCGATCTGCTTCGCTGTCAAGGTAGGAAG
651 ACTCCACTACAACCGAGAAAGGCAAGGTTTGTATCTTCGATCTGCTTCGCTGTCAAGGCAGGAAG
* *
41484134 GTAAGATCTGGTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTATTTTCGG
716 GCAAGATCTGGTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTTTTCGG
* * *
41484195 TCTGCTTCGCTGTTAACGTA-AGAAGGCAAGATCTGTTATCTTTAACTAGCTCCACTACAACCGA
1 TCTGCTTCACTGTTAACGCAGA-AAGGCAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGA
41484259 TGGAGGCAAGGCTTTATTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTT
65 TGGAGGCAAGGCTTTATTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTT
*
41484324 TAACCAGCTCCACTACAACCGATGGAGGCAATGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCA
130 TAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCA
41484389 GGAAGGCAAGATCTGCTATCTTT-A-ACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGC
195 GGAAGGCAAGATCTGCTATCTTTAACACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGC
* *
41484452 TTCGCTGTTAATGCAGGAAGGTAAGATCTTCTATCTTTAACCAGCTCCACTGCAACCGATGGAGG
260 TTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGG
* ** * * * * *
41484517 CAAGGCTTTGTTTTTTATCTGTTTCACTGTTAATGCAGGAATGTAAGATCTGCTTCTTTGACCAG
325 CAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAG
* * *
41484582 TTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTACTTCGCTGTTAATGTAAGAAGGC
390 CTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAAGAAGGC
*
41484647 AAGATCTGCTATCTTTAATCAGCTCTATTGCAACCGATGGAGGCAAGACTTTATTTTCGATCTGC
455 AAGATCTGCTATCTTTAATCAGCTCCATTGCAACCGATGGAGGCAAGACTTTATTTTCGATCTGC
41484712 TTCGCTGTTAACGCAGGAAGGCAAGATTTGCTATCTTCAACCAGCTCCACTACAACTGATGGAGG
520 TTCGCTGTTAACGCAGGAAGGCAAGATTTGCTATCTTCAACCAGCTCCACTACAACTGATGGAGG
*
41484777 CAAGGCTTGCGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGTAAAATCTGTTGTCTTCAACC
585 CAAGGCTTGCGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAAATCTGTTGTCTTCAACC
* * * * * **
41484842 AGCTCCACTACAACTGAGAGAGGCAAGGTTTGTGTCTTTGATCTGCTTCGCAATCAAGGCAGGAA
650 AACTCCACTACAACCGAGAAAGGCAAGGTTTGTATCTTCGATCTGCTTCGCTGTCAAGGCAGGAA
* * *
41484907 GGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAATCGAGAGAGGCAAGGTTTGTATCTTCGA
715 GGCAAGATCTGGTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGT-T-TTCGG
* * * * * *
41484971 TCTGCTTCACTGTCAAGGCAGGAAGGCAAGATCTAG-TGTCTTCAACCAGCTCTACTACAACCGA
1 TCTGCTTCACTGTTAACGCAGAAAGGCAAGATCT-GTTATCTTTAACCAGCTCCACTACAACCGA
* * ** * *
41485035 -GAGAGGCGAGG-TTTGTTTTTAATCTGCTTTGCTGTTAACGCAGGAAGGCAAGATCTGTTATCT
65 TG-GAGGCAAGGCTTTATTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCT
* * * * *
41485098 TTAACCAGCTCCACTACAACTGATGGAGGCAACGTTTTATTTTCGATCTGCTTCGCTGTTAACGC
129 TTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGC
*
41485163 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGAAGGAGGCAAGGCTTTGTTTT
194 AGGAAGGCAAGATCTGCTATCTTT-A--A----CACTACAACCGATGGAGGCAAGGCTTTGTTTT
41485228 CGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACC
252 CGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACC
*
41485293 GATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAATATCTGCTTCT
317 GATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTTCT
* * * * *
41485358 TTAACCAGCTCCACTGCAACCGATAGAGGCAAGACTTTGCTTTCGATCTGCTTCACTGTTAACGC
382 TTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGC
*
41485423 AGGAAGGCAAGATCTGCTATCTT
447 AAGAAGGCAAGATCTGCTATCTT
41485446 CACTAATCTG
Statistics
Matches: 1855, Mismatches: 149, Indels: 43
0.91 0.07 0.02
Matches are distributed among these distances:
773 1 0.00
774 976 0.53
775 202 0.11
776 103 0.06
777 37 0.02
778 107 0.06
779 1 0.00
783 1 0.00
784 231 0.12
785 31 0.02
786 160 0.09
787 5 0.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (776 bp):
TCTGCTTCACTGTTAACGCAGAAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGAT
GGAGGCAAGGCTTTATTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTT
AACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAG
GAAGGCAAGATCTGCTATCTTTAACACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCT
TCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGC
AAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGC
TCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAAGAAGGCA
AGATCTGCTATCTTTAATCAGCTCCATTGCAACCGATGGAGGCAAGACTTTATTTTCGATCTGCT
TCGCTGTTAACGCAGGAAGGCAAGATTTGCTATCTTCAACCAGCTCCACTACAACTGATGGAGGC
AAGGCTTGCGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAAATCTGTTGTCTTCAACCA
ACTCCACTACAACCGAGAAAGGCAAGGTTTGTATCTTCGATCTGCTTCGCTGTCAAGGCAGGAAG
GCAAGATCTGGTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTTTTCGG
Found at i:41484954 original size:44 final size:42
Alignment explanation
Indices: 41484825--41485041 Score: 134
Period size: 44 Copynumber: 4.9 Consensus size: 42
41484815 GGAAGGTAAA
41484825 ATCTGTTGTCTTCAACCAGCTCCACTACAACTGAGAGAGGCAAG
1 ATCTG-TGTCTTCAACCAGCTCCACTACAAC-GAGAGAGGCAAG
* * ** * * * *
41484869 GTTTGTGTCTTTGATCTGCTTCGCAAT-CAAGGCAG-GAAGGCAAG
1 ATCTGTGTCTTCAACCAGC-TC-CACTACAACG-AGAG-AGGCAAG
41484913 ATCTGTTGTCTTCAACCAGCTCCACTACAATCGAGAGAGGCAAG
1 ATCTG-TGTCTTCAACCAGCTCCACTACAA-CGAGAGAGGCAAG
* * * * * * * * *
41484957 GTTTGTATCTTCGATCTGCTTCACTGTCAAGGCAG-GAAGGCAAG
1 ATCTGTGTCTTCAACCAGCTCCACT-ACAACG-AGAG-AGGCAAG
*
41485001 ATCTAGTGTCTTCAACCAGCTCTACTACAACCGAGAGAGGC
1 ATCT-GTGTCTTCAACCAGCTCCACTACAA-CGAGAGAGGC
41485042 GAGGTTTGTT
Statistics
Matches: 124, Mismatches: 35, Indels: 28
0.66 0.19 0.15
Matches are distributed among these distances:
43 32 0.26
44 60 0.48
45 32 0.26
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (42 bp):
ATCTGTGTCTTCAACCAGCTCCACTACAACGAGAGAGGCAAG
Found at i:41485260 original size:43 final size:43
Alignment explanation
Indices: 41485211--41485346 Score: 100
Period size: 43 Copynumber: 3.1 Consensus size: 43
41485201 CAACCGAAGG
41485211 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
* * ** * * * * * *
41485254 AGGCAA-GATCTGCTATCTTTAACCAGCTCCACTG-CAA-CCGATGG-
1 AGGCAAGGCTTTG-T-T-TTCGATCTGCTTCGCTGTTAATGC-A-GGA
*
41485298 AGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
41485341 AGGCAA
1 AGGCAA
41485347 TATCTGCTTC
Statistics
Matches: 63, Mismatches: 21, Indels: 18
0.62 0.21 0.18
Matches are distributed among these distances:
42 17 0.27
43 18 0.29
44 12 0.19
45 16 0.25
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (43 bp):
AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
Found at i:41487754 original size:41 final size:41
Alignment explanation
Indices: 41487704--41487879 Score: 271
Period size: 41 Copynumber: 4.3 Consensus size: 41
41487694 AATTCATCAT
* *
41487704 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
41487745 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
41487786 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
41487827 ATTCAAATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
41487868 ATTCATATCACC
1 ATTCAGATCACC
41487880 AATTCCAAAC
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 123 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:41487847 original size:82 final size:82
Alignment explanation
Indices: 41487710--41487879 Score: 322
Period size: 82 Copynumber: 2.1 Consensus size: 82
41487700 TCATATTCGG
* *
41487710 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCTAGG
41487775 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
41487792 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCTAGG
41487857 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
41487874 ATCACC
1 ATCACC
41487880 AATTCCAAAC
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 86 1.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:41495391 original size:41 final size:41
Alignment explanation
Indices: 41495341--41495515 Score: 271
Period size: 41 Copynumber: 4.3 Consensus size: 41
41495331 AATTCATCAT
* *
41495341 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
41495382 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
41495423 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
41495464 ATTCA-ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
41495504 ATTCATATCACC
1 ATTCAGATCACC
41495516 AATTCCAAAC
Statistics
Matches: 123, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
40 38 0.31
41 85 0.69
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:41495509 original size:81 final size:82
Alignment explanation
Indices: 41495347--41495515 Score: 322
Period size: 81 Copynumber: 2.1 Consensus size: 82
41495337 TCATATTCGG
*
41495347 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
41495412 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
41495429 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCA-ATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
41495493 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
41495510 ATCACC
1 ATCACC
41495516 AATTCCAAAC
Statistics
Matches: 86, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
81 46 0.53
82 40 0.47
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:41495765 original size:18 final size:17
Alignment explanation
Indices: 41495738--41495788 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
41495728 ACACATATAT
41495738 ATATATATATATACACAC
1 ATATA-ATATATACACAC
* *
41495756 ATATACATATATTCGCAC
1 ATATA-ATATATACACAC
*
41495774 AT-TAATATAAACACA
1 ATATAATATATACACA
41495789 ACCATAACAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
16 8 0.30
17 2 0.07
18 17 0.63
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (17 bp):
ATATAATATATACACAC
Found at i:41497153 original size:7 final size:7
Alignment explanation
Indices: 41497141--41497202 Score: 83
Period size: 7 Copynumber: 9.0 Consensus size: 7
41497131 TTAGCCTCTC
41497141 CATTTTT
1 CATTTTT
41497148 CATTTTT
1 CATTTTT
41497155 CA-TTTT
1 CATTTTT
41497161 CATTTTT
1 CATTTTT
41497168 CATTTTT
1 CATTTTT
*
41497175 CA-TTCT
1 CATTTTT
41497181 CATTTTT
1 CATTTTT
41497188 CATTTATT
1 CATTT-TT
*
41497196 TATTTTT
1 CATTTTT
41497203 ACTCAGAGTG
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
6 11 0.22
7 32 0.65
8 6 0.12
ACGTcount: A:0.16, C:0.15, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:41497162 original size:13 final size:14
Alignment explanation
Indices: 41497141--41497202 Score: 83
Period size: 13 Copynumber: 4.5 Consensus size: 14
41497131 TTAGCCTCTC
41497141 CATTTTTCATTTTT
1 CATTTTTCATTTTT
41497155 CA-TTTTCATTTTT
1 CATTTTTCATTTTT
*
41497168 CATTTTTCA-TTCT
1 CATTTTTCATTTTT
41497181 CATTTTTCATTTATT
1 CATTTTTCATTT-TT
*
41497196 TATTTTT
1 CATTTTT
41497203 ACTCAGAGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
13 25 0.60
14 10 0.24
15 7 0.17
ACGTcount: A:0.16, C:0.15, G:0.00, T:0.69
Consensus pattern (14 bp):
CATTTTTCATTTTT
Found at i:41497164 original size:20 final size:20
Alignment explanation
Indices: 41497141--41497192 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
41497131 TTAGCCTCTC
*
41497141 CATTTTTCATTTTTCATTTT
1 CATTTTTCATTTTTCATTCT
41497161 CATTTTTCATTTTTCATTCT
1 CATTTTTCATTTTTCATTCT
41497181 CATTTTTCATTT
1 CATTTTTCATTT
41497193 ATTTATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.67
Consensus pattern (20 bp):
CATTTTTCATTTTTCATTCT
Found at i:41501762 original size:109 final size:108
Alignment explanation
Indices: 41501589--41501867 Score: 371
Period size: 109 Copynumber: 2.6 Consensus size: 108
41501579 GTTAAACGAG
* * * *
41501589 AAATCGAAACCCAGCACATTAGGGCACG-TTCCTCGAATTTTCAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAA-TTTCAAACGCAAAACATTGCCTTATT
* * * * * *
41501653 TGAGAATTTTTAAAAGGATATTTAGCCATTTGATTGAATGAGAA
65 TGAAAAATTTTAAAAAGATATTAAACCATTTGATTGAACGAGAA
* *
41501697 AAATCGACACCCAACACCTTAGGGTATGTTTTCTCGAATTTCGAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTC-AAACGCAAAACATTGCCTTATT
* *
41501762 TTAAAAATTTTAAAAAGATATTAAACCATTTGGTTGAACGAGAA
65 TGAAAAATTTTAAAAAGATATTAAACCATTTGATTGAACGAGAA
* *
41501806 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCTAAATATTGCCT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTT--CAAACGCAAAACATTGCCT
41501868 CAATTAGAAA
Statistics
Matches: 149, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
108 27 0.18
109 105 0.70
110 16 0.11
111 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.29
Consensus pattern (108 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCAAACGCAAAACATTGCCTTATTT
GAAAAATTTTAAAAAGATATTAAACCATTTGATTGAACGAGAA
Found at i:41502205 original size:17 final size:18
Alignment explanation
Indices: 41502185--41502218 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41502175 TATATGTTTT
41502185 AAGGATAT-TAAATATAA
1 AAGGATATGTAAATATAA
*
41502202 AAGGTTATGTAAATATA
1 AAGGATATGTAAATATA
41502219 TATACATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (18 bp):
AAGGATATGTAAATATAA
Found at i:41502478 original size:3 final size:3
Alignment explanation
Indices: 41502465--41502497 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
41502455 AAAATAGAAC
*
41502465 TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
41502498 CATGAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:41505199 original size:29 final size:29
Alignment explanation
Indices: 41505142--41505199 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
41505132 TTCTTTTTAT
* *
41505142 GTTTTTTAGTTTTATATTTATATTTTAAA
1 GTTTTTTAATTTTATATTTATATTATAAA
41505171 GTTTTTATAATTTTAT-TTTAT-TTAATAAA
1 GTTTTT-TAATTTTATATTTATATT-ATAAA
41505200 AATGACTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 2 0.08
29 15 0.60
30 8 0.32
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (29 bp):
GTTTTTTAATTTTATATTTATATTATAAA
Found at i:41505240 original size:16 final size:15
Alignment explanation
Indices: 41505213--41505254 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
41505203 GACTAAATTG
41505213 TTTAATTTTTATAAT
1 TTTAATTTTTATAAT
41505228 TTTAATGTTTTATAAT
1 TTTAAT-TTTTATAAT
*
41505244 TATAAATTTTT
1 T-TTAATTTTT
41505255 GAATATTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 6 0.25
16 14 0.58
17 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (15 bp):
TTTAATTTTTATAAT
Found at i:41505630 original size:24 final size:24
Alignment explanation
Indices: 41505600--41505652 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
41505590 TCACTATTCT
* *
41505600 AAATATTAAAA-AATTATAATTATA
1 AAATATTAAAAGAATAAT-ATCATA
41505624 AAATATTAAAAGAATAATATCATA
1 AAATATTAAAAGAATAATATCATA
41505648 AAATA
1 AAATA
41505653 AAACAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (24 bp):
AAATATTAAAAGAATAATATCATA
Found at i:41510601 original size:3 final size:3
Alignment explanation
Indices: 41510593--41510620 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
41510583 GATTGCCGAT
41510593 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
41510621 TTGTGGGTGT
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:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:41518593 original size:7 final size:7
Alignment explanation
Indices: 41518581--41518612 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
41518571 ATAAAAATAT
41518581 TTTTTTA
1 TTTTTTA
41518588 TTTTTTA
1 TTTTTTA
41518595 TTTTTTA
1 TTTTTTA
*
41518602 TTTTTAA
1 TTTTTTA
41518609 TTTT
1 TTTT
41518613 AAAATATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTA
Found at i:41518600 original size:14 final size:14
Alignment explanation
Indices: 41518581--41518654 Score: 58
Period size: 14 Copynumber: 4.9 Consensus size: 14
41518571 ATAAAAATAT
*
41518581 TTTTTTATTTTTTA
1 TTTTTTATTTTTAA
41518595 TTTTTTATTTTTAA
1 TTTTTTATTTTTAA
*
41518609 TTTTAAAATATTTTTAAAA
1 TTTT---TTATTTTT--AA
* *
41518628 TACTTTTATTTTTAT
1 T-TTTTTATTTTTAA
41518643 TTTTTTATTTTT
1 TTTTTTATTTTT
41518655 TAAATTATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
14 27 0.56
15 2 0.04
17 14 0.29
19 3 0.06
20 2 0.04
ACGTcount: A:0.24, C:0.01, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTATTTTTAA
Found at i:41522079 original size:46 final size:46
Alignment explanation
Indices: 41522003--41522138 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
41521993 CAAAGTGTGG
* *
41522003 AACGTAGGTATGATATTTTAGTGAATAAAACCATACTGAGTTATGA
1 AACGTAGGTATGATATTTCAGTGAAGAAAACCATACTGAGTTATGA
* *
41522049 AACGTAGGTATGATATTTCAGT-AACGAAAACTATACTGAGTTGTGA
1 AACGTAGGTATGATATTTCAGTGAA-GAAAACCATACTGAGTTATGA
* * *
41522095 AAAGTAGGTATGGTATTTCAGTGAAGAAAACCATATTGAGTTAT
1 AACGTAGGTATGATATTTCAGTGAAGAAAACCATACTGAGTTAT
41522139 AACATTGTAA
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
45 2 0.03
46 75 0.95
47 2 0.03
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (46 bp):
AACGTAGGTATGATATTTCAGTGAAGAAAACCATACTGAGTTATGA
Found at i:41524060 original size:31 final size:31
Alignment explanation
Indices: 41524025--41524091 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
41524015 TTCATCATAG
41524025 AGTAAATTACACCCAAGGTCACTCAAATATT
1 AGTAAATTACACCCAAGGTCACTCAAATATT
** *
41524056 AGTAAATTATGCCCAAGGTCACTCAACTATT
1 AGTAAATTACACCCAAGGTCACTCAAATATT
41524087 AGTAA
1 AGTAA
41524092 GTTTATACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (31 bp):
AGTAAATTACACCCAAGGTCACTCAAATATT
Found at i:41531036 original size:23 final size:21
Alignment explanation
Indices: 41530949--41531036 Score: 67
Period size: 23 Copynumber: 4.1 Consensus size: 21
41530939 AAAAAGTTAC
* *
41530949 TAAAAT-AATAATTT-TTGTA
1 TAAAATAAAAAATTTATTTTA
41530968 TAAAATAAAAAAATTTATTTTA
1 TAAAAT-AAAAAATTTATTTTA
*
41530990 CCTTAAAA-ATAAAATTTA-TTTA
1 ---TAAAATAAAAAATTTATTTTA
41531012 TAAAATAAAAAATTATATTTATA
1 TAAAATAAAAAATT-TATTT-TA
41531035 TA
1 TA
41531037 TTTATATTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
19 11 0.20
20 7 0.13
21 9 0.16
22 10 0.18
23 13 0.24
25 5 0.09
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (21 bp):
TAAAATAAAAAATTTATTTTA
Found at i:41540822 original size:29 final size:27
Alignment explanation
Indices: 41540780--41540839 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 27
41540770 AATATTTTTA
41540780 TTTTTTATTTTTTTAATTTTAAAATAC
1 TTTTTTATTTTTTTAATTTTAAAATAC
41540807 TTTTTTATTATTTTTTAATTTTAAAATAC
1 TTTTTTA-T-TTTTTTAATTTTAAAATAC
41540836 TTTT
1 TTTT
41540840 AAAATACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 7 0.23
28 1 0.03
29 23 0.74
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTTTTATTTTTTTAATTTTAAAATAC
Found at i:41540850 original size:29 final size:29
Alignment explanation
Indices: 41540789--41540853 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
41540779 ATTTTTTATT
** * *
41540789 TTTTTAATTTTAAAATACTTTTTTATTAT
1 TTTTTAATTTTAAAATACTTTTAAAATAC
41540818 TTTTTAATTTTAAAATACTTTTAAAATAC
1 TTTTTAATTTTAAAATACTTTTAAAATAC
41540847 TTTTTAA
1 TTTTTAA
41540854 AATTTTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (29 bp):
TTTTTAATTTTAAAATACTTTTAAAATAC
Found at i:41540853 original size:12 final size:11
Alignment explanation
Indices: 41540825--41540866 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
41540815 TATTTTTTAA
41540825 TTTTAAAATAC
1 TTTTAAAATAC
41540836 TTTTAAAATAC
1 TTTTAAAATAC
41540847 TTTTTAAAAT--
1 -TTTTAAAATAC
41540857 TTTTAAAATA
1 TTTTAAAATA
41540867 AGTTTTTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.31
11 11 0.38
12 9 0.31
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:41540862 original size:21 final size:22
Alignment explanation
Indices: 41540825--41540866 Score: 68
Period size: 21 Copynumber: 1.9 Consensus size: 22
41540815 TATTTTTTAA
41540825 TTTTAAAATACTTTTAAAATACT
1 TTTTAAAATA-TTTTAAAATACT
41540848 TTTTAAAAT-TTTTAAAATA
1 TTTTAAAATATTTTAAAATA
41540867 AGTTTTTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.53
23 9 0.47
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTTAAAATATTTTAAAATACT
Found at i:41541453 original size:20 final size:20
Alignment explanation
Indices: 41541428--41541473 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
41541418 GGTCTTTTAC
41541428 AAAAATAATACAAA-AAAATA
1 AAAAATAATA-AAATAAAATA
* *
41541448 AAAAATACTAAAATAATATA
1 AAAAATAATAAAATAAAATA
41541468 AAAAAT
1 AAAAAT
41541474 TTATTTACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAAATAATAAAATAAAATA
Found at i:41541850 original size:150 final size:149
Alignment explanation
Indices: 41541583--41542391 Score: 1065
Period size: 150 Copynumber: 5.3 Consensus size: 149
41541573 TCGTATTTTT
* * * *
41541583 GGCC-TTTATTCGTATTTTTTTCCCGGATTTTATTACTTT-TAAAAAATAGACTATTTTCTATTT
1 GGCCATTTGTTCGTA-TTTTTTCCCAGATTTTATTACTTTCAAAAAAATATACTATTTTCTATTT
*
41541646 TTTTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATA
65 TATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATA
41541711 AATTAAAAAAACCTTATTTC
130 AATTAAAAAAACCTTATTTC
* * *
41541731 GGACATTTGTTCGTA-TTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTATTTTCGTATT
1 GGCCATTTGTTCGTATTTTTTCCCAGATTTTATTACTTTCAA-AAAAATATACTATTTTC-TATT
*
41541795 TTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAAT
64 TTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAAT
*
41541860 AAATTAAAAAATCCTTATTTC
129 AAATTAAAAAAACCTTATTTC
* * *
41541881 GGCCCTTTGTTCGTATTTTTTTCCCAGAGTTTATTGCTTT-AAAAAAATATACTATTTTCTAATT
1 GGCCATTTGTTCGTA-TTTTTTCCCAGATTTTATTACTTTCAAAAAAATATACTATTTTCT-ATT
* * *
41541945 TTATTATTTTACATTATTTTAGTACATTATATTTGAAATTTATTCATTTAGTGTGTTTTTTAAAT
64 TTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAAT
41542010 AAATTAAAAAAAACTCTTATTTC
129 AAATT-AAAAAAAC-CTTATTTC
* *
41542033 --CACACTTTGTTCGTATTTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTATTTTCGTA
1 GGC-CA-TTTGTTCGTATTTTTTCCCAGATTTTATTACTTTCAA-AAAAATATACTATTTTC-TA
* ** *
41542096 TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTGTTAATTTTCTGTGTTTTTAAA
62 TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAA
41542161 ATAAATTTTAAAAAAAAACCTTTATTTC
127 ATAAA--TT--AAAAAAACC-TTATTTC
* * *
41542189 GGCCATTTGTTCGTATTTTTTTCCCCAGAGTTTATTA-TTTTAAAAAAATATACTATTTTATAAT
1 GGCCATTTGTTCGTA-TTTTTT-CCCAGATTTTATTACTTTCAAAAAAATATACTATTTTCT-AT
* * *
41542253 TTTATAATTTTACATTATTTTAGTAAATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAA
63 TTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAA
*
41542318 TAAATTTTTAAAAAACTCTTATTTC
128 TAAA--TTAAAAAAAC-CTTATTTC
* * *
41542343 GGCCATTTGTTCGTATTTTTTTTCCAAATTTTATTACTTCCAATAAAAA
1 GGCCATTTGTTCGTA-TTTTTTCCCAGATTTTATTACTTTCAA-AAAAA
41542392 AACACACTAA
Statistics
Matches: 586, Mismatches: 49, Indels: 45
0.86 0.07 0.07
Matches are distributed among these distances:
147 23 0.04
148 4 0.01
149 25 0.04
150 186 0.32
151 31 0.05
152 40 0.07
153 91 0.16
154 41 0.07
155 10 0.02
156 109 0.19
157 13 0.02
158 13 0.02
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (149 bp):
GGCCATTTGTTCGTATTTTTTCCCAGATTTTATTACTTTCAAAAAAATATACTATTTTCTATTTT
ATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAA
ATTAAAAAAACCTTATTTC
Found at i:41542134 original size:303 final size:305
Alignment explanation
Indices: 41541585--41542391 Score: 1252
Period size: 303 Copynumber: 2.6 Consensus size: 305
41541575 GTATTTTTGG
* * * * * *
41541585 CCTTTATTCGTATTTTTTTCCCGGATTTTATTACTTTTAAAAAATAGACTATTTTCT-ATTTTTT
1 CCTTTGTTCGTATTTTTTTCCCAGAGTTTATTACTTTAAAAAAATATACTATTTTCTAATTTTAT
*
41541649 TATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAAT
66 TATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAAT
*
41541714 TAAAAAAAC-CTTATTTCGGACATTTGTTCGTA-TTTTTCCCGGATTTTATTACTTTCAATAAAA
131 TAAAAAAACTCTTATTTCGCACATTTGTTCGTATTTTTTCCCGGATTTTATTACTTTCAATAAAA
41541777 ATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAAT
196 ATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAAT
* *
41541842 TTACTGTGTTTTTTAAATAAA-TT-AAAAAATCC-TTATTTCGGC
261 TTACTGTGTTTTTAAAATAAATTTAAAAAAAACCTTTATTTCGGC
*
41541884 CCTTTGTTCGTATTTTTTTCCCAGAGTTTATTGCTTTAAAAAAATATACTATTTTCTAATTTTAT
1 CCTTTGTTCGTATTTTTTTCCCAGAGTTTATTACTTTAAAAAAATATACTATTTTCTAATTTTAT
* *
41541949 TATTTTACATTATTTTAGTACATTATATTTGAAATTTATTCATTTAGTGTGTTTTTTAAATAAAT
66 TATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAAT
41542014 TAAAAAAAACTCTTATTTC-CACACTTTGTTCGTATTTTTTCCCGGATTTTATTACTTTCAATAA
131 T-AAAAAAACTCTTATTTCGCACA-TTTGTTCGTATTTTTTCCCGGATTTTATTACTTTCAATAA
*
41542078 AAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTGTTA
194 AAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTA
*
41542143 ATTTTCTGTGTTTTTAAAATAAATTTTAAAAAAAAACCTTTATTTCGGC
259 ATTTACTGTGTTTTTAAAATAAA-TTT-AAAAAAAACCTTTATTTCGGC
* * *
41542192 CATTTGTTCGTATTTTTTTCCCCAGAGTTTATTATTTTAAAAAAATATACTATTTTATAATTTTA
1 CCTTTGTTCGTATTTTTTT-CCCAGAGTTTATTACTTTAAAAAAATATACTATTTTCTAATTTTA
* *
41542257 TAATTTTACATTATTTTAGTAAATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAA
65 TTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAA
* * ** *
41542322 TTTTTAAAAAACTCTTATTTCGGC-CATTTGTTCGTATTTTTTTTCCAAATTTTATTACTTCCAA
130 --TTAAAAAAACTCTTATTTC-GCACATTTGTTCGTA-TTTTTTCCCGGATTTTATTACTTTCAA
41542386 TAAAAA
191 TAAAAA
41542392 AACACACTAA
Statistics
Matches: 464, Mismatches: 28, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
299 51 0.11
300 69 0.15
301 11 0.02
302 18 0.04
303 114 0.25
305 2 0.00
307 8 0.02
308 28 0.06
309 103 0.22
310 26 0.06
311 33 0.07
312 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (305 bp):
CCTTTGTTCGTATTTTTTTCCCAGAGTTTATTACTTTAAAAAAATATACTATTTTCTAATTTTAT
TATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAAT
TAAAAAAACTCTTATTTCGCACATTTGTTCGTATTTTTTCCCGGATTTTATTACTTTCAATAAAA
ATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAAT
TTACTGTGTTTTTAAAATAAATTTAAAAAAAACCTTTATTTCGGC
Found at i:41551942 original size:12 final size:12
Alignment explanation
Indices: 41551925--41551965 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
41551915 AATTACCCCC
41551925 TCTCTCTCTCTT
1 TCTCTCTCTCTT
**
41551937 TCTCTCTCTCCC
1 TCTCTCTCTCTT
*
41551949 TCTCTCTTTCTT
1 TCTCTCTCTCTT
41551961 TCTCT
1 TCTCT
41551966 TTCTTTGGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (12 bp):
TCTCTCTCTCTT
Found at i:41551953 original size:20 final size:20
Alignment explanation
Indices: 41551928--41551965 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
41551918 TACCCCCTCT
41551928 CTCTCTCTTTCTCTCTCTCC
1 CTCTCTCTTTCTCTCTCTCC
*
41551948 CTCTCTCTTTCTTTCTCT
1 CTCTCTCTTTCTCTCTCT
41551966 TTCTTTGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (20 bp):
CTCTCTCTTTCTCTCTCTCC
Found at i:41551971 original size:10 final size:10
Alignment explanation
Indices: 41551927--41551969 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
41551917 TTACCCCCTC
41551927 TCTCTCTCTT
1 TCTCTCTCTT
*
41551937 TCTCTCTCTC
1 TCTCTCTCTT
*
41551947 CCTCTCTCTT
1 TCTCTCTCTT
*
41551957 TCTTTCTCTT
1 TCTCTCTCTT
41551967 TCT
1 TCT
41551970 TTGGCTTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (10 bp):
TCTCTCTCTT
Found at i:41554534 original size:23 final size:23
Alignment explanation
Indices: 41554486--41554534 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
41554476 TTATATTTTT
* *
41554486 TTAATAAATATGATAAAATATTA
1 TTAATAAATATGATAAAAAATAA
*
41554509 TTAATATAATAT-TTAAAAAATAA
1 TTAATA-AATATGATAAAAAATAA
41554532 TTA
1 TTA
41554535 TAATTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
TTAATAAATATGATAAAAAATAA
Found at i:41554739 original size:3 final size:3
Alignment explanation
Indices: 41554731--41554761 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
41554721 CCATTATCAA
41554731 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
41554762 CATATAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:41554886 original size:15 final size:16
Alignment explanation
Indices: 41554866--41554905 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
41554856 ATATTTTAGT
41554866 AATAACATTAATT-AA
1 AATAACATTAATTAAA
41554881 AATAACA-T-ATTAAA
1 AATAACATTAATTAAA
*
41554895 AATTACATTAA
1 AATAACATTAA
41554906 ATACAATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
13 3 0.14
14 9 0.43
15 8 0.38
16 1 0.05
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAACATTAATTAAA
Found at i:41568413 original size:12 final size:12
Alignment explanation
Indices: 41568398--41568441 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
41568388 ACTAATGTAG
41568398 TTAATAATATTA
1 TTAATAATATTA
41568410 TTAATAATATTA
1 TTAATAATATTA
* * *
41568422 ATAATTAGATTA
1 TTAATAATATTA
41568434 -TAATAATA
1 TTAATAATA
41568442 ATAAAGTAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 6 0.22
12 21 0.78
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (12 bp):
TTAATAATATTA
Found at i:41579125 original size:30 final size:30
Alignment explanation
Indices: 41579091--41579163 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
41579081 AATCTTGAAC
* * *
41579091 TATCTAATACATGAATGATCTCAAGAAACT
1 TATCTAATACATGAATGATCCCAACAAACG
* *
41579121 TATCTAATAGATGAATGATCCCAACAAGCG
1 TATCTAATACATGAATGATCCCAACAAACG
*
41579151 CATCTAATACATG
1 TATCTAATACATG
41579164 GTGGGTAGCA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.27
Consensus pattern (30 bp):
TATCTAATACATGAATGATCCCAACAAACG
Found at i:41581573 original size:27 final size:26
Alignment explanation
Indices: 41581543--41581593 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
41581533 ATGAAATTCT
*
41581543 TACAAA-CAATATGATTGATTAACAATA
1 TACAAAGCAA-ATGA-TGAATAACAATA
41581570 TACAAAGCAAATGATGAATAACAA
1 TACAAAGCAAATGATGAATAACAA
41581594 ATTAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 10 0.45
28 3 0.14
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.24
Consensus pattern (26 bp):
TACAAAGCAAATGATGAATAACAATA
Found at i:41585511 original size:21 final size:21
Alignment explanation
Indices: 41585481--41585551 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
41585471 CTATAACTTA
*
41585481 AAGCAGAGGCGGCAGCAAGGG
1 AAGCAGAGGCGGCAGCGAGGG
*
41585502 AAGAAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGGG
* * *
41585523 TAGCAGAGGCAGCAGTGAGGG
1 AAGCAGAGGCGGCAGCGAGGG
41585544 AAGCAGAG
1 AAGCAGAG
41585552 TAGAGCAGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.34, C:0.15, G:0.48, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGGG
Found at i:41585997 original size:43 final size:43
Alignment explanation
Indices: 41585899--41586039 Score: 158
Period size: 43 Copynumber: 3.3 Consensus size: 43
41585889 CATCAAACAA
** * *
41585899 TAGCGGCGTTTGTGAGCTAAGCGCCGCTAAAGAATATGACCTT
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGATCTT
* * *
41585942 TAGCGACATTTGTG-GAAAAAGCGCCGCTAAAGAACATGTTCTT
1 TAGCGGCGTTTGTGAG-AAAAGCGCCGCTAAAGAACATGATCTT
* * ** *
41585985 TTGCGGCGTTTGTTAGTGAAGCGCCGCTAAAGAACATGCTCTT
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGATCTT
41586028 TAGCGGCGTTTG
1 TAGCGGCGTTTG
41586040 GTGGTAAAGA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 1 0.01
43 79 0.98
44 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGAACATGATCTT
Found at i:41605598 original size:31 final size:32
Alignment explanation
Indices: 41605545--41605604 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
41605535 ATAAAATTTA
41605545 TTTTGAATAGAATTTAAATATTT-TCATAATT
1 TTTTGAATAGAATTTAAATATTTATCATAATT
41605576 TTTTGAATA-AA-TTAAAGGTATTTATCATA
1 TTTTGAATAGAATTTAAA--TATTTATCATA
41605605 TTAATGTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 5 0.19
30 2 0.08
31 14 0.54
32 5 0.19
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.48
Consensus pattern (32 bp):
TTTTGAATAGAATTTAAATATTTATCATAATT
Found at i:41607977 original size:9 final size:9
Alignment explanation
Indices: 41607957--41608004 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
41607947 GGTGTCTAGA
*
41607957 CATCATCAT
1 CATCACCAT
*
41607966 CATCACCGT
1 CATCACCAT
* *
41607975 CATCAACGT
1 CATCACCAT
*
41607984 CGTCACCAT
1 CATCACCAT
41607993 CATCACCAT
1 CATCACCAT
41608002 CAT
1 CAT
41608005 AGGAGGGGGC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.29, C:0.40, G:0.06, T:0.25
Consensus pattern (9 bp):
CATCACCAT
Found at i:41613289 original size:34 final size:34
Alignment explanation
Indices: 41613234--41613305 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 34
41613224 TAAAAAAATG
*
41613234 TAAATATATATACTATAAAAATGA-ATGTATATTT
1 TAAATATATATACTATAAAAAT-ATATGTATATTC
41613268 TAAAT-TATAATA-TATAGAAAATATATGTATATTC
1 TAAATATAT-ATACTATA-AAAATATATGTATATTC
41613302 TAAA
1 TAAA
41613306 ATGTACATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
33 8 0.24
34 26 0.76
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (34 bp):
TAAATATATATACTATAAAAATATATGTATATTC
Found at i:41614378 original size:17 final size:17
Alignment explanation
Indices: 41614356--41614389 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
41614346 GCACAAGGCA
*
41614356 TGGCGCTCGTGGAGGAG
1 TGGCGCACGTGGAGGAG
41614373 TGGCGCACGTGGAGGAG
1 TGGCGCACGTGGAGGAG
41614390 GCTGGCTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.18, G:0.53, T:0.15
Consensus pattern (17 bp):
TGGCGCACGTGGAGGAG
Found at i:41614971 original size:44 final size:44
Alignment explanation
Indices: 41614922--41615297 Score: 423
Period size: 44 Copynumber: 8.5 Consensus size: 44
41614912 CAGAGAGATG
* * *
41614922 AGATCTGCTATT-TTTGATCTACTTCACGCTAATACATGAAGGCA
1 AGATCTGCT-TTCTTCGATCTACTTCACGCCAATACATGAAGACA
* * *
41614966 AGATCTGTTTTCTTCGATTTACTTCACGTCAATACATGAAGACA
1 AGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACA
* * * *** *
41615010 AGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAAACA
1 AGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACATGAAGACA
* *
41615055 AGATCTG-TTATCCTCGATCTACTTCACGCTAATACATGAAGACA
1 AGATCTGCTT-TCTTCGATCTACTTCACGCCAATACATGAAGACA
* * ***
41615099 AGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACA
1 AGATCTGCTTTCTTCGATCTACTTCA-CGCCAATACATGAAGACA
* *
41615144 AGATCTGCTTTCCTCGATCTACTTCACGCCAATACATGAAGATA
1 AGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACA
* * ***
41615188 AGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACA
1 AGATCTGCTTTCTTCGATCTACTTCA-CGCCAATACATGAAGACA
*
41615233 AGATCTGCTTTCTTCGATCTACTTCACGCCAGTACATGAAGACA
1 AGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACA
* *
41615277 AGATCTGTTTTCTTTGATCTA
1 AGATCTGCTTTCTTCGATCTA
41615298 TTCCACTGCC
Statistics
Matches: 274, Mismatches: 52, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
43 2 0.01
44 163 0.59
45 109 0.40
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (44 bp):
AGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACA
Found at i:41615078 original size:89 final size:89
Alignment explanation
Indices: 41614959--41615297 Score: 545
Period size: 89 Copynumber: 3.8 Consensus size: 89
41614949 GCTAATACAT
* * * * *
41614959 GAAGGCAAGATCTGTTTTCTTCGATTTACTTCACGTCAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
*
41615024 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCACCACCAGTATGG
* *
41615048 GAAAACAAGATCTG-TTATCCTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTGCTT-TCCTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT
41615112 TCGATCTACTTCACCACCAGTATGG
65 TCGATCTACTTCACCACCAGTATGG
*
41615137 GAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
41615202 CGATCTACTTCACCACCAGTATGG
66 CGATCTACTTCACCACCAGTATGG
* * *
41615226 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
1 GAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
*
41615291 TGATCTA
66 CGATCTA
41615298 TTCCACTGCC
Statistics
Matches: 233, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
88 2 0.01
89 229 0.98
90 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (89 bp):
GAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
CGATCTACTTCACCACCAGTATGG
Found at i:41615472 original size:132 final size:132
Alignment explanation
Indices: 41615293--41616050 Score: 974
Period size: 132 Copynumber: 5.7 Consensus size: 132
41615283 GTTTTCTTTG
*** * * **
41615293 ATCTATTCCACTGCCAACCAGGGAGATAGAATTATTGGCTTCAATATACTCCACTGTAACTTCAG
1 ATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAATATACTCCACTGTAACCACAG
* * **
41615358 GGAGGTAAAA-TCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGATATAAGATCTATAATCT
66 GGAGGTAAAATTC-GCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCT
41615422 TCA
130 TCA
* * * * * *
41615425 ATCTATTCTACTGTTACCCAGGGAAATAGAATTATTGGCTTCAATATACTCTACTGTAACCACAA
1 ATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAATATACTCCACTGTAACCACAG
* * * * *
41615490 TGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTT-GAGGAGACAATATTTGCAACCT
66 GGAGGTAAAATTCGCCATCTTTGATCTGCTCCACTACTGCTTAG-GGAGACAAGATCTGCAATCT
41615554 TCA
130 TCA
* *
41615557 ATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAG
1 ATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAATATACTCCACTGTAACCACAG
* * *
41615622 GGAGGTAAAATTCACCATATTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGCAATCTT
66 GGAGGTAAAATTCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTT
41615687 CA
131 CA
* * * *
41615689 ATCTATTCCACTGCTGCCTAGGGAAGTAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAG
1 ATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAATATACTCCACTGTAACCACAG
* * * *
41615754 GGAGGTAAAATTTGCCATTTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT
66 GGAGGTAAAATTCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTT
41615819 CA
131 CA
* * * *
41615821 ATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGACTTCAATGTACTCCACTGTAACCAC-G
1 ATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAATATACTCCACTGTAACCACAG
* * * * *
41615885 AGGAGGTAAAA-TCTGCCATCTTCGATCTGCTTCGCTGTCTA-TGC--AGGAAGGCAATATCTGC
66 -GGAGGTAAAATTC-GCCATCTTTGATCTGC-TC-C--ACTACTGCTTAGGGAGACAAGATCTGC
*
41615946 AATCTTTA
125 AATCTTCA
41615954 ATCTATTCCACTGCTGCCCA-GGAAAGTAGAATTACTGGCTTCAATATACTCCACTGTAACCACA
1 ATCTATTCCACTGCTGCCCAGGGAAA-TAGAATTACTGGCTTCAATATACTCCACTGTAACCACA
41616018 GGGAGGTAAAATTCGCCATCTTTGATCTGCTCC
65 GGGAGGTAAAATTCGCCATCTTTGATCTGCTCC
41616051 GCTGTTTATG
Statistics
Matches: 550, Mismatches: 64, Indels: 25
0.86 0.10 0.04
Matches are distributed among these distances:
131 4 0.01
132 433 0.79
133 103 0.19
134 4 0.01
135 3 0.01
136 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (132 bp):
ATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAATATACTCCACTGTAACCACAG
GGAGGTAAAATTCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTT
CA
Found at i:41620815 original size:17 final size:17
Alignment explanation
Indices: 41620789--41620824 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
41620779 TTATATGATG
*
41620789 AAATGCCATGCAGTCAA
1 AAATGCCATGCAGCCAA
*
41620806 AAATGTCATGCAGCCAA
1 AAATGCCATGCAGCCAA
41620823 AA
1 AA
41620825 CAAAACACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (17 bp):
AAATGCCATGCAGCCAA
Found at i:41622264 original size:34 final size:34
Alignment explanation
Indices: 41622209--41622280 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 34
41622199 TAAAAAAATG
*
41622209 TAAATATATATACTATAAAAATGA-ATGTATATTT
1 TAAATATATATACTATAAAAAT-ATATGTATATTC
41622243 TAAAT-TATAATA-TATAGAAAATATATGTATATTC
1 TAAATATAT-ATACTATA-AAAATATATGTATATTC
41622277 TAAA
1 TAAA
41622281 ATGTACATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
33 8 0.24
34 26 0.76
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (34 bp):
TAAATATATATACTATAAAAATATATGTATATTC
Found at i:41623355 original size:17 final size:17
Alignment explanation
Indices: 41623333--41623366 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
41623323 GCGCAAGGCA
*
41623333 TGGCGCTCGTGGAGGAG
1 TGGCGCACGTGGAGGAG
41623350 TGGCGCACGTGGAGGAG
1 TGGCGCACGTGGAGGAG
41623367 GCTGGCTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.18, G:0.53, T:0.15
Consensus pattern (17 bp):
TGGCGCACGTGGAGGAG
Found at i:41628232 original size:89 final size:88
Alignment explanation
Indices: 41628102--41628833 Score: 601
Period size: 89 Copynumber: 8.1 Consensus size: 88
41628092 AGCTACAAGT
* * * ** * * * *
41628102 TACAAATCTTATATCCCTGAACTGGCAGTGGAGTAGTTTGAATATACAAATTTTATCTCCCAGAA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATTGAAGATACAAATCTTATCTCCCTGAA
*
41628167 GTTGCAGTGGAGCAGATTGAAGA
66 GTTGCAGTGGAGCAGATTGAAGC
* * * *
41628190 TAGCAAATCTTATCTCCCTAAAGTTGTAGTGGAAAAGATTGAAGATAGCAAATCTTATCTCTCTA
1 TA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATTGAAGATA-CAAATCTTATCTCCCTG
* *
41628255 AAGTTGCAGTAGAGCAGATTAAAGC
64 AAGTTGCAGTGGAGCAGATTGAAGC
* * * * *
41628280 TATAAATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATTGAAGATAGAAAATTTTATCTCTCTAA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATTGAAGATA-CAAATCTTATCTCCCTGA
* * *
41628345 AGTTGTAGTAGAGCAGATTAAAGC
65 AGTTGCAGTGGAGCAGATTGAAGC
* * * ** * * *
41628369 TATAAATTTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGATGCAAATCTTATTTCCCTGAA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATTGAAGATACAAATCTTATCTCCCTGAA
* ** *
41628434 GTTGTAGTGGAATAGATTAAAGCTAC
66 GTTGCAGTGGAGCAGATTGAAG---C
* * * *
41628460 AAGTCACAAATCCTATGC-CCCTGAA-ATGATAGTGGAAAAGATTAAAG-TCACAAAT-TTCATC
1 ---T-ACAAATCTTAT-CTCCCTGAAGTTG-CAGTGGAAAAGATTGAAGAT-ACAAATCTT-ATC
*
41628521 TCTCTGAAGTTGCAGTGGAGCAGATTGAAGC
58 TCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * * *
41628552 TACAAATCTTAT-TCCCTCAAGTTGCAGTGGAACAGATTAAAGCTACAAGTGGCAAGTCTTACCT
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATTGAAGATAC-A-----AA-TCTTATCT
* * *
41628616 CTCTGAAGTTGCAGTGAAGCAAATTGAAGC
59 CCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * * * *
41628646 TACAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACAAGTCTTATCT
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATT---G----AAGATACAAATCTTATCT
41628711 CCCTGAAGTTGCAGTGGAGCAGATTGAAGC
59 CCCTGAAGTTGCAGTGGAGCAGATTGAAGC
* * ** * *
41628741 TACAAATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTACAAATCTTATTTCCCTGAA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATTGAAGATACAAATCTTATCTCCCTGAA
* * * *
41628806 GTTGTAGTGGAACAGATTAAAAC
66 GTTGCAGTGGAGCAGATTGAAGC
41628829 TACAA
1 TACAA
41628834 GTTACGAATC
Statistics
Matches: 530, Mismatches: 82, Indels: 64
0.78 0.12 0.09
Matches are distributed among these distances:
87 24 0.05
88 95 0.18
89 157 0.30
90 37 0.07
91 1 0.00
92 2 0.00
93 2 0.00
94 50 0.09
95 153 0.29
96 2 0.00
101 1 0.00
102 6 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (88 bp):
TACAAATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATTGAAGATACAAATCTTATCTCCCTGAA
GTTGCAGTGGAGCAGATTGAAGC
Found at i:41628646 original size:51 final size:45
Alignment explanation
Indices: 41627922--41628885 Score: 446
Period size: 44 Copynumber: 21.0 Consensus size: 45
41627912 CACCGTGACG
* * * *
41627922 AATCTTATCTCTCTGAAGTTGAAGTGGAA-AAGATTAAAG-T-CACA
1 AATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTGAAGCTACA-A
* * * * * * *
41627966 AAT-TTCATCTCCCTAAAGTTACAGTGGAGTATATTGAAGATA-TA
1 AATCTT-ATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGCTACAA
* * * * * * * *
41628010 AGTCTTATCTCCCTAAAGTTGTAGTGGAGTAGATTAAAGATAGC-G
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGCTA-CAA
* * * **
41628055 AATCTTATTTCCCTGAAGTTGCAGAAGAA-TAGATAAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAG-TGAAGCAGATTGAAGCTAC-----A-A
* * * * * * **
41628106 AATCTTATATCCCTGAACTGGCAGTGGAGTAGTTTGAATATAC-A
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGCTACAA
* * * *
41628150 AATTTTATCTCCCAGAAGTTGCAGTGGAGCAGATTGAAGATAGC-A
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGCTA-CAA
* * * *
41628195 AATCTTATCTCCCTAAAGTTGTAGTGGAA-AAGATTGAAGATAGC-A
1 AATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTGAAGCTA-CAA
* * * *
41628240 AATCTTATCTCTCTAAAGTTGCAGT-AGAGCAGATTAAAGCTA-TA
1 AATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTGAAGCTACAA
* * *
41628284 AATCTTATCTCCCTGAAGTTGCAGTGGAA-AAGATTGAAGATAGAA
1 AATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTGAAGCTACAA
* * * * * *
41628329 AATTTTATCTCTCTAAAGTTGTAGT-AGAGCAGATTAAAGCTA-TA
1 AATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTGAAGCTACAA
* * * *
41628373 AATTTTATCTCCCTGAAGTTGCAGT-AGAGCAGGTTGAAGATGC-A
1 AATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTGAAGCTACAA
* * * *
41628417 AATCTTATTTCCCTGAAGTTGTAGTGGAA-TAGATTAAAGCTACAAGTCACA
1 AATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTGAAGCT---A--CA-A
* * * * *
41628468 AATCCTATGC-CCCTGAA-ATGATAGTGGAA-AAGATTAAAG-T-CACA
1 AATCTTAT-CTCCCTGAAGTTG-CAGT-GAAGCAGATTGAAGCTACA-A
* *
41628512 AAT-TTCATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC-A
1 AATCTT-ATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGCTACAA
* *
41628556 AATCTTAT-TCCCTCAAGTTGCAGTGGAA-CAGATTAAAGCTACAA
1 AATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTGAAGCTACAA
* * *
41628600 GTGGCAAGTCTTACCTCTCTGAAGTTGCAGTGAAGCAAATTGAAGCTAC-A
1 -----AA-TCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGCTACAA
* * *
41628650 AATCTTATTTCCCTGAAGTTGTAGTGGAA-CAGATTAAAGCTACAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTGAAGCTAC-A---A
*
41628699 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC-A
1 -AA-TCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGCTACAA
* * *
41628745 AATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGCTAC-A
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGCTACAA
* * * *
41628789 AATCTTATTTCCCTGAAGTTGTAGTGGAA-CAGATTAAAACTACAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTGAAGCTAC-A---A
* * * *
41628838 CGAATCTTATCTCCCTAAAGTAGCAGTGGAGCAGATTGAAGCGACAA
1 --AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGCTACAA
41628885 A
1 A
41628886 CCCTATACCT
Statistics
Matches: 718, Mismatches: 129, Indels: 145
0.72 0.13 0.15
Matches are distributed among these distances:
43 37 0.05
44 338 0.47
45 154 0.21
46 8 0.01
47 1 0.00
49 5 0.01
50 21 0.03
51 154 0.21
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGCTACAA
Found at i:41628703 original size:95 final size:95
Alignment explanation
Indices: 41628164--41628789 Score: 419
Period size: 95 Copynumber: 6.8 Consensus size: 95
41628154 TTATCTCCCA
* * * * *
41628164 GAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTAAAGTTGTAGTGGAAAAGAT
1 GAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGAT
* * * *
41628229 TGAAG--A-TA--G-CAAATCTTATCTCTCT
65 TAAAGCTACAAGTGACAAGTCTTACCTCTCT
* * * * * *
41628254 AAAGTTGCAGTAGAGCAGATTAAAGCTATAAATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATT
1 GAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
* * * * *
41628319 GAAG--A-TA--GA-AAATTTTATCTCTCT
66 AAAGCTACAAGTGACAAGTCTTACCTCTCT
* * * * * * * * * *
41628343 AAAGTTGTAGTAGAGCAGATTAAAGCTATAAATTTTATCTCCCTGAAGTTGCAGTAGAGCAGGTT
1 GAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
* * ** *
41628408 GAAG-----A-TG-CAAATCTTATTTCCCT
66 AAAGCTACAAGTGACAAGTCTTACCTCTCT
* ** * * ** * *
41628431 GAAGTTGTAGTGGAATAGATTAAAGCTACAAGTCACAAATCCTATGCCCCTGAA-ATGATAGTGG
1 GAAGTTGCAGTGGAGCAGATTGAAG---C---T-ACAAATCTTATTTCCCTGAAGTTG-CAGTGG
* * *
41628495 AAAAGATTAAAG-T-C-----ACAAAT-TTCATCTCTCT
58 AACAGATTAAAGCTACAAGTGACAAGTCTT-ACCTCTCT
*
41628526 GAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTA-TTCCCTCAAGTTGCAGTGGAACAGATT
1 GAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
*
41628590 AAAGCTACAAGTGGCAAGTCTTACCTCTCT
66 AAAGCTACAAGTGACAAGTCTTACCTCTCT
* * *
41628620 GAAGTTGCAGTGAAGCAAATTGAAGCTACAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATT
1 GAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
* * *
41628685 AAAGCTACAAGTTACAAGTCTTATCTCCCT
66 AAAGCTACAAGTGACAAGTCTTACCTCTCT
* * * *
41628715 GAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTCTGAAGTTACAGTGGAGCAGATT
1 GAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
*
41628780 GAAGCTACAA
66 AAAGCTACAA
41628790 ATCTTATTTC
Statistics
Matches: 446, Mismatches: 65, Indels: 45
0.80 0.12 0.08
Matches are distributed among these distances:
87 23 0.05
88 46 0.10
89 121 0.27
90 24 0.05
91 1 0.00
92 1 0.00
94 51 0.11
95 179 0.40
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (95 bp):
GAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
AAAGCTACAAGTGACAAGTCTTACCTCTCT
Found at i:41628790 original size:139 final size:137
Alignment explanation
Indices: 41628154--41628910 Score: 593
Period size: 139 Copynumber: 5.5 Consensus size: 137
41628144 TATACAAATT
* * * * *
41628154 TTATCTCCCAGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTAAAGTTGTAG
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTA-CAAATCTTATCTCTCTGAAGTTGTAG
** * * * *
41628219 TGGAAAAGATTGAAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCT---
65 TGGAGCAGATTGAAGCTA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
41628281 A-TA-AATC
129 AGTACAATC
* * * * *
41628288 TTATCTCCCTGAAGTTGCAGTGGAAAAGATTGAAGATAGAAAATTTTATCTCTCTAAAGTTGTAG
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTA-CAAATCTTATCTCTCTGAAGTTGTAG
* * * * * * * *
41628353 TAGAGCAGATTAAAGCTATAAATTTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAG----AT
65 TGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
*
41628414 GCA-AATC
130 GTACAATC
* * * * * *
41628421 TTATTTCCCTGAAGTTGTAGTGGAATAGATTAAAGCTACAAGTCACAAATCCTATGC-CCCTGAA
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG---C---T-ACAAATCTTAT-CTCTCTGAA
* ** * *
41628485 -ATGATAGTGGAAAAGATTAAAG-TCACAAAT-TTCATCTCTCTGAAGTTGCAGTGGAGCAGATT
58 GTTG-TAGTGGAGCAGATTGAAGCT-ACAAATCTT-ATCTCCCTGAAGTTGCAGTGGAGCAGATT
*
41628547 GAAGCTAC----A-AATC
120 AAAGCTACAAGTACAATC
* * *
41628560 TTAT-TCCCTCAAGTTGCAGTGGAACAGATTAAAGCTACAAGTGGCAAGTCTTACCTCTCTGAAG
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAC-A-----AA-TCTTATCTCTCTGAAG
* * * * * *
41628624 TTGCAGTGAAGCAAATTGAAGCTACAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAG
59 TTGTAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
41628689 CTACAAGTTACAAGTC
124 CTACAAG-TACAA-TC
* **
41628705 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTCTGAAGTTACAGT
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCTCTGAAGTTGTAGT
* * * *
41628770 GGAGCAGATTGAAGCTACAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAACTACAAG
66 GGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAG
41628835 TTACGAATC
131 -TAC-AATC
* * * * * * *
41628844 TTATCTCCCTAAAGTAGCAGTGGAGCAGATTGAAGCGACAAACCCTATAC-CTCTAAAGTTGTAG
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTAT-CTCTCTGAAGTTGTAG
41628908 TGG
65 TGG
41628911 GTTAGAATAA
Statistics
Matches: 514, Mismatches: 71, Indels: 71
0.78 0.11 0.11
Matches are distributed among these distances:
131 2 0.00
132 2 0.00
133 71 0.14
134 72 0.14
135 1 0.00
137 3 0.01
138 92 0.18
139 223 0.43
140 7 0.01
143 1 0.00
144 2 0.00
145 7 0.01
146 31 0.06
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (137 bp):
TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCTCTGAAGTTGTAGT
GGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAG
TACAATC
Found at i:41633599 original size:13 final size:13
Alignment explanation
Indices: 41633581--41633605 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41633571 CATTCAAATT
41633581 TTTTATTTTTTTA
1 TTTTATTTTTTTA
41633594 TTTTATTTTTTT
1 TTTTATTTTTTT
41633606 CTTTCGGTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:41640470 original size:13 final size:13
Alignment explanation
Indices: 41640452--41640476 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41640442 ATGGTGATCC
41640452 AATCACACCTAAG
1 AATCACACCTAAG
41640465 AATCACACCTAA
1 AATCACACCTAA
41640477 ATAAAAAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.32, G:0.04, T:0.16
Consensus pattern (13 bp):
AATCACACCTAAG
Found at i:41645835 original size:21 final size:21
Alignment explanation
Indices: 41645804--41645929 Score: 130
Period size: 21 Copynumber: 6.1 Consensus size: 21
41645794 TTTTACTTTT
* *
41645804 TGTTTAGCTCTTTCGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
* *
41645825 CGTTCAGCTCTCACGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
* * * *
41645846 TGTTAAACTCTTATGAGTTTC
1 TGTTCAGCTCTTACGAGCTTC
* *
41645867 TGTTTAGCTCTTACGAGTTTC
1 TGTTCAGCTCTTACGAGCTTC
*
41645888 TGTTCAGCTCTTACAAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
*
41645909 TGTTCAACT-TT-CGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
41645928 TG
1 TG
41645930 ATTGGCGTAT
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
19 9 0.10
20 2 0.02
21 76 0.87
ACGTcount: A:0.16, C:0.25, G:0.17, T:0.42
Consensus pattern (21 bp):
TGTTCAGCTCTTACGAGCTTC
Found at i:41646207 original size:10 final size:8
Alignment explanation
Indices: 41646192--41646218 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
41646182 TGATGGCACA
41646192 TGATATAT
1 TGATATAT
41646200 TGATATAT
1 TGATATAT
41646208 TGATATAT
1 TGATATAT
41646216 TGA
1 TGA
41646219 AATGGATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (8 bp):
TGATATAT
Found at i:41648224 original size:29 final size:30
Alignment explanation
Indices: 41648165--41648222 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
41648155 TCCGAGCCTT
*
41648165 GGGGAAAAAATGTAATTATGTAAAAGTTTA
1 GGGGAAAAAATGTAATTATGAAAAAGTTTA
* * *
41648195 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGAAAAAATGTAATTATGAAAAAGTT
41648223 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGAAAAAATGTAATTATGAAAAAGTTTA
Found at i:41648452 original size:13 final size:13
Alignment explanation
Indices: 41648434--41648465 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
41648424 TTTCCAGCAA
41648434 TTATGAATTTATT
1 TTATGAATTTATT
41648447 TTATGAATTTATT
1 TTATGAATTTATT
*
41648460 TGATGA
1 TTATGA
41648466 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Done.