Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 31 of 131
Found at i:10006465 original size:40 final size:40
Alignment explanation
Indices: 10006421--10006650 Score: 248
Period size: 40 Copynumber: 5.8 Consensus size: 40
10006411 GAGTTGTTAG
* * *
10006421 AGTATAAACAGGGGCACGAAAGTGCATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACGAATGTGCAATCAGGGGTACCGA
* ** * * *
10006461 AGTATAATTAGGGGCACGTATGTGCAATCAGGGGTATCAA
1 AGTACAAACAGGGGCACGAATGTGCAATCAGGGGTACCGA
* * * * *
10006501 AGTACAACCATGGGCAC-ATATGTGCAATTAAGGGTGCCGA
1 AGTACAAACAGGGGCACGA-ATGTGCAATCAGGGGTACCGA
* *
10006541 AGTACAATCAGGGGCAC-ATATGTGCAATCAGGGGTACCAA
1 AGTACAAACAGGGGCACGA-ATGTGCAATCAGGGGTACCGA
* * *
10006581 AGTACAAACAGGGGCACGTATGGGCAATCAGGGATACCGA
1 AGTACAAACAGGGGCACGAATGTGCAATCAGGGGTACCGA
*
10006621 AGTACAAACAGGGGCACGTATGTGCAATCA
1 AGTACAAACAGGGGCACGAATGTGCAATCA
10006651 TATAGTAATT
Statistics
Matches: 159, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
40 159 1.00
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (40 bp):
AGTACAAACAGGGGCACGAATGTGCAATCAGGGGTACCGA
Found at i:10006493 original size:20 final size:20
Alignment explanation
Indices: 10006470--10006650 Score: 91
Period size: 20 Copynumber: 9.1 Consensus size: 20
10006460 AAGTATAATT
10006470 AGGGGCACGTATGTGCAATC
1 AGGGGCACGTATGTGCAATC
* * * * *
10006490 AGGGGTATC-AAAGTACAACC
1 AGGGGCA-CGTATGTGCAATC
* * *
10006510 ATGGGCACATATGTGCAATTA
1 AGGGGCACGTATGTGCAA-TC
* *
10006531 AGGGTGC-CG-AAGTACAATC
1 AGGG-GCACGTATGTGCAATC
*
10006550 AGGGGCACATATGTGCAATC
1 AGGGGCACGTATGTGCAATC
* ** * * *
10006570 AGGGGTACCAAAGTACAAAC
1 AGGGGCACGTATGTGCAATC
*
10006590 AGGGGCACGTATGGGCAATC
1 AGGGGCACGTATGTGCAATC
** * * *
10006610 AGGGATACCG-AAGTACAAAC
1 AGGGGCA-CGTATGTGCAATC
10006630 AGGGGCACGTATGTGCAATC
1 AGGGGCACGTATGTGCAATC
10006650 A
1 A
10006651 TATAGTAATT
Statistics
Matches: 109, Mismatches: 44, Indels: 16
0.64 0.26 0.09
Matches are distributed among these distances:
18 2 0.02
19 9 0.08
20 89 0.82
21 7 0.06
22 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.30, T:0.17
Consensus pattern (20 bp):
AGGGGCACGTATGTGCAATC
Found at i:10006565 original size:80 final size:79
Alignment explanation
Indices: 10006452--10006650 Score: 281
Period size: 80 Copynumber: 2.5 Consensus size: 79
10006442 GTGCATTCAG
* * * * *
10006452 GGGTACCGAAGTATAATTAGGGGCACGTATGTGCAATCAGGGGTATCAAAGTACAACCATGGGCA
1 GGGTACCGAAGTACAATCAGGGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAACAGGGGCA
*
10006517 CATATGTGCAATTAA
66 CATATGGGCAA-TAA
* *
10006532 GGGTGCCGAAGTACAATCAGGGGCACATATGTGCAATCAGGGGTACCAAAGTACAAACAGGGGCA
1 GGGTACCGAAGTACAATCAGGGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAACAGGGGCA
* *
10006597 CGTATGGGCAATCA
66 CATATGGGCAATAA
*
10006611 GGGATACCGAAGTACAAACAGGGGCACGTATGTGCAATCA
1 GGG-TACCGAAGTACAATCAGGGGCACGTATGTGCAATCA
10006651 TATAGTAATT
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
79 5 0.05
80 100 0.95
ACGTcount: A:0.34, C:0.19, G:0.30, T:0.18
Consensus pattern (79 bp):
GGGTACCGAAGTACAATCAGGGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAACAGGGGCA
CATATGGGCAATAA
Found at i:10006643 original size:120 final size:120
Alignment explanation
Indices: 10006429--10006648 Score: 307
Period size: 120 Copynumber: 1.8 Consensus size: 120
10006419 AGAGTATAAA
* * * ** *
10006429 CAGGGGCACGAAAGTGCATTCAGGGGTACCGAAGTATAATTAGGGGCACGTATGTGCAATCAGGG
1 CAGGGGCACGAAAGTGCAATCAGGGGTACCAAAGTACAAACAGGGGCACGTATGGGCAATCAGGG
* * * *
10006494 GTATCAAAGTACAACCATGGGCACATATGTGCAATTAAGGGTGCCGAAGTACAAT
66 ATACCAAAGTACAAACAGGGGCACATATGTGCAATTAAGGGTGCCGAAGTACAAT
*
10006549 CAGGGGCAC-ATATGTGCAATCAGGGGTACCAAAGTACAAACAGGGGCACGTATGGGCAATCAGG
1 CAGGGGCACGA-AAGTGCAATCAGGGGTACCAAAGTACAAACAGGGGCACGTATGGGCAATCAGG
* *
10006613 GATACCGAAGTACAAACAGGGGCACGTATGTGCAAT
65 GATACCAAAGTACAAACAGGGGCACATATGTGCAAT
10006649 CATATAGTAA
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
119 1 0.01
120 85 0.99
ACGTcount: A:0.33, C:0.19, G:0.30, T:0.18
Consensus pattern (120 bp):
CAGGGGCACGAAAGTGCAATCAGGGGTACCAAAGTACAAACAGGGGCACGTATGGGCAATCAGGG
ATACCAAAGTACAAACAGGGGCACATATGTGCAATTAAGGGTGCCGAAGTACAAT
Found at i:10013111 original size:22 final size:22
Alignment explanation
Indices: 10013100--10013144 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
10013090 AGCTATTTCC
10013100 TCTTCCCATATTAGATAGTTAA
1 TCTTCCCATATTAGATAGTTAA
*
10013122 TCTTCCCATATTAGACAGTTAA
1 TCTTCCCATATTAGATAGTTAA
10013144 T
1 T
10013145 TTAATAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (22 bp):
TCTTCCCATATTAGATAGTTAA
Found at i:10016679 original size:21 final size:20
Alignment explanation
Indices: 10016655--10016723 Score: 120
Period size: 20 Copynumber: 3.4 Consensus size: 20
10016645 AAAAACACAG
10016655 AAAAAAAGCAAAAAGCGCAA
1 AAAAAAAGCAAAAAGCGCAA
*
10016675 AAAAAAAGTAAAAAAGCGCAA
1 AAAAAAAG-CAAAAAGCGCAA
10016696 AAAAAAAGCAAAAAGCGCAA
1 AAAAAAAGCAAAAAGCGCAA
10016716 AAAAAAAG
1 AAAAAAAG
10016724 TTGCCTACCT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 27 0.59
21 19 0.41
ACGTcount: A:0.72, C:0.12, G:0.14, T:0.01
Consensus pattern (20 bp):
AAAAAAAGCAAAAAGCGCAA
Found at i:10022591 original size:31 final size:32
Alignment explanation
Indices: 10022555--10022619 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
10022545 CTTAGATAAT
10022555 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
10022586 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
10022618 TT
1 TT
10022620 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:10023438 original size:35 final size:35
Alignment explanation
Indices: 10023392--10023461 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
10023382 CTTATGTCTT
10023392 GTGTGATATGCATAGGAAACGGGTGTGGAAAGGTA
1 GTGTGATATGCATAGGAAACGGGTGTGGAAAGGTA
10023427 GTGTGATATGCATAGGAAACGGGTGTGGAAAGGTA
1 GTGTGATATGCATAGGAAACGGGTGTGGAAAGGTA
10023462 ATGAAATAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.06, G:0.40, T:0.23
Consensus pattern (35 bp):
GTGTGATATGCATAGGAAACGGGTGTGGAAAGGTA
Found at i:10023605 original size:31 final size:31
Alignment explanation
Indices: 10023567--10023630 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
10023557 ATTATGGTAA
*
10023567 AAATGTGAAAATCAATTTGTAAGTTCAAATT
1 AAATGTGAAAATCAATTTGTAAGCTCAAATT
10023598 AAATGTGAAAATCAATTTGTAAGCTCAAATT
1 AAATGTGAAAATCAATTTGTAAGCTCAAATT
10023629 AA
1 AA
10023631 GGGATACGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (31 bp):
AAATGTGAAAATCAATTTGTAAGCTCAAATT
Found at i:10023778 original size:46 final size:46
Alignment explanation
Indices: 10023711--10024172 Score: 845
Period size: 46 Copynumber: 10.0 Consensus size: 46
10023701 CATGGCAAAG
*
10023711 TGTGAAACGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
10023757 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
10023803 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
*
10023849 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAATCATACTGAG-
1 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
10023894 TGTTGAAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
1 TG-TG-AAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
10023942 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
*
10023988 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
*
10024034 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
*
10024080 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
*
10024126 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTCAGT
1 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
10024172 T
1 T
10024173 ATAGTATTGT
Statistics
Matches: 407, Mismatches: 6, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
45 2 0.00
46 361 0.89
47 42 0.10
48 2 0.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
Found at i:10024031 original size:185 final size:184
Alignment explanation
Indices: 10023711--10024172 Score: 845
Period size: 185 Copynumber: 2.5 Consensus size: 184
10023701 CATGGCAAAG
*
10023711 TGTGAAACGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGT
1 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGT
10023776 ATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCA
66 ATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCA
*
10023841 TACTGAGTTGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAATCATACTGAG-
131 TACTGAGTTGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
10023894 TGTTGAAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATG
1 TG-TG-AAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATG
*
10023959 GTATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAAC
64 GTATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAAC
*
10024024 CATACTGAGTTGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
129 CATACTGAGTTGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
*
10024080 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGT
1 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGT
*
10024145 ATTTCAATAAAGAAAACCATACTCAGTT
66 ATTTCAATAAAGAAAACCATACTGAGTT
10024173 ATAGTATTGT
Statistics
Matches: 270, Mismatches: 6, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
183 2 0.01
184 89 0.33
185 177 0.66
186 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (184 bp):
TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGT
ATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCA
TACTGAGTTGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
Found at i:10024114 original size:231 final size:230
Alignment explanation
Indices: 10023711--10024172 Score: 845
Period size: 231 Copynumber: 2.0 Consensus size: 230
10023701 CATGGCAAAG
*
10023711 TGTGAAACGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGT
1 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGT
10023776 ATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCA
66 ATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCA
*
10023841 TACTGAGTTGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAATCATACTGAG-TGTTGAAAAAG
131 TACTGAGTTGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGTTG-TG-AAAAG
*
10023905 TAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
194 TAGGTATGGTATTTCAATAAAGAAAACCATACTCAGT
10023942 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGT
1 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGT
* *
10024007 ATTTCGATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCA
66 ATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCA
*
10024072 TACTGAGTTGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGTTGTGAAAAGTA
131 TACTGAGTTGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTA
10024137 GGTATGGTATTTCAATAAAGAAAACCATACTCAGT
196 GGTATGGTATTTCAATAAAGAAAACCATACTCAGT
10024172 T
1 T
10024173 ATAGTATTGT
Statistics
Matches: 224, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
230 42 0.19
231 180 0.80
232 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (230 bp):
TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGT
ATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCA
TACTGAGTTGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGTTGTGAAAAGTA
GGTATGGTATTTCAATAAAGAAAACCATACTCAGT
Found at i:10028934 original size:13 final size:13
Alignment explanation
Indices: 10028916--10028949 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
10028906 ATGGGGGATT
*
10028916 AAATTAAAATAGA
1 AAATTAAAATAAA
10028929 AAATTAAAATAAA
1 AAATTAAAATAAA
10028942 AAATTAAA
1 AAATTAAA
10028950 CCAAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
AAATTAAAATAAA
Found at i:10029593 original size:26 final size:27
Alignment explanation
Indices: 10029541--10029593 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
10029531 ATTGTTGTAG
* * *
10029541 TTTTTCTATTTAAAATTATTATCTATA
1 TTTTTCTATATAAAAATATGATCTATA
*
10029568 TTTTTCTA-ATAAAAATATGATTTATA
1 TTTTTCTATATAAAAATATGATCTATA
10029594 AGATTTTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.55
Consensus pattern (27 bp):
TTTTTCTATATAAAAATATGATCTATA
Found at i:10030803 original size:44 final size:44
Alignment explanation
Indices: 10030735--10030860 Score: 171
Period size: 44 Copynumber: 2.9 Consensus size: 44
10030725 GTCATTAGGG
* *
10030735 TTTATATTCAACATGTACTATGTACCGGTGTTGGCTATGTGCCA
1 TTTATATTCAGCAGGTACTATGTACCGGTGTTGGCTATGTGCCA
* ***
10030779 TTTACATTCAGCAGGTACTATGTACTAATGTTGGCTATGTGCCA
1 TTTATATTCAGCAGGTACTATGTACCGGTGTTGGCTATGTGCCA
* * *
10030823 TTTATATTAAGTAGGTATTATGTACCGGTGTTGGCTAT
1 TTTATATTCAGCAGGTACTATGTACCGGTGTTGGCTAT
10030861 TACACCGTTT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 69 1.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (44 bp):
TTTATATTCAGCAGGTACTATGTACCGGTGTTGGCTATGTGCCA
Found at i:10031905 original size:45 final size:45
Alignment explanation
Indices: 10031841--10032020 Score: 360
Period size: 45 Copynumber: 4.0 Consensus size: 45
10031831 AACGGGTCAA
10031841 ACGAATCAACTTGGAGCTCATACTATCCAGCCTCTGATTTAATAG
1 ACGAATCAACTTGGAGCTCATACTATCCAGCCTCTGATTTAATAG
10031886 ACGAATCAACTTGGAGCTCATACTATCCAGCCTCTGATTTAATAG
1 ACGAATCAACTTGGAGCTCATACTATCCAGCCTCTGATTTAATAG
10031931 ACGAATCAACTTGGAGCTCATACTATCCAGCCTCTGATTTAATAG
1 ACGAATCAACTTGGAGCTCATACTATCCAGCCTCTGATTTAATAG
10031976 ACGAATCAACTTGGAGCTCATACTATCCAGCCTCTGATTTAATAG
1 ACGAATCAACTTGGAGCTCATACTATCCAGCCTCTGATTTAATAG
10032021 TCTTTTATTT
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 135 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (45 bp):
ACGAATCAACTTGGAGCTCATACTATCCAGCCTCTGATTTAATAG
Found at i:10034827 original size:3 final size:3
Alignment explanation
Indices: 10034821--10034865 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
10034811 CTAAAAAAAG
* * *
10034821 ATA ATA ATA ATA TTTA ATA ATA ATA ATA GTA GTA ATA ATA ATA AT
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
10034866 TTGGGCCCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.95
4 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:10035362 original size:42 final size:42
Alignment explanation
Indices: 10035315--10035493 Score: 225
Period size: 42 Copynumber: 4.3 Consensus size: 42
10035305 CTTTATATAC
10035315 AATGCAATGAAAAGTAAAT-GAACCTCCACACCTGAGCCTCTA
1 AATGCAATGAAAAGTAAATAG-ACCTCCACACCTGAGCCTCTA
* *
10035357 AATGCAATTAAAAGTAAATAGACCTCCACACCTGAGGCTCTA
1 AATGCAATGAAAAGTAAATAGACCTCCACACCTGAGCCTCTA
* * * * * * *
10035399 AATACGATGAAAAGTAAATGGACCTACATATCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATAGACCTCCACACCTGAGCCTCTA
* * *
10035441 AATGTAATGAAAAGTAAATAGACCTCCACACTTGGGCCTCTA
1 AATGCAATGAAAAGTAAATAGACCTCCACACCTGAGCCTCTA
*
10035483 AATACAATGAA
1 AATGCAATGAA
10035494 TGCTTTCCTT
Statistics
Matches: 115, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
42 114 0.99
43 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.22
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATAGACCTCCACACCTGAGCCTCTA
Found at i:10035440 original size:84 final size:84
Alignment explanation
Indices: 10035319--10035493 Score: 253
Period size: 84 Copynumber: 2.1 Consensus size: 84
10035309 ATATACAATG
* *
10035319 CAATGAAAAGTAAATGAACCTCCACACCTGAGCCTCTAAATGCAATTAAAAGTAAATAGACCTCC
1 CAATGAAAAGTAAATGAACCTACACACCTGAGCCTCTAAATGCAATGAAAAGTAAATAGACCTCC
10035384 ACACCTGAGG-CTCTAAATA
66 ACACCTG-GGCCTCTAAATA
* * * * * *
10035403 CGATGAAAAGTAAATGGACCTACATATCTGGGCCTCTAAATGTAATGAAAAGTAAATAGACCTCC
1 CAATGAAAAGTAAATGAACCTACACACCTGAGCCTCTAAATGCAATGAAAAGTAAATAGACCTCC
*
10035468 ACACTTGGGCCTCTAAATA
66 ACACCTGGGCCTCTAAATA
10035487 CAATGAA
1 CAATGAA
10035494 TGCTTTCCTT
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
83 2 0.03
84 78 0.98
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (84 bp):
CAATGAAAAGTAAATGAACCTACACACCTGAGCCTCTAAATGCAATGAAAAGTAAATAGACCTCC
ACACCTGGGCCTCTAAATA
Found at i:10036799 original size:41 final size:41
Alignment explanation
Indices: 10036743--10036866 Score: 248
Period size: 41 Copynumber: 3.0 Consensus size: 41
10036733 CAAATGTTAT
10036743 TTTTAGCAAACTCTACCCCTTACCTTCACCTATAAATACCA
1 TTTTAGCAAACTCTACCCCTTACCTTCACCTATAAATACCA
10036784 TTTTAGCAAACTCTACCCCTTACCTTCACCTATAAATACCA
1 TTTTAGCAAACTCTACCCCTTACCTTCACCTATAAATACCA
10036825 TTTTAGCAAACTCTACCCCTTACCTTCACCTATAAATACCA
1 TTTTAGCAAACTCTACCCCTTACCTTCACCTATAAATACCA
10036866 T
1 T
10036867 ACACCTATCA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 83 1.00
ACGTcount: A:0.31, C:0.34, G:0.02, T:0.32
Consensus pattern (41 bp):
TTTTAGCAAACTCTACCCCTTACCTTCACCTATAAATACCA
Found at i:10039290 original size:17 final size:17
Alignment explanation
Indices: 10039268--10039300 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10039258 ACTAAGATTA
*
10039268 CAATGCAATGACAATAG
1 CAATGCAACGACAATAG
10039285 CAATGCAACGACAATA
1 CAATGCAACGACAATA
10039301 TTAACTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.21, G:0.15, T:0.15
Consensus pattern (17 bp):
CAATGCAACGACAATAG
Found at i:10041466 original size:38 final size:38
Alignment explanation
Indices: 10041415--10041491 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
10041405 TAGGTGACTT
10041415 TTGATCAAACAGTAGGAACTGAATTTCCTGAGCTGTCC
1 TTGATCAAACAGTAGGAACTGAATTTCCTGAGCTGTCC
10041453 TTGATCAAACAGTAGGAACTGAATTTCCTGAGCTGTCC
1 TTGATCAAACAGTAGGAACTGAATTTCCTGAGCTGTCC
10041491 T
1 T
10041492 CATTCTTGCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (38 bp):
TTGATCAAACAGTAGGAACTGAATTTCCTGAGCTGTCC
Found at i:10044613 original size:235 final size:235
Alignment explanation
Indices: 10044202--10044671 Score: 825
Period size: 235 Copynumber: 2.0 Consensus size: 235
10044192 TGAGTCCAAG
10044202 ATTTATTGGACCGTATGAAGTTATTGAAAGAATTGGCCCTATAGCTTATAGATTAGCTTTGCCTC
1 ATTTATTGGACCGTATGAAGTTATTGAAAGAATTGGCCCTATAGCTTATAGATTAGCTTTGCCTC
*
10044267 CGGAACTTGAGAAAATTCATAACGTGTTTCACGTATCGATGTTGAGACGGTACATATCAGATCCA
66 CGGAACTTGAGAAAATTCATAACGTGTTTCACGTATCGATGTTGAGACGGTACAGATCAGATCCA
*
10044332 TCACATGTAATTACTCATAGTGAAATTGAGCTACAACCGGATATGACGTACTCGGAAGAACCGGT
131 TCACATGTAATTACTCATAGTGAAATTGAGCTACAACCGGATATGACGTACTCGGAAGAACCGAT
* *
10044397 AAGAATTTTGGCTCGACAAGTTTAAA-AACAACGGAATAAA
196 AAAAATTTTGGCTCGA-AAGGTTAAAGAACAACGGAATAAA
10044437 ATTTATTGGACCGTATGAAGTTATTGAAAGAATTGGCCCTATAGCTTATAGATTAGCTTTGCCTC
1 ATTTATTGGACCGTATGAAGTTATTGAAAGAATTGGCCCTATAGCTTATAGATTAGCTTTGCCTC
* *
10044502 CGGAACTTGAGAAAATTCATAACGTGTTTCACGTATCTATGTTGAGACGGTACAGATTAGATCCA
66 CGGAACTTGAGAAAATTCATAACGTGTTTCACGTATCGATGTTGAGACGGTACAGATCAGATCCA
* * *
10044567 TCACATGTGATTCCTCATAGTGAAATTGAGCTATAACCGGATATGACGTACTCGGAAGAACCGAT
131 TCACATGTAATTACTCATAGTGAAATTGAGCTACAACCGGATATGACGTACTCGGAAGAACCGAT
* *
10044632 AAAAATTTTGGCTCGAGAGGTTAAAGAACTACGGAATAAA
196 AAAAATTTTGGCTCGAAAGGTTAAAGAACAACGGAATAAA
10044672 TGAGTACCAT
Statistics
Matches: 223, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
234 7 0.03
235 216 0.97
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (235 bp):
ATTTATTGGACCGTATGAAGTTATTGAAAGAATTGGCCCTATAGCTTATAGATTAGCTTTGCCTC
CGGAACTTGAGAAAATTCATAACGTGTTTCACGTATCGATGTTGAGACGGTACAGATCAGATCCA
TCACATGTAATTACTCATAGTGAAATTGAGCTACAACCGGATATGACGTACTCGGAAGAACCGAT
AAAAATTTTGGCTCGAAAGGTTAAAGAACAACGGAATAAA
Found at i:10045683 original size:22 final size:22
Alignment explanation
Indices: 10045655--10045699 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
10045645 AGGTTTGGTA
* *
10045655 TTAAAGTTTGTTCATTCATGGC
1 TTAAAGTCTGTTCATTAATGGC
10045677 TTAAAGTCTGTTCATTAATGGC
1 TTAAAGTCTGTTCATTAATGGC
10045699 T
1 T
10045700 ATGTAATAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.44
Consensus pattern (22 bp):
TTAAAGTCTGTTCATTAATGGC
Found at i:10046325 original size:28 final size:28
Alignment explanation
Indices: 10046293--10046348 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
10046283 TACTTATCCT
10046293 TCTCATTCTCCTTGAATCTTTGTAGAAA
1 TCTCATTCTCCTTGAATCTTTGTAGAAA
10046321 TCTCATTCTCCTTGAATCTTTGTAGAAA
1 TCTCATTCTCCTTGAATCTTTGTAGAAA
10046349 AGGTAAGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (28 bp):
TCTCATTCTCCTTGAATCTTTGTAGAAA
Found at i:10048935 original size:33 final size:32
Alignment explanation
Indices: 10048863--10048938 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 32
10048853 ATGTTTAAAT
* * * *
10048863 GTAAGACCATAGCTGGGCTATGACATTTTAAT
1 GTAAGACCATAACTGGGCTATGACACTTGAAC
* *
10048895 GAAAAGACCATAACTGGGTTATGACACCTTGAAC
1 G-TAAGACCATAACTGGGCTATGACA-CTTGAAC
10048929 GTAAGACCAT
1 GTAAGACCAT
10048939 GGTTGGACCA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
32 1 0.03
33 29 0.83
34 5 0.14
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (32 bp):
GTAAGACCATAACTGGGCTATGACACTTGAAC
Found at i:10049055 original size:105 final size:105
Alignment explanation
Indices: 10048862--10049058 Score: 240
Period size: 105 Copynumber: 1.9 Consensus size: 105
10048852 AATGTTTAAA
* **
10048862 TGTAAGACCATAGCTGGGCTATGACATTTTAATGAAAAGACCATAACTGGGTTATGACACCTTGA
1 TGTAAGACCATAGCTGGGCTATGACATTCTAATGAAAAGACCATAACTGGGTTATGACACCTCAA
**
10048927 ACGTAAGACCATGGTTGGACCATGGCAGTATATATACATG
66 ACGTAAGACCATGGAAGGACCATGGCAGTATATATACATG
* * * *
10048967 TGTAAGACCATAGCTGGGCTATTG-CATTCTGAT-AGTAAGACCATAATTGGGTTATGGCA-CTA
1 TGTAAGACCATAGCTGGGCTA-TGACATTCTAATGA-AAAGACCATAACTGGGTTATGACACCT-
*
10049029 CAAATGTAAGACCATGGCAAGG-CCATGGCA
63 CAAACGTAAGACCATGG-AAGGACCATGGCA
10049059 ATGCATGTGT
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
104 3 0.04
105 71 0.91
106 4 0.05
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (105 bp):
TGTAAGACCATAGCTGGGCTATGACATTCTAATGAAAAGACCATAACTGGGTTATGACACCTCAA
ACGTAAGACCATGGAAGGACCATGGCAGTATATATACATG
Found at i:10052237 original size:5 final size:5
Alignment explanation
Indices: 10052227--10052252 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
10052217 TGAGCATTCG
10052227 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
10052253 AATTTTCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:10053079 original size:9 final size:9
Alignment explanation
Indices: 10053065--10053101 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
10053055 TATAGTTTGA
10053065 TATTCGAAT
1 TATTCGAAT
10053074 TATTCGAAT
1 TATTCGAAT
*
10053083 TATTCGAGT
1 TATTCGAAT
10053092 TATTCGAAT
1 TATTCGAAT
10053101 T
1 T
10053102 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:10053172 original size:9 final size:9
Alignment explanation
Indices: 10053155--10053203 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
10053145 TCAAGTTGAT
10053155 TCGAATAAC
1 TCGAATAAC
*
10053164 TCGATTAAC
1 TCGAATAAC
10053173 TCGAATAAC
1 TCGAATAAC
*
10053182 TCGATTAAC
1 TCGAATAAC
10053191 TCGAATAAC
1 TCGAATAAC
10053200 TCGA
1 TCGA
10053204 TTCGTTTAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (9 bp):
TCGAATAAC
Found at i:10053218 original size:23 final size:18
Alignment explanation
Indices: 10053155--10053205 Score: 102
Period size: 18 Copynumber: 2.8 Consensus size: 18
10053145 TCAAGTTGAT
10053155 TCGAATAACTCGATTAAC
1 TCGAATAACTCGATTAAC
10053173 TCGAATAACTCGATTAAC
1 TCGAATAACTCGATTAAC
10053191 TCGAATAACTCGATT
1 TCGAATAACTCGATT
10053206 CGTTTAACTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (18 bp):
TCGAATAACTCGATTAAC
Found at i:10053481 original size:24 final size:24
Alignment explanation
Indices: 10053447--10053498 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
10053437 TATTCTACCC
*
10053447 TAATTAAAGTTCGACTGGGACAAA
1 TAATTAAAGTTCGAATGGGACAAA
* *
10053471 TAATTAGAGTTTGAATGGGACAAA
1 TAATTAAAGTTCGAATGGGACAAA
10053495 TAAT
1 TAAT
10053499 CAAAAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (24 bp):
TAATTAAAGTTCGAATGGGACAAA
Found at i:10053993 original size:15 final size:14
Alignment explanation
Indices: 10053965--10053991 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10053955 AGTTTATGTT
10053965 TTTTTTAATATTTA
1 TTTTTTAATATTTA
10053979 TTTTTTAATATTT
1 TTTTTTAATATTT
10053992 TACTATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTAATATTTA
Found at i:10054122 original size:23 final size:23
Alignment explanation
Indices: 10054090--10054147 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
10054080 AAAAGTTTCG
*
10054090 AATTTCGAGTTAA-TCGAATCAAGT
1 AATTT-GAGTTAACTCGAAT-AAAT
* *
10054114 TATTTGAGTCAACTCGAATAAAT
1 AATTTGAGTTAACTCGAATAAAT
10054137 AATTTGAGTTA
1 AATTTGAGTTA
10054148 CGAGTTTGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 18 0.64
24 10 0.36
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (23 bp):
AATTTGAGTTAACTCGAATAAAT
Found at i:10062338 original size:43 final size:43
Alignment explanation
Indices: 10062285--10062376 Score: 139
Period size: 43 Copynumber: 2.1 Consensus size: 43
10062275 GTAATGAGTT
* * * *
10062285 GTGGAGTTCATGGTAATCAATTGTTGTACTTAATAGGGTATCA
1 GTGGAATTCATGGTAATCAACTGTTGCACGTAATAGGGTATCA
*
10062328 GTGGAATTCATGGTACTCAACTGTTGCACGTAATAGGGTATCA
1 GTGGAATTCATGGTAATCAACTGTTGCACGTAATAGGGTATCA
10062371 GTGGAA
1 GTGGAA
10062377 ACCATATTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (43 bp):
GTGGAATTCATGGTAATCAACTGTTGCACGTAATAGGGTATCA
Found at i:10065719 original size:2 final size:2
Alignment explanation
Indices: 10065712--10065738 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10065702 AGCAACCTTT
10065712 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
10065739 GTTTTCCCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10072160 original size:6 final size:6
Alignment explanation
Indices: 10072149--10072181 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
10072139 TGTTTCTTTT
10072149 ATTTGA ATTTGA ATTTGA ATTTGA ATTTGA ATT
1 ATTTGA ATTTGA ATTTGA ATTTGA ATTTGA ATT
10072182 ACAATAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (6 bp):
ATTTGA
Found at i:10073114 original size:2 final size:2
Alignment explanation
Indices: 10073107--10073149 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
10073097 NNNNNNNNNN
10073107 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10073149 T
1 T
10073150 TATGATAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10087266 original size:18 final size:19
Alignment explanation
Indices: 10087229--10087266 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10087219 ACTTTATAAC
*
10087229 ATTAAATGCAGAACAAAGA
1 ATTAAATACAGAACAAAGA
*
10087248 ATTAAATACATAA-AAAGA
1 ATTAAATACAGAACAAAGA
10087266 A
1 A
10087267 GAATTCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.63, C:0.08, G:0.11, T:0.18
Consensus pattern (19 bp):
ATTAAATACAGAACAAAGA
Found at i:10088622 original size:26 final size:26
Alignment explanation
Indices: 10088591--10088643 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
10088581 TTTCAGAAAT
10088591 AGATTATGAAGCCTTAGACATAGAAG
1 AGATTATGAAGCCTTAGACATAGAAG
10088617 AGATTATGAAGCCTTAGACATAGAAG
1 AGATTATGAAGCCTTAGACATAGAAG
10088643 A
1 A
10088644 TTTAGAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (26 bp):
AGATTATGAAGCCTTAGACATAGAAG
Found at i:10092634 original size:16 final size:16
Alignment explanation
Indices: 10092613--10092650 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
10092603 TTTGGATCGC
10092613 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
10092629 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
10092645 CGTAAT
1 TGTAAT
10092651 AGGTAATCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.03, G:0.34, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:10095894 original size:26 final size:28
Alignment explanation
Indices: 10095840--10095900 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
10095830 TATTATCAAG
* *
10095840 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
10095868 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
10095894 AATTATA
1 AATTATA
10095901 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:10103071 original size:50 final size:49
Alignment explanation
Indices: 10102954--10103063 Score: 134
Period size: 50 Copynumber: 2.2 Consensus size: 49
10102944 ATTTCCATTT
*
10102954 AAAAA-TATTTGGGAT-ATTTTGTGTTTAAAAAATAAAATATATTGATTA
1 AAAAATTA-TTGGGATAATTTTGTGTTTAAAAAATAAAATATATTGATAA
* * * *
10103002 AATAATTGTTGGGATAATTTCTGTTTTTAAAAAATAAAGTATATTGATAAA
1 AAAAATTATTGGGATAATTT-TGTGTTTAAAAAATAAAATATATTGAT-AA
10103053 AAAAATTATTG
1 AAAAATTATTG
10103064 TTAAATTTTG
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
48 11 0.22
49 5 0.10
50 25 0.49
51 10 0.20
ACGTcount: A:0.45, C:0.01, G:0.13, T:0.41
Consensus pattern (49 bp):
AAAAATTATTGGGATAATTTTGTGTTTAAAAAATAAAATATATTGATAA
Found at i:10112662 original size:25 final size:26
Alignment explanation
Indices: 10112633--10112690 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
10112623 TTTTTTTTAA
*
10112633 AAATTATGAACA-TTTTATATTTTTT
1 AAATTATAAACATTTTTATATTTTTT
* * *
10112658 TAATTTTAAATATTTTTATATTTTTT
1 AAATTATAAACATTTTTATATTTTTT
10112684 AAATTAT
1 AAATTAT
10112691 TTGTCGACAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (26 bp):
AAATTATAAACATTTTTATATTTTTT
Found at i:10112665 original size:16 final size:17
Alignment explanation
Indices: 10112644--10112681 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
10112634 AATTATGAAC
* *
10112644 ATTTTATATTTTTTTA-
1 ATTTTAAATATTTTTAT
10112660 ATTTTAAATATTTTTAT
1 ATTTTAAATATTTTTAT
10112677 ATTTT
1 ATTTT
10112682 TTAAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTAAATATTTTTAT
Found at i:10112682 original size:18 final size:19
Alignment explanation
Indices: 10112649--10112692 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
10112639 TGAACATTTT
*
10112649 ATATTTTTTTA-ATTTTAA
1 ATATTTTTATATATTTTAA
*
10112667 ATATTTTTATATTTTTTAA
1 ATATTTTTATATATTTTAA
10112686 ATTATTT
1 A-TATTT
10112693 GTCGACATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 7 0.32
20 5 0.23
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATATTTTTATATATTTTAA
Found at i:10118964 original size:22 final size:22
Alignment explanation
Indices: 10118936--10118987 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
10118926 GGGTAGGAAA
*
10118936 TTGCATCTGAT-TCTAATCTATT
1 TTGCATCT-ATATCCAATCTATT
* *
10118958 TTGCATCTATATCCAATTTGTT
1 TTGCATCTATATCCAATCTATT
10118980 TTGCATCT
1 TTGCATCT
10118988 TATGTGAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 2 0.08
22 24 0.92
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.50
Consensus pattern (22 bp):
TTGCATCTATATCCAATCTATT
Found at i:10121843 original size:30 final size:30
Alignment explanation
Indices: 10121773--10121943 Score: 120
Period size: 30 Copynumber: 5.7 Consensus size: 30
10121763 AACCAAAGTT
*
10121773 ATCCCTTTTCATAATTTGATAGTCGTCACC
1 ATCCCTTTTCATAATTCGATAGTCGTCACC
* * *
10121803 A-ACCTATTTCATTATTCGAT-GGCTGTCACC
1 ATCCCT-TTTCATAATTCGATAGTC-GTCACC
* ***
10121833 ATCCCTTTTCATAGTAT-GATAG-CCAAAGCC
1 ATCCCTTTTCATAAT-TCGATAGTCGTCA-CC
* * *
10121863 ATCCCTTTTCATAATTTGA-CGATCGTCACA
1 ATCCCTTTTCATAATTCGATAG-TCGTCACC
* * *
10121893 ATCCCTTTTCATAATTTGATGGTCGTCACT
1 ATCCCTTTTCATAATTCGATAGTCGTCACC
*
10121923 ATCCCTTTTCAAAATT-GATAG
1 ATCCCTTTTCATAATTCGATAG
10121944 CCCAAGCCAT
Statistics
Matches: 111, Mismatches: 20, Indels: 21
0.73 0.13 0.14
Matches are distributed among these distances:
29 12 0.11
30 91 0.82
31 8 0.07
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATAGTCGTCACC
Found at i:10121903 original size:90 final size:89
Alignment explanation
Indices: 10121743--10121963 Score: 261
Period size: 90 Copynumber: 2.5 Consensus size: 89
10121733 TGGTTAACGT
* * ** *
10121743 ATCCCTTTTCGTAATTTGATAACCAAAGTTATCCCTTTTCATAATTTGATAGTCGTCACCAACCT
1 ATCCCTTTTCATAA-TTGATAGCCAAAGCCATCCCTTTTCATAATTTGAGAGTCGTCACCAACCT
*
10121808 ATTTCATTATTCGATGG-CTGTCACC
65 ATTTCATAATTCGATGGTC-GTCACC
*
10121833 ATCCCTTTTCATAGTATGATAGCCAAAGCCATCCCTTTTCATAATTTGACGA-TCGTCA-CAATC
1 ATCCCTTTTCATAAT-TGATAGCCAAAGCCATCCCTTTTCATAATTTGA-GAGTCGTCACCAA--
* *
10121896 CCT-TTTCATAATTTGATGGTCGTCACT
62 CCTATTTCATAATTCGATGGTCGTCACC
* *
10121923 ATCCCTTTTCAAAATTGATAGCCCAAGCCATCCCTTTTCAT
1 ATCCCTTTTCATAATTGATAGCCAAAGCCATCCCTTTTCAT
10121964 TCATCGATGA
Statistics
Matches: 114, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
89 29 0.25
90 80 0.70
91 5 0.04
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (89 bp):
ATCCCTTTTCATAATTGATAGCCAAAGCCATCCCTTTTCATAATTTGAGAGTCGTCACCAACCTA
TTTCATAATTCGATGGTCGTCACC
Found at i:10129376 original size:30 final size:30
Alignment explanation
Indices: 10129341--10129589 Score: 197
Period size: 30 Copynumber: 8.4 Consensus size: 30
10129331 TGGTTAACAT
* **
10129341 ATCCCTTTTCATAATTTGATAATCGAAGTT
1 ATCCCTTTTCATAATTTGATAGTCGAAGCC
*** * *
10129371 ATCCC-TTTCATGGCTCGATAGTCGAAGCT
1 ATCCCTTTTCATAATTTGATAGTCGAAGCC
* * *
10129400 AT-CCTGTTTTATAATTTGATGGTCGTCA-CC
1 ATCCCT-TTTCATAATTTGATAGTCG-AAGCC
* *
10129430 ATCCCTTTTCATAATTAT-ATAGCCAAAGCC
1 ATCCCTTTTCATAATT-TGATAGTCGAAGCC
* *
10129460 ATCCCTTTTCATAA-TTGATAGCCGAAGGC
1 ATCCCTTTTCATAATTTGATAGTCGAAGCC
* **
10129489 ATCCCTTTTCTTAATACGATAGTCGAAGCC
1 ATCCCTTTTCATAATTTGATAGTCGAAGCC
* *
10129519 ATCCCTTTTCATAATTTGATGGTCGTCA-CC
1 ATCCCTTTTCATAATTTGATAGTCG-AAGCC
* * *
10129549 ATCCCTTTTCATAA-TTGGTAGCCGAAGTC
1 ATCCCTTTTCATAATTTGATAGTCGAAGCC
*
10129578 ATCCTTTTTCAT
1 ATCCCTTTTCAT
10129590 TCATCGATGA
Statistics
Matches: 172, Mismatches: 37, Indels: 21
0.75 0.16 0.09
Matches are distributed among these distances:
28 4 0.02
29 64 0.37
30 98 0.57
31 6 0.03
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAGTCGAAGCC
Found at i:10129478 original size:59 final size:61
Alignment explanation
Indices: 10129406--10129589 Score: 202
Period size: 59 Copynumber: 3.1 Consensus size: 61
10129396 AGCTATCCTG
*
10129406 TTTT-ATAATTTGATGGTCGTCACCATCCCTTTTCATAATTA-TATAGCCAAAGCCATCCC
1 TTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATAATTACGATAGCCAAAGCCATCCC
* * * * * * *
10129465 TTTTCATAA-TTGATAGCCG-AAGGCATCCCTTTTCTTAA-TACGATAGTCGAAGCCATCCC
1 TTTTCATAATTTGATGGTCGTCA-CCATCCCTTTTCATAATTACGATAGCCAAAGCCATCCC
* * * *
10129524 TTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATAATT--GGTAGCCGAAGTCATCCT
1 TTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATAATTACGATAGCCAAAGCCATCCC
10129583 TTTTCAT
1 TTTTCAT
10129590 TCATCGATGA
Statistics
Matches: 102, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
58 3 0.03
59 71 0.70
60 26 0.25
61 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (61 bp):
TTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATAATTACGATAGCCAAAGCCATCCC
Found at i:10131477 original size:59 final size:60
Alignment explanation
Indices: 10131414--10131529 Score: 153
Period size: 62 Copynumber: 1.9 Consensus size: 60
10131404 ATCACTTTAA
* * * ** *
10131414 TATTAAATTAATATAATATTTATC-AAGATAAATATTAGGTTAAATTTAGTATTAAATCT
1 TATTAAAATAATAGAATATTTATCTAAGATAAAAATTAAATTAAATTTAATATTAAATCT
10131473 TATTAAAATAATAGAATATTTATCTATAAGATAAAAATTAAATTAAATTTAATATTA
1 TATTAAAATAATAGAATATTTATC--TAAGATAAAAATTAAATTAAATTTAATATTA
10131530 CAATAATCAC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 22 0.46
62 26 0.54
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (60 bp):
TATTAAAATAATAGAATATTTATCTAAGATAAAAATTAAATTAAATTTAATATTAAATCT
Found at i:10131556 original size:20 final size:18
Alignment explanation
Indices: 10131509--10131615 Score: 67
Period size: 19 Copynumber: 5.8 Consensus size: 18
10131499 TAAGATAAAA
10131509 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
10131526 ATTACAA-TAATCACTTTAAT
1 ATTA-AATTAAT-A-TTTAAT
** *
10131546 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
*
10131565 ATTAAGATAAATATTTAAT
1 ATTAA-ATTAATATTTAAT
* * *
10131584 -TTAATTTAATGTTAAAAT
1 ATTAAATTAATATT-TAAT
*
10131602 ATTAAAATAATATT
1 ATTAAATTAATATT
10131616 ATTTTTTGAA
Statistics
Matches: 67, Mismatches: 15, Indels: 14
0.70 0.16 0.15
Matches are distributed among these distances:
17 13 0.19
18 9 0.13
19 25 0.37
20 20 0.30
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:10138731 original size:131 final size:131
Alignment explanation
Indices: 10138497--10138758 Score: 443
Period size: 131 Copynumber: 2.0 Consensus size: 131
10138487 GATTTCGTAT
* * * *
10138497 CTGAATTTGGGCAACTACTGTTATATCTATATTTTTGTTTTGCCTATATATCGGCTACACACATT
1 CTGAATTTAGACAACTACTGTTATATCTATATTATTGTTTTGCCTATATATAGGCTACACACATT
* * *
10138562 GAGTTATAAGCTCACACTTTTTGTTGACTGAATTGCAGGAAATCTATAGACTTAAGAGGCTTGAC
66 GAGTTATAAGCTCACACTTTTTGTTGACTGAATTGCAGGAAATCCACAAACTTAAGAGGCTTGAC
10138627 A
131 A
*
10138628 CTGAATTTAGACAACTACTTTTATATCTATATTATTGTTTTGCCTATATATAGGCTACACACATT
1 CTGAATTTAGACAACTACTGTTATATCTATATTATTGTTTTGCCTATATATAGGCTACACACATT
*
10138693 GATTTATAAGCTCACACTTTTTGTTGACTGAATTGCAGGAAATCCACAAACTTAAGAGGCTTGAC
66 GAGTTATAAGCTCACACTTTTTGTTGACTGAATTGCAGGAAATCCACAAACTTAAGAGGCTTGAC
10138758 A
131 A
10138759 TGTTGAGAGC
Statistics
Matches: 122, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
131 122 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (131 bp):
CTGAATTTAGACAACTACTGTTATATCTATATTATTGTTTTGCCTATATATAGGCTACACACATT
GAGTTATAAGCTCACACTTTTTGTTGACTGAATTGCAGGAAATCCACAAACTTAAGAGGCTTGAC
A
Found at i:10140678 original size:188 final size:189
Alignment explanation
Indices: 10140357--10140734 Score: 632
Period size: 188 Copynumber: 2.0 Consensus size: 189
10140347 GTCGAAAAAC
* * * *
10140357 TTGAACTGTACGTCGCCACATCGTGAGGTGGAATTGCGTCATCGGGACGGAAAAGGATCACATCG
1 TTGAACTGCACGTCGCCACATCGTGACGTGGAATTACGTCATCGGGACGAAAAAGGATCACATCG
** * *
10140422 TGAAGATGAGTGCTTTCTTTTTGTCGTGATGTCGACTGCTCGTTGGGACAAAGAACACTTCCTCG
66 TGAAGATGAGTGCTTTCTTTTCATCGTGACGTCGACTGCTCGTTGGGACAAAGAACACTTCATCG
10140487 TTGCGACGTTACACACTTTTTAGTCTAAAATGCGAGGCATAACTCCACATTAGTGCTAA
131 TTGCGACGTTACACACTTTTTAGTCTAAAATGCGAGGCATAACTCCACATTAGTGCTAA
*
10140546 TTGAACTGCACGTCGCCACATTGTGACGTGGAATTAC-TCATCGGGACGAAAAAGGATCACATCG
1 TTGAACTGCACGTCGCCACATCGTGACGTGGAATTACGTCATCGGGACGAAAAAGGATCACATCG
* *
10140610 TGAAGATGAGTGCTTTCTTTTCATCGTGACGTTGACTGCTCGTTGGGACAAAGAACAGTTCATCG
66 TGAAGATGAGTGCTTTCTTTTCATCGTGACGTCGACTGCTCGTTGGGACAAAGAACACTTCATCG
* *
10140675 TTGCGACGTTACACACTTTTTAGTCTAAAATGTGTGGCATAACTCCACATTAGTGCTAA
131 TTGCGACGTTACACACTTTTTAGTCTAAAATGCGAGGCATAACTCCACATTAGTGCTAA
10140734 T
1 T
10140735 CGTAAGAGTC
Statistics
Matches: 176, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
188 143 0.81
189 33 0.19
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (189 bp):
TTGAACTGCACGTCGCCACATCGTGACGTGGAATTACGTCATCGGGACGAAAAAGGATCACATCG
TGAAGATGAGTGCTTTCTTTTCATCGTGACGTCGACTGCTCGTTGGGACAAAGAACACTTCATCG
TTGCGACGTTACACACTTTTTAGTCTAAAATGCGAGGCATAACTCCACATTAGTGCTAA
Found at i:10142866 original size:21 final size:20
Alignment explanation
Indices: 10142819--10142868 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
10142809 AAGAAAATTT
*
10142819 ATAAATTTATAAAAACATTA
1 ATAAATTTATAAAAACATAA
* *
10142839 TTAAAATTTATAAAAATAGTAA
1 AT-AAATTTATAAAAACA-TAA
10142861 ATAAATTT
1 ATAAATTT
10142869 CAAAATAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 20 0.83
22 3 0.12
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
ATAAATTTATAAAAACATAA
Found at i:10161240 original size:26 final size:26
Alignment explanation
Indices: 10161189--10161259 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 26
10161179 TTCATGAAAA
* * *
10161189 TAAAAAATATGTATATATATATATAT
1 TAAAAAATATGCATATATAAAAATAT
10161215 TAAAAAATTATGCA-ATATAAAAATA-
1 TAAAAAA-TATGCATATATAAAAATAT
* *
10161240 TATATAAGTATGCATATATA
1 TA-AAAAATATGCATATATA
10161260 CATATATGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
25 8 0.22
26 24 0.65
27 5 0.14
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.37
Consensus pattern (26 bp):
TAAAAAATATGCATATATAAAAATAT
Found at i:10165273 original size:7 final size:7
Alignment explanation
Indices: 10165261--10165296 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
10165251 AAGAGAACCC
10165261 CTTATTT
1 CTTATTT
10165268 CTTATTT
1 CTTATTT
*
10165275 CTTGTTT
1 CTTATTT
10165282 ACTTATTT
1 -CTTATTT
10165290 CTTATTT
1 CTTATTT
10165297 ATTGTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.14, C:0.14, G:0.03, T:0.69
Consensus pattern (7 bp):
CTTATTT
Found at i:10165288 original size:15 final size:15
Alignment explanation
Indices: 10165261--10165297 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
10165251 AAGAGAACCC
10165261 CTTATTT-CTTATTT
1 CTTATTTACTTATTT
*
10165275 CTTGTTTACTTATTT
1 CTTATTTACTTATTT
10165290 CTTATTTA
1 CTTATTTA
10165298 TTGTTTAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.16, C:0.14, G:0.03, T:0.68
Consensus pattern (15 bp):
CTTATTTACTTATTT
Found at i:10165288 original size:22 final size:22
Alignment explanation
Indices: 10165261--10165304 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
10165251 AAGAGAACCC
*
10165261 CTTATTTCTTATTTCTTGTTTA
1 CTTATTTCTTATTTATTGTTTA
10165283 CTTATTTCTTATTTATTGTTTA
1 CTTATTTCTTATTTATTGTTTA
10165305 AAGGAGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.16, C:0.11, G:0.05, T:0.68
Consensus pattern (22 bp):
CTTATTTCTTATTTATTGTTTA
Found at i:10165583 original size:14 final size:14
Alignment explanation
Indices: 10165536--10165585 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
10165526 CAAAAAAAGA
*
10165536 AATACATAGAATTAG
1 AATAAATAGAA-TAG
*
10165551 AATAATTAGAATA-
1 AATAAATAGAATAG
10165564 ATATAAATAGAATAG
1 A-ATAAATAGAATAG
10165579 AATAAAT
1 AATAAAT
10165586 GGAAAAGGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 1 0.03
14 19 0.63
15 10 0.33
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.28
Consensus pattern (14 bp):
AATAAATAGAATAG
Found at i:10171767 original size:105 final size:100
Alignment explanation
Indices: 10171589--10171804 Score: 288
Period size: 105 Copynumber: 2.1 Consensus size: 100
10171579 AATTGGCGGA
* * *
10171589 TAAGACCATGGTTGGACCATGGTATTTCTTAAATGTAAGACCATAGATGGGCTATGGCATTTTAA
1 TAAGACCATGGTTGGACCATGGAATATATTAAATGTAAGACCATAGATGGGCTATGGCATTTTAA
** *
10171654 TGAAAAGACCATAACTAGGTTATGGCACCTTGAACG
66 TGAAAAGACCATAACTAGGTTATGGCA-CTACAAAG
* *
10171690 TAAGACCATGGTTGGACCATGGCAATATATATACATGTGTAAGACCATAGCTGGGCTATGGCATT
1 TAAGACCATGGTTGGACCATGG-AATATAT-TA-A-ATGTAAGACCATAGATGGGCTATGGCATT
* * *
10171755 TTGATGATAAGACCATAATTAGGTTATGGCACTACAAAG
62 TTAATGAAAAGACCATAACTAGGTTATGGCACTACAAAG
10171794 TAAGACCATGG
1 TAAGACCATGG
10171805 CAGGGTCATA
Statistics
Matches: 100, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
101 22 0.22
102 4 0.04
103 2 0.02
104 17 0.17
105 55 0.55
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (100 bp):
TAAGACCATGGTTGGACCATGGAATATATTAAATGTAAGACCATAGATGGGCTATGGCATTTTAA
TGAAAAGACCATAACTAGGTTATGGCACTACAAAG
Found at i:10171771 original size:33 final size:33
Alignment explanation
Indices: 10171624--10171771 Score: 91
Period size: 33 Copynumber: 4.3 Consensus size: 33
10171614 TTCTTAAATG
* *
10171624 TAAGACCATAGATGGGCTATGGCATTTTAATGA
1 TAAGACCATAGCTGGGCTATGGCATTTTGATGA
* * * * ** *
10171657 AAAGACCATAACTAGGTTATGGCACCTTGAACG-
1 TAAGACCATAGCTGGGCTATGGCATTTTG-ATGA
* * * * * *
10171690 TAAGACCATGGTTGGACCATGGCAATATATATACATGTG
1 TAAGACCATAGCTGGGCTATGGC-AT-T-T-T-GATG-A
10171729 TAAGACCATAGCTGGGCTATGGCATTTTGATGA
1 TAAGACCATAGCTGGGCTATGGCATTTTGATGA
10171762 TAAGACCATA
1 TAAGACCATA
10171772 ATTAGGTTAT
Statistics
Matches: 80, Mismatches: 27, Indels: 16
0.65 0.22 0.13
Matches are distributed among these distances:
33 46 0.57
34 6 0.08
35 1 0.01
36 2 0.03
37 4 0.05
38 2 0.03
39 19 0.24
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (33 bp):
TAAGACCATAGCTGGGCTATGGCATTTTGATGA
Found at i:10179295 original size:7 final size:7
Alignment explanation
Indices: 10179285--10179316 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
10179275 GTTTTTGGAT
10179285 TTTAGGG
1 TTTAGGG
10179292 TTTAGGG
1 TTTAGGG
10179299 TTTAGGG
1 TTTAGGG
10179306 TTTTAGGG
1 -TTTAGGG
10179314 TTT
1 TTT
10179317 TTAGGATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.50
Consensus pattern (7 bp):
TTTAGGG
Found at i:10179312 original size:15 final size:14
Alignment explanation
Indices: 10179285--10179316 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
10179275 GTTTTTGGAT
10179285 TTTAGGGTTTAGGG
1 TTTAGGGTTTAGGG
10179299 TTTAGGGTTTTAGGG
1 TTTAGGG-TTTAGGG
10179314 TTT
1 TTT
10179317 TTAGGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTAGGG
Found at i:10179320 original size:9 final size:8
Alignment explanation
Indices: 10179274--10179337 Score: 60
Period size: 8 Copynumber: 8.0 Consensus size: 8
10179264 CTGACTTGTA
*
10179274 GGTTTTTG
1 GGTTTTAG
*
10179282 GATTTTAG
1 GGTTTTAG
10179290 GG-TTTAG
1 GGTTTTAG
10179297 GG-TTTAG
1 GGTTTTAG
10179304 GGTTTTAG
1 GGTTTTAG
10179312 GGTTTTTAG
1 GG-TTTTAG
* *
10179321 GATTTTTAA
1 G-GTTTTAG
10179330 GGTTTTAG
1 GGTTTTAG
10179338 AGAAAAAAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
7 14 0.30
8 19 0.41
9 13 0.28
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.52
Consensus pattern (8 bp):
GGTTTTAG
Found at i:10182669 original size:21 final size:21
Alignment explanation
Indices: 10182641--10182790 Score: 104
Period size: 21 Copynumber: 7.1 Consensus size: 21
10182631 CGTGTTTACT
*
10182641 TTCCGTTTAGCTCTTACGAGC
1 TTCCGTTTAGCTCTTATGAGC
* * * *
10182662 TTCTGTTTAACTCATATGAGT
1 TTCCGTTTAGCTCTTATGAGC
*
10182683 TTCCGTTCAGCTC-TATTGAGC
1 TTCCGTTTAGCTCTTA-TGAGC
* * * * *
10182704 TTCTGTTTAACCCTTATGGGT
1 TTCCGTTTAGCTCTTATGAGC
* *
10182725 TTCCGTTCAGCTCTTACGAGC
1 TTCCGTTTAGCTCTTATGAGC
* * * * * *
10182746 TTCCATTCAACCCTTACGAGT
1 TTCCGTTTAGCTCTTATGAGC
*
10182767 TTCCGTTTAGCTCTCATGAGC
1 TTCCGTTTAGCTCTTATGAGC
10182788 TTC
1 TTC
10182791 AGTTCAGCCT
Statistics
Matches: 94, Mismatches: 33, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
20 2 0.02
21 90 0.96
22 2 0.02
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.40
Consensus pattern (21 bp):
TTCCGTTTAGCTCTTATGAGC
Found at i:10182704 original size:42 final size:42
Alignment explanation
Indices: 10182640--10182790 Score: 178
Period size: 42 Copynumber: 3.6 Consensus size: 42
10182630 TCGTGTTTAC
* * *
10182640 TTTCCGTTTAGCTCTTACGAGCTTCTGTTTAACTCATATGAG
1 TTTCCGTTCAGCTCTTACGAGCTTCTGTTTAACCCTTATGAG
* *
10182682 TTTCCGTTCAGCTC-TATTGAGCTTCTGTTTAACCCTTATGGG
1 TTTCCGTTCAGCTCTTA-CGAGCTTCTGTTTAACCCTTATGAG
** * *
10182724 TTTCCGTTCAGCTCTTACGAGCTTCCATTCAACCCTTACGAG
1 TTTCCGTTCAGCTCTTACGAGCTTCTGTTTAACCCTTATGAG
* * *
10182766 TTTCCGTTTAGCTCTCATGAGCTTC
1 TTTCCGTTCAGCTCTTACGAGCTTC
10182791 AGTTCAGCCT
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
41 2 0.02
42 89 0.96
43 2 0.02
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTTACGAGCTTCTGTTTAACCCTTATGAG
Found at i:10184325 original size:29 final size:29
Alignment explanation
Indices: 10184283--10184344 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
10184273 AGTTGAAGGG
10184283 GCATTAGAGCTATAGGGACAAAAACAAAA
1 GCATTAGAGCTATAGGGACAAAAACAAAA
10184312 GCATTAGAGCTATAGGGACAAAAACAAAA
1 GCATTAGAGCTATAGGGACAAAAACAAAA
10184341 GCAT
1 GCAT
10184345 CTAATTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.50, C:0.15, G:0.21, T:0.15
Consensus pattern (29 bp):
GCATTAGAGCTATAGGGACAAAAACAAAA
Found at i:10188145 original size:5 final size:5
Alignment explanation
Indices: 10188132--10188161 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
10188122 CATTGATGTT
*
10188132 GAAAT GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
10188162 TTGGGATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (5 bp):
GAAAA
Found at i:10188260 original size:16 final size:17
Alignment explanation
Indices: 10188239--10188271 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10188229 AGAGACTTGA
10188239 AACTGA-AGGTGATGAG
1 AACTGAGAGGTGATGAG
*
10188255 AACTGAGTGGTGATGAG
1 AACTGAGAGGTGATGAG
10188272 CTTTATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.06, G:0.39, T:0.21
Consensus pattern (17 bp):
AACTGAGAGGTGATGAG
Found at i:10190109 original size:18 final size:18
Alignment explanation
Indices: 10190088--10190137 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
10190078 ATATTTTTAC
10190088 AATTTATTATTTTATATA
1 AATTTATTATTTTATATA
*
10190106 AATTTTATCATTTTA-ATA
1 AA-TTTATTATTTTATATA
*
10190124 ATTTTATT-TTTTAT
1 AATTTATTATTTTAT
10190138 TTTAACAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
18 6 0.22
19 11 0.41
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
AATTTATTATTTTATATA
Found at i:10190151 original size:10 final size:10
Alignment explanation
Indices: 10190136--10190184 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 10
10190126 TTTATTTTTT
10190136 ATTTTAACAA
1 ATTTTAACAA
*
10190146 ATTTT-ATAA
1 ATTTTAACAA
*
10190155 TTTTTAA-AA
1 ATTTTAACAA
10190164 ATTTT-ACAA
1 ATTTTAACAA
10190173 TATTTTAACAA
1 -ATTTTAACAA
10190184 A
1 A
10190185 AATTAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
8 1 0.03
9 15 0.47
10 12 0.38
11 4 0.12
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (10 bp):
ATTTTAACAA
Found at i:10190160 original size:40 final size:40
Alignment explanation
Indices: 10190089--10190169 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
10190079 TATTTTTACA
* * *
10190089 ATTTATTATTTTATATAAATTTTATCATTTTAATAATTTT
1 ATTTATTATTTTATACAAATTTTATAATTTTAAAAATTTT
*
10190129 ATTTTTTATTTTA-ACAAATTTTATAATTTTTAAAAATTTT
1 ATTTATTATTTTATACAAATTTTATAA-TTTTAAAAATTTT
10190169 A
1 A
10190170 CAATATTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
39 11 0.31
40 25 0.69
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (40 bp):
ATTTATTATTTTATACAAATTTTATAATTTTAAAAATTTT
Found at i:10190165 original size:18 final size:20
Alignment explanation
Indices: 10190135--10190184 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
10190125 TTTTATTTTT
*
10190135 TATTTTAACAAATTTTATAA
1 TATTTTAACAAATTTTACAA
10190155 T-TTTTAA-AAATTTTACAA
1 TATTTTAACAAATTTTACAA
10190173 TATTTTAACAAA
1 TATTTTAACAAA
10190185 AATTAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 11 0.41
19 12 0.44
20 4 0.15
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (20 bp):
TATTTTAACAAATTTTACAA
Found at i:10190478 original size:168 final size:168
Alignment explanation
Indices: 10190200--10190536 Score: 674
Period size: 168 Copynumber: 2.0 Consensus size: 168
10190190 AAAATTTCTA
10190200 AATTTATTAAATTATTCAATAACTTTAAGATTAAATAAAATCAATTAAGTCCTAATAAACTAATT
1 AATTTATTAAATTATTCAATAACTTTAAGATTAAATAAAATCAATTAAGTCCTAATAAACTAATT
10190265 AAAAGATCAATTAAGCCCTCATAGTCACCATTTTTCCATGTTAAATACCATGTCAACCATCACAT
66 AAAAGATCAATTAAGCCCTCATAGTCACCATTTTTCCATGTTAAATACCATGTCAACCATCACAT
10190330 CATCATAACCTTCATTGTCAATTACTACATTAGCTGCC
131 CATCATAACCTTCATTGTCAATTACTACATTAGCTGCC
10190368 AATTTATTAAATTATTCAATAACTTTAAGATTAAATAAAATCAATTAAGTCCTAATAAACTAATT
1 AATTTATTAAATTATTCAATAACTTTAAGATTAAATAAAATCAATTAAGTCCTAATAAACTAATT
10190433 AAAAGATCAATTAAGCCCTCATAGTCACCATTTTTCCATGTTAAATACCATGTCAACCATCACAT
66 AAAAGATCAATTAAGCCCTCATAGTCACCATTTTTCCATGTTAAATACCATGTCAACCATCACAT
10190498 CATCATAACCTTCATTGTCAATTACTACATTAGCTGCC
131 CATCATAACCTTCATTGTCAATTACTACATTAGCTGCC
10190536 A
1 A
10190537 CACCATCACT
Statistics
Matches: 169, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 169 1.00
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (168 bp):
AATTTATTAAATTATTCAATAACTTTAAGATTAAATAAAATCAATTAAGTCCTAATAAACTAATT
AAAAGATCAATTAAGCCCTCATAGTCACCATTTTTCCATGTTAAATACCATGTCAACCATCACAT
CATCATAACCTTCATTGTCAATTACTACATTAGCTGCC
Found at i:10208599 original size:15 final size:15
Alignment explanation
Indices: 10208579--10208607 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10208569 GTATTGTTGC
10208579 TTGATAACACGGTGA
1 TTGATAACACGGTGA
10208594 TTGATAACACGGTG
1 TTGATAACACGGTG
10208608 TGTAAGGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:10209392 original size:16 final size:16
Alignment explanation
Indices: 10209371--10209401 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10209361 TAATAATTTG
10209371 ATAAGATTAAGGTGTT
1 ATAAGATTAAGGTGTT
*
10209387 ATAAGATTGAGGTGT
1 ATAAGATTAAGGTGT
10209402 GTCTTAGGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (16 bp):
ATAAGATTAAGGTGTT
Found at i:10217543 original size:92 final size:92
Alignment explanation
Indices: 10217399--10217576 Score: 320
Period size: 92 Copynumber: 1.9 Consensus size: 92
10217389 TCTAGCTGCC
* *
10217399 TGAACTTGGAGATGGGAGGGTCTCGTGTCAAAACATTGATATTAGATGGACTATGGTGAATCAGT
1 TGAACCTGGAGATGGGAGGGTCTCGTGTCAAAACATTGATATTAGATGGACTATGGTGAATCAAT
10217464 TAATTAATGAAGATACTTCTAGATACT
66 TAATTAATGAAGATACTTCTAGATACT
* *
10217491 TGAACCTGGAGATGGGAGGGTTTCGTGTCAGAACATTGATATTAGATGGACTATGGTGAATCAAT
1 TGAACCTGGAGATGGGAGGGTCTCGTGTCAAAACATTGATATTAGATGGACTATGGTGAATCAAT
10217556 TAATTAATGAAGATACTTCTA
66 TAATTAATGAAGATACTTCTA
10217577 CTTGGAATGC
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 82 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (92 bp):
TGAACCTGGAGATGGGAGGGTCTCGTGTCAAAACATTGATATTAGATGGACTATGGTGAATCAAT
TAATTAATGAAGATACTTCTAGATACT
Found at i:10233687 original size:12 final size:11
Alignment explanation
Indices: 10233666--10233705 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
10233656 TAAAAAGTTT
10233666 AAAAATTTTAA
1 AAAAATTTTAA
10233677 AAAATATTTTAA
1 AAAA-ATTTTAA
* *
10233689 AAAAATGTAAA
1 AAAAATTTTAA
10233700 AAAAAT
1 AAAAAT
10233706 AAGAAATGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (11 bp):
AAAAATTTTAA
Found at i:10242533 original size:50 final size:50
Alignment explanation
Indices: 10242423--10242718 Score: 290
Period size: 50 Copynumber: 5.8 Consensus size: 50
10242413 ATTTGTGTAA
*
10242423 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--C-TGAG---ATG
* *
10242479 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * *
10242529 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGCCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* ** * ** *
10242579 AAAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
** * * * * * * *
10242629 AGAACTCCCAAGTAAGGCCATATCTGGGATATGGCATTGGTAGT-ACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* ** *
10242678 AAACATCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
10242719 TGTTATTATC
Statistics
Matches: 204, Mismatches: 36, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
48 13 0.06
49 23 0.11
50 123 0.60
53 4 0.02
54 1 0.00
56 40 0.20
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:10250584 original size:13 final size:13
Alignment explanation
Indices: 10250566--10250590 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10250556 AAAGCACGAC
10250566 AACATTAAACTAA
1 AACATTAAACTAA
10250579 AACATTAAACTA
1 AACATTAAACTA
10250591 CTCTTTCGGT
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:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (13 bp):
AACATTAAACTAA
Found at i:10255312 original size:17 final size:16
Alignment explanation
Indices: 10255285--10255318 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
10255275 GAAAATTCTG
10255285 GAAAAAAAAAAGAAAT
1 GAAAAAAAAAAGAAAT
*
10255301 GAAAAGAAAAAAGTAAT
1 GAAAA-AAAAAAGAAAT
10255318 G
1 G
10255319 TGAAACAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (16 bp):
GAAAAAAAAAAGAAAT
Found at i:10257995 original size:17 final size:18
Alignment explanation
Indices: 10257965--10258001 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10257955 CCATCTACAG
10257965 TTTCATTTTCCTTT-TTT
1 TTTCATTTTCCTTTCTTT
10257982 TTTCTATTTT-CTTTCTTT
1 TTTC-ATTTTCCTTTCTTT
10258000 TT
1 TT
10258002 GGTTTTCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTCATTTTCCTTTCTTT
Found at i:10260160 original size:15 final size:16
Alignment explanation
Indices: 10260140--10260169 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10260130 AAGTTATTTT
10260140 TATTTTAGCT-TATTG
1 TATTTTAGCTATATTG
10260155 TATTTTAGCTATATT
1 TATTTTAGCTATATT
10260170 AGACAATCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.07, G:0.10, T:0.60
Consensus pattern (16 bp):
TATTTTAGCTATATTG
Found at i:10261812 original size:41 final size:42
Alignment explanation
Indices: 10261751--10261883 Score: 171
Period size: 42 Copynumber: 3.2 Consensus size: 42
10261741 AAACGGTTTT
10261751 ATAAGTTGTGTATCAGTGAAGCTCCCCT-CGTGAGCTT-AGTG
1 ATAAGTTGTGTATCAGTGAAGCT-CCCTACGTGAGCTTAAGTG
* * *
10261792 ATAAGTTGTGTATCAATGAAGCTCCCTACATGAGCTTAAGGG
1 ATAAGTTGTGTATCAGTGAAGCTCCCTACGTGAGCTTAAGTG
* * * *
10261834 AAAAGTTGTGTGTCAGCGAAGCTCCCTGCGTGAGCTTAAGTG
1 ATAAGTTGTGTATCAGTGAAGCTCCCTACGTGAGCTTAAGTG
*
10261876 ACAAGTTG
1 ATAAGTTG
10261884 AATGTCAGCA
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
40 4 0.05
41 30 0.38
42 45 0.57
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (42 bp):
ATAAGTTGTGTATCAGTGAAGCTCCCTACGTGAGCTTAAGTG
Found at i:10261855 original size:42 final size:41
Alignment explanation
Indices: 10261753--10261901 Score: 156
Period size: 42 Copynumber: 3.6 Consensus size: 41
10261743 ACGGTTTTAT
* *
10261753 AAGTTGTGTATCAGTGAAGCTCCCCTCGTGAGCTT-AGTGAT
1 AAGTTGTGTATCAGCGAAGCT-CCCTCGTGAGCTTAAGTGAA
** * *
10261794 AAGTTGTGTATCAATGAAGCTCCCTACATGAGCTTAAGGGAA
1 AAGTTGTGTATCAGCGAAGCTCCCT-CGTGAGCTTAAGTGAA
* *
10261836 AAGTTGTGTGTCAGCGAAGCTCCCTGCGTGAGCTTAAGTGAC
1 AAGTTGTGTATCAGCGAAGCTCCCT-CGTGAGCTTAAGTGAA
** * *
10261878 AAGTTGAATGTCAGCAAAGCTCCC
1 AAGTTGTGTATCAGCGAAGCTCCC
10261902 CATGCGAGCT
Statistics
Matches: 92, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
40 4 0.04
41 28 0.30
42 60 0.65
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (41 bp):
AAGTTGTGTATCAGCGAAGCTCCCTCGTGAGCTTAAGTGAA
Found at i:10265137 original size:25 final size:25
Alignment explanation
Indices: 10265109--10265168 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
10265099 AAGCTCCTCT
10265109 GAGCTAAATAACGATAAGCTCATAC
1 GAGCTAAATAACGATAAGCTCATAC
* *
10265134 GAGC-AGAGTATCGATAAGCTCATAC
1 GAGCTA-AATAACGATAAGCTCATAC
10265159 GAGCTGAAAT
1 GAGCT-AAAT
10265169 CGGTAACCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 1 0.03
25 25 0.86
26 2 0.07
27 1 0.03
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (25 bp):
GAGCTAAATAACGATAAGCTCATAC
Found at i:10269050 original size:29 final size:29
Alignment explanation
Indices: 10268993--10269056 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
10268983 GTTTAAATAC
*
10268993 AAGATAAACATTAAATTTAATTTAATATT
1 AAGATAAACATTAAATTTAAATTAATATT
*
10269022 AAGATAAATATTACAA-TTAAATTAATATT
1 AAGATAAACATTA-AATTTAAATTAATATT
10269051 AA-ATAA
1 AAGATAA
10269057 TTAAAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 4 0.12
29 26 0.81
30 2 0.06
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (29 bp):
AAGATAAACATTAAATTTAAATTAATATT
Found at i:10275412 original size:112 final size:112
Alignment explanation
Indices: 10275215--10275441 Score: 364
Period size: 112 Copynumber: 2.0 Consensus size: 112
10275205 GATGAAGAGA
* * * *
10275215 CTACCATGGTGTAGTTTTTGGATGGCTTGAACGTTTCAATAGCTAATGCAACATATTCAAAAATG
1 CTACCATGGTGCAGTTTGTGGATGGCTTGAACGTTTCAATAGCCAATGCAACATATTCAAAAACG
*
10275280 TTAATCTCGTCCATTTGGTGCATCACAAAATTATAGAGGTACAAGTT
66 TTAATCTCGTCCATTTGGTGCATCACAAAATTATAAAGGTACAAGTT
* **
10275327 CTACCATGGTGCAGTTTGTGGATGGCTTGAACGTTTCAATAGCCAATGCAACATTTTCAGTAACG
1 CTACCATGGTGCAGTTTGTGGATGGCTTGAACGTTTCAATAGCCAATGCAACATATTCAAAAACG
* *
10275392 TTAATCTCGTCCATTTGGTGCATCACAATATTATAAAGGTACGAGTT
66 TTAATCTCGTCCATTTGGTGCATCACAAAATTATAAAGGTACAAGTT
10275439 CTA
1 CTA
10275442 ATTCTACTTT
Statistics
Matches: 105, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
112 105 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (112 bp):
CTACCATGGTGCAGTTTGTGGATGGCTTGAACGTTTCAATAGCCAATGCAACATATTCAAAAACG
TTAATCTCGTCCATTTGGTGCATCACAAAATTATAAAGGTACAAGTT
Found at i:10286035 original size:18 final size:18
Alignment explanation
Indices: 10286009--10286051 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
10285999 TAAATATTAA
*
10286009 TTCACTTTCATATAACAC
1 TTCACTTTCATAAAACAC
*
10286027 TTTACTTTCATAAAACAC
1 TTCACTTTCATAAAACAC
10286045 TTCACTT
1 TTCACTT
10286052 AATATTTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.42
Consensus pattern (18 bp):
TTCACTTTCATAAAACAC
Found at i:10288818 original size:15 final size:15
Alignment explanation
Indices: 10288793--10288825 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
10288783 CTTCTTCTTC
10288793 TTTCTTTTTGTTTCAT
1 TTTCTTTTTGTTTC-T
10288809 TTTC-TTTTGTTTCT
1 TTTCTTTTTGTTTCT
10288823 TTT
1 TTT
10288826 ACATTTGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 9 0.53
16 4 0.24
ACGTcount: A:0.03, C:0.12, G:0.06, T:0.79
Consensus pattern (15 bp):
TTTCTTTTTGTTTCT
Found at i:10289153 original size:372 final size:372
Alignment explanation
Indices: 10288336--10295487 Score: 4888
Period size: 372 Copynumber: 19.0 Consensus size: 372
10288326 TACCTCCTAA
* * * * *
10288336 AATTTCCCCAAATTTTTTACGTTCCTCTCTTTCCATTACTTTCATTTCTTTTTTCCATTTTCTGT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
* * * * **
10288401 TCATTTGACGTTATTTT-TTCTTCTTCTTTCTTTCTGTTTCGTTTTTCTTTCATTTCTTTTACAT
66 TCCTCTAACGTTATTTTCTTCTTCTTCTTTCTTTCTGTTTC-ATTTTCTTTTGTTTCTTTTACAT
* * * * *
10288465 TTATTGTCATATTCCCTTGTTGTCGTCTCTTGCTATTGTTTATTCATTGCCGACTTATCTTCTAT
130 TTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTAT
* *
10288530 TGTGCC-ACCATTTAGACTGCATTGGTGTAATTAATAAACTCTTTC-GGTAAGTATAATTCGTTA
195 TGTGCCGA-CATTTAGACTGCGTTGGTGTTATT-A-AAA-TC-TTCAGGTAAGTATAATTCGTTA
* * * * * * * *
10288593 GCTTCGTTCTAGGCTGGTTGTTTTTAAATCTTTGGAAGGTATTTT-G--------GTT-TGATTT
255 GTTTCATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTT
* * * * * * *
10288648 TGCTAGGGGTGGTTCATGAGGTGTTTACTCTTCTGACGAGTGAGTATTTCAGT
320 TGCTAAGGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * * *
10288701 AATTTTCCCAAATTTTTTACGTTCCTCTCTTTCCACTACTTCCATTACGTTTTCCCATTTTTTGT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
* *
10288766 TCCTCTGACGTTATTTTCTTCTTCTTCTTTCTTTTTGTTTCATTTTCTTTTGTTTCTTTTACATT
66 TCCTCTAACGTTATTTTCTTCTTCTTCTTTCTTTCTGTTTCATTTTCTTTTGTTTCTTTTACATT
* * * * * *
10288831 TGTTGCCATATTCCCCTATTGTCGTCTCTTGCTACTATTACTTCATTGCCTACCCATCTTCTATT
131 TGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTATT
* * * *
10288896 GTACCGACATTTAGACTACGTTGGTGTTCTTAAAATCTTCAGGTAAGAATAATTCGTTAGTTTCA
196 GTGCCGACATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTAGTTTCA
* * *
10288961 TTTTAGGGTGGTTGTCATGATATCATTGGAAGGTCTTTTGATTTCATTAGTTGTGATTTTGCTAA
261 TTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTTGCTAA
* * * *
10289026 GGCTGGTTCGTGAGGCATTTACTCTTCTGGTGAGTGAAGATTTTAGC
326 GGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* *
10289073 AATTTCCCCAAATTTTTTATATTCCTCTATTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
* * * *
10289138 TCCTTTAATGTTATTTTCTTCTTCTTCTTTCTTTCTGTCTCATTTTTCTTTCGTTTCTTTT--A-
66 TCCTCTAACGTTATTTTCTTCTTCTTCTTTCTTTCTGTTTCA-TTTTCTTTTGTTTCTTTTACAT
* * * *
10289200 -------C-T-TT----TG-TGT--TCTCTTGCTATTATTTCTTCATTACCAACCTATCTTCTGT
130 TTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTAT
* ** * *
10289249 TGTGCC-ACCATTTAGACTACGCCGGTGTTATTAAAATCTTCAAGTAAGTATAATTTGTTAGTTT
195 TGTGCCGA-CATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTAGTTT
* * * *
10289313 CATTTTAGGGTGGTTGTCTTGATATCTTTAGAAGGTCTTTTGGTTTTATTAATTGTGATTTTACT
259 CATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTTGCT
* * *
10289378 -AGAGGTGGTTTGTGAGGCATTTACTCTTTTGGCGAGTGAGGATTTTAGC
324 AAG-GGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
*
10289427 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTCTGT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
*** *
10289492 TCCTCTGTTGTTATTTTCTTCTTCTTCTTTCTTTCTGTTTCATTTTCTTTTATTTCTTTTACATT
66 TCCTCTAACGTTATTTTCTTCTTCTTCTTTCTTTCTGTTTCATTTTCTTTTGTTTCTTTTACATT
* * * * * * *
10289557 TGTTGCCATATTCCCCTCTTCTCGTCTCTTGCTATCG-TCCTTTCATTGCCAACCTATTTTCTGT
131 TGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTC-TTCATTGCCGACCTATCTTCTAT
* * * * * **
10289621 TATGCCGCCATTTAGACTACGTCGGTGTTATTAAAATCTTCAGGTAAATATAATTTATTAGTTTC
195 TGTGCCGACATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTAGTTTC
* * *
10289686 ATTTTAGGGTGGTTTTCTTGATATCTTTGGAAGGCCTTTTGGTTTTATTAGTTGTGATTTTGCT-
260 ATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTTGCTA
* ** *
10289750 AGAGGTGGTTCGTGAGGCATTTACTCTTCTAACGAGTGAAGATTTTAGC
325 AG-GGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
*
10289799 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTTCACTACTTCCATTTCTTTTTCCCATTTTTTGT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
* * *
10289864 TCCTCTAACGTTATTTTTTTCTTTTTCTTTCTTTCTGTTTCATTTTTCTTTCGTTTCTTTTACAT
66 TCCTCTAACGTTATTTTCTTCTTCTTCTTTCTTTCTGTTTCA-TTTTCTTTTGTTTCTTTTACAT
* * * * * * *
10289929 TTGTTGTCATATTCACCTGTTTTCGTCTCTTACTATTGTTTCTTTATTGTCGAGCTATCTTCTAT
130 TTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTAT
* * * * *
10289994 TGTGCTGTCATTTAGACTGCGTCGGTGTTATCAAAATCTTCAGGTAAGTATAATTCGTTAGTTTT
195 TGTGCCGACATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTAGTTTC
* * * *
10290059 GTTTTATGGTGGTTGTCTTGATATCTTTGAAAGGTCTTTTGGTTTCATTAG-T-TG---TTACTA
260 ATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTTGCTA
*** ** *** * * * * * * *
10290119 AAAATGGAATTATTTTTGC--TAAATCCTCATGTGTCACCCATCTAGTGGTATTTGGGTTG-
325 AGGGTGG--TTCGTGAGGCGTTTACTCTTC-TG-G----CGA-GT-GAGG-ATTT---TAGC
* * * *** ** * ***** * * **** *
10290178 GATTT---GAACTTTAGAAAATT-ATC-CAAAAAAATACCTCC-TAAAATTTACCCAAATTTTTT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCC--ATTTTTT
* * * *** * * *
10290237 ACGTTCCTCT--C-----TTTC--C-ACTACTTCCATTTCTGTTTCCCATT-TTTTGTTCCTCTG
64 --GTTCCTCTAACGTTATTTTCTTCTTCTTCTTTC-TTTCTGTTTCATTTTCTTTTGTTTCTTTT
* * ** * **
10290291 ACGTTAT-TTTCTTC-T-TTCTTTCTGTT-TCGT-T-TT-CTTTTGTTTCTTTTACATTTGTTG-
126 ACATT-TGTTGC--CATATTC-CCCTGTTGTCGTCTCTTGCTATTGTTTC--TT-CA-TTGCCGA
* ** ** * * * *** * *
10290348 CC-ATATTCCCTTGTTATCGTC-TCTT-G-CTACTGTT--TCTTCATTGCCGACCTATC---T-T
183 CCTATCTTCTATTG-TGCCGACAT-TTAGACTGC-GTTGGTGTT-ATT-AAAATCT-TCAGGTAA
* ** * ** *** * * * * * * **
10290403 CTATTGTGGCGACA-TTT-AGACTACGTTGG-TGTTATTAAAATCTTCTGGTAA-G---TAT-AA
242 GTATAAT-TCGTTAGTTTCATTTTAGGGTGGTTG-TCTTGATATCTT-TGG-AAGGTCTTTTGGT
* * ** * * *
10290460 TTCGTTAGTT-T--TCTTT--T-AGGGTGGTTGTCTTGATATCGTTGAAAGGTCTTTTGGTTTC-
303 TTCATTAGTTGTGAT-TTTGCTAAGGGTGG-T-TCGTGA-GGCGTT--TA-CTCTTCTGG---CG
* *
10290518 A-TTA-G-TTGT-G-
358 AGTGAGGATTTTAGC
** * ** ** * ** * * * * * *** *
10290528 -ATTTTGCTAGGGGTGGTTCATGAGGCATTTACTCTTCTAGTGAGTAAAGATTTTAGCAATTTTC
1 AATTTCCCCA--AATTTTTTATG-TTCCTCT-CT-TTCCACT-ACT-TCCA-TTT--C-TTTTTC
* * * * *
10290592 CCGAATTTTTTATATTTCTCT--CTTTCCATTGCTTCCATTTCTTTCTCCCATTTTATGTTC-GT
55 CC--A-TTTTT-TGTTCCTCTAACGTT--ATT--TT-C--TTC-TTCT-TC--TTTCT-TTCTGT
* * * * * * * ** * * * *
10290654 CTAACGTTCTCTTCTT-CTTCTTCTTTCTTTCTGTT-TCAT-TT-TTCTTTTGT-TTCTTTTAC-
104 -T-TCATTTTCTT-TTGTTTCTT-TTACATT-TGTTGCCATATTCCCCTGTTGTCGTCTCTTGCT
* * * * * * *
10290713 ATTTGTTGCCAT-ATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGTCGATCAATCTTC
164 A-TTGTT-TCTTCATT-GCC----GACCTATCTT-CTATTG---------TGCCGA-C-A--TT-
* * * * * **
10290777 TATTGTGCCACCATTTTGAC-TGTGTTGGTGTTATTAAA--ATCA--TCAAGTAAGTATAATTTG
207 TA----G--A-C----TG-CGT-TGGTGTTATTA--AAATCTTCAGGT-AAGT-A-TA-ATTCG-
* * * * ** **
10290837 TTAGTTTCGTTTTAGGATGGTTATCTTGATATCTTTGGAAGGCCTTTTACTTTCATTAGTACTGA
252 TTAGTTTCATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGA
* * * *
10290902 TTTT--TTAGGGTGGTTCGTGAGGTGTTTACTCTTCTGGCGAATGAGGATTTTAGG
317 TTTTGCTAAGGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * * *
10290956 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACAACTTCTATTTCTTTTTCCCCTTTTATGT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
* * * * * *
10291021 TCCTCTAATGTTATTTT-TTCTTCTTCTTCCTTTTTGTCTCATTTTTCCTTCGTTTCTTTTACAT
66 TCCTCTAACGTTATTTTCTTCTTCTTCTTTCTTTCTGTTTCA-TTTTCTTTTGTTTCTTTTACAT
* ** ** *
10291085 TTGTTGCTATATTCCTTTGTTGTCGTCTCTCACTATTGTTTCTTTATTGCCGACCTATCTTCTAT
130 TTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTAT
* * *
10291150 TGTGCCGCCATTTAGACTGTGTTGGTGTTCTTAAAATCATT-AGGTAAGTATAATTCGTTAGTTT
195 TGTGCCGACATTTAGACTGCGTTGGTGTTATTAAAATC-TTCAGGTAAGTATAATTCGTTAGTTT
* * * *
10291214 CGTTTTAGGATGGTTGTCTTGATATCATTGGAAGGTCTTTTGCTTTCATTAGTTGTGATTTTGCT
259 CATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTTGCT
* * * * * *
10291279 -AGGGAGGTTCATAAGGCGTTTAATCTTTTGGCGAATGAGGATTTTAGC
324 AAGGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * * * * * **
10291327 AATTTCTCCAAATTTTTTATTTTCTTCTCTTTCCACTACTTCAATTTCTTTTTCTCATTCTCGGT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
* *
10291392 TCCTCTAATGTTATTTT-TTCTTCTTCTTTC-TTCTAGTTTCGTTTTCTTTTGTTTCTTTTACAT
66 TCCTCTAACGTTATTTTCTTCTTCTTCTTTCTTTCT-GTTTCATTTTCTTTTGTTTCTTTTACAT
* * * * * * * * *
10291455 TTGTTTCCATATTCTCCTATTGACGTCTCTTACTATTGTCTCTTCATTACCGACCTATATTCTGT
130 TTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTAT
** * ** *
10291520 TGTGTTGCCATTTAGACTGCGTCAGTGTTATTAAAATCTTCAGGTAAGTATAATTAGTTAGTTTC
195 TGTGCCGACATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTAGTTTC
* *
10291585 ATTTTAGAGTAGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAG-TGTTGATTTTGCT
260 ATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTG-TGATTTTGCT
* * *
10291649 AAGGGTGGTTCGTGAGGCGTTTAATTTTCTGGCAAGTGAGGATTTTAGC
324 AAGGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * *
10291698 AATTTTCGCAAATTTTTTATGTTCTTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTCTT-
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTT-TTG
* *
10291762 TTCCTCTAACGTTATTTTCTTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTTATTTCTTTTAAA
65 TTCCTCTAACGTTATTTTCTTCTTCTTCTTTCTTTCTGTTTCA-TTTTCTTTTGTTTCTTTTACA
* ** * *
10291827 TTTGTTGTCATATTCCTTTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACTTATCTTCTT
129 TTTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTA
* *
10291892 TTGTGCC-ACCATTTAGACTGCGTTGGTGTTATTATTAAAATTTTCAGGTAAGTATAATTCATTA
194 TTGTGCCGA-CATTTAGACTGCGTTGGTG---TTATTAAAATCTTCAGGTAAGTATAATTCGTTA
* * * * * * *
10291956 GTTTCGTTTTAGGGTGGTTGTTTTTAAATCTTTGGAAGGTATTTTGCTTTCTTTAGTTGTGATTT
255 GTTTCATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTT
* * * * *
10292021 TGCTAGGGGTGGTTCATGAGGCTTTTACTCTT-TGGCGAGTGAGTATTTCAGC
320 TGCTAAGGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * *
10292073 AATTTCCCCAAATCTTTTACGTTCCTCTGTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
* * * * *
10292138 TCCTCTGAC-TT-TATT-TTCTTCTTCTTTATTTATGTTAT-GTTTTCTTTTGTTTCTTTTACAT
66 TCCTCTAACGTTATTTTCTTCTTCTTCTTTCTTTCTGTT-TCATTTTCTTTTGTTTCTTTTACAT
* * * *
10292199 TTGTTGCCATATTCCCCTATTGTCGTCTCTTGCTACTGTTTCTTTATTGCCGACCTATCTTCTGT
130 TTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTAT
* *
10292264 TGTGCC-ACCATTTAGACTGTGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTACTTT
195 TGTGCCGA-CATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTA-GTT
*
10292328 TC-TTTTATGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAG-TGTTGATTTTG
258 TCATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTG-TGATTTTG
* * * * *
10292391 CTAGGGGTGGTTCGTGAGGCGTTTACTTTTCTAGTGAGTTAGGATTTTAGC
322 CTAAGGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * * **
10292442 AATTTTCCCAAATTTTTTATGTTCCTCTCTTTCCACTAATTCCATTTCTTTTTCCCAGTTTCGGT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
* ** *
10292507 TCCTCTAACGTTATTTTCTTCTTCTTCTTTTTTTCTGTTTTGTTTTCTTTCGTTTCTTTTACATT
66 TCCTCTAACGTTATTTTCTTCTTCTTCTTTCTTTCTGTTTCATTTTCTTTTGTTTCTTTTACATT
* * * * *
10292572 TGTTGCCATATTCTCCTGTTGTCGTTTCTTGCTACTGTTTCTTCGTTGCCGACCTATCTTCTGTT
131 TGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTATT
* * * *
10292637 GTGCTG-CTATTTAGACTGCATTGGTGTTATTAAAATCTTCTGGTAAGTATAATTCGCTAGTTTT
196 GTGCCGAC-ATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTAG-TTT
* * * ** **
10292701 C-TTTTAGGGTGGTTGTCTTGATATCTTCTATTGTG-CGGCCATTTAGACTGTGTTGGTGTTCTT
259 CATTTTAGGGTGGTTGTCTTGATA---TCT-TTG-GAAGGTC-TTTTG---GT-TTCAT-TAGTT
*** * ** ** * * * **
10292764 AAAATTATTAGGTAAGTATAATTCGTTA---G--TACTCTTTTAGG-GTGGTTGTCTTAATATCT
313 GTGATT-TT-GCTAAGGGTGGTTCGTGAGGCGTTTACTCTTCT-GGCG-AG-TG----AGGAT-T
*
10292823 TT-GA
368 TTAGC
** * * * * * ** *
10292827 AAGGTCTTTTCC---TTTCATTA-GTT-GTAAT-TTTGCTAGGGGTGGTTCGTGAGGTGTTTACT
1 AA--T-TTCCCCAAATTT-TTTATGTTCCT-CTCTTT-CCA---CTACTTC--CA----TTT-CT
** * * * * * *
10292886 CTTCTAGCGAGTGAGGATTTTAGCAATTTCC-CCAA-ATTTTTTATGTTCTTC-TCTTTCCACTA
50 -TT-TTCCCA-T-----TTTTTG----TTCCTCTAACGTTATTT-TCTTCTTCTTCTTT---CT-
** * * * * * * * * * *
10292948 CTTCCATTTCTTTTTACCATTTTATGTTCCTCTAACGTTATCTT-CTTCTTCTTCTTCCTTTCTG
98 -TTCTGTTTCATTTT--C--TTT-TGTTTCTTTTACATT-TGTTGC--CATATTC-CCCTGT-TG
** * * * *
10293012 TTTTATTTTTCT-TTCGTTTCTTTTACATTTTTTGCCATATTCCCCTATTGTCGTCTCTTACTAT
152 TCGTCTCTTGCTATT-GTTTC--TT-CA----TTGCC-GA----CCTA--------TCTT-CTAT
** ** * * * *** * * ** **
10293076 TGTTG-CTTCATTGCCGACCTGCCTT-TTGTTCTGTTGCCAT-TT-AGACTACGT-TGGTGTTAT
195 TG-TGCCGACATT-TAGA-CTGCGTTGGTG-T-TATTAAAATCTTCAG-GTAAGTATAAT-TCGT
* * * *
10293136 TAAAATATTCATTTTAAGGTGGTTATCTTAATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGT
253 T--AGT-TTCATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGT
* * * *
10293201 GATTTTTCT-AGGTTGGTTCGTGAGGCGTTTACTCTTCTAGCGAGTAAGGATTTTAG-
315 GATTTTGCTAAGGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * *
10293257 AATTTCCCCAAAATTTTTATGTTCCTCTCTTTCCACTACTTTCATTTCCTTTTCCCATTTTTTGT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
* *
10293322 TCCTCTAACGTTATTTT-TT-TTCTTCTTTCTTTCTGTTTTATTTTCTTCTGTTT-TTTTACATT
66 TCCTCTAACGTTATTTTCTTCTTCTTCTTTCTTTCTGTTTCATTTTCTTTTGTTTCTTTTACATT
* * * * * *
10293384 TGTTGCCATATTCCCCTATTATCGTCTCTTGCTACTGTTTCTTCGTTACCGACCTATTTTCTATT
131 TGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTATT
* * * *
10293449 GTGCCGCCATGTAGACTGGGTTGGTGCTATTAAAATCTTCAGGTAAGTATAATTCGTTAGTTTTC
196 GTGCCGACATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTAG-TTTC
* *
10293514 -TTTTAGGGTGGTTGTCTTGATATCTTTGGGAGGTCTTTTGGTTTCATTAGTTGTGATTTTGTTA
260 ATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTTGCTA
* * * *
10293578 GGGGTGGTTCGTAAGGCATTTACTCTTCTGGCGAGTGAGGATTTTTGC
325 AGGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * ** * * * * * *
10293626 AATTTTCCTATTTTTTTTATATTTCTCTCTTTCTACTACTTTCATTT-TGTTTTCTCATTTTTTC
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCT-TTTTCCCATTTTTTG
* * * *
10293690 TTCCTCTAACGTCATTTT-TTCTTCTT-TTTCCTTTCTGTTTCATTTTTCCTTCGTTTCTATTAC
65 TTCCTCTAACGTTATTTTCTTCTTCTTCTTT-CTTTCTGTTTCA-TTTTCTTTTGTTTCTTTTAC
* *** *
10293753 ATTTGTTGCTATATTCTTTTGTTGTTGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCT
128 ATTTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCT
* * * *
10293818 ATTGTGCCGCCATTTAGACTGTGTTGGTGTTCTTAAAATCATT-AGGTAAGTATAATTAGTTAGT
193 ATTGTGCCGACATTTAGACTGCGTTGGTGTTATTAAAATC-TTCAGGTAAGTATAATTCGTTAG-
10293882 TTTC-TTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTT
256 TTTCATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTT
* * * *
10293946 GCTAGGGGTGGTTCGTGAGACGTTTACTCTTCTAGCGAGTGAGGATTTTAGT
321 GCTAAGGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * *
10293998 AATTTTCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCAATTTTTAGT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
* * * * *
10294063 TCCTCTAACGTTATTTTTTTTCTTCTTCTTCCATTCTGTTTTATATTTCTTTCGTTTCTTTTACA
66 TCCTCTAACGTTA-TTTTCTTCTTCTTCTTTCTTTCTGTTTCAT-TTTCTTTTGTTTCTTTTACA
* * * * * *
10294128 TTTATTTCCATATTCCCCTGTTATCGTCTCTTGCTATTGTTTCTTCATTGTCAACTTATCTTCTA
129 TTTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTA
* * * *
10294193 CTT-TGCC-ACCATTTAGACTGCATTGGTGTTCTTAAAATCATT-AGGTAAGTATAATTCATTAA
194 -TTGTGCCGA-CATTTAGACTGCGTTGGTGTTATTAAAATC-TTCAGGTAAGTATAATTCGTTAG
* * * ** *
10294255 TTTCGTTTTAGAGTGGTTGACTTGATATCTTTAAAAGGTCTTTTGCTTTCATTAGTTGTGATTTT
256 TTTCATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTT
* * *
10294320 GCT-AGAGTGGTTCGTGAGGCGTTTAGTCTTCTAGCGAGTGAGGATTTTAGC
321 GCTAAGGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* *
10294371 AATTTCCCCAAATTTTTTATGTTCTTCTCTTTCCACTACTTCCATTTCTTTTTCCTA-TTTTT-T
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
* * * * * *
10294434 TCCTCTGATGTTATTTTTTTCTTCTTTTTTTCTTTTTGCTTT-GTTTTCTTTTGTTTCTTTTACA
66 TCCTCTAACGTTATTTTCTTCTTC-TTCTTTCTTTCTG-TTTCATTTTCTTTTGTTTCTTTTACA
* * * * * *
10294498 TTTGTTGTCATATTCCCCTGTTGACGCCTCTTGCTACTGTTTCTTCATTGCCGACCTATATTCTG
129 TTTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTA
* * * * * * * *
10294563 TTGTGCTGCCATTTTGACTGCATCGGTGTTTTTAAAATCTTCAAGTATGTATAATTCGTTAGTTT
194 TTGTGCCGACATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTAGTTT
* * * *
10294628 CATTTTAGGGTGGTTGTTTTGCTATCTTTGGAAGGACTTTTGGTTTCATTAG-TGTTGATTTTTC
259 CATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTG-TGATTTTGC
* * * * *
10294692 TAGGGGTGGTTCGTAAGGCGTTTACTTTTCTAGCGAGTGAGGGTTTTAGC
323 TAAGGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * * *
10294742 AATTT-CCCAAATTTTTTATGTTCCTCTTTTTCCACTACTTCCATTTCTTTTTCCAACTTTCTGT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
* * * * *
10294806 TCCTCTAACTTTATTTTCTTTTTCTTCTTT-TTTTTATTTCATTTTGCTTTCGTTTCTTTTACAT
66 TCCTCTAACGTTATTTTCTTCTTCTTCTTTCTTTCTGTTTCATTTT-CTTTTGTTTCTTTTACAT
* * * ** * *
10294870 TTGTTGCCATATTCCCCTGTTTTCGTCTCTTGATATTGCTTCTTCATTATCGATCTATCTTCTGT
130 TTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTAT
* *
10294935 TGTGCCGCCATTTAGACTGCGTTGGTGTTATTAAAATATTCAGGTAAGTATAATTCGTTAGTTTC
195 TGTGCCGACATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTAGTTTC
* ** *
10295000 ATTTTAGGGTGGTTGTCTTGGTATCTTTGGAAGGTCTTTTGGTTTTGTTAGTTATGATTTTGCTA
260 ATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTTGCTA
* * * * *
10295065 AAGGTGGTTCGTAAGGTGTTTACTCTTCTGGAGAGTGATGATTTTAGC
325 AGGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * * *
10295113 AATTTCCCC-AATTTTTTATGTTCTTCTCTTTCCACTACTTCCATCTCTTTTGTCCTATTTTCTG
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTT-TCCCATTTTTTG
* * *
10295177 TTCCTCTGACGTTATTTTTTTCTTCTTCTTTATTTCTGTTTCATTATTCTTTTGTTTCTTTTACA
65 TTCCTCTAACGTTATTTTCTTCTTCTTCTTTCTTTCTGTTTCATT-TTCTTTTGTTTCTTTTACA
** * ** *
10295242 TTTGTTATCATTTTCCCCTGTTGTTATCTCTTGCTATTGTTTCTTCATTGCCAACCTATCTTCTA
129 TTTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTA
* * * *
10295307 TTGTGCC-ATCATTTAAACTGCATTGGTGTTATTAAAATCCTC----AAGTATAATTTGTTAGTT
194 TTGTGCCGA-CATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTAGTT
* *
10295367 TCATTTTAGGGTGGTTGTTTTGATATCTTTGGAAGGTCTTTTTGTTTCATTAGTTGTGATTTTGC
258 TCATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTTGC
* *
10295432 TAAGGGTGGTTCGTGAGAG-GTTTTCTCTTCTGGTGAGTGAGGATTTCT-GC
323 TAAGGGTGGTTCGTGAG-GCGTTTACTCTTCTGGCGAGTGAGGATTT-TAGC
10295482 AATTTC
1 AATTTC
10295488 TTTTCTCTTC
Statistics
Matches: 5344, Mismatches: 1032, Indels: 818
0.74 0.14 0.11
Matches are distributed among these distances:
349 4 0.00
350 1 0.00
351 1 0.00
352 1 0.00
353 19 0.00
354 292 0.05
355 1 0.00
356 6 0.00
357 2 0.00
358 16 0.00
359 8 0.00
360 4 0.00
361 24 0.00
362 66 0.01
363 28 0.01
364 12 0.00
365 192 0.04
366 71 0.01
367 83 0.02
368 179 0.03
369 303 0.06
370 533 0.10
371 728 0.14
372 1021 0.19
373 533 0.10
374 226 0.04
375 102 0.02
376 127 0.02
377 19 0.00
378 1 0.00
379 13 0.00
380 7 0.00
381 10 0.00
382 6 0.00
383 4 0.00
384 20 0.00
385 32 0.01
386 17 0.00
387 12 0.00
388 23 0.00
389 5 0.00
390 7 0.00
391 5 0.00
392 4 0.00
393 13 0.00
394 8 0.00
395 7 0.00
396 5 0.00
397 10 0.00
398 4 0.00
399 8 0.00
400 12 0.00
401 6 0.00
402 9 0.00
403 28 0.01
404 16 0.00
405 28 0.01
406 12 0.00
407 11 0.00
408 15 0.00
409 4 0.00
410 16 0.00
412 8 0.00
414 14 0.00
415 15 0.00
416 5 0.00
417 9 0.00
418 19 0.00
419 20 0.00
420 5 0.00
421 9 0.00
422 4 0.00
423 6 0.00
424 13 0.00
425 26 0.00
426 13 0.00
427 17 0.00
428 12 0.00
429 15 0.00
430 18 0.00
431 20 0.00
432 9 0.00
433 1 0.00
434 2 0.00
435 8 0.00
436 5 0.00
437 11 0.00
439 4 0.00
440 13 0.00
441 16 0.00
442 18 0.00
443 6 0.00
444 4 0.00
445 19 0.00
ACGTcount: A:0.17, C:0.18, G:0.15, T:0.50
Consensus pattern (372 bp):
AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
TCCTCTAACGTTATTTTCTTCTTCTTCTTTCTTTCTGTTTCATTTTCTTTTGTTTCTTTTACATT
TGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTATT
GTGCCGACATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTAGTTTCA
TTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTTGCTAA
GGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
Found at i:10289911 original size:21 final size:21
Alignment explanation
Indices: 10289880--10289930 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
10289870 AACGTTATTT
10289880 TTTTC-TTTTTCTTTC-TTTC
1 TTTTCATTTTTCTTTCGTTTC
10289899 TGTTTCATTTTTCTTTCGTTTC
1 T-TTTCATTTTTCTTTCGTTTC
10289921 TTTTACATTT
1 TTTT-CATTT
10289931 GTTGTCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.04
20 4 0.14
21 13 0.46
22 10 0.36
ACGTcount: A:0.06, C:0.18, G:0.04, T:0.73
Consensus pattern (21 bp):
TTTTCATTTTTCTTTCGTTTC
Found at i:10289913 original size:17 final size:15
Alignment explanation
Indices: 10289891--10289924 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
10289881 TTTCTTTTTC
10289891 TTTCTTTCTGTTTCATT
1 TTTCTTTC-GTTTC-TT
10289908 TTTCTTTCGTTTCTT
1 TTTCTTTCGTTTCTT
10289923 TT
1 TT
10289925 ACATTTGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 5 0.29
17 8 0.47
ACGTcount: A:0.03, C:0.18, G:0.06, T:0.74
Consensus pattern (15 bp):
TTTCTTTCGTTTCTT
Found at i:10290333 original size:15 final size:15
Alignment explanation
Indices: 10290305--10290337 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
10290295 TATTTTCTTC
10290305 TTTCTTTCTGTTTCGT
1 TTTCTTTCTGTTTC-T
10290321 TTTCTTT-TGTTTCT
1 TTTCTTTCTGTTTCT
10290335 TTT
1 TTT
10290338 ACATTTGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 6 0.35
16 7 0.41
ACGTcount: A:0.00, C:0.15, G:0.09, T:0.76
Consensus pattern (15 bp):
TTTCTTTCTGTTTCT
Found at i:10290706 original size:16 final size:16
Alignment explanation
Indices: 10290671--10290710 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
10290661 TCTCTTCTTC
10290671 TTCTTCTTTCTTTCTGT
1 TTCTT-TTTCTTTCTGT
10290688 TTCATTTTTCTTT-TGT
1 TTC-TTTTTCTTTCTGT
10290704 TTCTTTT
1 TTCTTTT
10290711 ACATTTGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 10 0.45
18 2 0.09
ACGTcount: A:0.03, C:0.17, G:0.05, T:0.75
Consensus pattern (16 bp):
TTCTTTTTCTTTCTGT
Found at i:10291170 original size:370 final size:370
Alignment explanation
Indices: 10290219--10295487 Score: 5056
Period size: 371 Copynumber: 14.0 Consensus size: 370
10290209 TACCTCCTAA
* * * *
10290219 AATTTACCCAAATTTTTTACGTTCCTCTCTTTCCACTACTTCCATTTCTGTTTCCCATTTTTTGT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTCTGT
* * *
10290284 TCCTCTGACGTTA----TT-TTCTTCTTTCTTTCTGTTTC-GTTTTCTTTTGTTTCTTTTACATT
66 TCCTCTAACGTTATTTTTTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTCGTTTCTTTTACATT
* * *
10290343 TGTTGCCATATTCCCTTGTTATCGTCTCTTGCTACTGTTTCTTCATTGCCGACCTATCTTCTATT
131 TGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTATT
* * * *
10290408 GTGGCGACATTTAGACTACGTTGGTGTTATTAAAATCTTCTGGTAAGTATAATTCGTTAGTTTTC
196 GTGCCGCCATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTAG-TTTC
* * *
10290473 TTTTAGGGTGGTTGTCTTGATATCGTTGAAAGGTCTTTTGGTTTCATTAGTTGTGATTTTGCTAG
260 TTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTTGTTA-
* * * * * *
10290538 GGGTGGTTCATGAGGCATTTACTCTTCTAGTGAGTAAAGATTTTAGC
324 GGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * * * * * * *
10290585 AATTTTCCCGAATTTTTTATATTTCTCTCTTTCCATTGCTTCCATTTCTTTCTCCCATTTTATGT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTCTGT
* * * *
10290650 TCGTCTAACGTTCTCTTCTTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTTGTTTCTTTTACAT
66 TCCTCTAACGTTAT-TTTTTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTCGTTTCTTTTACAT
* * *
10290715 TTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGTCGATCAATCTTCTAT
130 TTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTAT
* * * * * *
10290780 TGTGCCACCATTTTGACTGTGTTGGTGTTATTAAAATCATCAAGTAAGTATAATTTGTTAGTTTC
195 TGTGCCGCCATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTAGTTTC
* * * ** **
10290845 GTTTTAGGATGGTTATCTTGATATCTTTGGAAGGCCTTTTACTTTCATTAGTACTGATTTT-TTA
260 -TTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTTGTTA
* * *
10290909 GGGTGGTTCGTGAGGTGTTTACTCTTCTGGCGAATGAGGATTTTAGG
324 GGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * * *
10290956 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACAACTTCTATTTCTTTTTCCCCTTTTATGT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTCTGT
* * * * *
10291021 TCCTCTAATGTTATTTTTTCTTCTTCTTCCTTTTTGTCTCATTTTTCCTTCGTTTCTTTTACATT
66 TCCTCTAACGTTATTTTTTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTCGTTTCTTTTACATT
* ** ** *
10291086 TGTTGCTATATTCCTTTGTTGTCGTCTCTCACTATTGTTTCTTTATTGCCGACCTATCTTCTATT
131 TGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTATT
* *
10291151 GTGCCGCCATTTAGACTGTGTTGGTGTTCTTAAAATCATT-AGGTAAGTATAATTCGTTAGTTTC
196 GTGCCGCCATTTAGACTGCGTTGGTGTTATTAAAATC-TTCAGGTAAGTATAATTCGTTAGTTTC
* * * *
10291215 GTTTTAGGATGGTTGTCTTGATATCATTGGAAGGTCTTTTGCTTTCATTAGTTGTGATTTTGCTA
260 -TTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTTGTTA
* * * * * *
10291280 GGGAGGTTCATAAGGCGTTTAATCTTTTGGCGAATGAGGATTTTAGC
324 GGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * * * * * *
10291327 AATTTCTCCAAATTTTTTATTTTCTTCTCTTTCCACTACTTCAATTTCTTTTTCTCATTCTCGGT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTCTGT
* * *
10291392 TCCTCTAATGTTATTTTTTCTTCTTCTTTC-TTCTAGTTTC-GTTTTCTTTTGTTTCTTTTACAT
66 TCCTCTAACGTTATTTTTTCTTCTTCTTTCTTTCT-GTTTCATTTTTCTTTCGTTTCTTTTACAT
* * * * * * * * *
10291455 TTGTTTCCATATTCTCCTATTGACGTCTCTTACTATTGTCTCTTCATTACCGACCTATATTCTGT
130 TTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTAT
** ** *
10291520 TGTGTTGCCATTTAGACTGCGTCAGTGTTATTAAAATCTTCAGGTAAGTATAATTAGTTAGTTTC
195 TGTGCCGCCATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTAGTTTC
* *
10291585 ATTTTAGAGTAGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAG-TGTTGATTTTGCT
260 -TTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTG-TGATTTTG-T
* * * *
10291649 AAGGGTGGTTCGTGAGGCGTTTAATTTTCTGGCAAGTGAGGATTTTAGC
322 TAGGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * * *
10291698 AATTTTCGCAAATTTTTTATGTTCTTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTCTTT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTCTGT
** *
10291763 TCCTCTAACGTTATTTTCTTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTTATTTCTTTTAAAT
66 TCCTCTAACGTTATTTT-TTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTCGTTTCTTTTACAT
* ** * *
10291828 TTGTTGTCATATTCCTTTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACTTATCTTCTTT
130 TTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTAT
* * *
10291893 TGTGCCACCATTTAGACTGCGTTGGTGTTATTATTAAAATTTTCAGGTAAGTATAATTCATTAGT
195 TGTGCCGCCATTTAGACTGCGTTGGTG---TTATTAAAATCTTCAGGTAAGTATAATTCGTTAGT
* * * * * *
10291958 TTCGTTTTAGGGTGGTTGTTTTTAAATCTTTGGAAGGTATTTTGCTTTCTTTAGTTGTGATTTTG
257 TTC-TTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTTG
* * * * *
10292023 CTAGGGGTGGTTCATGAGGCTTTTACTCTT-TGGCGAGTGAGTATTTCAGC
321 TTA-GGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * * *
10292073 AATTTCCCCAAATCTTTTACGTTCCTCTGTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTCTGT
* * * * *
10292138 TCCTCTGAC-TT-TATTTTCTTCTTCTTTATTTATG-TT-ATGTTTTCTTTTGTTTCTTTTACAT
66 TCCTCTAACGTTATTTTTTCTTCTTCTTTCTTTCTGTTTCAT-TTTTCTTTCGTTTCTTTTACAT
* * * *
10292199 TTGTTGCCATATTCCCCTATTGTCGTCTCTTGCTACTGTTTCTTTATTGCCGACCTATCTTCTGT
130 TTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTAT
* * *
10292264 TGTGCCACCATTTAGACTGTGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTACTTTT
195 TGTGCCGCCATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTA-GTTT
* *
10292329 CTTTTATGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAG-TGTTGATTTTGCT
259 CTTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTG-TGATTTTGTT
* * * *
10292393 AGGGGTGGTTCGTGAGGCGTTTACTTTTCTAGTGAGTTAGGATTTTAGC
323 A-GGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * * *
10292442 AATTTTCCCAAATTTTTTATGTTCCTCTCTTTCCACTAATTCCATTTCTTTTTCCCAGTTTCGGT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTCTGT
*
10292507 TCCTCTAACGTTATTTTCTTCTTCTTCTTTTTTTCTGTTT--TGTTTTCTTTCGTTTCTTTTACA
66 TCCTCTAACGTTATTTT-TTCTTCTTCTTTCTTTCTGTTTCAT-TTTTCTTTCGTTTCTTTTACA
* * * * *
10292570 TTTGTTGCCATATTCTCCTGTTGTCGTTTCTTGCTACTGTTTCTTCGTTGCCGACCTATCTTCTG
129 TTTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTA
* * * * *
10292635 TTGTGCTGCTATTTAGACTGCATTGGTGTTATTAAAATCTTCTGGTAAGTATAATTCGCTAGTTT
194 TTGTGCCGCCATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTAG-TT
* * * **
10292700 TCTTTTAGGGTGGTTGTCTTGATATCTTCTATTGTG-CGGCCATTTAGACTGTGTT-GGT-GTTC
258 TCTTTTAGGGTGGTTGTCTTGATA---TCT-TTG-GAAGGTC-TTTTG---GT-TTCATTAGTT-
* * ** * * * * ** * * **
10292762 TTAAAATTATTA-GGTAAG-T-ATAATTCGTTAGTACTCTTTTAGG-GTGGTTGTCTTAATATCT
312 GTGATTTTGTTAGGGT-GGTTCGTGAGGCGTT--TACTCTTCT-GGCG-AG-TG----AGGAT-T
10292823 TTGAAAGGTC
366 TT---A-G-C
* * * * * * * * * ** * * ** **
10292833 -TTTTCCTTTCATTAGTTGTAATTTTGCTAGGGGTGGTTCGTGAGGTGTTTACTC-TTCTAGCGA
1 AATTTCC--CCA-AATTTTTTATGTTCCT----CTCTTTC--CA-CTACTT-C-CATT-T--CTT
* **** * * * **
10292896 GTGAGGATTTTAGCAAT-TTCC-CCAA-ATTTTTTATGTTCTTC-TCTTTCCACTACTTCCATTT
51 TTTCCCATTTT--C--TGTTCCTCTAACGTTATTT-T-TTCTTCTTCTTT---CT--TTCTGTTT
* * * * * * * * * * ** * *
10292957 C-TTTTTACCATTTTATGTTCCTCTAACGTTATCTT-CTTCTTCTTCTTCCTTTCTGTTTTATTT
105 CATTTTT--C--TTT-CGTTTCTTTTACATT-TGTTGC--CATATTC-CCCTGT-TGTCGTCTCT
* * *
10293020 TTCT-TTCGTTTCTTTTACATTTTTTGCCATATTCCCCTATTGTCGTCTCTTACTATTGTTG-CT
160 TGCTATT-GTTTC--TT-CA----TTGCC-GA----CCTA--------TCTT-CTATTG-TGCCG
* ** * * * *** * * ** ** *
10293083 TCATTGCCGACCTGCCTT-TTGTTCTGTTGCCAT-TT-AGACTACGT-TGGTGTTATTAAAATAT
202 CCATT-TAGA-CTGCGTTGGTG-T-TATTAAAATCTTCAG-GTAAGTATAAT-TCGTT--AGT-T
* * *
10293144 TCATTTTAAGGTGGTTATCTTAATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTT-T
258 TC-TTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTTGT
* * *
10293208 CTAGGTTGGTTCGTGAGGCGTTTACTCTTCTAGCGAGTAAGGATTTTAG-
322 -TAGGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * * *
10293257 AATTTCCCCAAAATTTTTATGTTCCTCTCTTTCCACTACTTTCATTTCCTTTTCCCATTTTTTGT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTCTGT
*
10293322 TCCTCTAACGTTATTTTTT-TTCTTCTTTCTTTCTGTTTTA-TTTTC-TTCTGTTT-TTTTACAT
66 TCCTCTAACGTTATTTTTTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTC-GTTTCTTTTACAT
* * * * * *
10293383 TTGTTGCCATATTCCCCTATTATCGTCTCTTGCTACTGTTTCTTCGTTACCGACCTATTTTCTAT
130 TTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTAT
* * *
10293448 TGTGCCGCCATGTAGACTGGGTTGGTGCTATTAAAATCTTCAGGTAAGTATAATTCGTTAGTTTT
195 TGTGCCGCCATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTAG-TTT
*
10293513 CTTTTAGGGTGGTTGTCTTGATATCTTTGGGAGGTCTTTTGGTTTCATTAGTTGTGATTTTGTTA
259 CTTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTTGTTA
* * *
10293578 GGGGTGGTTCGTAAGGCATTTACTCTTCTGGCGAGTGAGGATTTTTGC
324 -GGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * ** * * * * * * *
10293626 AATTTTCCTATTTTTTTTATATTTCTCTCTTTCTACTACTTTCATTT-TGTTTTCTCATTTTTTC
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCT-TTTTCCCATTTTCTG
* * *
10293690 TTCCTCTAACGTCATTTTTTCTTCTT-TTTCCTTTCTGTTTCATTTTTCCTTCGTTTCTATTACA
65 TTCCTCTAACGTTATTTTTTCTTCTTCTTT-CTTTCTGTTTCATTTTTCTTTCGTTTCTTTTACA
* *** *
10293754 TTTGTTGCTATATTCTTTTGTTGTTGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTA
129 TTTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTA
* * *
10293819 TTGTGCCGCCATTTAGACTGTGTTGGTGTTCTTAAAATCATT-AGGTAAGTATAATTAGTTAGTT
194 TTGTGCCGCCATTTAGACTGCGTTGGTGTTATTAAAATC-TTCAGGTAAGTATAATTCGTTAG-T
*
10293883 TTCTTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTTGC
257 TTCTTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTTGT
* * *
10293948 TAGGGGTGGTTCGTGAGACGTTTACTCTTCTAGCGAGTGAGGATTTTAGT
322 TA-GGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* *
10293998 AATTTTCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCAATTTT-TAG
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTCT-G
* * * *
10294062 TTCCTCTAACGTTATTTTTTTTCTTCTTCTTCCATTCTGTTTTATATTTCTTTCGTTTCTTTTAC
65 TTCCTCTAACGTTA--TTTTTTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTCGTTTCTTTTAC
* * * * * *
10294127 ATTTATTTCCATATTCCCCTGTTATCGTCTCTTGCTATTGTTTCTTCATTGTCAACTTATCTTCT
128 ATTTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCT
* * * * *
10294192 ACTT-TGCCACCATTTAGACTGCATTGGTGTTCTTAAAATCATT-AGGTAAGTATAATTCATTAA
193 A-TTGTGCCGCCATTTAGACTGCGTTGGTGTTATTAAAATC-TTCAGGTAAGTATAATTCGTTAG
* * ** *
10294255 TTTCGTTTTAGAGTGGTTGACTTGATATCTTTAAAAGGTCTTTTGCTTTCATTAGTTGTGATTTT
256 TTTC-TTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTT
* * * *
10294320 GCTAGAGTGGTTCGTGAGGCGTTTAGTCTTCTAGCGAGTGAGGATTTTAGC
320 GTTAGGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* *
10294371 AATTTCCCCAAATTTTTTATGTTCTTCTCTTTCCACTACTTCCATTTCTTTTTCCTATTTT-T-T
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTCTGT
* * * * * *
10294434 TCCTCTGATGTTATTTTTTTCTTCTTTTTTTCTTTTTGCTTT--GTTTTCTTTTGTTTCTTTTAC
66 TCCTCTAACGTTA-TTTTTTCTTC-TTCTTTCTTTCTG-TTTCATTTTTCTTTCGTTTCTTTTAC
* * * * *
10294497 ATTTGTTGTCATATTCCCCTGTTGACGCCTCTTGCTACTGTTTCTTCATTGCCGACCTATATTCT
128 ATTTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCT
* * * * * * * *
10294562 GTTGTGCTGCCATTTTGACTGCATCGGTGTTTTTAAAATCTTCAAGTATGTATAATTCGTTAGTT
193 ATTGTGCCGCCATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTAGTT
* * *
10294627 TCATTTTAGGGTGGTTGTTTTGCTATCTTTGGAAGGACTTTTGGTTTCATTAG-TGTTGATTTT-
258 TC-TTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTG-TGATTTTG
* * * *
10294690 TCTAGGGGTGGTTCGTAAGGCGTTTACTTTTCTAGCGAGTGAGGGTTTTAGC
321 T-TA-GGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * *
10294742 AATTT-CCCAAATTTTTTATGTTCCTCTTTTTCCACTACTTCCATTTCTTTTTCCAACTTTCTGT
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTCTGT
* * * * *
10294806 TCCTCTAACTTTATTTTCTTTTTCTTCTTT-TTTTTATTTCATTTTGCTTTCGTTTCTTTTACAT
66 TCCTCTAACGTTATTTT-TTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTCGTTTCTTTTACAT
* * * ** * *
10294870 TTGTTGCCATATTCCCCTGTTTTCGTCTCTTGATATTGCTTCTTCATTATCGATCTATCTTCTGT
130 TTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTAT
*
10294935 TGTGCCGCCATTTAGACTGCGTTGGTGTTATTAAAATATTCAGGTAAGTATAATTCGTTAGTTTC
195 TGTGCCGCCATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTAGTTTC
* ** * *
10295000 ATTTTAGGGTGGTTGTCTTGGTATCTTTGGAAGGTCTTTTGGTTTTGTTAGTTATGATTTTGCTA
260 -TTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTTG-TT
* * * * *
10295065 AAGGTGGTTCGTAAGGTGTTTACTCTTCTGGAGAGTGATGATTTTAGC
323 AGGGTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * *
10295113 AATTTCCCC-AATTTTTTATGTTCTTCTCTTTCCACTACTTCCATCTCTTTTGTCCTATTTTCTG
1 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTT-TCCCATTTTCTG
* * * *
10295177 TTCCTCTGACGTTATTTTTTTCTTCTTCTTTATTTCTGTTTCATTATTCTTTTGTTTCTTTTACA
65 TTCCTCTAACGTTA-TTTTTTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTCGTTTCTTTTACA
** * ** *
10295242 TTTGTTATCATTTTCCCCTGTTGTTATCTCTTGCTATTGTTTCTTCATTGCCAACCTATCTTCTA
129 TTTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTA
** * * * *
10295307 TTGTGCCATCATTTAAACTGCATTGGTGTTATTAAAATCCTC----AAGTATAATTTGTTAGTTT
194 TTGTGCCGCCATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTAGTTT
* *
10295368 CATTTTAGGGTGGTTGTTTTGATATCTTTGGAAGGTCTTTTTGTTTCATTAGTTGTGATTTTGCT
259 C-TTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTTG-T
* * *
10295433 AAGGGTGGTTCGTGAGAG-GTTTTCTCTTCTGGTGAGTGAGGATTTCT-GC
322 TAGGGTGGTTCGTGAG-GCGTTTACTCTTCTGGCGAGTGAGGATTT-TAGC
10295482 AATTTC
1 AATTTC
10295488 TTTTCTCTTC
Statistics
Matches: 4027, Mismatches: 686, Indels: 377
0.79 0.13 0.07
Matches are distributed among these distances:
366 65 0.02
367 60 0.01
368 154 0.04
369 300 0.07
370 672 0.17
371 824 0.20
372 595 0.15
373 519 0.13
374 209 0.05
375 90 0.02
376 113 0.03
377 13 0.00
378 4 0.00
379 10 0.00
380 12 0.00
381 7 0.00
385 4 0.00
386 7 0.00
389 1 0.00
390 6 0.00
391 3 0.00
392 2 0.00
393 23 0.01
394 5 0.00
395 5 0.00
396 3 0.00
397 11 0.00
398 5 0.00
399 1 0.00
400 3 0.00
401 4 0.00
402 2 0.00
403 10 0.00
404 6 0.00
405 12 0.00
406 11 0.00
407 8 0.00
408 12 0.00
409 4 0.00
410 15 0.00
411 8 0.00
412 1 0.00
413 2 0.00
414 5 0.00
415 14 0.00
416 4 0.00
417 5 0.00
418 10 0.00
419 14 0.00
421 2 0.00
422 11 0.00
423 2 0.00
425 5 0.00
426 6 0.00
427 2 0.00
430 3 0.00
431 7 0.00
435 1 0.00
436 5 0.00
437 19 0.00
438 6 0.00
439 10 0.00
440 13 0.00
441 15 0.00
442 18 0.00
443 6 0.00
444 4 0.00
445 19 0.00
ACGTcount: A:0.16, C:0.18, G:0.16, T:0.50
Consensus pattern (370 bp):
AATTTCCCCAAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTCTGT
TCCTCTAACGTTATTTTTTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTCGTTTCTTTTACATT
TGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTATT
GTGCCGCCATTTAGACTGCGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTAGTTTCT
TTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTTTGTTAGG
GTGGTTCGTGAGGCGTTTACTCTTCTGGCGAGTGAGGATTTTAGC
Found at i:10292361 original size:744 final size:738
Alignment explanation
Indices: 10288336--10295486 Score: 6253
Period size: 744 Copynumber: 9.5 Consensus size: 738
10288326 TACCTCCTAA
* * * * * *
10288336 AATTTCCCCAAATTTTTTACGTTCCTCTCTTTCCATTACTTTCATTTCTTTTTTCCATTTTCTGT
1 AATTTCCCCAAATTTTTTATGTTCTTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
* * * * * **
10288401 TCATTTGACGTTATT-TTTTCTTCTTCTTTCTTTCTGTTTCGTTTTTCTTTCATTTCTTTTACAT
66 TCCTCTAAC--TATTATTTTCTTCTTCTTTCTTTATGTTT-ATTTTTCTTTTGTTTCTTTTACAT
* * * * *
10288465 TTATTGTCATATTCCCTTGTTGTCGTCTCTTGCTATTGTTTATTCATTGCCGACTTATCTTCTAT
128 TTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTAT
** * *
10288530 TGTGCCACCATTTAGACTGCATTGGTGTAATTAATAAACTCTTTC-GGTAAGTATAATTCGTTAG
193 TGTGCCACCATTTAGACTGTGTTGGTGTTATT-A-AAA-TC-TTCAGGTAAGTATAATTTGTTAG
* * * * * * * *
10288594 CTTCGTTCTAGGCTGGTTGTTTTTAAATCTTTGGAAGGTATTTT-G--------GTTTGATTTTG
254 TTTCATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTTGATTTTG
* * * * * *
10288650 CTAGGGGTGGTTCATGAGGTGTTTACTCTTCT-GACGAGTGAGTATTTCAGTAATTTTCCCAAAT
319 CTAAGGGTGGTTCGTGAGGCGTTTACTCTTCTAG-CGAGTGAGGATTTTAGCAATTTTCCCAAAT
* * * *
10288714 TTTTTACGTTCCTCTCTTTCCACTACTTCCATTACGTTTTCCCATTTTTTGTTCCTCTGACGTTA
383 TTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCA-TTTTTGTTCCTCTAACGTTA
* *
10288779 TTTTCTTCTTCTTCTTTCTTTTTGTTTCA-TTTTCTTTTGTTTCTTTTACATTTGTTGCCATATT
447 TTTT-TTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTCGTTTCTTTTACATTTGTTGCCATATT
* * * * * * * * *
10288843 CCCCTATTGTCGTCTCTTGCTACTATTACTTCATTGCCTACCCATCTTCTATTGTACCGACATTT
511 CCCCTGTTATCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTATTGTGCCGCCATTT
* * * *
10288908 AGACTACGTTGGTGTTCTTAAAATCTTCAGGTAAGAATAATTCGTTAGTTTCATTTTAGGGTGGT
576 AGACTGCGTTGGTGTTATTAAAATATTCAGGTAAGTATAATTCGTTAGTTTC-TTTTAGGGTGGT
* * * * * *
10288973 TGTCATGATATCATTGGAAGGTCTTTTGATTTCATTAGTTGTGATTTTGCTAAGGCTGGTTCGTG
640 TGTCTTGATATCTTTGGAAGGTCTTTTGCTTTCATTAGTTGTGATTTTGCT-AGGGTGGTTCATA
* * *
10289038 AGGCATTTACTCTTCTGGTGAGTGAAGATTTTAGC
704 AGGCTTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * *
10289073 AATTTCCCCAAATTTTTTATATTCCTCTATTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
1 AATTTCCCCAAATTTTTTATGTTCTTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
* * * * *
10289138 TCCTTTAA-TGTTATTTTCTTCTTCTTCTTTCTTTCTGTCTCATTTTTCTTTCGTTTCTTTT--A
66 TCCTCTAACTATTA--TT-TTCTTCTTCTTTCTTTATGT-TTATTTTTCTTTTGTTTCTTTTACA
* * * *
10289200 --------C-T-TT----TG-TGT--TCTCTTGCTATTATTTCTTCATTACCAACCTATCTTCTG
127 TTTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTA
** ** *
10289248 TTGTGCCACCATTTAGACTACGCCGGTGTTATTAAAATCTTCAAGTAAGTATAATTTGTTAGTTT
192 TTGTGCCACCATTTAGACTGTGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTTGTTAGTTT
* * * *
10289313 CATTTTAGGGTGGTTGTCTTGATATCTTTAGAAGGTCTTTTGGTTTTATTAATTGTGATTTTACT
257 CATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTT-TGATTTTGCT
* * * * *
10289378 -AGAGGTGGTTTGTGAGGCATTTACTCTTTTGGCGAGTGAGGATTTTAGCAATTTCCCCAAATTT
321 AAG-GGTGGTTCGTGAGGCGTTTACTCTTCTAGCGAGTGAGGATTTTAGCAATTTTCCCAAATTT
***
10289442 TTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTCTGTTCCTCTGTTGTTATT
385 TTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTT-TGTTCCTCTAACGTTATT
**
10289507 TTCTTCTTCTTCTTTCTTTCTGTTTCA-TTTTCTTTTATTTCTTTTACATTTGTTGCCATATTCC
449 TT-TTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTCGTTTCTTTTACATTTGTTGCCATATTCC
* * * * * * * *
10289571 CCTCTTCTCGTCTCTTGCTATCG-TCCTTTCATTGCCAACCTATTTTCTGTTATGCCGCCATTTA
513 CCTGTTATCGTCTCTTGCTATTGTTTC-TTCATTGCCGACCTATCTTCTATTGTGCCGCCATTTA
* * * * **
10289635 GACTACGTCGGTGTTATTAAAATCTTCAGGTAAATATAATTTATTAGTTTCATTTTAGGGTGGTT
577 GACTGCGTTGGTGTTATTAAAATATTCAGGTAAGTATAATTCGTTAGTTTC-TTTTAGGGTGGTT
* * * * * *
10289700 TTCTTGATATCTTTGGAAGGCCTTTTGGTTTTATTAGTTGTGATTTTGCTAGAGGTGGTTCGTGA
641 GTCTTGATATCTTTGGAAGGTCTTTTGCTTTCATTAGTTGTGATTTTGCTAG-GGTGGTTCATAA
* ** *
10289765 GGCATTTACTCTTCTAACGAGTGAAGATTTTAGC
705 GGCTTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* *
10289799 AATTTCCCCAAATTTTTTATGTTCCTCTCTTTTCACTACTTCCATTTCTTTTTCCCATTTTTTGT
1 AATTTCCCCAAATTTTTTATGTTCTTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
* * * *
10289864 TCCTCTAACGTTATTTTTTTCTTTTTCTTTCTTTCTGTTTCATTTTTCTTTCGTTTCTTTTACAT
66 TCCTCTAAC--TATTATTTTCTTCTTCTTTCTTTATGTTT-ATTTTTCTTTTGTTTCTTTTACAT
* * * * * * *
10289929 TTGTTGTCATATTCACCTGTTTTCGTCTCTTACTATTGTTTCTTTATTGTCGAGCTATCTTCTAT
128 TTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTAT
*** * * * * *
10289994 TGTGCTGTCATTTAGACTGCGTCGGTGTTATCAAAATCTTCAGGTAAGTATAATTCGTTAGTTTT
193 TGTGCCACCATTTAGACTGTGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTTGTTAGTTTC
* * * * ***
10290059 GTTTTATGGTGGTTGTCTTGATATCTTTGAAAGGTCTTTTGGTTTCATTAG-TTG-TTACTAAAA
258 ATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTTGATT-TTGCTA
* ** * * ** * * * * * *
10290122 ATGGAATTATTTTTGCTAAATCCTCATGTGTCACCCATCTAGTGGTATTTGGGTTGGATTTGAAC
322 A-GG--GT-GGTTCG-T-GA--GGC--GT-TTACTCTTCTAG-CG-A-----G-T-GA---GGAT
* * * *** ** ** *
10290187 TTTAGAAAATTATCCAAAAAAATACCTCCTAAAAT-TTACC-CAAATTT--TTTACGTTCC-TCT
364 TTTAG-CAATTTTCC---CAAAT---T--TTTTATGTT-CCTC-TCTTTCCACTAC-TTCCATTT
* * *
10290247 CTTTCCACTACTTCCATTTCTGTTTCC-C--A--TT-TTTTGTTCCTCTGACGTTATTTTCTTCT
417 CTTT----T--TCCCATTTTTG-TTCCTCTAACGTTATTTT-TT-CT-T--C-TT-CTTTCTT-T
* * * * *
10290306 TTCTTTCTGTTTCGTTTTCTTTTGTTTCTTTTACATTTGTTGCCATATTCCCTTGTTATCGTCTC
467 CTGTTTC---AT--TTTTCTTTCGTTTCTTTTACATTTGTTGCCATATTCCCCTGTTATCGTCTC
* * * *
10290371 TTGCTACTGTTTCTTCATTGCCGACCTATCTTCTATTGTGGCGACATTTAGACTACGTTGGTGTT
527 TTGCTATTGTTTCTTCATTGCCGACCTATCTTCTATTGTGCCGCCATTTAGACTGCGTTGGTGTT
* * *
10290436 ATTAAAATCTTCTGGTAAGTATAATTCGTTAGTTTTCTTTTAGGGTGGTTGTCTTGATATCGTTG
592 ATTAAAATATTCAGGTAAGTATAATTCGTTAG-TTTCTTTTAGGGTGGTTGTCTTGATATCTTTG
* * * *
10290501 AAAGGTCTTTTGGTTTCATTAGTTGTGATTTTGCTAGGGGTGGTTCATGAGGCATTTACTCTTCT
656 GAAGGTCTTTTGCTTTCATTAGTTGTGATTTTGCTA-GGGTGGTTCATAAGGCTTTTACTCTTCT
* * * *
10290566 AGTGAGTAAAGATTTTAGC
720 GGCGAGTGAGGATTTTAGC
* * * * * * *
10290585 AATTTTCCCGAATTTTTTATATT-TCTCTCTTTCCATTGCTTCCATTTCTTTCTCCCATTTTATG
1 AATTTCCCCAAATTTTTTATGTTCT-TCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTG
* * *
10290649 TTCGTCTAACGT-TCTCTTCTTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTTGTTTCTTTTAC
65 TTCCTCTAAC-TAT-TATT-TTCTTCTTCTTTCTTTATGTTT-ATTTTTCTTTTGTTTCTTTTAC
* * *
10290713 ATTTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGTCGATCAATCTTCT
126 ATTTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCT
* * *
10290778 ATTGTGCCACCATTTTGACTGTGTTGGTGTTATTAAAATCATCAAGTAAGTATAATTTGTTAGTT
191 ATTGTGCCACCATTTAGACTGTGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTTGTTAGTT
* * * * ** *
10290843 TCGTTTTAGGATGGTTATCTTGATATCTTTGGAAGGCCTTTTACTTTCATTAGTACTGATTTT--
256 TCATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGT-TTGATTTTGC
* * * * * *
10290906 TTAGGGTGGTTCGTGAGGTGTTTACTCTTCTGGCGAATGAGGATTTTAGGAATTTCCCCAAATTT
320 TAAGGGTGGTTCGTGAGGCGTTTACTCTTCTAGCGAGTGAGGATTTTAGCAATTTTCCCAAATTT
* * * *
10290971 TTTATGTTCCTCTCTTTCCACAACTTCTATTTCTTTTTCCCCTTTTATGTTCCTCTAATGTTATT
385 TTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTT-TGTTCCTCTAACGTTATT
* * * * * *
10291036 TTTTCTTCTTCTTCCTTTTTGTCTCATTTTTCCTTCGTTTCTTTTACATTTGTTGCTATATTCCT
449 TTTTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTCGTTTCTTTTACATTTGTTGCCATATTCCC
* * ** *
10291101 TTGTTGTCGTCTCTCACTATTGTTTCTTTATTGCCGACCTATCTTCTATTGTGCCGCCATTTAGA
514 CTGTTATCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTATTGTGCCGCCATTTAGA
* * *
10291166 CTGTGTTGGTGTTCTTAAAATCATT-AGGTAAGTATAATTCGTTAGTTTCGTTTTAGGATGGTTG
579 CTGCGTTGGTGTTATTAAAAT-ATTCAGGTAAGTATAATTCGTTAGTTTC-TTTTAGGGTGGTTG
* *
10291230 TCTTGATATCATTGGAAGGTCTTTTGCTTTCATTAGTTGTGATTTTGCTAGGGAGGTTCATAAGG
642 TCTTGATATCTTTGGAAGGTCTTTTGCTTTCATTAGTTGTGATTTTGCTAGGGTGGTTCATAAGG
* * * *
10291295 CGTTTAATCTTTTGGCGAATGAGGATTTTAGC
707 CTTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * * * * **
10291327 AATTTCTCCAAATTTTTTATTTTCTTCTCTTTCCACTACTTCAATTTCTTTTTCTCATTCTCGGT
1 AATTTCCCCAAATTTTTTATGTTCTTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
* **
10291392 TCCTCTAA-TGTTATTTTTTCTTCTTCTTTCTTCTA-GTTTCGTTTTCTTTTGTTTCTTTTACAT
66 TCCTCTAACTATTA--TTTTCTTCTTCTTTCTT-TATGTTTATTTTTCTTTTGTTTCTTTTACAT
* * * * * * * * *
10291455 TTGTTTCCATATTCTCCTATTGACGTCTCTTACTATTGTCTCTTCATTACCGACCTATATTCTGT
128 TTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTAT
*** * ** *
10291520 TGTGTTGCCATTTAGACTGCGTCAGTGTTATTAAAATCTTCAGGTAAGTATAATTAGTTAGTTTC
193 TGTGCCACCATTTAGACTGTGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTTGTTAGTTTC
* *
10291585 ATTTTAGAGTAGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTGTTGATTTTGCTA
258 ATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGT-TTGATTTTGCTA
* * * * *
10291650 AGGGTGGTTCGTGAGGCGTTTAATTTTCTGGCAAGTGAGGATTTTAGCAATTTTCGCAAATTTTT
322 AGGGTGGTTCGTGAGGCGTTTACTCTTCTAGCGAGTGAGGATTTTAGCAATTTTCCCAAATTTTT
* *
10291715 TATGTTCTTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTCTTTTCCTCTAACGTTATTTT
387 TATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTT-TGTTCCTCTAACGTTATTTT
** * * **
10291780 CTTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTTATTTCTTTTAAATTTGTTGTCATATTCCTT
451 -TTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTCGTTTCTTTTACATTTGTTGCCATATTCCCC
* * * *
10291845 TGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACTTATCTTCTTTTGTGCCACCATTTAGAC
515 TGTTATCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTATTGTGCCGCCATTTAGAC
* *
10291910 TGCGTTGGTGTTATTATTAAAATTTTCAGGTAAGTATAATTCATTAGTTTCGTTTTAGGGTGGTT
580 TGCGTTGGTG---TTATTAAAATATTCAGGTAAGTATAATTCGTTAGTTTC-TTTTAGGGTGGTT
* * * * * *
10291975 GTTTTTAAATCTTTGGAAGGTATTTTGCTTTCTTTAGTTGTGATTTTGCTAGGGGTGGTTCATGA
641 GTCTTGATATCTTTGGAAGGTCTTTTGCTTTCATTAGTTGTGATTTTGCTA-GGGTGGTTCATAA
* *
10292040 GGCTTTTACTCTT-TGGCGAGTGAGTATTTCAGC
705 GGCTTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * * *
10292073 AATTTCCCCAAATCTTTTACGTTCCTCTGTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
1 AATTTCCCCAAATTTTTTATGTTCTTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
* *
10292138 TCCTCTGACT-TTATTTTCTTCTTCTTTATTTATG-TTATGTTTTCTTTTGTTTCTTTTACATTT
66 TCCTCTAACTATTATTTTCTTCTTCTTTCTTTATGTTTAT-TTTTCTTTTGTTTCTTTTACATTT
* * * *
10292201 GTTGCCATATTCCCCTATTGTCGTCTCTTGCTACTGTTTCTTTATTGCCGACCTATCTTCTGTTG
130 GTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTATTG
* *
10292266 TGCCACCATTTAGACTGTGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTCGTTACTTTTC-
195 TGCCACCATTTAGACTGTGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTTGTTA-GTTTCA
* *
10292330 TTTTATGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTGTTGATTTTGCTAG
259 TTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGT-TTGATTTTGCTAA
* * *
10292395 GGGTGGTTCGTGAGGCGTTTACTTTTCTAGTGAGTTAGGATTTTAGCAATTTTCCCAAATTTTTT
323 GGGTGGTTCGTGAGGCGTTTACTCTTCTAGCGAGTGAGGATTTTAGCAATTTTCCCAAATTTTTT
* **
10292460 ATGTTCCTCTCTTTCCACTAATTCCATTTCTTTTTCCCAGTTTCGGTTCCTCTAACGTTATTTTC
388 ATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCA-TTTTTGTTCCTCTAACGTTATTTT-
* *
10292525 TTCTTCTTCTTTTTTTCTGTTT--TGTTTTCTTTCGTTTCTTTTACATTTGTTGCCATATTCTCC
451 TTCTTCTTCTTTCTTTCTGTTTCAT-TTTTCTTTCGTTTCTTTTACATTTGTTGCCATATTCCCC
* * * * * * *
10292588 TGTTGTCGTTTCTTGCTACTGTTTCTTCGTTGCCGACCTATCTTCTGTTGTGCTGCTATTTAGAC
515 TGTTATCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTATTGTGCCGCCATTTAGAC
* * * *
10292653 TGCATTGGTGTTATTAAAATCTTCTGGTAAGTATAATTCGCTAGTTTTCTTTTAGGGTGGTTGTC
580 TGCGTTGGTGTTATTAAAATATTCAGGTAAGTATAATTCGTTAG-TTTCTTTTAGGGTGGTTGTC
* * * * * * ** ** *
10292718 TTGATATCTTCTATTGTG-CGGCCATTTAGACTGT-GTT-GGTGTTCTTAAAATTATTA-GGTAA
644 TTGATA---TCT-TTG-GAAGGTC-TTTTG-CTTTCATTAGTTGTGATT----TTGCTAGGGT-G
** * * * ** *
10292779 G-T-ATAATTCGTTAGTACTCTTTTAGG-GTGGTTGTCTTAATATCTTT-GA
697 GTTCATAAGGC-TT-TTACTCTTCT-GGCG-AG-TG----AGGAT-TTTAGC
** * * ** * * ** *
10292827 AAGGTCTTTTCC---TTTCATTA-GTTGTAAT-TTTGCTAGGGGTGGTTCGTGAGGTGTTTACTC
1 AA--T-TTCCCCAAATTT-TTTATGTTCTTCTCTTT-CCA---CTACTTC--CA----TTT-CT-
** * * * * * * *
10292887 TTCTAGCGAGTGAGGATTTTAGCAATTTCCCCAAATTTTTTATGTTCTTC-TCTTTCCACTACTT
50 TT-TTCCCA-T-----TTTTTG----TTCCTCTAA-CTATTATTTTCTTCTTCTTT---CT--TT
*** * * * * * * * * * * **
10292951 CCATTTCTTTTTACCATTTTATGTTCCTCTAACGTTATCTT-CTTCTTCTTCTTCCTTTCTGTTT
98 ATGTTTATTTTT--C--TTT-TGTTTCTTTTACATT-TGTTGC--CATATTC-CCCTGT-TGTCG
* * * *
10293015 TATTTTTCT-TTCGTTTCTTTTACATTTTTTGCCATATTCCCCTATTGTCGTCTCTTACTATTGT
153 TCTCTTGCTATT-GTTTC--TT-CA----TTGCC-GA----CCTA--------TCTT-CTATTG-
** ** * * *** * * ** *
10293079 TG-CTTCATTGCCGACCTGCCT-TTTGT-TCTGTTGCCAT-TT-AGACTACGT-TGGTGTTATTA
195 TGCCACCATT-TAGA-CTG--TGTTGGTGT-TATTAAAATCTTCAG-GTAAGTATAAT-TTGTT-
* * * *
10293138 AAATATTCATTTTAAGGTGGTTATCTTAATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGA
252 -AGT-TTCATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTT-TGA
* * * *
10293203 TTTTTCT-AGGTTGGTTCGTGAGGCGTTTACTCTTCTAGCGAGTAAGGATTTTAG-AATTTCCCC
314 TTTTGCTAAGGGTGGTTCGTGAGGCGTTTACTCTTCTAGCGAGTGAGGATTTTAGCAATTTTCCC
* * *
10293266 AAAATTTTTATGTTCCTCTCTTTCCACTACTTTCATTTCCTTTTCCCATTTTTTGTTCCTCTAAC
379 AAATTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCA-TTTTTGTTCCTCTAAC
*
10293331 GTTATTTTTT-TTCTTCTTTCTTTCTGTTTTA-TTTTC-TTCTGTTT-TTTTACATTTGTTGCCA
443 GTTATTTTTTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTC-GTTTCTTTTACATTTGTTGCCA
* * * * *
10293392 TATTCCCCTATTATCGTCTCTTGCTACTGTTTCTTCGTTACCGACCTATTTTCTATTGTGCCGCC
507 TATTCCCCTGTTATCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTATTGTGCCGCC
* * * *
10293457 ATGTAGACTGGGTTGGTGCTATTAAAATCTTCAGGTAAGTATAATTCGTTAGTTTTCTTTTAGGG
572 ATTTAGACTGCGTTGGTGTTATTAAAATATTCAGGTAAGTATAATTCGTTAG-TTTCTTTTAGGG
* * *
10293522 TGGTTGTCTTGATATCTTTGGGAGGTCTTTTGGTTTCATTAGTTGTGATTTTGTTAGGGGTGGTT
636 TGGTTGTCTTGATATCTTTGGAAGGTCTTTTGCTTTCATTAGTTGTGATTTTGCTA-GGGTGGTT
* * *
10293587 CGTAAGGCATTTACTCTTCTGGCGAGTGAGGATTTTTGC
700 CATAAGGCTTTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * ** * * * *
10293626 AATTTTCCTATTTTTTTTATATT-TCTCTCTTTCTACTACTTTCATTT-TGTTTTCTCATTTTTT
1 AATTTCCCCAAATTTTTTATGTTCT-TCTCTTTCCACTACTTCCATTTCT-TTTTCCCATTTTTT
* * * * *
10293689 CTTCCTCTAACGTCATT-TTTTCTTCTT-TTTCCTTTCTGTTTCATTTTTCCTTCGTTTCTATTA
64 GTTCCTCTAAC-T-ATTATTTTCTTCTTCTTT-CTTTATGTTT-ATTTTTCTTTTGTTTCTTTTA
* *** *
10293752 CATTTGTTGCTATATTCTTTTGTTGTTGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTC
125 CATTTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTC
* * *
10293817 TATTGTGCCGCCATTTAGACTGTGTTGGTGTTCTTAAAATCATT-AGGTAAGTATAATTAGTTAG
190 TATTGTGCCACCATTTAGACTGTGTTGGTGTTATTAAAATC-TTCAGGTAAGTATAATTTGTTAG
10293881 TTTTC-TTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTGTGATTT
254 -TTTCATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTT-TGATTT
* * *
10293945 TGCTAGGGGTGGTTCGTGAGACGTTTACTCTTCTAGCGAGTGAGGATTTTAGTAATTTTCCCAAA
317 TGCTAAGGGTGGTTCGTGAGGCGTTTACTCTTCTAGCGAGTGAGGATTTTAGCAATTTTCCCAAA
*
10294010 TTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCAATTTTTAGTTCCTCTAACGTT
382 TTTTTTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTT-GTTCCTCTAACGTT
* * * * * *
10294075 ATTTTTTTTCTTCTTCTTCCATTCTGTTTTATATTTCTTTCGTTTCTTTTACATTTATTTCCATA
446 A--TTTTTTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTCGTTTCTTTTACATTTGTTGCCATA
* * * *
10294140 TTCCCCTGTTATCGTCTCTTGCTATTGTTTCTTCATTGTCAACTTATCTTCTACTT-TGCCACCA
509 TTCCCCTGTTATCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTA-TTGTGCCGCCA
* * * * *
10294204 TTTAGACTGCATTGGTGTTCTTAAAATCATT-AGGTAAGTATAATTCATTAATTTCGTTTTAGAG
573 TTTAGACTGCGTTGGTGTTATTAAAAT-ATTCAGGTAAGTATAATTCGTTAGTTTC-TTTTAGGG
* ** *
10294268 TGGTTGACTTGATATCTTTAAAAGGTCTTTTGCTTTCATTAGTTGTGATTTTGCTAGAGTGGTTC
636 TGGTTGTCTTGATATCTTTGGAAGGTCTTTTGCTTTCATTAGTTGTGATTTTGCTAGGGTGGTTC
* * * * *
10294333 GTGAGGCGTTTAGTCTTCTAGCGAGTGAGGATTTTAGC
701 ATAAGGCTTTTACTCTTCTGGCGAGTGAGGATTTTAGC
*
10294371 AATTTCCCCAAATTTTTTATGTTCTTCTCTTTCCACTACTTCCATTTCTTTTTCCTA-TTTTT-T
1 AATTTCCCCAAATTTTTTATGTTCTTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
** * * * *
10294434 TCCTCTGATGTTATTTTTTTCTTCTTTTTTTCTTTTTGCTTT-GTTTTCTTTTGTTTCTTTTACA
66 TCCTCT-A-ACTATTATTTTCTTC-TTCTTTCTTTATG-TTTATTTTTCTTTTGTTTCTTTTACA
* * * * * *
10294498 TTTGTTGTCATATTCCCCTGTTGACGCCTCTTGCTACTGTTTCTTCATTGCCGACCTATATTCTG
127 TTTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTA
** * ** * * * * *
10294563 TTGTGCTGCCATTTTGACTGCATCGGTGTTTTTAAAATCTTCAAGTATGTATAATTCGTTAGTTT
192 TTGTGCCACCATTTAGACTGTGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTTGTTAGTTT
* * * *
10294628 CATTTTAGGGTGGTTGTTTTGCTATCTTTGGAAGGACTTTTGGTTTCATTAGTGTTGATTTTTCT
257 CATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGT-TTGATTTTGCT
* * * *
10294693 AGGGGTGGTTCGTAAGGCGTTTACTTTTCTAGCGAGTGAGGGTTTTAGCAA-TTTCCCAAATTTT
321 AAGGGTGGTTCGTGAGGCGTTTACTCTTCTAGCGAGTGAGGATTTTAGCAATTTTCCCAAATTTT
* * * *
10294757 TTATGTTCCTCTTTTTCCACTACTTCCATTTCTTTTTCCAACTTTCTGTTCCTCTAACTTTATTT
386 TTATGTTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCA-TTTTTGTTCCTCTAACGTTATTT
* * * *
10294822 TCTTTTTCTTCTTT-TTTTTATTTCATTTTGCTTTCGTTTCTTTTACATTTGTTGCCATATTCCC
450 T-TTCTTCTTCTTTCTTTCTGTTTCATTTTTCTTTCGTTTCTTTTACATTTGTTGCCATATTCCC
* * * ** * *
10294886 CTGTTTTCGTCTCTTGATATTGCTTCTTCATTATCGATCTATCTTCTGTTGTGCCGCCATTTAGA
514 CTGTTATCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTATTGTGCCGCCATTTAGA
10294951 CTGCGTTGGTGTTATTAAAATATTCAGGTAAGTATAATTCGTTAGTTTCATTTTAGGGTGGTTGT
579 CTGCGTTGGTGTTATTAAAATATTCAGGTAAGTATAATTCGTTAGTTTC-TTTTAGGGTGGTTGT
* * ** * * *
10295016 CTTGGTATCTTTGGAAGGTCTTTTGGTTTTGTTAGTTATGATTTTGCTAAAGGTGGTTCGTAAGG
643 CTTGATATCTTTGGAAGGTCTTTTGCTTTCATTAGTTGTGATTTTGCT-AGGGTGGTTCATAAGG
* *
10295081 -TGTTTACTCTTCTGGAGAGTGATGATTTTAGC
707 CT-TTTACTCTTCTGGCGAGTGAGGATTTTAGC
* * *
10295113 AATTTCCCC-AATTTTTTATGTTCTTCTCTTTCCACTACTTCCATCTCTTTTGTCCTATTTTCTG
1 AATTTCCCCAAATTTTTTATGTTCTTCTCTTTCCACTACTTCCATTTCTTTT-TCCCATTTTTTG
* * * * *
10295177 TTCCTCTGACGTTATTTTTTTCTTCTTCTTTATTTCTGTTTCATTATTCTTTTGTTTCTTTTACA
65 TTCCTCTAAC--TATTATTTTCTTCTTCTTTCTTTATGTTT-ATTTTTCTTTTGTTTCTTTTACA
** * ** *
10295242 TTTGTTATCATTTTCCCCTGTTGTTATCTCTTGCTATTGTTTCTTCATTGCCAACCTATCTTCTA
127 TTTGTTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTA
* * ** *
10295307 TTGTGCCATCATTTAAACTGCATTGGTGTTATTAAAATCCTC----AAGTATAATTTGTTAGTTT
192 TTGTGCCACCATTTAGACTGTGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTTGTTAGTTT
* *
10295368 CATTTTAGGGTGGTTGTTTTGATATCTTTGGAAGGTCTTTTTGTTTCATTAGTTGTGATTTTGCT
257 CATTTTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTT-TGATTTTGCT
* * *
10295433 AAGGGTGGTTCGTGAGAG-GTTTTCTCTTCTGGTGAGTGAGGATTTCT-GCAATTT
321 AAGGGTGGTTCGTGAG-GCGTTTACTCTTCTAGCGAGTGAGGATTT-TAGCAATTT
10295487 CTTTTCTCTT
Statistics
Matches: 5262, Mismatches: 834, Indels: 632
0.78 0.12 0.09
Matches are distributed among these distances:
715 3 0.00
716 54 0.01
717 4 0.00
718 1 0.00
719 61 0.01
721 3 0.00
722 2 0.00
725 12 0.00
726 479 0.09
727 4 0.00
728 2 0.00
729 3 0.00
734 3 0.00
736 2 0.00
737 67 0.01
738 40 0.01
739 61 0.01
740 406 0.08
741 340 0.06
742 300 0.06
743 537 0.10
744 764 0.15
745 265 0.05
746 358 0.07
747 39 0.01
748 13 0.00
749 9 0.00
750 14 0.00
751 5 0.00
752 1 0.00
753 10 0.00
754 32 0.01
755 16 0.00
756 15 0.00
757 9 0.00
758 5 0.00
759 5 0.00
761 1 0.00
762 9 0.00
763 14 0.00
764 2 0.00
765 17 0.00
766 17 0.00
767 12 0.00
768 3 0.00
769 11 0.00
770 6 0.00
772 6 0.00
773 23 0.00
774 17 0.00
775 19 0.00
776 8 0.00
777 26 0.00
778 18 0.00
779 17 0.00
780 8 0.00
781 5 0.00
782 9 0.00
783 4 0.00
784 2 0.00
785 6 0.00
786 497 0.09
787 21 0.00
788 9 0.00
789 7 0.00
790 8 0.00
791 14 0.00
793 2 0.00
794 2 0.00
796 7 0.00
797 1 0.00
798 12 0.00
799 16 0.00
800 3 0.00
803 6 0.00
804 8 0.00
805 10 0.00
806 7 0.00
807 11 0.00
808 12 0.00
809 3 0.00
811 4 0.00
812 159 0.03
813 35 0.01
814 15 0.00
815 84 0.02
816 48 0.01
817 57 0.01
ACGTcount: A:0.17, C:0.18, G:0.15, T:0.50
Consensus pattern (738 bp):
AATTTCCCCAAATTTTTTATGTTCTTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTTGT
TCCTCTAACTATTATTTTCTTCTTCTTTCTTTATGTTTATTTTTCTTTTGTTTCTTTTACATTTG
TTGCCATATTCCCCTGTTGTCGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTATTGT
GCCACCATTTAGACTGTGTTGGTGTTATTAAAATCTTCAGGTAAGTATAATTTGTTAGTTTCATT
TTAGGGTGGTTGTCTTGATATCTTTGGAAGGTCTTTTGGTTTCATTAGTTTGATTTTGCTAAGGG
TGGTTCGTGAGGCGTTTACTCTTCTAGCGAGTGAGGATTTTAGCAATTTTCCCAAATTTTTTATG
TTCCTCTCTTTCCACTACTTCCATTTCTTTTTCCCATTTTTGTTCCTCTAACGTTATTTTTTCTT
CTTCTTTCTTTCTGTTTCATTTTTCTTTCGTTTCTTTTACATTTGTTGCCATATTCCCCTGTTAT
CGTCTCTTGCTATTGTTTCTTCATTGCCGACCTATCTTCTATTGTGCCGCCATTTAGACTGCGTT
GGTGTTATTAAAATATTCAGGTAAGTATAATTCGTTAGTTTCTTTTAGGGTGGTTGTCTTGATAT
CTTTGGAAGGTCTTTTGCTTTCATTAGTTGTGATTTTGCTAGGGTGGTTCATAAGGCTTTTACTC
TTCTGGCGAGTGAGGATTTTAGC
Found at i:10292800 original size:96 final size:96
Alignment explanation
Indices: 10292626--10292823 Score: 274
Period size: 96 Copynumber: 2.1 Consensus size: 96
10292616 GTTGCCGACC
* * *
10292626 TATCTTCTGTTGTGCTGCTATTTAGACTGCATTGGTGTTATTAAAATCTTCTGGTAAGTATAATT
1 TATCTTCTATTGTGCGGCCATTTAGACTGCATTGGTGTTATTAAAATCTTCTGGTAAGTATAATT
** *
10292691 CGCTAGTTTTCTTTTAGGGTGGTTGTCTTGA
66 CGCTAGTACTCTTTTAGGGTGGTTGTCTTAA
** *
10292722 TATCTTCTATTGTGCGGCCATTTAGACTGTGTTGGTGTTCTTAAAAT-TAT-TAGGTAAGTATAA
1 TATCTTCTATTGTGCGGCCATTTAGACTGCATTGGTGTTATTAAAATCT-TCT-GGTAAGTATAA
*
10292785 TTCGTTAGTACTCTTTTAGGGTGGTTGTCTTAA
64 TTCGCTAGTACTCTTTTAGGGTGGTTGTCTTAA
10292818 TATCTT
1 TATCTT
10292824 TGAAAGGTCT
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
95 2 0.02
96 88 0.98
ACGTcount: A:0.20, C:0.12, G:0.21, T:0.46
Consensus pattern (96 bp):
TATCTTCTATTGTGCGGCCATTTAGACTGCATTGGTGTTATTAAAATCTTCTGGTAAGTATAATT
CGCTAGTACTCTTTTAGGGTGGTTGTCTTAA
Found at i:10294494 original size:24 final size:25
Alignment explanation
Indices: 10294455--10294503 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
10294445 TATTTTTTTC
*
10294455 TTCTTTTTTTCTTTTTGC-TTTGTT
1 TTCTTTTTTTCTTTTTACATTTGTT
10294479 TTCTTTTGTTTC-TTTTACATTTGTT
1 TTCTTTT-TTTCTTTTTACATTTGTT
10294504 GTCATATTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.04, C:0.12, G:0.08, T:0.76
Consensus pattern (25 bp):
TTCTTTTTTTCTTTTTACATTTGTT
Found at i:10297936 original size:61 final size:62
Alignment explanation
Indices: 10297851--10297972 Score: 149
Period size: 61 Copynumber: 2.0 Consensus size: 62
10297841 GAAGATCTTT
* * * * *
10297851 GCCCCAACAAATTTTGAGAAATTTTAATTTTTCCCTTGAA-TTCTTTTGAAAATTTTAATTAA
1 GCCCCAACAAATTTTGAAAAATTTTAATTTCTCCATTGAAGTT-TTTAGAAAACTTTAATTAA
* * *
10297913 GCCCCAA-AATTTTTTAAAAATTTTCATTTCTCCATTGAAGTTTTTAGAAAACTTTAATTA
1 GCCCCAACAAATTTTGAAAAATTTTAATTTCTCCATTGAAGTTTTTAGAAAACTTTAATTA
10297973 GGTCTCCTCA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
61 42 0.82
62 9 0.18
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.43
Consensus pattern (62 bp):
GCCCCAACAAATTTTGAAAAATTTTAATTTCTCCATTGAAGTTTTTAGAAAACTTTAATTAA
Found at i:10298626 original size:9 final size:9
Alignment explanation
Indices: 10298612--10298687 Score: 64
Period size: 9 Copynumber: 8.2 Consensus size: 9
10298602 ACGTTTAATT
10298612 AATTTTTAA
1 AATTTTTAA
*
10298621 AATTTTAAA
1 AATTTTTAA
*
10298630 AAGATTTTAA
1 AA-TTTTTAA
*
10298640 TACTTTTTAA
1 -AATTTTTAA
*
10298650 TATTTTTAA
1 AATTTTTAA
10298659 TAATTTTT-A
1 -AATTTTTAA
*
10298668 ATTTTTTAA
1 AATTTTTAA
*
10298677 AAATTTTAA
1 AATTTTTAA
10298686 AA
1 AA
10298688 AATTAATTAA
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
8 6 0.12
9 28 0.54
10 17 0.33
11 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (9 bp):
AATTTTTAA
Found at i:10298649 original size:10 final size:9
Alignment explanation
Indices: 10298634--10298676 Score: 61
Period size: 10 Copynumber: 4.7 Consensus size: 9
10298624 TTTAAAAAGA
10298634 TTTTAATACT
1 TTTTAATA-T
10298644 TTTTAATAT
1 TTTTAATAT
10298653 TTTTAATAAT
1 TTTTAAT-AT
10298663 TTTTAAT-T
1 TTTTAATAT
10298671 TTTTAA
1 TTTTAA
10298677 AAATTTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 7 0.22
9 8 0.25
10 17 0.53
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTAATAT
Found at i:10298656 original size:19 final size:18
Alignment explanation
Indices: 10298634--10298683 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
10298624 TTTAAAAAGA
*
10298634 TTTTAATACTTTTTAATAT
1 TTTTAATAATTTTTAAT-T
10298653 TTTTAATAATTTTTAATT
1 TTTTAATAATTTTTAATT
*
10298671 TTTTAAAAATTTT
1 TTTTAATAATTTT
10298684 AAAAAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 13 0.45
19 16 0.55
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTAATAATTTTTAATT
Found at i:10298683 original size:10 final size:10
Alignment explanation
Indices: 10298612--10298691 Score: 53
Period size: 10 Copynumber: 8.4 Consensus size: 10
10298602 ACGTTTAATT
10298612 AATTTTT-AA
1 AATTTTTAAA
10298621 AA-TTTTAAA
1 AATTTTTAAA
* *
10298630 AAGATTTTAAT
1 AA-TTTTTAAA
*
10298641 ACTTTTT-AA
1 AATTTTTAAA
* *
10298650 TATTTTTAAT
1 AATTTTTAAA
10298660 AATTTTT--A
1 AATTTTTAAA
*
10298668 ATTTTTTAAA
1 AATTTTTAAA
*
10298678 AATTTTAAAA
1 AATTTTTAAA
10298688 AATT
1 AATT
10298692 AATTAAATAC
Statistics
Matches: 53, Mismatches: 12, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
8 10 0.19
9 12 0.23
10 24 0.45
11 7 0.13
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:10303356 original size:26 final size:26
Alignment explanation
Indices: 10303290--10303371 Score: 92
Period size: 26 Copynumber: 3.1 Consensus size: 26
10303280 ATTACGTGTT
**
10303290 AAATGTGTAAAATGAAATGGTTACTCG
1 AAATG-GTAAAATGAAATGGTTAAACG
* *
10303317 AAATGGTTATATGAAATGGTTAAACG
1 AAATGGTAAAATGAAATGGTTAAACG
* * *
10303343 AAATGGTAAAATGAGATGGGTATACG
1 AAATGGTAAAATGAAATGGTTAAACG
10303369 AAA
1 AAA
10303372 GAGTTATATA
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 41 0.89
27 5 0.11
ACGTcount: A:0.44, C:0.05, G:0.24, T:0.27
Consensus pattern (26 bp):
AAATGGTAAAATGAAATGGTTAAACG
Found at i:10303388 original size:13 final size:14
Alignment explanation
Indices: 10303316--10303451 Score: 85
Period size: 13 Copynumber: 10.4 Consensus size: 14
10303306 ATGGTTACTC
10303316 GAAATG-GTTATAT
1 GAAATGAGTTATAT
* *
10303329 GAAATG-GTTAAAC
1 GAAATGAGTTATAT
* *
10303342 GAAATG-GTAAAAT
1 GAAATGAGTTATAT
* * *
10303355 GAGATG-GGTATAC
1 GAAATGAGTTATAT
10303368 GAAA-GAGTTATAT
1 GAAATGAGTTATAT
*
10303381 -AAATGAG-TATGT
1 GAAATGAGTTATAT
10303393 GAAATGA-TTATAT
1 GAAATGAGTTATAT
*
10303406 -AAATCAGTTATAT
1 GAAATGAGTTATAT
* *
10303419 GGAATTAGTTATAT
1 GAAATGAGTTATAT
* *
10303433 GAAGTGA-TTATAC
1 GAAATGAGTTATAT
10303446 GAAATG
1 GAAATG
10303452 TTTCCACGTA
Statistics
Matches: 95, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
12 13 0.14
13 67 0.71
14 15 0.16
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.32
Consensus pattern (14 bp):
GAAATGAGTTATAT
Found at i:10303430 original size:27 final size:26
Alignment explanation
Indices: 10303362--10303432 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 26
10303352 AATGAGATGG
* *
10303362 GTATACGAAA-GAGTTATATAAATGA
1 GTATATGAAATGAGTTATATAAATCA
*
10303387 GTATGTGAAATGA-TTATATAAATCA
1 GTATATGAAATGAGTTATATAAATCA
* *
10303412 GTTATATGGAATTAGTTATAT
1 G-TATATGAAATGAGTTATAT
10303433 GAAGTGATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
25 20 0.54
26 11 0.30
27 6 0.16
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.37
Consensus pattern (26 bp):
GTATATGAAATGAGTTATATAAATCA
Found at i:10304486 original size:6 final size:6
Alignment explanation
Indices: 10304461--10304529 Score: 66
Period size: 6 Copynumber: 10.5 Consensus size: 6
10304451 AACTAAACTC
* *
10304461 AAATATA AAATTA AATATTA AAATTA AAATTA AAATAAAA AAATTG AAATGTA
1 AAAT-TA AAATTA AA-ATTA AAATTA AAATTA AAAT--TA AAATTA AAAT-TA
10304514 AAATTA AATATTA AAA
1 AAATTA AA-ATTA AAA
10304530 CCAAAGTAGA
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
6 27 0.51
7 21 0.40
8 5 0.09
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (6 bp):
AAATTA
Found at i:10304496 original size:20 final size:19
Alignment explanation
Indices: 10304461--10304529 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
10304451 AACTAAACTC
10304461 AAATA-TAAAATTAAATATT
1 AAATATTAAAATTAAA-ATT
*
10304480 AAA-ATTAAAATTAAAATAA
1 AAATATTAAAATTAAAAT-T
* *
10304499 AAAAATTGAAATGTAAAATT
1 AAATATTAAAAT-TAAAATT
10304519 AAATATTAAAA
1 AAATATTAAAA
10304530 CCAAAGTAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
18 3 0.07
19 16 0.39
20 16 0.39
21 6 0.15
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (19 bp):
AAATATTAAAATTAAAATT
Found at i:10304864 original size:20 final size:20
Alignment explanation
Indices: 10304839--10304892 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
10304829 ACTTCAGCTG
10304839 AAGGAGAAGAAAGAAAAGAA
1 AAGGAGAAGAAAGAAAAGAA
*
10304859 AAGGAGAAGAAAGAAAAGGA
1 AAGGAGAAGAAAGAAAAGAA
*
10304879 AAGGGGAA-AAAGAA
1 AAGGAGAAGAAAGAA
10304893 GGAGGATGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 6 0.19
20 26 0.81
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (20 bp):
AAGGAGAAGAAAGAAAAGAA
Found at i:10305219 original size:40 final size:40
Alignment explanation
Indices: 10305103--10305220 Score: 131
Period size: 40 Copynumber: 3.1 Consensus size: 40
10305093 AGGATTAATA
* *
10305103 AAAACCCTAATTATTATT-TTAGTTAGTATGATTGTTAGTT
1 AAAACCCTAATTATTATTGTTAGTTAGTATTATTTTTAG-T
*** *
10305143 TTTACACT-A-TATTATTGTTAG-T--TATTATTTTTAGT
1 AAAACCCTAATTATTATTGTTAGTTAGTATTATTTTTAGT
10305178 AAAACCCTAATTATTATTGTTAGTTAGTATTATTTTTAGT
1 AAAACCCTAATTATTATTGTTAGTTAGTATTATTTTTAGT
10305218 AAA
1 AAA
10305221 CTATTATTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
35 5 0.08
36 11 0.18
37 12 0.19
38 9 0.15
39 5 0.08
40 20 0.32
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (40 bp):
AAAACCCTAATTATTATTGTTAGTTAGTATTATTTTTAGT
Found at i:10305232 original size:76 final size:75
Alignment explanation
Indices: 10305079--10305221 Score: 182
Period size: 76 Copynumber: 1.9 Consensus size: 75
10305069 GTTTAGTTAC
10305079 TATTGTTAGTTATTAGGATTAATAAAAACCCTAATTATTATTTTAGTTAGTATGATTGTTAGTTT
1 TATTGTTAGTTATTAGGATTAATAAAAACCCTAATTATTATTTTAGTTAGTATGATTGTTAG-TT
**
10305144 TTACACTATAT
65 AAACACTATAT
*** * * *
10305155 TATTGTTAGTTATTATTTTTAGT-AAAACCCTAATTATTATTGTTAGTTAGTATTATTTTTAG-T
1 TATTGTTAGTTATTAGGATTAATAAAAACCCTAATTATTATT-TTAGTTAGTATGATTGTTAGTT
10305218 AAAC
65 AAAC
10305222 TATTATTATT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
74 3 0.05
75 18 0.31
76 37 0.64
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.50
Consensus pattern (75 bp):
TATTGTTAGTTATTAGGATTAATAAAAACCCTAATTATTATTTTAGTTAGTATGATTGTTAGTTA
AACACTATAT
Found at i:10310666 original size:160 final size:159
Alignment explanation
Indices: 10310494--10311351 Score: 1377
Period size: 160 Copynumber: 5.4 Consensus size: 159
10310484 AATTTTAATA
* * *
10310494 TATTTTTCTTATTTTCGAATTTTATTACTTTAAAAAAATATACTATTTTCGTATTTTATTATTTC
1 TATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTT
10310559 ATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGT
66 ATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGT
* *
10310624 AAAAAAACCATTATTTTGGCCTTTTGTTCG
131 -AAAAAACCCTTATTTTGGCCCTTTGTTCG
* *
10310654 TTTTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTTGTATTTTATTATTTT
1 TATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTT
*
10310719 ATATTATTTTAGTACATAATGTTTGAAATATATTAATTTAGTGTG-TTTTTTATATAAATTTAGT
66 ATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGT
10310783 AAAAAACCCTTATTTTGGCCCTTTGTTCG
131 AAAAAACCCTTATTTTGGCCCTTTGTTCG
*
10310812 ---TTTTCTTATTTTCGGATTTTATTACTTTC-AAAAATATACTATTTTTGTATTTTATTATTTT
1 TATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTT
10310873 ATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTTATATAAATTTAG
66 ATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTG-TTTTTTTATATAAATTTAG
* *
10310938 TAAAAACCCCTTATTTTGGCCCTTTGTTCA
130 TAAAAAACCCTTATTTTGGCCCTTTGTTCG
* * * **
10310968 TATTTTTCTTATTTTTGGATTTTATTACTTTTAAAATATATTTTATTTTCGTATTTTATTATTTT
1 TATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTT
10311033 ATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTTATATAAATTTAG
66 ATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTG-TTTTTTTATATAAATTTAG
* *
10311098 TAAAAACCCCTTATTTTGGCCCTTTGTTCA
130 TAAAAAACCCTTATTTTGGCCCTTTGTTCG
* * * **
10311128 TATTTTTCTTATTTTTGGATTTTATTACTTTTAAAATATATTTTATTTTCGTATTTTATTATTTT
1 TATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTT
10311193 ATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGT
66 ATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGT
* *
10311258 AAAAAACCCTTATTTTGGCCATTTATTCG
131 AAAAAACCCTTATTTTGGCCCTTTGTTCG
* * *
10311287 TATTTTTCTTTTTTTTCTGGATTTTATTACTTTCAATAAATATACTATTTTCGT-TTTTTTTATT
1 TATTTTTC-TTATTTTC-GGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATT
10311351 T
64 T
10311352 CTTTTCGTAT
Statistics
Matches: 661, Mismatches: 29, Indels: 16
0.94 0.04 0.02
Matches are distributed among these distances:
154 76 0.11
155 29 0.04
156 46 0.07
158 27 0.04
159 99 0.15
160 353 0.53
161 31 0.05
ACGTcount: A:0.28, C:0.08, G:0.09, T:0.56
Consensus pattern (159 bp):
TATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTT
ATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGT
AAAAAACCCTTATTTTGGCCCTTTGTTCG
Found at i:10310966 original size:314 final size:315
Alignment explanation
Indices: 10310497--10311351 Score: 1365
Period size: 314 Copynumber: 2.7 Consensus size: 315
10310487 TTTAATATAT
* *
10310497 TTTTCTTATTTTCGAATTTTATTACTTTAAAAAAATATACTATTTTCGTATTTTATTATTTCATA
1 TTTTCTTATTTTCGGATTTTATTACTTT-AAAAAATATACTATTTTCGTATTTTATTATTTTATA
10310562 TTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGTAAA
65 TTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGT-AA
* * *
10310627 AAAACCATTATTTTGGCCTTTTGTTCGTTTTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAA
129 AAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAA
*
10310692 TATACTATTTTTGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATATATTAATT
194 TATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATATATTAATT
10310757 TAGTGTG-TTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTC-G
259 TAGTGTGTTTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCAG
* *
10310812 TTTTCTTATTTTCGGATTTTATTACTTTCAAAAATATACTATTTTTGTATTTTATTATTTTATAT
1 TTTTCTTATTTTCGGATTTTATTACTTTAAAAAATATACTATTTTCGTATTTTATTATTTTATAT
10310877 TATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTTATATAAATTTAGTAAA
66 TATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTG-TTTTTTTATATAAATTTAGTAAA
* * * * * *
10310942 AACCCCTTATTTTGGCCCTTTGTTCATATTTTTCTTATTTTTGGATTTTATTACTTTTAAAATAT
130 AAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAAT
** *
10311007 ATTTTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTAATTT
195 ATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATATATTAATTT
* *
10311072 AGTGTGTTTTTTTTATATAAATTTAGTAAAAACCCCTTATTTTGGCCCTTTGTTCATAT
260 AGTGTG-TTTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTC--AG
* * **
10311131 TTTTCTTATTTTTGGATTTTATTACTTTTAAAATATATTTTATTTTCGTATTTTATTATTTTATA
1 TTTTCTTATTTTCGGATTTTATTAC-TTTAAAAAATATACTATTTTCGTATTTTATTATTTTATA
10311196 TTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGTAAA
65 TTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGTAAA
* * *
10311261 AAACCCTTATTTTGGCCATTTATTCGTATTTTTCTTTTTTTTCTGGATTTTATTACTTTCAATAA
130 AAACCCTTATTTTGGCCATTTGTTCGTATTTTTC-TTATTTTC-GGATTTTATTACTTTCAAAAA
*
10311326 ATATACTATTTTCGT-TTTTTTTATTT
193 ATATACTATTTTCGTATTTTATTATTT
10311352 CTTTTCGTAT
Statistics
Matches: 495, Mismatches: 36, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
314 202 0.41
315 47 0.09
316 46 0.09
319 77 0.16
320 92 0.19
321 31 0.06
ACGTcount: A:0.28, C:0.08, G:0.09, T:0.56
Consensus pattern (315 bp):
TTTTCTTATTTTCGGATTTTATTACTTTAAAAAATATACTATTTTCGTATTTTATTATTTTATAT
TATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGTAAAA
AACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATA
TACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATATATTAATTTA
GTGTGTTTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCAG
Found at i:10311465 original size:44 final size:45
Alignment explanation
Indices: 10311382--10311468 Score: 174
Period size: 45 Copynumber: 1.9 Consensus size: 45
10311372 TAGAAACATA
10311382 TTTTTCGGTATTTTATTTTTAATACTATTTTTGTAAAAAAAATAT
1 TTTTTCGGTATTTTATTTTTAATACTATTTTTGTAAAAAAAATAT
10311427 TTTTTCGGTATTTTATTTTTAATACTATTTTTGTAAAAAAAA
1 TTTTTCGGTATTTTATTTTTAATACTATTTTTGTAAAAAAAA
10311469 CTCATTACAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (45 bp):
TTTTTCGGTATTTTATTTTTAATACTATTTTTGTAAAAAAAATAT
Found at i:10311617 original size:20 final size:20
Alignment explanation
Indices: 10311592--10311629 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10311582 TTTTTTACAC
10311592 AAATAATACAAAAAAAATTA
1 AAATAATACAAAAAAAATTA
*
10311612 AAATAATATAAAAAAAAT
1 AAATAATACAAAAAAAAT
10311630 ACCTTTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (20 bp):
AAATAATACAAAAAAAATTA
Found at i:10311677 original size:3 final size:3
Alignment explanation
Indices: 10311669--10311747 Score: 61
Period size: 3 Copynumber: 26.0 Consensus size: 3
10311659 CTTCCCTCCC
* * * * * *
10311669 TCT TCT TCT TCT CCT TC- TCT TTT TCCT TTT TCT TCCT TCT GCG CCT
1 TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT T-CT TCT TCT TCT
* *
10311715 CCT TCT CCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
10311748 CCTTTCCTTT
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.03
3 53 0.88
4 5 0.08
ACGTcount: A:0.00, C:0.38, G:0.03, T:0.59
Consensus pattern (3 bp):
TCT
Found at i:10316707 original size:19 final size:19
Alignment explanation
Indices: 10316685--10316744 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 19
10316675 ATTTATTTAT
10316685 AAATAAATCATTTTCCAGA
1 AAATAAATCATTTTCCAGA
* * *
10316704 AAATATTAGC-TATTCCAGA
1 AAATA-AATCATTTTCCAGA
* *
10316723 AAAGTAATTCATTTTCTAGA
1 AAA-TAAATCATTTTCCAGA
10316743 AA
1 AA
10316745 TCAATTTCCG
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.33
Consensus pattern (19 bp):
AAATAAATCATTTTCCAGA
Done.