Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 119 of 172
Found at i:33954235 original size:29 final size:29
Alignment explanation
Indices: 33954201--33954293 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 29
33954191 ACCTAATTTT
33954201 ACATAATTTGATAATTTTACTAACCATTA
1 ACATAATTTGATAATTTTACTAACCATTA
* * * * * *
33954230 ACATAA-TTGTTGGA-CTTAATAA--TTTT
1 ACATAATTTGAT-AATTTTACTAACCATTA
33954256 ACATAATTTGATAATTTTACTAACCATTA
1 ACATAATTTGATAATTTTACTAACCATTA
*
33954285 ACACAATTT
1 ACATAATTT
33954294 TTGGACTTAA
Statistics
Matches: 46, Mismatches: 13, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
26 9 0.20
27 10 0.22
28 10 0.22
29 17 0.37
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.42
Consensus pattern (29 bp):
ACATAATTTGATAATTTTACTAACCATTA
Found at i:33954253 original size:55 final size:54
Alignment explanation
Indices: 33954194--33954440 Score: 289
Period size: 55 Copynumber: 4.3 Consensus size: 54
33954184 AACCCTAACC
* *
33954194 TAATTTTACATAATTTGATAATTTTACTAACCATTAACATAATTGTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACAATTAACA-AATTTTTGGACTTAA
*
33954249 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACAATTAACA-AATTTTTGGACTTAA
* *
33954304 TAATTTTACATAATTTGATAATTTTACCTAATTTAATTAA-AAAGTTTTTGGCTTAATAATTTTA
1 TAATTTTACATAATTTGATAATTTTA-CTAA--CAATTAACAAA-TTTTTGG-------A-CTTA
33954368 CA
54 -A
*
33954370 TAATTTTACATAATTTGATAATTTTACTAACAATTAACAAAATTTTGGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACAATTAAC-AAATTTTTGGACTTAA
33954425 TAATTTTACATAATTT
1 TAATTTTACATAATTT
33954441 TACATAATGT
Statistics
Matches: 169, Mismatches: 8, Indels: 30
0.82 0.04 0.14
Matches are distributed among these distances:
55 96 0.57
56 9 0.05
57 9 0.05
58 5 0.03
63 6 0.04
64 7 0.04
65 10 0.06
66 27 0.16
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (54 bp):
TAATTTTACATAATTTGATAATTTTACTAACAATTAACAAATTTTTGGACTTAA
Found at i:33954326 original size:18 final size:18
Alignment explanation
Indices: 33954303--33954337 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33954293 TTTGGACTTA
33954303 ATAATTTTACATAATTTG
1 ATAATTTTACATAATTTG
*
33954321 ATAATTTTACCTAATTT
1 ATAATTTTACATAATTT
33954338 AATTAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (18 bp):
ATAATTTTACATAATTTG
Found at i:33954374 original size:10 final size:10
Alignment explanation
Indices: 33954359--33954385 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
33954349 TTTTGGCTTA
33954359 ATAATTTTAC
1 ATAATTTTAC
33954369 ATAATTTTAC
1 ATAATTTTAC
33954379 ATAATTT
1 ATAATTT
33954386 GATAATTTTA
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:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:33954392 original size:56 final size:62
Alignment explanation
Indices: 33954248--33954448 Score: 213
Period size: 65 Copynumber: 3.2 Consensus size: 62
33954238 GTTGGACTTA
*
33954248 ATAATTTTACATAATTTGA-TAATTTTACTAACCATTAACACAATTTTTGGACTTAATAATTTTA
1 ATAATTTTACATAATTTGACTAA-TTTA-TAA--ATTAACAAAATTTTTGGACTTAATAATTTTA
33954312 C
62 C
* * *
33954313 ATAA-TTT-GATAATTTTACCTAA-TT-T-AATTAA-AAAGTTTTTGG-CTTAATAATTTTAC
1 ATAATTTTACATAATTTGA-CTAATTTATAAATTAACAAAATTTTTGGACTTAATAATTTTAC
*
33954369 ATAATTTTACATAATTTGA-TAATTTTACTAACAATTAACAAAATTTTGGGACTTAATAATTTTA
1 ATAATTTTACATAATTTGACTAA-TTTA-T-A-AATTAACAAAATTTTTGGACTTAATAATTTTA
33954433 C
62 C
33954434 ATAATTTTACATAAT
1 ATAATTTTACATAAT
33954449 GTTAGATTTG
Statistics
Matches: 115, Mismatches: 8, Indels: 26
0.77 0.05 0.17
Matches are distributed among these distances:
56 21 0.18
57 12 0.10
58 15 0.13
60 2 0.02
61 1 0.01
63 16 0.14
64 12 0.10
65 36 0.31
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.45
Consensus pattern (62 bp):
ATAATTTTACATAATTTGACTAATTTATAAATTAACAAAATTTTTGGACTTAATAATTTTAC
Found at i:33954439 original size:10 final size:10
Alignment explanation
Indices: 33954424--33954448 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
33954414 TTGGGACTTA
33954424 ATAATTTTAC
1 ATAATTTTAC
33954434 ATAATTTTAC
1 ATAATTTTAC
33954444 ATAAT
1 ATAAT
33954449 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:33954447 original size:65 final size:65
Alignment explanation
Indices: 33954303--33954448 Score: 224
Period size: 65 Copynumber: 2.2 Consensus size: 65
33954293 TTTGGACTTA
* * *
33954303 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAAGTTTTTGGCTTAATAATTTTA
1 ATAATTTTACATAATTTGATAATTTTACCTAA-TCAATTAAAAAATTTTGGGCTTAATAATTTTA
33954368 C
65 C
33954369 ATAATTTTACATAATTTGATAATTTTA-CTAA-CAATTAACAAAATTTTGGGACTTAATAATTTT
1 ATAATTTTACATAATTTGATAATTTTACCTAATCAATTAA-AAAATTTTGGG-CTTAATAATTTT
33954432 AC
64 AC
33954434 ATAATTTTACATAAT
1 ATAATTTTACATAAT
33954449 GTTAGATTTG
Statistics
Matches: 75, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
63 6 0.08
64 9 0.12
65 33 0.44
66 27 0.36
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.46
Consensus pattern (65 bp):
ATAATTTTACATAATTTGATAATTTTACCTAATCAATTAAAAAATTTTGGGCTTAATAATTTTAC
Found at i:33957776 original size:124 final size:124
Alignment explanation
Indices: 33957551--33957776 Score: 391
Period size: 124 Copynumber: 1.8 Consensus size: 124
33957541 TCCAAACTTG
*
33957551 CTACTATAGCAAAATCGCGTCTACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTATAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
33957616 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAAAAAAGTCAAAAAAAATTATTTCTTACATGAC
*
33957675 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTATAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
33957740 TAGAAGTGATTTTATACTATTTGAC-CAAAAAAGTCAA
66 TAGAAGCGATTTTATACTATTTG-CTCAAAAAAGTCAA
33957777 CTTGAAATAA
Statistics
Matches: 96, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
124 95 0.99
125 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (124 bp):
CTACTATAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAAAAAAGTCAAAAAAAATTATTTCTTACATGAC
Found at i:33958055 original size:28 final size:28
Alignment explanation
Indices: 33957992--33958046 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
33957982 ACGCGATTTC
33957992 TCGAAAAATGGCCCATTCCGGTAAATAA
1 TCGAAAAATGGCCCATTCCGGTAAATAA
* *
33958020 TCAAAAAATTGGCCCATTTCGGTAAAT
1 TCGAAAAA-TGGCCCATTCCGGTAAAT
33958047 TTTGAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.25
Consensus pattern (28 bp):
TCGAAAAATGGCCCATTCCGGTAAATAA
Found at i:33961442 original size:29 final size:29
Alignment explanation
Indices: 33961400--33961463 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
33961390 ATACGAGCAA
33961400 GATGGATAAGTTGATGAGACATTGTGCGT
1 GATGGATAAGTTGATGAGACATTGTGCGT
33961429 GATGGATAAGTTGATGAGACATTGTGCGT
1 GATGGATAAGTTGATGAGACATTGTGCGT
33961458 GATGGA
1 GATGGA
33961464 AAATTTTATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.28, C:0.06, G:0.36, T:0.30
Consensus pattern (29 bp):
GATGGATAAGTTGATGAGACATTGTGCGT
Found at i:33968382 original size:11 final size:11
Alignment explanation
Indices: 33968366--33968391 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33968356 TTTTATATAT
33968366 ATATATATTAA
1 ATATATATTAA
33968377 ATATATATTAA
1 ATATATATTAA
33968388 ATAT
1 ATAT
33968392 CTTTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATATATATTAA
Found at i:33971797 original size:41 final size:41
Alignment explanation
Indices: 33971735--33971875 Score: 192
Period size: 41 Copynumber: 3.4 Consensus size: 41
33971725 ATAATCGGGT
*
33971735 TTTACGCCTAGCAGGCTTTATGCCGGTGAATTATATCAGGC
1 TTTACGCCTAGCAGGCTTTATGCCAGTGAATTATATCAGGC
* **
33971776 TTTATGCCTAGCAGGCTTTATGCCAACGAATTATATCAGGC
1 TTTACGCCTAGCAGGCTTTATGCCAGTGAATTATATCAGGC
* * ** *
33971817 TTTACGCCTAGCAGGCTTAATGCCAGTGTACCATAACAGGC
1 TTTACGCCTAGCAGGCTTTATGCCAGTGAATTATATCAGGC
*
33971858 TTTATGCCTAGCAGGCTT
1 TTTACGCCTAGCAGGCTT
33971876 CGTGCAGGTG
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 87 1.00
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (41 bp):
TTTACGCCTAGCAGGCTTTATGCCAGTGAATTATATCAGGC
Found at i:33976016 original size:11 final size:9
Alignment explanation
Indices: 33975982--33976007 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
33975972 ATTAAATTTA
33975982 ATATTAAAT
1 ATATTAAAT
33975991 ATATTAAAT
1 ATATTAAAT
33976000 ATATTAAA
1 ATATTAAA
33976008 ATAATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATATTAAAT
Found at i:33977450 original size:46 final size:46
Alignment explanation
Indices: 33977347--33977599 Score: 433
Period size: 46 Copynumber: 5.6 Consensus size: 46
33977337 TACATATGAT
* *
33977347 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
33977390 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
33977436 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
33977482 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
33977528 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
33977574 CACTTATCACTTTGTCAC-TGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
33977600 AGTACTCAAA
Statistics
Matches: 201, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
43 10 0.05
44 5 0.02
45 28 0.14
46 158 0.79
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:33981877 original size:14 final size:15
Alignment explanation
Indices: 33981847--33981887 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
33981837 AACCTTTGTT
* *
33981847 TTCTTTATTCTTT-C
1 TTCTTTCTTTTTTCC
33981861 TTC-TTCTTTTTTCC
1 TTCTTTCTTTTTTCC
33981875 TTCTTTCTTTTTT
1 TTCTTTCTTTTTT
33981888 AAATTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 7 0.30
14 7 0.30
15 9 0.39
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (15 bp):
TTCTTTCTTTTTTCC
Found at i:33989289 original size:67 final size:66
Alignment explanation
Indices: 33989162--33989436 Score: 248
Period size: 67 Copynumber: 4.1 Consensus size: 66
33989152 GTCACATCTA
* ** * * * * * * *
33989162 TAACCCCATGTTTAGTGTCCTAGCGAACTCTATTTGATGCCGTAGTCGAGTTATAGTCTTACACA
1 TAACCCCATGTTTAATGTCCTAAAGACCT-TATTGGATGTCATAGTCGAGCTATGGTCTTACACT
33989227 TG
65 TG
* * * * ** *
33989229 TAACCCCGTGTTCAATATCCCGAAAGACCTTATTAAATGTCATAGTCAAGCTATGGTCTTACACT
1 TAACCCCATGTTTAATGT-CCTAAAGACCTTATTGGATGTCATAGTCGAGCTATGGTCTTACACT
33989294 TG
65 TG
* * * * **
33989296 CAACTCTATGTTTAATGTCATAGCGAACCTTATTGGATGTCATAG-CTGAGCTATGGTCTTACAC
1 TAACCCCATGTTTAATGTCCTAAAG-ACCTTATTGGATGTCATAGTC-GAGCTATGGTCTTACAC
*
33989360 CTG
64 TTG
* *
33989363 TAACCCCATGTTTAATGTCCTAGAGGACCCTATTGGATG-CAATAGTCGAGCTATGGTCTTACAC
1 TAACCCCATGTTTAATGTCCTA-AAGACCTTATTGGATGTC-ATAGTCGAGCTATGGTCTTACAC
33989427 TTG
64 TTG
33989430 TAACCCC
1 TAACCCC
33989437 GTTACAGCCC
Statistics
Matches: 164, Mismatches: 38, Indels: 12
0.77 0.18 0.06
Matches are distributed among these distances:
66 5 0.03
67 150 0.91
68 9 0.05
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (66 bp):
TAACCCCATGTTTAATGTCCTAAAGACCTTATTGGATGTCATAGTCGAGCTATGGTCTTACACTT
G
Found at i:33996410 original size:15 final size:15
Alignment explanation
Indices: 33996390--33996431 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
33996380 TGGCACCCAA
33996390 AGCCGAGAAGAAGCC
1 AGCCGAGAAGAAGCC
*
33996405 AGCCGAGAAAAAGCC
1 AGCCGAGAAGAAGCC
*
33996420 AGCCGAGGAGAA
1 AGCCGAGAAGAA
33996432 AAAAGCCGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.43, C:0.24, G:0.33, T:0.00
Consensus pattern (15 bp):
AGCCGAGAAGAAGCC
Found at i:33997522 original size:44 final size:41
Alignment explanation
Indices: 33997471--33997582 Score: 128
Period size: 38 Copynumber: 2.8 Consensus size: 41
33997461 ATAAAATCAT
* *
33997471 CCAACCCAACTTAATAAAACTAAAATTAAAGTCTATCCAATTA
1 CCAACCCAAC--AATAAAACTAAAACTAAAGTCTACCCAATTA
33997514 CCCAA-CC--CAATAAAACTAAAACTAAAGTCTACCCAATTA
1 -CCAACCCAACAATAAAACTAAAACTAAAGTCTACCCAATTA
*
33997553 CCAA-CC--CAATAAAAATAAAACTAAAGTCTA
1 CCAACCCAACAATAAAACTAAAACTAAAGTCTA
33997583 ACTCTTAAGT
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
38 29 0.45
39 29 0.45
41 1 0.02
43 2 0.03
44 4 0.06
ACGTcount: A:0.51, C:0.26, G:0.03, T:0.21
Consensus pattern (41 bp):
CCAACCCAACAATAAAACTAAAACTAAAGTCTACCCAATTA
Found at i:33997566 original size:38 final size:39
Alignment explanation
Indices: 33997474--33997582 Score: 166
Period size: 39 Copynumber: 2.8 Consensus size: 39
33997464 AAATCATCCA
** * *
33997474 ACCCAACTTAATAAAACTAAAATTAAAGTCTATCCAATT
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
33997513 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
*
33997552 A-CCAACCCAATAAAAATAAAACTAAAGTCTA
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTA
33997583 ACTCTTAAGT
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
38 29 0.45
39 36 0.55
ACGTcount: A:0.51, C:0.25, G:0.03, T:0.21
Consensus pattern (39 bp):
ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
Found at i:33997733 original size:17 final size:17
Alignment explanation
Indices: 33997713--33997775 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
33997703 TAATTTCAAG
33997713 AATTATGTAATGTTTTT
1 AATTATGTAATGTTTTT
* ***
33997730 AATTATGTAGTGATTCAA
1 AATTATGTAATG-TTTTT
*
33997748 AGACTTATGTAATATTTTT
1 A-A-TTATGTAATGTTTTT
33997767 AATTATGTA
1 AATTATGTA
33997776 GTGATTCAGT
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 18 0.53
18 4 0.12
19 4 0.12
20 8 0.24
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.49
Consensus pattern (17 bp):
AATTATGTAATGTTTTT
Found at i:33997756 original size:37 final size:37
Alignment explanation
Indices: 33997710--33997783 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
33997700 TGTTAATTTC
*
33997710 AAGAATTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTGATTCA
*
33997747 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTGATTCA
33997784 GTTCGGGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (37 bp):
AAGAATTATGTAATATTTTTAATTATGTAGTGATTCA
Found at i:33998215 original size:26 final size:26
Alignment explanation
Indices: 33998185--33998235 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
33998175 ATCGGTTTAC
*
33998185 ATTTTTT-TTTCATTTTGTGTAACTTA
1 ATTTTTTCTTTCATTTTCT-TAACTTA
*
33998211 ATTTTTTCTTTTATTTTCTTAACTT
1 ATTTTTTCTTTCATTTTCTTAACTT
33998236 CCCTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.18, C:0.10, G:0.04, T:0.69
Consensus pattern (26 bp):
ATTTTTTCTTTCATTTTCTTAACTTA
Found at i:33998470 original size:21 final size:22
Alignment explanation
Indices: 33998441--33998484 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
33998431 AAACTACGTT
*
33998441 AAAAGAAATGAAGAAG-AGAAG
1 AAAACAAATGAAGAAGCAGAAG
*
33998462 AAAACAAATGGAGAAGCAGAAG
1 AAAACAAATGAAGAAGCAGAAG
33998484 A
1 A
33998485 GAATGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.64, C:0.05, G:0.27, T:0.05
Consensus pattern (22 bp):
AAAACAAATGAAGAAGCAGAAG
Found at i:34001951 original size:23 final size:23
Alignment explanation
Indices: 34001925--34001990 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 23
34001915 TAAATTTTCC
* *
34001925 TGTTCATATTTTATTTTTAATCT
1 TGTTCATAATTTATTTTTAATCA
* *
34001948 TGTTTC-TAAATTATTTAT-AT-A
1 TG-TTCATAATTTATTTTTAATCA
34001969 TGTTCATAATTTATTTTTAATC
1 TGTTCATAATTTATTTTTAATC
34001991 CTGATTCTAC
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
20 3 0.09
21 12 0.36
22 4 0.12
23 11 0.33
24 3 0.09
ACGTcount: A:0.27, C:0.08, G:0.05, T:0.61
Consensus pattern (23 bp):
TGTTCATAATTTATTTTTAATCA
Found at i:34002021 original size:39 final size:39
Alignment explanation
Indices: 34001914--34002071 Score: 160
Period size: 39 Copynumber: 3.9 Consensus size: 39
34001904 AGTTTTGAGC
* *
34001914 CTAAATTT-TCCTGTTCATATTTTATTTTTAATCTTGTTT
1 CTAAATTTAT-CTGTTCATATTTTATTTTTAATCCTGATT
* *
34001953 CTAAATTATTTATATATGTTCATAATTTATTTTTAATCCTGATT
1 CT-AA--A-TT-TATCTGTTCATATTTTATTTTTAATCCTGATT
*
34001997 CTACATTTATCTGTTCATATTTTATTTTTAATCCT-ATTT
1 CTAAATTTATCTGTTCATATTTTATTTTTAATCCTGA-TT
* *
34002036 CTAAATTTTTCTGGTT-GTATTTTATTTTTAATCCTG
1 CTAAATTTATCT-GTTCATATTTTATTTTTAATCCTG
34002072 GTTCAAAACT
Statistics
Matches: 100, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
38 1 0.01
39 58 0.58
40 7 0.07
41 1 0.01
42 1 0.01
43 3 0.03
44 28 0.28
45 1 0.01
ACGTcount: A:0.24, C:0.12, G:0.06, T:0.58
Consensus pattern (39 bp):
CTAAATTTATCTGTTCATATTTTATTTTTAATCCTGATT
Found at i:34005469 original size:14 final size:14
Alignment explanation
Indices: 34005450--34005478 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
34005440 AATAGTACTT
34005450 ATATGTGGATACAA
1 ATATGTGGATACAA
34005464 ATATGTGGATACAA
1 ATATGTGGATACAA
34005478 A
1 A
34005479 GTAAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (14 bp):
ATATGTGGATACAA
Found at i:34013205 original size:20 final size:20
Alignment explanation
Indices: 34013167--34013206 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
34013157 AATATTTTCT
* *
34013167 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTACAGAAA
*
34013187 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
34013207 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:34013213 original size:14 final size:14
Alignment explanation
Indices: 34013190--34013229 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
34013180 ATAGAAAAGT
*
34013190 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
34013204 AAATCATTTTACGG
1 AAAACATTTTACAG
34013218 AAAACATTTTAC
1 AAAACATTTTAC
34013230 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:34013221 original size:34 final size:35
Alignment explanation
Indices: 34013155--34013221 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
34013145 CAAACACCAG
* * *
34013155 AAAATATTTTCTAGTAAATCATTTTATAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
34013190 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
34013222 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:34013337 original size:13 final size:13
Alignment explanation
Indices: 34013321--34013345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34013311 CACAAATAAA
34013321 TATTCAAAATTAG
1 TATTCAAAATTAG
34013334 TATTCAAAATTA
1 TATTCAAAATTA
34013346 AATACATAAA
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:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (13 bp):
TATTCAAAATTAG
Found at i:34013406 original size:29 final size:28
Alignment explanation
Indices: 34013326--34013414 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 28
34013316 ATAAATATTC
*
34013326 AAAATTAGTATTCAAAATTAAATACATAA
1 AAAATTAGTATTCAAAA-TAATTACATAA
* * * **
34013355 AATATAAATACGTTC-AAATAATTATTTAA
1 AAAATTAGTA--TTCAAAATAATTACATAA
34013384 AAAATTAGTATTCAAAATCAATTACATAA
1 AAAATTAGTATTCAAAAT-AATTACATAA
34013413 AA
1 AA
34013415 TATAAAAAAA
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
27 3 0.07
28 4 0.09
29 32 0.71
30 3 0.07
31 3 0.07
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (28 bp):
AAAATTAGTATTCAAAATAATTACATAA
Found at i:34014060 original size:15 final size:16
Alignment explanation
Indices: 34014023--34014065 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
34014013 TCTCGGCCTT
* *
34014023 TTTCTCCTCAGCTGGC
1 TTTCTTCTCGGCTGGC
34014039 TTT-TTCTCGGCTGG-
1 TTTCTTCTCGGCTGGC
34014053 TTTCTTCTCGGCT
1 TTTCTTCTCGGCT
34014066 TTGGGTGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 18 0.75
16 3 0.12
ACGTcount: A:0.02, C:0.30, G:0.21, T:0.47
Consensus pattern (16 bp):
TTTCTTCTCGGCTGGC
Found at i:34022950 original size:29 final size:28
Alignment explanation
Indices: 34022893--34022948 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
34022883 TCCGAGCCTT
*
34022893 GGGGAAAATGTAATTATGTAAAAGTTTA
1 GGGGAAAATGTAATTATGAAAAAGTTTA
*
34022921 GGGGCAAAATCGTAATTTTGAAAAAGTT
1 GGGG-AAAAT-GTAATTATGAAAAAGTT
34022949 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 5 0.21
30 15 0.62
ACGTcount: A:0.41, C:0.04, G:0.25, T:0.30
Consensus pattern (28 bp):
GGGGAAAATGTAATTATGAAAAAGTTTA
Found at i:34023410 original size:50 final size:50
Alignment explanation
Indices: 34023285--34023533 Score: 336
Period size: 50 Copynumber: 4.8 Consensus size: 50
34023275 ATTTGGGTAA
* *
34023285 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
*
34023341 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
34023391 AGAGGTCCCATATAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
34023441 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
1 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
34023491 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCA
34023534 TGTTATTATC
Statistics
Matches: 178, Mismatches: 14, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
50 100 0.56
51 34 0.19
53 3 0.02
55 2 0.01
56 39 0.22
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:34026841 original size:24 final size:24
Alignment explanation
Indices: 34026814--34026865 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
34026804 TTAGTAAGTC
*
34026814 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
34026838 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
34026862 AAAT
1 AAAT
34026866 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:34028810 original size:24 final size:24
Alignment explanation
Indices: 34028783--34028834 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
34028773 TTAGTAAGTC
*
34028783 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
34028807 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
34028831 AAAT
1 AAAT
34028835 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:34038861 original size:19 final size:20
Alignment explanation
Indices: 34038839--34038888 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
34038829 GGGTTTGAGA
34038839 GGAAGTAAAAGTT-TTGGGG
1 GGAAGTAAAAGTTATTGGGG
* * *
34038858 GGAAATAAAATTTATTTGGG
1 GGAAGTAAAAGTTATTGGGG
*
34038878 GAAAGTAAAAG
1 GGAAGTAAAAG
34038889 GGTTTGTTCA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.26
Consensus pattern (20 bp):
GGAAGTAAAAGTTATTGGGG
Found at i:34039269 original size:16 final size:16
Alignment explanation
Indices: 34039245--34039282 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
34039235 TTTGGTTCGC
* *
34039245 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
34039261 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
34039277 TGTAAT
1 TGTAAT
34039283 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:34039533 original size:16 final size:16
Alignment explanation
Indices: 34039496--34039537 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
34039486 TTAATCATAT
*
34039496 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
34039512 TT-AAATATATTATAA
1 TTAAAATATATTATAA
34039527 TTAAAATATAT
1 TTAAAATATAT
34039538 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:34039544 original size:14 final size:15
Alignment explanation
Indices: 34039505--34039546 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
34039495 TTTAAACATA
*
34039505 ATTATTATTAAATAT
1 ATTATAATTAAATAT
34039520 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
34039534 A-TATAATTTAATA
1 ATTATAATTAAATA
34039547 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:34039618 original size:107 final size:108
Alignment explanation
Indices: 34039494--34039704 Score: 397
Period size: 107 Copynumber: 2.0 Consensus size: 108
34039484 ATTTAATCAT
34039494 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
34039559 ATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
34039602 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
34039666 ATCAATATTCTTATATGAATTTACTAAAATCATAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATA
34039705 TAATACTATA
Statistics
Matches: 101, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
107 97 0.96
108 4 0.04
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (108 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
Found at i:34039642 original size:16 final size:16
Alignment explanation
Indices: 34039599--34039644 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
34039589 CATAATATAG
*
34039599 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
34039615 ATTATT-AAATATATT
1 ATAATTAAAATATATT
34039630 ATAATTAAAATATAT
1 ATAATTAAAATATAT
34039645 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:34039651 original size:14 final size:15
Alignment explanation
Indices: 34039599--34039653 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
34039589 CATAATATAG
34039599 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
34039615 ATTATTAAATATATT
1 ATAATTAAATATATT
34039630 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
34039643 ATAATTTAATA
1 ATAATTAAATA
34039654 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:34039702 original size:37 final size:35
Alignment explanation
Indices: 34039533--34039702 Score: 100
Period size: 37 Copynumber: 4.7 Consensus size: 35
34039523 ATAATTAAAA
*
34039533 TATATAATTTAATAAAATTCTTAATAATTAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
* *
34039570 TATATGAATTTACTCAAATCATAAT-A-TAGATAATTT
1 TATAT-AATTTAATAAAATCATAATAATTA-AT-ATTT
* * * * *
34039606 AACATAATTATTATTAAATAT-ATTATAATTAA-A--A
1 TATATAA-T-TTAATAAA-ATCATAATAATTAATATTT
* *
34039640 TATATAATTTAATAAAATTCTTAATAATCAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
*
34039677 TATATGAATTTACTAAAATCATAATA
1 TATAT-AATTTAATAAAATCATAATA
34039703 TATAATACTA
Statistics
Matches: 100, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
31 1 0.01
32 8 0.08
33 9 0.09
34 6 0.06
35 4 0.04
36 9 0.09
37 36 0.36
38 25 0.25
39 2 0.02
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (35 bp):
TATATAATTTAATAAAATCATAATAATTAATATTT
Found at i:34039755 original size:107 final size:107
Alignment explanation
Indices: 34039497--34039760 Score: 353
Period size: 107 Copynumber: 2.5 Consensus size: 107
34039487 TAATCATATT
* * *
34039497 TAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
1 TAAA-ATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATC
* * *
34039562 AATATTCTTATATGAATTTACTCAAATCATAATATAGATAATT
65 AATATTCTTATATGAATTTACTAAAATCATAATATAAATAATA
* * *
34039605 TAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
1 TAAAATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
*
34039670 ATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
66 ATATTCTTATATGAATTTACTAAAATCATAATATA-AATAATA
34039713 TAAAAT-ATAATT-TGAAATA-ATTA-ATATT-AAATATAT--TTTAATTAAAAT
1 TAAAATAATAATTATGAAATATATTATA-ATTAAAATATATAATTTAA-TAAAAT
34039761 ATATGATTTA
Statistics
Matches: 144, Mismatches: 9, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
102 5 0.03
103 6 0.04
104 9 0.06
105 7 0.05
106 6 0.04
107 99 0.69
108 12 0.08
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (107 bp):
TAAAATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
ATATTCTTATATGAATTTACTAAAATCATAATATAAATAATA
Found at i:34046738 original size:24 final size:24
Alignment explanation
Indices: 34046703--34046750 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
34046693 CTATATCACA
* * *
34046703 TTTGTGCTTAAATTGTAAACTTTT
1 TTTGTGCCTAAAATGAAAACTTTT
34046727 TTTGTGCCTAAAATGAAAACTTTT
1 TTTGTGCCTAAAATGAAAACTTTT
34046751 GAAAGTTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.48
Consensus pattern (24 bp):
TTTGTGCCTAAAATGAAAACTTTT
Found at i:34049529 original size:41 final size:41
Alignment explanation
Indices: 34049472--34049621 Score: 174
Period size: 41 Copynumber: 3.6 Consensus size: 41
34049462 TGAGTTTTCG
* *
34049472 GGGCTTTAGTGGCGTTTTTTAAAAAGCGTCGCTAATGCTTA
1 GGGCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTTA
* * * *
34049513 GGGCTTTAGCGGCGTTTGTTAAAAAGAGCCGCTAATGATTG
1 GGGCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTTA
** *
34049554 GGGCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTT-TTTAAAAAGCGCCGCTAATGCTTA
* * * *
34049596 AGGTTTTAGCGGCATTTTTGAAAAAG
1 GGGCTTTAGCGGCGTTTTTTAAAAAG
34049622 TGCTGCAAAA
Statistics
Matches: 90, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
41 59 0.66
42 31 0.34
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTTA
Found at i:34050019 original size:34 final size:34
Alignment explanation
Indices: 34049953--34050019 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
34049943 TATGGTTTAT
* * *
34049953 AATTTATGGTTTAATGTTTAGGTTTAGCGGTTAC
1 AATTTATGGTTTAAGGTTTAGATTAAGCGGTTAC
34049987 AATTTATGGTTTAAGGTTATAGATTAAG-GGTTA
1 AATTTATGGTTTAAGGTT-TAGATTAAGCGGTTA
34050020 GGGTTTAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 22 0.76
35 7 0.24
ACGTcount: A:0.28, C:0.03, G:0.24, T:0.45
Consensus pattern (34 bp):
AATTTATGGTTTAAGGTTTAGATTAAGCGGTTAC
Found at i:34051288 original size:8 final size:8
Alignment explanation
Indices: 34051271--34051304 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
34051261 GCAAATAATA
34051271 TATATATG
1 TATATATG
*
34051279 TATGTATG
1 TATATATG
34051287 TATATATG
1 TATATATG
34051295 TATATATG
1 TATATATG
34051303 TA
1 TA
34051305 AGAGTTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (8 bp):
TATATATG
Found at i:34052400 original size:6 final size:6
Alignment explanation
Indices: 34052386--34052414 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
34052376 TCGAAAAAGG
34052386 AAAAT- AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA
34052415 CAATATGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:34052817 original size:17 final size:17
Alignment explanation
Indices: 34052790--34052826 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
34052780 AGGCTATTAC
34052790 AATTTATATATT-AAAT
1 AATTTATATATTAAAAT
34052806 AATTTAATATATTAAAAT
1 AATTT-ATATATTAAAAT
34052824 AAT
1 AAT
34052827 GATTATAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 7 0.37
18 7 0.37
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTATATATTAAAAT
Found at i:34058025 original size:45 final size:43
Alignment explanation
Indices: 34057940--34058025 Score: 100
Period size: 45 Copynumber: 2.0 Consensus size: 43
34057930 GATTATATTT
* *
34057940 TTTAGCGGCGCTTTTCCCACTAACGCCACTATAGATCATGACC
1 TTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGATCATGACC
* * * *
34057983 TTTAGCGGCGCTTTATTTCTACAAACGCCGCTAAAGGTCATGA
1 TTTAGCGGCGC-TT-TTCCCACAAACGCCACTAAAGATCATGA
34058026 TTTATAGTGG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 11 0.31
44 2 0.06
45 22 0.63
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGATCATGACC
Found at i:34058056 original size:43 final size:43
Alignment explanation
Indices: 34058008--34058128 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 43
34057998 TTTCTACAAA
*
34058008 CGCCGCTAAAGGTCATGATTTATAGTGGCGTTTGT-GAGAAAAG
1 CGCCGCTAAAGGTCATGATTTATAGTGGCGTTTATAG-GAAAAG
* * * *
34058051 CGCCGCTAAAAGTCATGATCTATAGCGGCGTTTATAGGAGAAG
1 CGCCGCTAAAGGTCATGATTTATAGTGGCGTTTATAGGAAAAG
* *
34058094 TGCCGCTAAAGGTCATGACTTT-TAGTGACGTTTAT
1 CGCCGCTAAAGGTCATGA-TTTATAGTGGCGTTTAT
34058129 TTCTAAAAAC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
43 63 0.95
44 3 0.05
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
CGCCGCTAAAGGTCATGATTTATAGTGGCGTTTATAGGAAAAG
Found at i:34064085 original size:20 final size:20
Alignment explanation
Indices: 34064062--34064099 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34064052 TTTTTAAAAT
34064062 TTAAAATT-TTAACCTAAACA
1 TTAAAATTATTAA-CTAAACA
*
34064082 TTAAATTTATTAACTAAA
1 TTAAAATTATTAACTAAA
34064100 AAGGCTGCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (20 bp):
TTAAAATTATTAACTAAACA
Found at i:34069069 original size:18 final size:20
Alignment explanation
Indices: 34069046--34069085 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
34069036 TTTTCCTCAA
*
34069046 AAGAAAT-AGAA-TTTTATT
1 AAGAAATAAGAAGTTTGATT
34069064 AAGAAATAAGAAGTTTGATT
1 AAGAAATAAGAAGTTTGATT
34069084 AA
1 AA
34069086 CTAAAAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 4 0.21
20 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.33
Consensus pattern (20 bp):
AAGAAATAAGAAGTTTGATT
Found at i:34083893 original size:21 final size:21
Alignment explanation
Indices: 34083868--34083910 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
34083858 TGTAATCTTT
*
34083868 ACAGAGAAC-AAATGAATACAA
1 ACAGAGAACGAAATCAAT-CAA
34083889 ACAGAGAACGAAATCAATCAA
1 ACAGAGAACGAAATCAATCAA
34083910 A
1 A
34083911 GTATCAAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.60, C:0.16, G:0.14, T:0.09
Consensus pattern (21 bp):
ACAGAGAACGAAATCAATCAA
Found at i:34085066 original size:3 final size:3
Alignment explanation
Indices: 34085060--34085126 Score: 55
Period size: 3 Copynumber: 22.3 Consensus size: 3
34085050 TGTTTAGTAG
* ** * *
34085060 TAT TAT TAT TAT TAT TAC TAT TAT CCT TAC TAT TAT TAT TTT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
34085107 TCAT TAA TAT TAT TGT TAT T
1 T-AT TAT TAT TAT TAT TAT T
34085127 GTTGTTGGGT
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
2 2 0.04
3 43 0.90
4 3 0.06
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:34085117 original size:24 final size:27
Alignment explanation
Indices: 34085063--34085126 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 27
34085053 TTAGTAGTAT
* *
34085063 TATTATTATTATTACTATTATCCTTAC
1 TATTATTATTATTACTATTATCATTAA
*
34085090 TATTATTATTTTTA-TA-T-TCATTAA
1 TATTATTATTATTACTATTATCATTAA
*
34085114 TATTATTGTTATT
1 TATTATTATTATT
34085127 GTTGTTGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 16 0.50
25 1 0.03
26 2 0.06
27 13 0.41
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.61
Consensus pattern (27 bp):
TATTATTATTATTACTATTATCATTAA
Found at i:34085346 original size:15 final size:15
Alignment explanation
Indices: 34085323--34085354 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
34085313 TGTTTATATA
*
34085323 TTATGTTATTTTATT
1 TTATCTTATTTTATT
34085338 TTATCTTATTTTATT
1 TTATCTTATTTTATT
34085353 TT
1 TT
34085355 CCACATATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (15 bp):
TTATCTTATTTTATT
Found at i:34086752 original size:19 final size:21
Alignment explanation
Indices: 34086714--34086752 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
34086704 CCCTTTTTAA
*
34086714 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
34086735 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
34086753 AAAGAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:34086980 original size:21 final size:21
Alignment explanation
Indices: 34086954--34087008 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
34086944 AATCATATCT
34086954 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
34086975 TCTAAGATTGCATATATCATA
1 TCTAAGATTGTATATATCATA
34086996 TCTAAGATTGTAT
1 TCTAAGATTGTAT
34087009 GTCCTCGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:34093848 original size:47 final size:47
Alignment explanation
Indices: 34093779--34093872 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
34093769 AAGACAACAG
*
34093779 AATGTATGAATTATTTAATAAAATGAGTAGGAGCTGTGGCATGTCCA
1 AATGTATGAAGTATTTAATAAAATGAGTAGGAGCTGTGGCATGTCCA
34093826 AATGTATGAAGTATTTAATAAAATGAGTAGGAGCTGTGGCATGTCCA
1 AATGTATGAAGTATTTAATAAAATGAGTAGGAGCTGTGGCATGTCCA
34093873 TCAAACTTCC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (47 bp):
AATGTATGAAGTATTTAATAAAATGAGTAGGAGCTGTGGCATGTCCA
Found at i:34100114 original size:23 final size:23
Alignment explanation
Indices: 34100087--34100150 Score: 119
Period size: 23 Copynumber: 2.8 Consensus size: 23
34100077 GCTTTGCCGA
34100087 TCAGGCACTTTATGTGTCGAATC
1 TCAGGCACTTTATGTGTCGAATC
*
34100110 TCAGGCACTTTATGTGTCGTATC
1 TCAGGCACTTTATGTGTCGAATC
34100133 TCAGGCACTTTATGTGTC
1 TCAGGCACTTTATGTGTC
34100151 ATATCAGGCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGAATC
Found at i:34100140 original size:46 final size:43
Alignment explanation
Indices: 34100087--34100192 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 43
34100077 GCTTTGCCGA
* * *
34100087 TCAGGCACTTTATGTGTCGAATCTCAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCG-ATATCAGGCACCTCATGTGTCGT-T
*
34100132 CTCAGGCACTTTATGTGTC-ATATCAGGCACCTCGTGTGTCGTT
1 -TCAGGCACTTTATGTGTCGATATCAGGCACCTCATGTGTCGTT
*
34100175 TCAGACAC-TTATGTGTCG
1 TCAGGCACTTTATGTGTCG
34100193 TATACTGATC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
41 9 0.17
42 7 0.13
43 1 0.02
44 19 0.35
46 18 0.33
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (43 bp):
TCAGGCACTTTATGTGTCGATATCAGGCACCTCATGTGTCGTT
Found at i:34100159 original size:21 final size:22
Alignment explanation
Indices: 34100086--34100192 Score: 112
Period size: 23 Copynumber: 4.9 Consensus size: 22
34100076 GGCTTTGCCG
34100086 ATCAGGCACTTTATGTGTCGAAT
1 ATCAGGCACTTTATGTGTCG-AT
*
34100109 CTCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCG-AT
*
34100132 CTCAGGCACTTTATGTGTC-AT
1 ATCAGGCACTTTATGTGTCGAT
* **
34100153 ATCAGGCACCTCGTGTGTCG-T
1 ATCAGGCACTTTATGTGTCGAT
* *
34100174 TTCAGACAC-TTATGTGTCG
1 ATCAGGCACTTTATGTGTCG
34100193 TATACTGATC
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
20 8 0.11
21 25 0.34
23 40 0.55
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (22 bp):
ATCAGGCACTTTATGTGTCGAT
Found at i:34100470 original size:17 final size:18
Alignment explanation
Indices: 34100444--34100477 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
34100434 GGATATGTGA
*
34100444 TATTGATTGATATATTGT
1 TATTGATTGAAATATTGT
34100462 TATTG-TTGAAATATTG
1 TATTGATTGAAATATTG
34100478 AATTAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (18 bp):
TATTGATTGAAATATTGT
Found at i:34101799 original size:21 final size:21
Alignment explanation
Indices: 34101775--34101815 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
34101765 TAACGAGACC
*
34101775 GCTGATGTGGCAAGTTAACTA
1 GCTGACGTGGCAAGTTAACTA
*
34101796 GCTGACGTGGCCAGTTAACT
1 GCTGACGTGGCAAGTTAACT
34101816 TACCACGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (21 bp):
GCTGACGTGGCAAGTTAACTA
Found at i:34102740 original size:37 final size:38
Alignment explanation
Indices: 34102674--34102749 Score: 136
Period size: 37 Copynumber: 2.0 Consensus size: 38
34102664 TAAAAGGTTT
34102674 ACATTGGTGCTGATAGGGTTGTTTATCCTCTTCTTCTTC
1 ACATTGGTGCTGATA-GGTTGTTTATCCTCTTCTTCTTC
34102713 ACATTGGTGCTGAT-GGTTGTTTATCCTCTTCTTCTTC
1 ACATTGGTGCTGATAGGTTGTTTATCCTCTTCTTCTTC
34102750 TTCTTCTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 23 0.62
39 14 0.38
ACGTcount: A:0.12, C:0.21, G:0.20, T:0.47
Consensus pattern (38 bp):
ACATTGGTGCTGATAGGTTGTTTATCCTCTTCTTCTTC
Found at i:34107020 original size:17 final size:19
Alignment explanation
Indices: 34106979--34107021 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
34106969 ACATCATTAA
*
34106979 AAATAATATAATATATAAT
1 AAATAATAAAATATATAAT
*
34106998 ATATAATAAAAT-TAT-AT
1 AAATAATAAAATATATAAT
34107015 AAATAAT
1 AAATAAT
34107022 TTAATATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 8 0.38
18 3 0.14
19 10 0.48
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATAATAAAATATATAAT
Found at i:34112387 original size:25 final size:25
Alignment explanation
Indices: 34112347--34112463 Score: 101
Period size: 25 Copynumber: 4.7 Consensus size: 25
34112337 CATGTAAACG
* * *
34112347 GGAAGCTCTTCCGAGCTATATAACA
1 GGAAGCTCATGCGAGCTAAATAACA
* * *
34112372 GGAAGCTTATGTGAGCTAAAAAAC-
1 GGAAGCTCATGCGAGCTAAATAACA
* ** * *
34112396 GGAAAGCTCATGCGAGTTGTATATCG
1 GG-AAGCTCATGCGAGCTAAATAACA
*
34112422 GGAAGCTCATGCGAGCTAAATATCA
1 GGAAGCTCATGCGAGCTAAATAACA
*
34112447 GGAAGCTCATGAGAGCT
1 GGAAGCTCATGCGAGCT
34112464 GTCGTGTGTC
Statistics
Matches: 72, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
24 2 0.03
25 68 0.94
26 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.22
Consensus pattern (25 bp):
GGAAGCTCATGCGAGCTAAATAACA
Found at i:34115535 original size:50 final size:50
Alignment explanation
Indices: 34115472--34115580 Score: 130
Period size: 50 Copynumber: 2.2 Consensus size: 50
34115462 GGTCACCGAT
* * * * *
34115472 TTCAGCTCTTATGAACTTCCTGA-TACTCAACTCTCATGAGCTTCCTGTTA
1 TTCAGCTCGTATGAACTTCC-CATTACTCAACTCACACGAGCTTCCCGTTA
* * *
34115522 TTCAGCTCGTATGAGCTTCCCATTATTCAGCTCACACGAGCTTCCCGTTA
1 TTCAGCTCGTATGAACTTCCCATTACTCAACTCACACGAGCTTCCCGTTA
34115572 TTCAGCTCG
1 TTCAGCTCG
34115581 GAAGAGCTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
49 1 0.02
50 49 0.98
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (50 bp):
TTCAGCTCGTATGAACTTCCCATTACTCAACTCACACGAGCTTCCCGTTA
Found at i:34115547 original size:25 final size:25
Alignment explanation
Indices: 34115472--34115611 Score: 115
Period size: 25 Copynumber: 5.6 Consensus size: 25
34115462 GGTCACCGAT
* * * *
34115472 TTCAGCTCTTATGAACTTCCTGATA
1 TTCAGCTCGTATGAGCTTCCCGTTA
* * *
34115497 CTCAACTC-TCATGAGCTTCCTGTTA
1 TTCAGCTCGT-ATGAGCTTCCCGTTA
*
34115522 TTCAGCTCGTATGAGCTTCCCATTA
1 TTCAGCTCGTATGAGCTTCCCGTTA
** *
34115547 TTCAGCTCACACGAGCTTCCCGTTA
1 TTCAGCTCGTATGAGCTTCCCGTTA
* * *
34115572 TTCAGCTCGGAAGAGCTTACCGTT-
1 TTCAGCTCGTATGAGCTTCCCGTTA
34115596 TAT-AGCTCGTATGAGC
1 T-TCAGCTCGTATGAGC
34115612 ATACATGTAC
Statistics
Matches: 94, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
24 13 0.14
25 80 0.85
26 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (25 bp):
TTCAGCTCGTATGAGCTTCCCGTTA
Found at i:34116954 original size:40 final size:40
Alignment explanation
Indices: 34116894--34117033 Score: 151
Period size: 40 Copynumber: 3.5 Consensus size: 40
34116884 AACACACCAG
* * *
34116894 TTTGGCACCCAGTGCCTCATCGGATAATTCAAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
* * * *
34116934 TTTGACACCAAGTGTCTCATCGGCTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
* *
34116972 -TTGGCACCCAGTGCCTCATCGAATATATCCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATA-ATCCGAAGTAATAA
* *
34117012 ATTGACACCCAGTGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
34117034 ACTCGATGTC
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
37 20 0.25
38 10 0.12
39 2 0.02
40 30 0.37
41 19 0.23
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
Found at i:34117021 original size:41 final size:40
Alignment explanation
Indices: 34116899--34117034 Score: 143
Period size: 41 Copynumber: 3.5 Consensus size: 40
34116889 ACCAGTTTGG
* * * *
34116899 CACCCAGTGCCTCATCGGATAATTCAAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGAATAATCCGAAGTAATAAATTGA
* * ** * *
34116939 CACCAAGTGTCTCATCGGCTAAACCGAAG---TAAATTGG
1 CACCCAGTGCCTCATCGAATAATCCGAAGTAATAAATTGA
34116976 CACCCAGTGCCTCATCGAATATATCCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAATA-ATCCGAAGTAATAAATTGA
*
34117017 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
34117035 CTCGATGTCG
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
37 23 0.30
38 7 0.09
40 23 0.30
41 24 0.31
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGAATAATCCGAAGTAATAAATTGA
Found at i:34117998 original size:22 final size:21
Alignment explanation
Indices: 34117961--34118018 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
34117951 CTTTCTATTC
34117961 TTTA-TTTATT-TCATTTACTT
1 TTTATTTTATTAT-ATTTACTT
34117981 ATTTATTTTATTATATTTACTT
1 -TTTATTTTATTATATTTACTT
*
34118003 TATTATTATATTATAT
1 T-TTATTTTATTATAT
34118019 ATATTTGCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
21 5 0.15
22 27 0.82
23 1 0.03
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTATTTTATTATATTTACTT
Found at i:34117999 original size:14 final size:14
Alignment explanation
Indices: 34117960--34118008 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
34117950 TCTTTCTATT
34117960 CTTTATT-TATTT-
1 CTTTATTATATTTA
*
34117972 CATTTACT-TATTTA
1 C-TTTATTATATTTA
*
34117986 TTTTATTATATTTA
1 CTTTATTATATTTA
34118000 CTTTATTAT
1 CTTTATTAT
34118009 TATATTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 1 0.03
13 15 0.50
14 14 0.47
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.67
Consensus pattern (14 bp):
CTTTATTATATTTA
Found at i:34119601 original size:17 final size:17
Alignment explanation
Indices: 34119579--34119618 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
34119569 TTGGGTTTTA
*
34119579 TTATTTATTTTTGGTT-T
1 TTATTT-TTTTTGCTTAT
34119596 TTATTTTTTTTGCTTAT
1 TTATTTTTTTTGCTTAT
34119613 TTATTT
1 TTATTT
34119619 CTGATTTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.12, C:0.03, G:0.07, T:0.78
Consensus pattern (17 bp):
TTATTTTTTTTGCTTAT
Found at i:34120232 original size:45 final size:45
Alignment explanation
Indices: 34119973--34120781 Score: 495
Period size: 45 Copynumber: 17.8 Consensus size: 45
34119963 TTGCAGCTTT
* * * * * * *
34119973 AATCTGTTCCACTGCAA-TTTAGGGAAATAAGATTCGTTGTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATTTTC
*
34120017 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATGGCACATTT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT------TTTC
* * ** * * *
34120067 AATCCGAC-CCATTGCAACTTCAGAGG-TTTAGGA-TT--TAGTTTG
1 AATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATTTGCTATTTTC
** * * *
34120109 AATCTGCTCTGCTGGAACTTCAGGGAAATACA-ATTTG-TAGCTTT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATA-AGATTTGCTA-TTTTC
* * **
34120153 AATCTGCACCACTGTAACTTCAGGGTTATAAGATTTGCTATTTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATTTTC
* * * *
34120198 AATTTGCTCCACCGCAACTTCAGGGAAATAAGATTTTCTATTTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATTTTC
* * *
34120243 AATCTGCTTCACTGCAACTTCAGGGAGATAAGGTTTG-TAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCT-A--T-T---TTC
** * * * * *
34120294 AATCTTTTCCACGGCAACTTCAGGGAAATAAGATTCGATATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATTTTC
* * **
34120339 AATCTGCTCCACTACAACTTCAGGGAGATGAGATTTG-TAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATTTTC
* * *
34120383 AATCTGCTCCATTGCAACTTCAAGGAGATAAGATTTG-TAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCT-A--T-T---TTC
* * * * *
34120434 AATCTGTTCCACTACAACTTTTA-GGAAATAAGATTTGCTATCTAT-
1 AATCTGCTCCACTGCAAC-TTCAGGGAGATAAGATTTGCTAT-TTTC
* * * ** *
34120479 AATCTGTTCCACTGCAAGTTCATGGAGATAAGATTCACTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATTTTC
* * * *
34120524 AATCTGCTTCACTGCAACTTTAGAGAGATAAGATTTGCTATATTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATTTTC
* * * *
34120569 AATCTGATCCACTGTAACTTCAGGGAAATAAGATTTTCTATTTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATTTTC
* * * * * *
34120614 AATCTGCTCTACTGTAACTTTAAGGAGATAAGGTTTTCTATCTTT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT-TTTC
* * ** *
34120659 AATCTGCTCCACTGTAACTTCAGGGTGATAAGATTTTTTGTTTT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATTTTC
* * * * **
34120703 AATCTGCTCCTCTGTAACTTTAGAGAGATAAGATTTG-TGGCTTT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCT-ATTTTC
*
34120747 AATCTGCTCCACTCCAACTTCAGGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
34120782 CGCCACGATG
Statistics
Matches: 600, Mismatches: 125, Indels: 80
0.75 0.16 0.10
Matches are distributed among these distances:
41 6 0.01
42 19 0.03
43 4 0.01
44 163 0.27
45 299 0.50
46 4 0.01
47 3 0.00
48 1 0.00
49 5 0.01
50 22 0.04
51 69 0.12
52 5 0.01
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATTTTC
Found at i:34120318 original size:141 final size:141
Alignment explanation
Indices: 34120143--34120781 Score: 630
Period size: 141 Copynumber: 4.6 Consensus size: 141
34120133 GAAATACAAT
** * ** *
34120143 TTGTAGCTTTAATCTGCACCACTGTAACTTCAGGGTTATAAGATTTGCTATTTTCAATTTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATTTTCAATCTGCTCC
* * * *
34120208 ACCGCAACTTCAGGGAAATAAGATTTTCTATTTTCAATCTGCTTCACTGCAACTTCAGGGAGATA
66 ACTGCAACTTCAGGGAGATAAGATTTTCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
*
34120273 AGGTTTGTAAC
131 AGATTTGTAAC
* * * * *
34120284 TTGTAGCTTTAATCTTTTCCACGGCAACTTCAGGGAAATAAGATTCGATATCTTCAATCTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATTTTCAATCTGCTCC
* * * * * *
34120349 ACTACAACTTCAGGGAGATGAGA-TTTGTAGCTTCAATCTGCTCCATTGCAACTTCAAGGAGATA
66 ACTGCAACTTCAGGGAGATAAGATTTTCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
34120413 AGATTTGTAAC
131 AGATTTGTAAC
* * * *
34120424 TTGTAGCTTTAATCTGTTCCACTACAACTTTTA-GGAAATAAGATTTGCTATCTAT-AATCTGTT
1 TTGTAGCTTTAATCTGTTCCACTGCAAC-TTCAGGGAAATAAGATTTGCTAT-TTTCAATCTGCT
* * ** * * *
34120487 CCACTGCAAGTTCATGGAGATAAGATTCACTATCTTCAATCTGCTTCACTGCAACTTTAGAGAGA
64 CCACTGCAACTTCAGGGAGATAAGATTTTCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGA
34120552 TAAGATTTG---C
129 TAAGATTTGTAAC
* * * * * *
34120562 -TATA--TTCAATCTGATCCACTGTAACTTCAGGGAAATAAGATTTTCTATTTTCAATCTGCTCT
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATTTTCAATCTGCTCC
* * * * * * *
34120624 ACTGTAACTTTAAGGAGATAAGGTTTTCTATCTTTAATCTGCTCCACTGTAACTTCAGGGTGATA
66 ACTGCAACTTCAGGGAGATAAGATTTTCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
34120689 AGATTT-T---
131 AGATTTGTAAC
* * * * * * **
34120696 TTGT---TTTAATCTGCTCCTCTGTAACTTTAGAGAGATAAGATTTG-TGGCTTT-AATCTGCTC
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCT-ATTTTCAATCTGCTC
*
34120756 CACTCCAACTTCAGGGAGATAAGATT
65 CACTGCAACTTCAGGGAGATAAGATT
34120782 CGCCACGATG
Statistics
Matches: 407, Mismatches: 83, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
133 30 0.07
134 41 0.10
135 102 0.25
137 3 0.01
138 1 0.00
140 114 0.28
141 116 0.29
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (141 bp):
TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATTTTCAATCTGCTCC
ACTGCAACTTCAGGGAGATAAGATTTTCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
AGATTTGTAAC
Found at i:34120402 original size:185 final size:180
Alignment explanation
Indices: 34120124--34120781 Score: 591
Period size: 185 Copynumber: 3.6 Consensus size: 180
34120114 GCTCTGCTGG
* * * * * * **
34120124 AACTTCAGGGAAATACA-ATTTG-TAGCTTTAATCTGCACCACTGTAACTTCAGGGTTATAAGAT
1 AACTTCAGGGAAATA-AGATTCGATATCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGAT
** * *
34120187 TTGCTATTTTCAATTTGCTCCACCGCAACTTCAGGGAAATAAGATTTTCTATTTTCAATCTGCTT
65 TTGCTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTTCTATTTTCAATCTGCTT
* * * *
34120252 CACTGCAACTTCAGGGAGATAAGGTTTGTAACTTGTAGCTTTAATCTTTTCCACGGC
130 CACTGCAACTTTA-GGAGATAAGGTTTGT--C---TATCTTTAATCTGTTCCACTGC
* * *
34120309 AACTTCAGGGAAATAAGATTCGATATCTTCAATCTGCTCCACTACAACTTCAGGGAGATGAGATT
1 AACTTCAGGGAAATAAGATTCGATATCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
* * * *
34120374 TG-TAGCTTCAATCTGCTCCATTGCAACTTCAAGGAGATAAGATTTGTAACT-TGTAGCTTTAAT
66 TGCTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTT-T--CTAT-T---TTCAAT
* * * *
34120437 CTG-TTCCACTACAACTTTTAGGAAATAAGATTTG-CTATCTATAATCTGTTCCACTGC
124 CTGCTT-CACTGCAAC-TTTAGGAGATAAGGTTTGTCTATCTTTAATCTGTTCCACTGC
* * * * *
34120494 AAGTTCATGGAGATAAGATTC-ACTATCTTCAATCTGCTTCACTGCAACTTTAGAGAGATAAGAT
1 AACTTCAGGGAAATAAGATTCGA-TATCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGAT
** * *
34120558 TTGCTATATTCAATCTGATCCACTGTAACTTCAGGGAAATAAGATTTTCTATTTTCAATCTGC-T
65 TTGCTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTTCTATTTTCAATCTGCTT
* * *
34120622 CTACTGTAACTTTAAGGAGATAAGGTTT-TCTATCTTTAATCTGCTCCACTGT
130 C-ACTGCAACTTT-AGGAGATAAGGTTTGTCTATCTTTAATCTGTTCCACTGC
** *** * * * * *
34120674 AACTTCAGGGTGATAAGATTTTTTGT-TTTAATCTGCTCCTCTGTAACTTTAGAGAGATAAGATT
1 AACTTCAGGGAAATAAGATTCGATATCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
* * * *
34120738 TG-TGGCTTTAATCTGCTCCACTCCAACTTCAGGGAGATAAGATT
66 TGCTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATT
34120782 CGCCACGATG
Statistics
Matches: 388, Mismatches: 66, Indels: 45
0.78 0.13 0.09
Matches are distributed among these distances:
178 34 0.09
179 40 0.10
180 66 0.17
183 3 0.01
184 3 0.01
185 131 0.34
186 73 0.19
187 1 0.00
188 4 0.01
190 2 0.01
191 28 0.07
192 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (180 bp):
AACTTCAGGGAAATAAGATTCGATATCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
TGCTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTTCTATTTTCAATCTGCTTC
ACTGCAACTTTAGGAGATAAGGTTTGTCTATCTTTAATCTGTTCCACTGC
Found at i:34120452 original size:51 final size:51
Alignment explanation
Indices: 34120373--34120470 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 51
34120363 GAGATGAGAT
* * *
34120373 TTGTAGCTTCAATCTGCTCCATTGCAACTTCAAGGAGATAAGATTTGTAAC
1 TTGTAGCTTCAATCTGCTCCACTACAACTTCAAGGAAATAAGATTTGTAAC
* * **
34120424 TTGTAGCTTTAATCTGTTCCACTACAACTTTTAGGAAATAAGATTTG
1 TTGTAGCTTCAATCTGCTCCACTACAACTTCAAGGAAATAAGATTTG
34120471 CTATCTATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (51 bp):
TTGTAGCTTCAATCTGCTCCACTACAACTTCAAGGAAATAAGATTTGTAAC
Found at i:34134620 original size:20 final size:20
Alignment explanation
Indices: 34134592--34134631 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
34134582 TTAGTCATAT
*
34134592 GCACACACACGCGCACGCAC
1 GCACACACACGCACACGCAC
*
34134612 GCACGCACACGCACACGCAC
1 GCACACACACGCACACGCAC
34134632 ACATTAGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.50, G:0.20, T:0.00
Consensus pattern (20 bp):
GCACACACACGCACACGCAC
Found at i:34137875 original size:62 final size:62
Alignment explanation
Indices: 34137751--34137877 Score: 148
Period size: 62 Copynumber: 2.0 Consensus size: 62
34137741 TCCTAAATAT
* * * * ** *
34137751 AAAAACTTCAATAAATTTAGTCCTCAATGTTTACAAATTTTGTCATTTTAGTTGTAATTCTA
1 AAAAAATTCAATAAATTTAGCCCTCAATATTTACAAATTTTGTCAATTTAGTCCTAACTCTA
* * *
34137813 AAAAAATTCAATAAATTTGGCCCTTAGTATTTACAAAATTTT-TCAATTTAGTCCTAACTCTA
1 AAAAAATTCAATAAATTTAGCCCTCAATATTTAC-AAATTTTGTCAATTTAGTCCTAACTCTA
34137875 AAA
1 AAA
34137878 TTTAAAAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
62 47 0.87
63 7 0.13
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (62 bp):
AAAAAATTCAATAAATTTAGCCCTCAATATTTACAAATTTTGTCAATTTAGTCCTAACTCTA
Found at i:34138882 original size:5 final size:5
Alignment explanation
Indices: 34138872--34138898 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
34138862 GAGGAGAATA
34138872 GGGAT GGGAT GGGAT GGGAT GGGAT GG
1 GGGAT GGGAT GGGAT GGGAT GGGAT GG
34138899 CAGTGAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.63, T:0.19
Consensus pattern (5 bp):
GGGAT
Found at i:34145778 original size:30 final size:30
Alignment explanation
Indices: 34145739--34145824 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
34145729 AAATATTTCT
* *
34145739 ACACAGGCTGGCCAAACGCCCGTGTGAGCC
1 ACACGGGCTGGCCACACGCCCGTGTGAGCC
34145769 ACACGGGCTGGCCACACGCCCGTGTGAGCC
1 ACACGGGCTGGCCACACGCCCGTGTGAGCC
34145799 ACACGGGCTGGCCACACGCCCGTGTG
1 ACACGGGCTGGCCACACGCCCGTGTG
34145825 CCAGCCCGTG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.19, C:0.38, G:0.33, T:0.10
Consensus pattern (30 bp):
ACACGGGCTGGCCACACGCCCGTGTGAGCC
Found at i:34145784 original size:13 final size:13
Alignment explanation
Indices: 34145766--34145816 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 13
34145756 GCCCGTGTGA
34145766 GCCACACGGGCTG
1 GCCACACGGGCTG
34145779 GCCACACGCCCGTG-TG
1 GCCACACG---G-GCTG
34145795 AGCCACACGGGCTG
1 -GCCACACGGGCTG
34145809 GCCACACG
1 GCCACACG
34145817 CCCGTGTGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.53
14 3 0.09
16 3 0.09
17 9 0.28
ACGTcount: A:0.18, C:0.41, G:0.33, T:0.08
Consensus pattern (13 bp):
GCCACACGGGCTG
Found at i:34145801 original size:17 final size:17
Alignment explanation
Indices: 34145749--34145803 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
34145739 ACACAGGCTG
*
34145749 GCCAAACGCCCGTGTGA
1 GCCACACGCCCGTGTGA
34145766 GCCACACG---G-GCTG-
1 GCCACACGCCCGTG-TGA
34145779 GCCACACGCCCGTGTGA
1 GCCACACGCCCGTGTGA
34145796 GCCACACG
1 GCCACACG
34145804 GGCTGGCCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
13 9 0.29
14 3 0.10
16 3 0.10
17 16 0.52
ACGTcount: A:0.20, C:0.40, G:0.31, T:0.09
Consensus pattern (17 bp):
GCCACACGCCCGTGTGA
Found at i:34146920 original size:5 final size:6
Alignment explanation
Indices: 34146898--34146933 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
34146888 TAATTCAAAC
*
34146898 ATTTTT ATTTTT GTTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
34146934 TGCATTCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:34148284 original size:4 final size:4
Alignment explanation
Indices: 34148275--34148312 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
34148265 GAAGAAGAAG
*
34148275 AAGA AAGA AACA AAGA AAGA AAGA AAGA AAGA AA-A AAG
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAG
34148313 GTAATGTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 3 0.10
4 28 0.90
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:34148539 original size:58 final size:60
Alignment explanation
Indices: 34148475--34148591 Score: 211
Period size: 58 Copynumber: 2.0 Consensus size: 60
34148465 TTTCTTTTTA
*
34148475 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAA-T-TTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTATTGTGTTTG
34148533 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTATTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTATTGTGTTT
34148592 AGTTTAGTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
58 47 0.84
59 1 0.02
60 8 0.14
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTATTGTGTTTG
Found at i:34149017 original size:20 final size:22
Alignment explanation
Indices: 34148967--34149018 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
34148957 GGCACGAATC
*
34148967 AATTTTTTATATTAAAAATATT
1 AATTTTTTATAATAAAAATATT
*
34148989 -TTTTGTTTA-AAT-AAAATATT
1 AATTT-TTTATAATAAAAATATT
34149009 AATTTTTTAT
1 AATTTTTTAT
34149019 TTTTATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 7
0.71 0.09 0.21
Matches are distributed among these distances:
20 12 0.50
21 8 0.33
22 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
AATTTTTTATAATAAAAATATT
Found at i:34149279 original size:15 final size:16
Alignment explanation
Indices: 34149240--34149278 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
34149230 TTAACTCATT
*
34149240 TAATTTTTATATAATG
1 TAATTTTTAAATAATG
34149256 TAATTTTTAAATAATG
1 TAATTTTTAAATAATG
34149272 TAATTTT
1 TAATTTT
34149279 ATTTGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (16 bp):
TAATTTTTAAATAATG
Found at i:34151204 original size:18 final size:18
Alignment explanation
Indices: 34151150--34151224 Score: 100
Period size: 18 Copynumber: 4.2 Consensus size: 18
34151140 TTTTGTTGAC
34151150 ATTTTATTTATCAATTTTA
1 ATTTTATTTATCAA-TTTA
* **
34151169 ATTTT-TTT-GCCTTTTA
1 ATTTTATTTATCAATTTA
34151185 ATTTTATTTATCAATTTA
1 ATTTTATTTATCAATTTA
34151203 ATTTTATTTATCAATTTA
1 ATTTTATTTATCAATTTA
34151221 ATTT
1 ATTT
34151225 ATGTTGCCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
16 9 0.19
17 4 0.08
18 30 0.62
19 5 0.10
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (18 bp):
ATTTTATTTATCAATTTA
Found at i:34151226 original size:35 final size:35
Alignment explanation
Indices: 34151150--34151224 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
34151140 TTTTGTTGAC
**
34151150 ATTTTATTTATCAATTTTAATTTTTTTGCCTTTTA
1 ATTTTATTTATCAATTTTAATTTTTTTGCAATTTA
*
34151185 ATTTTATTTATCAA-TTTAATTTTATTTATCAATTTA
1 ATTTTATTTATCAATTTTAATTTT-TTT-GCAATTTA
34151221 ATTT
1 ATTT
34151225 ATGTTGCCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
34 9 0.26
35 17 0.49
36 9 0.26
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (35 bp):
ATTTTATTTATCAATTTTAATTTTTTTGCAATTTA
Found at i:34154590 original size:49 final size:50
Alignment explanation
Indices: 34154536--34154642 Score: 148
Period size: 50 Copynumber: 2.2 Consensus size: 50
34154526 TTTATTAAAA
34154536 TAAAAAAATTAATATAAAATA-TCATTGACGCCTGTT-AGATAGGCGT-CAC
1 TAAAAAAATTAATATAAAATATTCATTGACGCCT-TTCAGATAGGC-TCCAC
* * *
34154585 TAAAAAAATTAATATAAAATATTTATTGGCGCCTTTCAGATAGGCTCCAT
1 TAAAAAAATTAATATAAAATATTCATTGACGCCTTTCAGATAGGCTCCAC
34154635 TAAAAAAA
1 TAAAAAAA
34154643 CATATCATTT
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
49 24 0.46
50 28 0.54
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (50 bp):
TAAAAAAATTAATATAAAATATTCATTGACGCCTTTCAGATAGGCTCCAC
Found at i:34155845 original size:19 final size:19
Alignment explanation
Indices: 34155821--34155864 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
34155811 AGGATGAGTA
34155821 TTATCACTCTATTCAAAAT
1 TTATCACTCTATTCAAAAT
34155840 TTATCACTCTATTCAAAAT
1 TTATCACTCTATTCAAAAT
34155859 TTATCA
1 TTATCA
34155865 TTCCTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.43
Consensus pattern (19 bp):
TTATCACTCTATTCAAAAT
Found at i:34158204 original size:32 final size:32
Alignment explanation
Indices: 34158153--34158213 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
34158143 CATGTACATA
*
34158153 TATAAAAAAATTATATACATATATATATAGAT
1 TATAAAAAAATAATATACATATATATATAGAT
34158185 TATAAAAAAGATAAT-TACATATATATATA
1 TATAAAAAA-ATAATATACATATATATATA
34158214 AACAAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
32 23 0.85
33 4 0.15
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.36
Consensus pattern (32 bp):
TATAAAAAAATAATATACATATATATATAGAT
Found at i:34158394 original size:17 final size:17
Alignment explanation
Indices: 34158372--34158415 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
34158362 TAGGAAATAA
34158372 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
34158389 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
34158406 -ATATGTATAT
1 AAAATGTATAT
34158416 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:34158547 original size:3 final size:3
Alignment explanation
Indices: 34158539--34158580 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
34158529 GTATATATAG
* * *
34158539 TAA TAA TAA TAA TAA TGA CAA TAA TAA TAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
34158581 GAACTTAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:34158561 original size:12 final size:12
Alignment explanation
Indices: 34158539--34158580 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
34158529 GTATATATAG
*
34158539 TAATAATAATAA
1 TAATAACAATAA
*
34158551 TAATGACAATAA
1 TAATAACAATAA
34158563 TAATAACAATAA
1 TAATAACAATAA
34158575 TAATAA
1 TAATAA
34158581 GAACTTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (12 bp):
TAATAACAATAA
Found at i:34158913 original size:21 final size:23
Alignment explanation
Indices: 34158887--34158931 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
34158877 AAAGGGTATC
*
34158887 TACAAATTAA-AT-CTCTAAGAT
1 TACAAAATAATATGCTCTAAGAT
*
34158908 TACAAAATAATATGTTCTAAGAT
1 TACAAAATAATATGCTCTAAGAT
34158931 T
1 T
34158932 GCATATCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 2 0.10
23 9 0.45
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.36
Consensus pattern (23 bp):
TACAAAATAATATGCTCTAAGAT
Found at i:34158947 original size:19 final size:20
Alignment explanation
Indices: 34158923--34158970 Score: 80
Period size: 21 Copynumber: 2.4 Consensus size: 20
34158913 AATAATATGT
34158923 TCTAAGATTGC-ATATCATA
1 TCTAAGATTGCAATATCATA
34158942 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATA
34158963 TCTAAGAT
1 TCTAAGAT
34158971 CATATCTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 11 0.41
21 16 0.59
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:34158990 original size:14 final size:12
Alignment explanation
Indices: 34158957--34158982 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34158947 GATTGCATAT
34158957 ATCATATCTAAG
1 ATCATATCTAAG
34158969 ATCATATCTAAG
1 ATCATATCTAAG
34158981 AT
1 AT
34158983 TACATATCCT
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:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATCATATCTAAG
Found at i:34159828 original size:44 final size:43
Alignment explanation
Indices: 34159770--34159935 Score: 176
Period size: 44 Copynumber: 3.8 Consensus size: 43
34159760 ATCTGCTATT
*
34159770 TTCAACCTACTCCACTGCTG-CTCAGGGAGATAGGACCTACAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGA-CTACAATC
* *
34159814 TTCAATCTATTCCACTGCTG-CCTAGGGAGATAGAATTCT-CAATC
1 TTCAACCTATTCCACTGCTGACC-AGGGAGATAGGA--CTACAATC
* * * * *
34159858 TTTAACTTATTCCACTGCTGACCAGAGAGATATGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACT-ACAATC
*
34159902 TTTAACCTATTCCACTGCTGACCAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
34159936 GTTGGGGTCA
Statistics
Matches: 103, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 97 0.94
45 4 0.04
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTACAATC
Found at i:34160061 original size:88 final size:88
Alignment explanation
Indices: 34159946--34160252 Score: 515
Period size: 88 Copynumber: 3.5 Consensus size: 88
34159936 GTTGGGGTCA
* *
34159946 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGGTCTGCTATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAAC
*
34160011 CTAAGGAGGCAAGGCTGGTGTCT
66 CTAGGGAGGCAAGGCTGGTGTCT
* * * * *
34160034 TCGATCTACTTCGCTGTCGGTGTAGGAAGGCAAGATCTACTATTTTTAGTCTGCCCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAAC
*
34160099 CCAGGGAGGCAAGGCTGGTGTCT
66 CTAGGGAGGCAAGGCTGGTGTCT
*
34160122 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGTAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAAC
34160187 CTAGGGAGGCAAGGCTGGTGTCT
66 CTAGGGAGGCAAGGCTGGTGTCT
*
34160210 TTGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAT
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAT
34160253 CTTCGATCTA
Statistics
Matches: 201, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 201 1.00
ACGTcount: A:0.18, C:0.24, G:0.30, T:0.28
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAAC
CTAGGGAGGCAAGGCTGGTGTCT
Found at i:34160137 original size:43 final size:43
Alignment explanation
Indices: 34160090--34160225 Score: 112
Period size: 44 Copynumber: 3.1 Consensus size: 43
34160080 TAGTCTGCCC
*
34160090 CGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTT
1 CGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTT
**** * * * * * * * *
34160133 CGCTGTCGGTGCAGGAAGGTAAGATCTGCTAT-TTTTAGCCTGCTC
1 CGCTG-CAACCCAGGGAGGCAAG-GCTGGTGTCTTTGA-TCTGCTT
*
34160178 CGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTT
1 CGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTT
34160221 CGCTG
1 CGCTG
34160226 TCGGTGCAGG
Statistics
Matches: 63, Mismatches: 26, Indels: 8
0.65 0.27 0.08
Matches are distributed among these distances:
43 20 0.32
44 28 0.44
45 15 0.24
ACGTcount: A:0.16, C:0.25, G:0.32, T:0.27
Consensus pattern (43 bp):
CGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTT
Found at i:34160300 original size:44 final size:44
Alignment explanation
Indices: 34160232--34160785 Score: 498
Period size: 44 Copynumber: 12.6 Consensus size: 44
34160222 GCTGTCGGTG
*
34160232 CAGGAAGGCAAGATCTGCTATCTTCGATCTACTTCACACCAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
* * * * * **
34160276 CATGAAGATAAGATATGCTTTCTTCGATCTACTTCGTCACCAGCA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATA
** *
34160321 TGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA
* *
34160364 TAGGAAGAC-AGAACCTGCTATCTTCGATCTACTTCACACCAATA
1 CAGGAAGACAAG-ATCTGCTATCTTCGATCTACTTCACACCAATA
* * * * * *
34160408 CATGAATACAAGATCTTCTTTCTTCGATCTACTTCGCCACCAGTA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATA
** * *
34160453 TGGGAATG-CAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATA
1 CAGGAA-GACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA
* * *
34160497 TAGGAAGACATGATCTGCTATCTTCGATCTACTTCACGCCAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
* * * * *
34160541 CATGAAGACAAGATCTGTTTTCTTCGATCTACTCCGCCACCAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATA
** *
34160586 TGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA
* * * *
34160629 TAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
* * * *
34160673 CATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATA
** * * *
34160718 TGGGAAGACAAGATCTGC-ATCTTTGATCCACTTTC-TACCAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTAC-TTCACACCAATA
* *
34160761 TAGGAAGACAATA-CTTGCTATCTTC
1 CAGGAAGACAAGATC-TGCTATCTTC
34160786 ACTGATCTGC
Statistics
Matches: 410, Mismatches: 81, Indels: 38
0.78 0.15 0.07
Matches are distributed among these distances:
42 5 0.01
43 63 0.15
44 239 0.58
45 103 0.25
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (44 bp):
CAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATA
Found at i:34160470 original size:132 final size:132
Alignment explanation
Indices: 34160246--34160785 Score: 861
Period size: 132 Copynumber: 4.1 Consensus size: 132
34160236 AAGGCAAGAT
* * *
34160246 CTGCTATCTTCGATCTACTTCACACCAATACATGAAGATAAGATATGCTTTCTTCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTCC
* **
34160311 GTCACCAGCATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGA
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGA
34160376 AC
131 AC
* * *
34160378 CTGCTATCTTCGATCTACTTCACACCAATACATGAATACAAGATCTTCTTTCTTCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTCC
*
34160443 GCCACCAGTATGGGAATG-CAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACA
66 GCCACCAATATGGGAA-GACAAGATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGACA
*
34160507 TG-AT
129 -GAAC
* *
34160511 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTCC
1 CTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTCC
*
34160576 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGA
34160641 AC
131 AC
*
34160643 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTCC
1 CTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTCC
* *
34160708 GCCACCAATATGGGAAGACAAGATCTGCATCTTTGATCCACTTTCTACCAATATAGGAAGACA-A
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGA
34160772 TAC
131 -AC
*
34160775 TTGCTATCTTC
1 CTGCTATCTTC
34160786 ACTGATCTGC
Statistics
Matches: 383, Mismatches: 19, Indels: 12
0.93 0.05 0.03
Matches are distributed among these distances:
131 1 0.00
132 259 0.68
133 122 0.32
134 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (132 bp):
CTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTCC
GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGA
AC
Found at i:34160543 original size:265 final size:264
Alignment explanation
Indices: 34160233--34160785 Score: 894
Period size: 265 Copynumber: 2.1 Consensus size: 264
34160223 CTGTCGGTGC
* *
34160233 AGGAAGGCAAGATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGATAAGATATGCTTTC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATATGCTTTC
* * *
34160298 TTCGATCTACTTCGTCACCAGCATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
66 TTCGATCTACTCCGCCACCAACATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
* *
34160363 ATAGGAAGACAGAACCTGCTATCTTCGATCTACTTCACACCAATACATGAATACAAGATCTTCTT
131 ATAGGAAGACAGAACCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTT
* *
34160428 TCTTCGATCTACTTCGCCACCAGTATGGGAATG-CAAGATCTGCATCTTCGATCCACTTCGCTAC
196 TCTTCGATCTACTCCGCCACCAATATGGGAA-GACAAGATCTGCATCTTCGATCCACTT-GCTAC
34160492 CAATAT
259 CAATAT
* * * *
34160498 AGGAAGACATGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATATGCTTTC
*
34160563 TTCGATCTACTCCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
66 TTCGATCTACTCCGCCACCAACATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
* *
34160628 ATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
131 ATAGGAAGACAGAACCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTT
* *
34160693 TCTTCGATCTACTCCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGATCCACTTTCTACCA
196 TCTTCGATCTACTCCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTGCTACCA
34160758 ATAT
261 ATAT
*
34160762 AGGAAGACAATA-CTTGCTATCTTC
1 AGGAAGACAAGATC-TGCTATCTTC
34160786 ACTGATCTGC
Statistics
Matches: 266, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
263 1 0.00
264 31 0.12
265 234 0.88
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (264 bp):
AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATATGCTTTC
TTCGATCTACTCCGCCACCAACATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
ATAGGAAGACAGAACCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTT
TCTTCGATCTACTCCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTGCTACCA
ATAT
Found at i:34161981 original size:13 final size:15
Alignment explanation
Indices: 34161965--34161997 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
34161955 GGCCTCTCCA
34161965 TTTTCTTT-CTCTTT
1 TTTTCTTTGCTCTTT
*
34161979 TTTTTTTTGCTCTTT
1 TTTTCTTTGCTCTTT
34161994 TTTT
1 TTTT
34161998 AATATTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (15 bp):
TTTTCTTTGCTCTTT
Found at i:34162962 original size:25 final size:24
Alignment explanation
Indices: 34162926--34162972 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
34162916 AAAAGGGTAC
*
34162926 AAAATATATACATGTACATATAAA
1 AAAATATATACATATACATATAAA
*
34162950 AAAATTATATACATATATATATA
1 AAAA-TATATACATATACATATA
34162973 GATTATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.34
Consensus pattern (24 bp):
AAAATATATACATATACATATAAA
Found at i:34162980 original size:32 final size:32
Alignment explanation
Indices: 34162944--34163004 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
34162934 TACATGTACA
*
34162944 TATAAAAAA-ATTATATACATATATATATAGAT
1 TATAAAAAAGATAAT-TACATATATATATAGAT
34162976 TATAAAAAAGATAATTACATATATATATA
1 TATAAAAAAGATAATTACATATATATATA
34163005 AACAAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
32 23 0.85
33 4 0.15
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.36
Consensus pattern (32 bp):
TATAAAAAAGATAATTACATATATATATAGAT
Found at i:34163191 original size:16 final size:16
Alignment explanation
Indices: 34163172--34163213 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
34163162 AGGAAATAAA
*
34163172 AAATGTATATGTATCT
1 AAATGTATATGTATAT
*
34163188 AAATGTAAATGTATAT
1 AAATGTATATGTATAT
*
34163204 ATATGTATAT
1 AAATGTATAT
34163214 AAAAGTTATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (16 bp):
AAATGTATATGTATAT
Found at i:34163349 original size:3 final size:3
Alignment explanation
Indices: 34163341--34163376 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
34163331 GTATATATAG
* *
34163341 TAA TAA TAA TGA TAA TAA TAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
34163377 CTTAATAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:34163724 original size:23 final size:22
Alignment explanation
Indices: 34163681--34163738 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
34163671 AAAGGGTATC
* *
34163681 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
34163702 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
34163725 TGCATATCATATCT
1 TACAAATCATATCT
34163739 AAGATCATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:34163747 original size:12 final size:12
Alignment explanation
Indices: 34163730--34163755 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34163720 AAGATTGCAT
34163730 ATCATATCTAAG
1 ATCATATCTAAG
34163742 ATCATATCTAAG
1 ATCATATCTAAG
34163754 AT
1 AT
34163756 TGCATATTCT
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:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATCATATCTAAG
Found at i:34164252 original size:18 final size:19
Alignment explanation
Indices: 34164211--34164254 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
34164201 TATTTTAGAA
34164211 TATATTTTTATTAATTTTC
1 TATATTTTTATTAATTTTC
*
34164230 AATATTTTTA-TAA-TTTC
1 TATATTTTTATTAATTTTC
34164247 TTATATTT
1 -TATATTT
34164255 CTTAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 4 0.18
18 9 0.41
19 9 0.41
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
TATATTTTTATTAATTTTC
Found at i:34167633 original size:3 final size:3
Alignment explanation
Indices: 34167627--34167652 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
34167617 ATAATAATAA
34167627 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
34167653 CAACCATGAA
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:34172414 original size:167 final size:167
Alignment explanation
Indices: 34172133--34172467 Score: 625
Period size: 167 Copynumber: 2.0 Consensus size: 167
34172123 TTTTGTCATG
*
34172133 AATTGGAGATTCTGATGTGTAAATTCTGGTGGAGGAATTCTAAAACAAATAAAGGGATTCACTGG
1 AATTGGAGATTCTGATGTGTAAATTCTGGTAGAGGAATTCTAAAACAAATAAAGGGATTCACTGG
34172198 TGTAAATGGAAGGAGTTATGCAGTGCCAAAGCAAAGAGAGGACTAGGATTTAAAGATCTATCAAA
66 TGTAAATGGAAGGAGTTATGCAGTGCCAAAGCAAAGAGAGGACTAGGATTTAAAGATCTATCAAA
*
34172263 ATTTAATTTGGCCCTGTTAGCGAAGCAGGGGTGGAAA
131 ATTTAATTTGGCCCTGTTAGCGAAGCAGGGGTAGAAA
34172300 AATTGGAGATTCTGATGTGTAAATTCTGGTAGAGGAATTCTAAAACAAATAAAGGGATTCACTGG
1 AATTGGAGATTCTGATGTGTAAATTCTGGTAGAGGAATTCTAAAACAAATAAAGGGATTCACTGG
* * *
34172365 TGTAAATGGAAGGAGTTATGCAGTGCCAAAGCAAAGGGAGGATTAGGATTTAAAGATCTGTCAAA
66 TGTAAATGGAAGGAGTTATGCAGTGCCAAAGCAAAGAGAGGACTAGGATTTAAAGATCTATCAAA
34172430 ATTTAATTTGGCCCTGTTAGCGAAGCAGGGGTAGAAA
131 ATTTAATTTGGCCCTGTTAGCGAAGCAGGGGTAGAAA
34172467 A
1 A
34172468 TTATTATGCA
Statistics
Matches: 163, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
167 163 1.00
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.26
Consensus pattern (167 bp):
AATTGGAGATTCTGATGTGTAAATTCTGGTAGAGGAATTCTAAAACAAATAAAGGGATTCACTGG
TGTAAATGGAAGGAGTTATGCAGTGCCAAAGCAAAGAGAGGACTAGGATTTAAAGATCTATCAAA
ATTTAATTTGGCCCTGTTAGCGAAGCAGGGGTAGAAA
Found at i:34174186 original size:16 final size:16
Alignment explanation
Indices: 34174165--34174221 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
34174155 TTTGGTTCGC
*
34174165 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
34174181 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
34174197 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
34174213 TGTAATGGA
1 TGTAATGGA
34174222 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Done.