Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, whole genome shotgun sequence
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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 72 of 105
Found at i:12806227 original size:14 final size:14
Alignment explanation
Indices: 12806184--12806227 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
12806174 TGTTTAGCGA
*
12806184 AAAAAAAAAGGAGG
1 AAAAAAAAAGGAAG
*
12806198 AAAAAAAAGAGAAAG
1 AAAAAAAA-AGGAAG
12806213 AAAAAAAAAGGAAG
1 AAAAAAAAAGGAAG
12806227 A
1 A
12806228 GAGAAGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGGAAG
Found at i:12809214 original size:38 final size:38
Alignment explanation
Indices: 12809162--12809342 Score: 138
Period size: 38 Copynumber: 4.8 Consensus size: 38
12809152 ATGCATATCT
* * *
12809162 TAAT-AGATAATACATGTATTCCATTTCATGAACATTA
1 TAATGAGATAGTACATGTATTCCATCTCATGAACATCA
**
12809199 TAATGAGATAGTACATGCT-TTATATCTCAT-ACACATCA
1 TAATGAGATAGTACATG-TATTCCATCTCATGA-ACATCA
* * **
12809237 TAATGAGATAGTACATGCACTCCATCTCATGTGCATC-
1 TAATGAGATAGTACATGTATTCCATCTCATGAACATCA
* * * * * *
12809274 TCAAT-AAATAGTACATGCATTTCATTTCATGCATATCA
1 T-AATGAGATAGTACATGTATTCCATCTCATGAACATCA
* * *
12809312 TAAAGAAATATTACATGTATTCCATCTCATG
1 TAATGAGATAGTACATGTATTCCATCTCATG
12809343 CAGATTTGAT
Statistics
Matches: 113, Mismatches: 23, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
37 33 0.29
38 79 0.70
39 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.35
Consensus pattern (38 bp):
TAATGAGATAGTACATGTATTCCATCTCATGAACATCA
Found at i:12809652 original size:309 final size:309
Alignment explanation
Indices: 12809093--12809706 Score: 811
Period size: 309 Copynumber: 2.0 Consensus size: 309
12809083 AAACAATAAG
* * * *
12809093 ATAGTACATGTACCATATTTCATGTACATCCTGATAAAATAGTATATGCACCTCATTTCATGCAT
1 ATAGTACATGCACCACATTTCATGTACATCCTGATAAAATAGTATATACACCTAATTTCATGCAT
* * * * *
12809158 ATCTTAATAGATAATACATGTATTCCATTTCATGAACATTATAATGAGATAGTACATGCTTTATA
66 ATCTTAATAGATAATACATGCAGTCCATTTCATAAACATTATAATGAGATAGTACATGATTTACA
** *
12809223 TCTCATACACATCATAATGAGATAGTACATGCACTCCATCTCATGTGCATCTCAATAAATAGTAC
131 TCTCATACACATCATAACAAGATAGTACATGCACTCCATCTCACGTGCATCTCAATAAATAGTAC
* * * * * *
12809288 ATGCATTTCATTTCATGCATATCATAAAGAAATATTACATGTATTCCATCTCATGCAGATTTGAT
196 ATACATCTCATTTCATGCACATAATAAAGAAATATTACATGTATTCCATCTCATGCACATCTGAT
* *
12809353 AATATCAATTTTATTGGATTTGCATAACACATGCATTGCATTTCACGTA
261 AATATCAATTTTATTGGATTTGCATAACAAATGCATTACATTTCACGTA
* * * * *
12809402 ATAGTACATGCACCCCATTTCATGTATATCCTGATAAGATAGT-TCATACACTTAATTTCATGTA
1 ATAGTACATGCACCACATTTCATGTACATCCTGATAAAATAGTAT-ATACACCTAATTTCATGCA
* *
12809466 TATTTTAATAGATAATACATGCAGTCCATTTCATAAACATTATAATGAGATAGTACAT-ATATTC
65 TATCTTAATAGATAATACATGCAGTCCATTTCATAAACATTATAATGAGATAGTACATGAT-TTA
* * * * **
12809530 CATCTCATGCATATCATAACAAGATAGTACATGCACTCCATCTTACGTGCATTTCAATATTTAGT
129 CATCTCATACACATCATAACAAGATAGTACATGCACTCCATCTCACGTGCATCTCAATAAATAGT
* * *
12809595 ACATACAATCT-ATTTCATGCACATAATAATGAAATGTTAGATGTATTCCATCTCATGCACATCT
194 ACATAC-ATCTCATTTCATGCACATAATAAAGAAATATTACATGTATTCCATCTCATGCACATCT
* * * * *
12809659 GATAGTGTCAATTTTGTTGGGTTTGTATAACAAATGCATTACATTTCA
258 GATAATATCAATTTTATTGGATTTGCATAACAAATGCATTACATTTCA
12809707 TGCAAACATA
Statistics
Matches: 261, Mismatches: 41, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
308 2 0.01
309 256 0.98
310 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (309 bp):
ATAGTACATGCACCACATTTCATGTACATCCTGATAAAATAGTATATACACCTAATTTCATGCAT
ATCTTAATAGATAATACATGCAGTCCATTTCATAAACATTATAATGAGATAGTACATGATTTACA
TCTCATACACATCATAACAAGATAGTACATGCACTCCATCTCACGTGCATCTCAATAAATAGTAC
ATACATCTCATTTCATGCACATAATAAAGAAATATTACATGTATTCCATCTCATGCACATCTGAT
AATATCAATTTTATTGGATTTGCATAACAAATGCATTACATTTCACGTA
Found at i:12810569 original size:25 final size:27
Alignment explanation
Indices: 12810531--12810580 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
12810521 TTTGTAAGGA
12810531 TTTTTATTTGAAAAAGATTTTTTTAAT
1 TTTTTATTTGAAAAAGATTTTTTTAAT
*
12810558 TTTTTA-TT-AAAAGGATTTTTTTA
1 TTTTTATTTGAAAAAGATTTTTTTA
12810581 TAAATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.64
26 2 0.09
27 6 0.27
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (27 bp):
TTTTTATTTGAAAAAGATTTTTTTAAT
Found at i:12810780 original size:18 final size:18
Alignment explanation
Indices: 12810749--12810799 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
12810739 AATTTCTTTA
*
12810749 AAAAAAATAGAAAAAGATTT
1 AAAAAAAT--AAAAAGAGTT
*
12810769 AAAAAAATAAAATGAGTT
1 AAAAAAATAAAAAGAGTT
12810787 AAAAAAAGTAAAA
1 AAAAAAA-TAAAA
12810800 TAAAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 15 0.54
19 5 0.18
20 8 0.29
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.18
Consensus pattern (18 bp):
AAAAAAATAAAAAGAGTT
Found at i:12810793 original size:19 final size:20
Alignment explanation
Indices: 12810746--12810802 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
12810736 ATAAATTTCT
12810746 TTAAAAAAAATAGAAA-AAGA
1 TTAAAAAAAATA-AAATAAGA
* *
12810766 TTTAAAAAAATAAAATGAG-
1 TTAAAAAAAATAAAATAAGA
*
12810785 TTAAAAAAAGTAAAATAA
1 TTAAAAAAAATAAAATAA
12810803 AATAAAATCA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (20 bp):
TTAAAAAAAATAAAATAAGA
Found at i:12810804 original size:24 final size:24
Alignment explanation
Indices: 12810771--12810837 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
12810761 AAAGATTTAA
**
12810771 AAAAATAAAATGAGTTAAAAAAAGT
1 AAAAATAAAATGAAATAAAAAAA-T
* *
12810796 -AAAATAAAATAAAATCAAAAAAT
1 AAAAATAAAATGAAATAAAAAAAT
12810819 AAAAATAAAATGAAA-AAAA
1 AAAAATAAAATGAAATAAAA
12810838 GAAAACCAGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 4 0.11
24 31 0.89
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.16
Consensus pattern (24 bp):
AAAAATAAAATGAAATAAAAAAAT
Found at i:12810808 original size:19 final size:18
Alignment explanation
Indices: 12810796--12810842 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
12810786 TAAAAAAAGT
*
12810796 AAAATAAAATAAAATCAA
1 AAAATAAAATAAAATAAA
12810814 AAAATAAAAATAAAATGAAA
1 AAAAT-AAAATAAAAT-AAA
*
12810834 AAAAGAAAA
1 AAAATAAAA
12810843 CCAGCGATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.20
19 14 0.56
20 6 0.24
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.13
Consensus pattern (18 bp):
AAAATAAAATAAAATAAA
Found at i:12811126 original size:30 final size:31
Alignment explanation
Indices: 12811067--12811141 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 31
12811057 TAGAAAATCC
* **
12811067 CATCAAAAAATTCATATTCCGTCAAAAAATT
1 CATCAAAAAATTCATATCCCACCAAAAAATT
*
12811098 -ATCAAAAAATTCATATCCCACCAGAAAATT
1 CATCAAAAAATTCATATCCCACCAAAAAATT
**
12811128 CATTGAAAAATTCA
1 CATCAAAAAATTCA
12811142 AACATTCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 26 0.70
31 11 0.30
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.27
Consensus pattern (31 bp):
CATCAAAAAATTCATATCCCACCAAAAAATT
Found at i:12811624 original size:3 final size:3
Alignment explanation
Indices: 12811618--12811648 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
12811608 TAAGAAAAAA
*
12811618 AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
12811649 TGTAATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12812199 original size:119 final size:117
Alignment explanation
Indices: 12811971--12812436 Score: 468
Period size: 119 Copynumber: 3.9 Consensus size: 117
12811961 AGATCAAGCG
* * * *
12811971 ACCATAAGTAAAAAATGAAGTTACCAAGATTGAGTCGAGGTTCAAAAATAAATGATCAGGATGAA
1 ACCATAAGT-CAAAATGAAGTGACCAAGATCGAGTCGAGG-TCAAAAATAAATGATCA-AATGAA
* * * * * * *
12812036 ACCATGAGTCATATGAAATGATCTATACTAAGCGAAGATTAAGTGATCGAGATGAA
63 ACCACGAATCATAAGAAATGATCTAGACTAAGCCAAGATCAAGTGACCG-GATGAA
* * * * * *
12812092 AGCATAAGTCAAAATGAAGTGACCAAGACCAAGTCGAGGTAAAAAATAAACGATCGAAATGAAAT
1 ACCATAAGTCAAAATGAAGTGACCAAGATCGAGTCGAGGTCAAAAATAAATGATC-AAATGAAAC
* * *
12812157 AACGAATCATAAGAAATGATATAGACTGAGCCAAGATCAAGTGACCTGGATGAA
65 CACGAATCATAAGAAATGATCTAGACTAAGCCAAGATCAAGTGACC-GGATGAA
* * * ** * *
12812211 ACCACAAGTCAAAATGAAGAT-ATCAAGATCGAGTCAACATCGAAAATAAATGAGCGAAATGAAA
1 ACCATAAGTCAAAATGAAG-TGACCAAGATCGAGTCGAGGTCAAAAATAAATGATC-AAATGAAA
* ** * * * *
12812275 CCATGAATCATGTGAAGTGATTTGGACTAAGCTAAGATCAAGTGACCGGGATGAA
64 CCACGAATCATAAGAAATGATCTAGACTAAGCCAAGATCAAGTGACC-GGATGAA
* * *
12812330 ACCA-AGAGTCAAAATAAAGTGACCAAGATCGAGTTGAGGTCGAAAATAAATGATCAAGATGAAA
1 ACCATA-AGTCAAAATGAAGTGACCAAGATCGAGTCGAGGTCAAAAATAAATGATCAA-ATGAAA
* *
12812394 CCACGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAGT
64 CCACGAATCATAAGAAATGATCTAGACTAAGCCAAGATCAAGT
12812437 TGAGTGATGA
Statistics
Matches: 282, Mismatches: 57, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
118 4 0.01
119 242 0.86
120 28 0.10
121 8 0.03
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.19
Consensus pattern (117 bp):
ACCATAAGTCAAAATGAAGTGACCAAGATCGAGTCGAGGTCAAAAATAAATGATCAAATGAAACC
ACGAATCATAAGAAATGATCTAGACTAAGCCAAGATCAAGTGACCGGATGAA
Found at i:12812857 original size:22 final size:22
Alignment explanation
Indices: 12812827--12812876 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
12812817 TGAAAAATAA
12812827 GAAA-AATGGGTTTTTATTGCT
1 GAAAGAATGGGTTTTTATTGCT
* *
12812848 GGAAGAATGGGTTTTTATTGTT
1 GAAAGAATGGGTTTTTATTGCT
12812870 GAAAGAA
1 GAAAGAA
12812877 CCAAACGTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.32, C:0.02, G:0.28, T:0.38
Consensus pattern (22 bp):
GAAAGAATGGGTTTTTATTGCT
Found at i:12813642 original size:54 final size:53
Alignment explanation
Indices: 12813507--12813714 Score: 205
Period size: 54 Copynumber: 4.0 Consensus size: 53
12813497 ATTTTTTTTT
* * * *
12813507 TTTTTTTTTTTTTGTTGAAGCATATTGTCATTTTGCCCTAA-CAATTTCT-TTCA
1 TTTTTTTCTTCTTG-TGGAGCATATTGGCATTTTGCCC-AATCAATTTCTCTTCA
* *
12813560 -TTTTTT-TT-TTGTGGAGCATATTGGCATTTTGCCCCATTAATTTCTCTTCA
1 TTTTTTTCTTCTTGTGGAGCATATTGGCATTTTGCCCAATCAATTTCTCTTCA
* *
12813610 TTTTTTTCTTCTTAGTGGAGTATATTGGCATTTTGCCTAATCAATTTCTCTTCA
1 TTTTTTTCTTCTT-GTGGAGCATATTGGCATTTTGCCCAATCAATTTCTCTTCA
* * * * *
12813664 TTTTTTCCTTCTTGATAGAACATATTAGCACTTTGTCCC-ATCAATTT-TCTT
1 TTTTTTTCTTCTTG-TGGAGCATATTGGCATTTTG-CCCAATCAATTTCTCTT
12813715 TTTTCTTTTT
Statistics
Matches: 132, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
48 1 0.01
49 28 0.21
50 7 0.05
51 8 0.06
52 8 0.06
53 7 0.05
54 71 0.54
55 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.11, T:0.52
Consensus pattern (53 bp):
TTTTTTTCTTCTTGTGGAGCATATTGGCATTTTGCCCAATCAATTTCTCTTCA
Found at i:12817379 original size:19 final size:18
Alignment explanation
Indices: 12817338--12817376 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
12817328 TTTTGAAAAC
12817338 TTTATATGAAAAGATTTT
1 TTTATATGAAAAGATTTT
* *
12817356 TTTATTTGAAAAGGTTTT
1 TTTATATGAAAAGATTTT
12817374 TTT
1 TTT
12817377 TATAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (18 bp):
TTTATATGAAAAGATTTT
Found at i:12817472 original size:14 final size:13
Alignment explanation
Indices: 12817455--12817489 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
12817445 ATAAAACCAG
*
12817455 AAAAAAAAGATTT
1 AAAAAAAAGAGTT
*
12817468 AAAAAAATGAGTT
1 AAAAAAAAGAGTT
12817481 AAAAAAAAG
1 AAAAAAAAG
12817490 TAAAACAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (13 bp):
AAAAAAAAGAGTT
Found at i:12817533 original size:21 final size:22
Alignment explanation
Indices: 12817482--12817539 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
12817472 AAATGAGTTA
12817482 AAAAAAAGTAAAACAAAATAAAATC
1 AAAAAAAG--AAA-AAAATAAAATC
* *
12817507 -AGAAAAGAAAAAAATAAAATG
1 AAAAAAAGAAAAAAATAAAATC
12817528 AAAAAAAGAAAA
1 AAAAAAAGAAAA
12817540 CCTGCGATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 10 0.34
22 13 0.45
24 6 0.21
ACGTcount: A:0.79, C:0.03, G:0.09, T:0.09
Consensus pattern (22 bp):
AAAAAAAGAAAAAAATAAAATC
Found at i:12817819 original size:31 final size:31
Alignment explanation
Indices: 12817781--12817852 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
12817771 AATTCCCATA
** * *
12817781 AAAAAATTCATATTTCATCAGAAAACTCATC
1 AAAAAATTCATATGCCACCAAAAAACTCATC
*
12817812 AAAAAATTCATATGCCACCAAAAAATTCATC
1 AAAAAATTCATATGCCACCAAAAAACTCATC
12817843 AAAAAATTCA
1 AAAAAATTCA
12817853 AACATTCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.53, C:0.19, G:0.03, T:0.25
Consensus pattern (31 bp):
AAAAAATTCATATGCCACCAAAAAACTCATC
Found at i:12818340 original size:3 final size:3
Alignment explanation
Indices: 12818332--12818359 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12818322 AAGAAAAATA
12818332 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
12818360 TGTAATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12821625 original size:67 final size:67
Alignment explanation
Indices: 12821493--12821647 Score: 186
Period size: 67 Copynumber: 2.3 Consensus size: 67
12821483 GATGGTAGCG
* * * * *
12821493 ATGAAAATTAAGCACAATTTAACTAGCACCTAAACAAGATTTTAAGTCCAGTTTAGTTTATACCT
1 ATGAAAATTAAGCCCAATTTAACTAACACCCAAACAAGATTTTAAGTCCAGTTTAGTTGACACCT
*
12821558 AG
66 AA
* * * *
12821560 AT-AAGAATTAAGCCCAATTTAACTAACACCCAGATAAGATTTTAAGTCTAGTTTAGTTGGCACC
1 ATGAA-AATTAAGCCCAATTTAACTAACACCCAAACAAGATTTTAAGTCCAGTTTAGTTGACACC
12821624 TAA
65 TAA
* *
12821627 ATGAAAGTTAAGCCAAATTTA
1 ATGAAAATTAAGCCCAATTTA
12821648 GCTGGCACCC
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
66 2 0.03
67 70 0.95
68 2 0.03
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (67 bp):
ATGAAAATTAAGCCCAATTTAACTAACACCCAAACAAGATTTTAAGTCCAGTTTAGTTGACACCT
AA
Found at i:12821695 original size:66 final size:66
Alignment explanation
Indices: 12821612--12821741 Score: 188
Period size: 66 Copynumber: 2.0 Consensus size: 66
12821602 TAAGTCTAGT
* * * *
12821612 TTAGTTGGCACCTAAATGAAAGTTAAGCCAAATTTAGCTGGCACCCAGTTGTGAATTAAGCCCAA
1 TTAGTTGGCACCCAAATGAAAGTTAAGCCAAATTTAGCAGGCACCCAGATGAGAATTAAGCCCAA
12821677 A
66 A
* * * *
12821678 TTAGTTGGCACCCAAATGAAATTTCAGCCCAGTTTAGCAGGCACCCAGATGAGAATTAAGCCCA
1 TTAGTTGGCACCCAAATGAAAGTTAAGCCAAATTTAGCAGGCACCCAGATGAGAATTAAGCCCA
12821742 GTTTCGCAGG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (66 bp):
TTAGTTGGCACCCAAATGAAAGTTAAGCCAAATTTAGCAGGCACCCAGATGAGAATTAAGCCCAA
A
Found at i:12821742 original size:33 final size:33
Alignment explanation
Indices: 12821558--12821755 Score: 123
Period size: 33 Copynumber: 6.0 Consensus size: 33
12821548 GTTTATACCT
* * *
12821558 AGATAAGAATTAAGCCCAATTTAACTA-ACACCC
1 AGATGAGAATTAAGCCCAATTTAGC-AGGCACCC
* * * * * ** *
12821591 AGATAAGATTTTAAGTCTAGTTTAGTTGGCACCT
1 AGATGAGA-ATTAAGCCCAATTTAGCAGGCACCC
* * *
12821625 AAATGA-AAGTTAAGCCAAATTTAGCTGGCACCC
1 AGATGAGAA-TTAAGCCCAATTTAGCAGGCACCC
* * * **
12821658 AGTTGTGAATTAAGCCCAAATTAGTTGGCACCC
1 AGATGAGAATTAAGCCCAATTTAGCAGGCACCC
* * *
12821691 AAATGA-AATTTCAGCCCAGTTTAGCAGGCACCC
1 AGATGAGAA-TTAAGCCCAATTTAGCAGGCACCC
* *
12821724 AGATGAGAATTAAGCCCAGTTTCGCAGGCACC
1 AGATGAGAATTAAGCCCAATTTAGCAGGCACC
12821756 GATTAGACGT
Statistics
Matches: 125, Mismatches: 34, Indels: 12
0.73 0.20 0.07
Matches are distributed among these distances:
32 2 0.02
33 100 0.80
34 23 0.18
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.25
Consensus pattern (33 bp):
AGATGAGAATTAAGCCCAATTTAGCAGGCACCC
Found at i:12821754 original size:66 final size:66
Alignment explanation
Indices: 12821618--12821755 Score: 159
Period size: 66 Copynumber: 2.1 Consensus size: 66
12821608 TAGTTTAGTT
* * * * *
12821618 GGCACCTAAATGAAAGTTAAGCCAAATTTAGCTGGCACCCAGTTGTGAATTAAGCCCAAATTAGT
1 GGCACCCAAATGAAAGTTAAGCCAAATTTAGCAGGCACCCAGATGAGAATTAAGCCCAAATTAGC
*
12821683 T
66 A
* * * * ** *
12821684 GGCACCCAAATGAAATTTCAGCCCAGTTTAGCAGGCACCCAGATGAGAATTAAGCCCAGTTTCGC
1 GGCACCCAAATGAAAGTTAAGCCAAATTTAGCAGGCACCCAGATGAGAATTAAGCCCAAATTAGC
12821749 A
66 A
12821750 GGCACC
1 GGCACC
12821756 GATTAGACGT
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.22
Consensus pattern (66 bp):
GGCACCCAAATGAAAGTTAAGCCAAATTTAGCAGGCACCCAGATGAGAATTAAGCCCAAATTAGC
A
Found at i:12821867 original size:31 final size:31
Alignment explanation
Indices: 12821826--12821890 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
12821816 CAAAAGAAAC
*
12821826 TTTTAAATTTATTTTCAAAAATTATTGAGCT
1 TTTTAAATTTATTTTCAAAAATTATTGAGAT
* * *
12821857 TTTTAGATTTATTTTCAAAAGTTGTTGAGAT
1 TTTTAAATTTATTTTCAAAAATTATTGAGAT
12821888 TTT
1 TTT
12821891 ACCTAAATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.05, G:0.11, T:0.54
Consensus pattern (31 bp):
TTTTAAATTTATTTTCAAAAATTATTGAGAT
Found at i:12821907 original size:46 final size:46
Alignment explanation
Indices: 12821857--12822112 Score: 259
Period size: 46 Copynumber: 5.6 Consensus size: 46
12821847 TTATTGAGCT
*
12821857 TTTTAGATTTATTTTCAAAAGTTGTTGAGATTTTACCTAAATGAA-C
1 TTTTAGATTTATTTTCAAAAGTTGTTGAGCTTTTACCTAAA-GAAGC
* *
12821903 TTTTAAATTTATTTTCGAAAGTTGTTGAGCCTTTT-CCTAAAGAAGC
1 TTTTAGATTTATTTTCAAAAGTTGTTGAG-CTTTTACCTAAAGAAGC
* * * * * *
12821949 TTTTAAATTTACTTTT-AAAAGTTGTTAAGTTTTTATCTAAAGGAGT
1 TTTTAGATTTA-TTTTCAAAAGTTGTTGAGCTTTTACCTAAAGAAGC
* * *
12821995 TTTTAGATTTACTTTCAAAAGTTGTTGAGCTTGTACCTAAAAAAGC
1 TTTTAGATTTATTTTCAAAAGTTGTTGAGCTTTTACCTAAAGAAGC
* * * ** *
12822041 TTTTAGATTTACTTTCAAAAGTTGTTGAACCTTTATTTATAAG-AGT
1 TTTTAGATTTATTTTCAAAAGTTGTTGAGCTTTTACCTA-AAGAAGC
* * *
12822087 TTTTAAATTTATTCTCAAAAGGTGTT
1 TTTTAGATTTATTTTCAAAAGTTGTT
12822113 AAGCCATTAC
Statistics
Matches: 175, Mismatches: 29, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
45 10 0.06
46 155 0.89
47 10 0.06
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (46 bp):
TTTTAGATTTATTTTCAAAAGTTGTTGAGCTTTTACCTAAAGAAGC
Found at i:12821911 original size:77 final size:77
Alignment explanation
Indices: 12821784--12821937 Score: 213
Period size: 77 Copynumber: 2.0 Consensus size: 77
12821774 ATCTAAGATG
12821784 AGATTCATTTTCAAAAGTTGTTGGACCTTTACCAAAAGAAACTTTTAAATTTATTTTCAAAAATT
1 AGATTCATTTTCAAAAGTTGTTGGACCTTTACCAAAAGAAACTTTTAAATTTATTTTCAAAAATT
*
12821849 ATTGAGCTTTTT
66 ATTGAGCCTTTT
* * * * *
12821861 AGATTTATTTTCAAAAGTTGTTGAGA-TTTTACCTAAATG-AACTTTTAAATTTATTTTCGAAAG
1 AGATTCATTTTCAAAAGTTGTTG-GACCTTTACC-AAAAGAAACTTTTAAATTTATTTTCAAAAA
*
12821924 TTGTTGAGCCTTTT
64 TTATTGAGCCTTTT
12821938 CCTAAAGAAG
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
77 62 0.91
78 6 0.09
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.45
Consensus pattern (77 bp):
AGATTCATTTTCAAAAGTTGTTGGACCTTTACCAAAAGAAACTTTTAAATTTATTTTCAAAAATT
ATTGAGCCTTTT
Found at i:12821976 original size:22 final size:22
Alignment explanation
Indices: 12821951--12822020 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
12821941 AAAGAAGCTT
12821951 TTAAATTTACTTTTAAAAGTTG
1 TTAAATTTACTTTTAAAAGTTG
* *
12821973 TTAAGTTT--TTATCTAAAGGAGTTT
1 TTAAATTTACTT-T-TAAA--AGTTG
* *
12821997 TTAGATTTACTTTCAAAAGTTG
1 TTAAATTTACTTTTAAAAGTTG
12822019 TT
1 TT
12822021 GAGCTTGTAC
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
20 2 0.06
21 1 0.03
22 17 0.47
24 13 0.36
25 1 0.03
26 2 0.06
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (22 bp):
TTAAATTTACTTTTAAAAGTTG
Found at i:12822016 original size:92 final size:89
Alignment explanation
Indices: 12821857--12822151 Score: 272
Period size: 92 Copynumber: 3.2 Consensus size: 89
12821847 TTATTGAGCT
* * * ** *
12821857 TTTTAGATTTATTTTCAAAAGTTGTTGAGATTTTACCTAAATGAACTTTTAAATTTATTTTCGAA
1 TTTTAAATTTATTTT-AAAAGTTGTTAAGATTTTATCTAAA-GAGTTTTTAAATTTA-TTTCAAA
*
12821922 AGTTGTTGAGCCTTTTCCTAAAGAAGC
63 AGTTGTTGAGCCTTTTCCTAAAAAAGC
* *
12821949 TTTTAAATTTACTTTTAAAAGTTGTTAAGTTTTTATCTAAAGGAGTTTTTAGATTTACTTTCAAA
1 TTTTAAATTTA-TTTTAAAAGTTGTTAAGATTTTATCTAAA-GAGTTTTTAAATTTA-TTTCAAA
*
12822014 AGTTGTTGAG-CTTGTACCTAAAAAAGC
63 AGTTGTTGAGCCTT-TTCCTAAAAAAGC
* * ** *
12822041 TTTTAGATTTACTTTCAAAAGTTGTTGAA-CCTTTATTTATAAGAGTTTTTAAATTTATTCTCAA
1 TTTTAAATTTA-TTTTAAAAGTTGTT-AAGATTTTATCTA-AAGAGTTTTTAAATTTATT-TCAA
* * * * **
12822105 AAGGTGTTAAGCC-ATTACTGAAAAAAAT
62 AAGTTGTTGAGCCTTTTCCT-AAAAAAGC
12822133 TTTTAAATTTATTTTAAAA
1 TTTTAAATTTATTTTAAAA
12822152 AACTATCAAG
Statistics
Matches: 169, Mismatches: 27, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
91 15 0.09
92 145 0.86
93 9 0.05
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.45
Consensus pattern (89 bp):
TTTTAAATTTATTTTAAAAGTTGTTAAGATTTTATCTAAAGAGTTTTTAAATTTATTTCAAAAGT
TGTTGAGCCTTTTCCTAAAAAAGC
Found at i:12822107 original size:138 final size:138
Alignment explanation
Indices: 12821856--12822115 Score: 348
Period size: 138 Copynumber: 1.9 Consensus size: 138
12821846 ATTATTGAGC
* * * * *
12821856 TTTTTAGATTTATTTTCAAAAGTTGTTGAGATTTTACCTAAATGAACTTTTAAATTTATTTTCGA
1 TTTTTAGATTTACTTTCAAAAGTTGTTGAGATTGTACCTAAATAAACTTTTAAATTTACTTTCAA
* * *
12821921 AAGTTGTTGAGCCTTTTCCTAAAGAAGCTTTTAAATTTACTTTTAAAAGTTGTTAAGTTTTTATC
66 AAGTTGTTGAACCTTTTCCTAAAGAAGCTTTTAAATTTACTTTCAAAAGGTGTTAAGTTTTTATC
12821986 TAAAGGAG
131 TAAAGGAG
* *
12821994 TTTTTAGATTTACTTTCAAAAGTTGTTGAGCTTGTACCTAAA-AAAGCTTTTAGATTTACTTTCA
1 TTTTTAGATTTACTTTCAAAAGTTGTTGAGATTGTACCTAAATAAA-CTTTTAAATTTACTTTCA
* *
12822058 AAAGTTGTTGAACCTTTAT-TTATAAG-AGTTTTTAAATTTA-TTCTCAAAAGGTGTTAAG
65 AAAGTTGTTGAACCTTT-TCCTA-AAGAAGCTTTTAAATTTACTT-TCAAAAGGTGTTAAG
12822116 CCATTACTGA
Statistics
Matches: 106, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
137 4 0.04
138 98 0.92
139 4 0.04
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (138 bp):
TTTTTAGATTTACTTTCAAAAGTTGTTGAGATTGTACCTAAATAAACTTTTAAATTTACTTTCAA
AAGTTGTTGAACCTTTTCCTAAAGAAGCTTTTAAATTTACTTTCAAAAGGTGTTAAGTTTTTATC
TAAAGGAG
Found at i:12822136 original size:138 final size:138
Alignment explanation
Indices: 12821856--12822152 Score: 334
Period size: 138 Copynumber: 2.2 Consensus size: 138
12821846 ATTATTGAGC
* * * *
12821856 TTTTTAGATTTATTTTCAAAAGTTGTTGAGATTTTACCTAAATGAACTTTTAAATTTATTTTCGA
1 TTTTTAGATTTATTTTCAAAAGTTGTTGAGATTGTACCTAAATAAACTTTTAAATTTACTTTCAA
* * * ***
12821921 AAGTTGTTGAGCCTTTTCCTAAAGAAGCTTTTAAATTTACTTTTAAAAGTTGTTAAGTTTTTATC
66 AAGTTGTTGAACCTTTTCCTAAAGAAGCTTTTAAATTTACTTTCAAAAGGTGTTAAGCCATTATC
** *
12821986 TAAAGGAG
131 TAAAAAAA
* * *
12821994 TTTTTAGATTTACTTTCAAAAGTTGTTGAGCTTGTACCTAAA-AAAGCTTTTAGATTTACTTTCA
1 TTTTTAGATTTATTTTCAAAAGTTGTTGAGATTGTACCTAAATAAA-CTTTTAAATTTACTTTCA
* *
12822058 AAAGTTGTTGAACCTTTAT-TTATAAG-AGTTTTTAAATTTA-TTCTCAAAAGGTGTTAAGCCAT
65 AAAGTTGTTGAACCTTT-TCCTA-AAGAAGCTTTTAAATTTACTT-TCAAAAGGTGTTAAGCCAT
12822120 TA-CTGAAAAAAA
127 TATCT-AAAAAAA
* *
12822132 TTTTTAAATTTATTTTAAAAA
1 TTTTTAGATTTATTTTCAAAA
12822153 ACTATCAAGT
Statistics
Matches: 133, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
137 6 0.05
138 123 0.92
139 4 0.03
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (138 bp):
TTTTTAGATTTATTTTCAAAAGTTGTTGAGATTGTACCTAAATAAACTTTTAAATTTACTTTCAA
AAGTTGTTGAACCTTTTCCTAAAGAAGCTTTTAAATTTACTTTCAAAAGGTGTTAAGCCATTATC
TAAAAAAA
Found at i:12822206 original size:11 final size:11
Alignment explanation
Indices: 12822192--12822228 Score: 65
Period size: 11 Copynumber: 3.3 Consensus size: 11
12822182 TTTAAAAAAC
12822192 AAACAAAACAA
1 AAACAAAACAA
12822203 AAACAAAAACAA
1 AAAC-AAAACAA
12822215 AAACAAAACAA
1 AAACAAAACAA
12822226 AAA
1 AAA
12822229 AAATTTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (11 bp):
AAACAAAACAA
Found at i:12822207 original size:6 final size:6
Alignment explanation
Indices: 12822192--12822228 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
12822182 TTTAAAAAAC
12822192 AAAC-A AAACAA AAACAA AAACAA AAAC-A AAACAA AAA
1 AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA AAA
12822229 AAATTTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 9 0.30
6 21 0.70
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACAA
Found at i:12822212 original size:17 final size:17
Alignment explanation
Indices: 12822192--12822228 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
12822182 TTTAAAAAAC
12822192 AAAC-AAAACAAAAACAA
1 AAACAAAAAC-AAAACAA
12822209 AAACAAAAACAAAACAA
1 AAACAAAAACAAAACAA
12822226 AAA
1 AAA
12822229 AAATTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (17 bp):
AAACAAAAACAAAACAA
Found at i:12822238 original size:23 final size:23
Alignment explanation
Indices: 12822192--12822264 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 23
12822182 TTTAAAAAAC
**
12822192 AAACAAAACAAAAACAAA-AACAA
1 AAACAAAACAAAAA-AAATTTCAA
12822215 AAACAAAACAAAAAAAATTTCAA
1 AAACAAAACAAAAAAAATTTCAA
* *
12822238 AAA-AAAAAAGAAAGAAAATTTTAA
1 AAACAAAACA-AAA-AAAATTTCAA
12822262 AAA
1 AAA
12822265 AATTAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
22 8 0.19
23 23 0.53
24 12 0.28
ACGTcount: A:0.78, C:0.10, G:0.03, T:0.10
Consensus pattern (23 bp):
AAACAAAACAAAAAAAATTTCAA
Found at i:12822266 original size:24 final size:24
Alignment explanation
Indices: 12822213--12822266 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
12822203 AAACAAAAAC
*
12822213 AAAAACAAAACAAAAAAAATTTCA
1 AAAAAAAAAACAAAAAAAATTTCA
* * *
12822237 AAAAAAAAAAGAAAGAAAATTTTA
1 AAAAAAAAAACAAAAAAAATTTCA
12822261 AAAAAA
1 AAAAAA
12822267 TTAAAAAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.78, C:0.06, G:0.04, T:0.13
Consensus pattern (24 bp):
AAAAAAAAAACAAAAAAAATTTCA
Found at i:12822287 original size:15 final size:15
Alignment explanation
Indices: 12822269--12822297 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12822259 TAAAAAAATT
12822269 AAAAAATCTAAAAAC
1 AAAAAATCTAAAAAC
12822284 AAAAAATCTAAAAA
1 AAAAAATCTAAAAA
12822298 TTTTAAACAA
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:0.76, C:0.10, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAAAATCTAAAAAC
Found at i:12822319 original size:21 final size:20
Alignment explanation
Indices: 12822293--12822370 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 20
12822283 CAAAAAATCT
*
12822293 AAAAATTTTAAACAATTTT-A
1 AAAAAATTTAAA-AATTTTCA
12822313 AAAAAATTTAAAAATTTTCCAA
1 AAAAAATTTAAAAATTTT-C-A
** *
12822335 AAAAAATAAAAAAAGTTAAT-A
1 AAAAAATTTAAAAA-TT-TTCA
12822356 AAAAAATTTAAAAAT
1 AAAAAATTTAAAAAT
12822371 CCTTGAATTG
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
19 6 0.13
20 12 0.26
21 13 0.28
22 13 0.28
23 2 0.04
24 1 0.02
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (20 bp):
AAAAAATTTAAAAATTTTCA
Found at i:12822367 original size:10 final size:10
Alignment explanation
Indices: 12822284--12822369 Score: 52
Period size: 9 Copynumber: 8.4 Consensus size: 10
12822274 ATCTAAAAAC
*
12822284 AAAAAATCT-
1 AAAAAATTTA
*
12822293 AAAAATTTTA
1 AAAAAATTTA
* *
12822303 AACAATTTTA
1 AAAAAATTTA
12822313 AAAAAATTT-
1 AAAAAATTTA
*
12822322 AAAAATTTTCCA
1 AAAAAATTT--A
*
12822334 AAAAAA-ATA
1 AAAAAATTTA
12822343 AAAAAAGTTAATA
1 AAAAAA-TT--TA
12822356 AAAAAATTTA
1 AAAAAATTTA
12822366 AAAA
1 AAAA
12822370 TCCTTGAATT
Statistics
Matches: 60, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
9 22 0.37
10 22 0.37
11 1 0.02
12 7 0.12
13 8 0.13
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.28
Consensus pattern (10 bp):
AAAAAATTTA
Found at i:12826958 original size:56 final size:56
Alignment explanation
Indices: 12826858--12826993 Score: 150
Period size: 56 Copynumber: 2.4 Consensus size: 56
12826848 AAGCCAAATA
* * * **
12826858 AAAAAAATATAATGAAGTCATATAAACGATATAATAAAGCCTAAACTAAAAGA-GCG
1 AAAAAAATATAATAAAGCCAAATAAAAAATATAATAAAGCCTAAACTAAAA-ATGCG
* * *
12826914 AAAAAAATATAATAAAGCCAAATAAAAAATATAAT-AAGATCTAAATTAAAAATGTG
1 AAAAAAATATAATAAAGCCAAATAAAAAATATAATAAAG-CCTAAACTAAAAATGCG
*
12826970 AAAATAATATAATAAAGCCTAAAT
1 AAAAAAATATAATAAAGCC-AAAT
12826994 TAATAAAGTG
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
55 4 0.06
56 60 0.88
57 4 0.06
ACGTcount: A:0.61, C:0.08, G:0.09, T:0.22
Consensus pattern (56 bp):
AAAAAAATATAATAAAGCCAAATAAAAAATATAATAAAGCCTAAACTAAAAATGCG
Found at i:12826980 original size:34 final size:33
Alignment explanation
Indices: 12826937--12827008 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 33
12826927 AAAGCCAAAT
*
12826937 AAAAAATATAAT-AAGATCTAAATTAA-AAATGTG
1 AAAAAATATAATAAAG-CCTAAATTAATAAA-GTG
12826970 AAAATAATATAATAAAGCCTAAATTAATAAAGTG
1 AAAA-AATATAATAAAGCCTAAATTAATAAAGTG
12827004 AAAAA
1 AAAAA
12827009 TATGATATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
33 5 0.14
34 24 0.69
35 6 0.17
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.25
Consensus pattern (33 bp):
AAAAAATATAATAAAGCCTAAATTAATAAAGTG
Found at i:12827668 original size:13 final size:12
Alignment explanation
Indices: 12827649--12827700 Score: 61
Period size: 13 Copynumber: 4.2 Consensus size: 12
12827639 TGATAATTTA
12827649 AAATATGATATG
1 AAATATGATATG
12827661 ATAATATGATAT-
1 A-AATATGATATG
*
12827673 AAATACGATATG
1 AAATATGATATG
*
12827685 AAAATAAGATATG
1 -AAATATGATATG
12827698 AAA
1 AAA
12827701 GTGACACCGT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 9 0.26
12 5 0.14
13 21 0.60
ACGTcount: A:0.56, C:0.02, G:0.13, T:0.29
Consensus pattern (12 bp):
AAATATGATATG
Found at i:12827682 original size:24 final size:24
Alignment explanation
Indices: 12827649--12827696 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12827639 TGATAATTTA
* * *
12827649 AAATATGATATGATAATATGATAT
1 AAATACGATATGAAAATAAGATAT
12827673 AAATACGATATGAAAATAAGATAT
1 AAATACGATATGAAAATAAGATAT
12827697 GAAAGTGACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.54, C:0.02, G:0.12, T:0.31
Consensus pattern (24 bp):
AAATACGATATGAAAATAAGATAT
Found at i:12830934 original size:28 final size:32
Alignment explanation
Indices: 12830880--12830943 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 32
12830870 GTGTATTTAA
12830880 TTTAATTTTATATTGAATTTATCTAATGATGT
1 TTTAATTTTATATTGAATTTATCTAATGATGT
* *
12830912 TTTAA-TTTAT-TTG-A-TTATTTAATGATTT
1 TTTAATTTTATATTGAATTTATCTAATGATGT
12830940 TTTA
1 TTTA
12830944 TACATAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 16 0.53
29 1 0.03
30 3 0.10
31 5 0.17
32 5 0.17
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.61
Consensus pattern (32 bp):
TTTAATTTTATATTGAATTTATCTAATGATGT
Found at i:12832452 original size:16 final size:17
Alignment explanation
Indices: 12832427--12832459 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12832417 AAGCATCTTC
*
12832427 AAATT-TTTTTTAAAAA
1 AAATTCTTTTATAAAAA
12832443 AAATTCTTTTATAAAAA
1 AAATTCTTTTATAAAAA
12832460 GACCGTAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATTCTTTTATAAAAA
Found at i:12833045 original size:30 final size:31
Alignment explanation
Indices: 12832991--12833060 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
12832981 ATTAATTTTT
* *
12832991 TAAT-TTTTTAATTATATATATATTTATATAA
1 TAATATTTTTAA-TATATATATATTTAAAAAA
* *
12833022 TGATATTTTTAA-ATATTTATATTTAAAAAA
1 TAATATTTTTAATATATATATATTTAAAAAA
12833052 TAATATTTT
1 TAATATTTT
12833061 ATTAATTTCG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
30 23 0.70
31 3 0.09
32 7 0.21
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (31 bp):
TAATATTTTTAATATATATATATTTAAAAAA
Found at i:12837891 original size:2 final size:2
Alignment explanation
Indices: 12837884--12837910 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12837874 CTTATTTTCT
12837884 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
12837911 CATACTCTTT
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:12839663 original size:25 final size:24
Alignment explanation
Indices: 12839622--12839668 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
12839612 AACCAAATTT
* *
12839622 AAAAAAGGAAAATGAAAAAAAAAA
1 AAAAAAAGAAAAGGAAAAAAAAAA
* *
12839646 AAAAAAAGAAAAGGGAAAGAAAA
1 AAAAAAAGAAAAGGAAAAAAAAA
12839669 GAGAAATAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (24 bp):
AAAAAAAGAAAAGGAAAAAAAAAA
Found at i:12842918 original size:25 final size:24
Alignment explanation
Indices: 12842864--12842918 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
12842854 GCCGTTTTTG
* *
12842864 TTTTTCTTTGGTATTTTATTTATT
1 TTTTTATTTAGTATTTTATTTATT
12842888 TATTTTATTTAGTATTTT-TCTTAGTT
1 T-TTTTATTTAGTATTTTAT-TTA-TT
12842914 TTTTT
1 TTTTT
12842919 TTCCTTCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 2 0.08
25 21 0.81
26 3 0.12
ACGTcount: A:0.15, C:0.04, G:0.07, T:0.75
Consensus pattern (24 bp):
TTTTTATTTAGTATTTTATTTATT
Found at i:12842947 original size:21 final size:19
Alignment explanation
Indices: 12842903--12842948 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
12842893 TATTTAGTAT
12842903 TTTTCTTAGTTTTTTTTTC
1 TTTTCTTAGTTTTTTTTTC
*
12842922 -CTTCTTAGTACTTTTTTTTC
1 TTTTCTTAGT--TTTTTTTTC
12842942 TTTTCTT
1 TTTTCTT
12842949 TCATGATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 8 0.36
20 9 0.41
21 5 0.23
ACGTcount: A:0.07, C:0.15, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTTCTTAGTTTTTTTTTC
Found at i:12843170 original size:17 final size:19
Alignment explanation
Indices: 12843148--12843187 Score: 66
Period size: 17 Copynumber: 2.2 Consensus size: 19
12843138 TTTTCAAACC
12843148 AAAAAAA-ATAAAAA-ATA
1 AAAAAAACATAAAAATATA
12843165 AAAAAAACATAAAAATATA
1 AAAAAAACATAAAAATATA
12843184 AAAA
1 AAAA
12843188 TCTTTAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.33
18 7 0.33
19 7 0.33
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (19 bp):
AAAAAAACATAAAAATATA
Found at i:12843171 original size:18 final size:19
Alignment explanation
Indices: 12843148--12843187 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
12843138 TTTTCAAACC
12843148 AAAAAAAATAAAAA-ATAA
1 AAAAAAAATAAAAATATAA
*
12843166 AAAAAACATAAAAATATAA
1 AAAAAAAATAAAAATATAA
12843185 AAA
1 AAA
12843188 TCTTTAGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (19 bp):
AAAAAAAATAAAAATATAA
Found at i:12847304 original size:16 final size:16
Alignment explanation
Indices: 12847280--12847311 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12847270 ATATAAAGTA
*
12847280 TATTGAAATTATTAAT
1 TATTAAAATTATTAAT
12847296 TATTAAAATTATTAAT
1 TATTAAAATTATTAAT
12847312 ATTTGAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TATTAAAATTATTAAT
Found at i:12847367 original size:19 final size:18
Alignment explanation
Indices: 12847332--12847376 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
12847322 TAATTATATT
12847332 TTAATAATAATATTTAATA
1 TTAA-AATAATATTTAATA
*
12847351 TTAAAATATTATATTAATA
1 TTAAAATAATAT-TTAATA
12847370 -TAAAATA
1 TTAAAATA
12847377 CTTAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAAAATAATATTTAATA
Found at i:12847465 original size:46 final size:45
Alignment explanation
Indices: 12847338--12847507 Score: 127
Period size: 44 Copynumber: 3.7 Consensus size: 45
12847328 TATTTTAATA
* * * *
12847338 ATAATATTTAATATTAAAATA-TTATATTAATATAAAATACTTAAAAT
1 ATAATATTTATTCTTAAAATATTTATATT-TTATTAAA-A-TTAAAAT
* * *** * *
12847385 AAAACTATTTATTATTTTTATATTAATATTTTA--AAATATTTAAA-
1 ATAA-TATTTATTCTTAAAATATTTATATTTTATTAAA-ATTAAAAT
12847429 ATAATATTACTATTCTTAAAATA-TTAT-TTTTATTAAAATTAAAATT
1 ATAATATT--TATTCTTAAAATATTTATATTTTATTAAAATTAAAA-T
12847475 ATAATATTTATTCTTAAAATATTTATATTTTAT
1 ATAATATTTATTCTTAAAATATTTATATTTTAT
12847508 ATTGCAAGTA
Statistics
Matches: 98, Mismatches: 15, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
43 9 0.09
44 25 0.26
45 21 0.21
46 19 0.19
47 3 0.03
48 15 0.15
49 6 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (45 bp):
ATAATATTTATTCTTAAAATATTTATATTTTATTAAAATTAAAAT
Found at i:12853168 original size:24 final size:24
Alignment explanation
Indices: 12853117--12853180 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
12853107 GTGAAACAAG
**
12853117 AATCACTGGAGCCTGTAAAAATCG
1 AATCACTGGAGCCTGTAAAAATAA
* **
12853141 AATCACTGGCGCCTGTGCAAATAA
1 AATCACTGGAGCCTGTAAAAATAA
**
12853165 AATCTGTGGAGCCTGT
1 AATCACTGGAGCCTGT
12853181 GAAACAGGAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.23
Consensus pattern (24 bp):
AATCACTGGAGCCTGTAAAAATAA
Found at i:12856776 original size:7 final size:7
Alignment explanation
Indices: 12856720--12856889 Score: 139
Period size: 7 Copynumber: 26.0 Consensus size: 7
12856710 GGGTTAATTA
12856720 AGGGTTT
1 AGGGTTT
12856727 A-GG-TT
1 AGGGTTT
12856732 AGGGTTT
1 AGGGTTT
* **
12856739 TGATTTT
1 AGGGTTT
12856746 A-GGTTT
1 AGGGTTT
* *
12856752 AAGGTTA
1 AGGGTTT
12856759 AGGGTTT
1 AGGGTTT
12856766 --GGTTT
1 AGGGTTT
*
12856771 GGGGTTT
1 AGGGTTT
*
12856778 AGGGCTT
1 AGGGTTT
12856785 AGGGTTT
1 AGGGTTT
*
12856792 A-GATTT
1 AGGGTTT
*
12856798 AGTGTTT
1 AGGGTTT
12856805 AGGG-TT
1 AGGGTTT
*
12856811 ATGGTTT
1 AGGGTTT
12856818 AGGG-TT
1 AGGGTTT
12856824 AGGGTTT
1 AGGGTTT
*
12856831 AGGATTT
1 AGGGTTT
*
12856838 AGAGTTT
1 AGGGTTT
*
12856845 AGAGTTT
1 AGGGTTT
12856852 --GGTTT
1 AGGGTTT
12856857 AGGGTTT
1 AGGGTTT
12856864 AGGGTTT
1 AGGGTTT
12856871 AGGGTTT
1 AGGGTTT
12856878 A--GTTT
1 AGGGTTT
12856883 AGGGTTT
1 AGGGTTT
12856890 TGGAATGCAT
Statistics
Matches: 129, Mismatches: 22, Indels: 24
0.74 0.13 0.14
Matches are distributed among these distances:
5 17 0.13
6 24 0.19
7 88 0.68
ACGTcount: A:0.17, C:0.01, G:0.37, T:0.45
Consensus pattern (7 bp):
AGGGTTT
Found at i:12856797 original size:53 final size:51
Alignment explanation
Indices: 12856720--12856888 Score: 168
Period size: 53 Copynumber: 3.3 Consensus size: 51
12856710 GGGTTAATTA
* * *
12856720 AGGGTTTA-GGTTAGGGTTTTGATTTTAGGTTTAAGGTTAAGGGTTT-GGTTT
1 AGGGTTTAGGGTTAGGGTTTAGA-TTTAGGTTTAGGGTT-AGGGTTTAGGGTT
* *
12856771 GGGGTTTAGGGCTTAGGGTTTAGATTTAGTGTTTAGGGTTATGGTTTAGGGTT
1 AGGGTTTAGGG-TTAGGGTTTAGATTTAG-GTTTAGGGTTAGGGTTTAGGGTT
* *
12856824 AGGGTTTAGGATTTAGAGTTTAGAGTTT-GGTTTAGGGTTTAGGGTTTAGGGTTT
1 AGGGTTTAGG-GTTAGGGTTTAGA-TTTAGGTTTAGGG-TTAGGGTTTAGGG-TT
12856878 A--GTTTAGGGTT
1 AGGGTTTAGGGTT
12856889 TTGGAATGCA
Statistics
Matches: 100, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
51 9 0.09
52 28 0.28
53 57 0.57
54 6 0.06
ACGTcount: A:0.17, C:0.01, G:0.37, T:0.45
Consensus pattern (51 bp):
AGGGTTTAGGGTTAGGGTTTAGATTTAGGTTTAGGGTTAGGGTTTAGGGTT
Found at i:12856804 original size:13 final size:13
Alignment explanation
Indices: 12856720--12856872 Score: 84
Period size: 13 Copynumber: 11.7 Consensus size: 13
12856710 GGGTTAATTA
12856720 AGGGTTTAG-GTT
1 AGGGTTTAGAGTT
* *
12856732 AGGGTTTTGATTTT
1 AGGGTTTAGA-GTT
12856746 A-GGTTTA-AGGTT
1 AGGGTTTAGA-GTT
12856758 AAGGGTTT-G-GTTT
1 -AGGGTTTAGAG-TT
* *
12856771 GGGGTTTAGGGCTT
1 AGGGTTTAGAG-TT
*
12856785 AGGGTTTAGATTT
1 AGGGTTTAGAGTT
* *
12856798 AGTGTTTAGGGTT
1 AGGGTTTAGAGTT
* *
12856811 ATGGTTTAGGGTT
1 AGGGTTTAGAGTT
*
12856824 AGGGTTTAGGATTT
1 AGGGTTTA-GAGTT
*
12856838 AGAGTTTAGAGTT
1 AGGGTTTAGAGTT
* *
12856851 -TGGTTTAGGGTTT
1 AGGGTTTAGAG-TT
12856864 AGGGTTTAG
1 AGGGTTTAG
12856873 GGTTTAGTTT
Statistics
Matches: 106, Mismatches: 24, Indels: 20
0.71 0.16 0.13
Matches are distributed among these distances:
12 25 0.24
13 45 0.42
14 36 0.34
ACGTcount: A:0.18, C:0.01, G:0.37, T:0.44
Consensus pattern (13 bp):
AGGGTTTAGAGTT
Found at i:12856820 original size:33 final size:32
Alignment explanation
Indices: 12856747--12856889 Score: 116
Period size: 33 Copynumber: 4.4 Consensus size: 32
12856737 TTTGATTTTA
* * *
12856747 GGTTTAAGGTTAAGGGTTT-GGTTTGGGGTTT
1 GGTTTAGGGTTTAGGGTTTAGGTTTAGGGTTT
* *
12856778 AGGGCTTAGGGTTTA-GATTTAGTGTTTAGGGTTAT
1 --GGTTTAGGGTTTAGGGTTTAG-GTTTAGGGTT-T
*
12856813 GGTTTAGGG-TTAGGGTTTAGGATTTAGAGTTT
1 GGTTTAGGGTTTAGGGTTTAGG-TTTAGGGTTT
12856845 AGAGTTT--GGTTTAGGGTTTAGGGTTTAGGGTTT
1 -G-GTTTAGGGTTTAGGGTTTA-GGTTTAGGGTTT
*
12856878 AGTTTAGGGTTT
1 GGTTTAGGGTTT
12856890 TGGAATGCAT
Statistics
Matches: 89, Mismatches: 10, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
31 4 0.04
32 11 0.12
33 58 0.65
34 15 0.17
35 1 0.01
ACGTcount: A:0.17, C:0.01, G:0.38, T:0.45
Consensus pattern (32 bp):
GGTTTAGGGTTTAGGGTTTAGGTTTAGGGTTT
Found at i:12856889 original size:26 final size:27
Alignment explanation
Indices: 12856722--12856889 Score: 138
Period size: 26 Copynumber: 6.4 Consensus size: 27
12856712 GTTAATTAAG
* **
12856722 GGTTTA-GG-TTAGGGTTTTGATTTTA
1 GGTTTAGGGTTTAGGGTTTAGGGTTTA
* * *
12856747 GGTTTAAGGTTAAGGGTTT--GGTTTGG
1 GGTTTAGGGTTTAGGGTTTAGGGTTT-A
* *
12856773 GGTTTAGGGCTTAGGGTTTA-GATTTA
1 GGTTTAGGGTTTAGGGTTTAGGGTTTA
*
12856799 GTGTTTAGGG-TTATGGTTTAGGG-TTA
1 G-GTTTAGGGTTTAGGGTTTAGGGTTTA
* * *
12856825 GGGTTTAGGATTTAGAGTTTAGAGTTT-
1 -GGTTTAGGGTTTAGGGTTTAGGGTTTA
12856852 GGTTTAGGGTTTAGGGTTTAGGGTTTA
1 GGTTTAGGGTTTAGGGTTTAGGGTTTA
12856879 -GTTTAGGGTTT
1 GGTTTAGGGTTT
12856890 TGGAATGCAT
Statistics
Matches: 115, Mismatches: 18, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
25 9 0.08
26 72 0.63
27 32 0.28
28 2 0.02
ACGTcount: A:0.17, C:0.01, G:0.37, T:0.46
Consensus pattern (27 bp):
GGTTTAGGGTTTAGGGTTTAGGGTTTA
Found at i:12857242 original size:19 final size:20
Alignment explanation
Indices: 12857198--12857243 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
12857188 CCATTTTCGG
*
12857198 AAATGTTTATAATATTCTGGA
1 AAAT-TTTATAATATTCTGAA
*
12857219 AAATTTTATAGTATTCT-AA
1 AAATTTTATAATATTCTGAA
12857238 AAATTT
1 AAATTT
12857244 ATTTTTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
20 12 0.52
21 4 0.17
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (20 bp):
AAATTTTATAATATTCTGAA
Found at i:12857276 original size:34 final size:34
Alignment explanation
Indices: 12857238--12857312 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
12857228 AGTATTCTAA
*
12857238 AAATTTATTTTTGAAAAG-TTATATG-ATTTTCTTG
1 AAATTTATTTTCGAAAAGATT-TA-GAATTTTCTTG
* *
12857272 AAATTCATTTTCGAAAAGATTTAGAATTTTTTTG
1 AAATTTATTTTCGAAAAGATTTAGAATTTTCTTG
12857306 AAATTTA
1 AAATTTA
12857313 ATTCCAGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
33 1 0.03
34 32 0.91
35 2 0.06
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (34 bp):
AAATTTATTTTCGAAAAGATTTAGAATTTTCTTG
Found at i:12859449 original size:19 final size:20
Alignment explanation
Indices: 12859425--12859465 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
12859415 GTTGATGTTG
12859425 TTTG-TTTGTT-TTTCTTTTT
1 TTTGTTTTGTTGTTT-TTTTT
12859444 TTTGTTTTGTTGTTTTTTTT
1 TTTGTTTTGTTGTTTTTTTT
12859464 TT
1 TT
12859466 AAAGAATGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 13 0.65
21 3 0.15
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.85
Consensus pattern (20 bp):
TTTGTTTTGTTGTTTTTTTT
Found at i:12859922 original size:41 final size:41
Alignment explanation
Indices: 12859502--12859991 Score: 299
Period size: 41 Copynumber: 12.0 Consensus size: 41
12859492 CAAGAAACTT
* * * **
12859502 TGGATTCAC-ATAAGAGAAAATGATTCACAGTTAGAGGTTTC
1 TGGATTCACAATAA-AGTAAATGATTCATAGTTGGAGGACTC
* ** * * *
12859543 TAGATTCAC-ATAAAAAATAATGATTCATGGTTGGAAGATTC
1 TGGATTCACAATAAAGTA-AATGATTCATAGTTGGAGGACTC
* * *
12859584 AT-GATTCACAATAAAGCAAATGATTCATAGTTGGAAGATTC
1 -TGGATTCACAATAAAGTAAATGATTCATAGTTGGAGGACTC
** * * * * * * **
12859625 AAGATTCACATTAAAGAAAATTATTAATTGTTGAAAAACTC
1 TGGATTCACAATAAAGTAAATGATTCATAGTTGGAGGACTC
* * * *
12859666 TTGATTCACAATAAAGTAAACGATTCATAGTTTGAAGGACTT
1 TGGATTCACAATAAAGTAAATGATTCATAG-TTGGAGGACTC
* * * * * **
12859708 TGAATTCATAA-AAGAGTGAATGATTTATAGTTTGAAAACTC
1 TGGATTCACAATAA-AGTAAATGATTCATAGTTGGAGGACTC
* * * *
12859749 TAGATTCATAATAGAGTAAACGATTCATAGTTGGAGGACTC
1 TGGATTCACAATAAAGTAAATGATTCATAGTTGGAGGACTC
* * * *
12859790 TGGGTTCACAATAAAGTAAACGATTCACAGTTGGAGAACTC
1 TGGATTCACAATAAAGTAAATGATTCATAGTTGGAGGACTC
* * * ** * * *
12859831 TGG-TTCATAACAGAGTAAACAATTCATAGTTGTAGG-GTT
1 TGGATTCACAATAAAGTAAATGATTCATAGTTGGAGGACTC
* * * *
12859870 TGAATTCACAACAAAGAAAATGATTCATAGTCGGAGGACTC
1 TGGATTCACAATAAAGTAAATGATTCATAGTTGGAGGACTC
* * * * *
12859911 TGGATTCACAACAGAGTAAATGGTTCACAGTTGGAGGACTT
1 TGGATTCACAATAAAGTAAATGATTCATAGTTGGAGGACTC
* * * ** *
12859952 TGGGTTCATAATAGAGTAAACAATTCACAGTTGGAGGACT
1 TGGATTCACAATAAAGTAAATGATTCATAGTTGGAGGACT
12859992 TTGGGTTCTC
Statistics
Matches: 352, Mismatches: 88, Indels: 18
0.77 0.19 0.04
Matches are distributed among these distances:
39 3 0.01
40 55 0.16
41 257 0.73
42 37 0.11
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (41 bp):
TGGATTCACAATAAAGTAAATGATTCATAGTTGGAGGACTC
Found at i:12860128 original size:18 final size:18
Alignment explanation
Indices: 12860116--12860166 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
12860106 AAAAAATTTC
*
12860116 AATATTCATAAAAGTTTT
1 AATATTCATAAAAGTTTA
* *
12860134 AAGATTCATAAGAGTTTA
1 AATATTCATAAAAGTTTA
*
12860152 AATATTCGTAAAAGT
1 AATATTCATAAAAGT
12860167 CAAATGCTCA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (18 bp):
AATATTCATAAAAGTTTA
Found at i:12860367 original size:70 final size:71
Alignment explanation
Indices: 12860244--12860472 Score: 243
Period size: 71 Copynumber: 3.2 Consensus size: 71
12860234 CCAAAGATCG
* * * * * *
12860244 ACAAACTCTAAAGATTCACAATAGTCAAGGACTTGTAAATTTCAAAG-TCTCATAAGAGGGGTTA
1 ACAAATTCCAAAGATTCGCAAGAGTCAAAGACTTGAAAATTTCAAAGAT-TCATAAGAGGGGTTA
12860308 AAAATT-
65 AAAATTC
* * *
12860314 ACTAATAT-CAAAGATTTGCAAGAGTCAAAGATTTGAAAATTTCAAAGATTCATAAGAGGGGTTA
1 ACAAAT-TCCAAAGATTCGCAAGAGTCAAAGACTTGAAAATTTCAAAGATTCATAAGAGGGGTTA
*
12860378 AAGATTC
65 AAAATTC
* * * *
12860385 ACAAATTCCAGAGATTCGCAAGAGTCAAAAAGTT-AAAATTTTCAAA-AGTTCATAAGAAGGGTT
1 ACAAATTCCAAAGATTCGCAAGAGTCAAAGACTTGAAAA-TTTCAAAGA-TTCATAAGAGGGGTT
*
12860448 AAAGATTC
64 AAAAATTC
*
12860456 ACAACTTCCAAAGATTC
1 ACAAATTCCAAAGATTC
12860473 ACAAACATAA
Statistics
Matches: 135, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
70 62 0.46
71 73 0.54
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.27
Consensus pattern (71 bp):
ACAAATTCCAAAGATTCGCAAGAGTCAAAGACTTGAAAATTTCAAAGATTCATAAGAGGGGTTAA
AAATTC
Found at i:12863284 original size:14 final size:13
Alignment explanation
Indices: 12863267--12863318 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
12863257 TAGGTTTTTA
12863267 GGTTTAGGGTATAG
1 GGTTTAGGGT-TAG
*
12863281 GGTTTTAGTGTTAG
1 GG-TTTAGGGTTAG
* *
12863295 GGTTTAAGGTTTG
1 GGTTTAGGGTTAG
*
12863308 GATTTAGGGTT
1 GGTTTAGGGTT
12863319 CAAAGTTTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 17 0.55
14 7 0.23
15 7 0.23
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.44
Consensus pattern (13 bp):
GGTTTAGGGTTAG
Found at i:12863286 original size:21 final size:21
Alignment explanation
Indices: 12863257--12863306 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
12863247 TGGGTTAGAT
*
12863257 TAGGTTTTTAG-GTTTAGGGTA
1 TAGGGTTTTAGTG-TTAGGGTA
*
12863278 TAGGGTTTTAGTGTTAGGGTT
1 TAGGGTTTTAGTGTTAGGGTA
*
12863299 TAAGGTTT
1 TAGGGTTT
12863307 GGATTTAGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.34, T:0.48
Consensus pattern (21 bp):
TAGGGTTTTAGTGTTAGGGTA
Found at i:12863316 original size:20 final size:20
Alignment explanation
Indices: 12863291--12863367 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
12863281 GGTTTTAGTG
12863291 TTAGGGTTTAAGGTTTGGAT
1 TTAGGGTTTAAGGTTTGGAT
* *
12863311 TTAGGGTTCAAAGTTTGGAT
1 TTAGGGTTTAAGGTTTGGAT
* * *
12863331 TTAGGGTTTGAGATTTAGGGT
1 TTAGGGTTTAAGGTTT-GGAT
*
12863352 TT-GGATTTAAGGTTTG
1 TTAGGGTTTAAGGTTTG
12863368 ATGGGAGATT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
19 1 0.02
20 40 0.87
21 5 0.11
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.44
Consensus pattern (20 bp):
TTAGGGTTTAAGGTTTGGAT
Found at i:12863358 original size:13 final size:13
Alignment explanation
Indices: 12863323--12863367 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
12863313 AGGGTTCAAA
12863323 GTTTGGATTTAGG
1 GTTTGGATTTAGG
12863336 GTTTGAGATTTAGG
1 GTTTG-GATTTAGG
*
12863350 GTTTGGATTTAAG
1 GTTTGGATTTAGG
12863363 GTTTG
1 GTTTG
12863368 ATGGGAGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 17 0.57
14 13 0.43
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.47
Consensus pattern (13 bp):
GTTTGGATTTAGG
Found at i:12865794 original size:5 final size:5
Alignment explanation
Indices: 12865773--12865846 Score: 69
Period size: 5 Copynumber: 14.8 Consensus size: 5
12865763 AAGGAGGTTT
* * ** * *
12865773 TTTTA TTTATT TTTTA TTTTA TTTTG TTTTA TGGT- TTTTG TTTTG TTTTA
1 TTTTA TTT-TA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
*
12865823 TTTTG TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTT
12865847 TGTTTAATGT
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
4 2 0.04
5 50 0.89
6 4 0.07
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:12865804 original size:15 final size:15
Alignment explanation
Indices: 12865773--12865846 Score: 87
Period size: 15 Copynumber: 4.9 Consensus size: 15
12865763 AAGGAGGTTT
*
12865773 TTTTATTTATTTTTTA
1 TTTTATTT-TGTTTTA
12865789 TTTTATTTTGTTTTA
1 TTTTATTTTGTTTTA
** *
12865804 TGGT-TTTTGTTTTG
1 TTTTATTTTGTTTTA
12865818 TTTTATTTTGTTTTA
1 TTTTATTTTGTTTTA
*
12865833 TTTTATTTTATTTT
1 TTTTATTTTGTTTT
12865847 TGTTTAATGT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
14 11 0.22
15 30 0.61
16 8 0.16
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.80
Consensus pattern (15 bp):
TTTTATTTTGTTTTA
Found at i:12865852 original size:15 final size:15
Alignment explanation
Indices: 12865769--12865852 Score: 57
Period size: 15 Copynumber: 5.3 Consensus size: 15
12865759 GTTGAAGGAG
12865769 GTTT-TTTTATTTATT
1 GTTTATTTTATTT-TT
*
12865784 TTTTATTTTA-TTTT
1 GTTTATTTTATTTTT
*
12865798 GTTTTATGGTTTTTGTTTT
1 G-TTTAT--TTTAT-TTTT
*
12865817 GTTTTATTTTGTTTTAT
1 G-TTTATTTTATTTT-T
12865834 -TTTATTTTATTTTT
1 GTTTATTTTATTTTT
12865848 GTTTA
1 GTTTA
12865853 ATGTTTTTGA
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
14 3 0.05
15 26 0.46
16 8 0.14
17 8 0.14
19 11 0.20
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.79
Consensus pattern (15 bp):
GTTTATTTTATTTTT
Found at i:12866212 original size:40 final size:39
Alignment explanation
Indices: 12866149--12866334 Score: 115
Period size: 40 Copynumber: 4.6 Consensus size: 39
12866139 GACTAAAAAA
*
12866149 TCATTAAAAAAATTTAAGATTTTGCCCTGAGGTCTTAGAAT
1 TCATT-AAAAAATCTAAGATTTTGCCC-GAGGTCTTAGAAT
* * * * *
12866190 TCTTTAAAAAATCTAAGGTTTTGCCCGAAAGTCTTGGAAA
1 TCATTAAAAAATCTAAGATTTTGCCCG-AGGTCTTAGAAT
* * * *
12866230 TCATTCAAAAATTTAAGATGTTGCCCAAAGGTCTTAGAACT
1 TCATTAAAAAATCTAAGATTTTGCCC-GAGGTCTTAGAA-T
* * * * * *
12866271 T-AGTAAAAAAATCCAAGGTTTTGTCCGAAAGTCTT-GAAAA
1 TCA-TTAAAAAATCTAAGATTTTGCCCG-AGGTCTTAG-AAT
* * *
12866311 TCATTCAACAATTTAAGATTTTGC
1 TCATTAAAAAATCTAAGATTTTGC
12866335 TTGGAGGTCT
Statistics
Matches: 106, Mismatches: 32, Indels: 15
0.69 0.21 0.10
Matches are distributed among these distances:
39 1 0.01
40 75 0.71
41 30 0.28
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (39 bp):
TCATTAAAAAATCTAAGATTTTGCCCGAGGTCTTAGAAT
Found at i:12866265 original size:80 final size:81
Alignment explanation
Indices: 12866145--12866334 Score: 265
Period size: 81 Copynumber: 2.3 Consensus size: 81
12866135 AGAGGACTAA
* ** ** * *
12866145 AAAATCATTAAAAAAATTTAAGATTTTGCCCTGAGGTCTTAGAA-TTCTTTAAAAAATCTAAGGT
1 AAAATCATT-CAAAAATTTAAGATTTTGCCCAAAGGTCTTAGAACTTAGTAAAAAAATCCAAGGT
12866209 TTTGCCCGAAAGTCTTG
65 TTTGCCCGAAAGTCTTG
* *
12866226 GAAATCATTCAAAAATTTAAGATGTTGCCCAAAGGTCTTAGAACTTAGTAAAAAAATCCAAGGTT
1 AAAATCATTCAAAAATTTAAGATTTTGCCCAAAGGTCTTAGAACTTAGTAAAAAAATCCAAGGTT
*
12866291 TTGTCCGAAAGTCTTG
66 TTGCCCGAAAGTCTTG
*
12866307 AAAATCATTCAACAATTTAAGATTTTGC
1 AAAATCATTCAAAAATTTAAGATTTTGC
12866335 TTGGAGGTCT
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 30 0.32
81 65 0.68
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (81 bp):
AAAATCATTCAAAAATTTAAGATTTTGCCCAAAGGTCTTAGAACTTAGTAAAAAAATCCAAGGTT
TTGCCCGAAAGTCTTG
Found at i:12868417 original size:24 final size:24
Alignment explanation
Indices: 12868375--12868422 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
12868365 TCTCTTTTTA
*
12868375 TTTCATGTCTTTCCCTTTTCTTTC
1 TTTCATGTCTTTCACTTTTCTTTC
* * *
12868399 TTTCATTTCTTTCATTTTTTTTTC
1 TTTCATGTCTTTCACTTTTCTTTC
12868423 ACCATTTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.06, C:0.23, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTCATGTCTTTCACTTTTCTTTC
Found at i:12868428 original size:23 final size:23
Alignment explanation
Indices: 12868402--12868445 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
12868392 TTCTTTCTTT
12868402 CATTTCTTTCATTTTTTTTTCAC
1 CATTTCTTTCATTTTTTTTTCAC
* **
12868425 CATTTTTTTTGTTTTTTTTTC
1 CATTTCTTTCATTTTTTTTTC
12868446 CTTGAGTGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.73
Consensus pattern (23 bp):
CATTTCTTTCATTTTTTTTTCAC
Found at i:12872824 original size:37 final size:35
Alignment explanation
Indices: 12872777--12872859 Score: 85
Period size: 37 Copynumber: 2.3 Consensus size: 35
12872767 TGGATGGGAT
* *
12872777 GAATGTATGTACCATCTATTAACATGTGCATGAAATG
1 GAATGCATGTACCATCCATTAACATG-G-ATGAAATG
* * * *
12872814 GAATGCATGTACTATCCATTGATATGGATGAGATG
1 GAATGCATGTACCATCCATTAACATGGATGAAATG
*
12872849 GAATACATGTA
1 GAATGCATGTA
12872860 GTATCCCATT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 17 0.44
36 1 0.03
37 21 0.54
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (35 bp):
GAATGCATGTACCATCCATTAACATGGATGAAATG
Found at i:12872858 original size:35 final size:35
Alignment explanation
Indices: 12872755--12872865 Score: 107
Period size: 35 Copynumber: 3.1 Consensus size: 35
12872745 GCCTATCATA
* * *
12872755 TATCTATTGATATGGATGGGAT-GAATGTATGTAC
1 TATCCATTGATATGGATGAGATGGAATGCATGTAC
* * * * *
12872789 CATCTATTAACATGTGCATGAAATGGAATGCATGTAC
1 TATCCATTGATATG-G-ATGAGATGGAATGCATGTAC
* *
12872826 TATCCATTGATATGGATGAGATGGAATACATGTAG
1 TATCCATTGATATGGATGAGATGGAATGCATGTAC
12872861 TATCC
1 TATCC
12872866 CATTACTATG
Statistics
Matches: 61, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
34 11 0.18
35 23 0.38
36 6 0.10
37 21 0.34
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (35 bp):
TATCCATTGATATGGATGAGATGGAATGCATGTAC
Found at i:12873903 original size:25 final size:25
Alignment explanation
Indices: 12873886--12874065 Score: 198
Period size: 25 Copynumber: 7.2 Consensus size: 25
12873876 AATATATAAT
*
12873886 AAATGACATAATTAAAATATACATG
1 AAATGACATAATTAAAATATGCATG
* *
12873911 AAATGGCATGATTAAAATATGCATG
1 AAATGACATAATTAAAATATGCATG
* *
12873936 AAATGACATATTTACAATATGCATG
1 AAATGACATAATTAAAATATGCATG
* * *
12873961 AAATGACATGATTACAATATGTATG
1 AAATGACATAATTAAAATATGCATG
* *
12873986 AAATGACATATTTAAAGTATGCATG
1 AAATGACATAATTAAAATATGCATG
* * * *
12874011 AAATGACATATTTATAATATGCCTA
1 AAATGACATAATTAAAATATGCATG
* * * *
12874036 AAATGATATATTTACAATATCCATG
1 AAATGACATAATTAAAATATGCATG
12874061 AAATG
1 AAATG
12874066 TAAAACACAC
Statistics
Matches: 131, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 131 1.00
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (25 bp):
AAATGACATAATTAAAATATGCATG
Found at i:12873965 original size:75 final size:75
Alignment explanation
Indices: 12873886--12874065 Score: 236
Period size: 75 Copynumber: 2.4 Consensus size: 75
12873876 AATATATAAT
* *
12873886 AAATGACATAATTAAAATATACATGAAATGGCATGA-TTAAAATATGCATGAAATGACATATTTA
1 AAATGACATAATTACAATATACATGAAATGACAT-ATTTAAAATATGCATGAAATGACATATTTA
*
12873950 CAATATGCATG
65 CAATATGCATA
* ** * *
12873961 AAATGACATGATTACAATATGTATGAAATGACATATTTAAAGTATGCATGAAATGACATATTTAT
1 AAATGACATAATTACAATATACATGAAATGACATATTTAAAATATGCATGAAATGACATATTTAC
*
12874026 AATATGCCTA
66 AATATGCATA
* * *
12874036 AAATGATATATTTACAATATCCATGAAATG
1 AAATGACATAATTACAATATACATGAAATG
12874066 TAAAACACAC
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
74 1 0.01
75 89 0.99
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (75 bp):
AAATGACATAATTACAATATACATGAAATGACATATTTAAAATATGCATGAAATGACATATTTAC
AATATGCATA
Found at i:12875170 original size:29 final size:28
Alignment explanation
Indices: 12875138--12875211 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
12875128 TTAGGGTCTA
*
12875138 GTTTAGGCTTTAAGGTTTTT-AGGTTTAAG
1 GTTTAGG-TTTAAGGTTTTTAAAG-TTAAG
* *
12875167 GTTTAGGTTTTAGGGTTTTTAAAGTTAGG
1 GTTTAGG-TTTAAGGTTTTTAAAGTTAAG
12875196 GTTTAGGTTTAAGGTT
1 GTTTAGGTTTAAGGTT
12875212 AAGGTTTAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 8 0.21
29 29 0.74
30 2 0.05
ACGTcount: A:0.20, C:0.01, G:0.30, T:0.49
Consensus pattern (28 bp):
GTTTAGGTTTAAGGTTTTTAAAGTTAAG
Found at i:12875173 original size:13 final size:13
Alignment explanation
Indices: 12875138--12875251 Score: 63
Period size: 13 Copynumber: 8.3 Consensus size: 13
12875128 TTAGGGTCTA
12875138 GTTTAGGCTTTAAG
1 GTTTAGG-TTTAAG
12875152 GTTTTTAGGTTTAAG
1 G--TTTAGGTTTAAG
*
12875167 GTTTAGGTTTTAGG
1 GTTTAGG-TTTAAG
* *
12875181 GTTTTTAAAG-TTAGG
1 G--TTT-AGGTTTAAG
12875196 GTTTAGGTTTAAG
1 GTTTAGGTTTAAG
*
12875209 GTTAAGGTTT-AG
1 GTTTAGGTTTAAG
*
12875221 GATTT-GGATTTAGG
1 G-TTTAGG-TTTAAG
**
12875235 GTTCGGGTTTAAG
1 GTTTAGGTTTAAG
12875248 GTTT
1 GTTT
12875252 GGATTTAGGG
Statistics
Matches: 79, Mismatches: 10, Indels: 23
0.71 0.09 0.21
Matches are distributed among these distances:
12 7 0.09
13 37 0.47
14 11 0.14
15 13 0.16
16 9 0.11
17 2 0.03
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.46
Consensus pattern (13 bp):
GTTTAGGTTTAAG
Found at i:12875232 original size:26 final size:26
Alignment explanation
Indices: 12875203--12875316 Score: 99
Period size: 26 Copynumber: 4.3 Consensus size: 26
12875193 AGGGTTTAGG
*
12875203 TTTAAGGTTAAGGTTTAGGATTTGGA
1 TTTAGGGTTAAGGTTTAGGATTTGGA
**
12875229 TTTAGGGTTCGGGTTTAAGG-TTTGGA
1 TTTAGGGTTAAGGTTT-AGGATTTGGA
12875255 TTTAGGGTTCAA-GTTTAGGGA-TTGGA
1 TTTAGGGTT-AAGGTTTA-GGATTTGGA
* ** *
12875281 TTTGGGGTTTGGGATTTAGGGTTTGGA
1 TTTAGGGTTAAGG-TTTAGGATTTGGA
*
12875308 TTTAAGGTT
1 TTTAGGGTT
12875317 TGATGGGAGA
Statistics
Matches: 70, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
25 1 0.01
26 50 0.71
27 19 0.27
ACGTcount: A:0.19, C:0.02, G:0.36, T:0.43
Consensus pattern (26 bp):
TTTAGGGTTAAGGTTTAGGATTTGGA
Found at i:12875258 original size:13 final size:13
Alignment explanation
Indices: 12875216--12875318 Score: 100
Period size: 13 Copynumber: 7.8 Consensus size: 13
12875206 AAGGTTAAGG
*
12875216 TTTAGGATTTGGA
1 TTTAGGGTTTGGA
* *
12875229 TTTAGGGTTCGGG
1 TTTAGGGTTTGGA
*
12875242 TTTAAGGTTTGGA
1 TTTAGGGTTTGGA
**
12875255 TTTAGGG-TTCAA
1 TTTAGGGTTTGGA
*
12875267 GTTTAGGGATTGGA
1 -TTTAGGGTTTGGA
*
12875281 TTTGGGGTTTGGGA
1 TTTAGGGTTT-GGA
12875295 TTTAGGGTTTGGA
1 TTTAGGGTTTGGA
*
12875308 TTTAAGGTTTG
1 TTTAGGGTTTG
12875319 ATGGGAGATT
Statistics
Matches: 72, Mismatches: 15, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
12 3 0.04
13 54 0.75
14 15 0.21
ACGTcount: A:0.17, C:0.02, G:0.37, T:0.44
Consensus pattern (13 bp):
TTTAGGGTTTGGA
Found at i:12882979 original size:76 final size:77
Alignment explanation
Indices: 12882888--12883058 Score: 219
Period size: 76 Copynumber: 2.3 Consensus size: 77
12882878 CTAAAATGTA
12882888 TTTTTTGGAAATTTTATTTTAGAAATTGCATTTT--AGAAAAAATTGATACTTTCAAC-TTTTCC
1 TTTTTTGGAAATTTTATTTTAGAAATTGCATTTTCAAG-AAAAATTGATACTTTCAACTTTTTCC
* *
12882950 T-CAAAATACTTTTT
65 TAAAAAATA--TTAT
* * **
12882964 TTTTTTGGAAATTTTATTTCAGTAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCT
1 TTTTTTGGAAATTTTATTTTAGAAATTGCATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCT
12883029 AAAAAATATTAT
66 AAAAAATATTAT
12883041 TTTTTT--AAATTTTATTTT
1 TTTTTTGGAAATTTTATTTT
12883059 TAAGGAAAAC
Statistics
Matches: 84, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
75 11 0.13
76 30 0.36
77 28 0.33
78 9 0.11
79 6 0.07
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (77 bp):
TTTTTTGGAAATTTTATTTTAGAAATTGCATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCT
AAAAAATATTAT
Found at i:12883042 original size:60 final size:61
Alignment explanation
Indices: 12882972--12883100 Score: 154
Period size: 61 Copynumber: 2.1 Consensus size: 61
12882962 TTTTTTTTGG
* *
12882972 AAATTTTATTTCAGT-AATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTC-CTAAA
1 AAATATTATTTCAGTAAATTTTATTTTCAAGAAAAACTGATACTTTCAAC-TTTTCACTAAA
*** * * *
12883032 AAATATTATTTTTTTAAATTTTATTTTTAAGGAAAACTGATACTTTTAACTTTTCACTAAA
1 AAATATTATTTCAGTAAATTTTATTTTCAAGAAAAACTGATACTTTCAACTTTTCACTAAA
12883093 AATATATT
1 AA-ATATT
12883101 TTTTGGAATT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 16 0.28
61 37 0.64
62 5 0.09
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (61 bp):
AAATATTATTTCAGTAAATTTTATTTTCAAGAAAAACTGATACTTTCAACTTTTCACTAAA
Found at i:12883115 original size:60 final size:61
Alignment explanation
Indices: 12882987--12883125 Score: 171
Period size: 61 Copynumber: 2.3 Consensus size: 61
12882977 TTATTTCAGT
* * * *
12882987 AATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCTAAAAAATATTATTTTTTTA
1 AATTTTATTTTTAAGGAAAACTGATACTTTCAACTTTTTCCTAAAAAATATTATTTTTTGA
* *
12883048 AATTTTATTTTTAAGGAAAACTGATACTTTTAAC-TTTTCACT-AAAAATA-TATTTTTTGG
1 AATTTTATTTTTAAGGAAAACTGATACTTTCAACTTTTTC-CTAAAAAATATTATTTTTTGA
12883107 AATTTT-TATTTT-AGGAAAA
1 AATTTTAT-TTTTAAGGAAAA
12883126 TCATTAAAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
58 8 0.11
59 18 0.26
60 12 0.17
61 32 0.46
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.48
Consensus pattern (61 bp):
AATTTTATTTTTAAGGAAAACTGATACTTTCAACTTTTTCCTAAAAAATATTATTTTTTGA
Found at i:12883145 original size:12 final size:11
Alignment explanation
Indices: 12883130--12883172 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 11
12883120 GGAAAATCAT
12883130 TAAAAAAAGAAA
1 TAAAAAAA-AAA
12883142 TAAAATAATAAAA
1 TAAAA-AA-AAAA
12883155 TAAAAATAAAAA
1 TAAAAA-AAAAA
12883167 TAAAAA
1 TAAAAA
12883173 TGAAGGAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 16 0.57
13 11 0.39
14 1 0.04
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.16
Consensus pattern (11 bp):
TAAAAAAAAAA
Found at i:12883151 original size:3 final size:3
Alignment explanation
Indices: 12883140--12883198 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
12883130 TAAAAAAAGA
* * * *
12883140 AAT AA- AAT AAT AA- AAT AAA AAT AAA AAT AAA AAT GAAGG AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AA-T AAT AAT
12883185 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
12883199 ATCAATCAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
2 4 0.09
3 36 0.82
4 4 0.09
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (3 bp):
AAT
Found at i:12883989 original size:3 final size:3
Alignment explanation
Indices: 12883981--12884129 Score: 88
Period size: 3 Copynumber: 44.7 Consensus size: 3
12883971 TAAAGTCAAA
12883981 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAAT AAAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT -AAT -AAT
*
12884030 AAAT AAAT AAAT AGAT AAT AAAT AAAT AA- ATAT ATT AAT AGAT AAAT
1 -AAT -AAT -AAT A-AT AAT -AAT -AAT AAT A-AT AAT AAT A-AT -AAT
*
12884077 AAT AA- AA- AAT AATT AAT AGAT AAAT AAT AAT AAA AAT AAAT AAAT
1 AAT AAT AAT AAT AA-T AAT A-AT -AAT AAT AAT AAT AAT -AAT -AAT
*
12884122 AAA AAT AA
1 AAT AAT AA
12884130 AAATGCAAAT
Statistics
Matches: 128, Mismatches: 6, Indels: 24
0.81 0.04 0.15
Matches are distributed among these distances:
2 5 0.04
3 65 0.51
4 56 0.44
5 2 0.02
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:12884000 original size:27 final size:27
Alignment explanation
Indices: 12883978--12884130 Score: 116
Period size: 24 Copynumber: 6.0 Consensus size: 27
12883968 AGATAAAGTC
12883978 AAAAATAATAATA-ATAAT-AAT-AAT
1 AAAAATAATAATAGATAATAAATAAAT
* *
12884002 AATAATAATAATAAATAAATAAATAAAT
1 AAAAATAATAATAGAT-AATAAATAAAT
*
12884030 AAATA-AATAAATAGATAATAAATAAAT
1 AAAAATAAT-AATAGATAATAAATAAAT
* *
12884057 AAATATATTAATAG---ATAAAT-AAT
1 AAAAATAATAATAGATAATAAATAAAT
12884080 AAAAAATAATTAATAGATAA-ATAAT-AAT
1 -AAAAATAA-TAATAGATAATA-AATAAAT
*
12884108 AAAAAT-A-AATAAATAA-AAATAAA
1 AAAAATAATAATAGATAATAAATAAA
12884131 AATGCAAATG
Statistics
Matches: 108, Mismatches: 8, Indels: 26
0.76 0.06 0.18
Matches are distributed among these distances:
23 6 0.06
24 35 0.32
25 8 0.07
26 4 0.04
27 34 0.31
28 21 0.19
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (27 bp):
AAAAATAATAATAGATAATAAATAAAT
Found at i:12884020 original size:4 final size:4
Alignment explanation
Indices: 12884011--12884124 Score: 121
Period size: 4 Copynumber: 29.5 Consensus size: 4
12884001 TAATAATAAT
*
12884011 AATA AATA AATA AATA AATA AATA AATA AATA GAT- AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
* * * * *
12884058 AATA TATT AATA GATA AAT- AATA AA-A AAT- AATT AATA GATA AAT-
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
*
12884102 AATA ATAAA AATA AATA AATA AA
1 AATA A-ATA AATA AATA AATA AA
12884125 AATAAAAATG
Statistics
Matches: 91, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
3 14 0.15
4 74 0.81
5 3 0.03
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (4 bp):
AATA
Found at i:12884588 original size:130 final size:130
Alignment explanation
Indices: 12884318--12884661 Score: 349
Period size: 130 Copynumber: 2.7 Consensus size: 130
12884308 TTTTGATCAA
* * * * *
12884318 AGCTCCTCTAACAAAGGCTCAACGCCTTTGAGAAATATAAACAAAGCTCCTCTAAGCAAAGGCTC
1 AGCTCCTCTAACAGAGGCTCAACGACTTTG-GAAAAATAAATAAAGCTCCTCTAAACAAAGGCTC
* * * * * * * * *
12884383 AATGAC-TTAAAAAAATAAACATAGCTTCTCTAATCAGAGGTTCAATGACTTAAAAAAATAAACA
65 AATAACTTTGAAAAAATAAATAAAACTCCTATAATCAGAGGCTCAACGACTTAAAAAAATAAACA
12884447 T
130 T
* *
12884448 AGCTCTTCTAATCAGAGTCTCAACGACTTTGGAAAAATAAATAAAGCTCCTCTAAACAAAGGCTC
1 AGCTCCTCTAA-CAGAGGCTCAACGACTTTGGAAAAATAAATAAAGCTCCTCTAAACAAAGGCTC
*
12884513 AATAACTTTGAAAAAATAAATAAAACTCCTATAAAT-AGAGGCTCAACGACTTTGAAAAAAT-AA
65 AATAACTTTGAAAAAATAAATAAAACTCCTAT-AATCAGAGGCTCAACGAC-TTAAAAAAATAAA
12884576 -AT
128 CAT
* ** * * * * * * *
12884578 TGCTCCTCTAAACAGAGGCTCAATAATTTTGAAAAAATACAT--TGCTTCTCTAAATAGAGGCTC
1 AGCTCCTCT-AACAGAGGCTCAACGACTTTGGAAAAATAAATAAAGCTCCTCTAAACAAAGGCTC
*
12884641 AACAACTTTGAAAAAATAAAT
65 AATAACTTTGAAAAAATAAAT
12884662 TGCTCCTCTA
Statistics
Matches: 179, Mismatches: 30, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
128 37 0.21
130 79 0.44
131 51 0.28
132 12 0.07
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (130 bp):
AGCTCCTCTAACAGAGGCTCAACGACTTTGGAAAAATAAATAAAGCTCCTCTAAACAAAGGCTCA
ATAACTTTGAAAAAATAAATAAAACTCCTATAATCAGAGGCTCAACGACTTAAAAAAATAAACAT
Found at i:12884597 original size:42 final size:42
Alignment explanation
Indices: 12884318--12884680 Score: 300
Period size: 44 Copynumber: 8.5 Consensus size: 42
12884308 TTTTGATCAA
* * * *
12884318 AGCTCCTCT-AACAAAGGCTCAACGCCTTTGAGAAATATAAACAA
1 AGCTCCTCTAAACAGAGGCTCAACGACTTTGA-AAAAAT-AA-AT
* * * *
12884362 AGCTCCTCTAAGCAAAGGCTCAATGAC-TTAAAAAAATAAACAT
1 AGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAAT-AA-AT
* * * * *
12884405 AGCTTCTCTAATCAGAGGTTCAATGAC-TTAAAAAAATAAACAT
1 AGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAAT-AA-AT
* * * *
12884448 AGCTCTTCTAATCAGAGTCTCAACGACTTTGGAAAAATAAAT
1 AGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAAT
* **
12884490 AAAGCTCCTCTAAACAAAGGCTCAATAACTTTGAAAAAATAAAT
1 --AGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAAT
* * *
12884534 AAAACTCCTATAAATAGAGGCTCAACGACTTTGAAAAAATAAAT
1 --AGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAAT
* ** * *
12884578 TGCTCCTCTAAACAGAGGCTCAATAATTTTGAAAAAATACAT
1 AGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAAT
* * * *
12884620 TGCTTCTCTAAATAGAGGCTCAACAACTTTGAAAAAATAAAT
1 AGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAAT
* *
12884662 TGCTCCTCTAAATAGAGGC
1 AGCTCCTCTAAACAGAGGC
12884681 AACAGAACTT
Statistics
Matches: 271, Mismatches: 44, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
42 91 0.34
43 73 0.27
44 93 0.34
45 14 0.05
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.25
Consensus pattern (42 bp):
AGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAAT
Found at i:12884652 original size:84 final size:85
Alignment explanation
Indices: 12884319--12884680 Score: 302
Period size: 86 Copynumber: 4.2 Consensus size: 85
12884309 TTTGATCAAA
* *** * * * ** *
12884319 GCTCCTCT-AACAAAGGCTCAACGCCTTTGAGAAATATAAACAAAGCTCCTCTAAGCAAAGGCTC
1 GCTCCTCTAAACAGAGGCTCAATAACTTTGA-AAAAATAAATAAA-CTCCTATAAATAGAGGCTC
* * *
12884383 AATGAC-TTAAAAAAATAAACATA
64 AACGACTTTGAAAAAAT-AA-ATT
* * * * * * * * * *
12884406 GCTTCTCTAATCAGAGGTTCAATGAC-TTAAAAAAATAAACATAGCTCTTCT-AATCAGAGTCTC
1 GCTCCTCTAAACAGAGGCTCAATAACTTTGAAAAAATAAATA-AACTCCTATAAAT-AGAGGCTC
* *
12884469 AACGACTTTGGAAAAATAAATAAA
64 AACGACTTTGAAAAAATAAAT--T
*
12884493 GCTCCTCTAAACAAAGGCTCAATAACTTTGAAAAAATAAATAAAACTCCTATAAATAGAGGCTCA
1 GCTCCTCTAAACAGAGGCTCAATAACTTTGAAAAAATAAAT-AAACTCCTATAAATAGAGGCTCA
12884558 ACGACTTTGAAAAAATAAATT
65 ACGACTTTGAAAAAATAAATT
* * ** * *
12884579 GCTCCTCTAAACAGAGGCTCAATAATTTTGAAAAAATACAT-TGCTTCTCTAAATAGAGGCTCAA
1 GCTCCTCTAAACAGAGGCTCAATAACTTTGAAAAAATAAATAAACTCCTATAAATAGAGGCTCAA
*
12884643 CAACTTTGAAAAAATAAATT
66 CGACTTTGAAAAAATAAATT
*
12884663 GCTCCTCTAAATAGAGGC
1 GCTCCTCTAAACAGAGGC
12884681 AACAGAACTT
Statistics
Matches: 227, Mismatches: 39, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
84 55 0.24
85 3 0.01
86 67 0.30
87 41 0.18
88 57 0.25
89 4 0.02
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.25
Consensus pattern (85 bp):
GCTCCTCTAAACAGAGGCTCAATAACTTTGAAAAAATAAATAAACTCCTATAAATAGAGGCTCAA
CGACTTTGAAAAAATAAATT
Found at i:12884690 original size:42 final size:42
Alignment explanation
Indices: 12884516--12884752 Score: 198
Period size: 42 Copynumber: 5.6 Consensus size: 42
12884506 AAGGCTCAAT
** *
12884516 AACTTTGAAAAAATAAATAAAACTCCTATAAATAGAGGCTCAAC-G
1 AACTTTGAAAAAATAAAT--TGCTCCTCTAAATAGAGG--CAACAG
* * *
12884561 -ACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGC-TCAAT
1 AACTTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAAC-AG
* * *
12884602 AATTTTGAAAAAATACATTGCTTCTCTAAATAGAGGCTCAAC--
1 AACTTTGAAAAAATAAATTGCTCCTCTAAATAGAGG--CAACAG
12884644 AACTTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAG
1 AACTTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAG
** * * * * * *
12884686 AACTTTTGGGAAAATAAATGGCTCTTATAAATAAAGGCAATAA
1 AAC-TTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAG
*
12884729 AACTTT-AAAAAATAAATGGCTCCT
1 AACTTTGAAAAAATAAATTGCTCCT
12884753 TGAAAATCAT
Statistics
Matches: 158, Mismatches: 25, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
39 1 0.01
40 5 0.03
41 15 0.09
42 84 0.53
43 34 0.22
44 18 0.11
45 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.27
Consensus pattern (42 bp):
AACTTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAG
Found at i:12884717 original size:43 final size:41
Alignment explanation
Indices: 12884486--12884752 Score: 132
Period size: 42 Copynumber: 6.4 Consensus size: 41
12884476 TTGGAAAAAT
* * *
12884486 AAATAAA--GCTCCTCTAAACAAAGGC-TCAATAACTTTGAAA
1 AAATAAATGGCTCCTATAAATAAAGGCAACAA-AACTTT-AAA
** * * *
12884526 AAATAAATAAAACTCCTATAAATAGAGGC-TCAACGACTTTGAAA
1 AAATAAAT--GGCTCCTATAAATAAAGGCAACAA-AACTTT-AAA
* * * * * *
12884570 AAATAAATTGCTCCTCTAAACAGAGGC-TCAATAATTTTGAAA
1 AAATAAATGGCTCCTATAAATAAAGGCAACAA-AACTTT-AAA
* * * * * *
12884612 AAATACATTGCTTCTCTAAATAGAGGC-TCAACAACTTTGAAA
1 AAATAAATGGCTCCTATAAATAAAGGCAACAA-AACTTT-AAA
* * * * **
12884654 AAATAAATTGCTCCTCTAAATAGAGGCAACAGAACTTTTGGGA
1 AAATAAATGGCTCCTATAAATAAAGGCAACAAAAC-TTT-AAA
* *
12884697 AAATAAATGGCTCTTATAAATAAAGGCAATAAAACTTTAAA
1 AAATAAATGGCTCCTATAAATAAAGGCAACAAAACTTTAAA
12884738 AAATAAATGGCTCCT
1 AAATAAATGGCTCCT
12884753 TGAAAATCAT
Statistics
Matches: 188, Mismatches: 33, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
40 7 0.04
41 15 0.08
42 95 0.51
43 36 0.19
44 35 0.19
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.26
Consensus pattern (41 bp):
AAATAAATGGCTCCTATAAATAAAGGCAACAAAACTTTAAA
Found at i:12884739 original size:84 final size:84
Alignment explanation
Indices: 12884466--12884752 Score: 269
Period size: 84 Copynumber: 3.4 Consensus size: 84
12884456 TAATCAGAGT
* * * * * *
12884466 CTCAACGACTTTGGAAAAATAAATAAAGCTCCTCTAAACAAAGGCTCAATAACTTTGAAAAAATA
1 CTCAACAACTTTGAAAAAATAAAT--TGCTCCTCTAAACAGAGGCACAATAATTTTGAAAAAATA
** * *
12884531 AATAAAACTCCTATAAATAGAGG
64 AAT--GGCTTCTATAAATAAAGG
* * *
12884554 CTCAACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCTCAATAATTTTGAAAAAATACA
1 CTCAACAACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACAATAATTTTGAAAAAATAAA
* * *
12884619 TTGCTTCTCTAAATAGAGG
66 TGGCTTCTATAAATAAAGG
* * **
12884638 CTCAACAACTTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAGA-ACTTTTGGGAAAATA
1 CTCAACAACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGC-ACA-ATAATTTTGAAAAAATA
12884702 AATGGC-TCTTATAAATAAAGG
64 AATGGCTTC-TATAAATAAAGG
*
12884723 CAAT-AA-AACTTT-AAAAAATAAATGGCTCCT
1 C--TCAACAACTTTGAAAAAATAAATTGCTCCT
12884753 TGAAAATCAT
Statistics
Matches: 174, Mismatches: 20, Indels: 14
0.84 0.10 0.07
Matches are distributed among these distances:
84 74 0.43
85 35 0.20
86 41 0.24
87 1 0.01
88 23 0.13
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.26
Consensus pattern (84 bp):
CTCAACAACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACAATAATTTTGAAAAAATAAA
TGGCTTCTATAAATAAAGG
Found at i:12885787 original size:20 final size:20
Alignment explanation
Indices: 12885764--12885810 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
12885754 TTGAGTCCTC
12885764 TTTTTTCTTTATTTTT-TTTA
1 TTTTTTCTTT-TTTTTCTTTA
*
12885784 TTTTTTCTTTTTTTTCTTTT
1 TTTTTTCTTTTTTTTCTTTA
12885804 TTTTTTC
1 TTTTTTC
12885811 AAGCATAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.04, C:0.09, G:0.00, T:0.87
Consensus pattern (20 bp):
TTTTTTCTTTTTTTTCTTTA
Found at i:12885796 original size:16 final size:15
Alignment explanation
Indices: 12885775--12885809 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
12885765 TTTTTCTTTA
12885775 TTTTTTTTATTTTTT
1 TTTTTTTTATTTTTT
*
12885790 CTTTTTTTTCTTTTTT
1 -TTTTTTTTATTTTTT
12885806 TTTT
1 TTTT
12885810 CAAGCATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.91
Consensus pattern (15 bp):
TTTTTTTTATTTTTT
Found at i:12896537 original size:75 final size:76
Alignment explanation
Indices: 12896443--12896613 Score: 222
Period size: 76 Copynumber: 2.3 Consensus size: 76
12896433 CCAAAATGTA
* * *
12896443 TTTTTTGGAAATTTTATTTTAGAAATTGCATTTT-AGGGAAAATTGATACTTTCAACTTTT-CCT
1 TTTTTTTGAAATTTTATTTTAGAAATTGCATTTTCAAGAAAAATTGATACTTTCAACTTTTCCCT
**
12896506 CGAAATACTT-T
66 AAAAATA-TTAT
* **
12896517 TTTTTTTGAAAATTTTATTTTAGTAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCC
1 TTTTTTTG-AAATTTTATTTTAGAAATTGCATTTTCAAGAAAAATTGATACTTTCAACTTTTCCC
12896582 TAAAAATATTAT
65 TAAAAATATTAT
*
12896594 TATTTTTGAAATTTTATTTT
1 TTTTTTTGAAATTTTATTTT
12896614 TAAGAAAAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
74 7 0.08
75 23 0.27
76 38 0.45
77 16 0.19
ACGTcount: A:0.32, C:0.09, G:0.08, T:0.51
Consensus pattern (76 bp):
TTTTTTTGAAATTTTATTTTAGAAATTGCATTTTCAAGAAAAATTGATACTTTCAACTTTTCCCT
AAAAATATTAT
Found at i:12896607 original size:62 final size:60
Alignment explanation
Indices: 12896531--12896681 Score: 223
Period size: 62 Copynumber: 2.5 Consensus size: 60
12896521 TTTGAAAATT
* *
12896531 TTATTTTAGTAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTA
1 TTATTTTTGAAATTTTATTTT-AAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TA
*
12896593 TTATTTTTGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCCTAAAAATATA
1 TTATTTTTGAAATTTTA-TTTTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATA
*
12896654 TT-TTTTTAGAATTTTTATTTTAAGAAAA
1 TTATTTTT-GAAATTTTATTTTAAGAAAA
12896682 TCATTAAAAA
Statistics
Matches: 83, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
60 16 0.19
61 12 0.14
62 51 0.61
63 4 0.05
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (60 bp):
TTATTTTTGAAATTTTATTTTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATA
Found at i:12897555 original size:4 final size:4
Alignment explanation
Indices: 12897541--12897675 Score: 67
Period size: 4 Copynumber: 35.5 Consensus size: 4
12897531 AAAATCAAAA
*
12897541 AAAT AAAAT AAAT -AAT -AAT -AAT -AAT -AAT AGAT -AA- AAAT AAAT
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * *
12897583 AGAT -AAT TAAT AAAT AAAT AAAT AAAAT ATAT TAAT AGAT AAAT -AAT
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT
* * * *
12897630 AAAA AAAT TAAT AGAT AAAT -AAT TAAT AAAAT ATAAT -AAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT A-AAT AAAT AAAT AA
12897676 TAATAATAAT
Statistics
Matches: 102, Mismatches: 18, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
3 29 0.28
4 59 0.58
5 14 0.14
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (4 bp):
AAAT
Found at i:12897557 original size:3 final size:3
Alignment explanation
Indices: 12897542--12897704 Score: 106
Period size: 3 Copynumber: 51.7 Consensus size: 3
12897532 AAATCAAAAA
*
12897542 AAT AA- AAT AAAT AAT AAT AAT AAT AAT AGAT AAA AAT AAAT AGAT AATT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT A-AT AAT AAT -AAT A-AT AA-T
* *
12897591 AAT AAAT AAAT AAAT AA- AAT -AT ATT AAT AGAT AAAT AAT AA- AAA
1 AAT -AAT -AAT -AAT AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AAT
12897635 AATT AAT AGAT AAAT AATT AAT AA- AAT -AT AAT AAT AAAT AAT AAT
1 AA-T AAT A-AT -AAT AA-T AAT AAT AAT AAT AAT AAT -AAT AAT AAT
*
12897680 AAT AAT AAT AAT AAT -AT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
12897705 AAATGCAAAT
Statistics
Matches: 133, Mismatches: 7, Indels: 40
0.74 0.04 0.22
Matches are distributed among these distances:
2 14 0.11
3 75 0.56
4 42 0.32
5 2 0.02
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:12897642 original size:73 final size:71
Alignment explanation
Indices: 12897542--12897707 Score: 189
Period size: 73 Copynumber: 2.3 Consensus size: 71
12897532 AAATCAAAAA
*
12897542 AATAA-AATAAATAATAATAATAATAATAGATAAA-AATAAATAGATAAT-TAATAAATAAATAA
1 AATAATAATAAATAATAA-AAAAATAATAGATAAATAATAAATA-A-AATATAAT-AATAAAT-A
12897604 ATAA-AAT-AT
61 ATAATAATAAT
* *
12897613 ATTAATAGATAAATAATAAAAAAATTAATAGATAAATAATTAATAAAATATAATAATAAATAATA
1 AATAATA-ATAAATAATAAAAAAA-TAATAGATAAATAATAAATAAAATATAATAATAAATAATA
12897678 ATAATAAT
64 ATAATAAT
*
12897686 AATAATAATATAAAAATAAAAA
1 AATAATAATA-AATAATAAAAA
12897708 TGCAAATGGG
Statistics
Matches: 82, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
71 9 0.11
72 21 0.26
73 45 0.55
74 7 0.09
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (71 bp):
AATAATAATAAATAATAAAAAAATAATAGATAAATAATAAATAAAATATAATAATAAATAATAAT
AATAAT
Found at i:12897699 original size:40 final size:39
Alignment explanation
Indices: 12897546--12897705 Score: 134
Period size: 40 Copynumber: 3.9 Consensus size: 39
12897536 CAAAAAAATA
12897546 AAATAAATAATAATAATAATAATAGATA-AAAATAAATAGAT
1 AAAT-AATAATAATAATAATAATA-ATATAAAATAAATA-AT
*
12897587 AATTAATAAATAAATAAATAA-AAT-ATATTAATAGATAAATAAT
1 AAATAAT-AAT-AAT-AATAATAATAATA-TAA-A-ATAAATAAT
*
12897630 AAA-AA-AATTAATAGATAAATAATTA-ATAAAATATAATAAT
1 AAATAATAA-TAATA-AT-AATAATAATATAAAATA-AATAAT
12897670 AAATAATAATAATAATAATAATAATATAAAAATAAA
1 AAATAATAATAATAATAATAATAATAT-AAAATAAA
12897706 AATGCAAATG
Statistics
Matches: 99, Mismatches: 3, Indels: 35
0.72 0.02 0.26
Matches are distributed among these distances:
39 11 0.11
40 29 0.29
41 25 0.25
42 16 0.16
43 11 0.11
44 7 0.07
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (39 bp):
AAATAATAATAATAATAATAATAATATAAAATAAATAAT
Found at i:12897855 original size:18 final size:18
Alignment explanation
Indices: 12897832--12897867 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
12897822 AGCTAAGTTG
12897832 GGTGATAGGATTACCTAT
1 GGTGATAGGATTACCTAT
12897850 GGTGATAGGATTACCTAT
1 GGTGATAGGATTACCTAT
12897868 ATTAAGAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.33
Consensus pattern (18 bp):
GGTGATAGGATTACCTAT
Found at i:12901386 original size:151 final size:151
Alignment explanation
Indices: 12901074--12901376 Score: 527
Period size: 151 Copynumber: 2.0 Consensus size: 151
12901064 ATCTTAACTG
* *
12901074 TTGAGGAAGGTGCCGAAGGTCTTGTGGGATTAGCATTTTATCGAAAGGGACCTAATGGTGGTTCT
1 TTGAAGAAGGTGCCGAAGGTCTTGTGGGATTAGCATTTTATCGAAAGGAACCTAATGGTGGTTCT
* *
12901139 TTTGGTCTCTTCTTTTTTGCGGATGGAAGAGTCAGATTTTTTATCGAAGTTGCTTCATTTTAAAC
66 TTTGGTCTCTTCTCTTTTGAGGATGGAAGAGTCAGATTTTTTATCGAAGTTGCTTCATTTTAAAC
*
12901204 AAGTTTGGTGTTGCTTTTAGA
131 AAGTTTGGTGTTACTTTTAGA
* *
12901225 TTGAAGAAGGTGCCGAAGGTCTTGTGGGATTAGCTTTTTATCGAAAGGAACCTGATGGTGGTTCT
1 TTGAAGAAGGTGCCGAAGGTCTTGTGGGATTAGCATTTTATCGAAAGGAACCTAATGGTGGTTCT
12901290 TTTGGTCTCTTC-CTTTTGAGGATGGAAGAGTCAGATTTTTTATCGAAGTTGCTTCATTTTAAAC
66 TTTGGTCTCTTCTCTTTTGAGGATGGAAGAGTCAGATTTTTTATCGAAGTTGCTTCATTTTAAAC
*
12901354 AAGTTTGGTGTTATTTTTAGA
131 AAGTTTGGTGTTACTTTTAGA
12901375 TT
1 TT
12901377 TTTTTAAGGT
Statistics
Matches: 144, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
150 71 0.49
151 73 0.51
ACGTcount: A:0.22, C:0.12, G:0.26, T:0.40
Consensus pattern (151 bp):
TTGAAGAAGGTGCCGAAGGTCTTGTGGGATTAGCATTTTATCGAAAGGAACCTAATGGTGGTTCT
TTTGGTCTCTTCTCTTTTGAGGATGGAAGAGTCAGATTTTTTATCGAAGTTGCTTCATTTTAAAC
AAGTTTGGTGTTACTTTTAGA
Found at i:12901640 original size:24 final size:24
Alignment explanation
Indices: 12901615--12901662 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
12901605 TGATCCAATA
*
12901615 TATATATTTTTTAT-TATT-TATT
1 TATATATTTTTTATATTTTATATT
12901637 TATATATTTTTTATATTTTATATT
1 TATATATTTTTTATATTTTATATT
12901661 TA
1 TA
12901663 CTTAAGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.61
23 3 0.13
24 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (24 bp):
TATATATTTTTTATATTTTATATT
Found at i:12901649 original size:11 final size:11
Alignment explanation
Indices: 12901615--12901652 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
12901605 TGATCCAATA
12901615 TATATATTTTT
1 TATATATTTTT
12901626 TAT-TATTTATT
1 TATATATTT-TT
12901637 TATATATTTTT
1 TATATATTTTT
12901648 TATAT
1 TATAT
12901653 TTTATATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.20
11 15 0.60
12 5 0.20
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATATATTTTT
Found at i:12902538 original size:39 final size:39
Alignment explanation
Indices: 12902484--12902561 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
12902474 CATTTGGGAA
*
12902484 ATGATGTAATATTAGAATGAAAAGAAAAGGAAGAAAAAT
1 ATGATGTAATATTAGAATGAAAAGAAAAAGAAGAAAAAT
* *
12902523 ATGATGTATTATTAGAGTGAAAAGAAAAAGAAGAAAAAT
1 ATGATGTAATATTAGAATGAAAAGAAAAAGAAGAAAAAT
12902562 CGCTTCTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.22
Consensus pattern (39 bp):
ATGATGTAATATTAGAATGAAAAGAAAAAGAAGAAAAAT
Found at i:12906253 original size:125 final size:125
Alignment explanation
Indices: 12906028--12906255 Score: 275
Period size: 125 Copynumber: 1.8 Consensus size: 125
12906018 AAACGCATTC
* * *
12906028 AATAACTTCATTTAATATTTTATAAGGGATTATTCAAGGTGTTTTTTGGCCAAAAAAGCATTCAA
1 AATAACTTCATTCAATATTTTATAAGGAATTATTCAAGGTATTTTTTGGCCAAAAAAGCATTCAA
* * * * *
12906093 TAATCCACTGATAAAAATTTATGGGGGTTACTCAAGACATTTCTAGCCAGAAACATCTTT
66 TAATACACTCATAAAAATTGAAGGGGATTACTCAAGACATTTCTAGCCAGAAACATCTTT
* * *
12906153 AATAAC-TCTATTCAATTTTTTATAAGGAATTATTTAAGGTATTTTTTAGG-TAAAAATA-CATT
1 AATAACTTC-ATTCAATATTTTATAAGGAATTATTCAAGGTATTTTTT-GGCCAAAAA-AGCATT
* *
12906215 GAATAATTAC-CTCATAAAAATTGAAGGGGATTATTCAAGAC
63 CAATAA-TACACTCATAAAAATTGAAGGGGATTACTCAAGAC
12906256 GTTTTTGGCA
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
124 2 0.02
125 79 0.92
126 5 0.06
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (125 bp):
AATAACTTCATTCAATATTTTATAAGGAATTATTCAAGGTATTTTTTGGCCAAAAAAGCATTCAA
TAATACACTCATAAAAATTGAAGGGGATTACTCAAGACATTTCTAGCCAGAAACATCTTT
Found at i:12906282 original size:62 final size:64
Alignment explanation
Indices: 12906204--12906325 Score: 158
Period size: 62 Copynumber: 1.9 Consensus size: 64
12906194 TTTTTTAGGT
* * * * * *
12906204 AAAAATACATTGAATAATTACCTCATAAAAA-TT-GAAGGGGATTATTCAAGACGTTTTTGGCA
1 AAAAATACATTAAATAATCACCTCATAAAAATTTAAAAGAGAATTATTCAAGACATTTTTGGCA
* *
12906266 AAAAATACCTTAAATAATCCCCTCATAAAAATTTAAAAGAGAATTATTCAAGACATTTTT
1 AAAAATACATTAAATAATCACCTCATAAAAATTTAAAAGAGAATTATTCAAGACATTTTT
12906326 TGCGTAAAAC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
62 27 0.54
63 2 0.04
64 21 0.42
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (64 bp):
AAAAATACATTAAATAATCACCTCATAAAAATTTAAAAGAGAATTATTCAAGACATTTTTGGCA
Found at i:12907786 original size:37 final size:37
Alignment explanation
Indices: 12907745--12907825 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
12907735 ATTATATATA
* *
12907745 ATTGTTTACATACTGTCTAGATTATATATAATTATTT
1 ATTGTTTACATACTGTCTAGATGATATACAATTATTT
* * * *
12907782 ATTGTTTATATATTGTTTAGATGATATACAATTGTTT
1 ATTGTTTACATACTGTCTAGATGATATACAATTATTT
12907819 ATTGTTT
1 ATTGTTT
12907826 GGCTTTTTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (37 bp):
ATTGTTTACATACTGTCTAGATGATATACAATTATTT
Found at i:12907986 original size:19 final size:19
Alignment explanation
Indices: 12907962--12908061 Score: 87
Period size: 19 Copynumber: 5.7 Consensus size: 19
12907952 TAATAAGGTT
12907962 TATATAATTGTTTAGATTA
1 TATATAATTGTTTAGATTA
12907981 TATATAATTG--T-G----
1 TATATAATTGTTTAGATTA
*
12907993 TATAT-ATTGTTTACATTA
1 TATATAATTGTTTAGATTA
12908011 TATATAATTGTTTATTG-TT-
1 TATATAATTGTTTA--GATTA
*
12908030 TATAT-ATTGTTTATATTA
1 TATATAATTGTTTAGATTA
12908048 TATATAATTGTTTA
1 TATATAATTGTTTA
12908062 TTTTTTGACT
Statistics
Matches: 65, Mismatches: 3, Indels: 26
0.69 0.03 0.28
Matches are distributed among these distances:
11 4 0.06
12 5 0.08
13 1 0.02
16 1 0.02
17 3 0.05
18 18 0.28
19 31 0.48
20 2 0.03
ACGTcount: A:0.33, C:0.01, G:0.09, T:0.57
Consensus pattern (19 bp):
TATATAATTGTTTAGATTA
Found at i:12908004 original size:30 final size:31
Alignment explanation
Indices: 12907961--12908062 Score: 109
Period size: 37 Copynumber: 3.1 Consensus size: 31
12907951 ATAATAAGGT
*
12907961 TTATATAATTGTTTAGATTATATATAATTGTG
1 TTATAT-ATTGTTTACATTATATATAATTGTG
12907993 -TATATATTGTTTACATTATATATAATTGTTTATTG
1 TTATATATTGTTTACATTATATATAATTG-----TG
*
12908028 TTTATATATTGTTTATATTATATATAATTGT-
1 -TTATATATTGTTTACATTATATATAATTGTG
12908059 TTAT
1 TTAT
12908063 TTTTTGACTT
Statistics
Matches: 61, Mismatches: 2, Indels: 16
0.77 0.03 0.20
Matches are distributed among these distances:
30 26 0.43
31 5 0.08
32 1 0.02
35 2 0.03
37 27 0.44
ACGTcount: A:0.32, C:0.01, G:0.09, T:0.58
Consensus pattern (31 bp):
TTATATATTGTTTACATTATATATAATTGTG
Found at i:12908028 original size:37 final size:37
Alignment explanation
Indices: 12907987--12908063 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
12907977 ATTATATATA
12907987 ATTGTGTATATATTGTTTACATTATATATAATTGTTT
1 ATTGTGTATATATTGTTTACATTATATATAATTGTTT
* *
12908024 ATTGTTTATATATTGTTTATATTATATATAATTGTTT
1 ATTGTGTATATATTGTTTACATTATATATAATTGTTT
12908061 ATT
1 ATT
12908064 TTTTGACTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.30, C:0.01, G:0.09, T:0.60
Consensus pattern (37 bp):
ATTGTGTATATATTGTTTACATTATATATAATTGTTT
Found at i:12908059 original size:242 final size:241
Alignment explanation
Indices: 12907631--12908153 Score: 787
Period size: 242 Copynumber: 2.2 Consensus size: 241
12907621 TGTAACTTAA
*
12907631 GGTGGCGGCATTTGTAATCAAATACTATATATATGGTGGCTTTTTCAATTAAATATATATAATAA
1 GGTGGCGGCATTTGTAATCAAATACTATATATATGGT-GCTTTTTCAATTAAATATATAT-AGAA
*
12907696 AGCATTTGGCAGCATAATAAGGTTCATATAATTATTTAGATTATATATAATTGTTTACATACTGT
64 AGCATTTGGCAGCATAATAAGGTTCATATAATTATTTAGATTATATATAATTGTGTACATACTGT
*
12907761 CTAGATTATATATAATTATTTATTGTTTATATATTGTTTAGATGATATACAATTGTTTATTGTTT
129 CTACATTATATATAATTATTTATTGTTTATATATTGTTTAGATGATATACAATTGTTTATTGTTT
* * **
12907826 GGCTTTTTCAATTAAATATATATAATAAAAATATATAATTGTTTAGTT
194 GACTTTTTCAATTAAAAATATATAATAAAAATATATAATTGTTTACAT
* * * **
12907874 GGTGGCGGCATTTGTAATCAAATATTATATATATGGTGCTTTTTTTAATTAAATATATGGT-GCC
1 GGTGGCGGCATTTGTAATCAAATACTATATATATGGTGC-TTTTTCAATTAAATATAT-ATAGAA
* * * * *
12907938 AGCATTTGGTAGCATAATAAGGTTTATATAATTGTTTAGATTATATATAATTGTGTATATATTGT
64 AGCATTTGGCAGCATAATAAGGTTCATATAATTATTTAGATTATATATAATTGTGTACATACTGT
* * * * * *
12908003 TTACATTATATATAATTGTTTATTGTTTATATATTGTTTATATTATATATAATTGTTTATTTTTT
129 CTACATTATATATAATTATTTATTGTTTATATATTGTTTAGATGATATACAATTGTTTATTGTTT
12908068 GACTTTTTCAATTAAAAATATATAATAAAAATATATAATTGTTTACAT
194 GACTTTTTCAATTAAAAATATATAATAAAAATATATAATTGTTTACAT
*
12908116 GGTGACGGCATTTGTAATCAAATACTATATATATGGTG
1 GGTGGCGGCATTTGTAATCAAATACTATATATATGGTG
12908154 GTTGTATAAT
Statistics
Matches: 253, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
242 199 0.79
243 53 0.21
244 1 0.00
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.46
Consensus pattern (241 bp):
GGTGGCGGCATTTGTAATCAAATACTATATATATGGTGCTTTTTCAATTAAATATATATAGAAAG
CATTTGGCAGCATAATAAGGTTCATATAATTATTTAGATTATATATAATTGTGTACATACTGTCT
ACATTATATATAATTATTTATTGTTTATATATTGTTTAGATGATATACAATTGTTTATTGTTTGA
CTTTTTCAATTAAAAATATATAATAAAAATATATAATTGTTTACAT
Found at i:12908062 original size:19 final size:18
Alignment explanation
Indices: 12907993--12908062 Score: 88
Period size: 19 Copynumber: 3.8 Consensus size: 18
12907983 TATAATTGTG
*
12907993 TATATATTGTTTACATTA
1 TATATATTGTTTATATTA
*
12908011 TATATAATTGTTTAT-TGTT
1 TATAT-ATTGTTTATAT-TA
12908030 TATATATTGTTTATATTA
1 TATATATTGTTTATATTA
12908048 TATATAATTGTTTAT
1 TATAT-ATTGTTTAT
12908063 TTTTTGACTT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
18 21 0.47
19 24 0.53
ACGTcount: A:0.31, C:0.01, G:0.07, T:0.60
Consensus pattern (18 bp):
TATATATTGTTTATATTA
Found at i:12908098 original size:13 final size:13
Alignment explanation
Indices: 12908080--12908106 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12908070 CTTTTTCAAT
12908080 TAAAAATATATAA
1 TAAAAATATATAA
12908093 TAAAAATATATAA
1 TAAAAATATATAA
12908106 T
1 T
12908107 TGTTTACATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAAAATATATAA
Done.