Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 156 of 211
Found at i:46130866 original size:18 final size:17
Alignment explanation
Indices: 46130835--46130883 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
46130825 TCTCATTAAC
46130835 ACCATAATTCAATTATCA-
1 ACCA-AATTCAATT-TCAT
46130853 ACCAAATTCAAATTTCAT
1 ACCAAATTC-AATTTCAT
46130871 ACCAAATT-AATTT
1 ACCAAATTCAATTT
46130884 GCATTCAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.17
17 8 0.28
18 16 0.55
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (17 bp):
ACCAAATTCAATTTCAT
Found at i:46131889 original size:49 final size:50
Alignment explanation
Indices: 46131791--46131889 Score: 110
Period size: 49 Copynumber: 2.0 Consensus size: 50
46131781 GAGCTATCTA
* * *** *
46131791 TTCGAGAACACACTTGGGCACAAAGTGCCAAGCCTGTAGGCTAATATCCC
1 TTCGAGAACACACCTCGGCACAAAGTGCCAAGCCCAAAGGCTAACATCCC
** *
46131841 TTCGA-AACACACCTCGGCACTGAGTGCCAAGCCCAAAGGCTTACATCCC
1 TTCGAGAACACACCTCGGCACAAAGTGCCAAGCCCAAAGGCTAACATCCC
46131890 CATGATAACA
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
49 35 0.88
50 5 0.12
ACGTcount: A:0.29, C:0.32, G:0.20, T:0.18
Consensus pattern (50 bp):
TTCGAGAACACACCTCGGCACAAAGTGCCAAGCCCAAAGGCTAACATCCC
Found at i:46134385 original size:22 final size:20
Alignment explanation
Indices: 46134344--46134385 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
46134334 CCATTGTTGA
*
46134344 GAAATTGAAGAATTAGGCTT
1 GAAATTGAAGAATTAAGCTT
46134364 GAAATTGATAGAAGTTAAGCTT
1 GAAATTGA-AGAA-TTAAGCTT
46134386 AGATTATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 4 0.21
22 7 0.37
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (20 bp):
GAAATTGAAGAATTAAGCTT
Found at i:46136373 original size:39 final size:39
Alignment explanation
Indices: 46136129--46136391 Score: 237
Period size: 40 Copynumber: 6.6 Consensus size: 39
46136119 TTGAATGCTG
* * * * *
46136129 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
** *
46136169 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAA-A
* *
46136209 TCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGATA-TAAGT
1 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGATACTAA-A
* *
46136249 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* * *
46136289 TCCGGGTAAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* *
46136329 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
46136368 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
46136392 TGAACGAGGA
Statistics
Matches: 192, Mismatches: 22, Indels: 19
0.82 0.09 0.08
Matches are distributed among these distances:
39 38 0.20
40 140 0.73
41 13 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:46136411 original size:79 final size:80
Alignment explanation
Indices: 46136249--46136426 Score: 193
Period size: 79 Copynumber: 2.2 Consensus size: 80
46136239 AGATATAAGT
* * *
46136249 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTAAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGTAAAGTCCCGAAGGCATTC
** * *
46136314 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * *
46136329 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCT-ATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGG-TAAAGTCCCGAAGGCATT
* *
46136392 TGAACGAG-GAGCTATA
65 CGAACGAGTGA-CTAAA
*
46136408 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
46136427 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
78 16 0.19
79 47 0.57
80 20 0.24
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGTAAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:46142928 original size:20 final size:19
Alignment explanation
Indices: 46142884--46142933 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
46142874 TATGTATTTT
* *
46142884 TTAAATAATATTGATACAT
1 TTAAAAAATATTGATACAA
*
46142903 TTAAAACATATTGATAACAA
1 TTAAAAAATATTGAT-ACAA
46142923 TTAAAAAATAT
1 TTAAAAAATAT
46142934 ATTATTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (19 bp):
TTAAAAAATATTGATACAA
Found at i:46144080 original size:12 final size:13
Alignment explanation
Indices: 46144063--46144092 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
46144053 CGATTTACAG
46144063 AAAATAGAGAA-A
1 AAAATAGAGAATA
46144075 AAAATAGAGAATA
1 AAAATAGAGAATA
46144088 AAAAT
1 AAAAT
46144093 CAATCCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (13 bp):
AAAATAGAGAATA
Found at i:46144422 original size:14 final size:14
Alignment explanation
Indices: 46144403--46144451 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
46144393 TGGGCATTTG
46144403 GGCTAGTTGGGTTT
1 GGCTAGTTGGGTTT
46144417 GGCTAG--GGGATTT
1 GGCTAGTTGGG-TTT
46144430 GGGCTAGTTGGGTTT
1 -GGCTAGTTGGGTTT
*
46144445 GGGTAGT
1 GGCTAGT
46144452 GGATTTGGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
12 3 0.10
13 3 0.10
14 18 0.60
15 3 0.10
16 3 0.10
ACGTcount: A:0.10, C:0.06, G:0.47, T:0.37
Consensus pattern (14 bp):
GGCTAGTTGGGTTT
Found at i:46144430 original size:28 final size:28
Alignment explanation
Indices: 46144398--46144461 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
46144388 GGTCATGGGC
46144398 ATTTGGGCTAGTTGGGTTTGGCTAGGGG
1 ATTTGGGCTAGTTGGGTTTGGCTAGGGG
* *
46144426 ATTTGGGCTAGTTGGGTTTGGGTAGTGG
1 ATTTGGGCTAGTTGGGTTTGGCTAGGGG
46144454 ATTTGGGC
1 ATTTGGGC
46144462 CATTAGGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.11, C:0.06, G:0.45, T:0.38
Consensus pattern (28 bp):
ATTTGGGCTAGTTGGGTTTGGCTAGGGG
Found at i:46151965 original size:103 final size:103
Alignment explanation
Indices: 46151793--46151991 Score: 310
Period size: 103 Copynumber: 1.9 Consensus size: 103
46151783 ACTTAATCGC
46151793 TTTTGAATTTACCTAAGTCCAAAATTTGTTGCAGAATATCGTGTTATATTTATAGTGCTTCTGGT
1 TTTTGAATTTACCTAAGTCCAAAATTTGTTGCAGAATATCGTGTTATATTTATAGTGCTTCTGGT
*
46151858 GTGTTATCGGGGGCTGAGGTAAAACCTTCGGTAATCAT
66 GTGTTATCGGGGGCAGAGGTAAAACCTTCGGTAATCAT
* ** **
46151896 TTTTGAATTTA-TTGAAGTCCAGCATTTGTTGCAGGCTATCGTGTTATATTTATAGTGCTTCTGG
1 TTTTGAATTTACCT-AAGTCCAAAATTTGTTGCAGAATATCGTGTTATATTTATAGTGCTTCTGG
* *
46151960 TGTGTTATTGGGGGCAGAGGTAAAGCCTTCGG
65 TGTGTTATCGGGGGCAGAGGTAAAACCTTCGG
46151992 GATTGGCACT
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
102 1 0.01
103 86 0.99
ACGTcount: A:0.23, C:0.13, G:0.25, T:0.39
Consensus pattern (103 bp):
TTTTGAATTTACCTAAGTCCAAAATTTGTTGCAGAATATCGTGTTATATTTATAGTGCTTCTGGT
GTGTTATCGGGGGCAGAGGTAAAACCTTCGGTAATCAT
Found at i:46156457 original size:21 final size:21
Alignment explanation
Indices: 46156431--46156483 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
46156421 TAAATAAAAT
* *
46156431 AATAAATTGAAATTTATTTAA
1 AATAAAATAAAATTTATTTAA
46156452 AATAAAATAAAATTTATTTAAA
1 AATAAAATAAAATTTATTT-AA
46156474 AATTAAAATA
1 AA-TAAAATA
46156484 TATAGTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 17 0.61
22 4 0.14
23 7 0.25
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
AATAAAATAAAATTTATTTAA
Found at i:46157128 original size:16 final size:18
Alignment explanation
Indices: 46157101--46157133 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
46157091 ATTTATCTTT
46157101 GTTTTAATTTTG-AGCCC
1 GTTTTAATTTTGCAGCCC
46157118 GTTTTAA-TTTGCAGCC
1 GTTTTAATTTTGCAGCC
46157134 TATTTCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (18 bp):
GTTTTAATTTTGCAGCCC
Found at i:46158096 original size:20 final size:21
Alignment explanation
Indices: 46158058--46158101 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
46158048 TAGGGTAGAG
*
46158058 AAAAGAGAATAGAGGTTGAGGA
1 AAAAGAAAATAGA-GTTGAGGA
46158080 AAAAGAAAATAGA-TTGAGGA
1 AAAAGAAAATAGAGTTGAGGA
46158100 AA
1 AA
46158102 TGGTACTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
22 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.30, T:0.14
Consensus pattern (21 bp):
AAAAGAAAATAGAGTTGAGGA
Found at i:46173744 original size:33 final size:28
Alignment explanation
Indices: 46173686--46173789 Score: 91
Period size: 28 Copynumber: 3.5 Consensus size: 28
46173676 AATATACAAC
* * *
46173686 ATACAATAATAGTCTAGGCCTTAGCCCT
1 ATACAGTAATAGTGTGGGCCTTAGCCCT
* *
46173714 ATTCAGTATCAGTACAGTGTGGGCCTTAGCCTT
1 ATACAGTA--A-T--AGTGTGGGCCTTAGCCCT
*
46173747 ATACAGTAATAGTGTGGGCCTTAGCCCA
1 ATACAGTAATAGTGTGGGCCTTAGCCCT
* *
46173775 ATACAATAACAGTGT
1 ATACAGTAATAGTGT
46173790 AATAATGCAA
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
28 35 0.57
30 2 0.03
31 2 0.03
33 22 0.36
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (28 bp):
ATACAGTAATAGTGTGGGCCTTAGCCCT
Found at i:46174262 original size:107 final size:107
Alignment explanation
Indices: 46174120--46174416 Score: 343
Period size: 107 Copynumber: 2.8 Consensus size: 107
46174110 ATGGGCATAT
* * * * * *
46174120 TTCG-GTCATTTTACCCTTTGAGAGTATTTTGGTCATTTTACCCTTTGGG-GATATTTTGGTCAT
1 TTCGAGTCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCTTAGGGAG-TATTTCGGTCAT
* * * *
46174183 TTTACCGTTTGAGGGTATTTCGGTTATTTTACCCTTCGGGGGTA
65 TTTACCCTTTG-GGGTATTTCGGTTATTCTACCATTCAGGGGTA
* * *
46174227 TTCGA-TTATTTTACCCTTCGGGGGTATTTCAGTCATTCTACCCTTCA-GGAGTATTTCGGTCAT
1 TTCGAGTCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCTT-AGGGAGTATTTCGGTCAT
46174290 TTTACCCTTTGGAGGTATTTCGGTTATTCTACCATTCAGGGGTA
65 TTTACCCTTTGG-GGTATTTCGGTTATTCTACCATTCAGGGGTA
** * * * *
46174334 TTTTAGTCATTTTA-TCTTCAGGGGTATTTCGGTGATTTTACCCTTAGAGAGTATTTCGGTCATT
1 TTCGAGTCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCTTAGGGAGTATTTCGGTCATT
46174398 TTACCCTTTGGGGGTATTT
66 TTACCCTTT-GGGGTATTT
46174417 TGGGCTTACC
Statistics
Matches: 161, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
106 2 0.01
107 149 0.93
108 10 0.06
ACGTcount: A:0.16, C:0.17, G:0.22, T:0.44
Consensus pattern (107 bp):
TTCGAGTCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCTTAGGGAGTATTTCGGTCATT
TTACCCTTTGGGGTATTTCGGTTATTCTACCATTCAGGGGTA
Found at i:46174414 original size:27 final size:27
Alignment explanation
Indices: 46174097--46174416 Score: 311
Period size: 27 Copynumber: 11.9 Consensus size: 27
46174087 GGGTATAACA
* **
46174097 GTCATTTTACCCTATGGGCATATTTCG
1 GTCATTTTACCCTTTGGGGGTATTTCG
* * *
46174124 GTCATTTTACCCTTTGAGAGTATTTTG
1 GTCATTTTACCCTTTGGGGGTATTTCG
* *
46174151 GTCATTTTACCCTTTGGGGATATTTTG
1 GTCATTTTACCCTTTGGGGGTATTTCG
* *
46174178 GTCATTTTACCGTTTGAGGGTATTTCG
1 GTCATTTTACCCTTTGGGGGTATTTCG
* *
46174205 GTTATTTTACCCTTCGGGGGTA-TTCG
1 GTCATTTTACCCTTTGGGGGTATTTCG
* * * *
46174231 ATTATTTTACCCTTCGGGGGTATTTCA
1 GTCATTTTACCCTTTGGGGGTATTTCG
* ** *
46174258 GTCATTCTACCCTTCAGGAGTATTTCG
1 GTCATTTTACCCTTTGGGGGTATTTCG
*
46174285 GTCATTTTACCCTTTGGAGGTATTTCG
1 GTCATTTTACCCTTTGGGGGTATTTCG
* * * ** **
46174312 GTTATTCTACCATTCAGGGGTATTTTA
1 GTCATTTTACCCTTTGGGGGTATTTCG
* **
46174339 GTCATTTTA-TCTTCAGGGGTATTTCG
1 GTCATTTTACCCTTTGGGGGTATTTCG
* * * *
46174365 GTGATTTTACCCTTAGAGAGTATTTCG
1 GTCATTTTACCCTTTGGGGGTATTTCG
46174392 GTCATTTTACCCTTTGGGGGTATTT
1 GTCATTTTACCCTTTGGGGGTATTT
46174417 TGGGCTTACC
Statistics
Matches: 238, Mismatches: 53, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
26 46 0.19
27 192 0.81
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTTGGGGGTATTTCG
Found at i:46180317 original size:15 final size:15
Alignment explanation
Indices: 46180297--46180330 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
46180287 ATTCCAGTAA
46180297 TTATTAATAGATGTC
1 TTATTAATAGATGTC
46180312 TTATTAATAGATGTC
1 TTATTAATAGATGTC
46180327 TTAT
1 TTAT
46180331 GAGAAGCAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.50
Consensus pattern (15 bp):
TTATTAATAGATGTC
Found at i:46181119 original size:28 final size:28
Alignment explanation
Indices: 46181079--46181141 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
46181069 AGTACTAATG
* ** *
46181079 CAGTGTGGTCCTTAGCCCGATACAGTAA
1 CAGTGTGGACCTTAGCCAAATACAATAA
*
46181107 CAGTGTGGACCTTAGCCAAATACAATAG
1 CAGTGTGGACCTTAGCCAAATACAATAA
46181135 CAGTGTG
1 CAGTGTG
46181142 ATAATGCAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (28 bp):
CAGTGTGGACCTTAGCCAAATACAATAA
Found at i:46181565 original size:54 final size:53
Alignment explanation
Indices: 46181477--46181717 Score: 238
Period size: 54 Copynumber: 4.5 Consensus size: 53
46181467 GGGTATAACA
* * * * *
46181477 GTCATTTTACCCTATAGGCGTAATTCGGTTATTTTACCCTTCG-GGGCTATTTC
1 GTCATTTTACCCTTTAGGGGTATTTCGATCATTTTACCCTTCGAGGG-TATTTC
* *
46181530 TGTCATTTTACCCTTTAGGGGTATTTCGATCATTTTATCCTTTGAGGGTATTTC
1 -GTCATTTTACCCTTTAGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTC
* * * * *
46181584 AATCATTTTACCC-TTCGAAGATATTTCGATCATTTTACCCTTCGAGGTTATTTC
1 -GTCATTTTACCCTTTAG-GGGTATTTCGATCATTTTACCCTTCGAGGGTATTTC
* * *
46181638 GATCATTTTACCCTTTGGGGGTATTTC-AGTCATTTTACCTTTCGTGGGTATTTC
1 G-TCATTTTACCCTTTAGGGGTATTTCGA-TCATTTTACCCTTCGAGGGTATTTC
*
46181692 GGTCATTTTACCATTT-GGGGATATTT
1 -GTCATTTTACCCTTTAGGGG-TATTT
46181718 TGGGCTTACC
Statistics
Matches: 157, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
53 8 0.05
54 142 0.90
55 7 0.04
ACGTcount: A:0.18, C:0.19, G:0.18, T:0.45
Consensus pattern (53 bp):
GTCATTTTACCCTTTAGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTC
Found at i:46181594 original size:81 final size:78
Alignment explanation
Indices: 46181507--46181717 Score: 260
Period size: 81 Copynumber: 2.6 Consensus size: 78
46181497 TAATTCGGTT
*
46181507 ATTTTACCCTTCGGGGCTATTTCTGTCATTTTACCCTTTAGGGGTATTTCGATCATTTTATCCTT
1 ATTTTACCCTTCGGGG-TATTTC-GTCATTTTACCCTTT-GGGGTATTTCGATCATTTTACCCTT
46181572 TGAGGGTATTTCAATC
63 TGAGGGTATTTCAATC
* * * *
46181588 ATTTTACCCTTCGAAGATATTTCGATCATTTTACCCTTCGAGGTTATTTCGATCATTTTACCCTT
1 ATTTTACCCTTCG-GGGTATTTCG-TCATTTTACCCTTTG-GGGTATTTCGATCATTTTACCCTT
* *
46181653 TGGGGGTATTTCAGTC
63 TGAGGGTATTTCAATC
* *
46181669 ATTTTACCTTTCGTGGGTATTTCGGTCATTTTACCATTTGGGGATATTT
1 ATTTTACCCTTCG-GGGTATTTC-GTCATTTTACCCTTTGGGG-TATTT
46181718 TGGGCTTACC
Statistics
Matches: 111, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
80 4 0.04
81 105 0.95
82 2 0.02
ACGTcount: A:0.18, C:0.19, G:0.18, T:0.45
Consensus pattern (78 bp):
ATTTTACCCTTCGGGGTATTTCGTCATTTTACCCTTTGGGGTATTTCGATCATTTTACCCTTTGA
GGGTATTTCAATC
Found at i:46181716 original size:27 final size:26
Alignment explanation
Indices: 46181478--46181717 Score: 216
Period size: 27 Copynumber: 8.9 Consensus size: 26
46181468 GGTATAACAG
* * * *
46181478 TCATTTTACCCTATAGGCGTAATTCGG
1 TCATTTTACCCT-TTGGGGTATTTCGA
* *
46181505 TTATTTTACCCTTCGGGGCTATTTCTG-
1 TCATTTTACCCTTTGGGG-TATTTC-GA
46181532 TCATTTTACCCTTTAGGGGTATTTCGA
1 TCATTTTACCCTTT-GGGGTATTTCGA
* *
46181559 TCATTTTATCCTTTGAGGGTATTTCAA
1 TCATTTTACCCTTTG-GGGTATTTCGA
* * *
46181586 TCATTTTACCCTTCGAAGATATTTCGA
1 TCATTTTACCCTTTG-GGGTATTTCGA
* *
46181613 TCATTTTACCCTTCGAGGTTATTTCGA
1 TCATTTTACCCTTTG-GGGTATTTCGA
46181640 TCATTTTACCCTTTGGGGGTATTTC-A
1 TCATTTTACCCTTT-GGGGTATTTCGA
*
46181666 GTCATTTTA-CCTTTCGTGGGTATTTCGG
1 -TCATTTTACCCTTT-G-GGGTATTTCGA
*
46181694 TCATTTTACCATTTGGGGATATTT
1 TCATTTTACCCTTTGGGG-TATTT
46181718 TGGGCTTACC
Statistics
Matches: 182, Mismatches: 20, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
26 16 0.09
27 156 0.86
28 10 0.05
ACGTcount: A:0.18, C:0.19, G:0.17, T:0.45
Consensus pattern (26 bp):
TCATTTTACCCTTTGGGGTATTTCGA
Found at i:46185472 original size:17 final size:18
Alignment explanation
Indices: 46185450--46185490 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
46185440 ATGTATAAGT
46185450 ATGTATAT-TAATTA-AAA
1 ATGTATATGT-ATTATAAA
*
46185467 ATGTATGTGTATTATAAA
1 ATGTATATGTATTATAAA
46185485 ATGTAT
1 ATGTAT
46185491 GCATGTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (18 bp):
ATGTATATGTATTATAAA
Found at i:46185472 original size:21 final size:18
Alignment explanation
Indices: 46185448--46185491 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
46185438 ACATGTATAA
46185448 GTATGTATATTAATTAAAAAT
1 GTATGTATATT-A-T-AAAAT
*
46185469 GTATGTGTATTATAAAAT
1 GTATGTATATTATAAAAT
46185487 GTATG
1 GTATG
46185492 CATGTATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 10 0.45
19 1 0.05
20 1 0.05
21 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (18 bp):
GTATGTATATTATAAAAT
Found at i:46189544 original size:24 final size:23
Alignment explanation
Indices: 46189517--46189636 Score: 116
Period size: 24 Copynumber: 5.0 Consensus size: 23
46189507 ATCAAGTTGC
*
46189517 ACGTTGTGGATAAGTCACTCAATA
1 ACGTTGTGG-TAAGCCACTCAATA
* *
46189541 ACGTTGTGGCCAAGCTACTCAATA
1 ACGTTGTGG-TAAGCCACTCAATA
* *
46189565 GCATTGTGGTCAAGCCACTCAATA
1 ACGTTGTGGT-AAGCCACTCAATA
*
46189589 ACGTTGTGGCCAAGCCA-TCCAATA
1 ACGTTGTGG-TAAGCCACT-CAATA
*
46189613 ACATTGTGGTCAAGCCACTCAATA
1 ACGTTGTGGT-AAGCCACTCAATA
46189637 TTGTAGTAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
23 1 0.01
24 76 0.97
25 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (23 bp):
ACGTTGTGGTAAGCCACTCAATA
Found at i:46189591 original size:48 final size:48
Alignment explanation
Indices: 46189532--46189636 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
46189522 GTGGATAAGT
* *
46189532 CACTCAATAACGTTGTGGCCAAGCTA-CTCAATAGCATTGTGGTCAAGC
1 CACTCAATAACGTTGTGGCCAAGCCATC-CAATAACATTGTGGTCAAGC
46189580 CACTCAATAACGTTGTGGCCAAGCCATCCAATAACATTGTGGTCAAGC
1 CACTCAATAACGTTGTGGCCAAGCCATCCAATAACATTGTGGTCAAGC
46189628 CACTCAATA
1 CACTCAATA
46189637 TTGTAGTAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
48 53 0.98
49 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (48 bp):
CACTCAATAACGTTGTGGCCAAGCCATCCAATAACATTGTGGTCAAGC
Found at i:46189793 original size:42 final size:42
Alignment explanation
Indices: 46189724--46189834 Score: 136
Period size: 42 Copynumber: 2.6 Consensus size: 42
46189714 ATTTTCAGTA
* * * *
46189724 GACATGCTTAACAT-ACGATTCAGATTTATAATCTAA-ATAGTT
1 GACATGCTTAACATGA-AAATCATATTTATAATC-AACATAGTC
46189766 GACATGCTTAACATGAAAATCATATTTATAATCAACATAGTC
1 GACATGCTTAACATGAAAATCATATTTATAATCAACATAGTC
* *
46189808 GGCATGCTTAACATGCAAATCATATTT
1 GACATGCTTAACATGAAAATCATATTT
46189835 CAATATCAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 2 0.03
42 58 0.95
43 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (42 bp):
GACATGCTTAACATGAAAATCATATTTATAATCAACATAGTC
Found at i:46189854 original size:42 final size:42
Alignment explanation
Indices: 46189720--46189855 Score: 134
Period size: 42 Copynumber: 3.2 Consensus size: 42
46189710 CAATATTTTC
* * * * *
46189720 AGTAGACATGCTTAACAT-ACGATTCAGATTTATAATCTAAAT
1 AGTAGGCATGCTTAACATGA-AAATCATATTTATAATCAAAAT
* * *
46189762 AGTTGACATGCTTAACATGAAAATCATATTTATAATCAACAT
1 AGTAGGCATGCTTAACATGAAAATCATATTTATAATCAAAAT
* *
46189804 AGTCGGCATGCTTAACATGCAAATCATATTTCA-ATATCAAAAT
1 AGTAGGCATGCTTAACATGAAAATCATATTT-ATA-ATCAAAAT
46189847 AG-AGGCATG
1 AGTAGGCATG
46189856 ATTTATTTAT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
42 69 0.86
43 11 0.14
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (42 bp):
AGTAGGCATGCTTAACATGAAAATCATATTTATAATCAAAAT
Found at i:46190237 original size:19 final size:19
Alignment explanation
Indices: 46190213--46190250 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
46190203 GGTTCCAACT
46190213 CCAAGGGAAAAAACTGGTC
1 CCAAGGGAAAAAACTGGTC
46190232 CCAAGGGAAAAAACTGGTC
1 CCAAGGGAAAAAACTGGTC
46190251 TTGATTCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.26, T:0.11
Consensus pattern (19 bp):
CCAAGGGAAAAAACTGGTC
Found at i:46197972 original size:76 final size:75
Alignment explanation
Indices: 46197843--46198177 Score: 378
Period size: 75 Copynumber: 4.4 Consensus size: 75
46197833 TGTTTTTCTC
* **
46197843 AAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTCAATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTAAGGTATTTTTCAATTT
46197908 CTATTTTTGAAA
66 CTATTTTT--AA
* * * *
46197920 AAATCAACTCATAATGCGATAGGTGAGTTGAACCTCAGG-CACACGCTAAGGTATTTTTTAATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTAAGGTATTTTTCAATTT
*
46197984 CTATTTTTTTTA
66 CTA--TTTTTAA
* ** *
46197996 AAATCAACTCATAATG-GATAGGTGAGTTGAGCCTCGGGTCGTACACTAAGGTATTTTT-AATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTAAGGTATTTTTCAATTT
* *
46198059 ATGTTTTTCAA
66 CTATTTTT-AA
* *
46198070 AAATCAACTCATAAT-CTGAGAGGTGAGTTGAGCATCGGGTCACATC-CTGAGGTA-TTTTCAAT
1 AAATCAACTCATAATGC-GAGAGGTGAGTTGAGCCTCGGGTCACA-CGCTAAGGTATTTTTCAAT
46198132 TTCTATTTCTTAA
64 TTCTATTT-TTAA
* *
46198145 AGATCAACTCATAAT-CTGAGAGGTGAATTGAGC
1 AAATCAACTCATAATGC-GAGAGGTGAGTTGAGC
46198178 TTTAAATCAC
Statistics
Matches: 224, Mismatches: 25, Indels: 20
0.83 0.09 0.07
Matches are distributed among these distances:
73 5 0.02
74 20 0.09
75 98 0.44
76 61 0.27
77 35 0.16
78 5 0.02
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (75 bp):
AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTAAGGTATTTTTCAATTT
CTATTTTTAA
Found at i:46198209 original size:75 final size:75
Alignment explanation
Indices: 46198072--46198210 Score: 172
Period size: 75 Copynumber: 1.9 Consensus size: 75
46198062 TTTTTCAAAA
* *** * *
46198072 ATCAACTCATAATCTGAGAGGTGAGTTGAGCATCGGGTCACATCCTGAGGTATTTTCAATTTCTA
1 ATCAACTCATAATCTGAGAGGTGAATTGAGCATCAAATCACATCCTGAGCTAGTTTCAATTTCTA
46198137 TTTCTTAAAG
66 TTTCTTAAAG
* * * *
46198147 ATCAACTCATAATCTGAGAGGTGAATTGAGCTTTAAATCACA-CACTTAGCTAGTTTCGATTTCT
1 ATCAACTCATAATCTGAGAGGTGAATTGAGCATCAAATCACATC-CTGAGCTAGTTTCAATTTCT
46198211 GGCTTTCAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
74 1 0.02
75 52 0.98
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (75 bp):
ATCAACTCATAATCTGAGAGGTGAATTGAGCATCAAATCACATCCTGAGCTAGTTTCAATTTCTA
TTTCTTAAAG
Found at i:46199128 original size:20 final size:21
Alignment explanation
Indices: 46199073--46199134 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 21
46199063 GAAAAAATAT
46199073 AAAAAAGGAA-AGGAGAGAAAG
1 AAAAAA-GAAGAGGAGAGAAAG
* *
46199094 AAAAAATATGA-GAGA-AAAG
1 AAAAAAGAAGAGGAGAGAAAG
*
46199113 AAAAAAGAAGAGGAGAGGAAG
1 AAAAAAGAAGAGGAGAGAAAG
46199134 A
1 A
46199135 GGAAGAAGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
19 13 0.39
20 9 0.27
21 11 0.33
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (21 bp):
AAAAAAGAAGAGGAGAGAAAG
Found at i:46199270 original size:15 final size:14
Alignment explanation
Indices: 46199230--46199282 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
46199220 AGGGGGAAAG
*
46199230 AGAAAAAGGGAAAA
1 AGAAAAAGGAAAAA
*
46199244 A-ATAAA-GAAAAA
1 AGAAAAAGGAAAAA
*
46199256 AGAGAAGAGGAAAAA
1 AGA-AAAAGGAAAAA
46199271 AGAAAAAGGAAA
1 AGAAAAAGGAAA
46199283 GAGAAAACAG
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
12 6 0.19
13 5 0.16
14 11 0.35
15 9 0.29
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.02
Consensus pattern (14 bp):
AGAAAAAGGAAAAA
Found at i:46199288 original size:20 final size:20
Alignment explanation
Indices: 46199230--46199297 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
46199220 AGGGGGAAAG
*
46199230 AGAAAAAGGGAAA-A-AATAA
1 AGAAAAA-GGAAAGAGAAAAA
*
46199249 AGAAAAAAGAGAAGAGGAAAAA
1 AGAAAAAGGA-AAGA-GAAAAA
*
46199271 AGAAAAAGGAAAGAGAAAAC
1 AGAAAAAGGAAAGAGAAAAA
46199291 AGAAAAA
1 AGAAAAA
46199298 AATAGAAGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
18 2 0.05
19 9 0.22
20 13 0.32
21 4 0.10
22 13 0.32
ACGTcount: A:0.74, C:0.01, G:0.24, T:0.01
Consensus pattern (20 bp):
AGAAAAAGGAAAGAGAAAAA
Found at i:46199298 original size:21 final size:22
Alignment explanation
Indices: 46199247--46199298 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 22
46199237 GGGAAAAAAT
46199247 AAAGAAAAAAGAGAAGAGGAAA
1 AAAGAAAAAAGAGAAGAGGAAA
*
46199269 AAAGAAAAAGGA-AAGA-GAAA
1 AAAGAAAAAAGAGAAGAGGAAA
*
46199289 ACAGAAAAAA
1 AAAGAAAAAA
46199299 ATAGAAGAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 12 0.44
21 4 0.15
22 11 0.41
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (22 bp):
AAAGAAAAAAGAGAAGAGGAAA
Found at i:46199911 original size:17 final size:17
Alignment explanation
Indices: 46199889--46199941 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
46199879 GTAATCTATC
46199889 AAAATTTTCGTGTTTCA
1 AAAATTTTCGTGTTTCA
*
46199906 AAAATTTGCGTGTTTTCA
1 AAAATTTTCGTG-TTTCA
* *
46199924 AAAATTCTCTTGTTTCA
1 AAAATTTTCGTGTTTCA
46199941 A
1 A
46199942 TCTGATCCTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 17 0.55
18 14 0.45
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.45
Consensus pattern (17 bp):
AAAATTTTCGTGTTTCA
Found at i:46200141 original size:12 final size:13
Alignment explanation
Indices: 46200116--46200152 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
46200106 ACTCAACCTT
46200116 TCTTTTAAAGAAAA
1 TCTTTTAAA-AAAA
46200130 T-TTTTAAAAAAA
1 TCTTTTAAAAAAA
46200142 TCTTTTAAAAA
1 TCTTTTAAAAA
46200153 GAGGATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.23
13 16 0.73
14 1 0.05
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (13 bp):
TCTTTTAAAAAAA
Found at i:46217825 original size:3 final size:3
Alignment explanation
Indices: 46217819--46217844 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
46217809 CTACTACTAC
46217819 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
46217845 AACTCCAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:46218184 original size:3 final size:3
Alignment explanation
Indices: 46218176--46218213 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
46218166 TTTCTACACA
46218176 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
46218214 AAGTATTGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:46218416 original size:29 final size:30
Alignment explanation
Indices: 46218391--46218468 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 30
46218381 ATGCAATTTA
46218391 ACATAT-AATCTTTAATT-TGGTACAATTGT
1 ACATATAAAT-TTTAATTGTGGTACAATTGT
* *
46218420 ACATATGAAATTTTAATTGTGGTTCAAATGT
1 ACATAT-AAATTTTAATTGTGGTACAATTGT
*
46218451 ATATATGAAATTTTAATT
1 ACATAT-AAATTTTAATT
46218469 TTGATTCAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 6 0.14
30 7 0.16
31 30 0.70
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (30 bp):
ACATATAAATTTTAATTGTGGTACAATTGT
Found at i:46218459 original size:31 final size:30
Alignment explanation
Indices: 46218401--46218469 Score: 102
Period size: 31 Copynumber: 2.3 Consensus size: 30
46218391 ACATATAATC
* *
46218401 TTTAATTTGGTACAATTGTACATATGAAAT
1 TTTAATTTGGTTCAAATGTACATATGAAAT
*
46218431 TTTAATTGTGGTTCAAATGTATATATGAAAT
1 TTTAATT-TGGTTCAAATGTACATATGAAAT
46218462 TTTAATTT
1 TTTAATTT
46218470 TGATTCAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
30 8 0.23
31 27 0.77
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.48
Consensus pattern (30 bp):
TTTAATTTGGTTCAAATGTACATATGAAAT
Found at i:46218477 original size:31 final size:31
Alignment explanation
Indices: 46218417--46218477 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
46218407 TTGGTACAAT
*
46218417 TGTACATATGAAATTTTAATTGTGGTTCAAA
1 TGTACATATGAAATTTTAATTGTGATTCAAA
* *
46218448 TGTATATATGAAATTTTAATTTTGATTCAA
1 TGTACATATGAAATTTTAATTGTGATTCAA
46218478 TCATAACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.46
Consensus pattern (31 bp):
TGTACATATGAAATTTTAATTGTGATTCAAA
Found at i:46218679 original size:31 final size:31
Alignment explanation
Indices: 46218608--46218688 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 31
46218598 TGAGAGTTGG
* * *
46218608 ATTAAATCAAAATTTCATGTATGAAATTGCAC
1 ATTAAATCAAAA-TTCATGTATAAAACTACAC
46218640 A--AAATCAAAATTCATGTATAAAACTACAC
1 ATTAAATCAAAATTCATGTATAAAACTACAC
46218669 ATTAAATCAAAATTCATGTA
1 ATTAAATCAAAATTCATGTA
46218689 CAATTTTGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
29 17 0.39
30 9 0.20
31 17 0.39
32 1 0.02
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (31 bp):
ATTAAATCAAAATTCATGTATAAAACTACAC
Found at i:46222248 original size:27 final size:27
Alignment explanation
Indices: 46222217--46222304 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
46222207 TAAGAAACAA
46222217 CCTTTGTGGCGTACTCTGAAAGAATAG
1 CCTTTGTGGCGTACTCTGAAAGAATAG
* * * *
46222244 CCTTTGTGGCATACTCTAAAATAATAA
1 CCTTTGTGGCGTACTCTGAAAGAATAG
* *
46222271 CATTTGTGGCGAACTC-GAAAAGAATAG
1 CCTTTGTGGCGTACTCTG-AAAGAATAG
46222298 CCTTTGT
1 CCTTTGT
46222305 TGCATATTCT
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (27 bp):
CCTTTGTGGCGTACTCTGAAAGAATAG
Found at i:46229178 original size:39 final size:39
Alignment explanation
Indices: 46229074--46229203 Score: 161
Period size: 39 Copynumber: 3.3 Consensus size: 39
46229064 GTATTACGAT
* *
46229074 ATATATGCTTGAATATTATGTGAATATATGAGTATTGTG
1 ATATATGCTTAAATATTATGTGATTATATGAGTATTGTG
* * *
46229113 ATATATGCTTGAACATTATGTAATTATATGAGTATTGTG
1 ATATATGCTTAAATATTATGTGATTATATGAGTATTGTG
* * ** * *
46229152 ATATATGCTTAAATGTTATATGATTATATGTTTAATGCG
1 ATATATGCTTAAATATTATGTGATTATATGAGTATTGTG
46229191 ATATATGCTTAAA
1 ATATATGCTTAAA
46229204 AGTGAATATT
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.44
Consensus pattern (39 bp):
ATATATGCTTAAATATTATGTGATTATATGAGTATTGTG
Found at i:46234878 original size:10 final size:10
Alignment explanation
Indices: 46234863--46234910 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
46234853 TAACATGTTG
46234863 AATTTTAATT
1 AATTTTAATT
46234873 AATTTTATATT
1 AATTTTA-ATT
*
46234884 AATTTTTTATT
1 AA-TTTTAATT
*
46234895 AATTTTGATT
1 AATTTTAATT
*
46234905 TATTTT
1 AATTTT
46234911 CAACAGATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 19 0.58
11 10 0.30
12 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
AATTTTAATT
Found at i:46234886 original size:11 final size:11
Alignment explanation
Indices: 46234863--46234900 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
46234853 TAACATGTTG
46234863 AATTTTA-ATT
1 AATTTTATATT
46234873 AATTTTATATT
1 AATTTTATATT
*
46234884 AATTTTTTATT
1 AATTTTATATT
46234895 AATTTT
1 AATTTT
46234901 GATTTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 7 0.27
11 19 0.73
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
AATTTTATATT
Found at i:46242219 original size:23 final size:24
Alignment explanation
Indices: 46242192--46242257 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 24
46242182 TTTTCAATTC
46242192 AAATATTATAA-TAGAAA-ATTTTT
1 AAATATTATAACTA-AAATATTTTT
46242215 AAATA--ATAACTAAAATATTTTT
1 AAATATTATAACTAAAATATTTTT
*
46242237 AACATATT-TAACCTACAATAT
1 AA-ATATTATAA-CTAAAATAT
46242258 AGTTTTGCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
21 7 0.19
22 10 0.28
23 8 0.22
24 3 0.08
25 8 0.22
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.39
Consensus pattern (24 bp):
AAATATTATAACTAAAATATTTTT
Found at i:46242309 original size:16 final size:17
Alignment explanation
Indices: 46242272--46242320 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
46242262 TTGCTTTATG
*
46242272 TAATTAATGCAAAATAA
1 TAATTAATTCAAAATAA
*
46242289 -CATT-ATTCAAAATAA
1 TAATTAATTCAAAATAA
46242304 TAATTAATT-AAAATAA
1 TAATTAATTCAAAATAA
46242320 T
1 T
46242321 GAACTCTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 10 0.37
16 14 0.52
17 3 0.11
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (17 bp):
TAATTAATTCAAAATAA
Found at i:46242445 original size:17 final size:17
Alignment explanation
Indices: 46242403--46242473 Score: 70
Period size: 17 Copynumber: 4.1 Consensus size: 17
46242393 TAACACAACT
*
46242403 TTTTTAAATGATAATTA
1 TTTTTAAATTATAATTA
** *
46242420 CAATTTAAATTCTAATTA
1 -TTTTTAAATTATAATTA
46242438 TTTTTAAATTATAATTA
1 TTTTTAAATTATAATTA
* *
46242455 TTCTTAAATGTATAGTTA
1 TTTTTAAAT-TATAATTA
46242473 T
1 T
46242474 CACAAATTCT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
17 22 0.51
18 21 0.49
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (17 bp):
TTTTTAAATTATAATTA
Found at i:46252049 original size:30 final size:31
Alignment explanation
Indices: 46251983--46252050 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 31
46251973 ATGTTAATGG
46251983 GTGACTGATTTGTCACTTTTCGATAACGTTA
1 GTGACTGATTTGTCACTTTTCGATAACGTTA
*
46252014 GTGACTGATTTGTTACTTTTCGA-AA-GTTGA
1 GTGACTGATTTGTCACTTTTCGATAACGTT-A
46252044 GTGACTG
1 GTGACTG
46252051 GATTGAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
29 3 0.09
30 10 0.29
31 22 0.63
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.41
Consensus pattern (31 bp):
GTGACTGATTTGTCACTTTTCGATAACGTTA
Found at i:46252733 original size:18 final size:18
Alignment explanation
Indices: 46252685--46252739 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
46252675 AATTTTTGAA
*
46252685 AAATATAAAAAAATTAAT
1 AAATATATAAAAATTAAT
*
46252703 GGAAAT-CAT-AAAATTAAT
1 --AAATATATAAAAATTAAT
*
46252721 AAATATATAAAAATAAAT
1 AAATATATAAAAATTAAT
46252739 A
1 A
46252740 TATTTTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
16 4 0.14
17 2 0.07
18 18 0.62
19 1 0.03
20 4 0.14
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATATATAAAAATTAAT
Found at i:46252926 original size:9 final size:9
Alignment explanation
Indices: 46252773--46252927 Score: 63
Period size: 9 Copynumber: 16.8 Consensus size: 9
46252763 TAAAAGTGAT
46252773 TAAAAATTGA
1 TAAAAATT-A
*
46252783 TAAATAATTG
1 TAAA-AATTA
46252793 TAGAAAATGTA
1 TA-AAAAT-TA
46252804 TAAAAAATTACA
1 T-AAAAATT--A
*
46252816 TAAAAGTTA
1 TAAAAATTA
46252825 TAGAAAATT-
1 TA-AAAATTA
*
46252834 TTAAAA-TA
1 TAAAAATTA
*
46252842 CAAAAA--A
1 TAAAAATTA
*
46252849 T--AAATAA
1 TAAAAATTA
* *
46252856 TAAATATTG
1 TAAAAATTA
46252865 TAAATAATTA
1 TAAA-AATTA
46252875 T-AAAATTA
1 TAAAAATTA
* *
46252883 TAAACATTT
1 TAAAAATTA
46252892 TGGAAAAATTA
1 T--AAAAATTA
*
46252903 TGAAAATTA
1 TAAAAATTA
*
46252912 AAAAAATTA
1 TAAAAATTA
46252921 TAAAAAT
1 TAAAAAT
46252928 ATTCTTTTTC
Statistics
Matches: 108, Mismatches: 21, Indels: 33
0.67 0.13 0.20
Matches are distributed among these distances:
5 3 0.03
7 4 0.04
8 14 0.13
9 39 0.36
10 19 0.18
11 26 0.24
12 3 0.03
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:46255985 original size:24 final size:24
Alignment explanation
Indices: 46255958--46256009 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
46255948 TTAGTAAGTC
*
46255958 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
46255982 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
46256006 AAAT
1 AAAT
46256010 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:46257955 original size:24 final size:24
Alignment explanation
Indices: 46257928--46257979 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
46257918 TTAGTAAGTC
*
46257928 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
46257952 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
46257976 AAAT
1 AAAT
46257980 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:46259460 original size:3 final size:3
Alignment explanation
Indices: 46259452--46259490 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
46259442 TTCATTTCAT
46259452 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
46259491 ACACTTATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:46260768 original size:15 final size:15
Alignment explanation
Indices: 46260748--46260782 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
46260738 TTTATTAAAT
*
46260748 AATAATATTTTATTA
1 AATAATATTATATTA
46260763 AATAATATTATATTA
1 AATAATATTATATTA
*
46260778 CATAA
1 AATAA
46260783 AAAAAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
AATAATATTATATTA
Found at i:46261189 original size:45 final size:45
Alignment explanation
Indices: 46261138--46261226 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
46261128 GGAAAGTCTA
* *
46261138 CTTAGTACATTTGTCTATGGTGAAAGGGAAGTAGAGAACCTTGGC
1 CTTAGTACATTTGTCCATGGTGAAAGGGAAGTACAGAACCTTGGC
46261183 CTTAGTACATTTGTCCATGGTGAAAGGGAAGTACAGAACCTTGG
1 CTTAGTACATTTGTCCATGGTGAAAGGGAAGTACAGAACCTTGG
46261227 TCACTTTGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (45 bp):
CTTAGTACATTTGTCCATGGTGAAAGGGAAGTACAGAACCTTGGC
Found at i:46274350 original size:29 final size:28
Alignment explanation
Indices: 46274308--46274363 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
46274298 ACTATACTAG
46274308 TTTTCTCAAATTGGTACTTAAAATATTT
1 TTTTCTCAAATTGGTACTTAAAATATTT
* *
46274336 TTTTGTCAGAATTGGTACTTAAATTATT
1 TTTTCTCA-AATTGGTACTTAAAATATT
46274364 AAATCGTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (28 bp):
TTTTCTCAAATTGGTACTTAAAATATTT
Found at i:46275118 original size:26 final size:25
Alignment explanation
Indices: 46275078--46275126 Score: 89
Period size: 26 Copynumber: 1.9 Consensus size: 25
46275068 TGAAAAAAGA
46275078 AGAAGAGTGGAAGCTTGAAGATGGT
1 AGAAGAGTGGAAGCTTGAAGATGGT
46275103 AGAAGCAGTGGAAGCTTGAAGATG
1 AGAAG-AGTGGAAGCTTGAAGATG
46275127 ATAAAATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.37, C:0.06, G:0.39, T:0.18
Consensus pattern (25 bp):
AGAAGAGTGGAAGCTTGAAGATGGT
Found at i:46275772 original size:19 final size:20
Alignment explanation
Indices: 46275743--46275793 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
46275733 ATACACTTTT
* *
46275743 TATACTTTTTTTAATAATT-
1 TATAATTTTTTTAAAAATTA
*
46275762 TTTAATTTTTTTAAAAATTA
1 TATAATTTTTTTAAAAATTA
46275782 TATAATTTTTTT
1 TATAATTTTTTT
46275794 TGAATTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
TATAATTTTTTTAAAAATTA
Found at i:46276027 original size:6 final size:6
Alignment explanation
Indices: 46276016--46276056 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
46276006 TAGTAGAATG
46276016 CACATA CACATA CACATA CACATA CACATA CACATA CACAT
1 CACATA CACATA CACATA CACATA CACATA CACATA CACAT
46276057 GAGAGTAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (6 bp):
CACATA
Found at i:46277585 original size:3 final size:3
Alignment explanation
Indices: 46277577--46277616 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
46277567 CCACCTGTAC
*
46277577 ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
46277617 ACCAAATTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:46293077 original size:50 final size:50
Alignment explanation
Indices: 46292953--46293249 Score: 290
Period size: 50 Copynumber: 5.8 Consensus size: 50
46292943 AATAATAACA
* * ** * * * **
46292953 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATATTTCTTGT-AT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * **
46293002 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** * *
46293052 TGCCCACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
46293102 TGCCAACACCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
46293152 TGCCAACGCCATGTCCTAGACATGGTCTTAGATGGGACCTCTCATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* *
46293208 TGCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
46293250 TTATCCAAAT
Statistics
Matches: 206, Mismatches: 35, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
49 38 0.18
50 127 0.62
53 2 0.01
56 39 0.19
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:46294260 original size:27 final size:27
Alignment explanation
Indices: 46294200--46294254 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
46294190 ATGGTCTAAT
*
46294200 TACCATACAAGGACCTCCAATTTGAAG
1 TACCATACAAGGACCTCCAATTTAAAG
*
46294227 TACCATATAAGGACCTCCAATTTAAAG
1 TACCATACAAGGACCTCCAATTTAAAG
46294254 T
1 T
46294255 TTCATAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (27 bp):
TACCATACAAGGACCTCCAATTTAAAG
Found at i:46311310 original size:16 final size:15
Alignment explanation
Indices: 46311285--46311314 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
46311275 GGTTTACACC
46311285 AGATACAATTTTAAA
1 AGATACAATTTTAAA
46311300 AGATAACAATTTTAA
1 AGAT-ACAATTTTAA
46311315 GGCAGTGACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (15 bp):
AGATACAATTTTAAA
Found at i:46314175 original size:12 final size:13
Alignment explanation
Indices: 46314150--46314179 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
46314140 TGAGCTATAA
46314150 TTATTGCATTTAT
1 TTATTGCATTTAT
46314163 TTATTGC-TTTAT
1 TTATTGCATTTAT
46314175 TTATT
1 TTATT
46314180 CATGTATGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (13 bp):
TTATTGCATTTAT
Found at i:46320427 original size:34 final size:35
Alignment explanation
Indices: 46320370--46320436 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
46320360 CAAACAGCAG
*
46320370 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCTAGTAAATCATTTTACAGAAAAGT
*
46320405 AAAACATTTTCTAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCTAGTAAATCATTTTACAGAAAA
46320437 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCTAGTAAATCATTTTACAGAAAAGT
Found at i:46321568 original size:16 final size:15
Alignment explanation
Indices: 46321543--46321572 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
46321533 GGTTTACACT
46321543 AGATACAATTTTAAA
1 AGATACAATTTTAAA
46321558 AGATAACAATTTTAA
1 AGAT-ACAATTTTAA
46321573 GGCAGTGACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (15 bp):
AGATACAATTTTAAA
Found at i:46327805 original size:27 final size:28
Alignment explanation
Indices: 46327746--46327799 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
46327736 AAAATAATTA
*
46327746 AAATTAAATATATTAATAATTTAAGTGC
1 AAATTAAATATATTAATAATTAAAGTGC
* *
46327774 AAATTAATTAT-TTTATAATTAAAGTG
1 AAATTAAATATATTAATAATTAAAGTG
46327800 TGAATTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (28 bp):
AAATTAAATATATTAATAATTAAAGTGC
Found at i:46330311 original size:6 final size:6
Alignment explanation
Indices: 46330300--46330324 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
46330290 GCGTACCAAT
46330300 CAAAAC CAAAAC CAAAAC CAAAAC C
1 CAAAAC CAAAAC CAAAAC CAAAAC C
46330325 GATCATTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAC
Found at i:46336471 original size:20 final size:20
Alignment explanation
Indices: 46336448--46336493 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
46336438 TCGCACTACC
46336448 GTGCCTCTGCTTGCACATTT-
1 GTGCCTCTGCTTGCAC-TTTG
*
46336468 GTGCCTCTGTTTGCACTTTG
1 GTGCCTCTGCTTGCACTTTG
46336488 GTGCCT
1 GTGCCT
46336494 TTTTATTGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.07, C:0.28, G:0.24, T:0.41
Consensus pattern (20 bp):
GTGCCTCTGCTTGCACTTTG
Found at i:46336484 original size:40 final size:38
Alignment explanation
Indices: 46336387--46336484 Score: 88
Period size: 40 Copynumber: 2.4 Consensus size: 38
46336377 TTGTAATTCG
* *
46336387 GTGCCTCTATTATGCACTTCAGTGCCTCTGTTACACTTT
1 GTGCCTCTGTT-TGCACTACAGTGCCTCTGTTACACTTT
* * * * *
46336426 GATGTCTTTGATTCGCACTACCGTGCCTCTGCTTGCACATTT
1 G-TGCCTCTG-TTTGCACTACAGTGCCTCTG-TTACAC-TTT
46336468 GTGCCTCTGTTTGCACT
1 GTGCCTCTGTTTGCACT
46336485 TTGGTGCCTT
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
39 1 0.02
40 27 0.60
41 13 0.29
42 4 0.09
ACGTcount: A:0.13, C:0.29, G:0.18, T:0.40
Consensus pattern (38 bp):
GTGCCTCTGTTTGCACTACAGTGCCTCTGTTACACTTT
Found at i:46338466 original size:81 final size:79
Alignment explanation
Indices: 46338301--46338494 Score: 203
Period size: 81 Copynumber: 2.4 Consensus size: 79
46338291 CTACAACATT
* * * *
46338301 GAAACACT-AGCAAACTCTTTACTGATACTCTTTGGTGAACTCCCCAGTTCTTTGAAGTACTGAT
1 GAAACACTGA-CAAACTCATTACTGATACTCTTTGGTGAACTCCCCAGTTCGTCGAAATAC-GAT
* *
46338365 GAACCCCTAGTCCTCT
64 GAACCCCTAGTCCACC
* *
46338381 GAAACACTGACAAACTCATTACTAATACTCTATTGGTGAACTCCCTAGTTCGTCGAAATAC-ATC
1 GAAACACTGACAAACTCATTACTGATACTCT-TTGGTGAACTCCCCAGTTCGTCGAAATACGAT-
* *
46338445 CGAATCCCTAGTTCACC
64 -GAACCCCTAGTCCACC
* * * *
46338462 GAAACACTGGCGAATTCCTTACTGATACTCTTT
1 GAAACACTGACAAACTCATTACTGATACTCTTT
46338495 TGGAGAATTC
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
79 2 0.02
80 29 0.31
81 64 0.67
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (79 bp):
GAAACACTGACAAACTCATTACTGATACTCTTTGGTGAACTCCCCAGTTCGTCGAAATACGATGA
ACCCCTAGTCCACC
Found at i:46342408 original size:34 final size:34
Alignment explanation
Indices: 46342365--46342430 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
46342355 CAGATGAGCC
*
46342365 AATTGATGAGTATGATGGGAGATATTAAAAGGCA
1 AATTGATGAGTATGATGGAAGATATTAAAAGGCA
46342399 AATTGATGAGTATGATGGAAGATATTAAAAGG
1 AATTGATGAGTATGATGGAAGATATTAAAAGG
46342431 AAGGGAAGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.42, C:0.02, G:0.29, T:0.27
Consensus pattern (34 bp):
AATTGATGAGTATGATGGAAGATATTAAAAGGCA
Found at i:46356354 original size:23 final size:23
Alignment explanation
Indices: 46356319--46356363 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
46356309 ATATCTTATT
46356319 ACTATCTGGGTGCATCACTTAAGA
1 ACTATCTGGGTGCATC-CTTAAGA
* *
46356343 ACTAT-TGTGTGCCTCCTTAAG
1 ACTATCTGGGTGCATCCTTAAG
46356364 TATCATCTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 8 0.42
24 5 0.26
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (23 bp):
ACTATCTGGGTGCATCCTTAAGA
Found at i:46358015 original size:27 final size:26
Alignment explanation
Indices: 46357977--46358032 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
46357967 ATTTAAACAT
* * *
46357977 CTCTTAACTCCTTTAATCTCTCAAAAC
1 CTCTTAAATCCTTTAAACCCT-AAAAC
46358004 CTCTTAAATCCTTTAAACCCTAAAAC
1 CTCTTAAATCCTTTAAACCCTAAAAC
46358030 CTC
1 CTC
46358033 ACTTTTCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (26 bp):
CTCTTAAATCCTTTAAACCCTAAAAC
Found at i:46359367 original size:21 final size:21
Alignment explanation
Indices: 46359338--46359377 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46359328 CGTGAAAGCG
*
46359338 AAGAGGAAGGAGAGGATGATA
1 AAGAAGAAGGAGAGGATGATA
*
46359359 AAGAAGAAGGAGATGATGA
1 AAGAAGAAGGAGAGGATGA
46359378 AATGGATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.40, T:0.10
Consensus pattern (21 bp):
AAGAAGAAGGAGAGGATGATA
Found at i:46362954 original size:17 final size:18
Alignment explanation
Indices: 46362921--46362954 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
46362911 ATGATATTTC
46362921 AAACTATGTTCGTGCTTG
1 AAACTATGTTCGTGCTTG
*
46362939 AAACTAT-TTGGTGCTT
1 AAACTATGTTCGTGCTT
46362955 ACTATTCTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.41
Consensus pattern (18 bp):
AAACTATGTTCGTGCTTG
Found at i:46367353 original size:23 final size:23
Alignment explanation
Indices: 46367323--46367370 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
46367313 CTTTCTTATT
* *
46367323 GTAATTTTCGGGGTATTACAGTA
1 GTAATTTTCGGGATATTACACTA
*
46367346 GTAATTTTTGGGATATTACACTA
1 GTAATTTTCGGGATATTACACTA
46367369 GT
1 GT
46367371 GTTTGGGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (23 bp):
GTAATTTTCGGGATATTACACTA
Found at i:46370205 original size:15 final size:16
Alignment explanation
Indices: 46370178--46370207 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
46370168 AAAAATAATT
46370178 AATATATATTATATAA
1 AATATATATTATATAA
46370194 AATATA-ATTATATA
1 AATATATATTATATA
46370208 TTAGTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATATTATATAA
Found at i:46380522 original size:138 final size:138
Alignment explanation
Indices: 46380201--46380760 Score: 824
Period size: 138 Copynumber: 4.1 Consensus size: 138
46380191 TAGAAAAAGG
* ** * **
46380201 AATTATATTCTTTCGAAAAGAATATTAATTTCCATGTCTTTTATGCTTTAACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATAATTTGACCAAAATTAATTAA
* *
46380266 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATA-TTT-T-TGAATCAAATT
66 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
46380328 CAAATATATATT
131 C----ATATATT
*
46380340 AATTATATTC-TTCCTAAAAGAATATTAATTTTCATGTCTTTTATAATTTGACCAAAATTAATTA
1 AATTATATTCTTTCC-AAAAGAATATTAATTTCCATGTCTTTTATAATTTGACCAAAATTAATTA
* * * **
46380404 ATTTAATTGTTTATATTACTAAGTAAGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
65 ATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
46380469 TCATATATT
130 TCATATATT
* *
46380478 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATAATTTGACCAAAATTAATTAA
46380543 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
46380608 CATATATT
131 CATATATT
* * * *
46380616 AATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTAT-ACTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATAATTTGACCAAAATTAATTAA
* * * *
46380680 TATAATTGTTTATATTAATAAATTCGATAAAATATGTACAATTAATATTTTTTATAAATCAAATT
66 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
46380745 CATATATT
131 CATATATT
46380753 AATTATAT
1 AATTATAT
46380761 CTATGTTCTC
Statistics
Matches: 384, Mismatches: 32, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
137 92 0.24
138 178 0.46
139 98 0.26
140 3 0.01
141 1 0.00
142 12 0.03
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATAATTTGACCAAAATTAATTAA
TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:46386461 original size:21 final size:21
Alignment explanation
Indices: 46386432--46386473 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
46386422 AAATCCATTT
* *
46386432 CATCATCTCCTTCTTCTTCGC
1 CATCATCTCATTCCTCTTCGC
*
46386453 CATCCTCTCATTCCTCTTCGC
1 CATCATCTCATTCCTCTTCGC
46386474 TTTCACGCGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.45, G:0.05, T:0.40
Consensus pattern (21 bp):
CATCATCTCATTCCTCTTCGC
Found at i:46389874 original size:3 final size:3
Alignment explanation
Indices: 46389866--46389891 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
46389856 ACAAGAATGC
46389866 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
46389892 TACCTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:46390020 original size:3 final size:3
Alignment explanation
Indices: 46390014--46390048 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
46390004 TAATAATATT
46390014 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
46390049 ATGATAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:46390602 original size:42 final size:42
Alignment explanation
Indices: 46390493--46391002 Score: 560
Period size: 42 Copynumber: 12.2 Consensus size: 42
46390483 ATATACAATA
* * *
46390493 CAATGAAAAGTAAATAGACCTTCACACCTGTGCCT-TAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * *
46390534 GAATGAAAAGTAAATGGACTTTCACACCTGGGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * * *
46390576 CATTGAAAATTCAACT-GACCTCCACACTTGGGCCTCTAAATG
1 CAATGAAAAGT-AAATGGACCTCCACACCTGGGCCTCTAAATG
* * * * *
46390618 CAATGAAAATTCAATGGACCTCCGCACCGGGGTCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * * *
46390660 CAATGAAAAGAAAATGGACCTCCGCACCTGGGTCTCTAAATA
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * ** **
46390702 CAATGAAAAGTAAGTGGACCTACACATTTTAGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * *
46390744 CAATAAAAAGCAAATGGACCTCCACACTTGGGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * *
46390786 CAATAAAAAGTAAATGGAACTCCACACCTGGGCCTTTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * *
46390828 CAGTAAAAAGTAAATGGACCTCCACACATGGGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* *
46390870 CAAT-AGAAAGTAAATAGACCTCCACACTTGGGCCTCTAAATG
1 CAATGA-AAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * *
46390912 CAAT-AAAATGTAAATGGACCTCTACGCCTGGGCATCTAAATG
1 CAATGAAAA-GTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * * ** *
46390954 CAATGAAAAGTGAATGGACCTCCACTCCTAGGTTTCTAAATA
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
46390996 CAATGAA
1 CAATGAA
46391003 TGTTTTCCTT
Statistics
Matches: 400, Mismatches: 63, Indels: 11
0.84 0.13 0.02
Matches are distributed among these distances:
41 37 0.09
42 356 0.89
43 7 0.02
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.23
Consensus pattern (42 bp):
CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
Found at i:46392009 original size:20 final size:21
Alignment explanation
Indices: 46391984--46392028 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
46391974 CTTTTTCTCC
46391984 TTTTGTATT-TCATTTCTTCT-
1 TTTTGT-TTCTCATTTCTTCTG
*
46392004 TTTTGTTTCTTATTTCTTCTG
1 TTTTGTTTCTCATTTCTTCTG
46392025 TTTT
1 TTTT
46392029 CTTTTTTCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 2 0.09
20 16 0.73
21 4 0.18
ACGTcount: A:0.07, C:0.13, G:0.07, T:0.73
Consensus pattern (21 bp):
TTTTGTTTCTCATTTCTTCTG
Found at i:46394724 original size:14 final size:14
Alignment explanation
Indices: 46394705--46394732 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46394695 TCATATTCAG
46394705 TGAACCATCTTGTT
1 TGAACCATCTTGTT
46394719 TGAACCATCTTGTT
1 TGAACCATCTTGTT
46394733 GCCGCAGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (14 bp):
TGAACCATCTTGTT
Found at i:46406836 original size:14 final size:14
Alignment explanation
Indices: 46406819--46406845 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46406809 AAGAAAAAGA
46406819 ATAAAACCTAAAAC
1 ATAAAACCTAAAAC
46406833 ATAAAACCTAAAA
1 ATAAAACCTAAAA
46406846 GAAAAGGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.19, G:0.00, T:0.15
Consensus pattern (14 bp):
ATAAAACCTAAAAC
Found at i:46409053 original size:40 final size:41
Alignment explanation
Indices: 46408897--46409063 Score: 171
Period size: 42 Copynumber: 4.0 Consensus size: 41
46408887 AGGAGCACAA
* *
46408897 TCACTTAAGCTTGCA-TAGGGAGCTTTGTTGATACACAACTTG
1 TCACTTAAGC-T-CACTAGGGAGCTTCGCTGATACACAACTTG
* * * *
46408939 TCAGTTAAGCTCGCGT-GAGGAGCATT-GCTGATACACAGCTTA
1 TCACTTAAGCTCAC-TAG-GGAGC-TTCGCTGATACACAACTTG
* *
46408981 TCACTTGAGCTCATGTAGGGAGCTTCGCTGATACACAACTTG
1 TCACTTAAGCTCA-CTAGGGAGCTTCGCTGATACACAACTTG
*
46409023 TCACTTAAGCTCACT-GGGAGCTTCGCTGATACACAGCTTG
1 TCACTTAAGCTCACTAGGGAGCTTCGCTGATACACAACTTG
46409063 T
1 T
46409064 AAAAACCGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
40 26 0.25
41 5 0.05
42 70 0.67
43 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (41 bp):
TCACTTAAGCTCACTAGGGAGCTTCGCTGATACACAACTTG
Found at i:46412159 original size:28 final size:28
Alignment explanation
Indices: 46412127--46412227 Score: 175
Period size: 28 Copynumber: 3.6 Consensus size: 28
46412117 AACAGTGTAA
* * *
46412127 GCCTTAGCCCAATATAGTAACAATGTGG
1 GCCTTAGCCCAATACAGAAACATTGTGG
46412155 GCCTTAGCCCAATACAGAAACATTGTGG
1 GCCTTAGCCCAATACAGAAACATTGTGG
46412183 GCCTTAGCCCAATACAGAAACATTGTGG
1 GCCTTAGCCCAATACAGAAACATTGTGG
46412211 GCCTTAGCCCAATACAG
1 GCCTTAGCCCAATACAG
46412228 TATCGATACA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.22
Consensus pattern (28 bp):
GCCTTAGCCCAATACAGAAACATTGTGG
Found at i:46412500 original size:32 final size:32
Alignment explanation
Indices: 46412457--46412682 Score: 184
Period size: 32 Copynumber: 7.1 Consensus size: 32
46412447 GCCATAAATA
* *
46412457 CAGTAATATGATTGGCACA-ACGCCATCAGTAG
1 CAGTGATATGATCGGCACACA-GCCATCAGTAG
* * * * *
46412489 CAGTGACATGATTGGCTCGCAGCCATCAGTAA
1 CAGTGATATGATCGGCACACAGCCATCAGTAG
* * ** *
46412521 CGGTAATATGATCAACACAAAGCCATCAGTAG
1 CAGTGATATGATCGGCACACAGCCATCAGTAG
* * *
46412553 CAGTGATATGATCGACACACAGCCATTAGTAA
1 CAGTGATATGATCGGCACACAGCCATCAGTAG
* * * * *
46412585 CGGTAATATGATCGGTAAAAAGCCATCAGTAG
1 CAGTGATATGATCGGCACACAGCCATCAGTAG
* *
46412617 CAGTGATATGATCAGCACACAGCCATCAGTAA
1 CAGTGATATGATCGGCACACAGCCATCAGTAG
* * * * * *
46412649 CGGTAATATGACCGGCATAAAGCCATCAGCAG
1 CAGTGATATGATCGGCACACAGCCATCAGTAG
46412681 CA
1 CA
46412683 TCACAGCAAA
Statistics
Matches: 148, Mismatches: 45, Indels: 2
0.76 0.23 0.01
Matches are distributed among these distances:
32 147 0.99
33 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.20
Consensus pattern (32 bp):
CAGTGATATGATCGGCACACAGCCATCAGTAG
Found at i:46412540 original size:64 final size:64
Alignment explanation
Indices: 46412472--46412682 Score: 269
Period size: 64 Copynumber: 3.3 Consensus size: 64
46412462 ATATGATTGG
* * * * *
46412472 CACAACGCCATCAGTAGCAGTGACATGATTGGCTCGCAGCCATCAGTAACGGTAATATGATCAA
1 CACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGTAATATGATCAA
* * **
46412536 CACAAAGCCATCAGTAGCAGTGATATGATCGACACACAGCCATTAGTAACGGTAATATGATCGG
1 CACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGTAATATGATCAA
* * * * **
46412600 TAAAAAGCCATCAGTAGCAGTGATATGATCAGCACACAGCCATCAGTAACGGTAATATGACCGG
1 CACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGTAATATGATCAA
* *
46412664 CATAAAGCCATCAGCAGCA
1 CACAAAGCCATCAGTAGCA
46412683 TCACAGCAAA
Statistics
Matches: 129, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 129 1.00
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (64 bp):
CACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGTAATATGATCAA
Found at i:46413227 original size:27 final size:27
Alignment explanation
Indices: 46412948--46413226 Score: 244
Period size: 27 Copynumber: 10.3 Consensus size: 27
46412938 TAACCTTACA
* * * ***
46412948 AGGGTATTTTGTTCATTTTACCCTAAT
1 AGGGTATTTCGATAATTTTACCCTTCG
* * *
46412975 AGGGTATCTCGATCATTTTACCCTT-T
1 AGGGTATTTCGATAATTTTACCCTTCG
* * * *
46413001 AGGGGTAATTCAATCATTTTACCCATCG
1 A-GGGTATTTCGATAATTTTACCCTTCG
46413029 AGGGTATTTC-AGTAATTTTACCCATT-G
1 AGGGTATTTCGA-TAATTTTACCC-TTCG
* *
46413056 AGGGTATTTCGGTAATTTTACCCATCG
1 AGGGTATTTCGATAATTTTACCCTTCG
* *
46413083 AGAGTATTTCGATAATTTTACCCTTTG
1 AGGGTATTTCGATAATTTTACCCTTCG
* * *
46413110 GGGGTATTTCGCTAATTTTACCCATCG
1 AGGGTATTTCGATAATTTTACCCTTCG
*
46413137 AGAGTATTTCGATAATTTTACCCATT-G
1 AGGGTATTTCGATAATTTTACCC-TTCG
* *
46413164 GGGGTATTTCGCTAATTTTACCCTTC-
1 AGGGTATTTCGATAATTTTACCCTTCG
* * *
46413190 AGAGGTATTTTGATAATTTTACCTTTCA
1 AG-GGTATTTCGATAATTTTACCCTTCG
46413218 AGGGTATTT
1 AGGGTATTT
46413227 TAGTAATTTT
Statistics
Matches: 208, Mismatches: 34, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.03
27 196 0.94
28 5 0.02
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACCCTTCG
Found at i:46413237 original size:54 final size:54
Alignment explanation
Indices: 46412978--46413226 Score: 299
Period size: 54 Copynumber: 4.6 Consensus size: 54
46412968 CCCTAATAGG
* * * ** * *
46412978 GTATCTCGATCATTTTACCCTTT-AGGGGTAATTCAATCATTTTACCCATCGAGG
1 GTATTTCGATAATTTTACCCTTTGA-GGGTATTTCGCTAATTTTACCCATCGAGA
* *
46413032 GTATTTC-AGTAATTTTACCCATTGAGGGTATTTCGGTAATTTTACCCATCGAGA
1 GTATTTCGA-TAATTTTACCCTTTGAGGGTATTTCGCTAATTTTACCCATCGAGA
*
46413086 GTATTTCGATAATTTTACCCTTTGGGGGTATTTCGCTAATTTTACCCATCGAGA
1 GTATTTCGATAATTTTACCCTTTGAGGGTATTTCGCTAATTTTACCCATCGAGA
* * *
46413140 GTATTTCGATAATTTTACCCATTGGGGGTATTTCGCTAATTTTACCCTTC-AGA
1 GTATTTCGATAATTTTACCCTTTGAGGGTATTTCGCTAATTTTACCCATCGAGA
* *
46413193 GGTATTTTGATAATTTTA-CCTTTCAAGGGTATTT
1 -GTATTTCGATAATTTTACCCTTT-GAGGGTATTT
46413227 TAGTAATTTT
Statistics
Matches: 173, Mismatches: 17, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
53 8 0.05
54 163 0.94
55 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (54 bp):
GTATTTCGATAATTTTACCCTTTGAGGGTATTTCGCTAATTTTACCCATCGAGA
Found at i:46425086 original size:25 final size:24
Alignment explanation
Indices: 46425042--46425092 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
46425032 TTTATGTGAA
*
46425042 TAAAATATTAATTAATTATAATAAT
1 TAAAATATTAATCAATTATAA-AAT
46425067 TAAAATATTAATC-ATATATAAAAT
1 TAAAATATTAATCAAT-TATAAAAT
46425091 TA
1 TA
46425093 TAAAAAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
TAAAATATTAATCAATTATAAAAT
Found at i:46426146 original size:7 final size:7
Alignment explanation
Indices: 46426134--46426183 Score: 100
Period size: 7 Copynumber: 7.1 Consensus size: 7
46426124 AAAAAGAACC
46426134 CCATCAT
1 CCATCAT
46426141 CCATCAT
1 CCATCAT
46426148 CCATCAT
1 CCATCAT
46426155 CCATCAT
1 CCATCAT
46426162 CCATCAT
1 CCATCAT
46426169 CCATCAT
1 CCATCAT
46426176 CCATCAT
1 CCATCAT
46426183 C
1 C
46426184 ATCGACGTAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.28, C:0.44, G:0.00, T:0.28
Consensus pattern (7 bp):
CCATCAT
Found at i:46429688 original size:2 final size:2
Alignment explanation
Indices: 46429683--46429707 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
46429673 AAAAAAAAAT
46429683 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
46429708 TTTCAAATTT
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:46430467 original size:18 final size:18
Alignment explanation
Indices: 46430444--46430482 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
46430434 AATCAACCAT
46430444 TAAAAATATAGAAAAAA-A
1 TAAAAA-ATAGAAAAAATA
*
46430462 TAAAAAATTGAAAAAATA
1 TAAAAAATAGAAAAAATA
46430480 TAA
1 TAA
46430483 CCACCTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (18 bp):
TAAAAAATAGAAAAAATA
Found at i:46436531 original size:128 final size:130
Alignment explanation
Indices: 46436285--46436531 Score: 356
Period size: 128 Copynumber: 1.9 Consensus size: 130
46436275 TCACGAACAA
* ** *
46436285 TGTTGAAGTTTATCAGCTGAGAGCGTAGGTCCGTGAGCTGTTTTAGAGTAGCGAGCTTAAATCAG
1 TGTTAAAGTTTATCAGCTGAGAGCGTAGGTCCACGAGCTGTTCTAGAGTAGCGAGCTTAAATCAG
* * **
46436350 CTAACTCAAATAAATGAAGGTTGTGAGTATAACTCAGCTAACCTTTAAACATCAACTGCGAGATG
66 CTAACTCAAATAAATGAAGGTTGTAAGTATAACTCAACTAAAATTTAAACATCAACTGCGAGATG
* * *
46436415 TGTTAAAGTTTATCAG-TTAGGAGTGTAGGTCCACGAGCTG-TCTAGAGTAGCGAGCTTAACTCA
1 TGTTAAAGTTTATCAGCTGA-GAGCGTAGGTCCACGAGCTGTTCTAGAGTAGCGAGCTTAAATCA
*
46436478 GCTAACTCAAA-AAATGAAGGTTGTAAGTGTAACTCAACTAAAATTTAAACATCA
65 GCTAACTCAAATAAATGAAGGTTGTAAGTATAACTCAACTAAAATTTAAACATCA
46436532 GTTTGGAGCA
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
128 38 0.37
129 34 0.33
130 32 0.31
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (130 bp):
TGTTAAAGTTTATCAGCTGAGAGCGTAGGTCCACGAGCTGTTCTAGAGTAGCGAGCTTAAATCAG
CTAACTCAAATAAATGAAGGTTGTAAGTATAACTCAACTAAAATTTAAACATCAACTGCGAGATG
Found at i:46436668 original size:103 final size:102
Alignment explanation
Indices: 46436426--46436668 Score: 239
Period size: 103 Copynumber: 2.4 Consensus size: 102
46436416 GTTAAAGTTT
* ** *
46436426 ATCAGTTAGGAGTGTAGGTCCACGAGC-TGTCTAGAGTAGCGAGCTTAACTCAGCTAACTCAAAA
1 ATCAGTTTGGAGCATAGGTCCACGAGCTTGT-TAAAGTAGCGAGCTTAACTCAGCTAACTCAAAA
*
46436490 AATGAAGGTTGTAAGTGTAACTCAACTAAAATTTAAAC
65 AATGAAGGTTGTAAGTATAACTCAACTAAAATTTAAAC
* * *** *
46436528 ATCAGTTTGGAGCAAAAGTCTGTGAGTTCTT-TCAAAGTAGCGAGCTTAACTCAGCTAACTCAAA
1 ATCAGTTTGGAGCATAGGTCCACGAG--CTTGTTAAAGTAGCGAGCTTAACTCAGCTAACTCAAA
**
46436592 TAAATGAAGGTTGTGAA-TATAA-T-ATAGCTAACCTTTAAA-
64 -AAATGAAGGTTGT-AAGTATAACTCA-A-CTAAAATTTAAAC
46436631 ATCAG-TTGAGAGCATAGGTCCACGAGCTATGTTAAAGT
1 ATCAGTTTG-GAGCATAGGTCCACGAGCT-TGTTAAAGT
46436669 TTATCAACTT
Statistics
Matches: 112, Mismatches: 19, Indels: 19
0.75 0.13 0.13
Matches are distributed among these distances:
101 2 0.02
102 23 0.21
103 55 0.49
104 29 0.26
105 3 0.03
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (102 bp):
ATCAGTTTGGAGCATAGGTCCACGAGCTTGTTAAAGTAGCGAGCTTAACTCAGCTAACTCAAAAA
ATGAAGGTTGTAAGTATAACTCAACTAAAATTTAAAC
Found at i:46440803 original size:42 final size:42
Alignment explanation
Indices: 46440756--46440837 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
46440746 GGGTATAAGG
* *
46440756 TTCAAACTTA-CCTTGAGGGATGTACTTCATTATGCACTCTGC
1 TTCAAACTTACCCTCG-GGGATGTACCTCATTATGCACTCTGC
46440798 TTCAAACTTACCCTCGGGGATGTACCTCATTATGCACTCT
1 TTCAAACTTACCCTCGGGGATGTACCTCATTATGCACTCT
46440838 AGTTAAGCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 33 0.89
43 4 0.11
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (42 bp):
TTCAAACTTACCCTCGGGGATGTACCTCATTATGCACTCTGC
Found at i:46465310 original size:97 final size:97
Alignment explanation
Indices: 46465181--46465380 Score: 337
Period size: 97 Copynumber: 2.1 Consensus size: 97
46465171 TTCTGTAGAA
46465181 AAAATGACTCATGGCAAGAACACGCCGATATTGAACGAGGCAGAAACCAGTAAGACAAGAAAGGG
1 AAAATGACTCATGGCAAGAACACGCCGATATTGAACGAGGCAGAAACCAGTAAGACAAGAAAGGG
46465246 CAAAGCCAAAGCCAACAGCAAAGAAACAAACC
66 CAAAGCCAAAGCCAACAGCAAAGAAACAAACC
* * * * *
46465278 AAAATTACTCGTGGCAAGAACACGCCGATATTGAAGGAGGCGGAAACCAGTATGACAAGAAAGGG
1 AAAATGACTCATGGCAAGAACACGCCGATATTGAACGAGGCAGAAACCAGTAAGACAAGAAAGGG
*
46465343 CAAAGCCAAAGCCAACAGCAAAGGAACAAACC
66 CAAAGCCAAAGCCAACAGCAAAGAAACAAACC
*
46465375 TAAATG
1 AAAATG
46465381 TAGAGACATC
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.47, C:0.21, G:0.23, T:0.09
Consensus pattern (97 bp):
AAAATGACTCATGGCAAGAACACGCCGATATTGAACGAGGCAGAAACCAGTAAGACAAGAAAGGG
CAAAGCCAAAGCCAACAGCAAAGAAACAAACC
Found at i:46465820 original size:21 final size:21
Alignment explanation
Indices: 46465795--46465845 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
46465785 GTTGAGAAGG
*
46465795 AAGTTGCTGCTGTAGAAGAAA
1 AAGTTGCTGCTGAAGAAGAAA
** * *
46465816 AAGTTATTGTTGAAGAAGAAG
1 AAGTTGCTGCTGAAGAAGAAA
46465837 AAGTTGCTG
1 AAGTTGCTG
46465846 AAAATGAGAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.37, C:0.06, G:0.29, T:0.27
Consensus pattern (21 bp):
AAGTTGCTGCTGAAGAAGAAA
Found at i:46466627 original size:23 final size:23
Alignment explanation
Indices: 46466564--46466629 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
46466554 ATTCACTCTT
*
46466564 AGATATGATATATGCAATCTT---
1 AGATATGATAT-TGTAATCTTAGA
*
46466585 AGATATGAT-TTCTAATCTTAGA
1 AGATATGATATTGTAATCTTAGA
46466607 AGATATGATATTGTAATCTTAGA
1 AGATATGATATTGTAATCTTAGA
46466630 GATTTAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
19 7 0.18
20 1 0.03
21 9 0.24
22 9 0.24
23 12 0.32
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (23 bp):
AGATATGATATTGTAATCTTAGA
Found at i:46467112 original size:3 final size:3
Alignment explanation
Indices: 46467106--46467139 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
46467096 TTGTATCATC
46467106 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
46467140 CCACGTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:46472240 original size:6 final size:6
Alignment explanation
Indices: 46472185--46472223 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
46472175 TGATAATGGA
*
46472185 AAAAAG GAAAAG AAAAAG -AAAAG AAAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG AAA
46472224 GAATAAGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 5 0.17
6 19 0.66
7 5 0.17
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:46473610 original size:44 final size:44
Alignment explanation
Indices: 46473542--46473839 Score: 404
Period size: 44 Copynumber: 6.8 Consensus size: 44
46473532 TGACTCCAAC
* * *
46473542 CCTATCTCCCTGGTCAGTAATGGAATAGGTTAAAGATTGTAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
46473586 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-T
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGT
* * * *
46473630 TCTATCTCCTTGGTTAGCAGTGGAATAGGTTGAATATTGTAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
* * *
46473674 CCTATCTCCTTAGTCAACAGTGGAATAGGTTGAAGATTGTAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
*
46473718 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGAATGTAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
* * *
46473762 CCTATCTACCTGGTCAGCAATGGAATAGATTGAAGATTGTGAA-T
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGT
**
46473806 CCTATCTCCCTGAG-CAATAGTGGAATAGGTTGAA
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
46473840 AATAGCAAAT
Statistics
Matches: 225, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
43 2 0.01
44 218 0.97
45 5 0.02
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
Found at i:46474394 original size:268 final size:267
Alignment explanation
Indices: 46473908--46474530 Score: 931
Period size: 268 Copynumber: 2.3 Consensus size: 267
46473898 TGCCTTGACG
** *
46473908 TTACAATGGAAAAGATTGAAGCCACAACGGCGAATCTTATTTCCCTGGCATTGTAGCGGAGCAGA
1 TTACAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTATTTCCCTGGCATTGTAGCGGAGCAGA
*
46473973 TTGAAGCCACGGCGGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGG
66 TTGAAGCCACGACGGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGG
* * * *
46474038 ATTGAAGTTGTGGGCAGTAAATCCTATCACTTTGGCATTACAGTGGAGTAGATTGAAACCACAAC
131 ATTGAAGCTGTGGGCAGCAAATCCTATCACTTTAGCATTACAGTGGAGCAGATTGAAACCACAAC
* * * *
46474103 GGTGGATCTTACTCCCTTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTC
196 GGTGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGACGGCAAATCTTGTTTC
46474168 CCCAACA
261 CCCAACA
* * *
46474175 TTGCAATTTAAAAAGATTGAAGCCGCAACGGTGAATCTTATTTCCCTGGCGTTGTAGCGGAGCAG
1 TTACAA-TTAAAAAGATTGAAGCCGCAACGGCGAATCTTATTTCCCTGGCATTGTAGCGGAGCAG
*
46474240 ATTGAAGCCACGACGGCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCG
65 ATTGAAGCCACGACGGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCG
* * * *
46474305 GATTGAAGCTGTGGGCAGCGAATCCTATCTCTTTAGCATTACAGTGGAGCAGATTGAAGCCGCAA
130 GATTGAAGCTGTGGGCAGCAAATCCTATCACTTTAGCATTACAGTGGAGCAGATTGAAACCACAA
* * *
46474370 TGGTGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGATGGTAAATCTTGTTT
195 CGGTGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGACGGCAAATCTTGTTT
46474435 CCCCAACA
260 CCCCAACA
* * * * * * * * *
46474443 TTACAATTAAAAAGATTGAAGGCGCAATGACAAATCTTACTCCCCTGGCAATGTAGTGGAACAGA
1 TTACAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTATTTCCCTGGCATTGTAGCGGAGCAGA
* *
46474508 TTGAAGCTATGACGGTGAATCTT
66 TTGAAGCCACGACGGTGAATCTT
46474531 GTTTCCCTAA
Statistics
Matches: 317, Mismatches: 38, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
267 73 0.23
268 244 0.77
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (267 bp):
TTACAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTATTTCCCTGGCATTGTAGCGGAGCAGA
TTGAAGCCACGACGGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGG
ATTGAAGCTGTGGGCAGCAAATCCTATCACTTTAGCATTACAGTGGAGCAGATTGAAACCACAAC
GGTGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGACGGCAAATCTTGTTTC
CCCAACA
Found at i:46474479 original size:100 final size:100
Alignment explanation
Indices: 46474355--46474663 Score: 411
Period size: 100 Copynumber: 3.1 Consensus size: 100
46474345 ACAGTGGAGC
** *
46474355 AGATTGAAGCCGCAATGGTGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGA
1 AGATTGAAGCCGCAATGACGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
* *
46474420 TGGTAAATCTTGTTTCCCCAACATTACAATTAAAA
66 TGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * ** *
46474455 AGATTGAAGGCGCAATGACAAATCTTACTCCCCTGGCAATGTAGTGGAACAGATTGAAGCTATGA
1 AGATTGAAGCCGCAATGACGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
* *
46474520 CGGTGAATCTTGTTTCCCTAACATTGCAATTAAAA
66 TGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * * * *
46474555 AGATTAAACCCGCAACGACGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGTTACGA
1 AGATTGAAGCCGCAATGACGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
** * * *
46474620 TGACGAATCTTATTTTCCCAACATTGCAATTTAAA
66 TGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
*
46474655 AGACTGAAG
1 AGATTGAAG
46474664 ATAGCAAATC
Statistics
Matches: 177, Mismatches: 32, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
100 177 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (100 bp):
AGATTGAAGCCGCAATGACGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
TGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
Found at i:46474767 original size:44 final size:43
Alignment explanation
Indices: 46474671--46475048 Score: 180
Period size: 44 Copynumber: 8.7 Consensus size: 43
46474661 AAGATAGCAA
* * * *
46474671 ATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAGCCAATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAA-G
* * *
46474715 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-AG
* * ** * *
46474759 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATT-GCATCTAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAAG
* * * *
46474800 -TCTTATCTCCTTGAAGTTACAGTGGAGCAGAGTAAGTAAGCAAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCAAG
* * * * * ** *
46474844 -TCTTATC-CTTCTAAAGTTACAGT-GAGGCATACTGAAGATGGCGA-
1 ATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-ACCAAG
* * * *
46474888 ATCTTATATCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAA-G
* * * * *
46474932 ATCCTATCTCCCTGAAGTTGTAGTAGAGCGGATTAAAACCACTG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-AG
** * * * * * * *
46474976 ATCTTATCTCTTTAAAGTTGCAGTAGAGTAGA-TCACATC-GG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAAG
* * *
46475017 GTCTTATCTCCCTGAAGCTGTAGTGGAGCAGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
46475049 CTCAAGAAAA
Statistics
Matches: 252, Mismatches: 67, Indels: 33
0.72 0.19 0.09
Matches are distributed among these distances:
40 19 0.08
41 35 0.14
42 6 0.02
43 16 0.06
44 145 0.58
45 28 0.11
46 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAAG
Found at i:46474848 original size:84 final size:84
Alignment explanation
Indices: 46474666--46474850 Score: 187
Period size: 84 Copynumber: 2.2 Consensus size: 84
46474656 GACTGAAGAT
* * *
46474666 AGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAGCCAATAATCCTATCTCCCTGAA
1 AGCAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT--AGCCAATAATCCTATCTCCCTGAA
* * *
46474731 GTTGCAGTGGAGCGGATTAAA
64 GTTACAGTGGAGCAGAGTAAA
* * * * *
46474752 ATCACAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATT-G-CATCTAGTCTTATCTCCTTGA
1 AGCA-AG-TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAGCCA-ATAATCCTATCTCCCTGA
46474814 AGTTACAGTGGAGCAGAGTAAGTA
63 AGTTACAGTGGAGCAGAGTAA--A
46474838 AGCAAGTCTTATC
1 AGCAAGTCTTATC
46474851 CTTCTAAAGT
Statistics
Matches: 82, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
83 2 0.02
84 40 0.49
85 2 0.02
86 7 0.09
87 9 0.11
88 22 0.27
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (84 bp):
AGCAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAGCCAATAATCCTATCTCCCTGAAGT
TACAGTGGAGCAGAGTAAA
Found at i:46475685 original size:19 final size:19
Alignment explanation
Indices: 46475661--46475718 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 19
46475651 AATCTTCAAG
*
46475661 GATATGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
46475680 GATATGTAATCTTAGAAGATAT
1 GATATGTAATCTT---AGATAT
46475702 GATATTGTAATCTTAGA
1 GATA-TGTAATCTTAGA
46475719 GATTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
19 12 0.35
20 3 0.09
22 10 0.29
23 9 0.26
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:46475702 original size:22 final size:23
Alignment explanation
Indices: 46475674--46475718 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
46475664 ATGCAATCTT
46475674 AGATATGATA-TGTAATCTTAGA
1 AGATATGATATTGTAATCTTAGA
46475696 AGATATGATATTGTAATCTTAGA
1 AGATATGATATTGTAATCTTAGA
46475719 GATTTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATATTGTAATCTTAGA
Found at i:46476142 original size:15 final size:14
Alignment explanation
Indices: 46476112--46476153 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
46476102 CCTCTATTTG
*
46476112 TTATTTT-AATTTA
1 TTATTTTAAATTAA
46476125 TTATTATTAAATTAA
1 TTATT-TTAAATTAA
46476140 TTATTTTAATATTA
1 TTATTTTAA-ATTA
46476154 TTAATACTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 5 0.20
14 6 0.24
15 14 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATTTTAAATTAA
Found at i:46476165 original size:23 final size:23
Alignment explanation
Indices: 46476121--46476166 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
46476111 GTTATTTTAA
* *
46476121 TTTATTATTATTAAATTAATTAT
1 TTTAATATTATTAAACTAATTAT
46476144 TTTAATATTATTAATACT-ATTAT
1 TTTAATATTATTAA-ACTAATTAT
46476167 GTGGCATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTAATATTATTAAACTAATTAT
Found at i:46476197 original size:3 final size:3
Alignment explanation
Indices: 46476189--46476216 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
46476179 ATCTTGTATC
46476189 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
46476217 CCACGTTTTA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:46480358 original size:19 final size:16
Alignment explanation
Indices: 46480332--46480374 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 16
46480322 ACATAAAATG
46480332 TTATTAAAAATTTATATT
1 TTATTAAAAA-TTAT-TT
*
46480350 TTAATTAAATATTATTT
1 TT-ATTAAAAATTATTT
46480367 TTATTAAA
1 TTATTAAA
46480375 TTAGATTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 6 0.26
17 4 0.17
18 6 0.26
19 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATTAAAAATTATTT
Found at i:46480368 original size:17 final size:16
Alignment explanation
Indices: 46480339--46480376 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
46480329 ATGTTATTAA
46480339 AAATTTATATTTTAATT
1 AAATTTATATTTT-ATT
46480356 AAATATTAT-TTTTATT
1 AAAT-TTATATTTTATT
46480372 AAATT
1 AAATT
46480377 AGATTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.05
16 7 0.35
17 8 0.40
18 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AAATTTATATTTTATT
Found at i:46492118 original size:45 final size:45
Alignment explanation
Indices: 46491974--46492122 Score: 165
Period size: 45 Copynumber: 3.3 Consensus size: 45
46491964 GACTGGCACG
*
46491974 AGAAAGTAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAA
1 AGAAAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAA
** * *** * * * * *
46492019 AGAAAATAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAG
1 AGAAAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAA
* *
46492063 AGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAA
1 AGAAAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAA
46492108 AGAAAGCAGATCTTG
1 AGAAAGCAGATCTTG
46492123 TTTTCATGTA
Statistics
Matches: 79, Mismatches: 24, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
44 32 0.41
45 47 0.59
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (45 bp):
AGAAAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAA
Found at i:46492132 original size:89 final size:89
Alignment explanation
Indices: 46491981--46492156 Score: 280
Period size: 89 Copynumber: 2.0 Consensus size: 89
46491971 ACGAGAAAGT
* **
46491981 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAATAGATCTTGTCTTCATGTATT
1 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCTTGTCTTCATGTACC
** *
46492046 GGCGTGAAGTAGATCAGAGATACC
66 GGCGTGAAACAGATCAAAGATACC
* *
46492070 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTTTTCATGTACC
1 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCTTGTCTTCATGTACC
46492135 GGCGTGAAACAGATCAAAGATA
66 GGCGTGAAACAGATCAAAGATA
46492157 GTAGGTCCTG
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 79 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (89 bp):
AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCTTGTCTTCATGTACC
GGCGTGAAACAGATCAAAGATACC
Done.