Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 100 of 218
Found at i:28910512 original size:21 final size:21
Alignment explanation
Indices: 28910486--28910542 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
28910476 TGGGTGGATT
* *
28910486 AGCTCTCACGAGCTTCTATTC
1 AGCTCTTACGAGCTTCTATTA
*
28910507 AGCTCTTACGAGATTCTATTA
1 AGCTCTTACGAGCTTCTATTA
*
28910528 AGCTCTTATGAGCTT
1 AGCTCTTACGAGCTT
28910543 TTGTTGGCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTATTA
Found at i:28912306 original size:20 final size:20
Alignment explanation
Indices: 28912281--28912426 Score: 86
Period size: 20 Copynumber: 7.3 Consensus size: 20
28912271 ATGCATTTAC
*
28912281 GGGCACCGAAGTACAAACAG
1 GGGCACCGAAGTACAATCAG
* * *
28912301 GGGCA-CGTATGTGCATTCAG
1 GGGCACCG-AAGTACAATCAG
*
28912321 GGGTACCGAAGTACAATCAG
1 GGGCACCGAAGTACAATCAG
** * *
28912341 GGGCA-C-ATTTATGCATTTAG
1 GGGCACCGAAGTA--CAATCAG
*
28912361 GGGTACCGAAGTACAATCAG
1 GGGCACCGAAGTACAATCAG
* * *
28912381 GGGCA-CGTATGTGCATTCAG
1 GGGCACCG-AAGTACAATCAG
*
28912401 GGGTACCGAAGTACAAAT-AG
1 GGGCACCGAAGTAC-AATCAG
28912421 GGGCAC
1 GGGCAC
28912427 GTATGTGCAT
Statistics
Matches: 90, Mismatches: 27, Indels: 18
0.67 0.20 0.13
Matches are distributed among these distances:
18 3 0.03
19 5 0.06
20 72 0.80
21 7 0.08
22 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.32, T:0.18
Consensus pattern (20 bp):
GGGCACCGAAGTACAATCAG
Found at i:28912329 original size:40 final size:40
Alignment explanation
Indices: 28912267--28912479 Score: 275
Period size: 40 Copynumber: 5.3 Consensus size: 40
28912257 TCAAGAGCAT
* * * *
28912267 GTATATGCATTTACGGGCACCGAAGTACAAACAGGGGCAC
1 GTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCAC
*
28912307 GTATGTGCATTCAGGGGTACCGAAGTACAATCAGGGGCAC
1 GTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCAC
* * * * *
28912347 ATTTATGCATTTAGGGGTACCGAAGTACAATCAGGGGCAC
1 GTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCAC
*
28912387 GTATGTGCATTCAGGGGTACCGAAGTACAAATAGGGGCAC
1 GTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCAC
* * * *
28912427 GTATGTGCATTCAGAGGTGCTGAAGTACAAACAAGGGCA-
1 GTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCAC
28912466 GCTATGTGCATTCA
1 G-TATGTGCATTCA
28912480 CACAATAATT
Statistics
Matches: 152, Mismatches: 20, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
39 1 0.01
40 151 0.99
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.22
Consensus pattern (40 bp):
GTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCAC
Found at i:28912452 original size:120 final size:120
Alignment explanation
Indices: 28912236--28912465 Score: 309
Period size: 120 Copynumber: 1.9 Consensus size: 120
28912226 ATATAATGTT
* * *
28912236 TTTAGAGGTACCATAGTATAATCAAGAGCATGTATATGCATTTACGGGCACCGAAGTACAAACAG
1 TTTAGAGGTACCATAGTACAATCAAGAGCACGTATATGCATTCACGGGCACCGAAGTACAAACAG
* * *
28912301 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAATCAGGGGCACATTTATGCA
66 GGGCACGTATGTGCATTCAGAGGTACCGAAGTACAAACAAGGGCACATTTATGCA
* * * * * * *
28912356 TTTAGGGGTACCGA-AGTACAATCAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAATA
1 TTTAGAGGTACC-ATAGTACAATCAAGAGCACGTATATGCATTCACGGGCACCGAAGTACAAACA
* *
28912420 GGGGCACGTATGTGCATTCAGAGGTGCTGAAGTACAAACAAGGGCA
65 GGGGCACGTATGTGCATTCAGAGGTACCGAAGTACAAACAAGGGCA
28912466 GCTATGTGCA
Statistics
Matches: 94, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
120 93 0.99
121 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.22
Consensus pattern (120 bp):
TTTAGAGGTACCATAGTACAATCAAGAGCACGTATATGCATTCACGGGCACCGAAGTACAAACAG
GGGCACGTATGTGCATTCAGAGGTACCGAAGTACAAACAAGGGCACATTTATGCA
Found at i:28930605 original size:101 final size:101
Alignment explanation
Indices: 28930417--28930603 Score: 268
Period size: 101 Copynumber: 1.8 Consensus size: 101
28930407 GAACATGTTG
* * *
28930417 GGCTGAGTAACCGGGGTACGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTTGATGTGTT
1 GGCTGAGTAACCGGGGTACGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTAGATATGTC
*
28930482 CTTAAGAAAAAAATATAATAAATTAGGAGTCTACTA
66 CTAAAGAAAAAAATATAATAAATTAGGAGTCTACTA
** *
28930518 GGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTTTCTTCGCGTCAAAAGGTTCAGTATAT-
1 GGCTGAGTAACCGGGGTACGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTT-AG-ATATG
28930582 TCCTAAAGCATAAAAAATATAA
64 TCCTAAAG-A-AAAAAATATAA
28930604 ATAATAAATA
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
101 53 0.71
102 7 0.09
103 4 0.05
104 11 0.15
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (101 bp):
GGCTGAGTAACCGGGGTACGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTAGATATGTC
CTAAAGAAAAAAATATAATAAATTAGGAGTCTACTA
Found at i:28930620 original size:23 final size:23
Alignment explanation
Indices: 28930594--28930644 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
28930584 CTAAAGCATA
* * *
28930594 AAAAAT-ATAAATAATAAATAAAT
1 AAAAATCA-AAATAAAAAAGAAAG
28930617 AAAAATCAAAATAAAAAAGAAAG
1 AAAAATCAAAATAAAAAAGAAAG
28930640 AAAAA
1 AAAAA
28930645 AAATATAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (23 bp):
AAAAATCAAAATAAAAAAGAAAG
Found at i:28933174 original size:843 final size:843
Alignment explanation
Indices: 28931549--28933237 Score: 2977
Period size: 843 Copynumber: 2.0 Consensus size: 843
28931539 TATTGAGGTA
28931549 ATTATTAAGGATTATTTTTAGGATTTTATTTTATTTATCTTTATTTATCTTCAATTAAATGTATT
1 ATTATTAAGGATTATTTTTAGGATTTTATTTTATTTATCTTTATTTATCTTCAATTAAATGTATT
* *
28931614 TATCTTTTAGGAATTTAAGTAGGATTAGACTATCTCCCCTAGCACTATAAATAGGGGGTGAAGTG
66 TATCTTTTAGGAATTTAAGTAGGAATAGACTATCTCCCCTAGCACTATAAATAGGGGGTGAAATG
* *
28931679 ACTCAAAAGAGATCACTCTTTTTCTATAAACACTCTGTCCCCAAAATTCTAGGCTTTTGTTCTTC
131 ACTCAAAAGAGATCACTCTTTTTCTATAAACACTCTCTCCCCAAAAGTCTAGGCTTTTGTTCTTC
*
28931744 TCATATTTCCTTTCAATAAAATCTCTATTGTTATTTTATTTATTTTCTTTTCTACCACAACTATG
196 TCATATTTCCTTTCAATAAAATCTCTATTGTTATTTTATTTATTTTCTTTTCTACCACAACCATG
28931809 AGCCACTAAACCCATCTAGCTGAAGGTTGTCGAAAATCCCTGAAAGGGTTCATGAGGCTTAGAAT
261 AGCCACTAAACCCATCTAGCTGAAGGTTGTCGAAAATCCCTGAAAGGGTTCATGAGGCTTAGAAT
* *
28931874 CTGTACTTAGCCTTCTTAACGAGTATTCATCGTTTCTTCGCACTACAGGGCTGACGCTTCCGTCC
326 CTGTACTTAGCCTTCTCAACGAGTATTCATCGTTTCTTCGCACTACAGGGCTGACACTTCCGTCC
* *
28931939 ATGTCCCTTGAGAAGTAAGCTTTTCAACGTATGCAAAGGCGGCCGCTTTGTATGTTTTGGAAAGG
391 ATGTCCCTTAAGAAGTAAGATTTTCAACGTATGCAAAGGCGGCCGCTTTGTATGTTTTGGAAAGG
* *
28932004 TTGCACAGTCGGTTCGTTAGCTTACTGCTCCAGAGGTTGGCGAGCCCAAGAGACAAAATGGCGTG
456 TTGCACAGTCGGTTCGTTAGCTTACTGCGCCAGAGGTTGGCGAGCCCAAGAGACAAAATGGAGTG
* *
28932069 GGATTCACCATTGAGAAGCGCTGATGTAGCATAAGATGATCCCACAAAAGCGATTGTTGGCTAGA
521 GGATTCACCATTGAGAAGCGCTGATCTAGCATAAGACGATCCCACAAAAGCGATTGTTGGCTAGA
* * * * *
28932134 GTTAGGTTCCACCAAATCGTAAGTCTAAATCCTTGGAGCTAGTGGTTGTAGGCGTCCTCTTCCAC
586 GTCAGGTTCCACCAAATCGCAAGTCTAAATCCTTGGAACTAGTGGTCGTAGGCATCCTCTTCCAC
* *
28932199 TATATCCGGCTTATTCAGTTTGGGAAGGATCATCTAAAAGCTGAGGATTGAACCCAAGGCGGAAC
651 TATAACCGGCTTATTCAGTTTGGGAAGGATCATCTAAAAGCTGAGGATTGAACCCAAGGCGAAAC
28932264 GAGACAACTGGAGGCTGGAATCTCCCATAAAAATTTCCTTTCTCTCAACTCTATTTTTAATTTCT
716 GAGACAACTGGAGGCTGGAATCTCCCATAAAAATTTCCTTTCTCTCAACTCTATTTTTAATTTCT
* * * * *
28932329 CTAATTTTTGATTCAATATTCTTAATTCTGTTTTTATTTTATTTTTCGTTTTCAGATCCAAAC
781 CTAATTGTCGATTCAATATTCTTAATTCTATTTTTATTTTATTTTTCATCTTCAGATCCAAAC
*
28932392 ATTATTAAGGATTATTTTTAGGATTTTATTTTATTTATGTTTATTTATCTTCAATTAAATGTATT
1 ATTATTAAGGATTATTTTTAGGATTTTATTTTATTTATCTTTATTTATCTTCAATTAAATGTATT
*
28932457 TATCTTTTAGGAATTTAAGTAGGAATAGACTATCTCCTCTAGCACTATAAATAGGGGGTGAAATG
66 TATCTTTTAGGAATTTAAGTAGGAATAGACTATCTCCCCTAGCACTATAAATAGGGGGTGAAATG
28932522 ACTCAAAAGAGATCACTCTTTTTCTATAAACACTCTCTCCCCAAAAGTCTAGGCTTTTGTTCTTC
131 ACTCAAAAGAGATCACTCTTTTTCTATAAACACTCTCTCCCCAAAAGTCTAGGCTTTTGTTCTTC
28932587 TCATATTTCCTTTCAATAAAATCTCTATTGTTATTTTATTTATTTTCTTTTCTACCACAACCATG
196 TCATATTTCCTTTCAATAAAATCTCTATTGTTATTTTATTTATTTTCTTTTCTACCACAACCATG
28932652 AGCCACTAAACCCATCTAGCTGAAGGTTGTCGAAAATCCCTGAAAGGGTTCATGAGGCTTAGAAT
261 AGCCACTAAACCCATCTAGCTGAAGGTTGTCGAAAATCCCTGAAAGGGTTCATGAGGCTTAGAAT
*
28932717 -TCGTACTTAGCCTTCTCAACGAGTATTCATCGTTTC-TCTGCACTACGGGGCTGACACTTCCGT
326 CT-GTACTTAGCCTTCTCAACGAGTATTCATCGTTTCTTC-GCACTACAGGGCTGACACTTCCGT
* *
28932780 CCATGTCCCTTAAGAAGTAAGATTTTCAACGTATGCAAAGGCGGTCGCTTTGTATGTTTTGGGAA
389 CCATGTCCCTTAAGAAGTAAGATTTTCAACGTATGCAAAGGCGGCCGCTTTGTATGTTTTGGAAA
* * *
28932845 GGTTGCACAGTCTGTTCGTTAGCTTACTGCGCCAGAGGTTTGCGATCCCAAGAGACAAAATGGAG
454 GGTTGCACAGTCGGTTCGTTAGCTTACTGCGCCAGAGGTTGGCGAGCCCAAGAGACAAAATGGAG
* *
28932910 TGGGATTCACCATTGAGAAGCGTTTATCTAGCATAAGACGATCCCACAAAAGCGATTGTTGGCTA
519 TGGGATTCACCATTGAGAAGCGCTGATCTAGCATAAGACGATCCCACAAAAGCGATTGTTGGCTA
* *
28932975 GAGTCAGGTTCCACCAAATCGCAAGTCTAAATTCTTGGAACTGGTGGTCGTAGGCATCCTCTTCC
584 GAGTCAGGTTCCACCAAATCGCAAGTCTAAATCCTTGGAACTAGTGGTCGTAGGCATCCTCTTCC
* *
28933040 ACTATAACTGGCTTATTCAGTTTGGTAAGGATCATCTAAAAGCTGAGGATTGAACCCAAGGCGAA
649 ACTATAACCGGCTTATTCAGTTTGGGAAGGATCATCTAAAAGCTGAGGATTGAACCCAAGGCGAA
* *
28933105 ACGAGACAACTGGAGGCTGGAATCTCCCATAAGAATTTCTTTTCTCTCAACTCTATTTTTAATTT
714 ACGAGACAACTGGAGGCTGGAATCTCCCATAAAAATTTCCTTTCTCTCAACTCTATTTTTAATTT
28933170 CTCTAATTGTCGATTCAATATTCTTAATTCTATTTTTATTTTATTTTTCATCTTCAGATCCAAAC
779 CTCTAATTGTCGATTCAATATTCTTAATTCTATTTTTATTTTATTTTTCATCTTCAGATCCAAAC
28933235 ATT
1 ATT
28933238 TAATTCTATT
Statistics
Matches: 803, Mismatches: 41, Indels: 4
0.95 0.05 0.00
Matches are distributed among these distances:
842 3 0.00
843 800 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (843 bp):
ATTATTAAGGATTATTTTTAGGATTTTATTTTATTTATCTTTATTTATCTTCAATTAAATGTATT
TATCTTTTAGGAATTTAAGTAGGAATAGACTATCTCCCCTAGCACTATAAATAGGGGGTGAAATG
ACTCAAAAGAGATCACTCTTTTTCTATAAACACTCTCTCCCCAAAAGTCTAGGCTTTTGTTCTTC
TCATATTTCCTTTCAATAAAATCTCTATTGTTATTTTATTTATTTTCTTTTCTACCACAACCATG
AGCCACTAAACCCATCTAGCTGAAGGTTGTCGAAAATCCCTGAAAGGGTTCATGAGGCTTAGAAT
CTGTACTTAGCCTTCTCAACGAGTATTCATCGTTTCTTCGCACTACAGGGCTGACACTTCCGTCC
ATGTCCCTTAAGAAGTAAGATTTTCAACGTATGCAAAGGCGGCCGCTTTGTATGTTTTGGAAAGG
TTGCACAGTCGGTTCGTTAGCTTACTGCGCCAGAGGTTGGCGAGCCCAAGAGACAAAATGGAGTG
GGATTCACCATTGAGAAGCGCTGATCTAGCATAAGACGATCCCACAAAAGCGATTGTTGGCTAGA
GTCAGGTTCCACCAAATCGCAAGTCTAAATCCTTGGAACTAGTGGTCGTAGGCATCCTCTTCCAC
TATAACCGGCTTATTCAGTTTGGGAAGGATCATCTAAAAGCTGAGGATTGAACCCAAGGCGAAAC
GAGACAACTGGAGGCTGGAATCTCCCATAAAAATTTCCTTTCTCTCAACTCTATTTTTAATTTCT
CTAATTGTCGATTCAATATTCTTAATTCTATTTTTATTTTATTTTTCATCTTCAGATCCAAAC
Found at i:28941314 original size:5 final size:5
Alignment explanation
Indices: 28941304--28941338 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
28941294 GAGGTGTTCA
* *
28941304 TGAGT TGAGT TGAGT TGAGT TAAGT TGAGT CGAGT
1 TGAGT TGAGT TGAGT TGAGT TGAGT TGAGT TGAGT
28941339 CGGGTTCAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.23, C:0.03, G:0.37, T:0.37
Consensus pattern (5 bp):
TGAGT
Found at i:28943225 original size:21 final size:21
Alignment explanation
Indices: 28943199--28943253 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
28943189 AACAGTGGTG
*
28943199 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
28943220 GCGGTGAGATTTGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
**
28943241 GTAGTGAGATTAG
1 GCGGTGAGATTAG
28943254 AAATAATGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.07, G:0.36, T:0.33
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:28947315 original size:6 final size:6
Alignment explanation
Indices: 28947298--28947380 Score: 105
Period size: 6 Copynumber: 13.5 Consensus size: 6
28947288 CGTGCCCTCC
* * *
28947298 TCCCATT TCCCAT TCCCA- TGCAAT ACCCAT TCCCATT TCCCAT TCCCAT
1 TCCCA-T TCCCAT TCCCAT TCCCAT TCCCAT TCCCA-T TCCCAT TCCCAT
28947347 TCCCAT TCCCATT TCCCAT TCCCAT TCCCAT TCC
1 TCCCAT TCCCA-T TCCCAT TCCCAT TCCCAT TCC
28947381 TATTATCAAC
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
5 3 0.04
6 47 0.70
7 17 0.25
ACGTcount: A:0.18, C:0.47, G:0.01, T:0.34
Consensus pattern (6 bp):
TCCCAT
Found at i:28947316 original size:13 final size:13
Alignment explanation
Indices: 28947298--28947380 Score: 107
Period size: 13 Copynumber: 6.2 Consensus size: 13
28947288 CGTGCCCTCC
28947298 TCCCATTTCCCAT
1 TCCCATTTCCCAT
*
28947311 TCCCATGCAATACCCAT
1 TCCCAT----TTCCCAT
28947328 TCCCATTTCCCAT
1 TCCCATTTCCCAT
28947341 TCCCA-TTCCCAT
1 TCCCATTTCCCAT
28947353 TCCCATTTCCCAT
1 TCCCATTTCCCAT
28947366 TCCCA-TTCCCAT
1 TCCCATTTCCCAT
28947378 TCC
1 TCC
28947381 TATTATCAAC
Statistics
Matches: 63, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
12 22 0.35
13 29 0.46
17 12 0.19
ACGTcount: A:0.18, C:0.47, G:0.01, T:0.34
Consensus pattern (13 bp):
TCCCATTTCCCAT
Found at i:28947336 original size:112 final size:111
Alignment explanation
Indices: 28947139--28947343 Score: 365
Period size: 112 Copynumber: 1.8 Consensus size: 111
28947129 AATTTCTCCA
* *
28947139 TTCCCATCTCCCATCTTCCATCATTCCCCTCTTCCACCGTTCCCTCCTCCCATTTCCTATTCCCA
1 TTCCCATCTCCCATCTTCCATCATTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCCA
28947204 TGCAATACCCATTCCAATTTCCCATTCCACCGTGCCGTCCTCCCAT
66 TGCAATACCCATTCCAATTTCCCATTCCACCGTGCCGTCCTCCCAT
*
28947250 TTCCCATCTCCCCTCTTCCATCGATTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCC
1 TTCCCATCTCCCATCTTCCATC-ATTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCC
*
28947315 ATGCAATACCCATTCCCATTTCCCATTCC
65 ATGCAATACCCATTCCAATTTCCCATTCC
28947344 CATTCCCATT
Statistics
Matches: 89, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
111 21 0.24
112 68 0.76
ACGTcount: A:0.15, C:0.49, G:0.04, T:0.32
Consensus pattern (111 bp):
TTCCCATCTCCCATCTTCCATCATTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCCA
TGCAATACCCATTCCAATTTCCCATTCCACCGTGCCGTCCTCCCAT
Found at i:28947355 original size:25 final size:25
Alignment explanation
Indices: 28947299--28947380 Score: 119
Period size: 25 Copynumber: 3.1 Consensus size: 25
28947289 GTGCCCTCCT
28947299 CCCATTTCCCATTCCCATGCAATACCCATT
1 CCCATTTCCCATTCCCAT----T-CCCATT
28947329 CCCATTTCCCATTCCCATTCCCATT
1 CCCATTTCCCATTCCCATTCCCATT
28947354 CCCATTTCCCATTCCCATTCCCATT
1 CCCATTTCCCATTCCCATTCCCATT
28947379 CC
1 CC
28947381 TATTATCAAC
Statistics
Matches: 52, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
25 33 0.63
26 1 0.02
30 18 0.35
ACGTcount: A:0.18, C:0.48, G:0.01, T:0.33
Consensus pattern (25 bp):
CCCATTTCCCATTCCCATTCCCATT
Found at i:28949911 original size:21 final size:20
Alignment explanation
Indices: 28949887--28949949 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
28949877 GAACAAAGTA
*
28949887 AAAAAGAGGGGAGAAACTAGC
1 AAAAAGA-GGGAGAAACCAGC
* *
28949908 AAAAACGAGGGACAAACCAGT
1 AAAAA-GAGGGAGAAACCAGC
*
28949929 AAACA-AGGGAGAAACCAGC
1 AAAAAGAGGGAGAAACCAGC
28949948 AA
1 AA
28949950 GAACGAGGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 14 0.40
21 19 0.54
22 2 0.06
ACGTcount: A:0.54, C:0.16, G:0.27, T:0.03
Consensus pattern (20 bp):
AAAAAGAGGGAGAAACCAGC
Found at i:28949937 original size:19 final size:19
Alignment explanation
Indices: 28949910--28949946 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
28949900 AAACTAGCAA
*
28949910 AAACGAGGGACAAACCAGT
1 AAACAAGGGACAAACCAGT
*
28949929 AAACAAGGGAGAAACCAG
1 AAACAAGGGACAAACCAG
28949947 CAAGAACGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.19, G:0.27, T:0.03
Consensus pattern (19 bp):
AAACAAGGGACAAACCAGT
Found at i:28951733 original size:27 final size:28
Alignment explanation
Indices: 28951693--28951751 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
28951683 TAAATGCTAT
* * *
28951693 AAATATTATTAAATTTTAATAAAA-ATTA
1 AAATATTATAAAATTATAA-AAAATATAA
28951721 AAATATTA-AAAATTATAAAAAATATAA
1 AAATATTATAAAATTATAAAAAATATAA
28951748 AAAT
1 AAAT
28951752 TGTAAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.15
27 15 0.56
28 8 0.30
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
AAATATTATAAAATTATAAAAAATATAA
Found at i:28951765 original size:21 final size:20
Alignment explanation
Indices: 28951714--28951774 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
28951704 AATTTTAATA
28951714 AAAATTAAAATATTAAAAA-TT
1 AAAA-TAAAATA-TAAAAATTT
*
28951735 ATAA-AAAATATAAAAATTGT
1 AAAATAAAATATAAAAATT-T
28951755 AAAATAAAATATAAAAATTT
1 AAAATAAAATATAAAAATTT
28951775 TTAAAATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 6 0.17
19 7 0.20
20 5 0.14
21 17 0.49
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAATAAAATATAAAAATTT
Found at i:28951808 original size:29 final size:30
Alignment explanation
Indices: 28951776--28951845 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 30
28951766 TAAAAATTTT
* *
28951776 TAAAATTTTATCA-AAATCTTAAAAAA-CTA
1 TAAAATTTTAT-AGAAATATAAAAAAAGCTA
* *
28951805 TAAAA-TCTATAGAAATATAAAAAAAGTTA
1 TAAAATTTTATAGAAATATAAAAAAAGCTA
28951834 TAAAATTTTATA
1 TAAAATTTTATA
28951846 AAGTCATAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
27 1 0.03
28 15 0.45
29 12 0.36
30 5 0.15
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (30 bp):
TAAAATTTTATAGAAATATAAAAAAAGCTA
Found at i:28951863 original size:29 final size:28
Alignment explanation
Indices: 28951719--28951864 Score: 95
Period size: 29 Copynumber: 5.1 Consensus size: 28
28951709 TAATAAAAAT
* *
28951719 TAAAATATTA-AAAATTATAAAAAA-TA
1 TAAAATTTTATAAAATCATAAAAAATTA
* * *
28951745 TAAAAATTGTAAAATAAAAT-ATAAAAATTTT
1 T-AAAATT-T--TATAAAATCATAAAAAATTA
* *
28951776 TAAAATTTTATCAAAATCTTAAAAAACTA
1 TAAAATTTTAT-AAAATCATAAAAAATTA
*
28951805 TAAAA-TCTATAGAAAT-ATAAAAAAAGTTA
1 TAAAATTTTATA-AAATCAT-AAAAAA-TTA
*
28951834 TAAAATTTTATAAAGTCATAAGAAAATTA
1 TAAAATTTTATAAAATCATAA-AAAATTA
28951863 TA
1 TA
28951865 CAAAATGTAA
Statistics
Matches: 92, Mismatches: 14, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
26 1 0.01
27 9 0.10
28 20 0.22
29 30 0.33
30 25 0.27
31 7 0.08
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (28 bp):
TAAAATTTTATAAAATCATAAAAAATTA
Found at i:28951885 original size:60 final size:58
Alignment explanation
Indices: 28951729--28951885 Score: 158
Period size: 58 Copynumber: 2.7 Consensus size: 58
28951719 TAAAATATTA
* * * * *
28951729 AAAATTATAAAAAATATAAAAATTGTAAA-ATAAAATATAAAAATTTTTAAAATTTTATC
1 AAAATCATAAAAAATATAAAAA-TGTAAAGA-AATATAAAAAAAGTTATAAAATTTTATC
* * *
28951788 AAAATCTTAAAAAACTAT-AAAATCTATAGAAATATAAAAAAAGTTATAAAATTTTAT-
1 AAAATCATAAAAAA-TATAAAAATGTAAAGAAATATAAAAAAAGTTATAAAATTTTATC
*
28951845 AAAGTCATAAGAAAATTATACAAAATGTAAAGAAATATAAA
1 AAAATCATAA-AAAA-TATA-AAAATGTAAAGAAATATAAA
28951886 TTTCATAAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
57 8 0.10
58 34 0.43
59 17 0.21
60 21 0.26
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (58 bp):
AAAATCATAAAAAATATAAAAATGTAAAGAAATATAAAAAAAGTTATAAAATTTTATC
Found at i:28952111 original size:36 final size:36
Alignment explanation
Indices: 28952045--28952116 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
28952035 GTCGTTAATA
* **
28952045 TTTTTATGATTTTTATAAAATTTTACAATTTTTTAT
1 TTTTTAAGATTTTTATAAAAAATTACAATTTTTTAT
28952081 TTTTTAAGATTTTTATAAAAAATT-CTAATTTTTTAT
1 TTTTTAAGATTTTTATAAAAAATTAC-AATTTTTTAT
28952117 AAATTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 1 0.03
36 31 0.97
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (36 bp):
TTTTTAAGATTTTTATAAAAAATTACAATTTTTTAT
Found at i:28952141 original size:31 final size:29
Alignment explanation
Indices: 28952079--28952158 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 29
28952069 ACAATTTTTT
* *
28952079 ATTTTTTAAGATTTTTATAAAAAATTCTA
1 ATTTTTTAAAATTTTTATAAAAAATTATA
* *
28952108 ATTTTTTATAAATTTTTATTAAAATTTAATA
1 ATTTTTTA-AAATTTTTATAAAAAATT-ATA
*
28952139 ATTTTTCTAAAGTTTATTAT
1 ATTTTT-TAAAATTT-TTAT
28952159 TTATTATAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
29 8 0.19
30 15 0.36
31 13 0.31
32 6 0.14
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (29 bp):
ATTTTTTAAAATTTTTATAAAAAATTATA
Found at i:28952295 original size:92 final size:92
Alignment explanation
Indices: 28952196--28952376 Score: 247
Period size: 93 Copynumber: 2.0 Consensus size: 92
28952186 ATAAGAGTAG
* * ** *
28952196 GGGCTTAATTGCTTTTTT-GAAAAATTTTGAGGGTCTTTTTTATACATTTTGAAAGTTCAAGTAC
1 GGGCTTAATTGCTTTTTTCGAAAAAGTTTGAGGGCCTTTTAGATACATTTTGAAAATTCAAGTAC
*
28952260 CCAATTGAGTTAAAAAAAAGAAAAGAAA
66 CCAATTGAGTGAAAAAAAA-AAAAGAAA
* * *
28952288 GGGCTTAATTGCTTTTTTCGAAGAAGTTTGAGGGCCTTTTAGATGCATTTTGAAAATTCAAGTGC
1 GGGCTTAATTGCTTTTTTCGAAAAAGTTTGAGGGCCTTTTAGATACATTTTGAAAATTCAAGTAC
* *
28952353 TCAATTGAGTGCAAAAAAAAAAAG
66 CCAATTGAGTGAAAAAAAAAAAAG
28952377 TTTGAAAGCT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
92 23 0.30
93 54 0.70
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (92 bp):
GGGCTTAATTGCTTTTTTCGAAAAAGTTTGAGGGCCTTTTAGATACATTTTGAAAATTCAAGTAC
CCAATTGAGTGAAAAAAAAAAAAGAAA
Found at i:28959115 original size:5 final size:5
Alignment explanation
Indices: 28959105--28959150 Score: 56
Period size: 5 Copynumber: 8.6 Consensus size: 5
28959095 TTCTTTCTCT
*
28959105 TTTCC TTTCC TTTCCC TTTCTC TTTCCC TTTCC TTTCC TTTTC TTT
1 TTTCC TTTCC TTT-CC TTTC-C TTT-CC TTTCC TTTCC TTTCC TTT
28959151 TTCTTTTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
5 23 0.62
6 13 0.35
7 1 0.03
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTCC
Found at i:28959123 original size:23 final size:23
Alignment explanation
Indices: 28959097--28959163 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
28959087 GTTAGGCTTT
28959097 CTTTCTCTTTTCCTTTCCTTTCC
1 CTTTCTCTTTTCCTTTCCTTTCC
*
28959120 CTTTCTCTTTCCCTTTCCTTTCC
1 CTTTCTCTTTTCCTTTCCTTTCC
* * *
28959143 TTTTCT-TTTTCTTTTCTTTTC
1 CTTTCTCTTTTCCTTTCCTTTC
28959164 ATTTTTAGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 12 0.31
23 27 0.69
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (23 bp):
CTTTCTCTTTTCCTTTCCTTTCC
Found at i:28959206 original size:25 final size:26
Alignment explanation
Indices: 28959157--28959206 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
28959147 CTTTTTCTTT
* *
28959157 TCTTTTCATTTTTAGTTTAGGTTTTC
1 TCTTTTCATTTTTAGGTTAGATTTTC
*
28959183 TCTTTTC-TTTTTAGGTTATATTTT
1 TCTTTTCATTTTTAGGTTAGATTTT
28959207 AATTTTGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.12, C:0.10, G:0.10, T:0.68
Consensus pattern (26 bp):
TCTTTTCATTTTTAGGTTAGATTTTC
Found at i:28960454 original size:33 final size:32
Alignment explanation
Indices: 28960381--28960471 Score: 121
Period size: 34 Copynumber: 2.8 Consensus size: 32
28960371 TATGGGTTTT
* *
28960381 GGTGTTATATATATAATATATATTTAAGTGCATG
1 GGTGTTATATGTAT-ATATATATTT-GGTGCATG
*
28960415 GATGTTATATGTATGATATATATTTGGTGCATG
1 GGTGTTATATGTAT-ATATATATTTGGTGCATG
28960448 GGTGTTATATGTATA-ATATATTTG
1 GGTGTTATATGTATATATATATTTG
28960472 CGTGGGTCTG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
31 9 0.17
32 1 0.02
33 20 0.38
34 22 0.42
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (32 bp):
GGTGTTATATGTATATATATATTTGGTGCATG
Found at i:28969517 original size:11 final size:11
Alignment explanation
Indices: 28969501--28969550 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
28969491 TTATTAAGAT
28969501 AAATTTTATTA
1 AAATTTTATTA
* *
28969512 AAATTTGATAA
1 AAATTTTATTA
28969523 TAAATTTTATT-
1 -AAATTTTATTA
28969534 AAATTTTGA-TA
1 AAATTTT-ATTA
28969545 AAATTT
1 AAATTT
28969551 AAACCAATCC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
10 8 0.25
11 16 0.50
12 8 0.25
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (11 bp):
AAATTTTATTA
Found at i:28969526 original size:23 final size:23
Alignment explanation
Indices: 28969499--28969545 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
28969489 ATTTATTAAG
28969499 ATAAATTTTATTAAAATTTGATA
1 ATAAATTTTATTAAAATTTGATA
*
28969522 ATAAATTTTATTAAATTTTGATA
1 ATAAATTTTATTAAAATTTGATA
28969545 A
1 A
28969546 AATTTAAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
ATAAATTTTATTAAAATTTGATA
Found at i:28976224 original size:50 final size:50
Alignment explanation
Indices: 28976110--28976244 Score: 162
Period size: 50 Copynumber: 2.7 Consensus size: 50
28976100 AAAGTGATGG
* * * *
28976110 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGAAAGG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCAGAAAGAAAGA
* * * * ***
28976160 TCGCATGTGGAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGTTTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCAGAAAGAAAGA
*
28976210 TCACGTGTGTAGTACTATGTGAAGGCTACTGCGTG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
28976245 TATTGAATGA
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 70 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCAGAAAGAAAGA
Found at i:28977170 original size:5 final size:5
Alignment explanation
Indices: 28977147--28977204 Score: 71
Period size: 5 Copynumber: 11.6 Consensus size: 5
28977137 TATAATTGGT
* * * * *
28977147 ATGGA GTGGA TTGGA ATGGT ATGGA ATGGA ATGAA ATGGA ATGGT ATGGA
1 ATGGA ATGGA ATGGA ATGGA ATGGA ATGGA ATGGA ATGGA ATGGA ATGGA
28977197 ATGGA ATG
1 ATGGA ATG
28977205 AAATAAAATA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.40, T:0.26
Consensus pattern (5 bp):
ATGGA
Found at i:28977202 original size:25 final size:25
Alignment explanation
Indices: 28977158--28977208 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
28977148 TGGAGTGGAT
28977158 TGGAATGGTATGGAATGGAATGAAA
1 TGGAATGGTATGGAATGGAATGAAA
28977183 TGGAATGGTATGGAATGGAATGAAA
1 TGGAATGGTATGGAATGGAATGAAA
28977208 T
1 T
28977209 AAAATAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.35, T:0.25
Consensus pattern (25 bp):
TGGAATGGTATGGAATGGAATGAAA
Found at i:28989631 original size:20 final size:20
Alignment explanation
Indices: 28989576--28989633 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
28989566 TATATAAATA
*
28989576 TACCCCTGATCGCACTTACG
1 TACCCCTGATCGTACTTACG
* *
28989596 TGCCCCT-ATTGTACTT-CGG
1 TACCCCTGATCGTACTTAC-G
28989615 TACCCCTGATCGTACTTAC
1 TACCCCTGATCGTACTTAC
28989634 ATGCCCTTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
18 1 0.03
19 14 0.47
20 14 0.47
21 1 0.03
ACGTcount: A:0.17, C:0.36, G:0.16, T:0.31
Consensus pattern (20 bp):
TACCCCTGATCGTACTTACG
Found at i:28989654 original size:39 final size:39
Alignment explanation
Indices: 28989576--28989670 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 39
28989566 TATATAAATA
* * *
28989576 TACCCCTGATCGCACTTACGTGCCCCTATTGTACTTCGG
1 TACCCCTGATCGCACTTACATGCCCCTATTATACATCGG
* * *
28989615 TACCCCTGATCGTACTTACATGCCCTTGTTATACATCGG
1 TACCCCTGATCGCACTTACATGCCCCTATTATACATCGG
* * *
28989654 TACTCTTGATAGCACTT
1 TACCCCTGATCGCACTT
28989671 TCGTGTCGTG
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.34
Consensus pattern (39 bp):
TACCCCTGATCGCACTTACATGCCCCTATTATACATCGG
Found at i:28995211 original size:50 final size:50
Alignment explanation
Indices: 28995100--28995295 Score: 221
Period size: 50 Copynumber: 3.8 Consensus size: 50
28995090 ATTTGGGTAA
* *
28995100 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
28995156 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
28995206 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
28995256 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
28995296 TAGTACAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
50 79 0.65
53 3 0.02
55 1 0.01
56 39 0.32
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:28998397 original size:28 final size:28
Alignment explanation
Indices: 28998365--28998432 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
28998355 ATGAATAGGA
* *
28998365 AATTTCATTAAGTTATTTTA-GACTCATT
1 AATTTAATTAAGTTATTTTAGGA-TAATT
*
28998393 AATTTAATTAGGTTATTTTAGGATAATT
1 AATTTAATTAAGTTATTTTAGGATAATT
28998421 AATTTAATTAAG
1 AATTTAATTAAG
28998433 ATTTTAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 33 0.94
29 2 0.06
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (28 bp):
AATTTAATTAAGTTATTTTAGGATAATT
Found at i:29004924 original size:23 final size:23
Alignment explanation
Indices: 29004898--29004941 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
29004888 TGAATTAAAG
29004898 AGCAAATACAGACATAGATGCGT
1 AGCAAATACAGACATAGATGCGT
* **
29004921 AGCAGATACAGATTTAGATGC
1 AGCAAATACAGACATAGATGC
29004942 ATAATAGAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (23 bp):
AGCAAATACAGACATAGATGCGT
Found at i:29009318 original size:14 final size:14
Alignment explanation
Indices: 29009299--29009339 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
29009289 CAATCAATAG
29009299 ATTTTTTGTGTATT
1 ATTTTTTGTGTATT
29009313 ATTTTTTGTGTATT
1 ATTTTTTGTGTATT
29009327 ATTTTTTGT-TATT
1 ATTTTTTGTGTATT
29009340 CTTAACTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 4 0.15
14 23 0.85
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (14 bp):
ATTTTTTGTGTATT
Found at i:29019954 original size:40 final size:39
Alignment explanation
Indices: 29019917--29020094 Score: 155
Period size: 40 Copynumber: 4.5 Consensus size: 39
29019907 ATATCCGGAC
*
29019917 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAGTTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAA-ATCCGGGT
* *
29019957 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
29019997 TAAGTCCCGAAGGCATTCGTGCGAG-TCATTAAATTCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGAT-ACTAAATCCGGGT
** * * * *
29020037 TAAGTCCCGAATTCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
29020076 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
29020095 AACGAGGAGC
Statistics
Matches: 113, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 29 0.26
40 82 0.73
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:29020007 original size:80 final size:78
Alignment explanation
Indices: 29019923--29020094 Score: 195
Period size: 79 Copynumber: 2.2 Consensus size: 78
29019913 GGACTAAGAT
*
29019923 CCGAAGGCATTTGTGCGAG-A-TACAAGTTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATAC
1 CCGAAGGCATTTGTGCGAGCATTA-AA-TT-CGGGTTAAGCCCCGAA-GCCATTGTGCGAGATAC
* *
29019986 TAAATCCGGGTTAAGTC
62 TAAAACCGGGCTAAGTC
* * ** * *
29020003 CCGAAGGCATTCGTGCGAGTCATTAAATTCGGGTTAAGTCCCGAATTCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAG-CATTAAATTCGGGTTAAGCCCCGAAGCCATTGTGCGAGATACTAA
*
29020068 AACCGGGCTATGTC
65 AACCGGGCTAAGTC
29020082 CCGAAGGCATTTG
1 CCGAAGGCATTTG
29020095 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
79 38 0.49
80 33 0.42
81 2 0.03
82 3 0.04
83 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGCATTAAATTCGGGTTAAGCCCCGAAGCCATTGTGCGAGATACTAAA
ACCGGGCTAAGTC
Found at i:29029429 original size:10 final size:10
Alignment explanation
Indices: 29029414--29029439 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
29029404 CCCCGTCAAA
29029414 AGTTTCCTAT
1 AGTTTCCTAT
29029424 AGTTTCCTAT
1 AGTTTCCTAT
29029434 AGTTTC
1 AGTTTC
29029440 ACAATCCATA
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:0.19, C:0.19, G:0.12, T:0.50
Consensus pattern (10 bp):
AGTTTCCTAT
Found at i:29039270 original size:30 final size:30
Alignment explanation
Indices: 29039221--29039370 Score: 178
Period size: 30 Copynumber: 5.0 Consensus size: 30
29039211 ACGGGCTGGT
*
29039221 ACATAGGCGTGTGTCCAGCCAGTGTGGCTC
1 ACATGGGCGTGTGTCCAGCCAGTGTGGCTC
* * *
29039251 ACATGGGCATGTGTTCAGCCCA-TGTGGCTT
1 ACATGGGCGTGTGTCCAG-CCAGTGTGGCTC
* * *
29039281 ACATGGGCATGTGTTCAGCCCA-TGTGGCTT
1 ACATGGGCGTGTGTCCAG-CCAGTGTGGCTC
*
29039311 ACATGGGCGTGTGTCCAGCCCGTGTGGCTC
1 ACATGGGCGTGTGTCCAGCCAGTGTGGCTC
* *
29039341 ACATGGGCGTGTGTCCAACCCGTGTGGCTC
1 ACATGGGCGTGTGTCCAGCCAGTGTGGCTC
29039371 CTGAAATCTG
Statistics
Matches: 109, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
29 2 0.02
30 104 0.95
31 3 0.03
ACGTcount: A:0.15, C:0.27, G:0.33, T:0.26
Consensus pattern (30 bp):
ACATGGGCGTGTGTCCAGCCAGTGTGGCTC
Found at i:29039315 original size:60 final size:60
Alignment explanation
Indices: 29039220--29039370 Score: 196
Period size: 60 Copynumber: 2.5 Consensus size: 60
29039210 CACGGGCTGG
* *
29039220 TACATAGGCGTGTGTCCAG-CCAGTGTGGCTCACATGGGCATGTGTTCAGCCCATGTGGCT
1 TACATGGGCGTGTGTCCAGCCCA-TGTGGCTCACATGGGCATGTGTCCAGCCCATGTGGCT
* * * * *
29039280 TACATGGGCATGTGTTCAGCCCATGTGGCTTACATGGGCGTGTGTCCAGCCCGTGTGGCT
1 TACATGGGCGTGTGTCCAGCCCATGTGGCTCACATGGGCATGTGTCCAGCCCATGTGGCT
* * *
29039340 CACATGGGCGTGTGTCCAACCCGTGTGGCTC
1 TACATGGGCGTGTGTCCAGCCCATGTGGCTC
29039371 CTGAAATCTG
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
60 74 0.96
61 3 0.04
ACGTcount: A:0.15, C:0.26, G:0.32, T:0.26
Consensus pattern (60 bp):
TACATGGGCGTGTGTCCAGCCCATGTGGCTCACATGGGCATGTGTCCAGCCCATGTGGCT
Found at i:29041199 original size:6 final size:6
Alignment explanation
Indices: 29041190--29041255 Score: 71
Period size: 6 Copynumber: 10.5 Consensus size: 6
29041180 TAAGTCTAAG
**
29041190 AAAATA AAAATAA AACAACTA AAAGA-A AAAGCA AAAATA AAAATA AAAATA
1 AAAATA AAAAT-A AA-AA-TA AAA-ATA AAAATA AAAATA AAAATA AAAATA
29041241 AAAATA AAAATA AAA
1 AAAATA AAAATA AAA
29041256 TCAATTGTGT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
6 41 0.79
7 4 0.08
8 6 0.12
9 1 0.02
ACGTcount: A:0.80, C:0.05, G:0.03, T:0.12
Consensus pattern (6 bp):
AAAATA
Found at i:29042547 original size:26 final size:27
Alignment explanation
Indices: 29042493--29042547 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
29042483 ACTTAGCTGT
*
29042493 AATAAAATAATAATGAAGGGAAAAATA
1 AATAAAATAATAATAAAGGGAAAAATA
* *
29042520 AATAAAATAA-AATAAATGGAAAACTA
1 AATAAAATAATAATAAAGGGAAAAATA
29042546 AA
1 AA
29042548 AGTACTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.69, C:0.02, G:0.11, T:0.18
Consensus pattern (27 bp):
AATAAAATAATAATAAAGGGAAAAATA
Found at i:29042609 original size:3 final size:3
Alignment explanation
Indices: 29042601--29042630 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
29042591 CAGTAAAACA
29042601 AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
29042631 TGATGATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:29050641 original size:108 final size:108
Alignment explanation
Indices: 29050452--29050669 Score: 436
Period size: 108 Copynumber: 2.0 Consensus size: 108
29050442 AGAGAGCTAT
29050452 AGATGGCAATAGGGGGTAAGCAAGATGTTAACGTGAAAAATAAACTATCGGTTGGGGAATTTTAG
1 AGATGGCAATAGGGGGTAAGCAAGATGTTAACGTGAAAAATAAACTATCGGTTGGGGAATTTTAG
29050517 GGTGAATTTTAAATTTTGGTAAAACTGCTTTATAAAAACTCAA
66 GGTGAATTTTAAATTTTGGTAAAACTGCTTTATAAAAACTCAA
29050560 AGATGGCAATAGGGGGTAAGCAAGATGTTAACGTGAAAAATAAACTATCGGTTGGGGAATTTTAG
1 AGATGGCAATAGGGGGTAAGCAAGATGTTAACGTGAAAAATAAACTATCGGTTGGGGAATTTTAG
29050625 GGTGAATTTTAAATTTTGGTAAAACTGCTTTATAAAAACTCAA
66 GGTGAATTTTAAATTTTGGTAAAACTGCTTTATAAAAACTCAA
29050668 AG
1 AG
29050670 TGTTGCCCCT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 110 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.29
Consensus pattern (108 bp):
AGATGGCAATAGGGGGTAAGCAAGATGTTAACGTGAAAAATAAACTATCGGTTGGGGAATTTTAG
GGTGAATTTTAAATTTTGGTAAAACTGCTTTATAAAAACTCAA
Found at i:29058838 original size:21 final size:21
Alignment explanation
Indices: 29058814--29058856 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
29058804 TTTTCTTTTC
* *
29058814 TTTTCTTT-TCTTTTTTTCGA
1 TTTTTTTTATCTTTTTTTAGA
29058834 TTTTTTTTATCTTTTTTTAGA
1 TTTTTTTTATCTTTTTTTAGA
29058855 TT
1 TT
29058857 AAAGAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.09, C:0.09, G:0.05, T:0.77
Consensus pattern (21 bp):
TTTTTTTTATCTTTTTTTAGA
Found at i:29058840 original size:18 final size:16
Alignment explanation
Indices: 29058783--29058840 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 16
29058773 CTCAATCAAT
29058783 TTTTTTTCTCTTTTTTA
1 TTTTTTTCT-TTTTTTA
*
29058800 TGTTTTTTCTTTTCTT-
1 T-TTTTTTCTTTTTTTA
*
29058816 TTCTTTTCTTTTTTTCGA
1 TTTTTTTCTTTTTTT--A
29058834 TTTTTTT
1 TTTTTTT
29058841 TATCTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
15 12 0.36
16 1 0.03
17 6 0.18
18 14 0.42
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTTTTCTTTTTTTA
Found at i:29063325 original size:53 final size:53
Alignment explanation
Indices: 29063254--29063360 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
29063244 TTGATTTAAG
29063254 TATGATTGTGGTTTATCTTGATCTAAATAAATAATTCATTTCAATTAAGTACT
1 TATGATTGTGGTTTATCTTGATCTAAATAAATAATTCATTTCAATTAAGTACT
*
29063307 TATGATTGTGGTTTATCTTGATCTAAATAAATAATTCCTTTCAATTAAGTACT
1 TATGATTGTGGTTTATCTTGATCTAAATAAATAATTCATTTCAATTAAGTACT
29063360 T
1 T
29063361 CTAGTATTCA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (53 bp):
TATGATTGTGGTTTATCTTGATCTAAATAAATAATTCATTTCAATTAAGTACT
Found at i:29073783 original size:18 final size:19
Alignment explanation
Indices: 29073760--29073812 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
29073750 AATCGTGTCG
29073760 TTCATTTTCAAAAT-ATTA
1 TTCATTTTCAAAATCATTA
*
29073778 TTCATTTAC-AAATCATTA
1 TTCATTTTCAAAATCATTA
*
29073796 TTCAATTTCAAAA-CATT
1 TTCATTTTCAAAATCATT
29073813 TTTTAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 4 0.13
18 23 0.77
19 3 0.10
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (19 bp):
TTCATTTTCAAAATCATTA
Found at i:29080372 original size:7 final size:7
Alignment explanation
Indices: 29080362--29080462 Score: 96
Period size: 7 Copynumber: 14.4 Consensus size: 7
29080352 AAAAATAATG
29080362 GAGAATT
1 GAGAATT
29080369 GAGAATT
1 GAGAATT
*
29080376 AAGAATT
1 GAGAATT
*
29080383 GAGGATT
1 GAGAATT
*
29080390 -AGGGATT
1 GA-GAATT
* *
29080397 GGGGATT
1 GAGAATT
*
29080404 GAGCATT
1 GAGAATT
29080411 GAGAATT
1 GAGAATT
29080418 GAGAATT
1 GAGAATT
29080425 GAGAATT
1 GAGAATT
*
29080432 GAAAATT
1 GAGAATT
*
29080439 GAAAATT
1 GAGAATT
*
29080446 GAAAATT
1 GAGAATT
*
29080453 GAAAATT
1 GAGAATT
29080460 GAG
1 GAG
29080463 GAATGAATAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
6 1 0.01
7 82 0.99
ACGTcount: A:0.43, C:0.01, G:0.29, T:0.28
Consensus pattern (7 bp):
GAGAATT
Found at i:29080469 original size:14 final size:15
Alignment explanation
Indices: 29080408--29080476 Score: 74
Period size: 14 Copynumber: 4.9 Consensus size: 15
29080398 GGGATTGAGC
*
29080408 ATTGAGAATTGAG-A
1 ATTGAAAATTGAGAA
*
29080422 ATTGAGAATTGA-AA
1 ATTGAAAATTGAGAA
29080436 ATTGAAAATTGA-AA
1 ATTGAAAATTGAGAA
*
29080450 ATTGAAAATTGAGGA
1 ATTGAAAATTGAGAA
*
29080465 A-TGAATATTGAG
1 ATTGAAAATTGAG
29080477 TATTTGGTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
14 48 0.96
15 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.29
Consensus pattern (15 bp):
ATTGAAAATTGAGAA
Found at i:29080469 original size:21 final size:21
Alignment explanation
Indices: 29080408--29080475 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
29080398 GGGATTGAGC
* *
29080408 ATTGAGAATTGAGAATTGAGA
1 ATTGAAAATTGAGAATTGAAA
*
29080429 ATTGAAAATTGAAAATTGAAA
1 ATTGAAAATTGAGAATTGAAA
*
29080450 ATTGAAAATTGAGGAA-TGAAT
1 ATTGAAAATTGA-GAATTGAAA
29080471 ATTGA
1 ATTGA
29080476 GTATTTGGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
21 39 0.95
22 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (21 bp):
ATTGAAAATTGAGAATTGAAA
Found at i:29081302 original size:26 final size:25
Alignment explanation
Indices: 29081255--29081303 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
29081245 ACCCATAAAA
* * *
29081255 ACCCACAAAATGCCTAAGCCCACTC
1 ACCCACAAAATCCCAAAACCCACTC
29081280 ACCCACCAAAATCCCAAAACCCAC
1 ACCCA-CAAAATCCCAAAACCCAC
29081304 CAACCATCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.25
26 15 0.75
ACGTcount: A:0.41, C:0.47, G:0.04, T:0.08
Consensus pattern (25 bp):
ACCCACAAAATCCCAAAACCCACTC
Found at i:29082972 original size:6 final size:6
Alignment explanation
Indices: 29082936--29082970 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
29082926 AAATATATAC
29082936 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT -TTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
29082971 TTGTGTTGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
CTTTTT
Found at i:29085532 original size:309 final size:309
Alignment explanation
Indices: 29084973--29085900 Score: 1838
Period size: 309 Copynumber: 3.0 Consensus size: 309
29084963 TGCCCCAACA
29084973 TATAGTTTCAAACAAGCTCACTTTATAAATTTTTCTTCAACTAAAAGGGTAATAGTTATATCTAG
1 TATAGTTTCAAACAAGCTCACTTTATAAATTTTTCTTCAACTAAAAGGGTAATAGTTATATCTAG
29085038 ATGTTGGGTATCTTTTATATATATATCCTCATGCTAGGGGTGTTTATTTGGTTAACCGACCGGAA
66 ATGTTGGGTATCTTTTATATATATATCCTCATGCTAGGGGTGTTTATTTGGTTAACCGACCGGAA
29085103 ATAGTTATAATCGAATTAACTGACCTTCCAAAATTTTTAACCGTTAACCGAACCGAAATATTTAA
131 ATAGTTATAATCGAATTAACTGACCTTCCAAAATTTTTAACCGTTAACCGAACCGAAATATTTAA
29085168 AAAAAATTTAACCGAACCGAATTTTTTCAGTTAATTAGGTCGGTTAACCGAATTAACCGAAAATT
196 AAAAAATTTAACCGAACCGAATTTTTTCAGTTAATTAGGTCGGTTAACCGAATTAACCGAAAATT
*
29085233 ATATGTTTTTTATTTTTGGTTAAAAATTAACCGAATTACCCGAATTATC
261 ATATGTTTTTTATTTTTGGTTAAAAATTAACCGAATTACCCGAATTACC
29085282 TATAGTTTCAAACAAGCTCACTTTATAAATTTTTCTTCAACTAAAAGGGTAATAGTTATATCTAG
1 TATAGTTTCAAACAAGCTCACTTTATAAATTTTTCTTCAACTAAAAGGGTAATAGTTATATCTAG
29085347 ATGTTGGGTATCTTTTATATATATATCCTCATGCTAGGGGTGTTTATTTGGTTAACCGACCGGAA
66 ATGTTGGGTATCTTTTATATATATATCCTCATGCTAGGGGTGTTTATTTGGTTAACCGACCGGAA
29085412 ATAGTTATAATCGAATTAACTGACCTTCCAAAATTTTTAACCGTTAACCGAACCGAAATATTTAA
131 ATAGTTATAATCGAATTAACTGACCTTCCAAAATTTTTAACCGTTAACCGAACCGAAATATTTAA
29085477 AAAAAATTTAACCGAACCGAATTTTTTCAGTTAATTAGGTCGGTTAACCGAATTAACCGAAAATT
196 AAAAAATTTAACCGAACCGAATTTTTTCAGTTAATTAGGTCGGTTAACCGAATTAACCGAAAATT
29085542 ATATGTTTTTTATTTTTGGTTAAAAATTAACCGAATTACCCGAATTACC
261 ATATGTTTTTTATTTTTGGTTAAAAATTAACCGAATTACCCGAATTACC
29085591 TATAGTTTCAAACAAGCTCACTTTATAAATTTTTCTTCAACTAAAAGGGTAATAGTTATATCTAG
1 TATAGTTTCAAACAAGCTCACTTTATAAATTTTTCTTCAACTAAAAGGGTAATAGTTATATCTAG
29085656 ATGTTGGGTATCTTTTATATATATATCCTCATGCTAGGGGTGTTTATTTGGTTAACCGACCGGAA
66 ATGTTGGGTATCTTTTATATATATATCCTCATGCTAGGGGTGTTTATTTGGTTAACCGACCGGAA
29085721 ATAGTTATAATCGAATTAACTGACCTTCCAAAATTTTTAACCGTTAACCGAACCGAAATATTTAA
131 ATAGTTATAATCGAATTAACTGACCTTCCAAAATTTTTAACCGTTAACCGAACCGAAATATTTAA
*
29085786 AAAAATTTTAACCGAACCGAATTTTTTCAGTTAATTAGGTCGGTTAACCGAATTAACCGAAAATT
196 AAAAAATTTAACCGAACCGAATTTTTTCAGTTAATTAGGTCGGTTAACCGAATTAACCGAAAATT
29085851 ATATGTTTTTTATTTTTGGTTAAAAATTAACCGAATTACCCGAATTACC
261 ATATGTTTTTTATTTTTGGTTAAAAATTAACCGAATTACCCGAATTACC
29085900 T
1 T
29085901 GAATTACCCG
Statistics
Matches: 617, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
309 617 1.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (309 bp):
TATAGTTTCAAACAAGCTCACTTTATAAATTTTTCTTCAACTAAAAGGGTAATAGTTATATCTAG
ATGTTGGGTATCTTTTATATATATATCCTCATGCTAGGGGTGTTTATTTGGTTAACCGACCGGAA
ATAGTTATAATCGAATTAACTGACCTTCCAAAATTTTTAACCGTTAACCGAACCGAAATATTTAA
AAAAAATTTAACCGAACCGAATTTTTTCAGTTAATTAGGTCGGTTAACCGAATTAACCGAAAATT
ATATGTTTTTTATTTTTGGTTAAAAATTAACCGAATTACCCGAATTACC
Found at i:29085893 original size:9 final size:9
Alignment explanation
Indices: 29085875--29085914 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
29085865 TTTGGTTAAA
*
29085875 AATTAACCG
1 AATTACCCG
29085884 AATTACCCG
1 AATTACCCG
*
29085893 AATTACCTG
1 AATTACCCG
29085902 AATTACCCG
1 AATTACCCG
29085911 AATT
1 AATT
29085915 GAATCACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTACCCG
Found at i:29085944 original size:17 final size:17
Alignment explanation
Indices: 29085922--29085982 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
29085912 ATTGAATCAC
29085922 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
29085939 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
29085959 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
29085976 TACATAA
1 TACATAA
29085983 GTCTTGAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 20 0.61
20 13 0.39
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:29085959 original size:37 final size:37
Alignment explanation
Indices: 29085913--29085987 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
29085903 ATTACCCGAA
29085913 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
29085950 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
29085987 T
1 T
29085988 GAAATTAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.33
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:29086001 original size:37 final size:37
Alignment explanation
Indices: 29085913--29086004 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
29085903 ATTACCCGAA
*
29085913 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
*
29085950 TTGAATCACTACATAATTAAAAACATTACATAAGTC-
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
29085986 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
29086005 GAAATATAAG
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
36 3 0.06
37 46 0.88
38 3 0.06
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (37 bp):
TTGAATAACTACATAATTAAAAACATTACATAAGTCT
Found at i:29091068 original size:62 final size:61
Alignment explanation
Indices: 29090954--29091079 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 61
29090944 ATATTATTTA
29090954 GATCATTATAGAACACATGCACTGCACCCTTCGGTATTCAACTTAATCAATTAAATTAGTT
1 GATCATTATAGAACACATGCACTGCACCCTTCGGTATTCAACTTAATCAATTAAATTAGTT
* *
29091015 GATCATTATGGAACACATGCATTGCACCCCTTCGGTATTCAACTTAATCAATTAAATTAGTT
1 GATCATTATAGAACACATGCACTGCA-CCCTTCGGTATTCAACTTAATCAATTAAATTAGTT
29091077 GAT
1 GAT
29091080 AAAGCCCAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 24 0.39
62 38 0.61
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (61 bp):
GATCATTATAGAACACATGCACTGCACCCTTCGGTATTCAACTTAATCAATTAAATTAGTT
Found at i:29093988 original size:112 final size:111
Alignment explanation
Indices: 29093719--29094369 Score: 1041
Period size: 112 Copynumber: 5.9 Consensus size: 111
29093709 GAGGAAAATT
*
29093719 TTTCAAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
**
29093784 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCC--TTCCAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAAAA
* *
29093828 TTTCAAAATAAGGTAATGTTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
29093893 CGATTTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAAAA
66 CGA-TTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAAAA
* *
29093940 ATTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAAAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
29094005 CGATTTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAAAA
66 CGA-TTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAAAA
*
29094052 ATTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
**
29094117 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCC--TTCCAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAAAA
*
29094161 TTTCAAAATAAGGCAATG-TTTGCGTTTGAAAACTT-GAGAAAACGTGCCCTAATGTGCTGGGTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAA-TTCGAGAAAACGTGCCCTAATGTGCTGGGTT
*
29094224 TCGATTTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAAAA
65 TCGA-TTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAAAA
* * *
29094272 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAG-GAATGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
29094336 CGA--TTTCTCGTTTAACCAAATAGCCAAATATCCT
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCT
29094370 CTTGAATTTC
Statistics
Matches: 511, Mismatches: 22, Indels: 19
0.93 0.04 0.03
Matches are distributed among these distances:
108 74 0.14
109 124 0.24
110 31 0.06
111 84 0.16
112 198 0.39
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (111 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTAAAAAAA
Found at i:29106292 original size:101 final size:101
Alignment explanation
Indices: 29106116--29106898 Score: 1169
Period size: 101 Copynumber: 7.8 Consensus size: 101
29106106 TTTGTAATTT
* *
29106116 AAAAGATTGAAGCCACAACGGCGAATCTTA-CTT-CCAAGCGATGCAGCGGAACAGATTGAAGCT
1 AAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAACAGATTGAAGCT
* *
29106179 ACAACGGCGAATCTCGCTTCCTAGACATTCCAATTC
66 ACAACGGCGAATCTCGCTTCCTAGACATTGCAACTC
*
29106215 AAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAATAGATTGAAGCT
1 AAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAACAGATTGAAGCT
*
29106280 ACAACGGTGAATCTCGCTTCCTAGACATTGCAACTC
66 ACAACGGCGAATCTCGCTTCCTAGACATTGCAACTC
*
29106316 AAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCAATGCAGCGGAACAGATTGAAGCT
1 AAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAACAGATTGAAGCT
*
29106381 ACAATGGCGAATCTCGCTTCCTAGACATTGCAACTC
66 ACAACGGCGAATCTCGCTTCCTAGACATTGCAACTC
* * *
29106417 AAAAGATTGAGGCCACAACGGCGAATCTTACCTTTCTAGGCAATGCAGCGGAACAGATTGAAGCT
1 AAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAACAGATTGAAGCT
*
29106482 ACAACGGTGAATCTCGCTTCCTAGACATTGCAACTC
66 ACAACGGCGAATCTCGCTTCCTAGACATTGCAACTC
* * *
29106518 AAAAGATTGATGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGAAACAAATTGAAGCT
1 AAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAACAGATTGAAGCT
* *
29106583 A-AACGGCGAATCTCACTTCCTAGACATTGCAATTC
66 ACAACGGCGAATCTCGCTTCCTAGACATTGCAACTC
*
29106618 AAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCAATGCAGCGGAACAGATTGAAGCT
1 AAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAACAGATTGAAGCT
* * *
29106683 GCAACGGTGAATCTCGCTTCCTCGACATTGCAACTC
66 ACAACGGCGAATCTCGCTTCCTAGACATTGCAACTC
* * *
29106719 AAAAGATTAAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAGCAAATTGAAG-T
1 AAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAACAGATTGAAGCT
* * ** * *
29106783 CACAACGGTGAATCTTGCTTCCCCGACATTGCAATTT
66 -ACAACGGCGAATCTCGCTTCCTAGACATTGCAACTC
* ** * ** * * *
29106820 AAAACATTGAGGCCACAACGGCGAATCTTACCTTCTTAGGTGATATAGTGGAATAGATTGAAGCC
1 AAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAACAGATTGAAGCT
*
29106885 ACAACAGCGAATCT
66 ACAACGGCGAATCT
29106899 TCCTTCCCCG
Statistics
Matches: 624, Mismatches: 55, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
99 29 0.05
100 96 0.15
101 499 0.80
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (101 bp):
AAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGCGGAACAGATTGAAGCT
ACAACGGCGAATCTCGCTTCCTAGACATTGCAACTC
Found at i:29107100 original size:50 final size:49
Alignment explanation
Indices: 29106943--29107101 Score: 131
Period size: 50 Copynumber: 3.2 Consensus size: 49
29106933 GGTGTAGTGG
* ** * * *
29106943 AACAGATTGAAGCTACGACAGTGAATCTTGCTTCCCCAACATTGCGGTTA
1 AACAGATTGAAGCTACGACAGCGAATC-TAATTTCCCGACATTGCAGTTA
* * * * ** * * *
29106993 AATAAATTGAAGCTACGACAGCGAATCTTACTTTCCTGACGGTGTAATGA
1 AACAGATTGAAGCTACGACAGCGAATC-TAATTTCCCGACATTGCAGTTA
*
29107043 AATAGATTGAAGCTACGA-AGACGAATCTAATTTCTCCGACATTGCAGTTA
1 AACAGATTGAAGCTACGACAG-CGAATCTAATTTC-CCGACATTGCAGTTA
29107093 AACAGATTG
1 AACAGATTG
29107102 GAGATGGAAG
Statistics
Matches: 85, Mismatches: 22, Indels: 4
0.77 0.20 0.04
Matches are distributed among these distances:
49 8 0.09
50 77 0.91
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (49 bp):
AACAGATTGAAGCTACGACAGCGAATCTAATTTCCCGACATTGCAGTTA
Found at i:29109676 original size:109 final size:109
Alignment explanation
Indices: 29109311--29110066 Score: 1176
Period size: 109 Copynumber: 6.9 Consensus size: 109
29109301 GAGGAAAATT
* *
29109311 TTTCAAAATAATGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGATTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
29109376 TGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
* *
29109420 TTTCAAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
* **
29109485 CGATTTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAAA
66 CGA-TTTTTCTCGTTCAACCAAATAGCCAAATATCC-TTCCAAAAA
* *
29109531 ATTCAAAATAAGGCAATATTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
29109596 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
*
29109640 TTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
* **
29109705 CGATTTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAAA
66 CGA-TTTTTCTCGTTCAACCAAATAGCCAAATATCC-TTCCAAAAA
** * **
29109751 AATCAAAATAAGGCAATGTTTTGTGTTTGGAAATTCAAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
29109816 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCATTCCAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
** * *
29109860 TTTCAAAATAAGGCAATGTTTTGCGTTTAAAAATTCGAGAAAATGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
* **
29109925 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
* *
29109969 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAG-GAACGTGCCCTAATGTGTTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
29110033 TGA--TTTCTCGTTTAACCAAATAGCCAAATATCCT
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCT
29110067 CTTGAATTTC
Statistics
Matches: 592, Mismatches: 51, Indels: 11
0.91 0.08 0.02
Matches are distributed among these distances:
106 29 0.05
108 24 0.04
109 276 0.47
110 123 0.21
111 140 0.24
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
Found at i:29109694 original size:220 final size:220
Alignment explanation
Indices: 29109312--29110066 Score: 1304
Period size: 220 Copynumber: 3.5 Consensus size: 220
29109302 AGGAAAATTT
* * *
29109312 TTCAAAATAATGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGATTTT
1 TTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTC
*
29109377 GATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGGTAATGTTTT
66 GATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGGCAATGTTTT
*
29109442 GCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAACCAA
131 GCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAACCAA
29109507 ATAGCTAAATATCCTTTTAAAAAAA
196 ATAGCTAAATATCCTTTTAAAAAAA
*
29109532 TTCAAAATAAGGCAATATTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTC
1 TTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTC
29109597 GATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGGCAATGTTTT
66 GATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGGCAATGTTTT
*
29109662 GCGTTTGAAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAACCAA
131 GCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAACCAA
29109727 ATAGCTAAATATCCTTTTAAAAAAA
196 ATAGCTAAATATCCTTTTAAAAAAA
* * **
29109752 ATCAAAATAAGGCAATGTTTTGTGTTTGGAAATTCAAGAAAACGTGCCCTAATGTGCTGGGTTTC
1 TTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTC
*
29109817 GATTTTTCTCGTTCAACCAAATAGCCAAATATCATTCCAAAAATTTCAAAATAAGGCAATGTTTT
66 GATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGGCAATGTTTT
* *
29109882 GCGTTTAAAAATTCGAGAAAATGTGCCCTAATGTGCTGGGTTTCGA-TTTTTCTCGTTCAACCAA
131 GCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAACCAA
*
29109946 ATAGCTAAATATCCTTTT-AAAAAT
196 ATAGCTAAATATCCTTTTAAAAAAA
* * *
29109970 TTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAG-GAACGTGCCCTAATGTGTTGGGTTTT
1 TTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTC
*
29110034 GA--TTTCTCGTTTAACCAAATAGCCAAATATCCT
66 GATTTTTCTCGTTCAACCAAATAGCCAAATATCCT
29110067 CTTGAATTTC
Statistics
Matches: 509, Mismatches: 26, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
215 29 0.06
217 25 0.05
218 39 0.08
219 36 0.07
220 380 0.75
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (220 bp):
TTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTTC
GATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGGCAATGTTTT
GCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAACCAA
ATAGCTAAATATCCTTTTAAAAAAA
Found at i:29109910 original size:329 final size:330
Alignment explanation
Indices: 29109311--29110066 Score: 1209
Period size: 329 Copynumber: 2.3 Consensus size: 330
29109301 GAGGAAAATT
* *
29109311 TTTCAAAATAATGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGATTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
* ** *
29109376 TGATTTTTCTCGTTCAACCAAATAGCCAAATATCC-TTCCAAAAATTTCAAAATAAGGTAATGTT
66 TGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTCAAAAAAAATCAAAATAAGGCAATGTT
*
29109440 TTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAACC
131 TTGCGTTTGGAAATTCAAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAACC
* * * ** *
29109505 AAATAGCTAAATATCCTTTTAAAAAAATTCAAAATAAGGCAATATTTTGCGTTTGGAAATTTGAG
196 AAATAGCCAAATATCCATTCAAAAAAATTCAAAATAAGGCAATATTTTGCGTTTAAAAATTCGAG
29109570 AAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCC
261 AAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCC
29109635 AAAAA
326 AAAAA
*
29109640 TTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * *
29109705 CGATTTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAAAAATCAAAATAAGGCAATGT
66 TGA-TTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTCAAAAAAAATCAAAATAAGGCAATGT
*
29109770 TTTGTGTTTGGAAATTCAAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTTTCTCGTTCAAC
130 TTTGCGTTTGGAAATTCAAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAAC
* * *
29109834 CAAATAGCCAAATAT-CATTCCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTAAAAATTCGA
195 CAAATAGCCAAATATCCATTCAAAAAAATTCAAAATAAGGCAATATTTTGCGTTTAAAAATTCGA
* * *
29109898 GAAAATGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTT
260 GAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTC
*
29109963 TAAAAA
325 CAAAAA
* *
29109969 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAG-GAACGTGCCCTAATGTGTTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
29110033 TGA--TTTCTCGTTTAACCAAATAGCCAAATATCCT
66 TGATTTTTCTCGTTCAACCAAATAGCCAAATATCCT
29110067 CTTGAATTTC
Statistics
Matches: 394, Mismatches: 31, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
325 29 0.07
328 25 0.06
329 210 0.53
330 60 0.15
331 70 0.18
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (330 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
TGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTCAAAAAAAATCAAAATAAGGCAATGTT
TTGCGTTTGGAAATTCAAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCTCGTTCAACC
AAATAGCCAAATATCCATTCAAAAAAATTCAAAATAAGGCAATATTTTGCGTTTAAAAATTCGAG
AAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCC
AAAAA
Found at i:29112364 original size:18 final size:18
Alignment explanation
Indices: 29112325--29112448 Score: 61
Period size: 18 Copynumber: 6.6 Consensus size: 18
29112315 TTTAGGTGGG
* *
29112325 GGTGCTGGTGGA-GGCTTT
1 GGTGGTGGTGGAGGGC-TA
29112343 GGTGGTGGTGGAGGGCTA
1 GGTGGTGGTGGAGGGCTA
* * * *
29112361 GGTGGCGGTGGTGGTCTTGGG
1 GGTGGTGGTGGAGGGC-T--A
* *
29112382 GGTGGTGGGGGAGGAGGATTA
1 GGTGGTGGTGGA-G-GG-CTA
* * *
29112403 GGTGGTGGAGGAGGTCTT
1 GGTGGTGGTGGAGGGCTA
* *
29112421 GGGGGTGGTGGAGGCCTA
1 GGTGGTGGTGGAGGGCTA
29112439 GGTGGTGGTG
1 GGTGGTGGTG
29112449 CGGGAGGAGG
Statistics
Matches: 78, Mismatches: 21, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
18 49 0.63
19 5 0.06
20 1 0.01
21 20 0.26
22 1 0.01
23 2 0.03
ACGTcount: A:0.09, C:0.06, G:0.60, T:0.25
Consensus pattern (18 bp):
GGTGGTGGTGGAGGGCTA
Found at i:29112365 original size:30 final size:30
Alignment explanation
Indices: 29112271--29112365 Score: 77
Period size: 30 Copynumber: 3.2 Consensus size: 30
29112261 TGGTGGTCTA
* * *
29112271 GGTGGTGGTTTTGGTGGTGGTGGAGGCACT
1 GGTGGAGGATTTGGTGGTGGTGGAGGCGCT
** * * *
29112301 GGTGGAGGAGGTGGT-TTAGGTGGGGGTGCT
1 GGTGGAGGATTTGGTGGT-GGTGGAGGCGCT
*
29112331 GGTGGAGGCTTTGGTGGTGGTGGAGG-GCT
1 GGTGGAGGATTTGGTGGTGGTGGAGGCGCT
29112360 AGGTGG
1 -GGTGG
29112366 CGGTGGTGGT
Statistics
Matches: 49, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
29 4 0.08
30 44 0.90
31 1 0.02
ACGTcount: A:0.08, C:0.05, G:0.58, T:0.28
Consensus pattern (30 bp):
GGTGGAGGATTTGGTGGTGGTGGAGGCGCT
Found at i:29112388 original size:42 final size:42
Alignment explanation
Indices: 29112342--29112431 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
29112332 GTGGAGGCTT
* * * * *
29112342 TGGTGGTGGTGGAGGGCTAGGTGGCGGTGGTGGTCTTGGGGG
1 TGGTGGGGGAGGAGGACTAGGTGGCGGAGGAGGTCTTGGGGG
* *
29112384 TGGTGGGGGAGGAGGATTAGGTGGTGGAGGAGGTCTTGGGGG
1 TGGTGGGGGAGGAGGACTAGGTGGCGGAGGAGGTCTTGGGGG
29112426 TGGTGG
1 TGGTGG
29112432 AGGCCTAGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.09, C:0.04, G:0.62, T:0.24
Consensus pattern (42 bp):
TGGTGGGGGAGGAGGACTAGGTGGCGGAGGAGGTCTTGGGGG
Found at i:29112398 original size:60 final size:59
Alignment explanation
Indices: 29112283--29112495 Score: 178
Period size: 60 Copynumber: 3.5 Consensus size: 59
29112273 TGGTGGTTTT
* * * * *
29112283 GGTGGTGGTGGAGGCACTGGTGGAGGAGGTGGT-TTAGGTGGG-GGTGCTGGTGGAGGCTTT
1 GGTGGTGGTGGAGG-ACTGGTGGAGGTGGTGGTCTT-GG-GGGTGGTGCGGGAGGAGGATTA
* * *
29112343 GGTGGTGGTGGAGGGCTAGGTGGCGGTGGTGGTCTTGGGGGTGGTGGGGGAGGAGGATTA
1 GGTGGTGGTGGAGGACT-GGTGGAGGTGGTGGTCTTGGGGGTGGTGCGGGAGGAGGATTA
* * * * * * * *
29112403 GGTGGTGGAGGAGGTCTTGGGGGTGGTGGAGGCCTAGGTGGTGGTGCGGGAGGAGGATTA
1 GGTGGTGGTGGAGGAC-TGGTGGAGGTGGTGGTCTTGGGGGTGGTGCGGGAGGAGGATTA
* * * *
29112463 GGTGGTGGAGGTGGTCTTGGTGGAGGTGCTGGT
1 GGTGGTGGTGGAGGAC-TGGTGGAGGTGGTGGT
29112496 GGTGGAGTTG
Statistics
Matches: 126, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
59 5 0.04
60 118 0.94
61 3 0.02
ACGTcount: A:0.10, C:0.06, G:0.59, T:0.25
Consensus pattern (59 bp):
GGTGGTGGTGGAGGACTGGTGGAGGTGGTGGTCTTGGGGGTGGTGCGGGAGGAGGATTA
Found at i:29112467 original size:78 final size:78
Alignment explanation
Indices: 29112385--29112551 Score: 210
Period size: 78 Copynumber: 2.1 Consensus size: 78
29112375 TCTTGGGGGT
* * * * *
29112385 GGTGGGGGAGGAGGAT-TAGGTGGTGGAGGAGGTCTTGGGGGTGGTGGAGGCCTAGGTGGTGGTG
1 GGTGGTGGAGGAGG-TCTAGGTGGAGGAGCAGGTCGTGGAGGTGGTGGAGGCCTAGGTGGTGGTG
29112449 CGGGAGGAGGATTA
65 CGGGAGGAGGATTA
* * * * * * *
29112463 GGTGGTGGAGGTGGTCTTGGTGGAGGTGCTGGTGGTGGAGTTGGTGGAGGCCTGGGTGGTGGTGC
1 GGTGGTGGAGGAGGTCTAGGTGGAGGAGCAGGTCGTGGAGGTGGTGGAGGCCTAGGTGGTGGTGC
29112528 GGGAGGAGGATTA
66 GGGAGGAGGATTA
29112541 GGTGGTGGAGG
1 GGTGGTGGAGG
29112552 TGGTGTTGGT
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
77 1 0.01
78 75 0.99
ACGTcount: A:0.13, C:0.05, G:0.59, T:0.23
Consensus pattern (78 bp):
GGTGGTGGAGGAGGTCTAGGTGGAGGAGCAGGTCGTGGAGGTGGTGGAGGCCTAGGTGGTGGTGC
GGGAGGAGGATTA
Found at i:29112489 original size:24 final size:24
Alignment explanation
Indices: 29112462--29112512 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
29112452 GAGGAGGATT
* *
29112462 AGGTGGTGGAGGTGGTCTTGGTGG
1 AGGTGCTGGAGGTGGACTTGGTGG
* *
29112486 AGGTGCTGGTGGTGGAGTTGGTGG
1 AGGTGCTGGAGGTGGACTTGGTGG
29112510 AGG
1 AGG
29112513 CCTGGGTGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.10, C:0.04, G:0.59, T:0.27
Consensus pattern (24 bp):
AGGTGCTGGAGGTGGACTTGGTGG
Found at i:29112498 original size:15 final size:15
Alignment explanation
Indices: 29112463--29112502 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
29112453 AGGAGGATTA
*
29112463 GGTGGTGGAGGTGGT
1 GGTGGTGGAGGTGCT
**
29112478 CTTGGTGGAGGTGCT
1 GGTGGTGGAGGTGCT
29112493 GGTGGTGGAG
1 GGTGGTGGAG
29112503 TTGGTGGAGG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.07, C:0.05, G:0.60, T:0.28
Consensus pattern (15 bp):
GGTGGTGGAGGTGCT
Found at i:29112520 original size:24 final size:24
Alignment explanation
Indices: 29112479--29112524 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
29112469 GGAGGTGGTC
*
29112479 TTGGTGGAGGTGCTGGTGGTGGAG
1 TTGGTGGAGGTCCTGGTGGTGGAG
29112503 TTGGTGGAGG-CCTGGGTGGTGG
1 TTGGTGGAGGTCCT-GGTGGTGG
29112525 TGCGGGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.07, C:0.07, G:0.59, T:0.28
Consensus pattern (24 bp):
TTGGTGGAGGTCCTGGTGGTGGAG
Found at i:29112670 original size:60 final size:60
Alignment explanation
Indices: 29112606--29113025 Score: 633
Period size: 60 Copynumber: 7.0 Consensus size: 60
29112596 GCCACAAGCT
* * * * *
29112606 TGGAGGAGCAGGAGGAGGATTGGGCGGTGGTGGAGGACTTGGCAGTGGCCATGGGCTGGT
1 TGGAGGTGCAGGAGGTGGATTGGGTGGTGGTGGAGGACTTGGCGGTGGCCATGGGCTGGG
* *
29112666 TGGAGGTGCAGGAGGTGGACTGGGTGGTGGTGGAGGACTTGGCGGTGGCCATGGGCTTGG
1 TGGAGGTGCAGGAGGTGGATTGGGTGGTGGTGGAGGACTTGGCGGTGGCCATGGGCTGGG
29112726 TGGAGGTGCAGGAGGTGGATTGGGTGGTGGTGGAGGACTTGGCGGTGGCCATGGGCTGGG
1 TGGAGGTGCAGGAGGTGGATTGGGTGGTGGTGGAGGACTTGGCGGTGGCCATGGGCTGGG
* * *
29112786 AGGAAGTGCAGGAGGTGGATTGGGTGGTGGTGGAGGACTTGGCAGTGGCCATGGGCTGGG
1 TGGAGGTGCAGGAGGTGGATTGGGTGGTGGTGGAGGACTTGGCGGTGGCCATGGGCTGGG
*
29112846 TGGAGGTGCAGGAGGTGGAATGGGTGGTGGTGGAGGACTTGGCGGTGGCCATGGGCTGGG
1 TGGAGGTGCAGGAGGTGGATTGGGTGGTGGTGGAGGACTTGGCGGTGGCCATGGGCTGGG
* * * * * *
29112906 TGGGGGTGCAGGAGGTGGGTTGGGTGGTGGTGGAGGACTCGGTGGGGGCCATGGGCTTGG
1 TGGAGGTGCAGGAGGTGGATTGGGTGGTGGTGGAGGACTTGGCGGTGGCCATGGGCTGGG
* * * * * *
29112966 TGGAGGTGCAGGAGGTGGATTAGGAGGGGGTGGAGGACTAGGTGGTGGCCAAGGGCTGGG
1 TGGAGGTGCAGGAGGTGGATTGGGTGGTGGTGGAGGACTTGGCGGTGGCCATGGGCTGGG
29113026 AGGTGGAGGC
Statistics
Matches: 328, Mismatches: 32, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 328 1.00
ACGTcount: A:0.14, C:0.10, G:0.56, T:0.20
Consensus pattern (60 bp):
TGGAGGTGCAGGAGGTGGATTGGGTGGTGGTGGAGGACTTGGCGGTGGCCATGGGCTGGG
Found at i:29112847 original size:36 final size:35
Alignment explanation
Indices: 29112806--29112918 Score: 95
Period size: 36 Copynumber: 3.5 Consensus size: 35
29112796 GGAGGTGGAT
*
29112806 TGGGTGGTGGTGGAGGACTTGGCAGTGGCCATGGGC
1 TGGGTGGTGGTGCAGGACTTGGC-GTGGCCATGGGC
* *
29112842 TGGGTGGAGGTGCAGGA----G-GTGG-AATGGG-
1 TGGGTGGTGGTGCAGGACTTGGCGTGGCCATGGGC
29112870 T-GGTGGT-G-G-AGGACTTGGCGGTGGCCATGGGC
1 TGGGTGGTGGTGCAGGACTTGGC-GTGGCCATGGGC
*
29112902 TGGGTGGGGGTGCAGGA
1 TGGGTGGTGGTGCAGGA
29112919 GGTGGGTTGG
Statistics
Matches: 59, Mismatches: 6, Indels: 24
0.66 0.07 0.27
Matches are distributed among these distances:
24 4 0.07
25 1 0.02
26 1 0.02
27 5 0.08
28 2 0.03
29 5 0.08
30 8 0.14
31 5 0.08
32 2 0.03
33 5 0.08
34 1 0.02
35 1 0.02
36 19 0.32
ACGTcount: A:0.12, C:0.11, G:0.57, T:0.20
Consensus pattern (35 bp):
TGGGTGGTGGTGCAGGACTTGGCGTGGCCATGGGC
Found at i:29112924 original size:24 final size:24
Alignment explanation
Indices: 29112897--29112942 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
29112887 GCGGTGGCCA
29112897 TGGGCTGGGTGGGGGTGCAGGAGG
1 TGGGCTGGGTGGGGGTGCAGGAGG
* * *
29112921 TGGGTTGGGTGGTGGTGGAGGA
1 TGGGCTGGGTGGGGGTGCAGGA
29112943 CTCGGTGGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.09, C:0.04, G:0.65, T:0.22
Consensus pattern (24 bp):
TGGGCTGGGTGGGGGTGCAGGAGG
Found at i:29113143 original size:18 final size:18
Alignment explanation
Indices: 29113120--29113211 Score: 78
Period size: 18 Copynumber: 4.9 Consensus size: 18
29113110 AGGAGGGCTC
29113120 GGTGGAGTTGGTGGTGGT
1 GGTGGAGTTGGTGGTGGT
* *
29113138 GGTGGAGGTTTTGGAGGTGGA
1 GGTGGA-G--TTGGTGGTGGT
* *
29113159 GGAGGATTTGGTGGTGGT
1 GGTGGAGTTGGTGGTGGT
* *
29113177 GGTGGAGTTGGGGGAGGAT
1 GGTGGAGTTGGTGGTGG-T
*
29113196 -TTGGAGTTGGTGGTGG
1 GGTGGAGTTGGTGGTGG
29113212 ATTTGGCAAA
Statistics
Matches: 57, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
18 41 0.72
19 2 0.04
21 14 0.25
ACGTcount: A:0.11, C:0.00, G:0.59, T:0.30
Consensus pattern (18 bp):
GGTGGAGTTGGTGGTGGT
Found at i:29113145 original size:42 final size:42
Alignment explanation
Indices: 29113042--29113145 Score: 154
Period size: 42 Copynumber: 2.5 Consensus size: 42
29113032 AGGCGGATTT
* * *
29113042 GGTGGTGGTGCAGGTGGTGGAGCTGGAGGAGGGCTTGGTGGA
1 GGTGGTGGTGCTGGTGGAGGAGCTGGAGGAGGGCTCGGTGGA
*
29113084 GGTGGTGGTGCTGGAGGAGGAGCTGGAGGAGGGCTCGGTGGA
1 GGTGGTGGTGCTGGTGGAGGAGCTGGAGGAGGGCTCGGTGGA
* *
29113126 GTTGGTGGTGGTGGTGGAGG
1 GGTGGTGGTGCTGGTGGAGG
29113146 TTTTGGAGGT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.12, C:0.07, G:0.61, T:0.21
Consensus pattern (42 bp):
GGTGGTGGTGCTGGTGGAGGAGCTGGAGGAGGGCTCGGTGGA
Found at i:29113153 original size:42 final size:42
Alignment explanation
Indices: 29113044--29113183 Score: 133
Period size: 42 Copynumber: 3.4 Consensus size: 42
29113034 GCGGATTTGG
** * * *
29113044 TGGTGGTGCAGGTGGTGGAGCTGGAGGAGGGCTTGGTGGAGG
1 TGGTGGTGGTGGTGGAGGAGCTGGAGGAGGGCTAGGTGGAGT
* * *
29113086 TGGTGGTGCTGGAGGAGGAGCTGGAGGAGGGCTCGGTGGAGT
1 TGGTGGTGGTGGTGGAGGAGCTGGAGGAGGGCTAGGTGGAGT
*** * * *
29113128 TGGTGGTGGTGGTGGAGGTTTTGGAGG-TGG--AGGAGGATT
1 TGGTGGTGGTGGTGGAGGAGCTGGAGGAGGGCTAGGTGGAGT
29113167 TGGTGGTGGTGGTGGAG
1 TGGTGGTGGTGGTGGAG
29113184 TTGGGGGAGG
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 23 0.27
41 2 0.02
42 59 0.70
ACGTcount: A:0.12, C:0.05, G:0.59, T:0.24
Consensus pattern (42 bp):
TGGTGGTGGTGGTGGAGGAGCTGGAGGAGGGCTAGGTGGAGT
Found at i:29113171 original size:30 final size:30
Alignment explanation
Indices: 29113047--29113199 Score: 105
Period size: 30 Copynumber: 5.1 Consensus size: 30
29113037 GATTTGGTGG
* * **
29113047 TGGTGCAGGTGGTGGAGCTGGAGGAGGGCT
1 TGGTGGAGGTGGTGGAGGTGGAGGAGGATT
* * **
29113077 TGGTGGAGGTGGTGGTGCTGGAGGAGGAGC
1 TGGTGGAGGTGGTGGAGGTGGAGGAGGATT
* * * *
29113107 TGGAGGAGGGCTCGGTGGAGTTGGTGGTGG---
1 TGGTGGA-GG-T-GGTGGAGGTGGAGGAGGATT
**
29113137 TGGTGGAGGTTTTGGAGGTGGAGGAGGATT
1 TGGTGGAGGTGGTGGAGGTGGAGGAGGATT
* * *
29113167 TGGTGGTGGTGGTGGAGTTGGGGGAGGATT
1 TGGTGGAGGTGGTGGAGGTGGAGGAGGATT
29113197 TGG
1 TGG
29113200 AGTTGGTGGT
Statistics
Matches: 96, Mismatches: 21, Indels: 12
0.74 0.16 0.09
Matches are distributed among these distances:
27 12 0.12
28 1 0.01
29 2 0.02
30 65 0.68
31 2 0.02
32 1 0.01
33 13 0.14
ACGTcount: A:0.12, C:0.05, G:0.58, T:0.25
Consensus pattern (30 bp):
TGGTGGAGGTGGTGGAGGTGGAGGAGGATT
Found at i:29113213 original size:18 final size:18
Alignment explanation
Indices: 29113166--29113217 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
29113156 GGAGGAGGAT
*
29113166 TTGGTGGTGG-TGGTGGAG
1 TTGGTGGTGGAT-TTGGAG
* *
29113184 TTGGGGGAGGATTTGGAG
1 TTGGTGGTGGATTTGGAG
29113202 TTGGTGGTGGATTTGG
1 TTGGTGGTGGATTTGG
29113218 CAAAGGTGGA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.10, C:0.00, G:0.56, T:0.35
Consensus pattern (18 bp):
TTGGTGGTGGATTTGGAG
Found at i:29119550 original size:50 final size:50
Alignment explanation
Indices: 29119490--29119674 Score: 228
Period size: 50 Copynumber: 3.7 Consensus size: 50
29119480 TACTGCTAAT
* * * ** * *
29119490 GCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAAC
** * *
29119540 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAAC
*
29119590 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTA-GTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-ATAGGTGCCAAC
* *
29119640 GCCATGTCCTAGACATGATCTTACATGGGACCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
29119675 TATAATCTCA
Statistics
Matches: 117, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
50 116 0.99
51 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAAC
Found at i:29131180 original size:22 final size:22
Alignment explanation
Indices: 29131147--29131313 Score: 89
Period size: 22 Copynumber: 8.0 Consensus size: 22
29131137 GGGGGGGCAG
29131147 AAGGAGAGGGAAAGAAAGAAAGA
1 AAGGAGA-GGAAAGAAAGAAAGA
29131170 AAGGAGAGGAAAGAAAG-AA-A
1 AAGGAGAGGAAAGAAAGAAAGA
29131190 AA-GA-AGGAAAGAAATG---GA
1 AAGGAGAGGAAAGAAA-GAAAGA
*
29131208 AAGGAGAAGAGAAAAAAAGGAAAGA
1 AAGGAG-AG-GAAAGAAA-GAAAGA
* * *
29131233 AAGAAGAAG-AAG-AA-AAGGA
1 AAGGAGAGGAAAGAAAGAAAGA
* *
29131252 AAAGAGAAGAAA-AAAGAAAGA
1 AAGGAGAGGAAAGAAAGAAAGA
*
29131273 AA-GA-AGGAAA-AAA-AAGGA
1 AAGGAGAGGAAAGAAAGAAAGA
29131291 AAGGAGAAGAGAAA-AAA-AAAGA
1 AAGGAG-AG-GAAAGAAAGAAAGA
29131313 A
1 A
29131314 GAAGAAGAGG
Statistics
Matches: 116, Mismatches: 12, Indels: 33
0.72 0.07 0.20
Matches are distributed among these distances:
18 19 0.16
19 26 0.22
20 9 0.08
21 14 0.12
22 32 0.28
23 8 0.07
24 1 0.01
25 7 0.06
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (22 bp):
AAGGAGAGGAAAGAAAGAAAGA
Found at i:29131181 original size:18 final size:18
Alignment explanation
Indices: 29131160--29131214 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 18
29131150 GAGAGGGAAA
29131160 GAAAGAAAGAAAGGAGAG
1 GAAAGAAAGAAAGGAGAG
*
29131178 GAAAGAAAGAAA-AAGAAG
1 GAAAGAAAGAAAGGAG-AG
29131196 GAAAGAAATGGAAAGGAGA
1 GAAAGAAA--GAAAGGAGA
29131215 AGAGAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 2 0.06
18 22 0.71
20 5 0.16
21 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.02
Consensus pattern (18 bp):
GAAAGAAAGAAAGGAGAG
Found at i:29131236 original size:49 final size:49
Alignment explanation
Indices: 29131157--29131293 Score: 144
Period size: 44 Copynumber: 2.9 Consensus size: 49
29131147 AAGGAGAGGG
*
29131157 AAAGA-AAGAAAGAAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAATGGA
1 AAAGAGAAGAAA-AAA-GA-AGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGA
*
29131208 AAGGAGAAGAGAAAAA-AAGGAAAGAAAG---AAGAA-G-AAGAAAAGGA
1 AAAGAGAAGA-AAAAAGAAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGA
* * *
29131252 AAAGAGAAGAAAAAAGAAAGAAAGAAGGAAAAAAAAGGAAAG
1 AAAGAGAAGAAAAAAGAAGGAAAGAAAGAAAAAGAAGGAAAG
29131294 GAGAAGAGAA
Statistics
Matches: 72, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
43 5 0.07
44 28 0.39
45 1 0.01
46 5 0.07
47 4 0.06
48 1 0.01
49 14 0.19
50 1 0.01
51 4 0.06
52 7 0.10
53 2 0.03
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (49 bp):
AAAGAGAAGAAAAAAGAAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGA
Found at i:29131253 original size:44 final size:43
Alignment explanation
Indices: 29131179--29131321 Score: 169
Period size: 39 Copynumber: 3.4 Consensus size: 43
29131169 AAAGGAGAGG
*
29131179 AAAGAAAGAAA-AAGAAGGAAAGAAATGGAAAGGAGAAGAGAAAA
1 AAAGAAAGAAAGAAGAA-G-AAGAAAAGGAAAGGAGAAGAGAAAA
*
29131223 AAAGGAAAGAAAGAAGAAGAAGAAAAGGAAAAGAG-A-AG-AAA
1 AAA-GAAAGAAAGAAGAAGAAGAAAAGGAAAGGAGAAGAGAAAA
29131264 AAAGAAAGAAAGAAGGAA-AA-AAAAGGAAAGGAGAAGAG-AAA
1 AAAGAAAGAAAGAA-GAAGAAGAAAAGGAAAGGAGAAGAGAAAA
29131305 AAA-AAAG-AAGAAGAAGA
1 AAAGAAAGAAAGAAGAAGA
29131322 GGGAAGGAAG
Statistics
Matches: 90, Mismatches: 3, Indels: 17
0.82 0.03 0.15
Matches are distributed among these distances:
38 3 0.03
39 18 0.20
40 18 0.20
41 17 0.19
42 2 0.02
43 1 0.01
44 17 0.19
45 9 0.10
46 5 0.06
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.01
Consensus pattern (43 bp):
AAAGAAAGAAAGAAGAAGAAGAAAAGGAAAGGAGAAGAGAAAA
Found at i:29131270 original size:7 final size:8
Alignment explanation
Indices: 29131156--29131282 Score: 70
Period size: 8 Copynumber: 15.5 Consensus size: 8
29131146 GAAGGAGAGG
29131156 GAAAGAAA
1 GAAAGAAA
29131164 GAAAGAAA
1 GAAAGAAA
*
29131172 GGAGAGGAAA
1 -GA-AAGAAA
29131182 GAAAG-AA
1 GAAAGAAA
*
29131189 -AAAGAAG
1 GAAAGAAA
29131196 GAAAGAAA
1 GAAAGAAA
*
29131204 TGGAAAG-GA
1 --GAAAGAAA
29131213 GAAGAGAAA
1 GAA-AGAAA
*
29131222 AAAAGGAAA
1 GAAA-GAAA
29131231 GAAAG-AA
1 GAAAGAAA
29131238 G-AAG-AA
1 GAAAGAAA
29131244 GAAAAGGAAAA
1 G-AAA-G-AAA
29131255 GAGAAGAAA
1 GA-AAGAAA
29131264 -AAAGAAA
1 GAAAGAAA
*
29131271 GAAAGAAG
1 GAAAGAAA
29131279 GAAA
1 GAAA
29131283 AAAAAGGAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 32
0.70 0.07 0.24
Matches are distributed among these distances:
6 10 0.11
7 15 0.16
8 33 0.35
9 19 0.20
10 12 0.13
11 5 0.05
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.01
Consensus pattern (8 bp):
GAAAGAAA
Found at i:29131293 original size:83 final size:83
Alignment explanation
Indices: 29131179--29131349 Score: 224
Period size: 83 Copynumber: 2.0 Consensus size: 83
29131169 AAAGGAGAGG
* *
29131179 AAAGAAAGAAAAAGAAGGAAAGAAATGGAAAGGAGAAGAGAAAAAAAGGAAAGAAAGAAGAAGA-
1 AAAGAAAG-AAAAGAAGGAAAAAAAAGGAAAGGAGAAGAG-AAAAAA--AAAG-AAGAAGAAGAG
*
29131243 AGAA-AAGG-AAAAGAGAAGAAA
61 AGAAGAAGGAAAAAAAGAAGAAA
*
29131264 AAAGAAAG-AAAGAAGGAAAAAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAGAAGAAGAGGGAAG
1 AAAGAAAGAAAAGAAGGAAAAAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAGAAGAAGAGAGAA-
29131328 GAAGGAAAAAAAGAAGAAA
65 GAAGGAAAAAAAGAAGAAA
29131347 AAA
1 AAA
29131350 AAGGTAATTT
Statistics
Matches: 78, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
79 10 0.13
80 7 0.09
82 10 0.13
83 43 0.55
85 8 0.10
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (83 bp):
AAAGAAAGAAAAGAAGGAAAAAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAGAAGAAGAGAGAAG
AAGGAAAAAAAGAAGAAA
Found at i:29131892 original size:15 final size:15
Alignment explanation
Indices: 29131874--29131904 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
29131864 ATGTACTGAA
*
29131874 AAAATATAAAATAAT
1 AAAATACAAAATAAT
29131889 AAAATACAAAATAAT
1 AAAATACAAAATAAT
29131904 A
1 A
29131905 TAGTTTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATACAAAATAAT
Found at i:29136297 original size:27 final size:27
Alignment explanation
Indices: 29136241--29136299 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
29136231 TTAATCAATA
****
29136241 TGGCACCATTGGTGCCGCCAATGGTTT
1 TGGCACCATTGGTGCCGCCAATCCCAT
*
29136268 TGGCACCTTTGGTGCCGCCAATCCCAT
1 TGGCACCATTGGTGCCGCCAATCCCAT
29136295 TGGCA
1 TGGCA
29136300 TAACCAAGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.31, G:0.27, T:0.27
Consensus pattern (27 bp):
TGGCACCATTGGTGCCGCCAATCCCAT
Found at i:29136395 original size:27 final size:27
Alignment explanation
Indices: 29136357--29136424 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
29136347 TTTGTTTTTT
29136357 TATATATTTTGGTAAATAAAAAAATTA
1 TATATATTTTGGTAAATAAAAAAATTA
* *
29136384 TATATTTTTTGGTAAATAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAATTA
29136411 TA-ATATTTTGGTAA
1 TATATATTTTGGTAA
29136425 TTTTTTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 11 0.29
27 27 0.71
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (27 bp):
TATATATTTTGGTAAATAAAAAAATTA
Found at i:29136485 original size:3 final size:3
Alignment explanation
Indices: 29136477--29136502 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
29136467 GTAACTTATG
29136477 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
29136503 TTGTGTTATT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:29137354 original size:13 final size:13
Alignment explanation
Indices: 29137338--29137398 Score: 86
Period size: 13 Copynumber: 4.7 Consensus size: 13
29137328 TTTAAACAAA
29137338 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
29137351 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* * *
29137364 ACTTTTCCACAGT
1 ACTTTTCAAAAGC
29137377 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
29137390 ACTTTTCAA
1 ACTTTTCAA
29137399 GTAGTTTTGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.34, C:0.26, G:0.07, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:29140158 original size:21 final size:21
Alignment explanation
Indices: 29140134--29140175 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
29140124 TCAATTTAAT
29140134 GAAATA-ATTTTTCATAAATAA
1 GAAATACATTTTT-ATAAATAA
29140155 GAAATACATTTTTATAAATAA
1 GAAATACATTTTTATAAATAA
29140176 TTTTCATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (21 bp):
GAAATACATTTTTATAAATAA
Found at i:29140541 original size:26 final size:28
Alignment explanation
Indices: 29140481--29140547 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 28
29140471 TTCAAATCAA
* *
29140481 TTTGAGTGTTTGCTTTTTGTTTCTTTTT
1 TTTGAGTGTTTGCTTTTTGTGTCTTTCT
29140509 TTCTGAGTGTTTGCTTTTT-TGT-TTTCT
1 TT-TGAGTGTTTGCTTTTTGTGTCTTTCT
29140536 TTTGAGTGTTTG
1 TTTGAGTGTTTG
29140548 TGAGTTCGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
26 10 0.28
27 6 0.17
28 4 0.11
29 16 0.44
ACGTcount: A:0.04, C:0.07, G:0.21, T:0.67
Consensus pattern (28 bp):
TTTGAGTGTTTGCTTTTTGTGTCTTTCT
Found at i:29142391 original size:62 final size:62
Alignment explanation
Indices: 29142262--29142395 Score: 169
Period size: 62 Copynumber: 2.2 Consensus size: 62
29142252 GGCTTGTGTT
* * * *
29142262 CAGGCCATGTAACTCACTATTTGTGGTACAAAGCCACACGACCAGGGACATAGGCATGTGCC
1 CAGGCCGTGTAACTCACTATTTGTGGTACAAAGCCACACGACCAAGGACACAGGCATGTACC
* * * * **
29142324 CAGGCCGTGTAACTCACTGTTTGTGGTACAAATCCACACGGCCAAGGACACGGGTGTGTACC
1 CAGGCCGTGTAACTCACTATTTGTGGTACAAAGCCACACGACCAAGGACACAGGCATGTACC
*
29142386 TAGGCCGTGT
1 CAGGCCGTGT
29142396 GAGTCATACG
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.25, C:0.27, G:0.27, T:0.21
Consensus pattern (62 bp):
CAGGCCGTGTAACTCACTATTTGTGGTACAAAGCCACACGACCAAGGACACAGGCATGTACC
Found at i:29147616 original size:50 final size:50
Alignment explanation
Indices: 29147537--29147780 Score: 346
Period size: 50 Copynumber: 4.9 Consensus size: 50
29147527 CATTTAGGTA
* * * *
29147537 AAGAGGTCCCATGTCAGGCTATGTTTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
29147587 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * *
29147637 AAGAGGTCCCGTGTAAGACCATATCTGGAACATGGCGTTGGCATCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * *
29147687 TAGTGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* *
29147737 GAGAGGTCTC-TCGTAAGACCATGTCTGGGACATGGCGTTGGCAC
1 AAGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCGTTGGCAC
29147781 GACATGGCAT
Statistics
Matches: 172, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
49 1 0.01
50 171 0.99
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.23
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:29147821 original size:66 final size:66
Alignment explanation
Indices: 29147715--29147845 Score: 165
Period size: 66 Copynumber: 2.0 Consensus size: 66
29147705 CCATGTCTAG
* ** * * * *
29147715 GACATGGCATTGGCACCGAGATGAGAGGTCTCTCGTAAGACCATGTCTGGGACATGGCGTTGGCA
1 GACATGGCATGGGCACCGAGATGAGAACTCCCTCGTAAGACCATATCTAGGACATGGCATTGGCA
29147780 C
66 C
* *
29147781 GACATGGCATGGGCACCGATATGAGAACTCCCAT-GTAAGACCATATCTAGGATATGGCATTGGC
1 GACATGGCATGGGCACCGAGATGAGAACTCCC-TCGTAAGACCATATCTAGGACATGGCATTGGC
29147845 A
65 A
29147846 GTACAGGAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
66 54 0.98
67 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (66 bp):
GACATGGCATGGGCACCGAGATGAGAACTCCCTCGTAAGACCATATCTAGGACATGGCATTGGCA
C
Found at i:29154408 original size:49 final size:50
Alignment explanation
Indices: 29154347--29154489 Score: 207
Period size: 49 Copynumber: 2.9 Consensus size: 50
29154337 CATTTGGGTA
* * *
29154347 AAGAGTTCCCATGTAAGGCCATGTCTGGGACATGGCATTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*
29154397 AAGAGGT-CCATGTAAGACCATGTCGGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** *
29154446 GAGAGGTCCCCCGTAAGACCATGTCTGGGACATGACGTTGGCAC
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
29154490 GACATGGCAT
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
49 45 0.54
50 38 0.46
ACGTcount: A:0.25, C:0.23, G:0.32, T:0.20
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:29154553 original size:66 final size:66
Alignment explanation
Indices: 29154424--29154554 Score: 163
Period size: 66 Copynumber: 2.0 Consensus size: 66
29154414 CCATGTCGGG
* * ** * * *
29154424 GACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGACGTTGGCA
1 GACATGGCATGGGCACCGAGATGAGAACTCCCACGTAAGACCATATCTGGGACATGACATTGGCA
29154489 C
66 C
* * * *
29154490 GACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 GACATGGCATGGGCACCGAGATGAGAACTCCCACGTAAGACCATATCTGGGACATGACATTGGCA
29154555 GTACAGGAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.26, C:0.24, G:0.31, T:0.20
Consensus pattern (66 bp):
GACATGGCATGGGCACCGAGATGAGAACTCCCACGTAAGACCATATCTGGGACATGACATTGGCA
C
Found at i:29161276 original size:32 final size:32
Alignment explanation
Indices: 29161239--29161304 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
29161229 ATGTACCATC
* *
29161239 TATACAGATCATAAGAGCATCAAGTATCTTCT
1 TATACAAACCATAAGAGCATCAAGTATCTTCT
29161271 TATACAAACCATAAGAGCATCAAGTATCTTCT
1 TATACAAACCATAAGAGCATCAAGTATCTTCT
29161303 TA
1 TA
29161305 CGTAGAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (32 bp):
TATACAAACCATAAGAGCATCAAGTATCTTCT
Found at i:29168930 original size:16 final size:16
Alignment explanation
Indices: 29168896--29168938 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
29168886 AATTGAAAGG
*
29168896 AATAT-ATATATGTGTA
1 AATATGATA-ATGTGCA
*
29168912 AATGTGATAATGTGCA
1 AATATGATAATGTGCA
29168928 AATATGATAAT
1 AATATGATAAT
29168939 TGGATATTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.37
Consensus pattern (16 bp):
AATATGATAATGTGCA
Found at i:29174253 original size:17 final size:17
Alignment explanation
Indices: 29174231--29174263 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29174221 CAAAATTGGG
29174231 TGGAAAATCAAGAAAAA
1 TGGAAAATCAAGAAAAA
*
29174248 TGGAAAATTAAGAAAA
1 TGGAAAATCAAGAAAA
29174264 TACCCCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.03, G:0.18, T:0.15
Consensus pattern (17 bp):
TGGAAAATCAAGAAAAA
Found at i:29177498 original size:36 final size:36
Alignment explanation
Indices: 29177446--29177518 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
29177436 TTAGCTGCAC
*
29177446 TTTAAGTTATACAATAATGCTCATTGAGCTATCATA
1 TTTAAGTTATAAAATAATGCTCATTGAGCTATCATA
*
29177482 TTTAAGTTCTAAAATAATGCTCATTGAGCTATCATA
1 TTTAAGTTATAAAATAATGCTCATTGAGCTATCATA
29177518 T
1 T
29177519 ATTAGATCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (36 bp):
TTTAAGTTATAAAATAATGCTCATTGAGCTATCATA
Found at i:29185708 original size:18 final size:18
Alignment explanation
Indices: 29185685--29185720 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
29185675 GTAACATCAG
29185685 TAACTGCTAACAACTAAC
1 TAACTGCTAACAACTAAC
*
29185703 TAACTGCTAACAGCTAAC
1 TAACTGCTAACAACTAAC
29185721 CATTACTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.28, G:0.08, T:0.22
Consensus pattern (18 bp):
TAACTGCTAACAACTAAC
Found at i:29187389 original size:21 final size:22
Alignment explanation
Indices: 29187365--29187416 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
29187355 TCAGGTATTA
29187365 TTCAAATTGTTATGT-GTGTTG
1 TTCAAATTGTTATGTGGTGTTG
* ** *
29187386 TTCAAGTTCCTATTTGGTGTTG
1 TTCAAATTGTTATGTGGTGTTG
29187408 TTC-AATTGT
1 TTCAAATTGT
29187417 AATTTATGTG
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.17, C:0.10, G:0.21, T:0.52
Consensus pattern (22 bp):
TTCAAATTGTTATGTGGTGTTG
Found at i:29192058 original size:20 final size:20
Alignment explanation
Indices: 29191989--29192091 Score: 82
Period size: 20 Copynumber: 5.0 Consensus size: 20
29191979 GTAAAAAAAA
*
29191989 TTCGATGCCCCTAATTTGCACT
1 TTCG-TGCCCCTGA-TTGCACT
* *
29192011 CTAGTGCCCCTGATTGCACT
1 TTCGTGCCCCTGATTGCACT
* *
29192031 TTCATGCCCCTTATTGCAC-
1 TTCGTGCCCCTGATTGCACT
* *
29192050 TTCGGTGCCCTTGATTGTACT
1 TTC-GTGCCCCTGATTGCACT
* * *
29192071 TTCTTGCCACTGTTTGCACT
1 TTCGTGCCCCTGATTGCACT
29192091 T
1 T
29192092 CGGATCCTCG
Statistics
Matches: 63, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
19 3 0.05
20 47 0.75
21 11 0.17
22 2 0.03
ACGTcount: A:0.14, C:0.31, G:0.17, T:0.39
Consensus pattern (20 bp):
TTCGTGCCCCTGATTGCACT
Found at i:29192058 original size:40 final size:40
Alignment explanation
Indices: 29192014--29192094 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
29192004 TTGCACTCTA
*
29192014 GTGCCCCTGATTGCACTTTCATGCCCCT-TATTGCACTTCG
1 GTGCCCCTGATTGCACTTTCATGCCACTGT-TTGCACTTCG
* * *
29192054 GTGCCCTTGATTGTACTTTCTTGCCACTGTTTGCACTTCG
1 GTGCCCCTGATTGCACTTTCATGCCACTGTTTGCACTTCG
29192094 G
1 G
29192095 ATCCTCGGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 35 0.97
41 1 0.03
ACGTcount: A:0.11, C:0.31, G:0.20, T:0.38
Consensus pattern (40 bp):
GTGCCCCTGATTGCACTTTCATGCCACTGTTTGCACTTCG
Found at i:29194006 original size:13 final size:13
Alignment explanation
Indices: 29193990--29194024 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
29193980 TTATATAACC
29193990 ATTTCGTATAAAT
1 ATTTCGTATAAAT
* *
29194003 ATTTCATATAACT
1 ATTTCGTATAAAT
29194016 ATTTCGTAT
1 ATTTCGTAT
29194025 TATACATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (13 bp):
ATTTCGTATAAAT
Found at i:29199126 original size:11 final size:11
Alignment explanation
Indices: 29199110--29199134 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
29199100 AATATTAATG
29199110 TTAGATCAAGT
1 TTAGATCAAGT
29199121 TTAGATCAAGT
1 TTAGATCAAGT
29199132 TTA
1 TTA
29199135 AAATCACCTG
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:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (11 bp):
TTAGATCAAGT
Found at i:29211319 original size:20 final size:20
Alignment explanation
Indices: 29211281--29211329 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
29211271 ATCATGGTCT
*
29211281 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
*
29211300 TCT-CTTACTTGTTTATTTAC
1 T-TGCTTACTTGTTTACTTAC
29211320 TTGCTTACTT
1 TTGCTTACTT
29211330 TAATAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.12, C:0.22, G:0.06, T:0.59
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:29211590 original size:49 final size:49
Alignment explanation
Indices: 29211534--29211777 Score: 204
Period size: 50 Copynumber: 4.8 Consensus size: 49
29211524 CTGATAATAA
* * *
29211534 CATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCCTGT
1 CATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT
* *
29211583 -ACTGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATAT
1 CA-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATAT
* *** ** **
29211632 CGATGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCG
1 C-ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATAT
* * * **
29211682 CAGTGCCAATGCCATGTCCCAGACATGGCCATACGTGGGACCTCTCATAACCT
1 CA-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--T
*
29211735 CAATAATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGA
1 C----ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
29211778 TCTCATTCCC
Statistics
Matches: 157, Mismatches: 26, Indels: 17
0.79 0.13 0.09
Matches are distributed among these distances:
48 4 0.03
49 39 0.25
50 78 0.50
51 1 0.01
53 1 0.01
56 33 0.21
57 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (49 bp):
CATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATAT
Found at i:29212036 original size:21 final size:21
Alignment explanation
Indices: 29211985--29212026 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
29211975 TCGGTACAAA
29211985 ATACGATCAAATCTATCAACT
1 ATACGATCAAATCTATCAACT
29212006 ATACGATCAAATCTATCAACT
1 ATACGATCAAATCTATCAACT
29212027 TAGTCCTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.24, G:0.05, T:0.29
Consensus pattern (21 bp):
ATACGATCAAATCTATCAACT
Found at i:29225084 original size:27 final size:27
Alignment explanation
Indices: 29225054--29225107 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
29225044 AATTTTTTGC
*
29225054 AAGCAAACACTATAGCAAGTATTTCTT
1 AAGCAAACACTATAACAAGTATTTCTT
29225081 AAGCAAACACTATAACAAGTATTTCTT
1 AAGCAAACACTATAACAAGTATTTCTT
29225108 TCTCGGATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (27 bp):
AAGCAAACACTATAACAAGTATTTCTT
Found at i:29225831 original size:160 final size:160
Alignment explanation
Indices: 29225567--29225887 Score: 624
Period size: 160 Copynumber: 2.0 Consensus size: 160
29225557 AGTGACATTT
29225567 TTCCCAGTTAAGTACTAGATTAGTTCCTTCGTATCTCTGTAATAATTCTCAAGATTACCTAGACA
1 TTCCCAGTTAAGTACTAGATTAGTTCCTTCGTATCTCTGTAATAATTCTCAAGATTACCTAGACA
29225632 CTCTTGTAAAGAGTCTTCATAAAATGAGAAATCATCCATGAATACATCCAAACCTTCTTCCAACA
66 CTCTTGTAAAGAGTCTTCATAAAATGAGAAATCATCCATGAATACATCCAAACCTTCTTCCAACA
*
29225697 TATTAGCAAAAATGGAAGTCATACATCGCA
131 TATCAGCAAAAATGGAAGTCATACATCGCA
*
29225727 TTCCCAGTTAAGTACTAGATTAGTTTCTTCGTATCTCTGTAATAATTCTCAAGATTACCTAGACA
1 TTCCCAGTTAAGTACTAGATTAGTTCCTTCGTATCTCTGTAATAATTCTCAAGATTACCTAGACA
29225792 CTCTTGTAAAGAGTCTTCATAAAATGAGAAATCATCCATGAATACATCCAAACCTTCTTCCAACA
66 CTCTTGTAAAGAGTCTTCATAAAATGAGAAATCATCCATGAATACATCCAAACCTTCTTCCAACA
29225857 TATCAGCAAAAATGGAAGTCATACATCGCA
131 TATCAGCAAAAATGGAAGTCATACATCGCA
29225887 T
1 T
29225888 AGAGGTTGCT
Statistics
Matches: 159, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
160 159 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.31
Consensus pattern (160 bp):
TTCCCAGTTAAGTACTAGATTAGTTCCTTCGTATCTCTGTAATAATTCTCAAGATTACCTAGACA
CTCTTGTAAAGAGTCTTCATAAAATGAGAAATCATCCATGAATACATCCAAACCTTCTTCCAACA
TATCAGCAAAAATGGAAGTCATACATCGCA
Found at i:29234105 original size:23 final size:23
Alignment explanation
Indices: 29234079--29234133 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
29234069 TTCCCTCCCT
29234079 TAGATAGTCTT-GAATGGACTTCC
1 TAGATAGTCTTAG-ATGGACTTCC
29234102 TAGATAGTCTTAGATGGACTTCC
1 TAGATAGTCTTAGATGGACTTCC
*
29234125 CAGATAGTC
1 TAGATAGTC
29234134 CTTGGTAGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 29 0.97
24 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (23 bp):
TAGATAGTCTTAGATGGACTTCC
Found at i:29234299 original size:28 final size:27
Alignment explanation
Indices: 29234212--29234318 Score: 88
Period size: 28 Copynumber: 3.9 Consensus size: 27
29234202 ACATTCCATG
* * *
29234212 TAAGATAGTCCTTGGCAGACTCCTCGCG
1 TAAGACAGTCCTTGGCAGACTCC-CACA
* * *
29234240 TAAGACAATCCTTGTCGGACTCCCTACA
1 TAAGACAGTCCTTGGCAGACTCCC-ACA
*
29234268 TAAGACAGTCCTTGGCAGACTTCCCACT
1 TAAGACAGTCCTTGGCAGAC-TCCCACA
* ** *
29234296 TAAGATAGTTTTTGGCGGACTCC
1 TAAGACAGTCCTTGGCAGACTCC
29234319 GTACACCACA
Statistics
Matches: 63, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
27 4 0.06
28 55 0.87
29 4 0.06
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (27 bp):
TAAGACAGTCCTTGGCAGACTCCCACA
Done.