Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 237 of 320
Found at i:78179401 original size:23 final size:22
Alignment explanation
Indices: 78179375--78179430 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
78179365 ACATAAATTT
78179375 TAAAATAAAAAGTAAGACAATAA
1 TAAAATAAAAAGTAA-ACAATAA
* *
78179398 T-AAATAAATAAGTAAATAATAG
1 TAAAATAAA-AAGTAAACAATAA
78179420 TAAAATAAAAA
1 TAAAATAAAAA
78179431 ATACATGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 15 0.52
23 14 0.48
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (22 bp):
TAAAATAAAAAGTAAACAATAA
Found at i:78179516 original size:56 final size:52
Alignment explanation
Indices: 78179398--78179516 Score: 125
Period size: 56 Copynumber: 2.2 Consensus size: 52
78179388 AAGACAATAA
* *
78179398 TAAATAAATAAGTAAATAATAGTAAAATAAAAAATACATGAAAGGCTGAAAT
1 TAAATAAATAAATAAATAATAATAAAATAAAAAATACATGAAAGGCTGAAAT
* * *
78179450 TGCAAT-AATAAATAAATAAGTACATAATAATAATAAATTTCATGAAAGGCT-AGAAT
1 T-AAATAAATAAATAAATAA-TA-ATAA-AATAA-AAAATACATGAAAGGCTGA-AAT
78179506 TAAATAAATAA
1 TAAATAAATAA
78179517 GGAACTGAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
52 13 0.24
53 5 0.09
54 3 0.06
55 9 0.17
56 24 0.44
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (52 bp):
TAAATAAATAAATAAATAATAATAAAATAAAAAATACATGAAAGGCTGAAAT
Found at i:78181213 original size:72 final size:72
Alignment explanation
Indices: 78181124--78181302 Score: 234
Period size: 72 Copynumber: 2.5 Consensus size: 72
78181114 GATATATATC
* * * ** *
78181124 GCGGATTCTCTAAAGCTTGTGTGAGCAGTATCGGATCATTCTTTATCGATGACTTGAGATTCGAC
1 GCGGATTCTCTGAAGCTTGTGTGAGCAGCACCAAATCATTCTTTATCGATGACTTGAGATTCGAA
*
78181189 ATATGTT
66 ACATGTT
* * * * *
78181196 GTGGATTCTTTGAAGCTTGTGTGAGCAGCACCAAATCATTTTTTATCGGTGGCTTGAGATTCGAA
1 GCGGATTCTCTGAAGCTTGTGTGAGCAGCACCAAATCATTCTTTATCGATGACTTGAGATTCGAA
78181261 ACATGTT
66 ACATGTT
*
78181268 GCGAATTCTCTGAAGCTTGTGTGAGCAGC-CCAAAT
1 GCGGATTCTCTGAAGCTTGTGTGAGCAGCACCAAAT
78181303 ATGTCAACGT
Statistics
Matches: 92, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
71 6 0.07
72 86 0.93
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (72 bp):
GCGGATTCTCTGAAGCTTGTGTGAGCAGCACCAAATCATTCTTTATCGATGACTTGAGATTCGAA
ACATGTT
Found at i:78183530 original size:12 final size:12
Alignment explanation
Indices: 78183506--78183540 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
78183496 TTGAAAATGT
78183506 ATCTGATTATGC
1 ATCTGATTATGC
78183518 ATCTGCATT-TGC
1 ATCTG-ATTATGC
78183530 ATCTGATTATG
1 ATCTGATTATG
78183541 AAAGTATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 3 0.14
12 15 0.71
13 3 0.14
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (12 bp):
ATCTGATTATGC
Found at i:78184275 original size:25 final size:26
Alignment explanation
Indices: 78184234--78184292 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 26
78184224 TTGTAGATAA
78184234 TATTAA-ATTAAATTTAA-AATAATCAC
1 TATTAATATTAAATTTAATAA-AAT-AC
78184260 T-TTAATATTAAA-TTAATAAAATAC
1 TATTAATATTAAATTTAATAAAATAC
78184284 TATTAATAT
1 TATTAATAT
78184293 AAGTAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
24 3 0.10
25 18 0.60
26 9 0.30
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (26 bp):
TATTAATATTAAATTTAATAAAATAC
Found at i:78185438 original size:52 final size:52
Alignment explanation
Indices: 78185376--78185483 Score: 207
Period size: 52 Copynumber: 2.1 Consensus size: 52
78185366 TACAATCCTT
78185376 AACAAGTGACCAAAAATGACAACATTTGGTAAACATTAAAGTGCACCAACCA
1 AACAAGTGACCAAAAATGACAACATTTGGTAAACATTAAAGTGCACCAACCA
*
78185428 AACAAGTGACCTAAAATGACAACATTTGGTAAACATTAAAGTGCACCAACCA
1 AACAAGTGACCAAAAATGACAACATTTGGTAAACATTAAAGTGCACCAACCA
78185480 AACA
1 AACA
78185484 TAATTTTTAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.48, C:0.21, G:0.13, T:0.18
Consensus pattern (52 bp):
AACAAGTGACCAAAAATGACAACATTTGGTAAACATTAAAGTGCACCAACCA
Found at i:78186513 original size:53 final size:53
Alignment explanation
Indices: 78186448--78186555 Score: 173
Period size: 53 Copynumber: 2.0 Consensus size: 53
78186438 GTTTATCTTG
* *
78186448 ATTTAAATAGATAATTTCAATCAATTAAGC-ATAGTTAATATTCAATTTAATCC
1 ATTTAAAAAGATAATTTCAATCAATTAAGCAAT-CTTAATATTCAATTTAATCC
*
78186501 ATTTAAAAAGATAATTTCAATCAATTAAGTAATCTTAATATTCAATTTAATCC
1 ATTTAAAAAGATAATTTCAATCAATTAAGCAATCTTAATATTCAATTTAATCC
78186554 AT
1 AT
78186556 AGTTCACATT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
53 49 0.96
54 2 0.04
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (53 bp):
ATTTAAAAAGATAATTTCAATCAATTAAGCAATCTTAATATTCAATTTAATCC
Found at i:78188353 original size:13 final size:13
Alignment explanation
Indices: 78188335--78188365 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
78188325 AATGTGATAA
78188335 GAATAATTATGTT
1 GAATAATTATGTT
78188348 GAATAATTATGTT
1 GAATAATTATGTT
78188361 GAATA
1 GAATA
78188366 TAGAGAAGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (13 bp):
GAATAATTATGTT
Found at i:78191491 original size:70 final size:69
Alignment explanation
Indices: 78191315--78191580 Score: 275
Period size: 70 Copynumber: 3.8 Consensus size: 69
78191305 CATGAGATCC
* * * ** * * *
78191315 TTCTCTCAAGCTTGTGTGAACAGAATTGAATCATTCTTTATTGATGGCTTGAGATCAGGCAT-TG
1 TTCTCTGAAGTTTGTGTGAGCATCATCGAATCATTCTTTATCGATGGCTTGAGATCAGACATATG
*
78191379 TGGA
66 TGCA
* * * * * * * *
78191383 TTCTTTAAAGCTTGTGTGAGGAGCATCGAACCATTCTTTATCGATGGTTTGAGATCTGACATATG
1 TTCTCTGAAGTTTGTGTGAGCATCATCGAATCATTCTTTATCGATGGCTTGAGATCAGACATATG
78191448 ATGCA
66 -TGCA
* * * *
78191453 TTCTCTGAGGTTTGTGTGAGCATCATGGAATCATTCTTTATCGGTGGCTTGAGATCCGACATATG
1 TTCTCTGAAGTTTGTGTGAGCATCATCGAATCATTCTTTATCGATGGCTTGAGATCAGACATATG
78191518 TTGCGGA
66 -TGC--A
*
78191525 TTCTCTGAAGTTTGTGTGAGCAGT-ATCGAATCATTCTTTATCGGTGGCTTGAGATC
1 TTCTCTGAAGTTTGTGTGAGCA-TCATCGAATCATTCTTTATCGATGGCTTGAGATC
78191581 CAACACATGT
Statistics
Matches: 167, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
68 51 0.31
69 2 0.01
70 60 0.36
72 53 0.32
73 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.37
Consensus pattern (69 bp):
TTCTCTGAAGTTTGTGTGAGCATCATCGAATCATTCTTTATCGATGGCTTGAGATCAGACATATG
TGCA
Found at i:78191557 original size:72 final size:72
Alignment explanation
Indices: 78191315--78191618 Score: 307
Period size: 72 Copynumber: 4.3 Consensus size: 72
78191305 CATGAGATCC
* * * * * * *
78191315 TTCTCTCAAGCTTGTGTGAACAGAATTGAATCATTCTTTATTGATGGCTTGAGATCAGGCAT-TG
1 TTCTCTGAAGCTTGTGTGAGCAGTATCGAATCATTCTTTATCGATGGCTTGAGATCCGACATATG
78191379 -T--GGA
66 TTGCGGA
* * * * * * *
78191383 TTCTTTAAAGCTTGTGTGAGGAGCATCGAACCATTCTTTATCGATGGTTTGAGATCTGACATATG
1 TTCTCTGAAGCTTGTGTGAGCAGTATCGAATCATTCTTTATCGATGGCTTGAGATCCGACATATG
*
78191448 ATGC--A
66 TTGCGGA
* * * *
78191453 TTCTCTGAGGTTTGTGTGAGCA-TCATGGAATCATTCTTTATCGGTGGCTTGAGATCCGACATAT
1 TTCTCTGAAGCTTGTGTGAGCAGT-ATCGAATCATTCTTTATCGATGGCTTGAGATCCGACATAT
78191517 GTTGCGGA
65 GTTGCGGA
* * * *
78191525 TTCTCTGAAGTTTGTGTGAGCAGTATCGAATCATTCTTTATCGGTGGCTTGAGATCCAACACATG
1 TTCTCTGAAGCTTGTGTGAGCAGTATCGAATCATTCTTTATCGATGGCTTGAGATCCGACATATG
**
78191590 TTATGGA
66 TTGCGGA
* *
78191597 ATCTCTGAAGCTTGTGCGAGCA
1 TTCTCTGAAGCTTGTGTGAGCA
78191619 ACACCCAATA
Statistics
Matches: 196, Mismatches: 32, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
68 51 0.26
69 2 0.01
70 58 0.30
72 84 0.43
73 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (72 bp):
TTCTCTGAAGCTTGTGTGAGCAGTATCGAATCATTCTTTATCGATGGCTTGAGATCCGACATATG
TTGCGGA
Found at i:78192601 original size:32 final size:32
Alignment explanation
Indices: 78192553--78192617 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
78192543 TCGGTCAAGC
* *
78192553 GGTGGACTGTTGCTGATGGTGCAAGGAATTTG
1 GGTGGACTGCTACTGATGGTGCAAGGAATTTG
78192585 GGTGGACTGCTACTGATGGTGCAAGGAATTTG
1 GGTGGACTGCTACTGATGGTGCAAGGAATTTG
78192617 G
1 G
78192618 ATGGGATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.20, C:0.11, G:0.40, T:0.29
Consensus pattern (32 bp):
GGTGGACTGCTACTGATGGTGCAAGGAATTTG
Found at i:78194257 original size:20 final size:21
Alignment explanation
Indices: 78194214--78194259 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
78194204 ACTGTTTTGT
78194214 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
78194234 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
78194253 TATGGGC
1 TATGGGC
78194260 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:78194333 original size:60 final size:59
Alignment explanation
Indices: 78194254--78194390 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 59
78194244 CTGTGTTAAT
* * *
78194254 ATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTAAC
1 ATGGGCTAGGCCCAGTATATTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTAAC
* * * * *
78194314 ATGGGCTAGGCCCAGTATATTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTGAT
1 ATGGGCTAGGCCCAGTATATTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTAAC
78194374 ATGGGCTAAGGCCCAGT
1 ATGGGCT-AGGCCCAGT
78194391 TAACTCTGAT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 1 0.02
60 47 0.72
61 17 0.26
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (59 bp):
ATGGGCTAGGCCCAGTATATTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTAAC
Found at i:78200320 original size:12 final size:13
Alignment explanation
Indices: 78200296--78200324 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
78200286 TAGTATAATT
78200296 TTTTAATTAATAA
1 TTTTAATTAATAA
78200309 TTTTAATT-ATAA
1 TTTTAATTAATAA
78200321 TTTT
1 TTTT
78200325 TTTAAATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTAATTAATAA
Found at i:78200329 original size:15 final size:14
Alignment explanation
Indices: 78200289--78200326 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
78200279 TTAAAATTAG
78200289 TATAATTTTTTAAT
1 TATAATTTTTTAAT
78200303 TAATAA--TTTTAAT
1 T-ATAATTTTTTAAT
78200316 TATAATTTTTT
1 TATAATTTTTT
78200327 TAAATGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
12 4 0.19
13 8 0.38
14 5 0.24
15 4 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TATAATTTTTTAAT
Found at i:78205051 original size:229 final size:229
Alignment explanation
Indices: 78204650--78205103 Score: 872
Period size: 229 Copynumber: 2.0 Consensus size: 229
78204640 TATGAATGGT
78204650 GATTAATATTTATGTATGTTAATTGTTGAAAATAAGTAAATTATGTACAAAAGTTATGAAATCGA
1 GATTAATATTTATGTATGTTAATTGTTGAAAATAAGTAAATTATGTACAAAAGTTATGAAATCGA
*
78204715 ACTGAGTATTTCAGAGGAACGGAATGCAGGAAATGAGTACAATCGTTCAGTGAAAAAGATGAATT
66 ACTGAGTATTTCAGAGGAACGGAACGCAGGAAATGAGTACAATCGTTCAGTGAAAAAGATGAATT
*
78204780 GACGGTAAATTACCCAAGTAAATCGAGATTCAGCATTTGTTGTGAATTCTCGTGTTTTCTTTTCG
131 GACGGTAAATTACCCAAGTAAATCGAGATTCAGCATTTGTTGTGAATTCTCGTGTTTGCTTTTCG
78204845 TTTAGCTCTTACGAGCTTCCGTTAACTCATCAGG
196 TTTAGCTCTTACGAGCTTCCGTTAACTCATCAGG
78204879 GATTAATATTTATGTATGTTAATTGTTGAAAATAAGTAAATTATGTACAAAAGTTATGAAATCGA
1 GATTAATATTTATGTATGTTAATTGTTGAAAATAAGTAAATTATGTACAAAAGTTATGAAATCGA
* *
78204944 ACTGAGTATTTCGGAGGAACGGAACGCAGGAAATGAGTACAATTGTTCAGTGAAAAAGATGAATT
66 ACTGAGTATTTCAGAGGAACGGAACGCAGGAAATGAGTACAATCGTTCAGTGAAAAAGATGAATT
78205009 GACGGTAAATTACCCAAGTAAATCGAGATTCAGCATTTGTTGTGAATTCTCGTGTTTGCTTTTCG
131 GACGGTAAATTACCCAAGTAAATCGAGATTCAGCATTTGTTGTGAATTCTCGTGTTTGCTTTTCG
78205074 TTTAGCTCTTACGAGCTTCCGTTAACTCAT
196 TTTAGCTCTTACGAGCTTCCGTTAACTCAT
78205104 ATGAGTTTCA
Statistics
Matches: 221, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
229 221 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (229 bp):
GATTAATATTTATGTATGTTAATTGTTGAAAATAAGTAAATTATGTACAAAAGTTATGAAATCGA
ACTGAGTATTTCAGAGGAACGGAACGCAGGAAATGAGTACAATCGTTCAGTGAAAAAGATGAATT
GACGGTAAATTACCCAAGTAAATCGAGATTCAGCATTTGTTGTGAATTCTCGTGTTTGCTTTTCG
TTTAGCTCTTACGAGCTTCCGTTAACTCATCAGG
Found at i:78206030 original size:46 final size:46
Alignment explanation
Indices: 78205895--78206030 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
78205885 TTTGACATGA
* * * * * *
78205895 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATAGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
*
78205941 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
78205987 TGCCATTGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
78206031 AAAGCACACT
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 4 0.05
46 77 0.95
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:78211278 original size:46 final size:46
Alignment explanation
Indices: 78211218--78211491 Score: 442
Period size: 46 Copynumber: 6.0 Consensus size: 46
78211208 TTTGACATGA
* * * * * *
78211218 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
78211264 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
78211310 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTTATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
78211356 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
78211402 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
78211448 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
78211492 AGAGCACACT
Statistics
Matches: 214, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 210 0.98
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:78213924 original size:30 final size:30
Alignment explanation
Indices: 78213857--78213924 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
78213847 CACCCTTAAA
* * *
78213857 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
78213887 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
78213916 AGTATTTAC
1 A-TATTTAC
78213925 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:78214151 original size:39 final size:39
Alignment explanation
Indices: 78214107--78214245 Score: 233
Period size: 39 Copynumber: 3.6 Consensus size: 39
78214097 GCTCTGATAA
78214107 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
*
78214146 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
78214185 GCTTTAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
78214224 GCTTCAGCTAGACTTCGGGCTT
1 GCTTCAGTTAGCCTTCGGGCTT
78214246 TAAATCACGA
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.12, C:0.25, G:0.24, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:78216708 original size:21 final size:21
Alignment explanation
Indices: 78216684--78216727 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
78216674 TAAAAATGTT
78216684 AAAAAAATATTAATA-TATATG
1 AAAAAAATA-TAATATTATATG
**
78216705 AAAATTATATAATATTATATG
1 AAAAAAATATAATATTATATG
78216726 AA
1 AA
78216728 TACTATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (21 bp):
AAAAAAATATAATATTATATG
Found at i:78216734 original size:21 final size:20
Alignment explanation
Indices: 78216694--78216734 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
78216684 AAAAAAATAT
*
78216694 TAATATATATGAAAATTATA
1 TAATATATATGAAAACTATA
*
78216714 TAATATTATATGAATACTATA
1 TAATA-TATATGAAAACTATA
78216735 AAAATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.41
Consensus pattern (20 bp):
TAATATATATGAAAACTATA
Found at i:78217608 original size:6 final size:6
Alignment explanation
Indices: 78217559--78217605 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
78217549 AAGAACCTTA
* *
78217559 AACTCG AACTCG AACTCG AACTCG AACTCG AACTCA AACTCA AACTC
1 AACTCG AACTCG AACTCG AACTCG AACTCG AACTCG AACTCG AACTC
78217606 AAATTCTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.38, C:0.34, G:0.11, T:0.17
Consensus pattern (6 bp):
AACTCG
Found at i:78217675 original size:7 final size:7
Alignment explanation
Indices: 78217663--78217699 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
78217653 TTTAAGGTTA
78217663 GAGATTC
1 GAGATTC
78217670 GAGATTC
1 GAGATTC
78217677 GAGATTC
1 GAGATTC
78217684 GAGATTC
1 GAGATTC
*
78217691 AAGATTC
1 GAGATTC
78217698 GA
1 GA
78217700 TTGAAATGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (7 bp):
GAGATTC
Found at i:78223889 original size:24 final size:23
Alignment explanation
Indices: 78223862--78223907 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
78223852 TCCATGGTAT
*
78223862 AAAATAAATAAAGTGATAAAAATA
1 AAAATAAATAAA-TAATAAAAATA
78223886 AAAATAAATAAATAATAAAAAT
1 AAAATAAATAAATAATAAAAAT
78223908 TCTAGATGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (23 bp):
AAAATAAATAAATAATAAAAATA
Found at i:78226241 original size:133 final size:132
Alignment explanation
Indices: 78226018--78226613 Score: 457
Period size: 133 Copynumber: 4.4 Consensus size: 132
78226008 CATCCTCAAT
* * ** * * * **
78226018 GAGAT-AAGATTAGTAGCGTCAATCTATTCCACTACAACTTCGGGGAGATAAGATTCACTATCTT
1 GAGATAAAGTTTA-TAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTAT-TT
* * * * ** *
78226082 TAATCTGCTCCACTGCAAATTTAGGGAAATAAGACTT-GTAACTTCAATCTGCTCCATTATAGCT
64 TAATCTGCTCCACTGCAACTTCAGGGAAATAAGA-TTAGTAACTTCAACCTGCTCCACTGCAACT
*
78226146 TTAGG
128 TCAGG
* * * *
78226151 GAGATAAAGTTTATAGCTTTAATCTGCTCTACTGCAATTTCAGAGAGATGAGATTTGCTATCTTT
1 GAGATAAAGTTTATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTAT-TTT
* * * *
78226216 AATCTGCTCCACTGCTACTTCAGGGAGATCAGATTCACTATGATAGCTTCAACCTG-TCCCACTG
65 AATCTGCTCCACTGCAACTTCAGGGAAATAAGA-T---TA-G-TAACTTCAACCTGCT-CCACTG
78226280 CAACTTCAGG
123 CAACTTCAGG
* * * ** * * * * * *
78226290 GAAATGAGACTTGCTATCTTCAATTTGCTCCACTGCAACTTCAGAGATATGAGACTTG-TGGTTT
1 GAGAT-AAAGTTTATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCT-ATTT
* * *
78226354 TAATCTGCTTCACTGTAACTTCA-GGAAGATAAGATTAGTGACTTCAACCTGCTCCACTGCAACT
64 TAATCTGCTCCACTGCAACTTCAGGGAA-ATAAGATTAGTAACTTCAACCTGCTCCACTGCAACT
* *
78226418 CCATG
128 TCAGG
* * * * * * * *
78226423 GAGATAAGGTTTATAGCTTTAACCTGCTCTACTGCAACTTCAAAGAGACAAGATTTACTATTTCC
1 GAGATAAAGTTTATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATTT-T
* * ** * **
78226488 AATTTGCTCCACTGCAACTTTAGGGAAATAAGATTAGTGGCTTTAATTTGCTCCACTGCAACTTC
65 AATCTGCTCCACTGCAACTTCAGGGAAATAAGATTAGTAACTTCAACCTGCTCCACTGCAACTTC
78226553 AGG
130 AGG
* * * * *
78226556 GAGAT-CAGATTTGTGGCTTCAATCTGCTCCACTGCAAATTCAGGGAGATAAGATTTGC
1 GAGATAAAG-TTTATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGC
78226614 CATAATGATC
Statistics
Matches: 358, Mismatches: 89, Indels: 32
0.75 0.19 0.07
Matches are distributed among these distances:
132 40 0.11
133 201 0.56
134 12 0.03
135 2 0.01
136 1 0.00
138 6 0.02
139 54 0.15
140 42 0.12
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (132 bp):
GAGATAAAGTTTATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATTTTA
ATCTGCTCCACTGCAACTTCAGGGAAATAAGATTAGTAACTTCAACCTGCTCCACTGCAACTTCA
GG
Found at i:78226611 original size:44 final size:44
Alignment explanation
Indices: 78225982--78226612 Score: 406
Period size: 44 Copynumber: 14.1 Consensus size: 44
78225972 GAGGTGTAGA
* * * * * * **
78225982 ATTTGTCGCTTCAATCTACTCTACTACATCCTCAATGAGATAAG
1 ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * ** * *
78226026 ATTAGTAGCGTCAATCTATTCCACTACAACTTCGGGGAGATAAG
1 ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
** * * * * *
78226070 ATTCACTATCTTTAATCTGCTCCACTGCAAATTTAGGGAAATAAG
1 ATT-TGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * ** * *
78226115 ACTTGTAACTTCAATCTGCTCCATTATAGCTTTAGGGAGATAA-
1 ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * *
78226158 AGTTTATAGCTTTAATCTGCTCTACTGCAATTTCAGAGAGATGAG
1 A-TTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * *
78226203 ATTTGCTATCTTTAATCTGCTCCACTGCTACTTCAGGGAGATCAG
1 ATTTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * *
78226248 ATTCACTATGATAGCTTCAACCTG-TCCCACTGCAACTTCAGGGAAATGAG
1 A-T---T-TG-TAGCTTCAATCTGCT-CCACTGCAACTTCAGGGAGATAAG
* * * * * *
78226298 ACTTGCTATCTTCAATTTGCTCCACTGCAACTTCAGAGATATGAG
1 ATTTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * * *
78226343 ACTTGTGGTTTTAATCTGCTTCACTGTAACTTCAGGAAGATAAG
1 ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * *
78226387 ATTAGT-GACTTCAACCTGCTCCACTGCAACTCCATGGAGATAAG
1 ATTTGTAG-CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * ** *
78226431 GTTTATAGCTTTAACCTGCTCTACTGCAACTTCAAAGAGACAAG
1 ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * *
78226475 ATTTACTA-TTTCCAATTTGCTCCACTGCAACTTTAGGGAAATAAG
1 ATTT-GTAGCTT-CAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * *
78226520 ATTAGTGGCTTTAATTTGCTCCACTGCAACTTCAGGGAGATCAG
1 ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* *
78226564 ATTTGTGGCTTCAATCTGCTCCACTGCAAATTCAGGGAGATAAG
1 ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
78226608 ATTTG
1 ATTTG
78226613 CCATAATGAT
Statistics
Matches: 450, Mismatches: 121, Indels: 32
0.75 0.20 0.05
Matches are distributed among these distances:
43 2 0.00
44 271 0.60
45 138 0.31
46 3 0.01
49 2 0.00
50 34 0.08
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
Found at i:78227541 original size:11 final size:11
Alignment explanation
Indices: 78227527--78227571 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
78227517 AGATAAATAT
78227527 TATTTTATTAA
1 TATTTTATTAA
*
78227538 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
78227551 TATTTTATTAT
1 TATTTTATTAA
78227562 TATTTTATTA
1 TATTTTATTA
78227572 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:78228137 original size:15 final size:15
Alignment explanation
Indices: 78228117--78228146 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
78228107 CAAATTATAG
78228117 GATGAATAAAATATT
1 GATGAATAAAATATT
78228132 GATGAATAAAATATT
1 GATGAATAAAATATT
78228147 AAATTAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33
Consensus pattern (15 bp):
GATGAATAAAATATT
Found at i:78229731 original size:46 final size:46
Alignment explanation
Indices: 78229418--78229721 Score: 430
Period size: 46 Copynumber: 6.6 Consensus size: 46
78229408 GTTTTCTGAA
** * *
78229418 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
** * *
78229464 ATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGAAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* *
78229510 ATGAAAAG-ATAAGACAATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* ** *
78229555 ATGAAAAGAATAAGACCATTATTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* *
78229601 ATGAAATGAATAAGACCATGGTTCAAAGATACCATGGCAATGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* *
78229647 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAATGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
*
78229693 ATGAAATGAACAAGACCATGGTTGAAAGA
1 ATGAAATGAATAAGACCATGGTTGAAAGA
78229722 CATTATGGCA
Statistics
Matches: 236, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 41 0.17
46 195 0.83
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
Found at i:78231030 original size:25 final size:25
Alignment explanation
Indices: 78231002--78231049 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
78230992 GACCTCAGCA
78231002 TGCTCTCTGATTACTAGCACATTAG
1 TGCTCTCTGATTACTAGCACATTAG
*
78231027 TGCTCTCTGATTATTAGCACATT
1 TGCTCTCTGATTACTAGCACATT
78231050 TAGCATATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (25 bp):
TGCTCTCTGATTACTAGCACATTAG
Found at i:78232659 original size:31 final size:30
Alignment explanation
Indices: 78232605--78232668 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
78232595 GATATTTTAA
*
78232605 ATTTTATAATTATTTAATTAGATAAATATT
1 ATTTTATAATTATTTAATAAGATAAATATT
**
78232635 ATTTTATTAA-TATTTTAATAAGATATTTATT
1 ATTTTA-TAATTA-TTTAATAAGATAAATATT
78232666 ATT
1 ATT
78232669 ATTTCATTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 8 0.28
31 21 0.72
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (30 bp):
ATTTTATAATTATTTAATAAGATAAATATT
Found at i:78234580 original size:34 final size:34
Alignment explanation
Indices: 78234537--78234605 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
78234527 GTGTAAGACC
* * *
78234537 ATGGTTGAAAGATACCATGGTAACATGATATGAA
1 ATGGTTGAAAAATACCATGGAAACATGACATGAA
*
78234571 ATGGTTGAAAAATACCATGGAAACGTGACATGAA
1 ATGGTTGAAAAATACCATGGAAACATGACATGAA
78234605 A
1 A
78234606 AGGATAAGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.43, C:0.10, G:0.23, T:0.23
Consensus pattern (34 bp):
ATGGTTGAAAAATACCATGGAAACATGACATGAA
Found at i:78234622 original size:46 final size:46
Alignment explanation
Indices: 78234571--78234856 Score: 351
Period size: 46 Copynumber: 6.2 Consensus size: 46
78234561 ATGATATGAA
* * *
78234571 ATGGTTGAAAAATACCATGGAAACGTGACATGAAAAGGATAAGACA
1 ATGGTTGAAAGATACCATGGAAACGTGACATGAAAAGAATAAGACC
78234617 ATGGTTGAAAGATACCATGGAAACGTGACATGAAAAGAATAAGACC
1 ATGGTTGAAAGATACCATGGAAACGTGACATGAAAAGAATAAGACC
* * * *** *
78234663 ATGGTTGAAAGATACCATAGCAACATGATGGGAAATGAATAAGACC
1 ATGGTTGAAAGATACCATGGAAACGTGACATGAAAAGAATAAGACC
* * * *
78234709 ATAGTTGAAAGATACCATGGAAGC-TGACATGAAATGAATAGGACC
1 ATGGTTGAAAGATACCATGGAAACGTGACATGAAAAGAATAAGACC
* * *
78234754 ATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAACAAGACC
1 ATGGTTGAAAGATACCATGGAAACGTGACATGAAAAGAATAAGACC
* * * *
78234800 ATGGTTGAAAGATACCATGGCAACATGACA-AAAAATGAGTAAGACC
1 ATGGTTGAAAGATACCATGGAAACGTGACATGAAAA-GAATAAGACC
*
78234846 ATAGTTGAAAG
1 ATGGTTGAAAG
78234857 GCACTATGGC
Statistics
Matches: 209, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
45 41 0.20
46 168 0.80
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.19
Consensus pattern (46 bp):
ATGGTTGAAAGATACCATGGAAACGTGACATGAAAAGAATAAGACC
Found at i:78234772 original size:137 final size:138
Alignment explanation
Indices: 78234574--78234856 Score: 424
Period size: 137 Copynumber: 2.1 Consensus size: 138
78234564 ATATGAAATG
* *
78234574 GTTGAAAAATACCATGGAAACGTGACATGAAAAGGATAAGACAATGGTTGAAAGATACCATGGAA
1 GTTGAAAGATACCATGGAAACGTGACATGAAAAGAATAAGACAATGGTTGAAAGATACCATGGAA
* ****
78234639 ACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATAGCAACATGATGGGAAATGAATA
66 ACGTGACATGAAAAGAACAAGACCATGGTTGAAAGATACCATAGCAACATGACAAAAAATGAATA
78234704 AGACCATA
131 AGACCATA
* * * * *
78234712 GTTGAAAGATACCATGGAAGC-TGACATGAAATGAATAGGACCATGGTTGAAAGATACCATGGCA
1 GTTGAAAGATACCATGGAAACGTGACATGAAAAGAATAAGACAATGGTTGAAAGATACCATGGAA
* * *
78234776 ACGTGACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAAAATGAGTA
66 ACGTGACATGAAAAGAACAAGACCATGGTTGAAAGATACCATAGCAACATGACAAAAAATGAATA
78234841 AGACCATA
131 AGACCATA
78234849 GTTGAAAG
1 GTTGAAAG
78234857 GCACTATGGC
Statistics
Matches: 130, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
137 111 0.85
138 19 0.15
ACGTcount: A:0.45, C:0.13, G:0.24, T:0.18
Consensus pattern (138 bp):
GTTGAAAGATACCATGGAAACGTGACATGAAAAGAATAAGACAATGGTTGAAAGATACCATGGAA
ACGTGACATGAAAAGAACAAGACCATGGTTGAAAGATACCATAGCAACATGACAAAAAATGAATA
AGACCATA
Found at i:78237351 original size:22 final size:22
Alignment explanation
Indices: 78237323--78237366 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
78237313 TCTCAAAAAT
78237323 ACTCATCTAAATAGGTTTTACA
1 ACTCATCTAAATAGGTTTTACA
*
78237345 ACTCATCTAGATAGGTTTTACA
1 ACTCATCTAAATAGGTTTTACA
78237367 TTCTCTTGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (22 bp):
ACTCATCTAAATAGGTTTTACA
Found at i:78246924 original size:13 final size:13
Alignment explanation
Indices: 78246906--78246930 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78246896 ATAAAGTGAT
78246906 AAAAATAAAAATA
1 AAAAATAAAAATA
78246919 AAAAATAAAAAT
1 AAAAATAAAAAT
78246931 GCTAGATGCC
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:78247029 original size:12 final size:12
Alignment explanation
Indices: 78247014--78247039 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
78247004 AAGATAAAAA
78247014 AATAATGATAAT
1 AATAATGATAAT
78247026 AATAATGATAAT
1 AATAATGATAAT
78247038 AA
1 AA
78247040 ATGAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
AATAATGATAAT
Found at i:78247073 original size:15 final size:16
Alignment explanation
Indices: 78247021--78247076 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 16
78247011 AAAAATAATG
78247021 ATAATAATAATGATAATAA
1 ATAATAA-AATG-T-ATAA
*
78247040 ATGAATAAAATGTACAA
1 AT-AATAAAATGTATAA
*
78247057 ATAA-AAAATTTATAA
1 ATAATAAAATGTATAA
78247072 ATAAT
1 ATAAT
78247077 GTAATTTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 13 0.41
16 2 0.06
17 5 0.16
18 1 0.03
19 6 0.19
20 5 0.16
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.30
Consensus pattern (16 bp):
ATAATAAAATGTATAA
Found at i:78247253 original size:4 final size:4
Alignment explanation
Indices: 78247244--78247355 Score: 84
Period size: 4 Copynumber: 28.0 Consensus size: 4
78247234 GGATTGAAAC
* * * *
78247244 ATAA ATAA ATAA ATAA ATGA AT-A ATAT ATAA ATAA ATGA GTAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
* * ** * * *
78247291 ACAA ATAA ATGA ATGAA ATAA ATGAA AT-A AGGA ATAA ATAA ACAA GTAG
1 ATAA ATAA ATAA AT-AA ATAA AT-AA ATAA ATAA ATAA ATAA ATAA ATAA
*
78247340 ATGA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA
78247356 CAGAATTAAA
Statistics
Matches: 82, Mismatches: 22, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
3 5 0.06
4 70 0.85
5 7 0.09
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:78247267 original size:20 final size:20
Alignment explanation
Indices: 78247244--78247355 Score: 129
Period size: 20 Copynumber: 5.6 Consensus size: 20
78247234 GGATTGAAAC
78247244 ATAAATAAATAAATAAATGA
1 ATAAATAAATAAATAAATGA
*
78247264 AT-AATATATAAATAAATGA
1 ATAAATAAATAAATAAATGA
* *
78247283 GTAAATAAACAAATAAATGA
1 ATAAATAAATAAATAAATGA
*
78247303 ATGAAATAAATGAAAT-AAGGA
1 AT-AAATAAAT-AAATAAATGA
* * *
78247324 ATAAATAAACAAGTAGATGA
1 ATAAATAAATAAATAAATGA
78247344 ATAAATAAATAA
1 ATAAATAAATAA
78247356 CAGAATTAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
19 20 0.26
20 39 0.51
21 13 0.17
22 4 0.05
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (20 bp):
ATAAATAAATAAATAAATGA
Found at i:78250290 original size:7 final size:7
Alignment explanation
Indices: 78250278--78250306 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
78250268 ATGCTACAAT
78250278 TTTTATA
1 TTTTATA
78250285 TTTTATA
1 TTTTATA
78250292 TTTTATA
1 TTTTATA
78250299 TTTT-TA
1 TTTTATA
78250305 TT
1 TT
78250307 AAAATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTATA
Found at i:78252414 original size:17 final size:17
Alignment explanation
Indices: 78252392--78252440 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
78252382 TATCATCTTT
78252392 ATTAAAAAAATTAATTA
1 ATTAAAAAAATTAATTA
*
78252409 ATTAAAAACTATT-ATTA
1 ATTAAAAA-AATTAATTA
*
78252426 ATAAAAAAAATTAAT
1 ATTAAAAAAATTAAT
78252441 ATTTAAACGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 3 0.11
17 21 0.78
18 3 0.11
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTAAAAAAATTAATTA
Found at i:78253360 original size:43 final size:43
Alignment explanation
Indices: 78253299--78253386 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
78253289 TCCCAGACAA
78253299 GTACGTGTTCAGGAGGTTAATCACGGACACCCAAAGTGACTCG
1 GTACGTGTTCAGGAGGTTAATCACGGACACCCAAAGTGACTCG
*
78253342 GTACGTGTTCAGTAGGTTAATCACGGACACCCAAAGTGACTCG
1 GTACGTGTTCAGGAGGTTAATCACGGACACCCAAAGTGACTCG
78253385 GT
1 GT
78253387 CTTAAGGTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (43 bp):
GTACGTGTTCAGGAGGTTAATCACGGACACCCAAAGTGACTCG
Found at i:78255298 original size:19 final size:18
Alignment explanation
Indices: 78255269--78255318 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
78255259 ACATAAATAG
78255269 GAAAGGGTTTACAAGAAGAT
1 GAAA-GGTTTA-AAGAAGAT
* *
78255289 GAACGGTTTAAGGAAGAT
1 GAAAGGTTTAAAGAAGAT
78255307 GAAAGG-TTAAAG
1 GAAAGGTTTAAAG
78255319 GTTAAAGAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 5 0.19
18 12 0.46
19 6 0.23
20 3 0.12
ACGTcount: A:0.44, C:0.04, G:0.32, T:0.20
Consensus pattern (18 bp):
GAAAGGTTTAAAGAAGAT
Found at i:78274885 original size:25 final size:25
Alignment explanation
Indices: 78274848--78274895 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
78274838 ACCGGGTATT
* *
78274848 TATAATATATATTTTTATATAAATA
1 TATAATATATATTTGTAAATAAATA
* *
78274873 TATAATTTTTATTTGTAAATAAA
1 TATAATATATATTTGTAAATAAA
78274896 ATTTAAGAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TATAATATATATTTGTAAATAAATA
Found at i:78280389 original size:23 final size:23
Alignment explanation
Indices: 78280363--78280407 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
78280353 TTATTAATAT
78280363 ATTTGAGTCAATTTT-ATTTTTAA
1 ATTTG-GTCAATTTTAATTTTTAA
*
78280386 ATTTGGTTAATTTTAATTTTTA
1 ATTTGGTCAATTTTAATTTTTA
78280408 TGTTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.29, C:0.02, G:0.09, T:0.60
Consensus pattern (23 bp):
ATTTGGTCAATTTTAATTTTTAA
Found at i:78281251 original size:5 final size:5
Alignment explanation
Indices: 78281241--78281272 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
78281231 TTGTGTGTTC
78281241 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
78281273 TCACAGTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:78281255 original size:9 final size:9
Alignment explanation
Indices: 78281241--78281271 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
78281231 TTGTGTGTTC
78281241 TTTATTTTA
1 TTTATTTTA
78281250 TTTATTTTA
1 TTTATTTTA
78281259 TTTTATTTTA
1 -TTTATTTTA
78281269 TTT
1 TTT
78281272 TTCACAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:78281815 original size:13 final size:12
Alignment explanation
Indices: 78281793--78281824 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
78281783 TCATGGTCTC
78281793 TTTTTTTTTCTT
1 TTTTTTTTTCTT
78281805 TTTTCTTTTTCTT
1 TTTT-TTTTTCTT
78281818 TTTTTTT
1 TTTTTTT
78281825 GTTTTTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (12 bp):
TTTTTTTTTCTT
Found at i:78281822 original size:22 final size:22
Alignment explanation
Indices: 78281791--78281836 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
78281781 ATTCATGGTC
*
78281791 TCTTTTTTTTTCTTTTTTCTTTT
1 TCTTTTTTTTT-GTTTTTCTTTT
*
78281814 TCTTTTTTTTTGTTTTTGTTTT
1 TCTTTTTTTTTGTTTTTCTTTT
78281836 T
1 T
78281837 GTTAAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.00, C:0.09, G:0.04, T:0.87
Consensus pattern (22 bp):
TCTTTTTTTTTGTTTTTCTTTT
Found at i:78281835 original size:12 final size:11
Alignment explanation
Indices: 78281793--78281839 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
78281783 TCATGGTCTC
*
78281793 TTTTTTTTTCT
1 TTTTTTTTTGT
78281804 TTTTTCTTTT-T
1 TTTTT-TTTTGT
78281815 CTTTTTTTTTGT
1 -TTTTTTTTTGT
78281827 TTTTGTTTTTGT
1 TTTT-TTTTTGT
78281839 T
1 T
78281840 AAAACATTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
11 14 0.44
12 18 0.56
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.87
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:78282829 original size:30 final size:30
Alignment explanation
Indices: 78282795--78282856 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
78282785 ACTTACTTTA
*
78282795 TTGTTAATTTTGTTTTTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
78282825 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
78282855 TT
1 TT
78282857 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:78283265 original size:19 final size:19
Alignment explanation
Indices: 78283243--78283281 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
78283233 TTATAATATT
*
78283243 TAATCTTTCAAAAGAATTA
1 TAATATTTCAAAAGAATTA
* *
78283262 TAATATTTTAAAATAATTA
1 TAATATTTCAAAAGAATTA
78283281 T
1 T
78283282 GACAAATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (19 bp):
TAATATTTCAAAAGAATTA
Found at i:78295368 original size:22 final size:23
Alignment explanation
Indices: 78295343--78295388 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
78295333 CAACCAAATC
78295343 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
78295365 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
78295388 A
1 A
78295389 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:78295394 original size:23 final size:23
Alignment explanation
Indices: 78295350--78295394 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
78295340 ATCAATTCAA
*
78295350 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
78295373 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
78295395 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:78302100 original size:22 final size:23
Alignment explanation
Indices: 78302075--78302120 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
78302065 CAACCAAATC
78302075 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
78302097 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
78302120 A
1 A
78302121 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:78302126 original size:23 final size:23
Alignment explanation
Indices: 78302082--78302126 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
78302072 ATCAATTCAA
*
78302082 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
78302105 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
78302127 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:78305243 original size:36 final size:35
Alignment explanation
Indices: 78305153--78305303 Score: 169
Period size: 36 Copynumber: 4.2 Consensus size: 35
78305143 CTCTGTTTTG
* *
78305153 GTGTGTTTC-GATTGGACTAGCTCTTATGAACATTA
1 GTGTGTTTCGGA-TGGATTAGCTCTTATGAGCATTA
* *
78305188 GTGTGTTTCGAATGGATTAGCTCTTATGAGCATTG
1 GTGTGTTTCGGATGGATTAGCTCTTATGAGCATTA
* * *
78305223 GTGTATTTTCGGATGAATTAGCTCTTATAAGCATCTA
1 GTGT-GTTTCGGATGGATTAGCTCTTATGAGCAT-TA
* * *
78305260 GTGTGTTTCAGATGGACTAGCTCTTATGAGCATCTT
1 GTGTGTTTCGGATGGATTAGCTCTTATGAGCAT-TA
78305296 GTGTGTTT
1 GTGTGTTT
78305304 GATAGGATTG
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
35 33 0.34
36 60 0.61
37 5 0.05
ACGTcount: A:0.21, C:0.13, G:0.25, T:0.41
Consensus pattern (35 bp):
GTGTGTTTCGGATGGATTAGCTCTTATGAGCATTA
Found at i:78306285 original size:42 final size:42
Alignment explanation
Indices: 78306185--78306264 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
78306175 CATGTGATTG
**
78306185 TACTTAGAGAGTTACACGGGTGAGGACACGACCGTGTGATCA
1 TACTTAGAGAGTTACACAAGTGAGGACACGACCGTGTGATCA
78306227 TACTTAGAGAGTTACACAAGTGAGGACACGACCGTGTG
1 TACTTAGAGAGTTACACAAGTGAGGACACGACCGTGTG
78306265 TCCATAGTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.21
Consensus pattern (42 bp):
TACTTAGAGAGTTACACAAGTGAGGACACGACCGTGTGATCA
Found at i:78307087 original size:28 final size:28
Alignment explanation
Indices: 78307055--78307115 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
78307045 ACTATAATAC
78307055 TCAGGTGGCAG-GACC-AACCATATATCAT
1 TCAGGTGGCAGAG-CCGAA-CATATATCAT
*
78307083 TCAGGTGGTAGAGCCGAACATATATCAT
1 TCAGGTGGCAGAGCCGAACATATATCAT
78307111 TCAGG
1 TCAGG
78307116 CTGTACAGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 27 0.90
29 3 0.10
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (28 bp):
TCAGGTGGCAGAGCCGAACATATATCAT
Found at i:78307132 original size:28 final size:28
Alignment explanation
Indices: 78307071--78307135 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
78307061 GGCAGGACCA
* *
78307071 ACCATATATCATTCAGGTGGTAGAGCCG
1 ACCATATATCATTCAGGTGGTACAGACG
*
78307099 AACATATATCATTCAGGCT-GTACAGACG
1 ACCATATATCATTCAGG-TGGTACAGACG
78307127 ACCATATAT
1 ACCATATAT
78307136 AAAAGCTAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 31 0.97
29 1 0.03
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (28 bp):
ACCATATATCATTCAGGTGGTACAGACG
Found at i:78307551 original size:24 final size:24
Alignment explanation
Indices: 78307517--78307568 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
78307507 CAATATATTA
* *
78307517 TAATTGGCTTGATGGATTGGAGCT
1 TAATTGACTTGATAGATTGGAGCT
78307541 TAATTGACTTGATAGATTGGAGCT
1 TAATTGACTTGATAGATTGGAGCT
78307565 TAAT
1 TAAT
78307569 GATATTCCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.38
Consensus pattern (24 bp):
TAATTGACTTGATAGATTGGAGCT
Found at i:78309113 original size:17 final size:17
Alignment explanation
Indices: 78309091--78309129 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
78309081 CCTAAAGGTG
*
78309091 ATTTTA-TCTTCTTTATT
1 ATTTTACTCTTATTT-TT
78309108 ATTTTACTCTTATTTTT
1 ATTTTACTCTTATTTTT
78309125 ATTTT
1 ATTTT
78309130 TATTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTACTCTTATTTTT
Found at i:78309199 original size:13 final size:13
Alignment explanation
Indices: 78309181--78309231 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
78309171 TATATACATC
78309181 ATAATAAAAAAAT
1 ATAATAAAAAAAT
*
78309194 ATAATAAAAATAT
1 ATAATAAAAAAAT
*
78309207 ATATACAAAACAAAT
1 ATA-ATAAAA-AAAT
78309222 ATAA-AAAAAA
1 ATAATAAAAAA
78309232 TTTACCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
12 2 0.06
13 19 0.58
14 6 0.18
15 6 0.18
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (13 bp):
ATAATAAAAAAAT
Found at i:78309358 original size:22 final size:24
Alignment explanation
Indices: 78309332--78309377 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
78309322 CCCTTTCCCC
*
78309332 CTCCCTTTTCTC-TCCCT-TCTTT
1 CTCCCTTCTCTCTTCCCTCTCTTT
78309354 CTCCCTTCTCTCTTCCCTCTCTTT
1 CTCCCTTCTCTCTTCCCTCTCTTT
78309378 TCTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.52
23 5 0.24
24 5 0.24
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (24 bp):
CTCCCTTCTCTCTTCCCTCTCTTT
Found at i:78314303 original size:3 final size:3
Alignment explanation
Indices: 78314295--78314320 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
78314285 TGGATGTTGA
78314295 TGC TGC TGC TGC TGC TGC TGC TGC TG
1 TGC TGC TGC TGC TGC TGC TGC TGC TG
78314321 GTAGTAGTAG
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:0.31, G:0.35, T:0.35
Consensus pattern (3 bp):
TGC
Found at i:78319271 original size:33 final size:33
Alignment explanation
Indices: 78319234--78319302 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
78319224 CTAAGTGGAC
78319234 CACTTAGGCAAATCAACATCTCTCTATACAACA
1 CACTTAGGCAAATCAACATCTCTCTATACAACA
78319267 CACTTAGGCAAATCAACATCTCTCTATACAACA
1 CACTTAGGCAAATCAACATCTCTCTATACAACA
78319300 CAC
1 CAC
78319303 ATCGTATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.39, C:0.32, G:0.06, T:0.23
Consensus pattern (33 bp):
CACTTAGGCAAATCAACATCTCTCTATACAACA
Found at i:78319330 original size:55 final size:55
Alignment explanation
Indices: 78319262--78319373 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
78319252 TCTCTCTATA
78319262 CAACACACTTAGGCAAATCAACATCTCTCTATACAACACACATCGTATTAAGAAG
1 CAACACACTTAGGCAAATCAACATCTCTCTATACAACACACATCGTATTAAGAAG
*
78319317 CAACACACTTAGGCAAATCAACATCTCTCTATACAACACACATCGTATTAATAAG
1 CAACACACTTAGGCAAATCAACATCTCTCTATACAACACACATCGTATTAAGAAG
78319372 CA
1 CA
78319374 TAATTAGATT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.42, C:0.28, G:0.08, T:0.22
Consensus pattern (55 bp):
CAACACACTTAGGCAAATCAACATCTCTCTATACAACACACATCGTATTAAGAAG
Found at i:78319668 original size:10 final size:10
Alignment explanation
Indices: 78319655--78319680 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
78319645 TATAATTTTT
78319655 AAAAATTATA
1 AAAAATTATA
78319665 AAAAATTATA
1 AAAAATTATA
78319675 AAAAAT
1 AAAAAT
78319681 CTAACATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATTATA
Found at i:78319677 original size:8 final size:9
Alignment explanation
Indices: 78319612--78319678 Score: 50
Period size: 9 Copynumber: 7.6 Consensus size: 9
78319602 CTCTCTCAAC
78319612 AAAAATT-T
1 AAAAATTAT
78319620 AAAAAATTAT
1 -AAAAATTAT
*
78319630 AAAAATT-C
1 AAAAATTAT
*
78319638 CAAAATT-T
1 AAAAATTAT
* * *
78319646 ATAATTTTT
1 AAAAATTAT
78319655 AAAAATTAT
1 AAAAATTAT
78319664 AAAAAATTAT
1 -AAAAATTAT
78319674 AAAAA
1 AAAAA
78319679 ATCTAACATT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
8 10 0.22
9 26 0.57
10 10 0.22
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:78327071 original size:20 final size:21
Alignment explanation
Indices: 78327046--78327103 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
78327036 GAAAGGCACA
78327046 TAAAATTATTAAAAATA-TTT
1 TAAAATTATTAAAAATATTTT
*
78327066 TAAAATTATCAAGAAAATATTTT
1 TAAAATTAT-TA-AAAATATTTT
* *
78327089 TTAAATTTTTAAAAA
1 TAAAATTATTAAAAA
78327104 ATTAATTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
20 9 0.29
21 5 0.16
22 7 0.23
23 10 0.32
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAAATTATTAAAAATATTTT
Found at i:78335630 original size:22 final size:25
Alignment explanation
Indices: 78335604--78335660 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 25
78335594 TTCTATTAGA
78335604 ATTAATTAAATT-ATTT-TTTAT-T
1 ATTAATTAAATTAATTTATTTATAT
*
78335626 ATTAAATAAATTAATTTAGTTTATAT
1 ATTAATTAAATTAATTTA-TTTATAT
78335652 ATT-ATTAAA
1 ATTAATTAAA
78335661 AAAATTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 11 0.38
23 4 0.14
25 10 0.34
26 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
ATTAATTAAATTAATTTATTTATAT
Found at i:78335659 original size:29 final size:27
Alignment explanation
Indices: 78335597--78335670 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 27
78335587 TGTGTCATTC
* *
78335597 TATTAGAATTAATTAAATTATTTTTTAT
1 TATTA-AATAAATTAAATTATTTTATAT
*
78335625 TATTAAATAAATTAATTTAGTTTATATAT
1 TATTAAATAAATTAAATTA-TTT-TATAT
*
78335654 TATTAAAAAAATTAAAT
1 TATTAAATAAATTAAAT
78335671 AAGATTAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 12 0.31
28 8 0.21
29 19 0.49
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (27 bp):
TATTAAATAAATTAAATTATTTTATAT
Found at i:78335738 original size:16 final size:16
Alignment explanation
Indices: 78335717--78335749 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
78335707 AAAATATTAT
*
78335717 TTATTATTTAATAAAA
1 TTATTATTTAAAAAAA
78335733 TTATTATTTAAAAAAA
1 TTATTATTTAAAAAAA
78335749 T
1 T
78335750 GGTTCTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTATTATTTAAAAAAA
Found at i:78343255 original size:21 final size:20
Alignment explanation
Indices: 78343218--78343257 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
78343208 GTTATCTTCA
*
78343218 TTATTTTGAATATAAATTAC
1 TTATTTTGAATAAAAATTAC
*
78343238 TTATTTTTACATAAAAATTA
1 TTATTTTGA-ATAAAAATTA
78343258 AAATAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (20 bp):
TTATTTTGAATAAAAATTAC
Found at i:78344077 original size:41 final size:41
Alignment explanation
Indices: 78344032--78344114 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
78344022 AAGACCTAAG
*
78344032 TGTGAACCTGCTTAGTTCACCTATCATTCTTTTCTCTCTTT
1 TGTGAACCCGCTTAGTTCACCTATCATTCTTTTCTCTCTTT
78344073 TGTGAACCCGCTTAGTTCACCTATCATTCTTTTCTCTCTTT
1 TGTGAACCCGCTTAGTTCACCTATCATTCTTTTCTCTCTTT
78344114 T
1 T
78344115 CTTTTTTTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.14, C:0.28, G:0.10, T:0.48
Consensus pattern (41 bp):
TGTGAACCCGCTTAGTTCACCTATCATTCTTTTCTCTCTTT
Found at i:78344727 original size:21 final size:20
Alignment explanation
Indices: 78344681--78344719 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
78344671 AATTGTGACT
78344681 TGAATTAATTTTTAATTAGG
1 TGAATTAATTTTTAATTAGG
*
78344701 TGAATTTATTTTTAATTAG
1 TGAATTAATTTTTAATTAG
78344720 AAGTAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (20 bp):
TGAATTAATTTTTAATTAGG
Found at i:78344910 original size:26 final size:26
Alignment explanation
Indices: 78344881--78344940 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
78344871 ATATATAAAT
78344881 TTACTTATAAATTAAGTAAAAGATAC
1 TTACTTATAAATTAAGTAAAAGATAC
*
78344907 TTACTTATAAATTAAGTAAAAGATAT
1 TTACTTATAAATTAAGTAAAAGATAC
78344933 TTACTTAT
1 TTACTTAT
78344941 TATTATTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (26 bp):
TTACTTATAAATTAAGTAAAAGATAC
Found at i:78344945 original size:3 final size:3
Alignment explanation
Indices: 78344937--78344976 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
78344927 AGATATTTAC
78344937 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
78344977 CAATTAATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:78345180 original size:16 final size:14
Alignment explanation
Indices: 78345152--78345191 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
78345142 AAAGAAAAAC
*
78345152 AAGAAAAAAATAGA
1 AAGAAAGAAATAGA
78345166 GAAGAAACGAAATAGA
1 -AAGAAA-GAAATAGA
78345182 AAGAAAGAAA
1 AAGAAAGAAA
78345192 GAATAAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 12 0.52
16 7 0.30
ACGTcount: A:0.72, C:0.03, G:0.20, T:0.05
Consensus pattern (14 bp):
AAGAAAGAAATAGA
Found at i:78346162 original size:37 final size:37
Alignment explanation
Indices: 78346120--78346217 Score: 101
Period size: 40 Copynumber: 2.6 Consensus size: 37
78346110 GGATAGATTT
*
78346120 GATGAGGCGTTGGTCGCCACTTTGCTTCG-GCTTAGCC
1 GATGAGGCGTTGGTCGCCACTTTGCTTCGAAC-TAGCC
* * *
78346157 GATGAGACGTTGGTCGTCACTTGTTTGCTTCGAACTATCC
1 GATGAGGCGTTGGTCGCCAC---TTTGCTTCGAACTAGCC
78346197 GATGAGGCGTTGG-CTGCCACT
1 GATGAGGCGTTGGTC-GCCACT
78346218 CTGGTGTGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
37 19 0.38
39 1 0.02
40 29 0.58
41 1 0.02
ACGTcount: A:0.14, C:0.24, G:0.31, T:0.31
Consensus pattern (37 bp):
GATGAGGCGTTGGTCGCCACTTTGCTTCGAACTAGCC
Found at i:78348375 original size:12 final size:12
Alignment explanation
Indices: 78348359--78348388 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
78348349 TTTTATTAGA
78348359 ATTAAAATTATT
1 ATTAAAATTATT
*
78348371 TTTAAAATTATT
1 ATTAAAATTATT
78348383 ATTAAA
1 ATTAAA
78348389 TAACTAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTAAAATTATT
Found at i:78349102 original size:33 final size:33
Alignment explanation
Indices: 78349059--78349166 Score: 104
Period size: 33 Copynumber: 3.4 Consensus size: 33
78349049 TTTTTTTATA
*
78349059 ATTATTTTAAAATTAATTTGTTAGTAATTTAGG
1 ATTATGTTAAAATTAATTTGTTAGTAATTTAGG
*
78349092 ATTATGTTAAAATT-TTTTG-T-GT--TTGTA--
1 ATTATGTTAAAATTAATTTGTTAGTAATT-TAGG
* *
78349119 ATTATTTTAAAATTAATTTATTAGTAATTTAGG
1 ATTATGTTAAAATTAATTTGTTAGTAATTTAGG
*
78349152 ATTAAGTTATAAATT
1 ATTATGTTA-AAATT
78349167 GTTGTGTTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
27 13 0.22
28 5 0.08
29 3 0.05
30 4 0.07
31 3 0.05
32 6 0.10
33 20 0.34
34 5 0.08
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (33 bp):
ATTATGTTAAAATTAATTTGTTAGTAATTTAGG
Found at i:78349121 original size:60 final size:60
Alignment explanation
Indices: 78349057--78349175 Score: 195
Period size: 60 Copynumber: 2.0 Consensus size: 60
78349047 TTTTTTTTTA
* * *
78349057 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTA-AAATTTTTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA-TTGTTGTGTTTG
78349117 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTT
78349176 AGTTTAGTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
60 52 0.95
61 3 0.05
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.54
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTTG
Found at i:78349508 original size:27 final size:27
Alignment explanation
Indices: 78349456--78349521 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
78349446 TCCACCATTT
* * *
78349456 GCGCCTCTGAGATAGGCATGATTAGTC
1 GCGCCTCTGAGAAAGGCATAACTAGTC
*
78349483 GCGCCTCTGAGAAAGGC-TCAACTAGTT
1 GCGCCTCTGAGAAAGGCAT-AACTAGTC
*
78349510 GCGCCTCAGAGA
1 GCGCCTCTGAGA
78349522 TAGACGCAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 1 0.03
27 32 0.97
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.21
Consensus pattern (27 bp):
GCGCCTCTGAGAAAGGCATAACTAGTC
Found at i:78349596 original size:19 final size:20
Alignment explanation
Indices: 78349571--78349619 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
78349561 TGATCCGAAA
*
78349571 ATAAAAAATAATATCTT-AT
1 ATAAAAAAAAATATCTTAAT
* *
78349590 TTAAAAAAAAATATTTTAAT
1 ATAAAAAAAAATATCTTAAT
78349610 ATAAAAAAAA
1 ATAAAAAAAA
78349620 GAGTCGCGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAAAAAAAATATCTTAAT
Found at i:78353659 original size:20 final size:19
Alignment explanation
Indices: 78353617--78353659 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
78353607 TGTTTTGTTG
*
78353617 TGGG-CCAACTGTATTGAA
1 TGGGCCCAACTGTATTAAA
*
78353635 TGGGCCCAACTGTGTTAATA
1 TGGGCCCAACTGTATTAA-A
78353655 TGGGC
1 TGGGC
78353660 AAGGCCCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 11 0.52
20 6 0.29
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (19 bp):
TGGGCCCAACTGTATTAAA
Found at i:78353752 original size:60 final size:60
Alignment explanation
Indices: 78353652--78353788 Score: 172
Period size: 60 Copynumber: 2.3 Consensus size: 60
78353642 AACTGTGTTA
*
78353652 ATATGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCTACGACCCAGATTAATACTG
1 ATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGACCCAGATTAATACTG
* * * *
78353712 ATATGGGCTAGGCCCAATATA-CTCTGA-TACTGTAA-GGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATATCTC-GACT--TGTAATAGGGCTACGACCCAGATTAATACTG
78353772 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
78353789 GTTAACACTG
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
59 4 0.06
60 52 0.76
61 12 0.18
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGACCCAGATTAATACTG
Found at i:78354929 original size:33 final size:36
Alignment explanation
Indices: 78354882--78354953 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 36
78354872 ATTCTGTAGT
* *
78354882 TAGGGTAATACTG-AAACTGTAGAA-ACTGAGACAG
1 TAGGGTAAAACTGAAAACTGTAGAAGACAGAGACAG
* *
78354916 TAGGG-AAAACTGAAAACTTTAGAAGACAGAGACTG
1 TAGGGTAAAACTGAAAACTGTAGAAGACAGAGACAG
78354951 TAG
1 TAG
78354954 CTAGGATACG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 6 0.19
34 15 0.47
35 11 0.34
ACGTcount: A:0.43, C:0.11, G:0.26, T:0.19
Consensus pattern (36 bp):
TAGGGTAAAACTGAAAACTGTAGAAGACAGAGACAG
Found at i:78358327 original size:60 final size:60
Alignment explanation
Indices: 78358251--78358387 Score: 179
Period size: 60 Copynumber: 2.3 Consensus size: 60
78358241 AACAGTGTTA
* * *
78358251 ATATGGGCAAGGCCCAATATA-TCT-CTACTTATAATAGGGCTGCGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATAC-TATAA-AGGGCTACGGCCCAGATTAATATTG
* * *
78358311 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATACTATAAAGGGCTACGGCCCAGATTAATATTG
78358371 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
78358388 GTTAACACTG
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
60 51 0.75
61 14 0.21
62 3 0.04
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAATATACTCTGATACTATAAAGGGCTACGGCCCAGATTAATATTG
Found at i:78358387 original size:28 final size:28
Alignment explanation
Indices: 78358294--78358392 Score: 82
Period size: 28 Copynumber: 3.4 Consensus size: 28
78358284 ATAGGGCTGC
78358294 GGCCCAGATTAATATTGATATGGGCT-A
1 GGCCCAGATTAATATTGATATGGGCTAA
*
78358321 GGCCCA-A-T-ATACTCTGATACTGTAAGGGGCTAT
1 GGCCCAGATTAATA-T-TGATA---T---GGGCTAA
78358354 GGCCCAGATTAATATTGATATGGGCTAA
1 GGCCCAGATTAATATTGATATGGGCTAA
78358382 GGCCCAG-TTAA
1 GGCCCAGATTAA
78358393 CACTGATTTC
Statistics
Matches: 58, Mismatches: 2, Indels: 24
0.69 0.02 0.29
Matches are distributed among these distances:
24 3 0.05
25 2 0.03
26 6 0.10
27 10 0.17
28 13 0.22
29 1 0.02
31 1 0.02
32 5 0.09
33 6 0.10
34 6 0.10
35 2 0.03
36 3 0.05
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (28 bp):
GGCCCAGATTAATATTGATATGGGCTAA
Found at i:78360361 original size:14 final size:15
Alignment explanation
Indices: 78360342--78360371 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
78360332 ATTTATTATA
78360342 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
78360356 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
78360371 T
1 T
78360372 CTTAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:78362325 original size:43 final size:43
Alignment explanation
Indices: 78362278--78362477 Score: 150
Period size: 42 Copynumber: 4.7 Consensus size: 43
78362268 GCGTAATGCC
* *
78362278 GGTGAAATGATATCAGACTTAAAGGTCTAGCAAGCTTTAAGCT
1 GGTGAAATGATATCGGGCTTAAAGGTCTAGCAAGCTTTAAGCT
** * * *
78362321 GGTG-AAT-ATTATCGGGCTTCGA-GCCTAGC-AGAC-GTAATGCC
1 GGTGAAATGA-TATCGGGCTTAAAGGTCTAGCAAG-CTTTAA-GCT
78362362 GGTGAAATGATATCGGGCTTAAAGGTCTAGCAAGCTTTAAGCT
1 GGTGAAATGATATCGGGCTTAAAGGTCTAGCAAGCTTTAAGCT
** * * * *
78362405 GGTG-AAT-ATTATCGGGCTCCGAA--CCTAGCAGGC-GTAATGCC
1 GGTGAAATGA-TATCGGGCT-TAAAGGTCTAGCAAGCTTTAA-GCT
*
78362446 GGTGAAATGATATCGGACTTAAAGGTCTAGCA
1 GGTGAAATGATATCGGGCTTAAAGGTCTAGCA
78362478 GGCTGATTGC
Statistics
Matches: 120, Mismatches: 22, Indels: 30
0.70 0.13 0.17
Matches are distributed among these distances:
40 8 0.07
41 31 0.26
42 49 0.41
43 27 0.22
44 5 0.04
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (43 bp):
GGTGAAATGATATCGGGCTTAAAGGTCTAGCAAGCTTTAAGCT
Found at i:78362361 original size:84 final size:84
Alignment explanation
Indices: 78362250--78362477 Score: 402
Period size: 84 Copynumber: 2.7 Consensus size: 84
78362240 GATAAATTTT
* *
78362250 GGGCTTTGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCAGACTTAAAGGTCTAGCAAGCTT
1 GGGCTTCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTT
78362315 TAAGCTGGTGAATATTATC
66 TAAGCTGGTGAATATTATC
* *
78362334 GGGCTTCGAGCCTAGCAGACGTAATGCCGGTGAAATGATATCGGGCTTAAAGGTCTAGCAAGCTT
1 GGGCTTCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTT
78362399 TAAGCTGGTGAATATTATC
66 TAAGCTGGTGAATATTATC
* *
78362418 GGGCTCCGAACCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCA
1 GGGCTTCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCA
78362478 GGCTGATTGC
Statistics
Matches: 136, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 136 1.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (84 bp):
GGGCTTCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTT
TAAGCTGGTGAATATTATC
Found at i:78362478 original size:43 final size:43
Alignment explanation
Indices: 78362261--78362493 Score: 189
Period size: 43 Copynumber: 5.5 Consensus size: 43
78362251 GGCTTTGAGC
* *
78362261 CTAGCAGGCGTAATGCCGGTGAAATGATATCAGACTTAAAGGT
1 CTAGCAGGCGTAATGCCGGTGAAATGATATCGGGCTTAAAGGT
* * * ** *
78362304 CTAGCAAGCTTTAA-GCTGGTG-AAT-ATTATCGGGCTTCGA-GC
1 CTAGCAGGC-GTAATGCCGGTGAAATGA-TATCGGGCTTAAAGGT
*
78362345 CTAGCAGACGTAATGCCGGTGAAATGATATCGGGCTTAAAGGT
1 CTAGCAGGCGTAATGCCGGTGAAATGATATCGGGCTTAAAGGT
* * * ** *
78362388 CTAGCAAGCTTTAA-GCTGGTG-AAT-ATTATCGGGCTCCGAA--C
1 CTAGCAGGC-GTAATGCCGGTGAAATGA-TATCGGGCT-TAAAGGT
*
78362429 CTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGT
1 CTAGCAGGCGTAATGCCGGTGAAATGATATCGGGCTTAAAGGT
*
78362472 CTAGCAGGC-TGATTGCCGGTGA
1 CTAGCAGGCGT-AATGCCGGTGA
78362494 TGAAATTAGG
Statistics
Matches: 145, Mismatches: 30, Indels: 30
0.71 0.15 0.15
Matches are distributed among these distances:
40 6 0.04
41 32 0.22
42 50 0.34
43 51 0.35
44 6 0.04
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (43 bp):
CTAGCAGGCGTAATGCCGGTGAAATGATATCGGGCTTAAAGGT
Found at i:78367647 original size:25 final size:25
Alignment explanation
Indices: 78367613--78367668 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
78367603 TAAATTTTGT
*
78367613 ATAAGTGAACCTTGAAGCAGAAATC
1 ATAATTGAACCTTGAAGCAGAAATC
78367638 ATAATTGAACCTTGAAGCAGAAATC
1 ATAATTGAACCTTGAAGCAGAAATC
78367663 ATAATT
1 ATAATT
78367669 TTCTTCTTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (25 bp):
ATAATTGAACCTTGAAGCAGAAATC
Found at i:78369567 original size:57 final size:56
Alignment explanation
Indices: 78369481--78369591 Score: 177
Period size: 57 Copynumber: 2.0 Consensus size: 56
78369471 GTATAAATTA
* * * *
78369481 AAAATTGGTCCTCCAAAATCTATATGTCGGTGGATTAATTGCTGAATTTTGCCTCT
1 AAAATTGGTCCTCCAAAATCAATACGTCGGTGGATTAATTGCTCAACTTTGCCTCT
78369537 AAAATTGGTCCTCCGAAAATCAATACGTCGGTGGATTAATTGCTCAACTTTGCCT
1 AAAATTGGTCCTCC-AAAATCAATACGTCGGTGGATTAATTGCTCAACTTTGCCT
78369592 TTGGATAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
56 14 0.28
57 36 0.72
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (56 bp):
AAAATTGGTCCTCCAAAATCAATACGTCGGTGGATTAATTGCTCAACTTTGCCTCT
Found at i:78371063 original size:16 final size:16
Alignment explanation
Indices: 78371042--78371076 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
78371032 CATCAACATT
78371042 AAAAAATAAAGAAA-TA
1 AAAAAATAAA-AAACTA
78371058 AAAAAATAAAAAACTA
1 AAAAAATAAAAAACTA
78371074 AAA
1 AAA
78371077 TGAACCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.83, C:0.03, G:0.03, T:0.11
Consensus pattern (16 bp):
AAAAAATAAAAAACTA
Found at i:78372486 original size:46 final size:46
Alignment explanation
Indices: 78372434--78372609 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
78372424 TGGTTGAGCA
78372434 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
78372480 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
78372525 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
78372573 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
78372610 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.58
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:78372590 original size:93 final size:93
Alignment explanation
Indices: 78372431--78372601 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
78372421 GGATGGTTGA
* ** *
78372431 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
78372496 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
78372524 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
78372589 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
78372602 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:78374590 original size:13 final size:14
Alignment explanation
Indices: 78374574--78374602 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
78374564 TACAAAATGG
78374574 AAAGATTAAAT-AA
1 AAAGATTAAATCAA
78374587 AAAGATTAAATCAA
1 AAAGATTAAATCAA
78374601 AA
1 AA
78374603 CCATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.21
Consensus pattern (14 bp):
AAAGATTAAATCAA
Found at i:78382674 original size:11 final size:11
Alignment explanation
Indices: 78382658--78382682 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
78382648 TATCACAATT
78382658 CATAAATATGG
1 CATAAATATGG
78382669 CATAAATATGG
1 CATAAATATGG
78382680 CAT
1 CAT
78382683 GTATAGCTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (11 bp):
CATAAATATGG
Found at i:78384960 original size:30 final size:30
Alignment explanation
Indices: 78384885--78384973 Score: 133
Period size: 30 Copynumber: 3.0 Consensus size: 30
78384875 AACTATCAGA
* * *
78384885 TTTAGTGGGAGTTAGCGGGAATATGAGTGG
1 TTTAGTGGGAGTTAGTGGGGATATGGGTGG
78384915 TTTAGTGGGAGTTAGTGGGGATATGGGTGG
1 TTTAGTGGGAGTTAGTGGGGATATGGGTGG
* *
78384945 TTTAATGGGAGTTAGTAGGGATATGGGTG
1 TTTAGTGGGAGTTAGTGGGGATATGGGTG
78384974 ACTTTAAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.21, C:0.01, G:0.45, T:0.33
Consensus pattern (30 bp):
TTTAGTGGGAGTTAGTGGGGATATGGGTGG
Found at i:78386806 original size:35 final size:35
Alignment explanation
Indices: 78386741--78386864 Score: 144
Period size: 35 Copynumber: 3.5 Consensus size: 35
78386731 CTCTGTTTTG
*
78386741 GTGTGTTTCGGATGGA-TAACTCTTATGAGCATTA
1 GTGTGTTTCGGATGGATTAGCTCTTATGAGCATTA
* *
78386775 GTGTGTTTCAGATGGATTAGCTCTTATGAGCATTG
1 GTGTGTTTCGGATGGATTAGCTCTTATGAGCATTA
* * *
78386810 GTGTG-TTCTGGATGGATTAGCTTTTATGAGAATTT
1 GTGTGTTTC-GGATGGATTAGCTCTTATGAGCATTA
* *
78386845 GCTGTGTTTTGGTTGGATTA
1 G-TGTGTTTCGGATGGATTA
78386865 TTGATGTACT
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
34 18 0.23
35 44 0.57
36 13 0.17
37 2 0.03
ACGTcount: A:0.19, C:0.09, G:0.29, T:0.43
Consensus pattern (35 bp):
GTGTGTTTCGGATGGATTAGCTCTTATGAGCATTA
Found at i:78387671 original size:63 final size:63
Alignment explanation
Indices: 78387599--78387724 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
78387589 AAATTTACTT
*
78387599 ATTCTAAAGGTGGATTTACCTATGTCATGAATAATCACTCTAATTCGTGAATTGATAATGTAA
1 ATTCTAAAGGTGAATTTACCTATGTCATGAATAATCACTCTAATTCGTGAATTGATAATGTAA
78387662 ATTCTAAAGGTGAATTTACCTATGTCATGAATAATCACTCTAATTCGTGAATTGATAATGTAA
1 ATTCTAAAGGTGAATTTACCTATGTCATGAATAATCACTCTAATTCGTGAATTGATAATGTAA
78387725 TTAAGCTTAT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.37
Consensus pattern (63 bp):
ATTCTAAAGGTGAATTTACCTATGTCATGAATAATCACTCTAATTCGTGAATTGATAATGTAA
Found at i:78388941 original size:21 final size:21
Alignment explanation
Indices: 78388917--78388969 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
78388907 CGGCACATAA
*
78388917 GTGCCTGAAATGACACACGAG
1 GTGCCTGAAATGACACACGAC
* *
78388938 GTGCCTGATACGACACACGAC
1 GTGCCTGAAATGACACACGAC
*
78388959 GTGCTTGAAAT
1 GTGCCTGAAAT
78388970 ACGACACATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (21 bp):
GTGCCTGAAATGACACACGAC
Found at i:78388971 original size:23 final size:21
Alignment explanation
Indices: 78388917--78388977 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
78388907 CGGCACATAA
* * *
78388917 GTGCCTGAAATGACACACGAG
1 GTGCCTGATACGACACACGAC
78388938 GTGCCTGATACGACACACGAC
1 GTGCCTGATACGACACACGAC
*
78388959 GTGCTTGAAATACGACACA
1 GTGCCTG--ATACGACACA
78388978 TAAAGTGCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 24 0.71
23 10 0.29
ACGTcount: A:0.33, C:0.26, G:0.25, T:0.16
Consensus pattern (21 bp):
GTGCCTGATACGACACACGAC
Found at i:78390368 original size:6 final size:6
Alignment explanation
Indices: 78390357--78390391 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
78390347 ATAAATTAAT
78390357 AATAAG AATAAG AATAAG AATAAG AATAAG AATAA
1 AATAAG AATAAG AATAAG AATAAG AATAAG AATAA
78390392 TACACTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (6 bp):
AATAAG
Found at i:78393791 original size:10 final size:10
Alignment explanation
Indices: 78393776--78393802 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
78393766 ATTAGTAACA
78393776 AATTAAAATC
1 AATTAAAATC
78393786 AATTAAAATC
1 AATTAAAATC
78393796 AATTAAA
1 AATTAAA
78393803 CTCTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (10 bp):
AATTAAAATC
Found at i:78393832 original size:11 final size:11
Alignment explanation
Indices: 78393810--78393857 Score: 71
Period size: 11 Copynumber: 4.3 Consensus size: 11
78393800 AAACTCTTTT
78393810 AAAATT-TAAA
1 AAAATTATAAA
78393820 AAAATTATAAA
1 AAAATTATAAA
78393831 AAAATTATAAGA
1 AAAATTATAA-A
78393843 AAAATTTATAAA
1 AAAA-TTATAAA
78393855 AAA
1 AAA
78393858 TTAATTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
10 6 0.17
11 14 0.40
12 9 0.26
13 6 0.17
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:78393860 original size:23 final size:22
Alignment explanation
Indices: 78393810--78393857 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 22
78393800 AAACTCTTTT
78393810 AAAATT-TAAAAAAATTATAAA
1 AAAATTATAAAAAAATTATAAA
78393831 AAAATTATAAGAAAAATTTATAAA
1 AAAATTATAA-AAAAA-TTATAAA
78393855 AAA
1 AAA
78393858 TTAATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 6 0.25
22 3 0.12
23 5 0.21
24 10 0.42
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (22 bp):
AAAATTATAAAAAAATTATAAA
Found at i:78395386 original size:50 final size:49
Alignment explanation
Indices: 78395332--78395448 Score: 135
Period size: 49 Copynumber: 2.4 Consensus size: 49
78395322 GTGTGTTGCA
* * * **
78395332 TTTAATTAAGTCATGCATAAAAGCATCTCATATATTAATTAAGTTTGTGT
1 TTTAATTAAGTCATGCAT-AAAGAAACTCATATATTAAATAAGTTTGCCT
* * * *
78395382 TTTAATTATGTCATGCATTATGAAACTCATATGTTAAATAAGTTTGCCT
1 TTTAATTAAGTCATGCATAAAGAAACTCATATATTAAATAAGTTTGCCT
*
78395431 TTTAATTAAGCCATGCAT
1 TTTAATTAAGTCATGCAT
78395449 TTATGCATCT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
49 39 0.70
50 17 0.30
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (49 bp):
TTTAATTAAGTCATGCATAAAGAAACTCATATATTAAATAAGTTTGCCT
Found at i:78396510 original size:23 final size:20
Alignment explanation
Indices: 78396461--78396498 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
78396451 TACCAATTTG
*
78396461 CAAACATTTTAAAATACATT
1 CAAACATTATAAAATACATT
78396481 CAAACATTATAAAATACA
1 CAAACATTATAAAATACA
78396499 CAATTCAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (20 bp):
CAAACATTATAAAATACATT
Found at i:78398665 original size:20 final size:20
Alignment explanation
Indices: 78398640--78398679 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
78398630 TGCGTGGGGT
78398640 GAATGTCT-TCGATGGGACAA
1 GAATGTCTAT-GATGGGACAA
78398660 GAATGTCTATGATGGGACAA
1 GAATGTCTATGATGGGACAA
78398680 ATCCTATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.25
Consensus pattern (20 bp):
GAATGTCTATGATGGGACAA
Found at i:78405419 original size:12 final size:12
Alignment explanation
Indices: 78405412--78405450 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
78405402 TGCACCTGCT
78405412 CCAACACCTCCA
1 CCAACACCTCCA
* *
78405424 CCAACACCACCT
1 CCAACACCTCCA
*
78405436 CCAGCACCTCCA
1 CCAACACCTCCA
78405448 CCA
1 CCA
78405451 CCTCCTACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.59, G:0.03, T:0.08
Consensus pattern (12 bp):
CCAACACCTCCA
Found at i:78405443 original size:9 final size:9
Alignment explanation
Indices: 78405428--78405468 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
78405418 CCTCCACCAA
78405428 CACCACCTC
1 CACCACCTC
*
78405437 CAGCACCTC
1 CACCACCTC
78405446 CACCACCTC
1 CACCACCTC
78405455 CTACC-CCTC
1 C-ACCACCTC
78405464 CACCA
1 CACCA
78405469 GCCCCAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 3 0.11
9 22 0.79
10 3 0.11
ACGTcount: A:0.22, C:0.63, G:0.02, T:0.12
Consensus pattern (9 bp):
CACCACCTC
Found at i:78405481 original size:30 final size:30
Alignment explanation
Indices: 78405447--78405524 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 30
78405437 CAGCACCTCC
*
78405447 ACCACCTCCTACCCCTCCACCAGCCCCAAT
1 ACCACCTCCTACACCTCCACCAGCCCCAAT
* * * * *
78405477 ACCACCACCAACACCTGCACCCGCTCCAAT
1 ACCACCTCCTACACCTCCACCAGCCCCAAT
*
78405507 ACCTCCTCCTACACCTCC
1 ACCACCTCCTACACCTCC
78405525 GCCAACACCA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.24, C:0.58, G:0.04, T:0.14
Consensus pattern (30 bp):
ACCACCTCCTACACCTCCACCAGCCCCAAT
Found at i:78405572 original size:60 final size:60
Alignment explanation
Indices: 78405518--78405698 Score: 156
Period size: 60 Copynumber: 3.0 Consensus size: 60
78405508 CCTCCTCCTA
* * * * *
78405518 CACCTCCGCCAACACCACCTTC-AGCACCTCCACCTCCACTAACTCCTACTCCTCCACCAG
1 CACCTCCACCAACACCACCTCCTA-CACCTCCACCACCACCAACTCCAACTCCTCCACCAG
* * *
78405578 TACCTCCACCAACACCACCTCCTACACTTCCACCACCACCACCTCCAACTCCTCCACCAG
1 CACCTCCACCAACACCACCTCCTACACCTCCACCACCACCAACTCCAACTCCTCCACCAG
* * * * * *
78405638 C-CCTAGCC-CCAGCCCCAACC-CC-AGCACCACCACCAACACCACCTCCTACTCCTCCACCAG
1 CACCT--CCACCAACACC-ACCTCCTA-CACCTCCACCACCACCAACTCCAACTCCTCCACCAG
78405698 C
1 C
78405699 CCCAACACCA
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
59 4 0.04
60 91 0.90
61 6 0.06
ACGTcount: A:0.25, C:0.57, G:0.04, T:0.13
Consensus pattern (60 bp):
CACCTCCACCAACACCACCTCCTACACCTCCACCACCACCAACTCCAACTCCTCCACCAG
Found at i:78405633 original size:24 final size:24
Alignment explanation
Indices: 78405579--78405636 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
78405569 CTCCACCAGT
*
78405579 ACCTCCACCAACACCACCTCCTAC
1 ACCTCCACCAACACCACCTCCAAC
* *
78405603 ACTTCCACCACCACCACCTCCAAC
1 ACCTCCACCAACACCACCTCCAAC
*
78405627 TCCTCCACCA
1 ACCTCCACCA
78405637 GCCCTAGCCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.28, C:0.59, G:0.00, T:0.14
Consensus pattern (24 bp):
ACCTCCACCAACACCACCTCCAAC
Done.