Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 146 of 211
Found at i:45987764 original size:15 final size:16
Alignment explanation
Indices: 45987744--45987776 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
45987734 TTTTAGTTAA
45987744 TTAAATA-TTTTTATT
1 TTAAATATTTTTTATT
45987759 TTAAATATTTTTTATT
1 TTAAATATTTTTTATT
45987775 TT
1 TT
45987777 CCTAGTCGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTAAATATTTTTTATT
Found at i:45991222 original size:27 final size:27
Alignment explanation
Indices: 45991192--45991246 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
45991182 TACATTTTCC
45991192 TTTC-TTATTTTCAGTTTGTTTTGTCTT
1 TTTCTTTATTTTCAGTTTGTTTTG-CTT
* **
45991219 TTTCTTTCTTTTCTTTTTGTTTTGCTT
1 TTTCTTTATTTTCAGTTTGTTTTGCTT
45991246 T
1 T
45991247 CTTGAAGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.04, C:0.13, G:0.09, T:0.75
Consensus pattern (27 bp):
TTTCTTTATTTTCAGTTTGTTTTGCTT
Found at i:45998348 original size:16 final size:18
Alignment explanation
Indices: 45998313--45998349 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
45998303 AGTGATCACT
*
45998313 ATGAAATTTCTAATCTAA
1 ATGAAATTTCTAACCTAA
45998331 ATGAAATTT-T-ACCTAA
1 ATGAAATTTCTAACCTAA
45998347 ATG
1 ATG
45998350 TATAAATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 1 0.06
18 9 0.50
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (18 bp):
ATGAAATTTCTAACCTAA
Found at i:46006442 original size:3 final size:3
Alignment explanation
Indices: 46006430--46006479 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
46006420 CCATAAATTA
46006430 TCT T-T TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
46006477 TCT
1 TCT
46006480 AGATACAACT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:46009864 original size:76 final size:76
Alignment explanation
Indices: 46009775--46009918 Score: 200
Period size: 76 Copynumber: 1.9 Consensus size: 76
46009765 TCATCTGAGC
* *
46009775 TTAGTATACATATATATATC-AGGTTACTCGTCCAAGCTAAACCTTTGCAATGACACATCAAGTT
1 TTAGTATACATATATATATCGA-GTTACCCGTCCAAGCTAAACCTTTACAATGACACATCAAGTT
46009839 ACTCGGCAGAGT
65 ACTCGGCAGAGT
* * * * **
46009851 TTAGTATACATATATATATCGAGTTACCCTTTCGAGCTAAACCTTTATAATGACACATCCGGTTA
1 TTAGTATACATATATATATCGAGTTACCCGTCCAAGCTAAACCTTTACAATGACACATCAAGTTA
46009916 CTC
66 CTC
46009919 AACCGAGCTA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
76 58 0.98
77 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.33
Consensus pattern (76 bp):
TTAGTATACATATATATATCGAGTTACCCGTCCAAGCTAAACCTTTACAATGACACATCAAGTTA
CTCGGCAGAGT
Found at i:46011283 original size:39 final size:38
Alignment explanation
Indices: 46011240--46011625 Score: 321
Period size: 39 Copynumber: 10.2 Consensus size: 38
46011230 GAAAGATCAT
*
46011240 ATTCAGTATAATCAGTGGATATCACTCGTTTGAGAAAAC
1 ATTCAGTATAATCAGTAGATATCACTCGTTTGAG-AAAC
* * *
46011279 ATTCAGTATAATCAGTGGATATCGCTCGTTGGAGAAAAC
1 ATTCAGTATAATCAGTAGATATCACTCGTTTGAG-AAAC
* * *
46011318 ATTCAGTATGATCAGTGGATATCACTCATTTGAGCAAAC
1 ATTCAGTATAATCAGTAGATATCACTCGTTTGAG-AAAC
* * *
46011357 ATTCAGTATAATCAGTGGATATCGCTCATTTGAGCAAAC
1 ATTCAGTATAATCAGTAGATATCACTCGTTTGAG-AAAC
* * * * * * *
46011396 ATTCAGTATAATAAGTGGATACCGCTCATTTAAGCAAC
1 ATTCAGTATAATCAGTAGATATCACTCGTTTGAGAAAC
* * * * * ** * *
46011434 TTTTAGTATATTCAATAGACATTTCTCTTTTGAG-CAC
1 ATTCAGTATAATCAGTAGATATCACTCGTTTGAGAAAC
* * *
46011471 GTTCAGAATAATCAGTAGATATTACTCGTTTGAGAAAC
1 ATTCAGTATAATCAGTAGATATCACTCGTTTGAGAAAC
* * ** * *
46011509 TTTCAGTATAATCAGTAGACATTGCTCTTTTGAG-CAC
1 ATTCAGTATAATCAGTAGATATCACTCGTTTGAGAAAC
* ** *
46011546 ATTCAGTATAATCAATAGATATTTCTCGTTTGAG-CAC
1 ATTCAGTATAATCAGTAGATATCACTCGTTTGAGAAAC
* * * *
46011583 ATTCAGTATAATTAATAGATATTACTCGTTTGAG-CAC
1 ATTCAGTATAATCAGTAGATATCACTCGTTTGAGAAAC
46011620 ATTCAG
1 ATTCAG
46011626 GATTTAACTG
Statistics
Matches: 298, Mismatches: 48, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
37 103 0.35
38 56 0.19
39 139 0.47
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (38 bp):
ATTCAGTATAATCAGTAGATATCACTCGTTTGAGAAAC
Found at i:46011510 original size:75 final size:74
Alignment explanation
Indices: 46011431--46011625 Score: 248
Period size: 75 Copynumber: 2.6 Consensus size: 74
46011421 TCATTTAAGC
* * * *
46011431 AACTTTTAGTATATTCAATAGACATTTCTCTTTTGAGCACGTTCAGAATAATCAGTAGATATTAC
1 AACTTTCAGTATATTCAATAGACATTACTCTTTTGAGCACATTCAGAATAATCAATAGATATTAC
46011496 TCGTTTGAG
66 TCGTTTGAG
* * * * *
46011505 AAACTTTCAGTATAATCAGTAGACATTGCTCTTTTGAGCACATTCAGTATAATCAATAGATATTT
1 -AACTTTCAGTATATTCAATAGACATTACTCTTTTGAGCACATTCAGAATAATCAATAGATATTA
46011570 CTCGTTTGAG
65 CTCGTTTGAG
* * * *
46011580 CACATTCAGTATAATT-AATAGATATTACTCGTTTGAGCACATTCAG
1 AACTTTCAGTAT-ATTCAATAGACATTACTCTTTTGAGCACATTCAG
46011626 GATTTAACTG
Statistics
Matches: 104, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
74 36 0.35
75 68 0.65
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.37
Consensus pattern (74 bp):
AACTTTCAGTATATTCAATAGACATTACTCTTTTGAGCACATTCAGAATAATCAATAGATATTAC
TCGTTTGAG
Found at i:46016535 original size:39 final size:38
Alignment explanation
Indices: 46016492--46016667 Score: 155
Period size: 39 Copynumber: 4.7 Consensus size: 38
46016482 TCAGTATAAT
* * *
46016492 CAGTGGATATCGCTCGTTTGAGCAAACATTCAGTACGAC
1 CAGTGGATATCGCTCGTTTGAGCAAACATTTAGTA-AAA
* * * *
46016531 CAGTGGATATTGCTTGTTTGTGCAAACATTTAGTATAA
1 CAGTGGATATCGCTCGTTTGAGCAAACATTTAGTAAAA
* * *
46016569 TATGTGGATATCGCTTGTTTGAGCAAACATTTAGTATAAT
1 CA-GTGGATATCGCTCGTTTGAGCAAACATTTAGTA-AAA
* *
46016609 CAGTGGATATCGCTCGTTT-----AACATTCAATAAAA
1 CAGTGGATATCGCTCGTTTGAGCAAACATTTAGTAAAA
* *
46016642 TCAGTGGGTATAGCTCGTTTGAGCAA
1 -CAGTGGATATCGCTCGTTTGAGCAA
46016668 CTTTCAATAT
Statistics
Matches: 111, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
33 2 0.02
34 26 0.23
38 2 0.02
39 79 0.71
40 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (38 bp):
CAGTGGATATCGCTCGTTTGAGCAAACATTTAGTAAAA
Found at i:46016613 original size:78 final size:78
Alignment explanation
Indices: 46016484--46016667 Score: 209
Period size: 78 Copynumber: 2.4 Consensus size: 78
46016474 GATATTATTC
* * *
46016484 AGTATAATCAGTGGATATCGCTCGTTTGAGCAAACATTCAGTACGACCAGTGGATATTGCTTGTT
1 AGTATAATCAGTGGATATCGCTCGTTTGAGCAAACATTCAGTACAACCAGTGGATATCGCTCGTT
46016549 TGTGCAAACATTT
66 TGTGCAAACATTT
* * * *
46016562 AGTATAAT-ATGTGGATATCGCTTGTTTGAGCAAACATTTAGTATAATCAGTGGATATCGCTCG-
1 AGTATAATCA-GTGGATATCGCTCGTTTGAGCAAACATTCAGTACAACCAGTGGATATCGCTCGT
*
46016625 TT-T---AACATTC
65 TTGTGCAAACATTT
* * * *
46016635 AATAAAATCAGTGGGTATAGCTCGTTTGAGCAA
1 AGTATAATCAGTGGATATCGCTCGTTTGAGCAA
46016668 CTTTCAATAT
Statistics
Matches: 91, Mismatches: 13, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
73 32 0.35
74 1 0.01
76 1 0.01
77 3 0.03
78 54 0.59
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (78 bp):
AGTATAATCAGTGGATATCGCTCGTTTGAGCAAACATTCAGTACAACCAGTGGATATCGCTCGTT
TGTGCAAACATTT
Found at i:46016730 original size:37 final size:37
Alignment explanation
Indices: 46016480--46016863 Score: 226
Period size: 37 Copynumber: 10.2 Consensus size: 37
46016470 GAAAGATATT
* * *
46016480 ATTCAGTATAATCAGTGGATATCGCTCGTTTGAGCAAAC
1 ATTCAGTATAATCAGTAGATATTGCTCTTTTGAGC--AC
** * * *
46016519 ATTCAGTACGACCAGTGGATATTGCT-TGTTTGTGCAAAC
1 ATTCAGTATAATCAGTAGATATTGCTCT-TTTGAGC--AC
* * *
46016558 ATTTAGTATAAT-ATGTGGATATCGCT-TGTTTGAGCAAAC
1 ATTCAGTATAATCA-GTAGATATTGCTCT-TTTGAGC--AC
* * * *
46016597 ATTTAGTATAATCAGTGGATATCGCTCGTTT-A--AC
1 ATTCAGTATAATCAGTAGATATTGCTCTTTTGAGCAC
* * * * * *
46016631 ATTCAATAAAATCAGTGGGTATAGCTCGTTTGAGCAAC
1 ATTCAGTATAATCAGTAGATATTGCTCTTTTGAGC-AC
* * * *
46016669 TTTCAATATATTCAGTAGACATTGCTCTTTTGAGCAC
1 ATTCAGTATAATCAGTAGATATTGCTCTTTTGAGCAC
* * * *
46016706 TTTCAGTATAACCACTAGATATTGCT-TGTTTGAGAAAC
1 ATTCAGTATAATCAGTAGATATTGCTCT-TTTGAG-CAC
* * * ** * *
46016744 TTTCAATACAATCAGTAGGCATTGCTCTTCTGAGAAC
1 ATTCAGTATAATCAGTAGATATTGCTCTTTTGAGCAC
*
46016781 ATTCAGTATAATCAGTAGATATTGCT-TGTATGAGCAC
1 ATTCAGTATAATCAGTAGATATTGCTCT-TTTGAGCAC
* * * *
46016818 ATTCAGCATAATTAGTAGGTATTGCTCATTTGAGCAC
1 ATTCAGTATAATCAGTAGATATTGCTCTTTTGAGCAC
46016855 ATTCAGTAT
1 ATTCAGTAT
46016864 TTAACCGACT
Statistics
Matches: 280, Mismatches: 52, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
34 28 0.10
35 1 0.00
36 2 0.01
37 99 0.35
38 58 0.21
39 91 0.32
40 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.35
Consensus pattern (37 bp):
ATTCAGTATAATCAGTAGATATTGCTCTTTTGAGCAC
Found at i:46016786 original size:75 final size:73
Alignment explanation
Indices: 46016658--46016863 Score: 241
Period size: 75 Copynumber: 2.8 Consensus size: 73
46016648 GGTATAGCTC
* * *
46016658 GTTTGAGCAACTTTCAATATATTCAGTAGACATTGCTCTTTTGAGCACTTTCAGTATAACCACTA
1 GTTTGAG-AACTTTCAATATAATCAGTAGGCATTGCTC-TTTGAGCACATTCAGTATAACCACTA
46016723 GATATTGCTT
64 GATATTGCTT
* * * *
46016733 GTTTGAGAAACTTTCAATACAATCAGTAGGCATTGCTCTTCTGAGAACATTCAGTATAATCAGTA
1 GTTTGAG-AACTTTCAATATAATCAGTAGGCATTGCTCTT-TGAGCACATTCAGTATAACCACTA
46016798 GATATTGCTT
64 GATATTGCTT
* * * ** * *
46016808 GTATGAGCACATTCAGCATAATTAGTAGGTATTGCTCATTTGAGCACATTCAGTAT
1 GTTTGAGAACTTTCAATATAATCAGTAGGCATTGCTC-TTTGAGCACATTCAGTAT
46016864 TTAACCGACT
Statistics
Matches: 112, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
74 40 0.36
75 72 0.64
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (73 bp):
GTTTGAGAACTTTCAATATAATCAGTAGGCATTGCTCTTTGAGCACATTCAGTATAACCACTAGA
TATTGCTT
Found at i:46016850 original size:112 final size:113
Alignment explanation
Indices: 46016632--46016851 Score: 248
Period size: 112 Copynumber: 2.0 Consensus size: 113
46016622 TCGTTTAACA
* * * *
46016632 TTCAATAAAATCAGTGGGTATAGCTCGTTTGAGCAACTTTCAATATATTCAGTAGACATTGCTCT
1 TTCAATAAAATCAGTAGGCATAGCTCGTTTGAGCAACATTCAATATAATCAGTAGACATTGCTCT
* * * **
46016697 TTTGAGCACTTTCAGTATAACCACTAGATATTGCTTGTTTGAGAAACT
66 TATGAGCACATTCAGCATAACCACTAGATATTGCTCATTTGAGAAACT
* * * *
46016745 TTCAATACAATCAGTAGGCATTGCTC-TTCTGAG-AACATTCAGTATAATCAGTAGATATTGCT-
1 TTCAATAAAATCAGTAGGCATAGCTCGTT-TGAGCAACATTCAATATAATCAGTAGACATTGCTC
** * *
46016807 TGTATGAGCACATTCAGCATAATTAGTAGGTATTGCTCATTTGAG
65 T-TATGAGCACATTCAGCATAACCACTAGATATTGCTCATTTGAG
46016852 CACATTCAGT
Statistics
Matches: 88, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
111 1 0.01
112 61 0.69
113 26 0.30
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.35
Consensus pattern (113 bp):
TTCAATAAAATCAGTAGGCATAGCTCGTTTGAGCAACATTCAATATAATCAGTAGACATTGCTCT
TATGAGCACATTCAGCATAACCACTAGATATTGCTCATTTGAGAAACT
Found at i:46021229 original size:14 final size:14
Alignment explanation
Indices: 46021212--46021261 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
46021202 ATCTCGAACC
46021212 TCAAGGTTTGAGGT
1 TCAAGGTTTGAGGT
*
46021226 TCAAGGTTTAAGGT
1 TCAAGGTTTGAGGT
* *
46021240 TCAATGTTTGA-AT
1 TCAAGGTTTGAGGT
46021253 TCAAGGTTT
1 TCAAGGTTT
46021262 AGGGTTTGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
13 9 0.29
14 22 0.71
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (14 bp):
TCAAGGTTTGAGGT
Found at i:46021275 original size:27 final size:28
Alignment explanation
Indices: 46021212--46021267 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
46021202 ATCTCGAACC
*
46021212 TCAAGGTTTGAGGTTCAAGGTTTAAGGT
1 TCAAGGTTTGAGATTCAAGGTTTAAGGT
* *
46021240 TCAATGTTTGA-ATTCAAGGTTTAGGGT
1 TCAAGGTTTGAGATTCAAGGTTTAAGGT
46021267 T
1 T
46021268 TGAGGTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.25, C:0.07, G:0.29, T:0.39
Consensus pattern (28 bp):
TCAAGGTTTGAGATTCAAGGTTTAAGGT
Found at i:46023286 original size:26 final size:25
Alignment explanation
Indices: 46023248--46023297 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
46023238 ATTCAAATTA
*
46023248 AATATAAAAATAAATTTAATTTTTAG
1 AATATAAAAATAAATAT-ATTTTTAG
* *
46023274 AATATTAATATAAATATATTTTTA
1 AATATAAAAATAAATATATTTTTA
46023298 ATATTTGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
AATATAAAAATAAATATATTTTTAG
Found at i:46031436 original size:36 final size:36
Alignment explanation
Indices: 46031385--46031491 Score: 133
Period size: 36 Copynumber: 3.0 Consensus size: 36
46031375 AAGCAGTGCA
**
46031385 AAATCGTTCATTGATGATATAAAATGCAAGAGGTGT
1 AAATCGTTCATTGATGATATAAAATGCAAGAAATGT
* * * *
46031421 AGATCGTCCACTGATGATATAAAATGGAAGAAATGT
1 AAATCGTTCATTGATGATATAAAATGCAAGAAATGT
* * *
46031457 AAATCGTTCATTGGTGATATAAAATGTAAGTAATG
1 AAATCGTTCATTGATGATATAAAATGCAAGAAATG
46031492 AATATTTTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.30
Consensus pattern (36 bp):
AAATCGTTCATTGATGATATAAAATGCAAGAAATGT
Found at i:46036290 original size:7 final size:7
Alignment explanation
Indices: 46036278--46036323 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
46036268 ACTTCTCAAA
46036278 TCATCCC
1 TCATCCC
46036285 TCATCCC
1 TCATCCC
46036292 TCATCCC
1 TCATCCC
46036299 TCATCCC
1 TCATCCC
* *
46036306 TCAACAC
1 TCATCCC
*
46036313 TCATCTC
1 TCATCCC
46036320 TCAT
1 TCAT
46036324 TCATCATTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.20, C:0.50, G:0.00, T:0.30
Consensus pattern (7 bp):
TCATCCC
Found at i:46039677 original size:21 final size:21
Alignment explanation
Indices: 46039653--46039702 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
46039643 CACGAGGGTT
46039653 TCGTGTTGCAACATGGTGGTG
1 TCGTGTTGCAACATGGTGGTG
46039674 TCGTGTTGCAACATGGTGGTG
1 TCGTGTTGCAACATGGTGGTG
46039695 TCGTGTTG
1 TCGTGTTG
46039703 TGACACTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.12, C:0.14, G:0.38, T:0.36
Consensus pattern (21 bp):
TCGTGTTGCAACATGGTGGTG
Found at i:46048561 original size:23 final size:24
Alignment explanation
Indices: 46048534--46048579 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
46048524 CAACAAGGTA
*
46048534 AATAAATGAAA-TAAAAAAATAAT
1 AATAAATAAAAGTAAAAAAATAAT
*
46048557 AATAAATAAAAGTAATAAAATAA
1 AATAAATAAAAGTAAAAAAATAA
46048580 AAAAAGTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (24 bp):
AATAAATAAAAGTAAAAAAATAAT
Found at i:46048565 original size:18 final size:18
Alignment explanation
Indices: 46048533--46048585 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
46048523 TCAACAAGGT
46048533 AAAT-AAATGAAATAAAA-
1 AAATAAAAT-AAATAAAAG
46048550 AAATAATAATAAATAAAAG
1 AAATAA-AATAAATAAAAG
*
46048569 TAATAAAATAAA-AAAAG
1 AAATAAAATAAATAAAAG
46048586 TTAACACAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 9 0.28
18 15 0.47
19 8 0.25
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (18 bp):
AAATAAAATAAATAAAAG
Found at i:46050639 original size:27 final size:27
Alignment explanation
Indices: 46050609--46050663 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
46050599 ATCTCTTACT
46050609 TTGGATGTCTAAAAAAATTATCTATTG
1 TTGGATGTCTAAAAAAATTATCTATTG
*
46050636 TTGGATGTCTAAAAAATTTATCTATTG
1 TTGGATGTCTAAAAAAATTATCTATTG
46050663 T
1 T
46050664 ATTTACCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.44
Consensus pattern (27 bp):
TTGGATGTCTAAAAAAATTATCTATTG
Found at i:46073673 original size:13 final size:13
Alignment explanation
Indices: 46073655--46073680 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46073645 CATATTGACT
46073655 TGCATTAATTAGG
1 TGCATTAATTAGG
46073668 TGCATTAATTAGG
1 TGCATTAATTAGG
46073681 CCGTGTGGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
TGCATTAATTAGG
Found at i:46074762 original size:25 final size:26
Alignment explanation
Indices: 46074734--46074789 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
46074724 ATTCAAGAAT
46074734 GCTCATAT-GAGCACATA-AATGGGAA
1 GCTCATATCGAGC-CATATAATGGGAA
*
46074759 GCTC-TTTCGAGCCATATAATGGGAA
1 GCTCATATCGAGCCATATAATGGGAA
46074784 GCTCAT
1 GCTCAT
46074790 GTGATCTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 6 0.22
25 20 0.74
26 1 0.04
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (26 bp):
GCTCATATCGAGCCATATAATGGGAA
Found at i:46080288 original size:41 final size:41
Alignment explanation
Indices: 46080243--46080342 Score: 132
Period size: 41 Copynumber: 2.5 Consensus size: 41
46080233 ATTGATCTCG
* *
46080243 GTTTCGCACACTTAGTGC-CGGTTATTTAACATCATTATTTA
1 GTTTCGCACACTTAGTGCTC-GTTATTCAACATCATCATTTA
* *
46080284 GTTTCGGACACTTAGTGCTCGTTATTCAACCTCATCATTTA
1 GTTTCGCACACTTAGTGCTCGTTATTCAACATCATCATTTA
*
46080325 -ATTCGCACACTTAGTGCT
1 GTTTCGCACACTTAGTGCT
46080343 AATCATATAG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
40 16 0.31
41 35 0.67
42 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (41 bp):
GTTTCGCACACTTAGTGCTCGTTATTCAACATCATCATTTA
Found at i:46081659 original size:27 final size:27
Alignment explanation
Indices: 46081627--46081679 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
46081617 TAATTCGCCC
*
46081627 AAAGGCATTCTTTTCATATTGCACCAA
1 AAAGGCATTCCTTTCATATTGCACCAA
*
46081654 AAAGGCTTTCCTTTCATATTGCACCA
1 AAAGGCATTCCTTTCATATTGCACCA
46081680 CAGAGGAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (27 bp):
AAAGGCATTCCTTTCATATTGCACCAA
Found at i:46081691 original size:27 final size:27
Alignment explanation
Indices: 46081638--46081695 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
46081628 AAGGCATTCT
**
46081638 TTTCATATTGCACCAAAAAGGCTTTCC
1 TTTCATATTGCACCAAAAAGGAGTTCC
* *
46081665 TTTCATATTGCACCACAGAGGAGTTCC
1 TTTCATATTGCACCAAAAAGGAGTTCC
46081692 TTTC
1 TTTC
46081696 CTGACTTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (27 bp):
TTTCATATTGCACCAAAAAGGAGTTCC
Found at i:46084124 original size:16 final size:16
Alignment explanation
Indices: 46084103--46084134 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46084093 TTAACCATAC
46084103 AATACTTAATCATGCA
1 AATACTTAATCATGCA
*
46084119 AATACTTAATCGTGCA
1 AATACTTAATCATGCA
46084135 GTTAAGGACT
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:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (16 bp):
AATACTTAATCATGCA
Found at i:46084272 original size:19 final size:19
Alignment explanation
Indices: 46084236--46084272 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46084226 CCACGTGATC
* *
46084236 TCCCTCATCGTGATGTTGA
1 TCCCTCATCATGACGTTGA
46084255 TCCCTCATCATGACGTTG
1 TCCCTCATCATGACGTTG
46084273 GTTATGTATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.30, G:0.19, T:0.35
Consensus pattern (19 bp):
TCCCTCATCATGACGTTGA
Found at i:46085240 original size:23 final size:23
Alignment explanation
Indices: 46085204--46085292 Score: 74
Period size: 23 Copynumber: 3.9 Consensus size: 23
46085194 CACAATCGAT
* *
46085204 TATACCCTCTAAACACAACCAAA
1 TATACCCACCAAACACAACCAAA
*
46085227 TAT-CTCCACCAAACACAACCATA
1 TATAC-CCACCAAACACAACCAAA
* *
46085250 TATACCCTCCAAACACATA-CAAG
1 TATACCCACCAAACACA-ACCAAA
* **
46085273 TATAGCCTTCAAACACAACC
1 TATACCCACCAAACACAACC
46085293 CAAAAAGTGA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
22 2 0.04
23 50 0.93
24 2 0.04
ACGTcount: A:0.44, C:0.36, G:0.02, T:0.18
Consensus pattern (23 bp):
TATACCCACCAAACACAACCAAA
Found at i:46086722 original size:13 final size:12
Alignment explanation
Indices: 46086690--46086728 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 12
46086680 AACACCTAAT
46086690 TTTAATTTCTTAA
1 TTTAATTT-TTAA
46086703 TATTAATTTTTAA
1 T-TTAATTTTTAA
46086716 TTCTAATTTTTAA
1 TT-TAATTTTTAA
46086729 CATTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.04
13 16 0.67
14 7 0.29
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTAATTTTTAA
Found at i:46091588 original size:28 final size:28
Alignment explanation
Indices: 46091557--46091664 Score: 85
Period size: 28 Copynumber: 3.9 Consensus size: 28
46091547 CGTCCCATCA
* *
46091557 GACTTACCTCGTGATTACTGTCTTGGTG
1 GACTTACCTCGTGATTACTATCTCGGTG
* * *
46091585 GACTTGCCTCATGTTTACTATCTCGGTG
1 GACTTACCTCGTGATTACTATCTCGGTG
* * * * *
46091613 AACATACCTCGTG-TGTACTATCCCCGTA
1 GACTTACCTCGTGAT-TACTATCTCGGTG
* *
46091641 GACTTACCT-GTGTTTACTGTCTCG
1 GACTTACCTCGTGATTACTATCTCG
46091665 ACAGACTCAC
Statistics
Matches: 61, Mismatches: 17, Indels: 5
0.73 0.20 0.06
Matches are distributed among these distances:
27 11 0.18
28 50 0.82
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.37
Consensus pattern (28 bp):
GACTTACCTCGTGATTACTATCTCGGTG
Found at i:46111582 original size:12 final size:13
Alignment explanation
Indices: 46111556--46111580 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46111546 ATAATTCAAA
46111556 ATTCAATTTTTTT
1 ATTCAATTTTTTT
46111569 ATTCAATTTTTT
1 ATTCAATTTTTT
46111581 ATAATCGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTCAATTTTTTT
Found at i:46119662 original size:27 final size:25
Alignment explanation
Indices: 46119552--46119717 Score: 84
Period size: 27 Copynumber: 6.2 Consensus size: 25
46119542 AAATACATTC
*
46119552 CTTTCACATTTCGCCACAAAGGTTTT
1 CTTTCATA-TTCGCCACAAAGGTTTT
* * *
46119578 CTTTCCTAATACGCCACAAAGGTTAT
1 CTTTCAT-ATTCGCCACAAAGGTTTT
* * *
46119604 CATTGCA-AGGTTCGTCA-AAGAGGTTATC
1 C-TTTCATA--TTCGCCACAA-AGGTT-TT
46119632 CTTTCATGATTCGCCACAAAGGTGTTT
1 CTTTCAT-ATTCGCCACAAAGGT-TTT
* * * *
46119659 CTTTCATATTGTGCCACATATGTGTT
1 CTTTCATATT-CGCCACAAAGGTTTT
* *
46119685 CATTTCATATTACGCCACATAGGCATTT
1 C-TTTCATATT-CGCCACAAAGG-TTTT
46119713 CTTTC
1 CTTTC
46119718 CTAATGTGTT
Statistics
Matches: 105, Mismatches: 22, Indels: 25
0.69 0.14 0.16
Matches are distributed among these distances:
25 1 0.01
26 29 0.28
27 67 0.64
28 7 0.07
29 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (25 bp):
CTTTCATATTCGCCACAAAGGTTTT
Found at i:46122163 original size:18 final size:18
Alignment explanation
Indices: 46122136--46122187 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
46122126 TCCAAGATCC
*
46122136 TCTAATATTACAAAATCT
1 TCTAAGATTACAAAATCT
46122154 TCTAAGATTACAAAATCT
1 TCTAAGATTACAAAATCT
* *
46122172 CCTAAGGTTACAAAAT
1 TCTAAGATTACAAAAT
46122188 ATTCACCTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (18 bp):
TCTAAGATTACAAAATCT
Found at i:46129558 original size:2 final size:2
Alignment explanation
Indices: 46129551--46129575 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
46129541 CATAAATTGC
46129551 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 T
46129576 TTAAGTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46135420 original size:6 final size:6
Alignment explanation
Indices: 46135409--46135437 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
46135399 GGAGCCATAC
46135409 TAGTAA TAGTAA TAGTAA TAGTAA TAGTA
1 TAGTAA TAGTAA TAGTAA TAGTAA TAGTA
46135438 TATTGTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.34
Consensus pattern (6 bp):
TAGTAA
Found at i:46139402 original size:54 final size:54
Alignment explanation
Indices: 46139312--46139417 Score: 167
Period size: 54 Copynumber: 2.0 Consensus size: 54
46139302 GCAGTTCAAA
* *
46139312 ACTTCTAGATAGATCCTTCTCACAAAGTTCCTTTTTAGGAGAATCAATTGAAAC
1 ACTTCTAGATAAATCCTTCTCACAAAGTTCCGTTTTAGGAGAATCAATTGAAAC
* * *
46139366 ACTTGTAGATAAATCCTTCTCACAGATTTCCGTTTTAGGAGAATCAATTGAA
1 ACTTCTAGATAAATCCTTCTCACAAAGTTCCGTTTTAGGAGAATCAATTGAA
46139418 TCAGGTACAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (54 bp):
ACTTCTAGATAAATCCTTCTCACAAAGTTCCGTTTTAGGAGAATCAATTGAAAC
Found at i:46149703 original size:19 final size:19
Alignment explanation
Indices: 46149679--46149719 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
46149669 TATTTTAAAG
46149679 TTATTTAGGTAAATAAATC
1 TTATTTAGGTAAATAAATC
*
46149698 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAAATAAATC
46149717 TTA
1 TTA
46149720 GAATAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (19 bp):
TTATTTAGGTAAATAAATC
Found at i:46149804 original size:41 final size:41
Alignment explanation
Indices: 46149758--46149836 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
46149748 TATTTTATTC
46149758 TATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTTCT
1 TATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTTCT
*
46149799 TATCTTTTAGTAGTTTATTAGAATAAGGGAATTGTTTT
1 TATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTT
46149837 CCCAATTAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (41 bp):
TATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTTCT
Found at i:46159359 original size:6 final size:6
Alignment explanation
Indices: 46159350--46159385 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
46159340 TAATTTTAAT
*
46159350 TAAATA TAAATA TAAATA CAAATA TAAATA TAAATA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA
46159386 ATATATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (6 bp):
TAAATA
Found at i:46159374 original size:18 final size:18
Alignment explanation
Indices: 46159351--46159385 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
46159341 AATTTTAATT
46159351 AAATATAAATATAAATAC
1 AAATATAAATATAAATAC
46159369 AAATATAAATATAAATA
1 AAATATAAATATAAATA
46159386 ATATATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATATAAATATAAATAC
Found at i:46165495 original size:18 final size:16
Alignment explanation
Indices: 46165470--46165513 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
46165460 TAGGTTTTTC
*
46165470 ATTAAATTATTTATGTA
1 ATTAAATTATTT-TATA
46165487 ATATAAATTAATTTTATA
1 AT-TAAATT-ATTTTATA
46165505 ATTAAATTA
1 ATTAAATTA
46165514 ACATTTGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 1 0.04
17 8 0.33
18 11 0.46
19 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
ATTAAATTATTTTATA
Found at i:46166514 original size:122 final size:121
Alignment explanation
Indices: 46166282--46166516 Score: 353
Period size: 122 Copynumber: 1.9 Consensus size: 121
46166272 GGCATAACCT
* * *
46166282 ATATGTTAACGTATATTTTACTATATATATCATGGGTTAAAATTCACTCATTACTTTTCCATCCA
1 ATATGCTAACGTATATTTTACCATATATATCATGGGTTAAAATTCAATCATTACTTTTCCATCCA
*
46166347 TTAATAATCAATACAATAATCATCACCATTTAAATGTGTAAGACCCATGGAAATTC
66 TTAATAATCAATACAATAATCATCACCATTCAAATGTGTAAGACCCATGGAAATTC
*
46166403 ATATGCTAACGTATATTTTACCATATATATCATGGGTTAAAATTCAATCCATTACTTTTTCATCC
1 ATATGCTAACGTATATTTTACCATATATATCATGGGTTAAAATTCAAT-CATTACTTTTCCATCC
* * * * ** *
46166468 ATTAATATTTAATACAATGATCGTCATTATTCAAATGTGTAGGACCCAT
65 ATTAATAATCAATACAATAATCATCACCATTCAAATGTGTAAGACCCAT
46166517 CTATTAAATG
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
121 45 0.45
122 56 0.55
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (121 bp):
ATATGCTAACGTATATTTTACCATATATATCATGGGTTAAAATTCAATCATTACTTTTCCATCCA
TTAATAATCAATACAATAATCATCACCATTCAAATGTGTAAGACCCATGGAAATTC
Found at i:46170489 original size:30 final size:31
Alignment explanation
Indices: 46170455--46170515 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
46170445 AAACCTTTTT
* *
46170455 ACTTTTCCCTCAAAACTTTTACT-CCTTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCCTTCCC
46170485 ACTTTCCCCCCAAAACTTTTACTCCCTTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCCTTCCC
46170516 CTCCCAACCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 21 0.75
31 7 0.25
ACGTcount: A:0.20, C:0.44, G:0.00, T:0.36
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACTCCCTTCCC
Found at i:46170654 original size:30 final size:31
Alignment explanation
Indices: 46170620--46170679 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
46170610 AAACCTTTTA
*
46170620 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
46170650 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
46170680 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:46173588 original size:15 final size:15
Alignment explanation
Indices: 46173570--46173626 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
46173560 TTAATCACTT
46173570 TAATATTAATTAATA
1 TAATATTAATTAATA
* * *
46173585 TAATATTTATCAAGA
1 TAATATTAATTAATA
*
46173600 TAAATATTAGATTAAATT
1 T-AATATTA-ATT-AATA
46173618 TAATATTAA
1 TAATATTAA
46173627 ATCTATTAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
15 13 0.41
16 7 0.22
17 9 0.28
18 3 0.09
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (15 bp):
TAATATTAATTAATA
Found at i:46177269 original size:101 final size:101
Alignment explanation
Indices: 46177160--46177382 Score: 265
Period size: 101 Copynumber: 2.2 Consensus size: 101
46177150 GCATGGACTG
* * *
46177160 TGTGTAGGCCACTATGTGAAAGTGAAAG-TGAT-GGTCATGTGTGTAGTACTATGTGCAGGCTAC
1 TGTGTAGGCTACTATGTGAAAG-GAAAGCT--TCGATCACGTGTGTAGTACTATGTGCAGGCTAC
**
46177223 TACGTGTACCAGA-A-TGATAGGTTGCATGTGTAGTACTA
63 TACGTGTACCAGATAGTGAT-GGTCACATGTGTAGTACTA
* ** *
46177261 TGTGTAGGCTACTATGCGTACCGGATAGCTTCGATCACGTGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGGCTACTATGTG-AAAGGAAAGCTTCGATCACGTGTGTAGTACTATGTGCAGGCTACTA
* *
46177326 CGTGTATCGGATAGTGATGGTCACATGTGTAGTACTA
65 CGTGTACCAGATAGTGATGGTCACATGTGTAGTACTA
*
46177363 TGTGCAGGCTACTATGTGAA
1 TGTGTAGGCTACTATGTGAA
46177383 CCGGTATCAT
Statistics
Matches: 103, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
100 1 0.01
101 61 0.59
102 37 0.36
103 4 0.04
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (101 bp):
TGTGTAGGCTACTATGTGAAAGGAAAGCTTCGATCACGTGTGTAGTACTATGTGCAGGCTACTAC
GTGTACCAGATAGTGATGGTCACATGTGTAGTACTA
Found at i:46177314 original size:51 final size:50
Alignment explanation
Indices: 46177199--46177378 Score: 186
Period size: 51 Copynumber: 3.6 Consensus size: 50
46177189 GATGGTCATG
* * * * **
46177199 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTTGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-AT-GATCACA
* *
46177249 TGTGTAGTACTATGTGTAGGCTACTATGCGTACCGGATAGCT-TCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TAT-GATCACA
* * * *
46177300 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-ATGATCACA
46177351 TGTGTAGTACTATGTGCAGGCTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTATG
46177379 TGAACCGGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
50 34 0.31
51 73 0.67
52 1 0.01
53 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTATGATCACA
Found at i:46177380 original size:26 final size:26
Alignment explanation
Indices: 46177300--46177380 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
46177290 TTCGATCACG
46177300 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
46177326 CGTGTA-T-CGGATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
46177351 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
46177377 TGTG
1 TGTG
46177381 AACCGGTATC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:46177386 original size:102 final size:101
Alignment explanation
Indices: 46177198--46177386 Score: 290
Period size: 102 Copynumber: 1.9 Consensus size: 101
46177188 TGATGGTCAT
**
46177198 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTTGCATGTGTAGTACTATG
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACTATG
* *
46177263 TGTAGGCTACTATGCGTACCGGATAGCTTCGATCAC
66 TGCAGGCTACTATGCGAACCGGATAGCTTCGATCAC
* *
46177299 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCACATGTGTAGTACTA
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCACATGTGTAGTACTA
*
46177363 TGTGCAGGCTACTATGTGAACCGG
64 TGTGCAGGCTACTATGCGAACCGG
46177387 TATCATTAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
101 36 0.46
102 39 0.49
103 4 0.05
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (101 bp):
GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACTATG
TGCAGGCTACTATGCGAACCGGATAGCTTCGATCAC
Found at i:46185826 original size:45 final size:45
Alignment explanation
Indices: 46185740--46185860 Score: 134
Period size: 45 Copynumber: 2.7 Consensus size: 45
46185730 GAAAAACGGT
* **
46185740 TAAGACCATAGTTGAAAGATACTATGGCAACATGAAAAAAATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCATTATGAAAAAAATAAA
***
46185785 TAAGACCATAGTTGAAAGACACTATGGCATTATGTCGAAAATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCATTATGAAAAAAATAAA
* * * * * *
46185830 TAGGACCGTGGCTGAAAGACGCTATGACATT
1 TAAGACCATAGTTGAAAGACACTATGGCATT
46185861 CTTGAACAAT
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.22
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCATTATGAAAAAAATAAA
Found at i:46190446 original size:19 final size:19
Alignment explanation
Indices: 46190419--46190460 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
46190409 ACAAAAGGTG
46190419 TTTTCTTTTTTATATTTAT
1 TTTTCTTTTTTATATTTAT
*
46190438 TTTTGTTTTTTATATTTAT
1 TTTTCTTTTTTATATTTAT
46190457 TTTT
1 TTTT
46190461 ATTTCGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (19 bp):
TTTTCTTTTTTATATTTAT
Found at i:46192022 original size:74 final size:73
Alignment explanation
Indices: 46191911--46192056 Score: 238
Period size: 74 Copynumber: 2.0 Consensus size: 73
46191901 TCTTTTCAAA
* * * *
46191911 CTCAAATTTTAAACGATCTCTGAAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCC
1 CTCAAATTTTAAACGATCTCGGAAATTAAGAAAAGATCATGTCCTAACTCACTGGGCATGATCCC
46191976 TTTTTTTC
66 TTTTTTTC
*
46191984 CTCAAATTTTTAAACGATCTCGGGAATTAAGAAAAGATCATGTCCTAACTCACTGGGCATGATCC
1 CTCAAA-TTTTAAACGATCTCGGAAATTAAGAAAAGATCATGTCCTAACTCACTGGGCATGATCC
46192049 CTTTTTTT
65 CTTTTTTT
46192057 TAAAAATCTG
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 6 0.09
74 61 0.91
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (73 bp):
CTCAAATTTTAAACGATCTCGGAAATTAAGAAAAGATCATGTCCTAACTCACTGGGCATGATCCC
TTTTTTTC
Found at i:46194704 original size:23 final size:23
Alignment explanation
Indices: 46194678--46194722 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
46194668 ACATTTCAGG
*
46194678 AACATGTATGCGAACGTTAAACA
1 AACATGTATGCGAACGCTAAACA
* *
46194701 AACATGTTTGTGAACGCTAAAC
1 AACATGTATGCGAACGCTAAAC
46194723 GAATCGAGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (23 bp):
AACATGTATGCGAACGCTAAACA
Found at i:46198208 original size:89 final size:88
Alignment explanation
Indices: 46198033--46198532 Score: 352
Period size: 90 Copynumber: 5.6 Consensus size: 88
46198023 TCAAAATAAT
* * *
46198033 TGTATTATTTCTTTAGAATGTTTGTA-TTTTTTATATCTGTAAATTTAATGTAGT-CGT-TTAGG
1 TGTATTAATT-TTTAGAATGTTTGTATTTTTTTATATCTGTAAATTTAATTTAGTCCGTATTA-T
* * * * *
46198095 GTTTAAGGTTT-CATTATTATATTTTCG
64 ATGT-A-GTTTGAATT-TAAAATTTTCG
*
46198122 TGTATTAATTTCTTAGAATGTTTGTATTTTTTTATATCTGTAAATTTAATTTAATCCGTATTATA
1 TGTATTAATTT-TTAGAATGTTTGTATTTTTTTATATCTGTAAATTTAATTTAGTCCGTATTATA
*
46198187 TGTAGTTTGAATTGAAAATTTTCG
65 TGTAGTTTGAATTTAAAATTTTCG
** * * *
46198211 TGTATTAA-TTTTACTCATCGGTTTGTAGTTTGTTGAGTGT-T-TAAATTTAATTTAG-CCTGTA
1 TGTATTAATTTTTA-GAAT--GTTTGTA-TTTTTTTA-TATCTGTAAATTTAATTTAGTCC-GTA
* *
46198272 TTATATATAGTTTGACTTTAAAATTTTCG
60 TTATATGTAGTTTGAATTTAAAATTTTCG
* * * * * * *** * * *
46198301 TGCATTAA-TTTTACCCATCTGTTTTTAGTTTCTTGGGTGTTTAAATTTAATTTAGCCCGTATTA
1 TGTATTAATTTTTA--GA-ATGTTTGTATTTTTTTATATCTGTAAATTTAATTTAGTCCGTATTA
46198365 TATGTAGTTTGAATTTAAAATTTTCG
63 TATGTAGTTTGAATTTAAAATTTTCG
** * * * *** * * *
46198391 TGTATTAATTTTATCCATCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCCGTGTTAT
1 TGTATTAATTTT-TAGA-ATGTTTGTATTTTTTTATATCTGTAAATTTAATTTAGTCCGTATTAT
* * * * *
46198456 TTGTTGTTTGAATTTTATATTTTTG
64 ATGTAGTTTGAATTTAAAATTTTCG
* *
46198481 TGTATTAATATTCTAGAATGTTTGTATTTTATTATATCTGTAAATTTAATTT
1 TGTATTAAT-TTTTAGAATGTTTGTATTTTTTTATATCTGTAAATTTAATTT
46198533 GTTGTGTACT
Statistics
Matches: 338, Mismatches: 54, Indels: 38
0.79 0.13 0.09
Matches are distributed among these distances:
87 3 0.01
88 7 0.02
89 76 0.22
90 225 0.67
91 20 0.06
92 7 0.02
ACGTcount: A:0.25, C:0.07, G:0.15, T:0.54
Consensus pattern (88 bp):
TGTATTAATTTTTAGAATGTTTGTATTTTTTTATATCTGTAAATTTAATTTAGTCCGTATTATAT
GTAGTTTGAATTTAAAATTTTCG
Found at i:46198256 original size:90 final size:90
Alignment explanation
Indices: 46198162--46198489 Score: 453
Period size: 90 Copynumber: 3.6 Consensus size: 90
46198152 TTTATATCTG
*
46198162 TAAATTTAATTTAATCCGTATTATATGTAGTTTGAATTGAAAATTTTCGTGTATTAATTTTACTC
1 TAAATTTAATTTAATCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACTC
* *
46198227 ATCGGTTTGTAGTTTGTTGAGTGTT
66 ATCTGTTTGTAGTTTGTTGGGTGTT
* * * * *
46198252 TAAATTTAATTT-AGCCTGTATTATATATAGTTTGACTTTAAAATTTTCGTGCATTAATTTTACC
1 TAAATTTAATTTAATCC-GTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACT
* *
46198316 CATCTGTTTTTAGTTTCTTGGGTGTT
65 CATCTGTTTGTAGTTTGTTGGGTGTT
**
46198342 TAAATTTAATTTAGCCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTA-TC
1 TAAATTTAATTTAATCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACT-
46198406 CATCTGTTTGTAGTTTGTTGGGTGTT
65 CATCTGTTTGTAGTTTGTTGGGTGTT
* * * * * * *
46198432 TAAATTTAATTTAGTCCGTGTTATTTGTTGTTTGAATTTTATATTTTTGTGTATTAAT
1 TAAATTTAATTTAATCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAAT
46198490 ATTCTAGAAT
Statistics
Matches: 210, Mismatches: 25, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
89 3 0.01
90 205 0.98
91 2 0.01
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.52
Consensus pattern (90 bp):
TAAATTTAATTTAATCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACTC
ATCTGTTTGTAGTTTGTTGGGTGTT
Found at i:46201244 original size:6 final size:6
Alignment explanation
Indices: 46201165--46201265 Score: 106
Period size: 6 Copynumber: 17.8 Consensus size: 6
46201155 ATTTTTTTTT
* * * *
46201165 CATTT- CATTTT CATTTC CATTTC CATTTC CATTT- CATTT- CATTT-
1 CATTTA CATTTA CATTTA CATTTA CATTTA CATTTA CATTTA CATTTA
*
46201209 CATTTA CATTTA CATTTA CATTTA CATTTA CATTTA AATTT- CATTT-
1 CATTTA CATTTA CATTTA CATTTA CATTTA CATTTA CATTTA CATTTA
*
46201255 CATTTA AATTT
1 CATTTA CATTT
46201266 TATTTTTTCC
Statistics
Matches: 89, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
5 29 0.33
6 60 0.67
ACGTcount: A:0.27, C:0.19, G:0.00, T:0.54
Consensus pattern (6 bp):
CATTTA
Found at i:46201280 original size:20 final size:21
Alignment explanation
Indices: 46201254--46201311 Score: 84
Period size: 20 Copynumber: 2.9 Consensus size: 21
46201244 AAATTTCATT
46201254 TCATTTAAATTTTATTTTTTC
1 TCATTTAAATTTTATTTTTTC
*
46201275 -CATTTAAATTTAATTTTTTC
1 TCATTTAAATTTTATTTTTTC
*
46201295 TCATTTCAATTTT-TTTT
1 TCATTTAAATTTTATTTT
46201312 CATATTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 23 0.70
21 10 0.30
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (21 bp):
TCATTTAAATTTTATTTTTTC
Found at i:46201307 original size:16 final size:15
Alignment explanation
Indices: 46201282--46201320 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
46201272 TTCCATTTAA
46201282 ATTTAATTTTTTCTC
1 ATTTAATTTTTTCTC
*
46201297 ATTTCAATTTTTTTTC
1 ATTT-AATTTTTTCTC
46201313 ATATTAAT
1 AT-TTAAT
46201321 AACAAGTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 15 0.71
17 2 0.10
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTAATTTTTTCTC
Found at i:46201412 original size:23 final size:23
Alignment explanation
Indices: 46201364--46201412 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
46201354 TCAGTTTTTG
**
46201364 TTTTCATTTCAATTTATAATTTA
1 TTTTCATTTCAAACTATAATTTA
*
46201387 TTTTCATTT-AAACTATCATTTCA
1 TTTTCATTTCAAACTATAATTT-A
46201410 TTT
1 TTT
46201413 CATAATCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTCATTTCAAACTATAATTTA
Found at i:46201774 original size:12 final size:11
Alignment explanation
Indices: 46201755--46201836 Score: 74
Period size: 12 Copynumber: 6.9 Consensus size: 11
46201745 ATTTTTCTTT
46201755 TTTCATTTCAA
1 TTTCATTTCAA
46201766 TTTCAATTTTCAA
1 TTTC-A-TTTCAA
46201779 TTTTCATTTCTAA
1 -TTTCATTTC-AA
* *
46201792 ATTCATTTCAT
1 TTTCATTTCAA
*
46201803 TTTCATTTCTCA
1 TTTCATTTC-AA
46201815 TTTCATTTCACA
1 TTTCATTTCA-A
*
46201827 TTGCATTTCA
1 TTTCATTTCA
46201837 TCTAAATTTG
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
11 13 0.22
12 32 0.55
13 9 0.16
14 4 0.07
ACGTcount: A:0.24, C:0.20, G:0.01, T:0.55
Consensus pattern (11 bp):
TTTCATTTCAA
Found at i:46201775 original size:18 final size:17
Alignment explanation
Indices: 46201754--46201837 Score: 66
Period size: 18 Copynumber: 4.7 Consensus size: 17
46201744 AATTTTTCTT
46201754 TTTTCATTTCAATTTCAA
1 TTTTCATTTC-ATTTCAA
46201772 TTTTCAATTTTCATTTCTAA
1 TTTTC-A-TTTCATTTC-AA
*
46201792 -ATTCATTTCATTTTC-A
1 TTTTCATTTCA-TTTCAA
46201808 TTTCTCATTTCATTTCACA
1 TTT-TCATTTCATTTCA-A
*
46201827 -TTGCATTTCAT
1 TTTTCATTTCAT
46201838 CTAAATTTGT
Statistics
Matches: 55, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
16 1 0.02
17 18 0.33
18 20 0.36
19 10 0.18
20 6 0.11
ACGTcount: A:0.24, C:0.19, G:0.01, T:0.56
Consensus pattern (17 bp):
TTTTCATTTCATTTCAA
Found at i:46201876 original size:21 final size:21
Alignment explanation
Indices: 46201832--46201887 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
46201822 TCACATTGCA
* * **
46201832 TTTCATCTAAATTTGTTTTTT
1 TTTCATTTAAATTTATTTCAT
46201853 TTTCATTTAAATTTATTTCAT
1 TTTCATTTAAATTTATTTCAT
*
46201874 TTTCCATTTTAATT
1 TTT-CATTTAAATT
46201888 GACGTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.23, C:0.11, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTCATTTAAATTTATTTCAT
Found at i:46201966 original size:11 final size:11
Alignment explanation
Indices: 46201952--46202029 Score: 57
Period size: 11 Copynumber: 7.8 Consensus size: 11
46201942 ATACTTTATT
46201952 TTCATTTCATA
1 TTCATTTCATA
46201963 TTCATTT-A-A
1 TTCATTTCATA
*
46201972 -T-ATTTTAGT-
1 TTCATTTCA-TA
*
46201981 TTCATTTCAAA
1 TTCATTTCATA
46201992 TTCATTTCATA
1 TTCATTTCATA
*
46202003 -T--TTT-ATT
1 TTCATTTCATA
46202010 TTCATTTCATA
1 TTCATTTCATA
46202021 TTCATTTCA
1 TTCATTTCA
46202030 CTTTATTCAC
Statistics
Matches: 52, Mismatches: 5, Indels: 20
0.68 0.06 0.26
Matches are distributed among these distances:
7 6 0.12
8 6 0.12
9 1 0.02
10 6 0.12
11 33 0.63
ACGTcount: A:0.27, C:0.14, G:0.01, T:0.58
Consensus pattern (11 bp):
TTCATTTCATA
Found at i:46202005 original size:18 final size:18
Alignment explanation
Indices: 46201984--46202022 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
46201974 TTTTAGTTTC
46201984 ATTTCAAATTCATTTCAT
1 ATTTCAAATTCATTTCAT
* **
46202002 ATTTTATTTTCATTTCAT
1 ATTTCAAATTCATTTCAT
46202020 ATT
1 ATT
46202023 CATTTCACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTCAAATTCATTTCAT
Found at i:46202028 original size:29 final size:29
Alignment explanation
Indices: 46201927--46202029 Score: 147
Period size: 29 Copynumber: 3.6 Consensus size: 29
46201917 ATTGTAATTT
*
46201927 ATTTCAT-TTCAATTT-ATACTTTATTTTC
1 ATTTCATATTC-ATTTCATATTTTATTTTC
* *
46201955 ATTTCATATTCATTTAATATTTTAGTTTC
1 ATTTCATATTCATTTCATATTTTATTTTC
*
46201984 ATTTCAAATTCATTTCATATTTTATTTTC
1 ATTTCATATTCATTTCATATTTTATTTTC
46202013 ATTTCATATTCATTTCA
1 ATTTCATATTCATTTCA
46202030 CTTTATTCAC
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
28 11 0.16
29 56 0.84
ACGTcount: A:0.27, C:0.14, G:0.01, T:0.58
Consensus pattern (29 bp):
ATTTCATATTCATTTCATATTTTATTTTC
Found at i:46202490 original size:22 final size:21
Alignment explanation
Indices: 46202427--46202490 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 21
46202417 GCATTAATAT
46202427 ATTTAATGTGTTTTAAATTAA
1 ATTTAATGTGTTTTAAATTAA
** * * **
46202448 ATATGCATGTATATTGTATTATA
1 AT-TTAATGTGTTTTAAATTA-A
46202471 ATTTAATGTGTTTTAAATTA
1 ATTTAATGTGTTTTAAATTA
46202491 GGAATAAGAA
Statistics
Matches: 29, Mismatches: 12, Indels: 3
0.66 0.27 0.07
Matches are distributed among these distances:
21 2 0.07
22 24 0.83
23 3 0.10
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.52
Consensus pattern (21 bp):
ATTTAATGTGTTTTAAATTAA
Found at i:46206081 original size:45 final size:45
Alignment explanation
Indices: 46206017--46206196 Score: 231
Period size: 45 Copynumber: 4.0 Consensus size: 45
46206007 TACTATGTGT
* * *
46206017 ACCGGGTACCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* * *
46206062 ACCGGGTATCATTGATTATAAAGGTAGTTGTTGTGTGCTGATTCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
** *
46206107 AATGGGTA-CTATTGATTATGAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGGGTATC-ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* *
46206152 ACCGAGTATCATTGACTATAAAGGTGG-TGCTATGTGCTGA-TCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
46206195 AC
1 AC
46206197 TGTATATCTG
Statistics
Matches: 120, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
43 5 0.04
44 14 0.12
45 100 0.83
46 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (45 bp):
ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
Found at i:46218786 original size:22 final size:22
Alignment explanation
Indices: 46218761--46218804 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
46218751 TTTAATATAT
46218761 TTTATCTAT-TAAATAATTTAAA
1 TTTAT-TATATAAATAATTTAAA
* *
46218783 TTTATTATATAATTTATTTAAA
1 TTTATTATATAAATAATTTAAA
46218805 ATATTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTATTATATAAATAATTTAAA
Found at i:46225151 original size:43 final size:43
Alignment explanation
Indices: 46225103--46225304 Score: 271
Period size: 43 Copynumber: 4.7 Consensus size: 43
46225093 GTTTTTCGAA
*
46225103 ACAAATGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACC
* *
46225146 ACAAATGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACC
** * * * *
46225189 ACAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCCTATCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACC
* *
46225232 ACAAACGCCGCTATAGACCACA-ACCTTTAGCGGCACTTTTACC
1 ACAAACGCCGCTAAAGACCA-AGACCTTTAGCGGCGCTTTTACC
* *
46225275 ACAAACGCCGCTATAGACCATGACCTTTAG
1 ACAAACGCCGCTAAAGACCAAGACCTTTAG
46225305 TATAACGACG
Statistics
Matches: 140, Mismatches: 17, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
43 140 1.00
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACC
Found at i:46225701 original size:19 final size:19
Alignment explanation
Indices: 46225679--46225744 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
46225669 ACAGTAATGA
46225679 AAAATTAAACACCACACAT
1 AAAATTAAACACCACACAT
* * *
46225698 AAAATTACACA-AACAGTAAT
1 AAAATTAAACACCACA--CAT
46225718 GAAAAATTAAACACCACACAT
1 --AAAATTAAACACCACACAT
46225739 AAAATT
1 AAAATT
46225745 TATCAAACTA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
18 3 0.08
19 16 0.44
20 2 0.06
21 2 0.06
22 10 0.28
23 3 0.08
ACGTcount: A:0.59, C:0.20, G:0.03, T:0.18
Consensus pattern (19 bp):
AAAATTAAACACCACACAT
Found at i:46225752 original size:41 final size:41
Alignment explanation
Indices: 46225663--46225744 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
46225653 AAAAATTAAA
*
46225663 ACACAGACAGTAATGAAAAATTAAACACCACACATAAAATT
1 ACACAAACAGTAATGAAAAATTAAACACCACACATAAAATT
46225704 ACACAAACAGTAATGAAAAATTAAACACCACACATAAAATT
1 ACACAAACAGTAATGAAAAATTAAACACCACACATAAAATT
46225745 TATCAAACTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.57, C:0.20, G:0.06, T:0.17
Consensus pattern (41 bp):
ACACAAACAGTAATGAAAAATTAAACACCACACATAAAATT
Found at i:46229384 original size:13 final size:13
Alignment explanation
Indices: 46229366--46229392 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46229356 ATTGTCAATC
46229366 TGTTACATTAATT
1 TGTTACATTAATT
46229379 TGTTACATTAATT
1 TGTTACATTAATT
46229392 T
1 T
46229393 ATTTATTTAT
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:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (13 bp):
TGTTACATTAATT
Found at i:46229886 original size:7 final size:7
Alignment explanation
Indices: 46229876--46229920 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
46229866 CACTAACTCT
*
46229876 TAACCTC
1 TAACCCC
*
46229883 TAACCTC
1 TAACCCC
46229890 TAACCCC
1 TAACCCC
*
46229897 TAACTCC
1 TAACCCC
46229904 TAACCCC
1 TAACCCC
46229911 TAACCCC
1 TAACCCC
46229918 TAA
1 TAA
46229921 ATCTTATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.31, C:0.47, G:0.00, T:0.22
Consensus pattern (7 bp):
TAACCCC
Found at i:46229975 original size:7 final size:7
Alignment explanation
Indices: 46229959--46230016 Score: 57
Period size: 7 Copynumber: 8.4 Consensus size: 7
46229949 ACAAATTAAT
46229959 CTAAACC
1 CTAAACC
*
46229966 CTAAATC
1 CTAAACC
*
46229973 CTAAATC
1 CTAAACC
46229980 CTAAACC
1 CTAAACC
46229987 CT-AACC
1 CTAAACC
46229993 C-AAATCC
1 CTAAA-CC
*
46230000 CTAACCC
1 CTAAACC
*
46230007 CTAAGCC
1 CTAAACC
46230014 CTA
1 CTA
46230017 CACCTTATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
6 7 0.16
7 35 0.80
8 2 0.05
ACGTcount: A:0.38, C:0.41, G:0.02, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:46230009 original size:27 final size:27
Alignment explanation
Indices: 46229962--46230016 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
46229952 AATTAATCTA
*
46229962 AACCCTAAATCCTAAATCCTAAACCCT
1 AACCCTAAATCCTAAACCCTAAACCCT
* *
46229989 AACCC-AAATCCCTAACCCCTAAGCCCT
1 AACCCTAAAT-CCTAAACCCTAAACCCT
46230016 A
1 A
46230017 CACCTTATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.38, C:0.42, G:0.02, T:0.18
Consensus pattern (27 bp):
AACCCTAAATCCTAAACCCTAAACCCT
Found at i:46230165 original size:7 final size:7
Alignment explanation
Indices: 46230153--46230183 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
46230143 CTTAAACTAG
46230153 AATCCCT
1 AATCCCT
46230160 AATCCCT
1 AATCCCT
46230167 AATCCCT
1 AATCCCT
46230174 AATCCCT
1 AATCCCT
46230181 AAT
1 AAT
46230184 TCTATAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.32, C:0.39, G:0.00, T:0.29
Consensus pattern (7 bp):
AATCCCT
Found at i:46230263 original size:14 final size:14
Alignment explanation
Indices: 46230241--46230277 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
46230231 ATCCTAAATT
46230241 AACCATATACCCTA
1 AACCATATACCCTA
*
46230255 AATCATATACCCTA
1 AACCATATACCCTA
46230269 AACCATATA
1 AACCATATA
46230278 TATTAAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (14 bp):
AACCATATACCCTA
Found at i:46231189 original size:33 final size:33
Alignment explanation
Indices: 46231120--46231216 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 33
46231110 CTATACCCAT
* * *
46231120 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
46231157 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
46231190 CTATGCCGAATGCA-ACATATATATATA
1 CTATGCCGAATGCATACACATAAATATA
46231217 CATATCTATC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 11 0.20
33 22 0.40
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:46231475 original size:41 final size:41
Alignment explanation
Indices: 46231430--46231585 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
46231420 ACCGGCTCTT
*
46231430 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
46231471 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
46231512 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
46231553 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
46231586 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:46232090 original size:21 final size:23
Alignment explanation
Indices: 46232066--46232113 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
46232056 AATATATATA
46232066 TATTTC-AC-TCATACTTTTAAT
1 TATTTCAACATCATACTTTTAAT
*
46232087 TATTTCAACTATCATATTTTTAAT
1 TATTTCAAC-ATCATACTTTTAAT
46232111 TAT
1 TAT
46232114 ATTTCATCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 2 0.09
24 15 0.65
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTTCAACATCATACTTTTAAT
Found at i:46238828 original size:33 final size:33
Alignment explanation
Indices: 46238759--46238855 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 33
46238749 CTATACCCAT
* * *
46238759 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
46238796 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
46238829 CTATGCCGAATGCA-ACATATATATATA
1 CTATGCCGAATGCATACACATAAATATA
46238856 CATATCTATC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 11 0.20
33 22 0.40
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:46239114 original size:41 final size:41
Alignment explanation
Indices: 46239069--46239224 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
46239059 ACCGGCTCTT
*
46239069 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
46239110 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
46239151 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
46239192 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
46239225 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:46239729 original size:21 final size:23
Alignment explanation
Indices: 46239705--46239752 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
46239695 ATAATATATA
46239705 TATTTC-AC-TCATACTTTTAAT
1 TATTTCAACATCATACTTTTAAT
*
46239726 TATTTCAACTATCATATTTTTAAT
1 TATTTCAAC-ATCATACTTTTAAT
46239750 TAT
1 TAT
46239753 ATTTCATCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 2 0.09
24 15 0.65
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTTCAACATCATACTTTTAAT
Found at i:46241190 original size:41 final size:41
Alignment explanation
Indices: 46241126--46241490 Score: 579
Period size: 41 Copynumber: 8.9 Consensus size: 41
46241116 TCAAAAACGG
* *
46241126 GCATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* * * *
46241167 GCATTAGCAGTGCTTCTTTAAAAACGCCGCTAAAGGTCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* *
46241208 GCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCAGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
*
46241249 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* *
46241290 GCATTAGCAGCGCTTCTTCAAAAACGCCGTTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* *
46241331 GTATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCTGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
*
46241372 GCATTAGCGGCACTTCTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
*
46241413 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGG-CAGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
*
46241453 GCATTAGCGGCGCTTCTTCAAAAACGACGCTAAAGGCC
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
46241491 TCAAAAACTC
Statistics
Matches: 298, Mismatches: 25, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
40 38 0.13
41 260 0.87
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.19
Consensus pattern (41 bp):
GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
Found at i:46241586 original size:39 final size:38
Alignment explanation
Indices: 46241527--46241660 Score: 153
Period size: 40 Copynumber: 3.4 Consensus size: 38
46241517 GGGCTTAGGC
* *
46241527 TTTTT-GCGGCGCTTTTCAAAAAACACCGCTAATGCTTA
1 TTTTTAGCGGCG-TTTTCAAAAAGCGCCGCTAATGCTTA
*
46241565 TTTTTAGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTT-CAAAAAGCGCCGCTAATGCT-TA
** *
46241605 CCTTTAGCGGCGTTTTTATAAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTCA-AAAAGCGCCGCTAATGCTT-A
*
46241645 TTTTTAGTGGCGTTTT
1 TTTTTAGCGGCGTTTT
46241661 TTGTCCAAAC
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
38 9 0.11
39 25 0.31
40 47 0.58
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (38 bp):
TTTTTAGCGGCGTTTTCAAAAAGCGCCGCTAATGCTTA
Found at i:46241674 original size:41 final size:40
Alignment explanation
Indices: 46241552--46241678 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
46241542 TCAAAAAACA
46241552 CCGCTAATGCTT-ATTTTTAGCGGCG--TTTTCCAAAAAGCG
1 CCGCTAATGCTTGATTTTTAGCGGCGTTTTTTCC--AAAGCG
* ** *
46241591 CCGCTAATGCTCGACCTTTAGCGGCGTTTTTAT-AAAAGCG
1 CCGCTAATGCTTGATTTTTAGCGGCGTTTTT-TCCAAAGCG
*
46241631 CCGCTAATGCTTGATTTTTAGTGGCGTTTTTTGTCCAAA-CG
1 CCGCTAATGCTTGATTTTTAGCGGCG-TTTTT-TCCAAAGCG
46241672 CCGCTAA
1 CCGCTAA
46241679 AAGCCTGTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
39 11 0.15
40 39 0.54
41 15 0.21
42 6 0.08
43 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (40 bp):
CCGCTAATGCTTGATTTTTAGCGGCGTTTTTTCCAAAGCG
Found at i:46242227 original size:35 final size:35
Alignment explanation
Indices: 46242159--46242230 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
46242149 GCAAGATTTG
* * *
46242159 GAAAAGGAATAAAATATACTTTCCTTAAAAAAAAA
1 GAAAAGGAAGAAAATATAATTTCCTAAAAAAAAAA
* *
46242194 GAAAAGGAAGAAAATATAATTTTC-AAAAGAAAAA
1 GAAAAGGAAGAAAATATAATTTCCTAAAAAAAAAA
46242228 GAA
1 GAA
46242231 TTATAAAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
34 11 0.34
35 21 0.66
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.19
Consensus pattern (35 bp):
GAAAAGGAAGAAAATATAATTTCCTAAAAAAAAAA
Found at i:46255674 original size:24 final size:24
Alignment explanation
Indices: 46255628--46255675 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
46255618 TAGAAGATTA
*
46255628 AGTATTTATTAGTATATTATATTT
1 AGTATTTATTAGCATATTATATTT
46255652 AGTATTTATTAGCATAATT-TATTT
1 AGTATTTATTAGCAT-ATTATATTT
46255676 GACCTACGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.56
Consensus pattern (24 bp):
AGTATTTATTAGCATATTATATTT
Found at i:46257649 original size:24 final size:24
Alignment explanation
Indices: 46257605--46257650 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
46257595 TTTCTAGAAG
* *
46257605 ATTTAGTATTTAGTTATATAATAT
1 ATTTAGTATTGAGTTACATAATAT
46257629 ATTTAGTATTGA-TTAGCATAAT
1 ATTTAGTATTGAGTTA-CATAAT
46257651 TTAATTGACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.50
Consensus pattern (24 bp):
ATTTAGTATTGAGTTACATAATAT
Found at i:46277565 original size:20 final size:21
Alignment explanation
Indices: 46277523--46277570 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
46277513 GATTCGAATC
*
46277523 AAGATTTGGGAAATATTTGCA
1 AAGATTTGGGAAAGATTTGCA
46277544 AAGATTT-GGAAAGATTAT-CA
1 AAGATTTGGGAAAGATT-TGCA
46277564 AAGATTT
1 AAGATTT
46277571 CTTAATCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.42, C:0.04, G:0.21, T:0.33
Consensus pattern (21 bp):
AAGATTTGGGAAAGATTTGCA
Found at i:46280853 original size:28 final size:28
Alignment explanation
Indices: 46280812--46280986 Score: 244
Period size: 28 Copynumber: 6.3 Consensus size: 28
46280802 CTATTCAGAA
* **
46280812 ACAGT-ACACTGTGGGCCTTAGCCTGAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
46280839 ATAGTAAGAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
46280867 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
46280895 ACAGTAATAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
46280923 ACAGTAATAGTGTGTGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
46280951 ACAGTAACAGTGTGAGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
46280979 ATAGTAAC
1 ACAGTAAC
46280987 CAGTACAGTG
Statistics
Matches: 133, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
27 4 0.03
28 129 0.97
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:46281332 original size:27 final size:27
Alignment explanation
Indices: 46281311--46281849 Score: 567
Period size: 27 Copynumber: 20.0 Consensus size: 27
46281301 AGGGGTAAAA
46281311 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
*
46281338 C-GATCATTCTACCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
* *
46281365 C-GATCATTCTACCCTATGAGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
*
46281392 TAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * **
46281419 -TGTTCATTTTAACCTACAGGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
* **
46281446 TAGTCATTTTACCCTATAAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
** **
46281473 TGGTCATTTTACCCTACAGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * *
46281500 CGGTCATTTTACCCTACGAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
46281527 -TGATCATTTTACCCTATAGGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
46281554 C-GATCATTTTACCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
* *
46281581 TAGTCATTTTACCCTACGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
46281608 CAGTTATTTTACCTTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
*
46281635 C-GATCATTTTACCCTACGGGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
46281662 C-GATCA-TTTACCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
* * *
46281688 CGGTCATTTTATCCTATGGGGGTACTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
46281715 CAGTCATTTTACCCTACGAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * * * *
46281742 TAATTATTTTATCCTATAGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
*
46281769 CAGTTATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
**
46281796 C-GATCATTTTACCCTAAAGGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
* * *
46281823 -TGTCATTTTATCCTATAGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
46281849 C
1 C
46281850 GGGGTGTCAG
Statistics
Matches: 442, Mismatches: 57, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
26 50 0.11
27 389 0.88
28 3 0.01
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTATTT
Found at i:46286225 original size:18 final size:20
Alignment explanation
Indices: 46286199--46286238 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
46286189 ACCCTTTTAC
46286199 ATATATTA-TTATA-TAAAT
1 ATATATTATTTATATTAAAT
*
46286217 ATATCTTATTTATATTAAAT
1 ATATATTATTTATATTAAAT
46286237 AT
1 AT
46286239 TTCATTCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 5 0.26
20 7 0.37
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATTATTTATATTAAAT
Found at i:46291174 original size:37 final size:38
Alignment explanation
Indices: 46291111--46291182 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
46291101 GTTCAGATTC
46291111 AAAAAAGAAAAGAAAAAGAAAAATCAAAGTCAAAAGCA
1 AAAAAAGAAAAGAAAAAGAAAAATCAAAGTCAAAAGCA
**
46291149 AAAAAAGAAAAGAAAAA-AATGATCAAAGTCAAAA
1 AAAAAAGAAAAGAAAAAGAAAAATCAAAGTCAAAA
46291183 TAAAAAGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
37 15 0.47
38 17 0.53
ACGTcount: A:0.74, C:0.07, G:0.12, T:0.07
Consensus pattern (38 bp):
AAAAAAGAAAAGAAAAAGAAAAATCAAAGTCAAAAGCA
Found at i:46292106 original size:7 final size:7
Alignment explanation
Indices: 46292089--46292135 Score: 60
Period size: 7 Copynumber: 6.6 Consensus size: 7
46292079 CTTTGAGTCA
46292089 AAAAATG
1 AAAAATG
*
46292096 -AAAATT
1 AAAAATG
46292102 AAAAATG
1 AAAAATG
46292109 AAAAATG
1 AAAAATG
46292116 AAAAAATG
1 -AAAAATG
46292124 AAAAAGTG
1 AAAAA-TG
46292132 AAAA
1 AAAA
46292136 TGGAGAGGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 5 0.14
7 17 0.49
8 13 0.37
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:46292113 original size:8 final size:8
Alignment explanation
Indices: 46292102--46292135 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
46292092 AATGAAAATT
46292102 AAAAATG-
1 AAAAATGA
46292109 AAAAATGA
1 AAAAATGA
46292117 AAAAATGA
1 AAAAATGA
*
46292125 AAAAGTGA
1 AAAAATGA
46292133 AAA
1 AAA
46292136 TGGAGAGGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.12
Consensus pattern (8 bp):
AAAAATGA
Found at i:46292120 original size:15 final size:15
Alignment explanation
Indices: 46292088--46292135 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
46292078 ACTTTGAGTC
46292088 AAAAAATG-AAAAT-
1 AAAAAATGAAAAATG
*
46292101 TAAAAATGAAAAATG
1 AAAAAATGAAAAATG
46292116 AAAAAATGAAAAAGTG
1 AAAAAATGAAAAA-TG
46292132 AAAA
1 AAAA
46292136 TGGAGAGGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 7 0.23
14 5 0.17
15 12 0.40
16 6 0.20
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (15 bp):
AAAAAATGAAAAATG
Found at i:46293453 original size:88 final size:88
Alignment explanation
Indices: 46293293--46294258 Score: 1389
Period size: 88 Copynumber: 11.0 Consensus size: 88
46293283 TGAAATCACA
* * * ** * * * *
46293293 AAGCCTTGCCTCCATGGGTTGCAGCAGAGCATGTTAAAGATAGTAGATCTTGCCTTCCTGTA-CT
1 AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATC-
* * *
46293357 GACAGCGAAGTAGATCGAAGATAC
65 GACGGCGAAGCAGATCGAAGACAC
* * *
46293381 CAGCCTTGCCTCCCTAGGTTGTAGTGGA-CTAGGTTGAAGATAGCAGATCTGGCCTTCCTGCATC
1 AAGCCTTGCCTCCCTCGGTTGTAGTGGAGC-AGGTTGAAGATAGCAGATCTTGCCTTCCTGCATC
*
46293445 GATGGCGAAGCAGATCGAA-ATCAC
65 GACGGCGAAGCAGATCGAAGA-CAC
*
46293469 AAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGCATC
1 -AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATC
* ** * *
46293534 AATAGCAAAGCAGATCGAAGGCAC
65 GACGGCGAAGCAGATCGAAGACAC
* *
46293558 AAGCCTTGCCTCCTTCGTTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
1 AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
*
46293623 ACGGTGAAGCAGATCGAAGACAC
66 ACGGCGAAGCAGATCGAAGACAC
* *
46293646 AAGCCTTGCCTCCTTCGGTTGTAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
1 AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
** *
46293711 ATAGCGAAGCAGATCGAAGGCAC
66 ACGGCGAAGCAGATCGAAGACAC
* * *
46293734 AAGCCTTGCCTCCTTCGTTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTG
1 AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
*
46293799 ACGGTGAAGCAGATCGAAGACAC
66 ACGGCGAAGCAGATCGAAGACAC
* * *
46293822 AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAAATCTTTCCTTCCTACATCG
1 AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
46293887 ACGGCGAAGCAGATCGAAGACAC
66 ACGGCGAAGCAGATCGAAGACAC
* * *
46293910 AAGCCTTGCCCCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGGCTTTCTGCATCG
1 AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
*
46293975 ACGGCGAAGAAGATCGAAGACAC
66 ACGGCGAAGCAGATCGAAGACAC
* *
46293998 AAGCCTTGCTTCCCTCGGTTGTAGTGGACCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
1 AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
*
46294063 ATGGCGAAGCAGATCGAAGACAC
66 ACGGCGAAGCAGATCGAAGACAC
* *
46294086 AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAAGTTGAAGATAGCAGATCTTGCCTTCCTGCATCA
1 AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
* * *
46294151 ACAGTGAAACAGATCGAAGACAC
66 ACGGCGAAGCAGATCGAAGACAC
* * *
46294174 AAGCCTTGCCTCCCTCAGTTGTAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCG
1 AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
* *
46294239 ACAGTGAAGCAGATCGAAGA
66 ACGGCGAAGCAGATCGAAGA
46294259 TACTAATTCT
Statistics
Matches: 792, Mismatches: 80, Indels: 12
0.90 0.09 0.01
Matches are distributed among these distances:
87 2 0.00
88 711 0.90
89 78 0.10
90 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (88 bp):
AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
ACGGCGAAGCAGATCGAAGACAC
Found at i:46295133 original size:19 final size:19
Alignment explanation
Indices: 46295109--46295158 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
46295099 CGACCCCTCC
* * *
46295109 TCACACGCGCGCAACGTCT
1 TCACACGCCCCCAACGCCT
46295128 TCACACGCCCCCAACGCCT
1 TCACACGCCCCCAACGCCT
46295147 TCACACGCCCCC
1 TCACACGCCCCC
46295159 TTACATCTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.20, C:0.54, G:0.14, T:0.12
Consensus pattern (19 bp):
TCACACGCCCCCAACGCCT
Found at i:46296526 original size:18 final size:20
Alignment explanation
Indices: 46296503--46296542 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
46296493 CCCCTTTTAC
46296503 ATATATTA-TTATA-TAAAT
1 ATATATTATTTATATTAAAT
46296521 ATATATTATTTATATTAAAT
1 ATATATTATTTATATTAAAT
46296541 AT
1 AT
46296543 TTCATTCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATTATTTATATTAAAT
Found at i:46303988 original size:16 final size:17
Alignment explanation
Indices: 46303967--46303998 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
46303957 CAATTTTGTA
46303967 TAAATTTCA-AAAATAC
1 TAAATTTCATAAAATAC
46303983 TAAATTTCATAAAATA
1 TAAATTTCATAAAATA
46303999 AATTATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAATTTCATAAAATAC
Found at i:46306264 original size:7 final size:7
Alignment explanation
Indices: 46306252--46306282 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
46306242 ATATACTCTT
46306252 AACCCTA
1 AACCCTA
46306259 AACCCTA
1 AACCCTA
*
46306266 AACCTTA
1 AACCCTA
46306273 AACCCTA
1 AACCCTA
46306280 AAC
1 AAC
46306283 TCGTTTAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (7 bp):
AACCCTA
Found at i:46306403 original size:80 final size:80
Alignment explanation
Indices: 46306270--46306430 Score: 304
Period size: 80 Copynumber: 2.0 Consensus size: 80
46306260 ACCCTAAACC
46306270 TTAAACCCTAAACTCGTTTAGATTAGCTATTGAAGTAAGTTTTGTTTCTCGCAATGTAAACATTC
1 TTAAACCCTAAACTCGTTTAGATTAGCTATTGAAGTAAGTTTTGTTTCTCGCAATGTAAACATTC
*
46306335 TTATAATGCCACTTA
66 TTACAATGCCACTTA
*
46306350 TTAAACCCTAAACTCGTTTAGATTAGCTATTGAAGTAAGTTTTGTTTCTCGCAATGTAAACGTTC
1 TTAAACCCTAAACTCGTTTAGATTAGCTATTGAAGTAAGTTTTGTTTCTCGCAATGTAAACATTC
46306415 TTACAATGCCACTTA
66 TTACAATGCCACTTA
46306430 T
1 T
46306431 CATTAGTTTG
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (80 bp):
TTAAACCCTAAACTCGTTTAGATTAGCTATTGAAGTAAGTTTTGTTTCTCGCAATGTAAACATTC
TTACAATGCCACTTA
Found at i:46322157 original size:22 final size:22
Alignment explanation
Indices: 46322132--46322173 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
46322122 TATTTCAAAA
46322132 AAGAA-AAGAAAATAAAAGAAGC
1 AAGAATAAGAAAA-AAAAGAAGC
*
46322154 AAGAATAAGAAGAAAAAGAA
1 AAGAATAAGAAAAAAAAGAA
46322174 AAATGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.05
Consensus pattern (22 bp):
AAGAATAAGAAAAAAAAGAAGC
Found at i:46323458 original size:45 final size:45
Alignment explanation
Indices: 46323400--46324137 Score: 938
Period size: 45 Copynumber: 16.4 Consensus size: 45
46323390 CAGATCAATG
*
46323400 AGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGA
1 AGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGA
* * * *
46323445 AGATGGTAGATCTTGTCTTCCTGTATTGGCAGCAAAATAGATCGA
1 AGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGA
46323490 AGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGA
1 AGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGA
* * *
46323535 AGATAGAAGGTCTTGTCTTCCTGTATTGGTAGCGAAGTAGA-CTGA
1 AGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GA
*
46323580 AGATAGCA-AGTCTTGTCTTCCTGTATTGGCAGCAAAGTAGA-CTGA
1 AGATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GA
*
46323625 AGATAGCAGATCTTGTCTTCCTGTATTGGTAGCGAAGTAGATCGA
1 AGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGA
* *
46323670 AGATAGCA-AGTCTTGTCTACCTATATTGGCAGCGAAGTAGA-CTGA
1 AGATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GA
*
46323715 AGATAGCA-AGTCTTGTCTTCTTGTATTGGCAGCGAAGTAGA-CTGA
1 AGATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GA
* *
46323760 AGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAA
1 AGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGA
* * *
46323805 AGATGGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGA
1 AGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGA
*
46323850 AGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGA
1 AGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGA
* * * *
46323895 AGATAGTAGGA-CTTGTCTTCTTGTATTGGTAGTGAAGTAGA-CTGA
1 AGATAGCA-GATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GA
* *
46323940 AGATAGCAGGTCTTGTCTTCCTTTATTGGCAGCGAAGTAGA-CTGA
1 AGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GA
*
46323985 AGATAGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGA
1 AGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGA
* * * * * * * *
46324030 TGATGGTAGGTTTTGTCTTCCTGGATTGGCAGTGAAGTAGGTCGA
1 AGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGA
* * * * *
46324075 AGATAACAGATCTTGTCTTCCTATATTAGCAGTGAAGTAGATCAA
1 AGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGA
* * *
46324120 AAATTGCAGATCCTGTCT
1 AGATAGCAGATCTTGTCT
46324138 CCCTAAAGCA
Statistics
Matches: 609, Mismatches: 72, Indels: 24
0.86 0.10 0.03
Matches are distributed among these distances:
44 5 0.01
45 597 0.98
46 7 0.01
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.31
Consensus pattern (45 bp):
AGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGA
Found at i:46324237 original size:44 final size:43
Alignment explanation
Indices: 46324176--46324330 Score: 127
Period size: 44 Copynumber: 3.5 Consensus size: 43
46324166 GATAACAAAC
46324176 CTTATC-CCTCTGAAGTTGCAGTAGGGCAAGTTGAAGATACAAGT
1 CTTATCTCC-CTGAAGTTGCAGT-GGGCAAGTTGAAGATACAAGT
* * * **
46324220 CTTATCTCCCT-AGAGTTGCAGTGGAGC-AGACTGAGGATAGTAAAC
1 CTTATCTCCCTGA-AGTTGCAGTGG-GCAAG-TTGAAGATA-CAAGT
* * * *
46324265 CTTATCCCCCTGAAGTTGTAGTGGGGTAGGTTGAAGATACAAGT
1 CTTATCTCCCTGAAGTTGCAGT-GGGCAAGTTGAAGATACAAGT
**
46324309 CTTATCTCCCTGACTTTGCAGT
1 CTTATCTCCCTGAAGTTGCAGT
46324331 CGAGCAGACT
Statistics
Matches: 85, Mismatches: 18, Indels: 16
0.71 0.15 0.13
Matches are distributed among these distances:
43 5 0.06
44 46 0.54
45 30 0.35
46 4 0.05
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (43 bp):
CTTATCTCCCTGAAGTTGCAGTGGGCAAGTTGAAGATACAAGT
Found at i:46324298 original size:89 final size:89
Alignment explanation
Indices: 46324172--46324340 Score: 259
Period size: 89 Copynumber: 1.9 Consensus size: 89
46324162 CGAAGATAAC
*
46324172 AAACCTTATCCCTCTGAAGTTGCAGTAGGGCAAGTTGAAGATACAAGTCTTATCTCCCTAGA-GT
1 AAACCTTATCCCCCTGAAGTTGCAGTAGGGCAAGTTGAAGATACAAGTCTTATCTCCCT-GACGT
*
46324236 TGCAGTGGAGCAGACTGAGGATAGT
65 TGCAGTCGAGCAGACTGAGGATAGT
* * * * *
46324261 AAACCTTATCCCCCTGAAGTTGTAGTGGGGTAGGTTGAAGATACAAGTCTTATCTCCCTGACTTT
1 AAACCTTATCCCCCTGAAGTTGCAGTAGGGCAAGTTGAAGATACAAGTCTTATCTCCCTGACGTT
46324326 GCAGTCGAGCAGACT
66 GCAGTCGAGCAGACT
46324341 AAAACCACAA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
88 2 0.03
89 70 0.97
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (89 bp):
AAACCTTATCCCCCTGAAGTTGCAGTAGGGCAAGTTGAAGATACAAGTCTTATCTCCCTGACGTT
GCAGTCGAGCAGACTGAGGATAGT
Found at i:46325975 original size:22 final size:22
Alignment explanation
Indices: 46325925--46325976 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
46325915 TTTTATAATT
*
46325925 TATTTATTTATATATATATTCA
1 TATTTATATATATATATATTCA
* *
46325947 TACTTATATATATATAT-TTTA
1 TATTTATATATATATATATTCA
46325968 TATTT-TATA
1 TATTTATATA
46325977 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 4 0.15
21 7 0.27
22 15 0.58
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTATATATATATATATTCA
Found at i:46326150 original size:39 final size:39
Alignment explanation
Indices: 46326106--46326191 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 39
46326096 CATACACACT
* * * * *
46326106 TTTTTATAATGTACATACTTATAT-TTTATATATTTTTG
1 TTTTTATAATCTACATACATATATATGTAAATATTTATG
*
46326144 TATTTTATAATCTATATACATATATATGTAAATATTTATG
1 T-TTTTATAATCTACATACATATATATGTAAATATTTATG
46326184 TTTTTATA
1 TTTTTATA
46326192 TTTTATAATC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
38 1 0.03
39 27 0.68
40 12 0.30
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (39 bp):
TTTTTATAATCTACATACATATATATGTAAATATTTATG
Found at i:46333160 original size:24 final size:24
Alignment explanation
Indices: 46333128--46333204 Score: 100
Period size: 24 Copynumber: 3.2 Consensus size: 24
46333118 GGGTGTTACA
* *
46333128 TCCCGATATTGGCTTACTTGAACT
1 TCCCAATATTGGCTCACTTGAACT
*
46333152 TCCCAATATTGACTCACTTGAACT
1 TCCCAATATTGGCTCACTTGAACT
* * *
46333176 TCCCGATATTGGCTCATTTGAGCT
1 TCCCAATATTGGCTCACTTGAACT
46333200 TCCCA
1 TCCCA
46333205 TTATATAGCC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (24 bp):
TCCCAATATTGGCTCACTTGAACT
Found at i:46333226 original size:25 final size:25
Alignment explanation
Indices: 46333196--46333291 Score: 102
Period size: 25 Copynumber: 3.8 Consensus size: 25
46333186 GGCTCATTTG
* *
46333196 AGCTTCCCATTATATAGCCCAGATA
1 AGCTTCCCGTTATATAGCTCAGATA
* * * *
46333221 AGCTTCCCGTCATACAACTTAGATA
1 AGCTTCCCGTTATATAGCTCAGATA
* * *
46333246 AGCTTCCCGTTATATGGCTCACATG
1 AGCTTCCCGTTATATAGCTCAGATA
*
46333271 AGCTTACCGTTATATAGCTCA
1 AGCTTCCCGTTATATAGCTCA
46333292 AAAGAGATTC
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (25 bp):
AGCTTCCCGTTATATAGCTCAGATA
Found at i:46337455 original size:17 final size:18
Alignment explanation
Indices: 46337424--46337458 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
46337414 GACTCTTAGC
46337424 TTTAATTTTTCATTTGTT
1 TTTAATTTTTCATTTGTT
*
46337442 TTTACTTTTT-ATTTGTT
1 TTTAATTTTTCATTTGTT
46337459 CCTTTACGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.74
Consensus pattern (18 bp):
TTTAATTTTTCATTTGTT
Found at i:46339803 original size:17 final size:16
Alignment explanation
Indices: 46339752--46339804 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
46339742 TCTATTTATT
46339752 TTATT-ATTATTTT-A
1 TTATTAATTATTTTAA
* *
46339766 TTCTTAATTTTTTATAA
1 TTATTAATTATTT-TAA
46339783 TTATTAATTATTTTAA
1 TTATTAATTATTTTAA
46339799 GTTATT
1 -TTATT
46339805 TAGGAGTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
14 4 0.13
15 6 0.19
16 4 0.13
17 17 0.55
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (16 bp):
TTATTAATTATTTTAA
Found at i:46344789 original size:12 final size:12
Alignment explanation
Indices: 46344772--46344802 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
46344762 TTAATTGATT
46344772 TTTCTTTGTTCC
1 TTTCTTTGTTCC
46344784 TTTCTTTGTTCC
1 TTTCTTTGTTCC
46344796 TTTCTTT
1 TTTCTTT
46344803 TTCTTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.23, G:0.06, T:0.71
Consensus pattern (12 bp):
TTTCTTTGTTCC
Found at i:46348083 original size:18 final size:18
Alignment explanation
Indices: 46348060--46348096 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
46348050 AATACACAAG
46348060 TAAAAATTTTATTTCCTT
1 TAAAAATTTTATTTCCTT
46348078 TAAAAATTTTATTTCCTT
1 TAAAAATTTTATTTCCTT
46348096 T
1 T
46348097 CTTATACCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (18 bp):
TAAAAATTTTATTTCCTT
Found at i:46357564 original size:64 final size:64
Alignment explanation
Indices: 46357490--46357625 Score: 200
Period size: 64 Copynumber: 2.1 Consensus size: 64
46357480 AGCCTCTCGC
*
46357490 AATTAATTAATTAATCTAAATTTAACTCAAATAAAGTTATCTTCAACTACACCAAATTCAATTT
1 AATTATTTAATTAATCTAAATTTAACTCAAATAAAGTTATCTTCAACTACACCAAATTCAATTT
* * * * * **
46357554 AATTATTTAATTAATCTAAATTTAACTTAAATCAAGTTATCTTCAGCTATATCGTATTCAATTT
1 AATTATTTAATTAATCTAAATTTAACTCAAATAAAGTTATCTTCAACTACACCAAATTCAATTT
46357618 AATTATTT
1 AATTATTT
46357626 CTATTTAGCC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.41, C:0.13, G:0.03, T:0.43
Consensus pattern (64 bp):
AATTATTTAATTAATCTAAATTTAACTCAAATAAAGTTATCTTCAACTACACCAAATTCAATTT
Found at i:46360225 original size:304 final size:304
Alignment explanation
Indices: 46359656--46360257 Score: 947
Period size: 304 Copynumber: 2.0 Consensus size: 304
46359646 GATTAAAATA
* *
46359656 AACCTGACAAACCATTTGCAAAAAAAAAATTCGATTAGCACTGAAATAATTCATCATATACTTAA
1 AACCTAACAAACCATTTGCAAAAAAAAAATTCGATTAGCACTAAAATAATTCATCATATACTTAA
* *
46359721 TGCCCTTCAATAATTTAATCAAAATCGTTCATATATACATTTCATCGAATCAATACCAAAAAGAG
66 TGCCCTTCAATAATTTAATCAAAATCATTCATATATACATTTCATCGAATCAATACCAAAAAGAA
46359786 ACATTCTTGTATGATCATTCTCTAGCATAAATATTTTAATGGATAAACACATGTATTAACAAATA
131 ACATTCTTGTATGATCATTCTCTAGCATAAATATTTTAATGGATAAACACATGTATTAACAAATA
* *
46359851 ATTTAAATATCAATCACAAATTTTAATAGCCCAATGAACTATAGTAACATAACTTGATTACTCAG
196 ATTTAAACATCAATCACAAATTTTAATAGCCCAATGAACTATAGTAACATAACTGGATTACTCAG
* *
46359916 GTAACTAGATCACAAC-AGAGAGCATCAAAATGCTAAACTATAGT
261 GTAACTACATCAC-ACTAAAGAGCATCAAAATGCTAAACTATAGT
** * * *
46359960 AACCTAACAAACCATTTGCAAAAAGTAGATTGGATTAGCACTAAAATAATTCATCATATACTTCA
1 AACCTAACAAACCATTTGCAAAAAAAAAATTCGATTAGCACTAAAATAATTCATCATATACTTAA
* * *
46360025 TGCCCTTCAATAATTTCATTAAAATCATTCATATATACATTTCATTGAATCAATACCAAAAAGAA
66 TGCCCTTCAATAATTTAATCAAAATCATTCATATATACATTTCATCGAATCAATACCAAAAAGAA
* * *
46360090 ACATTCTTGTATGATCATTCTCTAGCATAGATCTTTTAATGGATAAACACATGTATTAACAAATC
131 ACATTCTTGTATGATCATTCTCTAGCATAAATATTTTAATGGATAAACACATGTATTAACAAATA
* * * * **
46360155 ATTTATACATCAATCATAAATTTTAATAGCCTAGTGAACTATAGTAACATAACTCGGA-TACTTG
196 ATTTAAACATCAATCACAAATTTTAATAGCCCAATGAACTATAGTAACATAACT-GGATTACTCA
46360219 GGTAACTACATCACACTAAAGAGCATCAAAATGCTAAAC
260 GGTAACTACATCACACTAAAGAGCATCAAAATGCTAAAC
46360258 AAAGGCACTA
Statistics
Matches: 271, Mismatches: 25, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
303 2 0.01
304 267 0.99
305 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (304 bp):
AACCTAACAAACCATTTGCAAAAAAAAAATTCGATTAGCACTAAAATAATTCATCATATACTTAA
TGCCCTTCAATAATTTAATCAAAATCATTCATATATACATTTCATCGAATCAATACCAAAAAGAA
ACATTCTTGTATGATCATTCTCTAGCATAAATATTTTAATGGATAAACACATGTATTAACAAATA
ATTTAAACATCAATCACAAATTTTAATAGCCCAATGAACTATAGTAACATAACTGGATTACTCAG
GTAACTACATCACACTAAAGAGCATCAAAATGCTAAACTATAGT
Found at i:46368053 original size:9 final size:9
Alignment explanation
Indices: 46367952--46368157 Score: 76
Period size: 9 Copynumber: 21.0 Consensus size: 9
46367942 TTTAATATTT
46367952 TTATAAAATA
1 TTATAAAA-A
46367962 TTA-AAAAA
1 TTATAAAAA
*
46367970 ATA-AAAAA
1 TTATAAAAA
*
46367978 TTGATATAAAC
1 TT-ATA-AAAA
46367989 TTATAAAAAA
1 TTAT-AAAAA
* *
46367999 TTATTAATA
1 TTATAAAAA
46368008 TTATAAAAA
1 TTATAAAAA
46368017 TTATAACAAA
1 TTATAA-AAA
46368027 TTAATAAAAA
1 TT-ATAAAAA
**
46368037 ACA-ATAAAA
1 TTATA-AAAA
46368046 TTATTAAAAACA
1 TTA-T-AAAA-A
* *
46368058 TATTTAAAAT
1 T-TATAAAAA
46368068 TCTATAAAAA
1 T-TATAAAAA
* *
46368078 ATATTAAAAT
1 TTA-TAAAAA
46368088 TCTATAAAAAAAA
1 T-TAT---AAAAA
* **
46368101 TCATAAGCA
1 TTATAAAAA
46368110 TTATAAAAAA
1 TTAT-AAAAA
46368120 TTATAAAAA
1 TTATAAAAA
* *
46368129 GTATTAAAA
1 TTATAAAAA
46368138 TTAATATAAAA
1 TT-ATA-AAAA
46368149 TTATAAAAA
1 TTATAAAAA
46368158 AGAATCATAA
Statistics
Matches: 145, Mismatches: 31, Indels: 41
0.67 0.14 0.19
Matches are distributed among these distances:
8 10 0.07
9 52 0.36
10 46 0.32
11 25 0.17
12 6 0.04
13 6 0.04
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (9 bp):
TTATAAAAA
Found at i:46368158 original size:21 final size:20
Alignment explanation
Indices: 46367970--46368158 Score: 121
Period size: 21 Copynumber: 9.4 Consensus size: 20
46367960 TATTAAAAAA
*
46367970 ATAAAAAATTGATATAAACTT
1 ATAAAAAATT-ATATAAAATT
*
46367991 ATAAAAAATTAT-TAATATT
1 ATAAAAAATTATATAAAATT
46368010 AT-AAAAATTATA-ACAAATT
1 ATAAAAAATTATATA-AAATT
*
46368029 AATAAAAAA-CA-ATAAAATT
1 -ATAAAAAATTATATAAAATT
*
46368048 ATTAAAAACA-TATTTAAAATTCT
1 A-TAAAAA-ATTATATAAAA-T-T
46368071 ATAAAAAA-TAT-TAAAATTCT
1 ATAAAAAATTATATAAAA-T-T
* *
46368091 ATAAAAAA-AATCATAAGCATT
1 ATAAAAAATTAT-ATAA-AATT
*
46368112 ATAAAAAATTATA-AAAAGT
1 ATAAAAAATTATATAAAATT
*
46368131 AT-TAAAATTAATATAAAATT
1 ATAAAAAATT-ATATAAAATT
46368151 ATAAAAAA
1 ATAAAAAA
46368159 GAATCATAAA
Statistics
Matches: 137, Mismatches: 14, Indels: 34
0.74 0.08 0.18
Matches are distributed among these distances:
18 17 0.12
19 30 0.22
20 36 0.26
21 38 0.28
22 13 0.09
23 3 0.02
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (20 bp):
ATAAAAAATTATATAAAATT
Done.