Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold29
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: 5511024
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 57772 characters in sequence are not A, C, G, or T
File 18 of 34
Found at i:2697769 original size:11 final size:11
Alignment explanation
Indices: 2697740--2697770 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2697730 CTATTTTTCC
2697740 TTTTTTTCTTT
1 TTTTTTTCTTT
*
2697751 TTTCTTTCTTT
1 TTTTTTTCTTT
2697762 TTTTTTTCT
1 TTTTTTTCT
2697771 CTCTTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:2697775 original size:19 final size:19
Alignment explanation
Indices: 2697739--2697776 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2697729 ACTATTTTTC
*
2697739 CTTTTTTTCTTTTTTCTTT
1 CTTTTTTTCTTTTCTCTTT
2697758 CTTTTTTT-TTTCTCTCTTT
1 CTTTTTTTCTTT-TCTCTTT
2697777 ATTTCTCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (19 bp):
CTTTTTTTCTTTTCTCTTT
Found at i:2698696 original size:127 final size:127
Alignment explanation
Indices: 2698450--2698697 Score: 315
Period size: 127 Copynumber: 1.9 Consensus size: 127
2698440 TAATTTAATA
*
2698450 TGAATTAAATAATAATATTTGATAAATTTTAAAAATTAAAAACAGATAAAAATCCCTCCGAAAAC
1 TGAATGAAATAATAATATTTGATAAATTTTAAAAATTAAAAACAGATAAAAATCCCTCCGAAAAC
** * ***
2698515 TTTTACGGAGTAGAAAACTCTGTATTTTGGAAATTAGAGAATTTCAAGGAAAAAATAAAAAC
66 AATTACGGAGAAGAAAACTCTGTATTTCAAAAATTAGAGAATTTCAAGGAAAAAATAAAAAC
* * *
2698577 TGAATGAAATAATAATATTTGATGAATTTTAAAATTTATAAACCA-ATAAAATTAT-CCT-CGAA
1 TGAATGAAATAATAATATTTGATAAATTTTAAAAATTA-AAAACAGATAAAA--ATCCCTCCGAA
* *
2698639 AACAATTACGGAGAAGAAAACTCTGTATTTCAAAAA-TATGTGGAATTTCGAGGAAAAAA
63 AACAATTACGGAGAAGAAAACTCTGTATTTCAAAAATTA-G-AGAATTTCAAGGAAAAAA
2698698 AATGAAAAAC
Statistics
Matches: 104, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
126 2 0.02
127 76 0.73
128 24 0.23
129 2 0.02
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.29
Consensus pattern (127 bp):
TGAATGAAATAATAATATTTGATAAATTTTAAAAATTAAAAACAGATAAAAATCCCTCCGAAAAC
AATTACGGAGAAGAAAACTCTGTATTTCAAAAATTAGAGAATTTCAAGGAAAAAATAAAAAC
Found at i:2700256 original size:43 final size:43
Alignment explanation
Indices: 2700203--2700326 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 43
2700193 CGAATGAGGA
* * * *
2700203 TGAAAAGAGTTTAACCAAGGTAAAACTATCTTGTCAAACAGAG
1 TGAAAGGAGTTTAACCAAGGAAAAACCATCTTGTCAAACAAAG
* * * *
2700246 TGAAAGGAGTTTGACCAAGGCAAAACCAT-TGTGCCATACAAAG
1 TGAAAGGAGTTTAACCAAGGAAAAACCATCT-TGTCAAACAAAG
* *
2700289 TGAAAGGAGTTTAACTAAGGAAAAACCATCATGTCAAA
1 TGAAAGGAGTTTAACCAAGGAAAAACCATCTTGTCAAA
2700327 TGAATAAATG
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
42 1 0.02
43 65 0.98
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.21
Consensus pattern (43 bp):
TGAAAGGAGTTTAACCAAGGAAAAACCATCTTGTCAAACAAAG
Found at i:2700450 original size:81 final size:80
Alignment explanation
Indices: 2700336--2701272 Score: 759
Period size: 82 Copynumber: 11.5 Consensus size: 80
2700326 ATGAATAAAT
* * * ** ** **
2700336 GGGTTGACCAAGGCAAAACCAATAAAGTTAACCAATTAAAAGGTTAGTTAACGTGAAACCGATAA
1 GGGTTGACCAAGGCAAAACCGATAAAGTCAACCAATTAAAAGGTTGGCCAGGGCAAAACCGATAA
2700401 AGCCAATGAGTTAGAA
66 AGCCAAT-AGTTAGAA
* ** *
2700417 GGGTTGACGAAGGCAAAACCGATAAAGTCAACCAATTGGAAGGTTGGCCAGGGCAAAACCAATAA
1 GGGTTGACCAAGGCAAAACCGATAAAGTCAACCAATTAAAAGGTTGGCCAGGGCAAAACCGATAA
* *
2700482 AGCCAACAGATTAAAA
66 AGCCAATAG-TTAGAA
* * ** * * *
2700498 GGGTTGACTAGGGCAAAACTAATAAAGTTAACCAATTAAAAGGGTTGGCTAGGGAAAAACCGATA
1 GGGTTGACCAAGGCAAAACCGATAAAGTCAACCAATTAAAA-GGTTGGCCAGGGCAAAACCGATA
* *
2700563 AATCCAAAAGGTTAGAA
65 AAGCCAATA-GTTAGAA
* * * * * **
2700580 AGGTGGACCAAGGCGAAACCCATAAAGTCAACTAATTGGAAGGTTGGCCAGGGCAAGAACCGATA
1 GGGTTGACCAAGGCAAAACCGATAAAGTCAACCAATTAAAAGGTTGGCCAGGGCAA-AACCGATA
* * *
2700645 AAGCCAACAAATTAAAA
65 AAGCCAA-TAGTTAGAA
* * * * * * *
2700662 GGGTCGACCAAGGCAAAATCAATAAAGTCAACCAATTAAAATGGTTGGCCTGGCCGAAACTGATA
1 GGGTTGACCAAGGCAAAACCGATAAAGTCAACCAATTAAAA-GGTTGGCCAGGGCAAAACCGATA
*
2700727 AAGCCGATAGGTTAGAA
65 AAGCCAATA-GTTAGAA
* ** * * ** * * *
2700744 AGGTTGATTAGGGTAAAACCGATAAAGTTTACCAATTGAAAGGTTGGCCAAGGCGAAACCGATAA
1 GGGTTGACCAAGGCAAAACCGATAAAGTCAACCAATTAAAAGGTTGGCCAGGGCAAAACCGATAA
*
2700809 AGCCAATAGACTAGAA
66 AGCCAATAG-TTAGAA
* * * * * ** **
2700825 GCGTCGACCAGGGTAAAACCGATAAAATCAATAAATTAAAAGGGTTGGCCAGGGCAAAACTAATA
1 GGGTTGACCAAGGCAAAACCGATAAAGTCAACCAATTAAAA-GGTTGGCCAGGGCAAAACCGATA
* ** *
2700890 AAGCTAACGGGTTAGGCA
65 AAGCCAA-TAGTTA-GAA
* * * * * * **
2700908 -GGTTCAGCAAGAC-GAACCTGATAAAGTCAACCAATTAAAAAGGTTAGCTAGGGCAAAATAGAT
1 GGGTTGACCAAGGCAAAACC-GATAAAGTCAACCAATT-AAAAGGTTGGCCAGGGCAAAACCGAT
*
2700971 AAAGCCAACAAGTTAGAA
64 AAAGCCAA-TAGTTAGAA
* * * * * ***
2700989 GGGTTGAACAGGGAAAAATCGATAAAGTCAACCAATTGAAAA-GTTGGTCAAAACAAAACCGATA
1 GGGTTGACCAAGGCAAAACCGATAAAGTCAACCAATT-AAAAGGTTGGCCAGGGCAAAACCGATA
* *
2701053 AAGCCACTAGAATA-AA
65 AAGCCAATAG-TTAGAA
* * * * *
2701069 AGGTTGACCAAGACGAAATCGATAAAGTCAACCAATTGAAAA-GTTGGCTAGGGCAAAACCGATA
1 GGGTTGACCAAGGCAAAACCGATAAAGTCAACCAATT-AAAAGGTTGGCCAGGGCAAAACCGATA
*
2701133 AAGCCAATAGATTAAAA
65 AAGCCAATAG-TTAGAA
* * * **
2701150 GGGTTGACCAAGGCAAAACTGATAAAGTCAACCAATTAAAAAGGGTAGGCCAAGGCAAAACTAAT
1 GGGTTGACCAAGGCAAAACCGATAAAGTCAACCAATT-AAAA-GGTTGGCCAGGGCAAAACCGAT
**
2701215 AAAGCCAACGGGTTAGAA
64 AAAGCCAA-TAGTTAGAA
2701233 GGGTTGACCAAGGCAAAACCGATAAAGTCAACCAATTAAA
1 GGGTTGACCAAGGCAAAACCGATAAAGTCAACCAATTAAA
2701273 GGGATAAAAA
Statistics
Matches: 672, Mismatches: 164, Indels: 39
0.77 0.19 0.04
Matches are distributed among these distances:
80 72 0.11
81 239 0.36
82 270 0.40
83 90 0.13
84 1 0.00
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.17
Consensus pattern (80 bp):
GGGTTGACCAAGGCAAAACCGATAAAGTCAACCAATTAAAAGGTTGGCCAGGGCAAAACCGATAA
AGCCAATAGTTAGAA
Found at i:2700791 original size:245 final size:243
Alignment explanation
Indices: 2700391--2701274 Score: 811
Period size: 245 Copynumber: 3.6 Consensus size: 243
2700381 AGTTAACGTG
** * * * * *
2700391 AAACCGATAAAGCCAATGAGTTAGAAGGGTTGACGAAGGCAAAACC-GATAAAGTCAACCAATTG
1 AAACCGATAAAGCCAACAAATTAAAAGGGTCGACCAAGGCAAAACCTGATAAAGTCAACCAATTA
* * * * **
2700455 GAAGGTTGGCCAGGGCAAAACCAATAAAGCCAACAGATTA-AAAGGGTTGACTAGGGCAAAACTA
66 AAAGGTTGGCCAGGGCAAAACTAATAAAGCCAACAGGTTAGAAA-GGTTGACCAGGGCAAAACCG
* * * * **
2700519 ATAAAGTTAACCAATTAAAAGGGTTGGCTAGGGAAAAACCGATAAATCCAAAAGGTTAGAAAGGT
130 ATAAAGTCAACCAATTGAAA-GGTTGGCTA-GGAAAAACCGATAAAGCCAATAGAATAGAAAGGT
* * *
2700584 GGACCAAGGCGAAACCCATAAAGTCAACTAATTGGAAGGTTGGCCAGGGCA
193 CGACCAAGGCGAAACCGATAAAGTCAACTAATTGAAAGGTTGGCCAGGGCA
* *
2700635 AGAACCGATAAAGCCAACAAATTAAAAGGGTCGACCAAGGCAAAATC-AATAAAGTCAACCAATT
1 A-AACCGATAAAGCCAACAAATTAAAAGGGTCGACCAAGGCAAAACCTGATAAAGTCAACCAATT
* * * * * * ** *
2700699 AAAATGGTTGGCCTGGCCGAAACTGATAAAGCCGATAGGTTAGAAAGGTTGATTAGGGTAAAACC
65 AAAA-GGTTGGCCAGGGCAAAACTAATAAAGCCAACAGGTTAGAAAGGTTGACCAGGGCAAAACC
** * ** *
2700764 GATAAAGTTTACCAATTGAAAGGTTGGCCAAGGCGAAACCGATAAAGCCAATAGACTAG-AAGCG
129 GATAAAGTCAACCAATTGAAAGGTTGG-CTAGGAAAAACCGATAAAGCCAATAGAATAGAAAG-G
* ** * *
2700828 TCGACCAGGGTAAAACCGATAAAATCAA-TAAATTAAAAGGGTTGGCCAGGGCA
192 TCGACCAAGGCGAAACCGATAAAGTCAACT-AATTGAAA-GGTTGGCCAGGGCA
** * *** ** * * * *
2700881 AAACTAATAAAGCTAACGGGTTAGGCAGGTTC-AGCAAGAC-GAACCTGATAAAGTCAACCAATT
1 AAACCGATAAAGCCAACAAATTA-AAAGGGTCGACCAAGGCAAAACCTGATAAAGTCAACCAATT
* * * * * * *
2700944 AAAAAGGTTAGCTAGGGCAAAA-TAGATAAAGCCAACAAGTTAGAAGGGTTGAACAGGGAAAAAT
65 -AAAAGGTTGGCCAGGGCAAAACTA-ATAAAGCCAACAGGTTAGAAAGGTTGACCAGGGCAAAAC
* ** *
2701008 CGATAAAGTCAACCAATTGAAAAGTTGG-TCAAAACAAAACCGATAAAGCCACTAGAATA-AAAG
128 CGATAAAGTCAACCAATTGAAAGGTTGGCT-AGGA-AAAACCGATAAAGCCAATAGAATAGAAAG
* * * * * *
2701071 GTTGACCAAGACGAAATCGATAAAGTCAACCAATTGAAAAGTTGGCTAGGGCA
191 GTCGACCAAGGCGAAACCGATAAAGTCAACTAATTGAAAGGTTGGCCAGGGCA
* * *
2701124 AAACCGATAAAGCCAATAGATTAAAAGGGTTGACCAAGGCAAAA-CTGATAAAGTCAACCAATTA
1 AAACCGATAAAGCCAACAAATTAAAAGGGTCGACCAAGGCAAAACCTGATAAAGTCAACCAATT-
* * * * *
2701188 AAAAGGGTAGGCCAAGGCAAAACTAATAAAGCCAACGGGTTAGAAGGGTTGACCAAGGCAAAACC
65 AAAA-GGTTGGCCAGGGCAAAACTAATAAAGCCAACAGGTTAGAAAGGTTGACCAGGGCAAAACC
2701253 GATAAAGTCAACCAATT-AAAGG
129 GATAAAGTCAACCAATTGAAAGG
2701275 GATAAAAAGG
Statistics
Matches: 509, Mismatches: 112, Indels: 39
0.77 0.17 0.06
Matches are distributed among these distances:
242 4 0.01
243 63 0.12
244 105 0.21
245 245 0.48
246 89 0.17
247 3 0.01
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.17
Consensus pattern (243 bp):
AAACCGATAAAGCCAACAAATTAAAAGGGTCGACCAAGGCAAAACCTGATAAAGTCAACCAATTA
AAAGGTTGGCCAGGGCAAAACTAATAAAGCCAACAGGTTAGAAAGGTTGACCAGGGCAAAACCGA
TAAAGTCAACCAATTGAAAGGTTGGCTAGGAAAAACCGATAAAGCCAATAGAATAGAAAGGTCGA
CCAAGGCGAAACCGATAAAGTCAACTAATTGAAAGGTTGGCCAGGGCA
Found at i:2701205 original size:42 final size:41
Alignment explanation
Indices: 2700331--2701272 Score: 433
Period size: 41 Copynumber: 23.1 Consensus size: 41
2700321 GTCAAATGAA
* * *
2700331 TAAATGGGTTGACCAAGGCAAAACCAATAAAGTTAACCAAT
1 TAAAAGGGTTGACCAAGGCAAAACCGATAAAGTCAACCAAT
** * ** * ** *
2700372 TAAAA-GGTT-AGTTAACGTGAAACCGATAAAGCCAATGAGT
1 TAAAAGGGTTGA-CCAAGGCAAAACCGATAAAGTCAACCAAT
* *
2700412 TAGAAGGGTTGACGAAGGCAAAACCGATAAAGTCAACCAAT
1 TAAAAGGGTTGACCAAGGCAAAACCGATAAAGTCAACCAAT
** * * * *
2700453 TGGAA-GGTTGGCCAGGGCAAAACCAATAAAGCCAA-CAGAT
1 TAAAAGGGTTGACCAAGGCAAAACCGATAAAGTCAACCA-AT
* * ** *
2700493 TAAAAGGGTTGACTAGGGCAAAACTAATAAAGTTAACCAAT
1 TAAAAGGGTTGACCAAGGCAAAACCGATAAAGTCAACCAAT
* * * *
2700534 TAAAAGGGTTGGCTAGGGAAAAACCGATAAA-TCCAA--AAGGT
1 TAAAAGGGTTGACCAAGGCAAAACCGATAAAGT-CAACCAA--T
* * * *
2700575 TAGAAA-GGTGGACCAAGGCGAAACCCATAAAGTCAACTAAT
1 TA-AAAGGGTTGACCAAGGCAAAACCGATAAAGTCAACCAAT
** * * * *
2700616 TGGAA-GGTTGGCCAGGGCAAGAACCGATAAAGCCAACAAAT
1 TAAAAGGGTTGACCAAGGCAA-AACCGATAAAGTCAACCAAT
* * *
2700657 TAAAAGGGTCGACCAAGGCAAAATCAATAAAGTCAACCAAT
1 TAAAAGGGTTGACCAAGGCAAAACCGATAAAGTCAACCAAT
* * * * * * * * *
2700698 TAAAATGGTTGGCC-TGGCCGAAACTGATAAAGCCGA-TAGGT
1 TAAAAGGGTTGACCAAGG-CAAAACCGATAAAGTCAACCA-AT
** * * **
2700739 TAGAAA-GGTTGATTAGGGTAAAACCGATAAAGTTTACCAAT
1 TA-AAAGGGTTGACCAAGGCAAAACCGATAAAGTCAACCAAT
* * * * * *
2700780 TGAAA-GGTTGGCCAAGGCGAAACCGATAAAGCCAA-TAGAC
1 TAAAAGGGTTGACCAAGGCAAAACCGATAAAGTCAACCA-AT
* * * * * * **
2700820 TAGAAGCGTCGACCAGGGTAAAACCGATAAAATCAATAAAT
1 TAAAAGGGTTGACCAAGGCAAAACCGATAAAGTCAACCAAT
* * ** ***
2700861 TAAAAGGGTTGGCCAGGGCAAAACTAATAAAG-CTAACGGGT
1 TAAAAGGGTTGACCAAGGCAAAACCGATAAAGTC-AACCAAT
** * * * *
2700902 TAGGCA-GGTTCAGCAAGAC-GAACCTGATAAAGTCAACCAAT
1 TA-AAAGGGTTGACCAAGGCAAAACC-GATAAAGTCAACCAAT
* * * ** *
2700943 TAAAAAGGTT-AGCTAGGGCAAAATAGATAAAGCCAA-CAAGT
1 TAAAAGGGTTGA-CCAAGGCAAAACCGATAAAGTCAACCAA-T
* * * * *
2700984 TAGAAGGGTTGAACAGGGAAAAATCGATAAAGTCAACCAAT
1 TAAAAGGGTTGACCAAGGCAAAACCGATAAAGTCAACCAAT
** ** * * *
2701025 TGAAAA--GTTGGTCAAAACAAAACCGATAAAG-CCACTAGAA
1 T-AAAAGGGTTGACCAAGGCAAAACCGATAAAGTCAACCA-AT
* * *
2701065 TAAAA-GGTTGACCAAGACGAAATCGATAAAGTCAACCAAT
1 TAAAAGGGTTGACCAAGGCAAAACCGATAAAGTCAACCAAT
* * * * *
2701105 TGAAAA--GTTGGCTAGGGCAAAACCGATAAAGCCAA-TAGAT
1 T-AAAAGGGTTGACCAAGGCAAAACCGATAAAGTCAACCA-AT
*
2701145 TAAAAGGGTTGACCAAGGCAAAACTGATAAAGTCAACCAAT
1 TAAAAGGGTTGACCAAGGCAAAACCGATAAAGTCAACCAAT
* * ** * ***
2701186 TAAAAAGGGTAGGCCAAGGCAAAACTAATAAAGCCAACGGGT
1 T-AAAAGGGTTGACCAAGGCAAAACCGATAAAGTCAACCAAT
*
2701228 TAGAAGGGTTGACCAAGGCAAAACCGATAAAGTCAACCAAT
1 TAAAAGGGTTGACCAAGGCAAAACCGATAAAGTCAACCAAT
2701269 TAAA
1 TAAA
2701273 GGGATAAAAA
Statistics
Matches: 653, Mismatches: 205, Indels: 86
0.69 0.22 0.09
Matches are distributed among these distances:
39 19 0.03
40 177 0.27
41 383 0.59
42 72 0.11
43 2 0.00
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.17
Consensus pattern (41 bp):
TAAAAGGGTTGACCAAGGCAAAACCGATAAAGTCAACCAAT
Found at i:2701584 original size:108 final size:107
Alignment explanation
Indices: 2701400--2701604 Score: 248
Period size: 108 Copynumber: 1.9 Consensus size: 107
2701390 AAAAAGATAA
* * * *
2701400 CAAATACAATTAAACGATGATGGAAAAAGTTTAACCAGATTTAGTCAAACGGTGATAGAAAAAAG
1 CAAATACAATTAAACAATGATGGAAAAAGTTTAACCAGATGTACTCAAACGATGATAGAAAAAAG
* * *
2701465 TTTAACTAGATACAGTTAAACGATGATGGAAAAAAGTTTAAC
66 TTTAACCAGATACAGTCAAACAATGATGGAAAAAAGTTTAAC
* * * * * * *
2701507 CAAATACATTTAAACAATGTTGGAAAGAAGTTTGACCAGATGTACTCAAATGATGGTTGAAAGAA
1 CAAATACAATTAAACAATGATGGAAA-AAGTTTAACCAGATGTACTCAAACGATGATAGAAAAAA
* * *
2701572 GTTTGACCAGATATAGTCAAACAATGGTGGAAA
65 GTTTAACCAGATACAGTCAAACAATGATGGAAA
2701605 GATTTGATCG
Statistics
Matches: 80, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
107 23 0.29
108 57 0.71
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.25
Consensus pattern (107 bp):
CAAATACAATTAAACAATGATGGAAAAAGTTTAACCAGATGTACTCAAACGATGATAGAAAAAAG
TTTAACCAGATACAGTCAAACAATGATGGAAAAAAGTTTAAC
Found at i:2701599 original size:36 final size:36
Alignment explanation
Indices: 2701411--2701606 Score: 169
Period size: 36 Copynumber: 5.5 Consensus size: 36
2701401 AAATACAATT
* *
2701411 AAACGATGATGGAAA-AAGTTTAACCAGATTTAGTC
1 AAACGATGGTGGAAAGAAGTTTAACCAGATATAGTC
* * * * * * *
2701446 AAACGGTGATAGAAAAAAGTTTAACTAGATACAGTT
1 AAACGATGGTGGAAAGAAGTTTAACCAGATATAGTC
* * * * * *
2701482 AAACGATGATGGAAAAAAGTTTAACCAAATACATTT
1 AAACGATGGTGGAAAGAAGTTTAACCAGATATAGTC
* * * * *
2701518 AAACAATGTTGGAAAGAAGTTTGACCAGATGTACTC
1 AAACGATGGTGGAAAGAAGTTTAACCAGATATAGTC
* * *
2701554 AAATGATGGTTGAAAGAAGTTTGACCAGATATAGTC
1 AAACGATGGTGGAAAGAAGTTTAACCAGATATAGTC
*
2701590 AAACAATGGTGGAAAGA
1 AAACGATGGTGGAAAGA
2701607 TTTGATCGAG
Statistics
Matches: 131, Mismatches: 29, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
35 13 0.10
36 118 0.90
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.24
Consensus pattern (36 bp):
AAACGATGGTGGAAAGAAGTTTAACCAGATATAGTC
Found at i:2701957 original size:89 final size:88
Alignment explanation
Indices: 2701856--2702177 Score: 342
Period size: 89 Copynumber: 3.6 Consensus size: 88
2701846 CCTAGCTTTA
* * * *
2701856 TGATGCATCAATACCATCTAATGGTTGAATGAAGAGGATATGATTAGGAAGGTGTAGGCCACTCC
1 TGATGCATCAATACCATCTAGTGGTTGAATGAAGGGGATATGATTAGGAAGGTATAGG-CACACC
* ** *
2701921 CTGCCATAAGAGAATTAGGCTTTG
65 TTGCCCCAAGAGAATTAGGCTTGG
* * * * * *
2701945 TGATGCACCAATATCATTTAGTGGTTGGATGAAGGGGATATGATTAGGAATGTATAAGCAGCACC
1 TGATGCATCAATACCATCTAGTGGTTGAATGAAGGGGATATGATTAGGAAGGTATAGGCA-CACC
* * *
2702010 TTACCCCAAGAAAAGTAGGCTTGG
65 TTGCCCCAAGAGAATTAGGCTTGG
* * * * * **
2702034 TGATGCATTAATACCATCTAGTGGTTGAATAAAGGGGATATGATTGGGAATGTATGGGTTGCACC
1 TGATGCATCAATACCATCTAGTGGTTGAATGAAGGGGATATGATTAGGAAGGTATAGG-CACACC
*
2702099 TTGCCCCAAG-GAAATCAGGCTTGG
65 TTGCCCCAAGAG-AATTAGGCTTGG
* * *
2702123 TGATGCATCAATGCCATCTAGTGGTCGAATGAAGGGGATATGATTGGGAA-GTATA
1 TGATGCATCAATACCATCTAGTGGTTGAATGAAGGGGATATGATTAGGAAGGTATA
2702178 TGTTTTTCTC
Statistics
Matches: 193, Mismatches: 37, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
88 6 0.03
89 187 0.97
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (88 bp):
TGATGCATCAATACCATCTAGTGGTTGAATGAAGGGGATATGATTAGGAAGGTATAGGCACACCT
TGCCCCAAGAGAATTAGGCTTGG
Found at i:2702128 original size:178 final size:177
Alignment explanation
Indices: 2701856--2702177 Score: 403
Period size: 178 Copynumber: 1.8 Consensus size: 177
2701846 CCTAGCTTTA
* * *
2701856 TGATGCATCAATACCATCTAATGGTTGAATGAAGAGGATATGATTAGGAAGGTGTAGGCCACTCC
1 TGATGCATCAATACCATCTAATGGTTGAATAAAGAGGATATGATTAGGAAGGTATAGGCCACACC
* * * * * * *
2701921 CTGCCATAAGAGAATTAGGCTTTGTGATGCACCAATATCATTTAGTGGTTGGATGAAGGGGATAT
66 CTGCCACAAGAGAATCAGGCTTGGTGATGCACCAATACCATCTAGTGGTCGAATGAAGGGGATAT
2701986 GATTAGGAATGTATAAGCAGCACCTTACCCCAAGAAAAGTAGGCTTGG
131 GATTAGGAA-GTATAAGCAGCACCTTACCCCAAGAAAAGTAGGCTTGG
* * * * * * ***
2702034 TGATGCATTAATACCATCTAGTGGTTGAATAAAGGGGATATGATTGGGAATGTATGGGTTGCACC
1 TGATGCATCAATACCATCTAATGGTTGAATAAAGAGGATATGATTAGGAAGGTATAGGCCACACC
* * * *
2702099 TTGCCCCAAG-GAAATCAGGCTTGGTGATGCATCAATGCCATCTAGTGGTCGAATGAAGGGGATA
66 CTGCCACAAGAG-AATCAGGCTTGGTGATGCACCAATACCATCTAGTGGTCGAATGAAGGGGATA
*
2702163 TGATTGGGAAGTATA
130 TGATTAGGAAGTATA
2702178 TGTTTTTCTC
Statistics
Matches: 119, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
177 6 0.05
178 113 0.95
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (177 bp):
TGATGCATCAATACCATCTAATGGTTGAATAAAGAGGATATGATTAGGAAGGTATAGGCCACACC
CTGCCACAAGAGAATCAGGCTTGGTGATGCACCAATACCATCTAGTGGTCGAATGAAGGGGATAT
GATTAGGAAGTATAAGCAGCACCTTACCCCAAGAAAAGTAGGCTTGG
Found at i:2705946 original size:50 final size:50
Alignment explanation
Indices: 2705864--2706028 Score: 177
Period size: 50 Copynumber: 3.3 Consensus size: 50
2705854 TTTTAACTAG
* * * *
2705864 ATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCGATACATTCATAC
1 ATGTATCAATACATCAGGG-CAAAAGACAGAATGTATCGATACATTCATAC
* * * * *
2705915 ACGTATTAATACATCAGGGCAAAAGACAGAATGTATCGATACATTAAAAA
1 ATGTATCAATACATCAGGGCAAAAGACAGAATGTATCGATACATTCATAC
* * ** * *
2705965 ATGTATCGATATATTTGGGTAAAAGACAAAATGTATCGATACATTCATAC
1 ATGTATCAATACATCAGGGCAAAAGACAGAATGTATCGATACATTCATAC
*
2706015 ATGTATCGATACAT
1 ATGTATCAATACAT
2706029 TGAAAAATGT
Statistics
Matches: 93, Mismatches: 21, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
50 78 0.84
51 15 0.16
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.28
Consensus pattern (50 bp):
ATGTATCAATACATCAGGGCAAAAGACAGAATGTATCGATACATTCATAC
Found at i:2705969 original size:20 final size:20
Alignment explanation
Indices: 2705944--2706119 Score: 109
Period size: 20 Copynumber: 7.8 Consensus size: 20
2705934 CAAAAGACAG
2705944 AATGTATCGATACATTAAAA
1 AATGTATCGATACATTAAAA
*
2705964 AATGTATCGATATATTTGGGTAAAAGACA
1 AATGTATCGATACA--T---T--AA-A-A
* *
2705993 AAATGTATCGATACATTCATA
1 -AATGTATCGATACATTAAAA
* *
2706014 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTAAAA
*
2706034 AATGTATTGATACATTTGGGCAAAGGACA
1 AATGTATCGATACA-TT-----AA--A-A
2706063 GAATGTATCGATACATTAAAA
1 -AATGTATCGATACATTAAAA
*
2706084 AATGTCTCGATACATTAAAA
1 AATGTATCGATACATTAAAA
2706104 AATGTATCGATACATT
1 AATGTATCGATACATT
2706120 TGGGTAAAAG
Statistics
Matches: 123, Mismatches: 13, Indels: 40
0.70 0.07 0.23
Matches are distributed among these distances:
20 76 0.62
21 4 0.03
22 2 0.02
23 1 0.01
24 2 0.02
25 2 0.02
26 1 0.01
27 2 0.02
28 3 0.02
29 4 0.03
30 26 0.21
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTAAAA
Found at i:2706020 original size:70 final size:70
Alignment explanation
Indices: 2705944--2706168 Score: 342
Period size: 70 Copynumber: 3.2 Consensus size: 70
2705934 CAAAAGACAG
* *
2705944 AATGTATCGATACATTAAAAAATGTATCGATATATTTGGGTAAAAGACAAAATGTATCGATACAT
1 AATGTATCGATACATTAAAAAATGTATCGATACATTTGGGTAAAAGACAGAATGTATCGATACAT
* *
2706009 TCATA
66 TAAAA
* * * * *
2706014 CATGTATCGATACATTGAAAAATGTATTGATACATTTGGGCAAAGGACAGAATGTATCGATACAT
1 AATGTATCGATACATTAAAAAATGTATCGATACATTTGGGTAAAAGACAGAATGTATCGATACAT
2706079 TAAAA
66 TAAAA
* *
2706084 AATGTCTCGATACATTAAAAAATGTATCGATACATTTGGGTAAAAGACAGAATGTATCGATACAC
1 AATGTATCGATACATTAAAAAATGTATCGATACATTTGGGTAAAAGACAGAATGTATCGATACAT
*
2706149 TGAAA
66 TAAAA
2706154 AATGTATCGATACAT
1 AATGTATCGATACAT
2706169 CTGGGTAAAA
Statistics
Matches: 137, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
70 137 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (70 bp):
AATGTATCGATACATTAAAAAATGTATCGATACATTTGGGTAAAAGACAGAATGTATCGATACAT
TAAAA
Found at i:2706138 original size:50 final size:50
Alignment explanation
Indices: 2706084--2706178 Score: 154
Period size: 50 Copynumber: 1.9 Consensus size: 50
2706074 TACATTAAAA
* * *
2706084 AATGTCTCGATACATTAAAAAATGTATCGATACATTTGGGTAAAAGACAG
1 AATGTATCGATACACTAAAAAATGTATCGATACATCTGGGTAAAAGACAG
*
2706134 AATGTATCGATACACTGAAAAATGTATCGATACATCTGGGTAAAA
1 AATGTATCGATACACTAAAAAATGTATCGATACATCTGGGTAAAA
2706179 ATGTGACTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (50 bp):
AATGTATCGATACACTAAAAAATGTATCGATACATCTGGGTAAAAGACAG
Found at i:2706139 original size:120 final size:122
Alignment explanation
Indices: 2705864--2706178 Score: 313
Period size: 120 Copynumber: 2.6 Consensus size: 122
2705854 TTTTAACTAG
* * * * * * *
2705864 ATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCGATACATTCATACACGTATTAATACAT
1 ATGTATCGATACATTTGGGT-AAAAGACAGAATGTATCGATACATTGAAAAATGTATTGATACAT
* * **
2705929 CAGGGCAAAAGACAGAATGTATCGATACATTAAAAAATGTATCGATATATTTGGGTAAA
65 CTGGGCAAAAGACAGAATGTATCGATACATTAAAAAATGTATCGATACATTT-GAAAAA
* * * * ** *
2705988 A-G-A-C-A-AAATGTATCGAT-ACATTCATACATGTATCGATACATTGAAAAATGTATTGATAC
1 ATGTATCGATACAT-T-TGGGTAAAAGACAGA-ATGTATCGATACATTGAAAAATGTATTGATAC
* * *
2706047 ATTTGGGCAAAGGACAGAATGTATCGATACATTAAAAAATGTCTCGATACA-TT-AAAAA
63 ATCTGGGCAAAAGACAGAATGTATCGATACATTAAAAAATGTATCGATACATTTGAAAAA
* *
2706105 ATGTATCGATACATTTGGGTAAAAGACAGAATGTATCGATACACTGAAAAATGTATCGATACATC
1 ATGTATCGATACATTTGGGTAAAAGACAGAATGTATCGATACATTGAAAAATGTATTGATACATC
*
2706170 TGGGTAAAA
66 TGGGCAAAA
2706179 ATGTGACTTT
Statistics
Matches: 149, Mismatches: 33, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
117 4 0.03
118 1 0.01
119 10 0.07
120 117 0.79
121 11 0.07
122 4 0.03
123 1 0.01
124 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (122 bp):
ATGTATCGATACATTTGGGTAAAAGACAGAATGTATCGATACATTGAAAAATGTATTGATACATC
TGGGCAAAAGACAGAATGTATCGATACATTAAAAAATGTATCGATACATTTGAAAAA
Found at i:2706178 original size:24 final size:24
Alignment explanation
Indices: 2706101--2706182 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 24
2706091 CGATACATTA
*
2706101 AAAAATGTATCGATACATTTGGGT
1 AAAAATGTATCGATACATCTGGGT
2706125 AAAAGACAGAATGTATCGATACA-CT--G-
1 ---A-A-A-AATGTATCGATACATCTGGGT
2706151 AAAAATGTATCGATACATCTGGGT
1 AAAAATGTATCGATACATCTGGGT
2706175 AAAAATGT
1 AAAAATGT
2706183 GACTTTTCCA
Statistics
Matches: 47, Mismatches: 1, Indels: 17
0.72 0.02 0.26
Matches are distributed among these distances:
20 14 0.30
21 3 0.06
22 1 0.02
23 2 0.04
24 8 0.17
27 2 0.04
28 1 0.02
29 2 0.04
30 14 0.30
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.27
Consensus pattern (24 bp):
AAAAATGTATCGATACATCTGGGT
Found at i:2707886 original size:13 final size:13
Alignment explanation
Indices: 2707868--2707892 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2707858 CATATTGCTT
2707868 TGTATCGATACAA
1 TGTATCGATACAA
2707881 TGTATCGATACA
1 TGTATCGATACA
2707893 GGTTCTTGGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2707910 original size:32 final size:33
Alignment explanation
Indices: 2707847--2707911 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2707837 ACACACCCAG
* *
2707847 ATGTATCGATACATATTGCTTTGTATCGATACA
1 ATGTATCGATACAGATTGCTTGGTATCGATACA
*
2707880 ATGTATCGATACAGGTT-CTTGGTATCGATACA
1 ATGTATCGATACAGATTGCTTGGTATCGATACA
2707912 CACTGAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.37
Consensus pattern (33 bp):
ATGTATCGATACAGATTGCTTGGTATCGATACA
Found at i:2712852 original size:33 final size:32
Alignment explanation
Indices: 2712815--2712878 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
2712805 CACACCTAGA
*
2712815 TGTATCGATACATATTGTTTCGTATCGATACAT
1 TGTATCGATACATATT-CTTCGTATCGATACAT
* * *
2712848 TGTATTGATACATGTTCTTGGTATCGATACA
1 TGTATCGATACATATTCTTCGTATCGATACA
2712879 CACTGAATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATATTCTTCGTATCGATACAT
Found at i:2720182 original size:19 final size:18
Alignment explanation
Indices: 2720160--2720198 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
2720150 ACTTTTTTCC
*
2720160 CTTTTTTTCTTTTTTCTTT
1 CTTTTTTTCTATTTT-TTT
2720179 CTTTTTTTCTATTTTTTT
1 CTTTTTTTCTATTTTTTT
2720197 CT
1 CT
2720199 CCAAGATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (18 bp):
CTTTTTTTCTATTTTTTT
Found at i:2720843 original size:26 final size:27
Alignment explanation
Indices: 2720812--2720871 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
2720802 TCAATTTTTC
2720812 GAAAATAAGA-AAATTT-CAAAACTTAT
1 GAAAATAA-ATAAATTTGCAAAACTTAT
*
2720838 GAAAATAAATTAATTTTGCAAAACTTAT
1 GAAAATAAA-TAAATTTGCAAAACTTAT
2720866 -AAAATA
1 GAAAATA
2720872 TGAATTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 1 0.03
26 8 0.27
27 11 0.37
28 10 0.33
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (27 bp):
GAAAATAAATAAATTTGCAAAACTTAT
Found at i:2721158 original size:146 final size:145
Alignment explanation
Indices: 2720868--2721142 Score: 349
Period size: 146 Copynumber: 1.9 Consensus size: 145
2720858 AAACTTATAA
* * *
2720868 AATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTACAAAAAATCCGTTCGA
1 AATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAAAAAAATCCG-TCCA
* * * * * *
2720933 AAATATTTACAGAGTAGAAAACTCTATATTTGGACACAAGAGAATTTCAAGGAAAAAATGAAAAT
65 AAAAATTTACAGAGAAGAAAACTCTATATTTGCAAAAAAGAGAATTTCAAAGAAAAAATGAAAAT
2720998 GAATGAAAATTGAATT
130 GAATGAAAATTGAATT
* *
2721014 AATATGAATTAAATAATAATATTTGATG-ATTTTAAAATTTATAAACCAAAAAAAATCTC-TCCA
1 AATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAAAAAAATC-CGTCCA
* * * *
2721077 AAAAATTTACGGTGAAGAAAACTCTGTGTTT-CAAAAATAGGGAGAATTTCAAAGAAAAAATGAA
65 AAAAATTTACAGAGAAGAAAACTCTATATTTGCAAAAA-A--GAGAATTTCAAAGAAAAAATGAA
2721141 AA
127 AA
2721143 ACTCATGAAA
Statistics
Matches: 110, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
143 3 0.03
144 29 0.26
145 25 0.23
146 53 0.48
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (145 bp):
AATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAAAAAAATCCGTCCAA
AAAATTTACAGAGAAGAAAACTCTATATTTGCAAAAAAGAGAATTTCAAAGAAAAAATGAAAATG
AATGAAAATTGAATT
Found at i:2724016 original size:26 final size:26
Alignment explanation
Indices: 2723980--2724032 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
2723970 TTTGTTAAAC
2723980 TCTTAAAACAAATTTCTCCCCCTTTT
1 TCTTAAAACAAATTTCTCCCCCTTTT
* *
2724006 TCTTAAAACAAATTTCTCTCCTTTTT
1 TCTTAAAACAAATTTCTCCCCCTTTT
2724032 T
1 T
2724033 GTTATCTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.47
Consensus pattern (26 bp):
TCTTAAAACAAATTTCTCCCCCTTTT
Found at i:2724142 original size:58 final size:58
Alignment explanation
Indices: 2724067--2724204 Score: 233
Period size: 58 Copynumber: 2.4 Consensus size: 58
2724057 AAATTTATTA
* * *
2724067 CAAAATATCTCTCTCCCTCTTTTCATCTCTCTCTTTTTTTCAAATTTATTTTCAATTT
1 CAAAATATTTCTCTCCCTCTTTTCATCTCTCCCTCTTTTTCAAATTTATTTTCAATTT
*
2724125 CAAAATATTTCTATCCCTCTTTTCATCTCTCCCTCTTTTTCAAATTTATTTTCAATTT
1 CAAAATATTTCTCTCCCTCTTTTCATCTCTCCCTCTTTTTCAAATTTATTTTCAATTT
2724183 CAAAATATTTCTCTCCCT-TTTT
1 CAAAATATTTCTCTCCCTCTTTT
2724205 GTTATAACAA
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
57 4 0.05
58 71 0.95
ACGTcount: A:0.22, C:0.26, G:0.00, T:0.52
Consensus pattern (58 bp):
CAAAATATTTCTCTCCCTCTTTTCATCTCTCCCTCTTTTTCAAATTTATTTTCAATTT
Found at i:2728369 original size:34 final size:34
Alignment explanation
Indices: 2728321--2728405 Score: 152
Period size: 34 Copynumber: 2.5 Consensus size: 34
2728311 TTTCATTTGC
*
2728321 ATGAAAGTATGCATGAAGTAAAAGCATGCATGAA
1 ATGAAAGTATGCATGAACTAAAAGCATGCATGAA
*
2728355 ATGATAGTATGCATGAACTAAAAGCATGCATGAA
1 ATGAAAGTATGCATGAACTAAAAGCATGCATGAA
2728389 ATGAAAGTATGCATGAA
1 ATGAAAGTATGCATGAA
2728406 ATGCCACCTA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.22
Consensus pattern (34 bp):
ATGAAAGTATGCATGAACTAAAAGCATGCATGAA
Found at i:2728408 original size:17 final size:17
Alignment explanation
Indices: 2728321--2728408 Score: 113
Period size: 17 Copynumber: 5.2 Consensus size: 17
2728311 TTTCATTTGC
2728321 ATGAAAGTATGCATGAA
1 ATGAAAGTATGCATGAA
* * *
2728338 GTAAAAGCATGCATGAA
1 ATGAAAGTATGCATGAA
*
2728355 ATGATAGTATGCATGAA
1 ATGAAAGTATGCATGAA
* * *
2728372 CTAAAAGCATGCATGAA
1 ATGAAAGTATGCATGAA
2728389 ATGAAAGTATGCATGAA
1 ATGAAAGTATGCATGAA
2728406 ATG
1 ATG
2728409 CCACCTAATT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 57 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (17 bp):
ATGAAAGTATGCATGAA
Found at i:2728533 original size:28 final size:27
Alignment explanation
Indices: 2728493--2728558 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
2728483 ACCAACATGA
*
2728493 ATTTTTTCTTTTAATTAATTAATTA-TT
1 ATTTTTTTTTTTAATT-ATTAATTATTT
*
2728520 ATTTTTTTTATTTAATTATTTATTATTT
1 ATTTTTTTT-TTTAATTATTAATTATTT
*
2728548 ATTTATTTTTT
1 ATTTTTTTTTT
2728559 ATTATTCATG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 17 0.50
28 17 0.50
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.73
Consensus pattern (27 bp):
ATTTTTTTTTTTAATTATTAATTATTT
Found at i:2728534 original size:24 final size:24
Alignment explanation
Indices: 2728496--2728555 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
2728486 AACATGAATT
*
2728496 TTTTCTTTTAATTAATTAATTATTA
1 TTTT-TTTTATTTAATTAATTATTA
*
2728521 TTTTTTTTATTTAATTATTTATTA
1 TTTTTTTTATTTAATTAATTATTA
*
2728545 -TTTATTTATTT
1 TTTTTTTTATTT
2728556 TTTATTATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 10 0.31
24 18 0.56
25 4 0.12
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTTTTTATTTAATTAATTATTA
Found at i:2728547 original size:15 final size:15
Alignment explanation
Indices: 2728502--2728561 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
2728492 AATTTTTTCT
*
2728502 TTTAATTAATTAATTA
1 TTTAATT-ATTTATTA
*
2728518 -TT-ATT-TTTTTTA
1 TTTAATTATTTATTA
2728530 TTTAATTATTTATTA
1 TTTAATTATTTATTA
* *
2728545 TTTATTTATTTTTTA
1 TTTAATTATTTATTA
2728560 TT
1 TT
2728562 ATTCATGTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
12 5 0.14
13 2 0.06
14 6 0.17
15 23 0.64
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTAATTATTTATTA
Found at i:2729234 original size:42 final size:42
Alignment explanation
Indices: 2729138--2730390 Score: 577
Period size: 42 Copynumber: 29.8 Consensus size: 42
2729128 AAAGGTGGAA
* * *
2729138 AAGTTTCTAAGGTCAAAGCTGATAGGCAAACTTGACGGTAAGG
1 AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTGA-GGTAAGG
* * * *
2729181 AAGTCTCTAGGGTCAAAGCTAACAGGTAGACTTGAGATAAGG
1 AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTGAGGTAAGG
* * ** *
2729223 CAGTCTCTAGGGTCAAAGCTGACAGATAGA-TTGAAGGT-AGAA
1 AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTG-AGGTAAG-G
* * * * *
2729265 AAGTCTCCAAGGTCAAAGCTGACAAGCAGACTTG-GGATGAGG
1 AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTGAGG-TAAGG
* *
2729307 CAGTCTCTAGGGTCAAAG-TCGATAGGCAGAC-TGAAGGTAAGA
1 AAGTCTCTAGGGTCAAAGCT-GATAGGCAGACTTG-AGGTAAGG
* * * **
2729349 AAGTCTCTAGGGTCAAAACTGACAGGCAAACTAAAGGT-AGG
1 AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTGAGGTAAGG
* * * * * * *
2729390 AAAGTTTCCAAGGCCAAAGCCGACAGGCAGACTTTAGGTAAGG
1 -AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTGAGGTAAGG
* * * *
2729433 CAGTCTCTAGGGTCAAAGCCGACAGGCAGAC-TGAAGGGTAAGA
1 AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTG-A-GGTAAGG
* * * * * *
2729476 AAGTCTCCAAGGTCAAAGCTGGTAGGCACACTTAAGATAAGG
1 AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTGAGGTAAGG
* * * * * * **
2729518 CAGTCTCGAAGATCAAAGCTAATAGACAGAC-TGAGAGTAATA
1 AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTGAG-GTAAGG
* * * * * *
2729560 AAGTCTCTAGGGTCAAAGCCGACATGCAAACTTGAGATATGG
1 AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTGAGGTAAGG
* * * * * * *
2729602 TAGTTTCGAGGGTAAAAGCCGATAGACAGAC-TGAGGGTAAGA
1 AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTGA-GGTAAGG
* * * * *
2729644 AAGTCTCCAGGGTCAAAGCTAATAGGTAGACTTTAGGTGAGG
1 AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTGAGGTAAGG
* * *
2729686 CAGTCTCTAGGGTCAAAG-TCGATAGGTAGAC-TGAGGGTAAGA
1 AAGTCTCTAGGGTCAAAGCT-GATAGGCAGACTTGA-GGTAAGG
* * * * * * *
2729728 AAGTCTCCAAGGTCAATGAC-GACAAGTAGACTTTAGGTAAGG
1 AAGTCTCTAGGGTCAAAG-CTGATAGGCAGACTTGAGGTAAGG
* * * ** *
2729770 CAGTATCCAGGGTCAAAGCCAATAGGCAAAC-TGAAGGT-AGG
1 AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTG-AGGTAAGG
* * *
2729811 AAAGTCTCTAGGGTCAAAGCTGATAGGCAAACTTTAGGTGAGG
1 -AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTGAGGTAAGG
* ** *
2729854 CAA-TCTCTAAGGTCAAATTTGATAGGCAGA-TTGAAGGGTAAGA
1 -AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTG-A-GGTAAGG
* * * * * * *
2729897 AAGTCTCAAGGGTCAAAGCCGACAAGTAGACTTGAGATAAAG
1 AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTGAGGTAAGG
* * ** *
2729939 CAGTCTCCAGGGTCAAAGCCAATAGGCAGAC-TGAAGGTAAGA
1 AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTG-AGGTAAGG
* *
2729981 AAGTCTCTAGGGTCAAAGC-GATAGGCAAACATT-AGGTGAGG
1 AAGTCTCTAGGGTCAAAGCTGATAGGCAGAC-TTGAGGTAAGG
* * * * * *
2730022 CAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAGGTGAGG
1 AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTGAGGTAAGG
* * * * * *
2730064 TAGTCTCCAAGGTCAAAG-TCGACAGGCAAAC-TGAAGGGTAAGA
1 AAGTCTCTAGGGTCAAAGCT-GATAGGCAGACTTG-A-GGTAAGG
* * * * * *
2730107 AAGTCTCTAGAGTCAAAGCCGACAGGCAAACTTGAGATAAGA
1 AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTGAGGTAAGG
* * * * * * *
2730149 AACTCTCCAAGGTTAAAAC-CAGCAGGCAGA-TTGAAGGT-AGG
1 AAGTCTCTAGGGTCAAAGCTGA-TAGGCAGACTTG-AGGTAAGG
* * * * * * * *
2730190 AAAGTATCTAAGTTCAAAACTGACAGGTAGACTTGAGATGA-G
1 -AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTGAGGTAAGG
* * * * * *
2730232 ATAGTCTCCAAGGTCAAAGCCGATAGGTAGACTTTAGGTGAGG
1 A-AGTCTCTAGGGTCAAAGCTGATAGGCAGACTTGAGGTAAGG
* * * * * * *
2730275 TAGTCTCCAAGGTTAAAG-TCAACAGGCAGAC-TGAAGGT-AGAA
1 AAGTCTCTAGGGTCAAAGCT-GATAGGCAGACTTG-AGGTAAG-G
* * * *
2730317 AAGTCTCTAGGGTCAAAGCCGACAGGTAGACTTTAGG--AGAG
1 AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTGAGGTAAG-G
* * * *
2730358 ACAGTCTTTAAGGTCAAAGCTGACAGGAAGACT
1 A-AGTCTCTAGGGTCAAAGCTGATAGGCAGACT
2730391 AAAGGGTAAG
Statistics
Matches: 919, Mismatches: 234, Indels: 115
0.72 0.18 0.09
Matches are distributed among these distances:
41 80 0.09
42 684 0.74
43 149 0.16
44 6 0.01
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.19
Consensus pattern (42 bp):
AAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTGAGGTAAGG
Found at i:2729689 original size:168 final size:168
Alignment explanation
Indices: 2729099--2730403 Score: 818
Period size: 168 Copynumber: 7.7 Consensus size: 168
2729089 GAGAAAGGAT
* * ** * * * *
2729099 TCTCCCGGGTCAAAGCCAATGGGCAGACAAAAGGT-GGAAAAGTTTCTAAGGTCAAAGCTGATAG
1 TCTCCAGGGTCAAAGCCAATAGGCAGACTGAAGGTAAG-AAAGTCTCCAGGGTCAAAGCTGATAG
* * * * * * * * **
2729163 GCAAACTTGACGGTAAGGAAGTCTCTAGGGTCAAAGCTAACAGGTAGACTTGA-GATAAGGCAGT
65 GCAAACTTTA-GGTGAGGCAGTCTCTAAGGTCAAAGCTGATAGGCAGAC-TGAGGGTAAGAAAGT
* * * * **
2729227 CTCTAGGGTCAAAGCTGAC-AGATAGA-TTGAAGGT-AGAAAAG
128 CTCAAGGGTCAAAGCCGACAAG-CAGACTTG-AGATAAG-GCAG
* ** * * * ** *
2729268 TCTCCAAGGTCAAAGCTGACAAGCAGACTTG--GGATGAGGCAGTCTCTAGGGTCAAAG-TCGAT
1 TCTCCAGGGTCAAAGCCAATAGGCAGAC-TGAAGG-TAAGAAAGTCTCCAGGGTCAAAGCT-GAT
* ** * ** * * * * * * *
2729330 AGGCAGACTGAAGGTAAGAAAGTCTCTAGGGTCAAAACTGACAGGCAAACTAAAGGTAGGAAAGT
63 AGGCAAACTTTAGGTGAGGCAGTCTCTAAGGTCAAAGCTGATAGGCAGACTGAGGGTAAGAAAGT
* * * * *
2729395 TTCCAA-GGCCAAAGCCGACAGGCAGACTTTAGGTAAGGCAG
128 CT-CAAGGGTCAAAGCCGACAAGCAGACTTGAGATAAGGCAG
* * * * *
2729436 TCTCTAGGGTCAAAGCCGACAGGCAGACTGAAGGGTAAGAAAGTCTCCAAGGTCAAAGCTGGTAG
1 TCTCCAGGGTCAAAGCCAATAGGCAGACTGAA-GGTAAGAAAGTCTCCAGGGTCAAAGCTGATAG
* * * * * * * * * *
2729501 GCACACTTAAGATAAGGCAGTCTCGAAGATCAAAGCTAATAGACAGACTGAGAGTAATAAAGTCT
65 GCAAACTTTAGGTGAGGCAGTCTCTAAGGTCAAAGCTGATAGGCAGACTGAGGGTAAGAAAGTCT
* * * * *
2729566 CTAGGGTCAAAGCCGACATGCAAACTTGAGATATGGTAG
130 CAAGGGTCAAAGCCGACAAGCAGACTTGAGATAAGGCAG
* * * * * * *
2729605 TTTCGAGGGTAAAAGCCGATAGACAGACTGAGGGTAAGAAAGTCTCCAGGGTCAAAGCTAATAGG
1 TCTCCAGGGTCAAAGCCAATAGGCAGACTGAAGGTAAGAAAGTCTCCAGGGTCAAAGCTGATAGG
* * * *
2729670 TAGACTTTAGGTGAGGCAGTCTCTAGGGTCAAAG-TCGATAGGTAGACTGAGGGTAAGAAAGTCT
66 CAAACTTTAGGTGAGGCAGTCTCTAAGGTCAAAGCT-GATAGGCAGACTGAGGGTAAGAAAGTCT
* * * * *
2729734 CCAA-GGTCAATGACGACAAGTAGACTTTAGGTAAGGCAG
130 -CAAGGGTCAAAGCCGACAAGCAGACTTGAGATAAGGCAG
* * * *
2729773 TATCCAGGGTCAAAGCCAATAGGCAAACTGAAGGTAGGAAAGTCTCTAGGGTCAAAGCTGATAGG
1 TCTCCAGGGTCAAAGCCAATAGGCAGACTGAAGGTAAGAAAGTCTCCAGGGTCAAAGCTGATAGG
* ** *
2729838 CAAACTTTAGGTGAGGCAATCTCTAAGGTCAAATTTGATAGGCAGATTGAAGGGTAAGAAAGTCT
66 CAAACTTTAGGTGAGGCAGTCTCTAAGGTCAAAGCTGATAGGCAGACTG-AGGGTAAGAAAGTCT
* *
2729903 CAAGGGTCAAAGCCGACAAGTAGACTTGAGATAAAGCAG
130 CAAGGGTCAAAGCCGACAAGCAGACTTGAGATAAGGCAG
*
2729942 TCTCCAGGGTCAAAGCCAATAGGCAGACTGAAGGTAAGAAAGTCTCTAGGGTCAAAGC-GATAGG
1 TCTCCAGGGTCAAAGCCAATAGGCAGACTGAAGGTAAGAAAGTCTCCAGGGTCAAAGCTGATAGG
* * * * * **
2730006 CAAACATTAGGTGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTTA-GGTGAGGTAGTCT
66 CAAACTTTAGGTGAGGCAGTCTCTAAGGTCAAAGCTGATAGGCAGAC-TGAGGGTAAGAAAGTCT
* * * * **
2730070 CCAA-GGTCAAAGTCGACAGGCAAAC-TGAAGGGTAAGAAAG
130 -CAAGGGTCAAAGCCGACAAGCAGACTTG-A-GATAAGGCAG
* * * * * * * * * * * *
2730110 TCTCTAGAGTCAAAGCCGACAGGCAAACTTG-AGATAAGAAACTCTCCAAGGTTAAAAC-CAGCA
1 TCTCCAGGGTCAAAGCCAATAGGCAGAC-TGAAGGTAAGAAAGTCTCCAGGGTCAAAGCTGA-TA
* * * * * * * * * * *
2730173 GGCAGA-TTGAAGGT-AGGAAAGTATCTAAGTTCAAAACTGACAGGTAGACTTGA-GATGAGATA
64 GGCAAACTT-TAGGTGAGG-CAGTCTCTAAGGTCAAAGCTGATAGGCAGAC-TGAGGGTAAGAAA
* * * * * * *
2730235 GTCTCCAA-GGTCAAAGCCGATAGGTAGACTTTAGGTGAGGTAG
126 GTCT-CAAGGGTCAAAGCCGACAAGCAGACTTGAGATAAGGCAG
* * * * * * *
2730278 TCTCCAAGGTTAAAGTCAACAGGCAGACTGAAGGT-AGAAAAGTCTCTAGGGTCAAAGCCGACAG
1 TCTCCAGGGTCAAAGCCAATAGGCAGACTGAAGGTAAG-AAAGTCTCCAGGGTCAAAGCTGATAG
* * * * * * * *
2730342 GTAGACTTTAGGAGAGACAGTCTTTAAGGTCAAAGCTGACAGGAAGACTAAAGGGTAAGAAA
65 GCAAACTTTAGGTGAGGCAGTCTCTAAGGTCAAAGCTGATAGGCAGACT-GAGGGTAAGAAA
2730404 ATTCATATGG
Statistics
Matches: 891, Mismatches: 210, Indels: 70
0.76 0.18 0.06
Matches are distributed among these distances:
166 2 0.00
167 38 0.04
168 480 0.54
169 366 0.41
170 5 0.01
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (168 bp):
TCTCCAGGGTCAAAGCCAATAGGCAGACTGAAGGTAAGAAAGTCTCCAGGGTCAAAGCTGATAGG
CAAACTTTAGGTGAGGCAGTCTCTAAGGTCAAAGCTGATAGGCAGACTGAGGGTAAGAAAGTCTC
AAGGGTCAAAGCCGACAAGCAGACTTGAGATAAGGCAG
Found at i:2729698 original size:84 final size:84
Alignment explanation
Indices: 2729148--2730403 Score: 708
Period size: 84 Copynumber: 14.9 Consensus size: 84
2729138 AAGTTTCTAA
* * * ** * *
2729148 GGTCAAAGCTGATAGGCAAACTTGACGGTAAGGAAGTCTCTAGGGTCAAAGCTAACAGGTAGACT
1 GGTCAAAGCTGATAGGCAGACTTTA-GGTAAGGCAGTCTCTAGGGTCAAAGCCGATAGGCAGAC-
* ** *
2729213 TGA-GATAAGGCAGTCTCTAG
64 TGAGGGTAAGAAAGTCTCCAG
* ** * ** * * * * *
2729233 GGTCAAAGCTGACAGATAGA-TTGAAGGT-AGAAAAGTCTCCAAGGTCAAAGCTGACAAGCAGAC
1 GGTCAAAGCTGATAGGCAGACTT-TAGGTAAG-GCAGTCTCTAGGGTCAAAGCCGATAGGCAGAC
* * ** *
2729296 TTG-GGATGAGGCAGTCTCTAG
64 -TGAGGGTAAGAAAGTCTCCAG
** ** * * * *
2729317 GGTCAAAG-TCGATAGGCAGACTGAAGGTAAGAAAGTCTCTAGGGTCAAAACTGACAGGCAAACT
1 GGTCAAAGCT-GATAGGCAGACTTTAGGTAAGGCAGTCTCTAGGGTCAAAGCCGATAGGCAGACT
* * * * *
2729381 AAAGGTAGGAAAGTTTCCAA
65 GAGGGTAAGAAAGTCTCCAG
* * * *
2729401 GGCCAAAGCCGACAGGCAGACTTTAGGTAAGGCAGTCTCTAGGGTCAAAGCCGACAGGCAGACTG
1 GGTCAAAGCTGATAGGCAGACTTTAGGTAAGGCAGTCTCTAGGGTCAAAGCCGATAGGCAGACTG
*
2729466 AAGGGTAAGAAAGTCTCCAA
66 -AGGGTAAGAAAGTCTCCAG
* * * * * * * ** *
2729486 GGTCAAAGCTGGTAGGCACACTTAAGATAAGGCAGTCTCGAAGATCAAAGCTAATAGACAGACTG
1 GGTCAAAGCTGATAGGCAGACTTTAGGTAAGGCAGTCTCTAGGGTCAAAGCCGATAGGCAGACTG
* * *
2729551 AGAGTAATAAAGTCTCTAG
66 AGGGTAAGAAAGTCTCCAG
* * * * * * * * * * * *
2729570 GGTCAAAGCCGACATGCAAACTTGAGATATGGTAGTTTCGAGGGTAAAAGCCGATAGACAGACTG
1 GGTCAAAGCTGATAGGCAGACTTTAGGTAAGGCAGTCTCTAGGGTCAAAGCCGATAGGCAGACTG
2729635 AGGGTAAGAAAGTCTCCAG
66 AGGGTAAGAAAGTCTCCAG
* * * * *
2729654 GGTCAAAGCTAATAGGTAGACTTTAGGTGAGGCAGTCTCTAGGGTCAAAGTCGATAGGTAGACTG
1 GGTCAAAGCTGATAGGCAGACTTTAGGTAAGGCAGTCTCTAGGGTCAAAGCCGATAGGCAGACTG
*
2729719 AGGGTAAGAAAGTCTCCAA
66 AGGGTAAGAAAGTCTCCAG
* * * * * * * *
2729738 GGTCAATGAC-GACAAGTAGACTTTAGGTAAGGCAGTATCCAGGGTCAAAGCCAATAGGCAAACT
1 GGTCAAAG-CTGATAGGCAGACTTTAGGTAAGGCAGTCTCTAGGGTCAAAGCCGATAGGCAGACT
* * *
2729802 GAAGGTAGGAAAGTCTCTAG
65 GAGGGTAAGAAAGTCTCCAG
* * * * *** *
2729822 GGTCAAAGCTGATAGGCAAACTTTAGGTGAGGCAATCTCTAAGGTCAAATTTGATAGGCAGATTG
1 GGTCAAAGCTGATAGGCAGACTTTAGGTAAGGCAGTCTCTAGGGTCAAAGCCGATAGGCAGACTG
*
2729887 AAGGGTAAGAAAGTCTCAAG
66 -AGGGTAAGAAAGTCTCCAG
* * * * * * * * *
2729907 GGTCAAAGCCGACAAGTAGACTTGAGATAAAGCAGTCTCCAGGGTCAAAGCCAATAGGCAGACTG
1 GGTCAAAGCTGATAGGCAGACTTTAGGTAAGGCAGTCTCTAGGGTCAAAGCCGATAGGCAGACTG
* *
2729972 AAGGTAAGAAAGTCTCTAG
66 AGGGTAAGAAAGTCTCCAG
* * * * *
2729991 GGTCAAAGC-GATAGGCAAACATTAGGTGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTT
1 GGTCAAAGCTGATAGGCAGACTTTAGGTAAGGCAGTCTCTAGGGTCAAAGCCGATAGGCAGAC-T
* * ** *
2730055 TA-GGTGAGGTAGTCTCCAA
65 GAGGGTAAGAAAGTCTCCAG
* * ** ** * * *
2730074 GGTCAAAG-TCGACAGGCAAACTGAAGGGTAAGAAAGTCTCTAGAGTCAAAGCCGACAGGCAAAC
1 GGTCAAAGCT-GATAGGCAGACTTTA-GGTAAGGCAGTCTCTAGGGTCAAAGCCGATAGGCAGAC
* * *
2730138 TTGA-GATAAGAAACTCTCCAA
64 -TGAGGGTAAGAAAGTCTCCAG
* * * * * * * * * * * * *
2730159 GGTTAAAAC-CAGCAGGCAGA-TTGAAGGT-AGGAAAGTATCTAAGTTCAAAACTGACAGGTAGA
1 GGTCAAAGCTGA-TAGGCAGACTT-TAGGTAAGG-CAGTCTCTAGGGTCAAAGCCGATAGGCAGA
* * * *
2730221 CTTGA-GATGAGATAGTCTCCAA
63 C-TGAGGGTAAGAAAGTCTCCAG
* * * * * * * * * *
2730243 GGTCAAAGCCGATAGGTAGACTTTAGGTGAGGTAGTCTCCAAGGTTAAAGTCAACAGGCAGACTG
1 GGTCAAAGCTGATAGGCAGACTTTAGGTAAGGCAGTCTCTAGGGTCAAAGCCGATAGGCAGACTG
* *
2730308 AAGGT-AGAAAAGTCTCTAG
66 AGGGTAAG-AAAGTCTCCAG
* * * * * * * * *
2730327 GGTCAAAGCCGACAGGTAGACTTTAGG-AGAGACAGTCTTTAAGGTCAAAGCTGACAGGAAGACT
1 GGTCAAAGCTGATAGGCAGACTTTAGGTA-AGGCAGTCTCTAGGGTCAAAGCCGATAGGCAGACT
*
2730391 AAAGGGTAAGAAA
65 -GAGGGTAAGAAA
2730404 ATTCATATGG
Statistics
Matches: 907, Mismatches: 236, Indels: 56
0.76 0.20 0.05
Matches are distributed among these distances:
83 72 0.08
84 606 0.67
85 227 0.25
86 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.19
Consensus pattern (84 bp):
GGTCAAAGCTGATAGGCAGACTTTAGGTAAGGCAGTCTCTAGGGTCAAAGCCGATAGGCAGACTG
AGGGTAAGAAAGTCTCCAG
Found at i:2730175 original size:85 final size:83
Alignment explanation
Indices: 2730023--2730254 Score: 250
Period size: 85 Copynumber: 2.7 Consensus size: 83
2730013 TAGGTGAGGC
* * * **
2730023 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAGGTGAGGTAGTCTCCAAGGTCAAAGTCGACA
1 AGTCTCTAA-GTCAAAGCCGACAGGCAGACTTGAGATGAGATAGTCTCCAAGGTCAAAACCGACA
2730088 GGCAAACTGAAGGGTAAGAA
65 GGCAAACTGAA-GGTAAGAA
* * * * *
2730108 AGTCTCTAGAGTCAAAGCCGACAGGCAAACTTGAGATAAGAAACTCTCCAAGGTTAAAACC-AGC
1 AGTCTCTA-AGTCAAAGCCGACAGGCAGACTTGAGATGAGATAGTCTCCAAGGTCAAAACCGA-C
* * *
2730172 AGGCAGATTGAAGGTAGGAA
64 AGGCAAACTGAAGGTAAGAA
* * * * *
2730192 AGTATCTAAGTTCAAAACTGACAGGTAGACTTGAGATGAGATAGTCTCCAAGGTCAAAGCCGA
1 AGTCTCTAAG-TCAAAGCCGACAGGCAGACTTGAGATGAGATAGTCTCCAAGGTCAAAACCGA
2730255 TAGGTAGACT
Statistics
Matches: 120, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
83 2 0.02
84 56 0.47
85 61 0.51
86 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.19
Consensus pattern (83 bp):
AGTCTCTAAGTCAAAGCCGACAGGCAGACTTGAGATGAGATAGTCTCCAAGGTCAAAACCGACAG
GCAAACTGAAGGTAAGAA
Found at i:2730207 original size:127 final size:125
Alignment explanation
Indices: 2729944--2730207 Score: 266
Period size: 127 Copynumber: 2.1 Consensus size: 125
2729934 TAAAGCAGTC
* * * * * * *
2729944 TCCAGGGTCAAAGCCAATAGGCAGACTGAAGGTAAGAAAGTCTCTAGGGTCAAAGCGATAGGCAA
1 TCCAAGGTCAAAGTCGACAGGCAAACTGAAGGTAAGAAAGTCTCTAGAGTCAAAGCGACAGGCAA
* * ** * * * * * *
2730009 ACATTAGGTGAGGCAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAGGTGAGGTAGTC
66 ACATTAGATAAGAAACTCTCCAAGGTCAAAACCGACAGGCAGACTTAAGGTGAGGAAGTA
2730069 TCCAAGGTCAAAGTCGACAGGCAAACTGAAGGGTAAGAAAGTCTCTAGAGTCAAAGCCGACAGGC
1 TCCAAGGTCAAAGTCGACAGGCAAACTGAA-GGTAAGAAAGTCTCTAGAGTCAAAG-CGACAGGC
*
2730134 AAAC-TTGAGATAAGAAACTCTCCAAGGTTAAAACC-AGCAGGCAGA-TTGAAGGT-AGGAAAGT
64 AAACATT-AGATAAGAAACTCTCCAAGGTCAAAACCGA-CAGGCAGACTT-AAGGTGAGG-AAGT
2730195 A
125 A
* *
2730196 TCTAAGTTCAAA
1 TCCAAGGTCAAA
2730208 ACTGACAGGT
Statistics
Matches: 113, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
125 25 0.22
126 32 0.28
127 56 0.50
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (125 bp):
TCCAAGGTCAAAGTCGACAGGCAAACTGAAGGTAAGAAAGTCTCTAGAGTCAAAGCGACAGGCAA
ACATTAGATAAGAAACTCTCCAAGGTCAAAACCGACAGGCAGACTTAAGGTGAGGAAGTA
Found at i:2744671 original size:25 final size:25
Alignment explanation
Indices: 2744639--2744693 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
2744629 TTTTGTTGGT
* *
2744639 TTTG-TTGTCGTTG-CTTGTTGCTTG
1 TTTGCTTGT-GTTGTCTTGTTACTGG
*
2744663 TTTGCTTGTGTTGTTTTGTTACTGG
1 TTTGCTTGTGTTGTCTTGTTACTGG
2744688 TTTGCT
1 TTTGCT
2744694 GTTGCTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.02, C:0.11, G:0.27, T:0.60
Consensus pattern (25 bp):
TTTGCTTGTGTTGTCTTGTTACTGG
Found at i:2745671 original size:17 final size:17
Alignment explanation
Indices: 2745649--2745725 Score: 74
Period size: 17 Copynumber: 4.8 Consensus size: 17
2745639 CATTTGCATG
2745649 AAAGCATGCATGAAGTA
1 AAAGCATGCATGAAGTA
2745666 AAAGCATGCAT---G--
1 AAAGCATGCATGAAGTA
*
2745678 AAAGTATGCATGAAGTA
1 AAAGCATGCATGAAGTA
* * *
2745695 AAAGCACGCATGAAATG
1 AAAGCATGCATGAAGTA
*
2745712 AAAGTATGCATGAA
1 AAAGCATGCATGAA
2745726 ACGCCACCTA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
12 10 0.21
14 1 0.02
15 1 0.02
17 36 0.75
ACGTcount: A:0.47, C:0.12, G:0.23, T:0.18
Consensus pattern (17 bp):
AAAGCATGCATGAAGTA
Found at i:2745686 original size:29 final size:29
Alignment explanation
Indices: 2745643--2745709 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
2745633 GCATTTCATT
2745643 TGCATGAAAGCATGCATGAAGTAAAAGCA
1 TGCATGAAAGCATGCATGAAGTAAAAGCA
*
2745672 TGCATGAAAGTATGCATGAAGTAAAAGCA
1 TGCATGAAAGCATGCATGAAGTAAAAGCA
*
2745701 CGCATGAAA
1 TGCATGAAA
2745710 TGAAAGTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.45, C:0.13, G:0.24, T:0.18
Consensus pattern (29 bp):
TGCATGAAAGCATGCATGAAGTAAAAGCA
Found at i:2745849 original size:30 final size:31
Alignment explanation
Indices: 2745813--2745888 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 31
2745803 ACCAACATGA
*
2745813 ATTTTTTCTTTTAATTA-ATTGTTATTTTTT
1 ATTTTTTCATTTAATTAGATTGTTATTTTTT
* *
2745843 ATTTTTT-ATTTAATTAGTTTTTTATTTTTT
1 ATTTTTTCATTTAATTAGATTGTTATTTTTT
*
2745873 TTATTTTTCATGTTAA
1 AT-TTTTTCAT-TTAA
2745889 ATAAACTGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
29 8 0.21
30 19 0.50
31 5 0.13
32 2 0.05
33 4 0.11
ACGTcount: A:0.21, C:0.03, G:0.04, T:0.72
Consensus pattern (31 bp):
ATTTTTTCATTTAATTAGATTGTTATTTTTT
Found at i:2745876 original size:25 final size:24
Alignment explanation
Indices: 2745814--2745878 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 24
2745804 CCAACATGAA
* *
2745814 TTTTTTCTTTTAATTAATTGTTAT
1 TTTTTTTTTTTATTTAATTGTTAT
2745838 TTTTTATTTTTTATTTAATTAGTT-T
1 TTTTT-TTTTTTATTTAATT-GTTAT
2745863 TTTATTTTTTTTATTT
1 TTT-TTTTTTTTATTT
2745879 TTCATGTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
24 5 0.14
25 26 0.72
26 5 0.14
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (24 bp):
TTTTTTTTTTTATTTAATTGTTAT
Found at i:2745880 original size:7 final size:7
Alignment explanation
Indices: 2745834--2745872 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
2745824 TAATTAATTG
2745834 TTATTTT
1 TTATTTT
2745841 TTATTTT
1 TTATTTT
*
2745848 TTATTTAA
1 TTATTT-T
2745856 TTAGTTTT
1 TTA-TTTT
2745864 TTATTTT
1 TTATTTT
2745871 TT
1 TT
2745873 TTATTTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 19 0.68
8 6 0.21
9 3 0.11
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (7 bp):
TTATTTT
Found at i:2747232 original size:20 final size:20
Alignment explanation
Indices: 2747203--2747249 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
2747193 CCCTTGTATT
*
2747203 GATACAAAGAATGCAATATC
1 GATACAAAGAACGCAATATC
* *
2747223 GATACTAAGAACGCATTATC
1 GATACAAAGAACGCAATATC
2747243 GATACAA
1 GATACAA
2747250 TGTATCGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.21
Consensus pattern (20 bp):
GATACAAAGAACGCAATATC
Found at i:2747261 original size:33 final size:33
Alignment explanation
Indices: 2747219--2747281 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
2747209 AAGAATGCAA
*
2747219 TATCGATACTAAGAACGCATTATCGATACAATG
1 TATCGATACTAAGAACGCAGTATCGATACAATG
*
2747252 TATCGATACTAAGAACGCAGTATTGATACA
1 TATCGATACTAAGAACGCAGTATCGATACA
2747282 TCTGAGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (33 bp):
TATCGATACTAAGAACGCAGTATCGATACAATG
Found at i:2747698 original size:18 final size:18
Alignment explanation
Indices: 2747675--2747718 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 18
2747665 GGCATAAACA
*
2747675 CAAAATCTACTAATGGTG
1 CAAAATCTACTAATGATG
2747693 CAAAA--T-CTAATGATG
1 CAAAATCTACTAATGATG
2747708 CAAAATCTACT
1 CAAAATCTACT
2747719 TTGGTCAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
15 13 0.59
16 1 0.05
17 1 0.05
18 7 0.32
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.27
Consensus pattern (18 bp):
CAAAATCTACTAATGATG
Found at i:2749858 original size:51 final size:51
Alignment explanation
Indices: 2749788--2749904 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 51
2749778 AAAATAACGG
*
2749788 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTT-GAAAATAAAATCG-
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAG-AAATAAAACCGA
* * * * *
2749838 GAGTTGGAGTTTCCCTGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGA
1 G-GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGA
2749890 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2749905 TAGAAAATAA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
50 1 0.02
51 53 0.95
52 2 0.04
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGA
Found at i:2749894 original size:130 final size:130
Alignment explanation
Indices: 2749653--2749982 Score: 393
Period size: 130 Copynumber: 2.5 Consensus size: 130
2749643 TGGAGATAAC
* * * ** *
2749653 AACGGGGTT-AGAGTA-CCCTCGATTATGGAAAATCGATGATTTAGAAATAAAGCCAGGGTTGAA
1 AACGGGGTTGA-AGTATCCC-CGATTATGAAAAATTGATGTTTTAGAAATAAAATCAGGGTTGGA
* *** * * ** * *
2749716 GTATCCCTAATTGT-GAGAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTATCCCCTCGAA
64 GTATCCCTGATTGTGGAG-AATTGGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTAGAA
2749780 AAT
128 AAT
* *
2749783 AACGGGGTTGGAGTATCCCCGATTGTGAAAAATT-AGTGTTTT-GAAAATAAAATC-GGAGTTGG
1 AACGGGGTTGAAGTATCCCCGATTATGAAAAATTGA-TGTTTTAG-AAATAAAATCAGG-GTTGG
*
2749845 AGTTTCCCTGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTAGAA
63 AGTATCCCTGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTAGAA
2749910 AAT
128 AAT
2749913 AACGGGGTTGAAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCAGGGTTGGAGT
1 AACGGGGTTGAAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCAGGGTTGGAGT
2749978 ATCCC
66 ATCCC
2749983 CTCGGAAATA
Statistics
Matches: 169, Mismatches: 22, Indels: 18
0.81 0.11 0.09
Matches are distributed among these distances:
129 4 0.02
130 155 0.92
131 10 0.06
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (130 bp):
AACGGGGTTGAAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCAGGGTTGGAGT
ATCCCTGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTAGAAAAT
Found at i:2749959 original size:79 final size:79
Alignment explanation
Indices: 2749840--2750141 Score: 340
Period size: 79 Copynumber: 3.8 Consensus size: 79
2749830 TAAAATCGGA
* * * * * *
2749840 GTTGGAGTTTCCCTGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
2749905 TAGAAAATAACGGG
66 TAGAAAATAACGGG
* *
2749919 GTTGAAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATC-AGGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGA-GGTTGGAGTATCCC
* *
2749983 CTCGGAAATAACGGG
65 CTAGAAAATAACGGG
* * * * * * *
2749998 GTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACTGGGGTTGGAGTGTCTCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
2750063 TCA-AAAATAACGGG
66 T-AGAAAATAACGGG
* * * * * * *
2750077 GTTGGAGTATCCGCGATTGTGAAAAGTCGGTGTTTTGGAAATAAAATCG-GAGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAG-GTTGGAGTATCCC
2750141 C
65 C
2750142 GATTTTGGAA
Statistics
Matches: 185, Mismatches: 34, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
78 2 0.01
79 183 0.99
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
TAGAAAATAACGGG
Found at i:2750145 original size:51 final size:50
Alignment explanation
Indices: 2750077--2750243 Score: 192
Period size: 51 Copynumber: 3.3 Consensus size: 50
2750067 AAATAACGGG
* *
2750077 GTTGGAGTATCCGCGATTGTGAAAAGTCGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAA-TCGGTGTTTTGGAAATAAAATCGGA
* * * *
2750128 GTTGGAGTATCCCCGATTTTGGAAAATGGGTGTTTTAGAAATAAGATCGGA
1 GTTGGAGTATCCCCGATTAT-GAAAATCGGTGTTTTGGAAATAAAATCGGA
* * * * *
2750179 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAACCAGGA
1 GTTGGAGTATCCCCGATTATG-AAAATCGGTGTTTTGGAAATAAAATC-GGA
2750231 -TTGGAGTATCCCC
1 GTTGGAGTATCCCC
2750244 AAGATGAAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
50 1 0.01
51 91 0.91
52 8 0.08
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTATGAAAATCGGTGTTTTGGAAATAAAATCGGA
Found at i:2752817 original size:11 final size:11
Alignment explanation
Indices: 2752799--2752828 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
2752789 GATCTTTTTA
2752799 GAAAAAAATGTT
1 GAAAAAAAT-TT
2752811 GAAAAAAATTT
1 GAAAAAAATTT
2752822 GAAAAAA
1 GAAAAAA
2752829 CCGTCTGCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (11 bp):
GAAAAAAATTT
Found at i:2754507 original size:52 final size:52
Alignment explanation
Indices: 2754437--2754557 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
2754427 GAAAATTTAT
*
2754437 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
2754489 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
2754541 CTGCATTTATCGATACA
1 CTGCATGTATCGATACA
2754558 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:2754570 original size:52 final size:52
Alignment explanation
Indices: 2754437--2754577 Score: 196
Period size: 52 Copynumber: 2.7 Consensus size: 52
2754427 GAAAATTTAT
*
2754437 CTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*** *
2754489 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*
2754541 CTGCATTTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
2754578 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 4 0.05
52 76 0.95
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:2754584 original size:13 final size:13
Alignment explanation
Indices: 2754566--2754590 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2754556 CAAAGATCAG
2754566 TGTATCGATACAA
1 TGTATCGATACAA
2754579 TGTATCGATACA
1 TGTATCGATACA
2754591 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2754674 original size:13 final size:13
Alignment explanation
Indices: 2754656--2754680 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2754646 CAAAAAAATA
2754656 TGTATCGATACAT
1 TGTATCGATACAT
2754669 TGTATCGATACA
1 TGTATCGATACA
2754681 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2754676 original size:33 final size:33
Alignment explanation
Indices: 2754634--2754700 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2754624 AGTAGCTTAA
2754634 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
2754667 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
2754700 A
1 A
2754701 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:2754764 original size:21 final size:21
Alignment explanation
Indices: 2754738--2754793 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
2754728 GTTGGGACCT
2754738 TGTATCGATACATTATAACAA
1 TGTATCGATACATTATAACAA
2754759 TGTATCGATACATTATAACAA
1 TGTATCGATACATTATAACAA
2754780 TGTATCGATACATT
1 TGTATCGATACATT
2754794 TGGACCAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTATAACAA
Found at i:2756237 original size:15 final size:14
Alignment explanation
Indices: 2756171--2756249 Score: 72
Period size: 13 Copynumber: 5.3 Consensus size: 14
2756161 GGCAATAGCT
*
2756171 TTGTAGCGATAC-A
1 TTGTATCGATACAA
2756184 TTGTATCGATACAACA
1 TTGTATCGATAC-A-A
2756200 CGTATGTATCGATAC-A
1 --T-TGTATCGATACAA
2756216 TTGTATCGATACAA
1 TTGTATCGATACAA
2756230 TCTGTATCGATACAAA
1 T-TGTATCGATAC-AA
2756246 TTGT
1 TTGT
2756250 TTGAAATTCA
Statistics
Matches: 56, Mismatches: 1, Indels: 16
0.77 0.01 0.22
Matches are distributed among these distances:
13 22 0.39
14 3 0.05
15 14 0.25
16 5 0.09
18 1 0.02
19 11 0.20
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Consensus pattern (14 bp):
TTGTATCGATACAA
Found at i:2762229 original size:20 final size:20
Alignment explanation
Indices: 2762204--2762280 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
2762194 GTAAAAAGAC
2762204 AGAATGTATCAATACATTGA
1 AGAATGTATCAATACATTGA
* *
2762224 AGAATGTATCGATACATTCA
1 AGAATGTATCAATACATTGA
* * *
2762244 TA-CATGTGTCGATACATTGA
1 -AGAATGTATCAATACATTGA
*
2762264 AAAATGTATCAATACAT
1 AGAATGTATCAATACAT
2762281 CTAGGTAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (20 bp):
AGAATGTATCAATACATTGA
Found at i:2763311 original size:33 final size:32
Alignment explanation
Indices: 2763273--2763343 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
2763263 CGACATGTAT
* *
2763273 GGCTTTAAAAAAAAGGTGCCACTAACTTGTGTG
1 GGCTTT-AAAAAAACGTGCCACCAACTTGTGTG
* * *
2763306 GGCTTTGAAAAAACTTGCCACCGACTTGTGTG
1 GGCTTTAAAAAAACGTGCCACCAACTTGTGTG
2763338 GGCTTT
1 GGCTTT
2763344 GAAAGGGTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
32 27 0.82
33 6 0.18
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (32 bp):
GGCTTTAAAAAAACGTGCCACCAACTTGTGTG
Found at i:2763393 original size:28 final size:27
Alignment explanation
Indices: 2763284--2763996 Score: 559
Period size: 28 Copynumber: 25.1 Consensus size: 27
2763274 GCTTTAAAAA
*
2763284 AAAGGTGCCACTAACTTGTGTGGGCTTTG
1 AAAGGTGCCACTGAC-T-TGTGGGCTTTG
** *
2763313 AAAAAACTTGCCACCGACTTGTGTGGGCTTTG
1 ---AAAGGTGCCACTGAC-T-TGTGGGCTTTG
* * *
2763345 AAAGGGTATGCCATTAACTTGTGGGTTTTG
1 AAA-GG--TGCCACTGACTTGTGGGCTTTG
* * *
2763375 AAATGGTGCCAGTGACTTGTTGTCTTTG
1 AAA-GGTGCCACTGACTTGTGGGCTTTG
* *
2763403 AAAAGATGCCATTGACTCT-TGGGCTTTG
1 -AAAGGTGCCACTGACT-TGTGGGCTTTG
* *
2763431 AAATAGTGCCACTAACTTGTGGGCTTTG
1 AAA-GGTGCCACTGACTTGTGGGCTTTG
* * *
2763459 AAATAGTGCCACTAACTTGTGGCCTTTG
1 AAA-GGTGCCACTGACTTGTGGGCTTTG
2763487 AAAAGGGTGCCACTTG-CTTGTGGGCTTTGG
1 -AAA-GGTGCCAC-TGACTTGTGGGCTTT-G
* * **
2763517 AAGGGTGCCACCGACTTGTGGGCTTAA
1 AAAGGTGCCACTGACTTGTGGGCTTTG
*
2763544 AAAGGGTGCCACTGACTTGTGGACTTTG
1 AAA-GGTGCCACTGACTTGTGGGCTTTG
* * *
2763572 AAAAGATGCCACTGACCTGTGAGCTTTG
1 -AAAGGTGCCACTGACTTGTGGGCTTTG
* * * *
2763600 AAGAGATGCCACTAACCTGTAGGCTTTG
1 AA-AGGTGCCACTGACTTGTGGGCTTTG
* * *
2763628 AAGAGATGCCACTAACTTATGGGCTTTG
1 AA-AGGTGCCACTGACTTGTGGGCTTTG
* * *
2763656 AAGAGATGCCATTGACTTGTGGGCTTTA
1 AA-AGGTGCCACTGACTTGTGGGCTTTG
* *
2763684 AAATGATGCCACTAACTTGTGGGCTTTG
1 AAA-GGTGCCACTGACTTGTGGGCTTTG
*
2763712 AAATAGTGCCACTGACTTGTGGGCTTTG
1 AAA-GGTGCCACTGACTTGTGGGCTTTG
* * *
2763740 AAAAGGGTGCCATTTG-CTTATGGGCTTCGG
1 -AAA-GGTGCCA-CTGACTTGTGGGCTT-TG
* **
2763770 AAAGGTGCCACTAACTTGTGGGCTTAA
1 AAAGGTGCCACTGACTTGTGGGCTTTG
* * *
2763797 AAAGGGTGCCACTAACTTGTAGGCTTCG
1 AAA-GGTGCCACTGACTTGTGGGCTTTG
* *
2763825 AAAAGATGCCACTGACCTGTGGGCTTTG
1 -AAAGGTGCCACTGACTTGTGGGCTTTG
* * *
2763853 AAGAGATGCCATTGACTTGTAGGCTTTG
1 AA-AGGTGCCACTGACTTGTGGGCTTTG
2763881 AAAAGGTGCCACTGACTTGTGGGCTTTG
1 -AAAGGTGCCACTGACTTGTGGGCTTTG
* *
2763909 AAAGGATGCCATTGACCTGTGGGCTTTG
1 AAAGG-TGCCACTGACTTGTGGGCTTTG
* *
2763937 AAGAGATGCCACTTACTTGTGGGCTTTG
1 AA-AGGTGCCACTGACTTGTGGGCTTTG
2763965 ATAAGGATGCCACTGACTTGTGGGCTTTG
1 A-AAGG-TGCCACTGACTTGTGGGCTTTG
2763994 AAA
1 AAA
2763997 AGGGTCGCAT
Statistics
Matches: 564, Mismatches: 90, Indels: 58
0.79 0.13 0.08
Matches are distributed among these distances:
27 21 0.04
28 405 0.72
29 85 0.15
30 20 0.04
31 1 0.00
32 32 0.06
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (27 bp):
AAAGGTGCCACTGACTTGTGGGCTTTG
Found at i:2763853 original size:253 final size:252
Alignment explanation
Indices: 2763398--2764001 Score: 885
Period size: 253 Copynumber: 2.4 Consensus size: 252
2763388 GACTTGTTGT
*
2763398 CTTTGAAAAGATGCCATTGACTCT-TGGGCTTTGAAAT-AGTGCCACTAACTTGTGGGCTTTGAA
1 CTTTG-AAAGATGCCATTGACT-TGTGGGCTTTAAAATGA-TGCCACTAACTTGTGGGCTTTGAA
* * * * *
2763461 ATAGTGCCACTAACTTGTGGCCTTTGAAAAGGGTGCCACTTGCTTGTGGGCTTTGGAAGGGTGCC
63 ATAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTTGCTTATGGGCTTCGGAAAGGTGCC
* * *
2763526 ACCGACTTGTGGGCTTAAAAAGGGTGCCACTGACTTGTGGACTTTGAAAAGATGCCACTGACCTG
128 ACCAACTTGTGGGCTTAAAAAGGGTGCCACTAACTTGTGGACTTCGAAAAGATGCCACTGACCTG
*
2763591 TGAGCTTTGAAGAGATGCCACTAACCTGTAGGCTTTGAAGAGATGCCACTAACTTATGGG
193 TGAGCTTTGAAGAGATGCCACTAACCTGTAGGCTTTGAAAAGATGCCACTAACTTATGGG
2763651 CTTTGAAGAGATGCCATTGACTTGTGGGCTTTAAAATGATGCCACTAACTTGTGGGCTTTGAAAT
1 CTTTGAA-AGATGCCATTGACTTGTGGGCTTTAAAATGATGCCACTAACTTGTGGGCTTTGAAAT
*
2763716 AGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCATTTGCTTATGGGCTTCGGAAAGGTGCCAC
65 AGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTTGCTTATGGGCTTCGGAAAGGTGCCAC
*
2763781 TAACTTGTGGGCTTAAAAAGGGTGCCACTAACTTGTAGG-CTTCGAAAAGATGCCACTGACCTGT
130 CAACTTGTGGGCTTAAAAAGGGTGCCACTAACTTGT-GGACTTCGAAAAGATGCCACTGACCTGT
* * * * * * *
2763845 GGGCTTTGAAGAGATGCCATTGACTTGTAGGCTTTGAAAAGGTGCCACTGACTTGTGGG
194 GAGCTTTGAAGAGATGCCACTAACCTGTAGGCTTTGAAAAGATGCCACTAACTTATGGG
* * *
2763904 CTTTGAAAGGATGCCATTGACCTGTGGGCTTTGAAGA-GATGCCACTTACTTGTGGGCTTTGATA
1 CTTTGAAA-GATGCCATTGACTTGTGGGCTTT-AAAATGATGCCACTAACTTGTGGGCTTTGA-A
*
2763968 A-GGATGCCACTGACTTGTGGGCTTTGAAAAGGGT
63 ATAG-TGCCACTGACTTGTGGGCTTTGAAAAGGGT
2764002 CGCATTGACG
Statistics
Matches: 320, Mismatches: 23, Indels: 15
0.89 0.06 0.04
Matches are distributed among these distances:
252 4 0.01
253 278 0.87
254 38 0.12
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (252 bp):
CTTTGAAAGATGCCATTGACTTGTGGGCTTTAAAATGATGCCACTAACTTGTGGGCTTTGAAATA
GTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTTGCTTATGGGCTTCGGAAAGGTGCCACC
AACTTGTGGGCTTAAAAAGGGTGCCACTAACTTGTGGACTTCGAAAAGATGCCACTGACCTGTGA
GCTTTGAAGAGATGCCACTAACCTGTAGGCTTTGAAAAGATGCCACTAACTTATGGG
Found at i:2764036 original size:26 final size:27
Alignment explanation
Indices: 2764006--2764077 Score: 71
Period size: 26 Copynumber: 2.7 Consensus size: 27
2763996 AAGGGTCGCA
*
2764006 TTGACGAAAATTTCTTGCCA-AAGTT-
1 TTGACGAAAATTTCTTGACAGAAGTTC
*
2764031 TCTGAC-AAACA-TTCTCGACAGAAGTTC
1 T-TGACGAAA-ATTTCTTGACAGAAGTTC
*
2764058 TTGACGATAATTTCTTGACA
1 TTGACGAAAATTTCTTGACA
2764078 ACCATTTCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
25 11 0.30
26 15 0.41
27 11 0.30
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (27 bp):
TTGACGAAAATTTCTTGACAGAAGTTC
Found at i:2770893 original size:29 final size:29
Alignment explanation
Indices: 2770851--2770908 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
2770841 GACTCAATGC
2770851 TTCCTAGACTAAGAACATTTGCATCCTTA
1 TTCCTAGACTAAGAACATTTGCATCCTTA
2770880 TTCCTAGACTAAGAACATTTGCATCCTTA
1 TTCCTAGACTAAGAACATTTGCATCCTTA
2770909 CTTCTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (29 bp):
TTCCTAGACTAAGAACATTTGCATCCTTA
Found at i:2776425 original size:79 final size:79
Alignment explanation
Indices: 2776305--2776574 Score: 319
Period size: 79 Copynumber: 3.4 Consensus size: 79
2776295 AAATTTAATA
* * * * *
2776305 TTTTGGAGATAATAA-CGGGGTTGGAGTATCTCCTTGAAAATAACGGGGTTGGAGTATCCCCGGT
1 TTTTGGAAATAA-AATCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
*
2776369 TGTGAAAAATCGATG
65 TGTGAAAAATTGATG
* * * *
2776384 ATTTGGAAATAAAATCGGGATTGGAGCATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGACT
1 TTTTGGAAATAAAATCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
* *
2776449 ATAAAAAATTGATG
66 GTGAAAAATTGATG
* * * * * *
2776463 TTTTAGAAATAAAACCGGGGTTGGAGTGTCCCCTCAAAAATAACGGGGTTGGAGTATCCCTGATT
1 TTTTGGAAATAAAATCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
* *
2776528 GTGAAAAGTTGGTG
66 GTGAAAAATTGATG
*
2776542 TTTTGGAAATAAAATC-CGAGTTGGAGTATCCCC
1 TTTTGGAAATAAAATCGGGA-TTGGAGTATCCCC
2776575 GATTATGGAA
Statistics
Matches: 158, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
78 3 0.02
79 155 0.98
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (79 bp):
TTTTGGAAATAAAATCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATT
GTGAAAAATTGATG
Found at i:2776671 original size:51 final size:51
Alignment explanation
Indices: 2776510--2776688 Score: 202
Period size: 51 Copynumber: 3.5 Consensus size: 51
2776500 AAATAACGGG
* * *
2776510 GTTGGAGTATCCCTGATTGTGAAAAGTTGGTGTTTTGGAAATAAAATCC-GA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAA-CCGGA
* * * *
2776561 GTTGGAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGGA
* * *
2776612 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAACCAGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACC-GGA
* * *
2776664 -TTTGAGTATTCCCGA-GATGAAAAAT
1 GTTGGAGTATCCCCGATTATGAAAAAT
2776689 ATAGAAATTT
Statistics
Matches: 108, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
50 9 0.08
51 96 0.89
52 3 0.03
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGGA
Found at i:2779015 original size:20 final size:19
Alignment explanation
Indices: 2778972--2779078 Score: 91
Period size: 20 Copynumber: 5.7 Consensus size: 19
2778962 AAAATGCATG
* *
2778972 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AC
2778992 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-C
*
2779012 AATGTAT---T--GAT-AC
1 AATGTATCGATACAATGAC
*
2779025 AATGTATCGATACAATAACC
1 AATGTATCGATACAATGA-C
*
2779045 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AC
2779065 AATGTATCGATACA
1 AATGTATCGATACA
2779079 TCTGGGTAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
13 8 0.11
14 1 0.01
15 2 0.03
16 1 0.01
17 1 0.01
18 2 0.03
19 2 0.03
20 54 0.75
21 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (19 bp):
AATGTATCGATACAATGAC
Found at i:2779027 original size:13 final size:13
Alignment explanation
Indices: 2779011--2779040 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2779001 ATACAATGAG
*
2779011 CAATGTATTGATA
1 CAATGTATCGATA
2779024 CAATGTATCGATA
1 CAATGTATCGATA
2779037 CAAT
1 CAAT
2779041 AACCAATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2779034 original size:33 final size:33
Alignment explanation
Indices: 2778992--2779061 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
2778982 TACATTGTAA
* * *
2778992 AATGTATCGATACAATGAGCAATGTATTGATAC
1 AATGTATCGATACAATAACCAATGTATCGATAC
2779025 AATGTATCGATACAATAACCAATGTATCGATAC
1 AATGTATCGATACAATAACCAATGTATCGATAC
2779058 AATG
1 AATG
2779062 CAAAATGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACAATAACCAATGTATCGATAC
Found at i:2779034 original size:53 final size:52
Alignment explanation
Indices: 2778972--2779078 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 52
2778962 AAAATGCATG
* * *
2778972 AATGTATCGATACATTGTAA-AATGTATCGATACAATG-AGCAATGTATTGATAC
1 AATGTATCGATACA--ATAACAATGTATCGATACAATGCA-AAATGTATCGATAC
2779025 AATGTATCGATACAATAACCAATGTATCGATACAATGCAAAATGTATCGATAC
1 AATGTATCGATACAATAA-CAATGTATCGATACAATGCAAAATGTATCGATAC
2779078 A
1 A
2779079 TCTGGGTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
51 3 0.06
53 44 0.92
54 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (52 bp):
AATGTATCGATACAATAACAATGTATCGATACAATGCAAAATGTATCGATAC
Found at i:2783298 original size:19 final size:19
Alignment explanation
Indices: 2783274--2783356 Score: 115
Period size: 19 Copynumber: 4.7 Consensus size: 19
2783264 TTTCAACGAT
2783274 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
2783293 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
2783307 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
2783325 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
2783344 TTGTATCGATACA
1 TTGTATCGATACA
2783357 ATGTATCGCT
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
13 11 0.19
15 2 0.04
17 2 0.04
19 42 0.74
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:2783311 original size:32 final size:32
Alignment explanation
Indices: 2783275--2783337 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
2783265 TTCAACGATT
2783275 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2783307 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
2783338 TAAGTTTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2783312 original size:13 final size:13
Alignment explanation
Indices: 2783294--2783318 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2783284 ACATAAGTGT
2783294 TGTATCGATACAA
1 TGTATCGATACAA
2783307 TGTATCGATACA
1 TGTATCGATACA
2783319 TAAGTGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2783427 original size:13 final size:13
Alignment explanation
Indices: 2783409--2783433 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2783399 ATTACTCAGA
2783409 TGTATCGATACAT
1 TGTATCGATACAT
2783422 TGTATCGATACA
1 TGTATCGATACA
2783434 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2783567 original size:52 final size:52
Alignment explanation
Indices: 2783442--2783567 Score: 200
Period size: 52 Copynumber: 2.4 Consensus size: 52
2783432 CACTGATCTT
* *
2783442 TGTATCGATACCTGCAAGTAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
2783494 TGTATCGATACATAG-AAGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACAT-GCAAGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
2783546 TGTATCGATACATGCAGGCAAA
1 TGTATCGATACATGCAAGCAAA
2783568 ATTTCATATT
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
51 1 0.01
52 66 0.97
53 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:2792025 original size:20 final size:20
Alignment explanation
Indices: 2792000--2792104 Score: 75
Period size: 20 Copynumber: 4.7 Consensus size: 20
2791990 TTTTAACTAG
2792000 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
2792020 ATGTATCGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
*
2792051 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * *
2792071 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
2792091 ATGTATCGATACAT
1 ATGTATCGATACAT
2792105 CTAGGTAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
20 45 0.65
21 1 0.01
22 1 0.01
23 2 0.03
28 2 0.03
29 1 0.01
30 2 0.03
31 15 0.22
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:2795143 original size:20 final size:20
Alignment explanation
Indices: 2795101--2795155 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
2795091 GTTAGGCTCA
* *
2795101 ATGTATCGATACATTTCACC
1 ATGTATCGATACAATCCACC
**
2795121 ATGTATCGATACAATCCTGC
1 ATGTATCGATACAATCCACC
*
2795141 ATGTATCAATACAAT
1 ATGTATCGATACAAT
2795156 GTATCGATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATCCACC
Found at i:2795384 original size:20 final size:19
Alignment explanation
Indices: 2795361--2795412 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
2795351 ACACCTAGAT
2795361 GTATCGATACATATTGCTTA
1 GTATCGATACATATT-CTTA
* *
2795381 GTATCGATACATGTTCTTG
1 GTATCGATACATATTCTTA
*
2795400 GTAACGATACATA
1 GTATCGATACATA
2795413 AAACTAGGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (19 bp):
GTATCGATACATATTCTTA
Found at i:2795488 original size:24 final size:24
Alignment explanation
Indices: 2795452--2795547 Score: 174
Period size: 24 Copynumber: 4.0 Consensus size: 24
2795442 ATTGATAAAT
*
2795452 ACTATTCATCATTATTCATGTATC
1 ACTATTCATCATTGTTCATGTATC
*
2795476 ACTGTTCATCATTGTTCATGTATC
1 ACTATTCATCATTGTTCATGTATC
2795500 ACTATTCATCATTGTTCATGTATC
1 ACTATTCATCATTGTTCATGTATC
2795524 ACTATTCATCATTGTTCATGTATC
1 ACTATTCATCATTGTTCATGTATC
2795548 GATCCATTGT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 69 1.00
ACGTcount: A:0.25, C:0.21, G:0.08, T:0.46
Consensus pattern (24 bp):
ACTATTCATCATTGTTCATGTATC
Found at i:2798318 original size:20 final size:21
Alignment explanation
Indices: 2798274--2798347 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
2798264 TTCTACAATT
*
2798274 TGTATCGATACAAACAATAAA
1 TGTATCGATACATACAATAAA
* *
2798295 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATACAATAAA
* *
2798315 TGTATCGATACATGC-TTAAAA
1 TGTATCGATACATACAAT-AAA
2798336 TGTATCGATACA
1 TGTATCGATACA
2798348 AAACCACCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 18 0.40
21 27 0.60
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATACAATAAA
Found at i:2800501 original size:13 final size:13
Alignment explanation
Indices: 2800483--2800515 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
2800473 GATACTTTTC
2800483 ACAATGT-ATCGAT
1 ACAATGTAAT-GAT
2800496 ACAATGTAATGAT
1 ACAATGTAATGAT
2800509 ACAATGT
1 ACAATGT
2800516 CCCATGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 17 0.89
14 2 0.11
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (13 bp):
ACAATGTAATGAT
Found at i:2800605 original size:19 final size:19
Alignment explanation
Indices: 2800560--2800615 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
2800550 CTGCCAGTTT
*
2800560 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAA
* *
2800580 TATGTATCGATATAATGAA
1 CATGTATCGATACAATGAA
*
2800599 CATGTATTGATACAATG
1 CATGTATCGATACAATG
2800616 TATCGATACA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2806904 original size:22 final size:22
Alignment explanation
Indices: 2806874--2806921 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
2806864 CGTCCTTCCT
**
2806874 TTTTATGTGTTTTTG-TGCATTA
1 TTTTATGTGAATTTGAT-CATTA
*
2806896 TTTTGTGTGAATTTGATCATTA
1 TTTTATGTGAATTTGATCATTA
2806918 TTTT
1 TTTT
2806922 CTTTTTCGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.17, C:0.04, G:0.17, T:0.62
Consensus pattern (22 bp):
TTTTATGTGAATTTGATCATTA
Found at i:2808691 original size:13 final size:13
Alignment explanation
Indices: 2808673--2808698 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2808663 TACAGCAAAT
2808673 ATGTATCGATACA
1 ATGTATCGATACA
2808686 ATGTATCGATACA
1 ATGTATCGATACA
2808699 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2808696 original size:32 final size:33
Alignment explanation
Indices: 2808655--2808718 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
2808645 TAGCCAAACT
*
2808655 TGTATCGATACAGC-AAATA-TGTATCGATACAA
1 TGTATCGATACA-CAAAAAATTGTATCGATACAA
2808687 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2808719 TTAGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.03
32 16 0.55
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2810952 original size:21 final size:21
Alignment explanation
Indices: 2810919--2810963 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2810909 TTGCAAGTTG
*
2810919 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2810941 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2810961 AAA
1 AAA
2810964 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2814888 original size:13 final size:13
Alignment explanation
Indices: 2814870--2814895 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2814860 ACATTTTTCT
2814870 TTGTATCGATACA
1 TTGTATCGATACA
2814883 TTGTATCGATACA
1 TTGTATCGATACA
2814896 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2817464 original size:13 final size:13
Alignment explanation
Indices: 2817446--2817471 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2817436 TACAGCAAGT
2817446 ATGTATCGATACA
1 ATGTATCGATACA
2817459 ATGTATCGATACA
1 ATGTATCGATACA
2817472 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2820566 original size:21 final size:21
Alignment explanation
Indices: 2820542--2820588 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
2820532 ACCACTAATT
*
2820542 TTAATTTTAAT-GTTATAATAC
1 TTAATTTT-ATCGTTATAATAA
* *
2820563 TTAACTTTATCTTTATAATAA
1 TTAATTTTATCGTTATAATAA
2820584 TTAAT
1 TTAAT
2820589 CTTACCACTG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.53
Consensus pattern (21 bp):
TTAATTTTATCGTTATAATAA
Found at i:2828922 original size:52 final size:52
Alignment explanation
Indices: 2828841--2828961 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
2828831 TGAAGAGTTA
*
2828841 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
2828893 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
2828945 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
2828962 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:2828974 original size:52 final size:51
Alignment explanation
Indices: 2828841--2828981 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
2828831 TGAAGAGTTA
2828841 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
2828893 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
2828945 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2828982 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:2828988 original size:13 final size:13
Alignment explanation
Indices: 2828970--2828994 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2828960 CAAAGATCAG
2828970 TGTATCGATACAA
1 TGTATCGATACAA
2828983 TGTATCGATACA
1 TGTATCGATACA
2828995 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2829063 original size:19 final size:18
Alignment explanation
Indices: 2829035--2829070 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
2829025 GCAGTAGCTT
2829035 AAATTGTATCGATACATA
1 AAATTGTATCGATACATA
2829053 AAATATGTATCGATACAT
1 AAAT-TGTATCGATACAT
2829071 TGTATCGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (18 bp):
AAATTGTATCGATACATA
Found at i:2829076 original size:13 final size:13
Alignment explanation
Indices: 2829058--2829082 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2829048 ACATAAAATA
2829058 TGTATCGATACAT
1 TGTATCGATACAT
2829071 TGTATCGATACA
1 TGTATCGATACA
2829083 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2830038 original size:22 final size:22
Alignment explanation
Indices: 2830013--2830081 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
2830003 ATGCTGATTC
2830013 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * * *
2830035 AAGGTGCCA-ATGTGTT-GA-TTC
1 AA-G-GCCAGCTATATTGGACTTA
*
2830056 AAGGCCAGCTAAATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
2830078 AAGG
1 AAGG
2830082 TAAAGGTGCC
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 6 0.18
22 10 0.30
23 5 0.15
24 4 0.12
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:2830107 original size:49 final size:49
Alignment explanation
Indices: 2829947--2830572 Score: 787
Period size: 49 Copynumber: 12.8 Consensus size: 49
2829937 AAAAGGATGT
* *
2829947 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-G--AAGGTGC
* * *
2829999 CGATATGCTGATTCAAGGCCAGCTATATTGGACTT--A----AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGC
* * *
2830042 CAATGTGTTGATTCAAGGCCAGCTAAATTGGACTTAAAGGTAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGC
* * * *
2830091 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGC
* * *
2830140 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGC
* * * *
2830189 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGC
* * *
2830238 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGC
* * * * *
2830287 CAATGTGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGC
* * * *
2830336 CAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGC
* * *
2830385 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGC
* * *
2830434 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGC
* *
2830483 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGC
* * * *
2830532 CAATATGCTGATTCAGGGCCAGCTATATTGGGCTTAGAAGG
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA-AAGG
2830573 GTTGCCACCG
Statistics
Matches: 492, Mismatches: 75, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
43 38 0.08
45 1 0.00
49 418 0.85
50 4 0.01
52 31 0.06
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGC
Found at i:2830186 original size:98 final size:98
Alignment explanation
Indices: 2829942--2830572 Score: 950
Period size: 98 Copynumber: 6.5 Consensus size: 98
2829932 GATGAAAAAG
* * * * * * *
2829942 GATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGC
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGT-G--AAGGTGCCAATGTGC
* *
2830007 TGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--
63 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAT
* * * *
2830038 G-TGCCAATGTGTTGATTCAAGGCCAGCTAAATTGGACTTAAAGGTAAAGGTGCCAATGTGCTGA
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGA
2830102 GTCAAGGCCAGCTACATTGGACTTAAAGATGAT
66 GTCAAGGCCAGCTACATTGGACTTAAAGATGAT
*
2830135 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGA
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGA
2830200 GTCAAGGCCAGCTACATTGGACTTAAAGATGAT
66 GTCAAGGCCAGCTACATTGGACTTAAAGATGAT
* *
2830233 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGTTGA
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGA
2830298 GTCAAGGCCAGCTACATTGGACTTAAAGATGAT
66 GTCAAGGCCAGCTACATTGGACTTAAAGATGAT
* *
2830331 GATGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGA
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGA
* *
2830396 GTCAAGGCCAGCTACATTGGACTTAAAGATAAA
66 GTCAAGGCCAGCTACATTGGACTTAAAGATGAT
* *
2830429 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGA
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGA
*
2830494 GTCAAGGCCAGCTACATTGGACTTAAAGATGAA
66 GTCAAGGCCAGCTACATTGGACTTAAAGATGAT
* * *
2830527 GGTGCCAATATGCTGATTCAGGGCCAGCTATATTGGGCTTAGAAGG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA-AAGG
2830573 GTTGCCACCG
Statistics
Matches: 500, Mismatches: 28, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
92 38 0.08
93 2 0.00
94 1 0.00
95 40 0.08
96 1 0.00
97 1 0.00
98 414 0.83
99 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (98 bp):
GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGA
GTCAAGGCCAGCTACATTGGACTTAAAGATGAT
Found at i:2830611 original size:33 final size:34
Alignment explanation
Indices: 2830567--2830707 Score: 241
Period size: 34 Copynumber: 4.2 Consensus size: 34
2830557 TATTGGGCTT
2830567 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
* * *
2830600 AGAATGG-TTGCCACCAACTTGTGTGGGCTTTGG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
2830633 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
2830667 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
2830701 AGAAGGG
1 AGAAGGG
2830708 AGAAAGATGC
Statistics
Matches: 101, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
33 36 0.36
34 65 0.64
ACGTcount: A:0.19, C:0.17, G:0.36, T:0.28
Consensus pattern (34 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:2830649 original size:67 final size:67
Alignment explanation
Indices: 2830567--2830707 Score: 239
Period size: 67 Copynumber: 2.1 Consensus size: 67
2830557 TATTGGGCTT
*
2830567 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGG-TTGCCACCAACTTGTGTGGGCTTT
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTTT
*
2830631 GG
66 AG
*
2830633 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTGTGGGCTT
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTT
2830698 TAG
65 TAG
2830701 AGAAGGG
1 AGAAGGG
2830708 AGAAAGATGC
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 7 0.10
67 32 0.46
68 31 0.44
ACGTcount: A:0.19, C:0.17, G:0.36, T:0.28
Consensus pattern (67 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTTT
AG
Found at i:2830741 original size:34 final size:34
Alignment explanation
Indices: 2830689--2831673 Score: 1031
Period size: 34 Copynumber: 29.4 Consensus size: 34
2830679 CACCGACTTG
* *
2830689 TGTGGGCTTTAGAGAAGGGAGAAAGATGCCACGGAGT
1 TGTGGGCTTTA-A-AA-GGAAAAAGGTGCCACGGAGT
*
2830726 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAG-GTGCCACGGAGT
*
2830761 TGTGGGCTTTAAAA-GAAAAAAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
2830794 TGTGGGCTTTGAAAAGGGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGGTGCCACGGAGT
* *
2830830 TGTGGGCTTT--AA--AAAGA-GTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* * *
2830859 CGTGGGCTTTAAAAAGAAAAATGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* * *
2830893 TGTGGGCTTTGAAAA-GAAGAAGGTGCCATGGAGC
1 TGTGGGCTTT-AAAAGGAAAAAGGTGCCACGGAGT
* *
2830927 TGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
2830961 TGTGGGCTTT-AAA-G----A-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
2830988 CGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAG-GAAAAAG-GTGCCACGGAGT
2831025 TGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGGTGCCACGGAGT
*
2831059 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAG-GTGCCACGGAGT
*
2831096 TGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGGTGCCACGGAGT
*
2831130 TGTGGGCTTT------AAACA-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
2831157 CGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAG-GAAAAAG-GTGCCACGGAGT
*
2831194 TGTGGGCTTTAAACA-GTAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGGTGCCACGGAGT
*
2831228 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAG-GTGCCACGGAGT
2831265 TGTGGGCTTTAAAA-GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* * *
2831298 TGTGGGTTTTAAAAAGAAGAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
2831332 TGTGGGCTTT---A--AACAA--TGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* *
2831359 CGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAAG-GAAAAAG-GTGCCACGGAGT
*
2831396 TGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGGTGCCACGGAGT
*
2831430 TGTGAGCTTT-AAA-G----A-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
2831457 CGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAG-GAAAAAG-GTGCCACGGAGT
2831494 TGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGGTGCCACGGAGT
*
2831528 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAG-GTGCCACGGAGT
2831565 TGTGGGCTTTAAAA-GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
2831598 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
2831632 TGTGGGCTTT--AA--AAAGA-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
2831661 TGTGGGCTTTAAA
1 TGTGGGCTTTAAA
2831674 GAAAAAATGC
Statistics
Matches: 828, Mismatches: 49, Indels: 148
0.81 0.05 0.14
Matches are distributed among these distances:
27 82 0.10
28 5 0.01
29 52 0.06
30 8 0.01
31 7 0.01
32 7 0.01
33 84 0.10
34 276 0.33
35 69 0.08
36 74 0.09
37 164 0.20
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (34 bp):
TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
Found at i:2830867 original size:98 final size:97
Alignment explanation
Indices: 2830742--2831703 Score: 1093
Period size: 98 Copynumber: 9.7 Consensus size: 97
2830732 CTTAAAAGGG
2830742 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGA
2830806 AAAGGGAAAAAGGTGCCACGGAGTTGTGGGCTTT
66 AAA--GAAAAAGGTGCCACGGAGTTGTGGGCTTT
* * *
2830840 AAAAAGAGTGCCACAGAGTCGTGGGCTTTAAAAAGAAAAATGTGCCACGGAGTTGTGGGCTTTGA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGA
* * *
2830905 AAAGAAGAAGGTGCCATGGAGCTGTGGGCTTT
66 AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
*
2830937 AAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAG-----AGTGCCACGGAGTCGTGGGC
1 --AAA-AAG-A-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGGC
2830995 TTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
61 TTTG-AAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTT
* * *
2831035 AAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTG
1 --A-A-AAAGA-GTGCCACGGAGTTGTGGGCTTT-AAAA-AGAAAAA-AGTGCCACGGAGTTGTG
*
2831100 GGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
58 GGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
* *
2831140 --AAACAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAAAAA-AGTGCCACGGAGTTGTGGGCTT
*
2831203 T-AAACAGTAAAAGGTGCCACGGAGTTGTGGGCTTT
63 TGAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTT
* *
2831238 GAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTG
1 --------AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAAGTGCCACGGAGTTGTG
* * *
2831302 GGTTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
58 GGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
* * *
2831342 AAACA-A-TGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAAAAA-AGTGCCACGGAGTTGTGGGCTT
* *
2831405 TGAAAAGAAGAAGGTGCCACGGAGTTGTGAGCTTT
63 TGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
*
2831440 --AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAAAAA-AGTGCCACGGAGTTGTGGGCTT
2831503 T-AAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
63 TGAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTT
* *
2831538 GAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTG
1 --------AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAAGTGCCACGGAGTTGTG
*
2831602 GGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
58 GGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
* * *
2831642 AAAAAGAGTGCCACGGAGTTGTGGGCTTT--AAAGAAAAAA-TGCCACTGAGTCGTGGACTTTGA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGA
2831704 GACAAAATGC
Statistics
Matches: 761, Mismatches: 52, Indels: 106
0.83 0.06 0.12
Matches are distributed among these distances:
94 38 0.05
95 32 0.04
96 40 0.05
97 47 0.06
98 295 0.39
99 47 0.06
100 8 0.01
101 3 0.00
102 21 0.03
104 101 0.13
105 42 0.06
106 13 0.02
107 3 0.00
108 71 0.09
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (97 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGA
AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
Found at i:2831096 original size:71 final size:67
Alignment explanation
Indices: 2830971--2831701 Score: 777
Period size: 71 Copynumber: 10.9 Consensus size: 67
2830961 TGTGGGCTTT
*
2830971 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1 AAAG-GTGCCACGGAGTTGTGGGCTTT--AAA-AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
2831036 AACAGAA
62 AA-AGAA
*
2831043 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAA--GAAAAAGAGTGCCACGGAGTTGTGGGCTTT-A
2831108 AAAGAA
62 AAAGAA
* * *
2831114 GAAGGTGCCACGGAGTTGTGGGCTTT-------AAACAGTGCCACGGAGTCGTGGGCTTTGAAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT--AAA
2831172 GAGAA
64 -AGAA
*
2831177 AAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGTAAAAG-GTGCCACGGAGTTGTGGGCTTTGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAA-AGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
2831241 AAGGGAA
63 AA--GAA
* *
2831248 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAG-GTGCCACGGAGTTGTGGGTTTTAAAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAA
2831312 AGAA
64 AGAA
* * *
2831316 GAAGGTGCCACGGAGTTGTGGGCTTT-----AAACA-A-TGCCACGGAGTCGTGGGCTTTGAAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT--AAA
2831374 GAGAA
64 -AGAA
* * *
2831379 AAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAG-GTGCCACGGAGTTGTGAGCTTT-AA
1 AAAG-GTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
2831442 AG--
64 AGAA
*
2831444 --A-GTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT--AAA-AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
2831506 ACAGAA
63 A-AGAA
*
2831512 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAA--GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
2831577 AAGAA
63 AAGAA
2831582 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTT--AA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
2831644 -AA
65 GAA
* * * *
2831646 AGA-GTGCCACGGAGTTGTGGGCTTT-AAAGAAAAA-A-TGCCACTGAGTCGTGGACTTT
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
2831702 GAGACAAAAT
Statistics
Matches: 577, Mismatches: 41, Indels: 94
0.81 0.06 0.13
Matches are distributed among these distances:
60 18 0.03
61 72 0.12
62 14 0.02
63 44 0.08
64 68 0.12
65 4 0.01
66 2 0.00
67 44 0.08
68 15 0.03
69 3 0.01
70 79 0.14
71 204 0.35
72 10 0.02
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (67 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
AA
Found at i:2831356 original size:300 final size:299
Alignment explanation
Indices: 2830748--2831703 Score: 1398
Period size: 300 Copynumber: 3.2 Consensus size: 299
2830738 AGGGAAAAAG
*
2830748 AGTGCCACGGAGTTGTGGGCTTT-AAAA-GAAAAA-AGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAA-
* *
2830810 GGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAGTGCCACAGAGTCGTGGGCTTT-AAAA-
65 -GAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAG
* * *
2830873 AGAAAAA-TGTGCCACGGAGTTGTGGGCTTTGAAA-AGAAGAAGGTGCCATGGAGCTGTGGGCTT
127 AGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAACAGAA-AAGGTGCCACGGAGTTGTGGGCTT
* * * *
2830936 T-AAAA-AGAAGAAG-GTGCCACGGAGTTGTGGGCTTT-AAAG----A-GTGCCACGGAGTCGTG
190 TGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTG
*
2830992 GGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAA
255 GG-TTTTAAAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAC-----A
2831045 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAA
1 A-GTGCCACGGAGTTGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAA
*
2831110 AGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAACAGTGCCACGGAGTCGTGGGCTTTGAAAAGAG
64 AGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAG
2831175 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGTAAAAGGTGCCACGGAGTTGTGGGCTTTGA
129 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAG-AAAAGGTGCCACGGAGTTGTGGGCTTTGA
2831240 AAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGT
193 AAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGT
*
2831305 TTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAACA
258 TTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAACA
*
2831347 A-TGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAA
1 AGTGCCACGGAGTTGTGGGCTTTGAAAAG-GAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAA
*
2831411 GAAGAAGGTGCCACGGAGTTGTGAGCTTTAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGA
65 GAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGA
2831476 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAA
130 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAG-AAAAGGTGCCACGGAGTTGTGGGCTTTGAA
*
2831541 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCT
194 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGTT
*
2831606 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
259 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAACA
* * *
2831647 GAGTGCCACGGAGTTGTGGGCTTT--AAA-GAAAAA-A-TGCCACTGAGTCGTGGACTTTGA
1 -AGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGA
2831704 GACAAAATGC
Statistics
Matches: 613, Mismatches: 24, Indels: 45
0.90 0.04 0.07
Matches are distributed among these distances:
296 20 0.03
297 2 0.00
298 53 0.09
299 9 0.01
300 331 0.54
301 54 0.09
302 55 0.09
303 6 0.01
304 21 0.03
305 4 0.01
307 26 0.04
308 7 0.01
309 8 0.01
310 17 0.03
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (299 bp):
AGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAG
AAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAA
AAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
GGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGTTTT
AAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAACA
Found at i:2832694 original size:14 final size:14
Alignment explanation
Indices: 2832677--2832704 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2832667 GGGTTTTTCT
2832677 TTTTTTTTTTTTTG
1 TTTTTTTTTTTTTG
2832691 TTTTTTTTTTTTTG
1 TTTTTTTTTTTTTG
2832705 CATCTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (14 bp):
TTTTTTTTTTTTTG
Found at i:2832694 original size:15 final size:15
Alignment explanation
Indices: 2832670--2832703 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2832660 TGAAAAGGGG
2832670 TTTTTCTTTTTTTTT
1 TTTTTCTTTTTTTTT
*
2832685 TTTTTGTTTTTTTTT
1 TTTTTCTTTTTTTTT
2832700 TTTT
1 TTTT
2832704 GCATCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.03, G:0.03, T:0.94
Consensus pattern (15 bp):
TTTTTCTTTTTTTTT
Found at i:2832714 original size:1 final size:1
Alignment explanation
Indices: 2832670--2832703 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
2832660 TGAAAAGGGG
* *
2832670 TTTTTCTTTTTTTTTTTTTTGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2832704 GCATCTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.03, T:0.94
Consensus pattern (1 bp):
T
Found at i:2840090 original size:52 final size:52
Alignment explanation
Indices: 2840009--2840129 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
2839999 TGAAGAGTTA
*
2840009 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
2840061 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
2840113 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
2840130 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:2840142 original size:52 final size:51
Alignment explanation
Indices: 2840009--2840149 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
2839999 TGAAGAGTTA
2840009 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
2840061 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
2840113 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2840150 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:2840156 original size:13 final size:13
Alignment explanation
Indices: 2840138--2840162 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2840128 CAAAGATCAG
2840138 TGTATCGATACAA
1 TGTATCGATACAA
2840151 TGTATCGATACA
1 TGTATCGATACA
2840163 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2840231 original size:19 final size:18
Alignment explanation
Indices: 2840203--2840238 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
2840193 GCAGTAGCTT
2840203 AAATTGTATCGATACATA
1 AAATTGTATCGATACATA
2840221 AAATATGTATCGATACAT
1 AAAT-TGTATCGATACAT
2840239 TGTATCGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (18 bp):
AAATTGTATCGATACATA
Found at i:2840244 original size:13 final size:13
Alignment explanation
Indices: 2840226--2840250 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2840216 ACATAAAATA
2840226 TGTATCGATACAT
1 TGTATCGATACAT
2840239 TGTATCGATACA
1 TGTATCGATACA
2840251 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2841135 original size:56 final size:52
Alignment explanation
Indices: 2841051--2841532 Score: 442
Period size: 49 Copynumber: 9.7 Consensus size: 52
2841041 GAAAAGTGAT
* * * * * *
2841051 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGATGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG--G-A
* * * *
2841106 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
*
2841159 AAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * * *
2841202 AAAGGTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTT-AA-A-GGT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * * *
2841251 AAAGGTGCCAATGTTCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * * * *
2841301 -ATGATGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * *
2841350 -AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
*
2841398 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-ATGGT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * * *
2841447 GAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
*
2841497 -AAGGTGCCAATATGCTGATTCAGGGCCAGCTATATT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATT
2841533 AGGCTTAGAA
Statistics
Matches: 359, Mismatches: 50, Indels: 42
0.80 0.11 0.09
Matches are distributed among these distances:
43 37 0.10
44 1 0.00
46 3 0.01
47 1 0.00
49 230 0.64
50 2 0.01
51 5 0.01
52 33 0.09
53 6 0.02
54 1 0.00
55 4 0.01
56 36 0.10
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
Found at i:2841206 original size:22 final size:22
Alignment explanation
Indices: 2841181--2841249 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
2841171 ATGCTGATTC
2841181 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * * *
2841203 AAGGTGCCA-ATGTGTT-GA-TTC
1 AA-G-GCCAGCTATATTGGACTTA
*
2841224 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
2841246 AAGG
1 AAGG
2841250 TAAAGGTGCC
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 6 0.18
22 10 0.30
23 5 0.15
24 4 0.12
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:2841275 original size:49 final size:49
Alignment explanation
Indices: 2841106--2841528 Score: 507
Period size: 49 Copynumber: 8.7 Consensus size: 49
2841096 AGATGATGAA
* * *
2841106 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A-GGT
* * *
2841159 AAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT
*
2841202 AAAGGTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGGT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT
* * *
2841251 AAAGGTGCCAATGTTCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT
* * * * * * *
2841300 GATGATGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT
* * *
2841349 GAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT
* * *
2841398 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT
* * *
2841447 GAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT
* * *
2841496 GAAGGTGCCAATATGCTGATTCAGGGCCAGCTA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTA
2841529 TATTAGGCTT
Statistics
Matches: 317, Mismatches: 47, Indels: 16
0.83 0.12 0.04
Matches are distributed among these distances:
43 37 0.12
44 1 0.00
49 242 0.76
51 1 0.00
52 31 0.10
53 5 0.02
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT
Found at i:2841354 original size:98 final size:98
Alignment explanation
Indices: 2841115--2841532 Score: 587
Period size: 98 Copynumber: 4.3 Consensus size: 98
2841105 AAAAGGATGT
* * * * * * *
2841115 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGT-G--AAGGTGCCAATGTGCTGAGT
*
2841180 CAAGGCCAGCTATATTGGACTT----A--AAGGTGC
63 CAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
2841210 CAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGGTAAAGGTGCCAATGTTCTGAGTCAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAA
* *
2841275 GGCCAGCTACATTGGACTTAAAGATGATGATGC
66 GGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
2841308 TAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAA
*
2841373 GGCCAGCTACATTGGACTTAAAGATAAAGGTGC
66 GGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
2841406 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAA
2841471 GGCCAGCTACATTGGACTTAAAGATGAAGGTGC
66 GGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
2841504 CAATATGCTGATTCAGGGCCAGCTATATT
1 CAATATGCTGATTCAAGGCCAGCTATATT
2841533 AGGCTTAGAA
Statistics
Matches: 291, Mismatches: 26, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
92 37 0.13
95 38 0.13
96 1 0.00
98 215 0.74
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (98 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAA
GGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:2841393 original size:147 final size:146
Alignment explanation
Indices: 2841106--2841528 Score: 568
Period size: 147 Copynumber: 2.9 Consensus size: 146
2841096 AGATGATGAA
* * *
2841106 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
*
2841171 ATGCTGATTCAAGGCCAGCTATATTGGACTT--A---AAGGTGCCAATGTGTTGATTCAAGGCCA
62 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGTGAAGGTGCCAATGTGCTGATTCAAGGCCA
*
2841231 GCTACATTGGACTTAAAGGT
127 GCTACATTGGACTTAAAGAT
* * * * *
2841251 AAAGGTGCCAATGTTCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCTAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
2841316 TGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
66 TGATTCAAGGCCAGCTATATTGGACTTAAA-GTGAAGGTGCCAATGTGCTGATTCAAGGCCAGCT
2841381 ACATTGGACTTAAAGAT
130 ACATTGGACTTAAAGAT
* * * * *
2841398 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * * *
2841463 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAGGGCCAGCT
66 TGATTCAAGGCCAGCTATATTGGACTTAAAG-TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCT
2841528 A
130 A
2841529 TATTAGGCTT
Statistics
Matches: 243, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
141 37 0.15
143 2 0.01
144 40 0.16
145 5 0.02
146 1 0.00
147 158 0.65
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (146 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTTAAAGTGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTA
CATTGGACTTAAAGAT
Found at i:2841581 original size:33 final size:34
Alignment explanation
Indices: 2841539--2841679 Score: 241
Period size: 34 Copynumber: 4.2 Consensus size: 34
2841529 TATTAGGCTT
2841539 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
* * *
2841572 AGAATGG-TTGCCACCAACTTGTGTGGGCTTTGG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
2841605 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
2841639 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
2841673 AGAAGGG
1 AGAAGGG
2841680 AGAAAGATGC
Statistics
Matches: 101, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
33 36 0.36
34 65 0.64
ACGTcount: A:0.19, C:0.17, G:0.36, T:0.28
Consensus pattern (34 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:2841621 original size:67 final size:67
Alignment explanation
Indices: 2841539--2841679 Score: 239
Period size: 67 Copynumber: 2.1 Consensus size: 67
2841529 TATTAGGCTT
*
2841539 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGG-TTGCCACCAACTTGTGTGGGCTTT
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTTT
*
2841603 GG
66 AG
*
2841605 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTGTGGGCTT
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTT
2841670 TAG
65 TAG
2841673 AGAAGGG
1 AGAAGGG
2841680 AGAAAGATGC
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 7 0.10
67 32 0.46
68 31 0.44
ACGTcount: A:0.19, C:0.17, G:0.36, T:0.28
Consensus pattern (67 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTTT
AG
Found at i:2841713 original size:34 final size:34
Alignment explanation
Indices: 2841661--2842316 Score: 725
Period size: 34 Copynumber: 19.4 Consensus size: 34
2841651 CACCGACTTG
* *
2841661 TGTGGGCTTTAGAGAAGGGAGAAAGATGCCACGGAGT
1 TGTGGGCTTTA-A-AA-GGAAAAAGGTGCCACGGAGT
*
2841698 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAG-GTGCCACGGAGT
*
2841733 TGTGGGCTTTAAAA-GAAAAAAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
2841766 TGTGGGCTTTGAAAAGGGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGGTGCCACGGAGT
* *
2841802 TGTGGGCTTT--AA--AAAGA-GTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* * *
2841831 CGTGGGTTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* * *
2841865 TGTGGGCTTTGAAAA-GAAGAAGGTGCCATGGAGC
1 TGTGGGCTTT-AAAAGGAAAAAGGTGCCACGGAGT
* *
2841899 TGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
2841933 TGTGGGCTTT-AAA-G----A-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
2841960 CGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAG-GAAAAAG-GTGCCACGGAGT
2841997 TGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGGTGCCACGGAGT
*
2842031 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAG-GTGCCACGGAGT
*
2842068 TGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGGTGCCACGGAGT
*
2842102 TGTGGGCTTT------AAACA-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
2842129 CGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAG-GAAAAAG-GTGCCACGGAGT
2842166 TGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGGTGCCACGGAGT
*
2842200 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAG-GTGCCACGGAGT
2842237 TGTGGGCTTTAAAA-GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* *
2842270 TGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
2842304 TGTGGGCTTTAAA
1 TGTGGGCTTTAAA
2842317 CAGTCCCCAC
Statistics
Matches: 544, Mismatches: 32, Indels: 89
0.82 0.05 0.13
Matches are distributed among these distances:
27 42 0.08
28 4 0.01
29 22 0.04
30 4 0.01
31 3 0.01
32 1 0.00
33 60 0.11
34 197 0.36
35 53 0.10
36 61 0.11
37 97 0.18
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.21
Consensus pattern (34 bp):
TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
Found at i:2841842 original size:98 final size:97
Alignment explanation
Indices: 2841714--2842316 Score: 706
Period size: 98 Copynumber: 6.0 Consensus size: 97
2841704 CTTAAAAGGG
2841714 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAA
2841779 AAGGGAAAAAGGTGCCACGGAGTTGTGGGCTTT-
66 AA--GAAAAAGGTGCCACGGAGTTGTGGGCTTTA
* * * *
2841812 AAAAAGAGTGCCACAGAGTCGTGGGTTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGA
* * *
2841877 AAAGAAGAAGGTGCCATGGAGCTGTGGGCTTTAA
65 AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-A
*
2841911 AAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAAG-----AGTGCCACGGAGTCGTGGGCTTT
1 AAA-AAG-A-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT
2841970 GAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
63 G-AAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTT-A
* *
2842009 ACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGG
1 A-A-AAAGA-GTGCCACGGAGTTGTGGGCTTT-AAAA--GAAAAA-AGTGCCACGGAGTTGTGGG
*
2842074 CTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-
59 CTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTA
* *
2842112 --AAACAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT--AAA-AGAAAAA-AGTGCCACGGAGTTGTGGGCTT
2842175 T-AAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
62 TGAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTT----A
* *
2842215 GGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1 ---AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT
* *
2842280 AAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
63 GAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTA
2842315 AA
1 AA
2842317 CAGTCCCCAC
Statistics
Matches: 441, Mismatches: 29, Indels: 71
0.82 0.05 0.13
Matches are distributed among these distances:
95 22 0.05
96 3 0.01
97 38 0.09
98 152 0.34
99 50 0.11
100 13 0.03
101 1 0.00
102 20 0.05
104 51 0.12
105 32 0.07
106 10 0.02
107 3 0.01
108 46 0.10
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (97 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAA
AAGAAAAAGGTGCCACGGAGTTGTGGGCTTTA
Found at i:2841844 original size:28 final size:28
Alignment explanation
Indices: 2841784--2841846 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 28
2841774 TTGAAAAGGG
* *
2841784 AAAAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGGTGCCACAGAGTCGTGGGCTTT
*
2841812 AAAAAGAGTGCCACAGAGTCGTGGGTTTT
1 AAAAAG-GTGCCACAGAGTCGTGGGCTTT
2841841 AAAAAG
1 AAAAAG
2841847 AAAAAGGTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
28 6 0.19
29 25 0.81
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (28 bp):
AAAAAGGTGCCACAGAGTCGTGGGCTTT
Found at i:2842068 original size:71 final size:69
Alignment explanation
Indices: 2841943--2842316 Score: 477
Period size: 71 Copynumber: 5.4 Consensus size: 69
2841933 TGTGGGCTTT
*
2841943 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-
1 AAAGAGTGCCACGGAGTTGTGGGCTTT--AAA-AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTG
2842007 AAACAGAA
63 AAA-AGAA
*
2842015 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTG
1 AAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA--GAAAAAGAGTGCCACGGAGTTGTGGGCTTTG
2842079 AAAAGAA
63 AAAAGAA
* * *
2842086 GAAG-GTGCCACGGAGTTGTGGGCTTT-------AAACAGTGCCACGGAGTCGTGGGCTTTGAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTG-AA
2842143 AGAGAA
65 A-AGAA
2842149 AAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
2842213 AAGGGAA
65 AA--GAA
* *
2842220 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAA
2842284 AGAA
66 AGAA
*
2842288 GAAG-GTGCCACGGAGTTGTGGGCTTTAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAA
2842317 CAGTCCCCAC
Statistics
Matches: 272, Mismatches: 14, Indels: 37
0.84 0.04 0.11
Matches are distributed among these distances:
61 25 0.09
62 3 0.01
63 7 0.03
64 22 0.08
67 24 0.09
68 6 0.02
69 2 0.01
70 40 0.15
71 133 0.49
72 10 0.04
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.20
Consensus pattern (69 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAA
AGAA
Done.