Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 123 of 444
Found at i:31811455 original size:31 final size:31
Alignment explanation
Indices: 31811414--31811477 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
31811404 CCTTTTCATA
*
31811414 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
31811445 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
31811476 TT
1 TT
31811478 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:31811722 original size:24 final size:24
Alignment explanation
Indices: 31811670--31811883 Score: 317
Period size: 24 Copynumber: 9.0 Consensus size: 24
31811660 GCTTTATCAT
* *
31811670 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* *
31811695 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTG
* *
31811719 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
*
31811742 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
31811766 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
31811790 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
31811814 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
31811838 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
31811861 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
31811884 TCACTTCCTC
Statistics
Matches: 175, Mismatches: 11, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
23 42 0.24
24 121 0.69
25 12 0.07
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:31811955 original size:9 final size:9
Alignment explanation
Indices: 31811941--31812017 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
31811931 ATCTCGTGTG
31811941 CATATCATA
1 CATATCATA
*
31811950 CATATCATGTG
1 CATATCA--TA
31811961 CATATCATA
1 CATATCATA
* *
31811970 CATGTCATGTG
1 CATATCA--TA
31811981 CATATCATA
1 CATATCATA
* *
31811990 CATTTCATGTG
1 CATATCA--TA
31812001 CATATCATA
1 CATATCATA
31812010 CATATCAT
1 CATATCAT
31812018 GTTTATCAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (9 bp):
CATATCATA
Found at i:31811960 original size:20 final size:20
Alignment explanation
Indices: 31811937--31812019 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
31811927 GAACATCTCG
31811937 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
31811957 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
*
31811977 TGTGCATATCATACATTTCA
1 TGTGCATATCATACATATCA
31811997 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
31812017 TGT
1 TGT
31812020 TTATCAAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:31812102 original size:25 final size:25
Alignment explanation
Indices: 31812056--31812103 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
31812046 ATATATAAAC
* * * *
31812056 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
31812081 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
31812104 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:31813287 original size:27 final size:27
Alignment explanation
Indices: 31813257--31813321 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
31813247 GGGCATATTC
*
31813257 GTCATTTTACGATACAGGGG-TATTACG
1 GTCATTTTACCATACAGGGGCT-TTACG
* * *
31813284 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCATTTTACCATACAGGGGCTTTACG
*
31813311 GTCTTTTTACC
1 GTCATTTTACC
31813322 TAATAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCTTTACG
Found at i:31813327 original size:27 final size:27
Alignment explanation
Indices: 31813279--31813330 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
31813269 TACAGGGGTA
31813279 TTACGGTCACTTTACCCTATAGGGGCT
1 TTACGGTCACTTTACCCTATAGGGGCT
**
31813306 TTACGGTCTTTTTA-CCTAATAGGGG
1 TTACGGTCACTTTACCCT-ATAGGGG
31813331 TATTTTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (27 bp):
TTACGGTCACTTTACCCTATAGGGGCT
Found at i:31813405 original size:27 final size:27
Alignment explanation
Indices: 31813372--31813588 Score: 145
Period size: 27 Copynumber: 8.0 Consensus size: 27
31813362 TTGGTAAATC
31813372 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
** *
31813399 TGTAAACCAATGGTATTTCTA-TAATTTT
1 TACAAACCAAGGGTATTTC-AGTAA-TTT
* * * *
31813427 TAGAAAGTCAAGGGTATTTCTGTAACTT
1 TACAAA-CCAAGGGTATTTCAGTAATTT
** * * **
31813455 TGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
*** *
31813482 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* *
31813509 CAC-AACCAAGGGTATTT-TGATAATTT
1 TACAAACCAAGGGTATTTCAG-TAATTT
* * **
31813535 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* *
31813562 TACAAACTAA-GGTATTTTAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
31813588 T
1 T
31813589 GTAAATCGAG
Statistics
Matches: 151, Mismatches: 32, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
25 1 0.01
26 35 0.23
27 86 0.57
28 15 0.10
29 14 0.09
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCAGTAATTT
Found at i:31813533 original size:53 final size:54
Alignment explanation
Indices: 31813381--31813602 Score: 159
Period size: 53 Copynumber: 4.1 Consensus size: 54
31813371 CTACAAACCA
* *** * * **
31813381 AGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAGAAAGTCA
1 AGGGTATTTCGGTAATTTCACAAACCAAGGGTATTT-TGATAA-TTTTACAAA-TTG
* ** * * *
31813437 AGGGTATTTCTGTAACTTT-GTAAATCAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAA-TTTCACAAACCAAGGGTATTTTGATAATTTTACAAATTG
*
31813491 AGGGTATTTCGGTAATTTCAC-AACCAAGGGTATTTTGATAATTTTACAAACT-
1 AGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTGATAATTTTACAAATTG
* * * ** *
31813543 AGGGGTATTTTGGTAATTTTACAAACTAA-GGTATTTT-AGTAATTTTGTAAATCG
1 A-GGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTGA-TAATTTTACAAATTG
31813597 AGGGTA
1 AGGGTA
31813603 AAATAGTAAT
Statistics
Matches: 137, Mismatches: 22, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
52 2 0.01
53 71 0.52
54 21 0.15
55 9 0.07
56 31 0.23
57 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTGATAATTTTACAAATTG
Found at i:31813609 original size:27 final size:27
Alignment explanation
Indices: 31813579--31813791 Score: 236
Period size: 27 Copynumber: 7.9 Consensus size: 27
31813569 TAAGGTATTT
*
31813579 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
**
31813606 TAGTAATTCTGTAAATTAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
31813633 TAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
31813660 CT-GTAATTCTGTAAATCGAGGGTAAAA
1 -TAGTAATTCTGTAAATCGAGGGTAAAA
** *
31813687 CGGTAATTCTGTAAGTCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
31813714 -CGATAATTATGTAAATC-AGGGGTAAAA
1 TAG-TAATTCTGTAAATCGA-GGGTAAAA
** * *
31813741 CGGTAATTATGTAAATCGGGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
31813768 T-GATAATTCTGTAAATCGGGGGTA
1 TAG-TAATTCTGTAAATCGAGGGTA
31813792 CTTTGGTAAT
Statistics
Matches: 163, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
26 3 0.02
27 158 0.97
28 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.30
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:31813791 original size:54 final size:54
Alignment explanation
Indices: 31813581--31813784 Score: 268
Period size: 54 Copynumber: 3.8 Consensus size: 54
31813571 AGGTATTTTA
* * **
31813581 GTAATTTTGTAAATCGAGGGTAAAAT-AGTAATTCTGTAAATTAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATGA-TAATTCTGTAAATCAAGGGTAAAACG
* *
31813635 GTAATTCTATAAATCGAGGGTAAAACTG-TAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAA-TGATAATTCTGTAAATCAAGGGTAAAACG
* * * *
31813689 GTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATGATAATTCTGTAAATCAAGGGTAAAACG
* *
31813743 GTAATTATGTAAATCGGGGGTAAAATGATAATTCTGTAAATC
1 GTAATTCTGTAAATCGAGGGTAAAATGATAATTCTGTAAATC
31813785 GGGGGTACTT
Statistics
Matches: 130, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
53 1 0.01
54 128 0.98
55 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.30
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAATGATAATTCTGTAAATCAAGGGTAAAACG
Found at i:31813818 original size:27 final size:27
Alignment explanation
Indices: 31813797--31813886 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
31813787 GGGTACTTTG
*
31813797 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
31813824 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
31813851 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
31813878 GTAATTTTA
1 GTAATTTTA
31813887 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:31813838 original size:54 final size:54
Alignment explanation
Indices: 31813780--31813886 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
31813770 ATAATTCTGT
* * *
31813780 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
31813834 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
31813887 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:31813900 original size:27 final size:27
Alignment explanation
Indices: 31813797--31813901 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
31813787 GGGTACTTTG
* *
31813797 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
31813824 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
31813851 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
31813878 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
31813902 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:31815141 original size:39 final size:39
Alignment explanation
Indices: 31815097--31815171 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
31815087 ATCTATATAC
* *
31815097 ATATCATATATGGGTATTACAGTCATTAAGATATTTCAT
1 ATATCATATACGGGTATTACAGACATTAAGATATTTCAT
31815136 ATATCATATACGGGTATTACAGACATTAAGATATTT
1 ATATCATATACGGGTATTACAGACATTAAGATATTT
31815172 TATTCATTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (39 bp):
ATATCATATACGGGTATTACAGACATTAAGATATTTCAT
Found at i:31817992 original size:663 final size:652
Alignment explanation
Indices: 31816444--31818074 Score: 2698
Period size: 652 Copynumber: 2.5 Consensus size: 652
31816434 GGGTGTTACA
* *
31816444 GATGTTGTCTATATTCATTAACTCTATTTCATCTAACTGTAATGAAT-TGATGACAGTCTTGGTG
1 GATGTTGTCTAGATTCATTAACTCTATTTCATCTAAGTGTAATGAATCTGATGACAGTCTTGGTG
* *
31816508 AATTCCAAGTCTCCCACGTATTTCAGATTTCCTCTATTATTTTTTATAGAAAATCATCAATCTCT
66 AATTCCAAGTCTCCCACGTATTTCAGATTTCCTCTATTATTTTTAATGGAAAATCATCAATCTCT
* * * *
31816573 ATATCATCTATCTTTTTTAATAACTTCAGAGATTCTTCTTCTCTATCTTTTTGGATATTTTCAGT
131 ATATCAGCTATCTTTTTTAACAGCTTCAGAGATTCTTCGTCTCTATCTTTTTGGATATTTTCAGT
* *
31816638 ATCATCAGCCACTATCCTTCTTCCATCAGTCTAAAGTTTATAATTCTAATGTTGAAGTAGGTGCT
196 ATCATCAGCCACTATCCTTCTTCCATCAGTCCAAAGTTTATAATTCTAATGTTGAAGTACGTGCT
31816703 GAGCTGTTGTTATTAAATCAATTCCTGCTTGGATCTGATAATAATTAAAATTATTATTAAAAGGT
261 GAGCTGTTGTTATTAAATCAATTCCTGCTTGGATCTGATAATAATTAAAATTATTATTAAAAGGT
31816768 CTTTTAAATAATTTATTAATATATTTATTATTGACAAAGAGAGAATATTGAAAGTAAAAGAAAAG
326 CTTTTAAATAATTTATTAATATATTTATTATTGACAAAGAGAGAATATTGAAAGTAAAAGAAAAG
31816833 ATTTCTAAACTATTTTTCGATGCCTTGTTTAGGCTTCATACATCGCTATTTATAGCAAAATTCCT
391 ATTTCTAAACTATTTTTCGATGCCTTGTTTAGGCTTCATACATCGCTATTTATAGCAAAATTCCT
* *
31816898 AAACTCTATTTAATTTTACTTCAATCCGGCACAGTATTTCTGATAAGGATGAATTGATTGTAGCT
456 AAACTCTATTTAATTTTACTTCAATCCGGCACAATATTTCTGATAAGGATGAACTGATTGTAGCT
*
31816963 TCCATGTAGCCTGCCATTTTTCACATCAACTCTTTGTTTGCTTATAAATGCCTTGTTGTTTAAGT
521 TCCACGTAGCCTGCCATTTTTCACATCAACTCTTTGTTTGCTTATAAATGCCTTGTTGTTTAAGT
31817028 TACCACCAATCTTGAATTTCTTGGTGTGCTTCCACGTGGCTAGCTTATTTTGTCTTTATCCTTCT
586 TACCACCAATCTTGAATTTCTTGGTGTGCTTCCACGTGGCTAGCTTATTTTGTCTTTATCCTTCT
31817093 TG
651 TG
* *
31817095 GATGTTGTCTAGATTCATTAACTCTATTTCATCTAAGTTTAATGAATCTAATGACAGTCTTGGTG
1 GATGTTGTCTAGATTCATTAACTCTATTTCATCTAAGTGTAATGAATCTGATGACAGTCTTGGTG
* * *
31817160 AATTCCAAGTCTCCTACGTATTTCTGATTTCCTCTATTATTTTTGATGGAAAATCATCAATCTCT
66 AATTCCAAGTCTCCCACGTATTTCAGATTTCCTCTATTATTTTTAATGGAAAATCATCAATCTCT
* *
31817225 ATATCAGCTATCTTTTTTAACAGCTTCAGAGATTTTTCGTCTCTATCTTTTTGGAT-TTTTCCAT
131 ATATCAGCTATCTTTTTTAACAGCTTCAGAGATTCTTCGTCTCTATCTTTTTGGATATTTT-CAG
* **
31817289 TATCATCAGCCACTATCCTTCTTCCATCAGTCCAAAGTTTAAAATTCTGGTGTTGAAGTACGTGC
195 TATCATCAGCCACTATCCTTCTTCCATCAGTCCAAAGTTTATAATTCTAATGTTGAAGTACGTGC
* *
31817354 TGAGTTGTTGTTATTAAATCAATTCCTGCTTGGATCTGATAATAATTAAAATTATTATTAAAATG
260 TGAGCTGTTGTTATTAAATCAATTCCTGCTTGGATCTGATAATAATTAAAATTATTATTAAAAGG
31817419 TCTTTTAAATAATTTATTAATATATTTATTATTGACAAAGAGAGAATATTGAAAGTAAAAGAAAA
325 TCTTTTAAATAATTTATTAATATATTTATTATTGACAAAGAGAGAATATTGAAAGTAAAAGAAAA
* * *
31817484 GATTTCTGAACTATTTTTTGATGCCTTGTTTAGGCTTCATACATCGCTATTTATAGCAAAATTCT
390 GATTTCTAAACTATTTTTCGATGCCTTGTTTAGGCTTCATACATCGCTATTTATAGCAAAATTCC
31817549 TAAACTCTATTTAATTCTT-CTTCAATCTC-GCACAATATTTCTGAT-AGTGATGAACTGATTGT
455 TAAACTCTATTTAATT-TTACTTCAATC-CGGCACAATATTTCTGATAAG-GATGAACTGATTGT
* *
31817611 AGCTTCCACGTAGCCTGGCATTTTTCACATCAACATCACAACAACTCTTTGTTTGCTTATAGATG
517 AGCTTCCACGTAGCCTGCCA-TTTT----TC-ACAT-----CAACTCTTTGTTTGCTTATAAATG
* *
31817676 CCTTGTTGTTTAAGTTACCACCAATCTTGAATTTCTTGGTGTGCTTCCACGTGGTTATCTTATTT
571 CCTTGTTGTTTAAGTTACCACCAATCTTGAATTTCTTGGTGTGCTTCCACGTGGCTAGCTTATTT
31817741 TGTCTTTATCCTTCTTG
636 TGTCTTTATCCTTCTTG
* * *
31817758 GATGTTGTCTAGATTCAGTAACTCTATTTCACCTAAGTGTAATAAATCTGATGACAGTCTTGGTG
1 GATGTTGTCTAGATTCATTAACTCTATTTCATCTAAGTGTAATGAATCTGATGACAGTCTTGGTG
* * * *
31817823 AATTCCAAGACTCCCACGTTTTTTC-GATTTCCTCTATTATTTCTAACGGAAAATCATCAATCTC
66 AATTCCAAGTCTCCCACG-TATTTCAGATTTCCTCTATTATTTTTAATGGAAAATCATCAATCTC
* *
31817887 TATATCAGCTATCTTTTATAACAGCTTCAGAGATTCTTCGTCTCTATCTTTCTGGATATTTTCAG
130 TATATCAGCTATCTTTTTTAACAGCTTCAGAGATTCTTCGTCTCTATCTTTTTGGATATTTTCAG
*
31817952 TATCATCAGCCACTATACTTCTTCCATCAGTCCAAAGTTTATAATTCTAATGTTGAAGTACGTGC
195 TATCATCAGCCACTATCCTTCTTCCATCAGTCCAAAGTTTATAATTCTAATGTTGAAGTACGTGC
31818017 TGAGCTGTTGTTATTAAATCAATTCCTGCTTGGATCTGATAATAATTAAAATTATTAT
260 TGAGCTGTTGTTATTAAATCAATTCCTGCTTGGATCTGATAATAATTAAAATTATTAT
31818075 AACACTTGTC
Statistics
Matches: 911, Mismatches: 51, Indels: 24
0.92 0.05 0.02
Matches are distributed among these distances:
651 50 0.05
652 450 0.49
653 7 0.01
657 2 0.00
658 4 0.00
663 389 0.43
664 9 0.01
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.41
Consensus pattern (652 bp):
GATGTTGTCTAGATTCATTAACTCTATTTCATCTAAGTGTAATGAATCTGATGACAGTCTTGGTG
AATTCCAAGTCTCCCACGTATTTCAGATTTCCTCTATTATTTTTAATGGAAAATCATCAATCTCT
ATATCAGCTATCTTTTTTAACAGCTTCAGAGATTCTTCGTCTCTATCTTTTTGGATATTTTCAGT
ATCATCAGCCACTATCCTTCTTCCATCAGTCCAAAGTTTATAATTCTAATGTTGAAGTACGTGCT
GAGCTGTTGTTATTAAATCAATTCCTGCTTGGATCTGATAATAATTAAAATTATTATTAAAAGGT
CTTTTAAATAATTTATTAATATATTTATTATTGACAAAGAGAGAATATTGAAAGTAAAAGAAAAG
ATTTCTAAACTATTTTTCGATGCCTTGTTTAGGCTTCATACATCGCTATTTATAGCAAAATTCCT
AAACTCTATTTAATTTTACTTCAATCCGGCACAATATTTCTGATAAGGATGAACTGATTGTAGCT
TCCACGTAGCCTGCCATTTTTCACATCAACTCTTTGTTTGCTTATAAATGCCTTGTTGTTTAAGT
TACCACCAATCTTGAATTTCTTGGTGTGCTTCCACGTGGCTAGCTTATTTTGTCTTTATCCTTCT
TG
Found at i:31828944 original size:12 final size:12
Alignment explanation
Indices: 31828927--31828956 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
31828917 GCCATACAAG
31828927 CGTGTGGTAGGC
1 CGTGTGGTAGGC
31828939 CGTGTGGTAGGC
1 CGTGTGGTAGGC
*
31828951 TGTGTG
1 CGTGTG
31828957 ACGATACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.13, G:0.50, T:0.30
Consensus pattern (12 bp):
CGTGTGGTAGGC
Found at i:31830431 original size:21 final size:22
Alignment explanation
Indices: 31830402--31830442 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
31830392 AAAATAAATT
**
31830402 AATAGATAAATTTATTATTTCA
1 AATAGATAAATAAATTATTTCA
31830424 AATA-ATAAATAAATTATTT
1 AATAGATAAATAAATTATTT
31830443 TCCTTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AATAGATAAATAAATTATTTCA
Found at i:31830488 original size:12 final size:12
Alignment explanation
Indices: 31830457--31830494 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
31830447 TTTAAATAAA
*
31830457 TTATTAACATAT
1 TTATTAATATAT
31830469 TTATTAATATAT
1 TTATTAATATAT
31830481 TTATTAATAATAT
1 TTATTAAT-ATAT
31830494 T
1 T
31830495 CAACAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 19 0.79
13 5 0.21
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (12 bp):
TTATTAATATAT
Found at i:31831287 original size:12 final size:12
Alignment explanation
Indices: 31831255--31831302 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
31831245 ATAATTTTCC
*
31831255 ATATAATAATAA
1 ATATATTAATAA
31831267 ATAATATTAATAA
1 AT-ATATTAATAA
31831280 ATATATTAATAA
1 ATATATTAATAA
*
31831292 GTATATCTAAT
1 ATATAT-TAAT
31831303 TGATTATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
12 17 0.53
13 15 0.47
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (12 bp):
ATATATTAATAA
Found at i:31835429 original size:101 final size:108
Alignment explanation
Indices: 31835193--31835453 Score: 347
Period size: 109 Copynumber: 2.4 Consensus size: 108
31835183 TTTTTTTTCA
* *
31835193 AATTTATATTAGTTACTAACAAAATAACTTTAAAATAAATTAAAAAAGTAATAAAAGATTACATT
1 AATTTATAATAATTACTAACAAAATAACTTTAAAATAAATT-AAAAAGTAATAAAAGATTACATT
*
31835258 AATAATCTAAAAAATAACAATAAACATTAAACTAAACAAACAATT
65 AATAACCTAAAAAATAACAATAAACATTAAACTAAAC-AACAATT
* *
31835303 AACTTAATCACAAAAATTACTAACAAAATAACTTTAAAATAAATTAAAAA-T-A-AAAA-ATTAC
1 AA-TT--T-ATAATAATTACTAACAAAATAACTTTAAAATAAATTAAAAAGTAATAAAAGATTAC
* * *
31835364 ATTCATAACCTAACAAATCACAATAAACATTAAACTAAAC-A-AATT
62 ATTAATAACCTAAAAAATAACAATAAACATTAAACTAAACAACAATT
31835409 -ATTTATAATAATTACTAACAAAATAACTTTAAAATAAATTAAAAA
1 AATTTATAATAATTACTAACAAAATAACTTTAAAATAAATTAAAAA
31835454 CAATATAAAA
Statistics
Matches: 137, Mismatches: 10, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
101 39 0.28
102 1 0.01
104 2 0.01
105 1 0.01
106 4 0.03
107 1 0.01
109 41 0.30
110 6 0.04
111 3 0.02
112 1 0.01
113 6 0.04
114 32 0.23
ACGTcount: A:0.59, C:0.11, G:0.01, T:0.28
Consensus pattern (108 bp):
AATTTATAATAATTACTAACAAAATAACTTTAAAATAAATTAAAAAGTAATAAAAGATTACATTA
ATAACCTAAAAAATAACAATAAACATTAAACTAAACAACAATT
Found at i:31835498 original size:33 final size:35
Alignment explanation
Indices: 31835421--31835499 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 35
31835411 TTATAATAAT
**
31835421 TACTAACAAAATAACTTTAAAATAAATTAAAAACAA
1 TACTAACAAAATAACAATAAAATAAATT-AAAACAA
*
31835457 TA-T-A-AAAATAACAAT-AAATAAATT-ACACAA
1 TACTAACAAAATAACAATAAAATAAATTAAAACAA
31835487 TACTAACAAAATA
1 TACTAACAAAATA
31835500 GTTTATCCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
30 7 0.19
31 1 0.03
32 10 0.27
33 15 0.41
34 1 0.03
35 1 0.03
36 2 0.05
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (35 bp):
TACTAACAAAATAACAATAAAATAAATTAAAACAA
Found at i:31835572 original size:22 final size:22
Alignment explanation
Indices: 31835547--31835592 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
31835537 AACAAAAATA
31835547 CCTTATCCTTCTTT-TTTCTTCT
1 CCTT-TCCTTCTTTCTTTCTTCT
*
31835569 CCTTTCTTTCTTTCTTTCTTCT
1 CCTTTCCTTCTTTCTTTCTTCT
31835591 CC
1 CC
31835593 CTCTTTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (22 bp):
CCTTTCCTTCTTTCTTTCTTCT
Found at i:31842058 original size:30 final size:29
Alignment explanation
Indices: 31841964--31842058 Score: 70
Period size: 30 Copynumber: 3.2 Consensus size: 29
31841954 CATTTTTATC
* * *
31841964 AATTTAATTCTAAATCTAAAAATTCAACA
1 AATTTAATTCTAATTCAAAAAATTCAATA
* *
31841993 AATTTAATTCTCAATATTTAAAAAAATT---TT
1 AATTTAATTCT--A-A-TTCAAAAAATTCAATA
*
31842023 CATTTAATTCTAATTCAAAAAAGTTCAATA
1 AATTTAATTCTAATTCAAAAAA-TTCAATA
31842053 AATTTA
1 AATTTA
31842059 GCCCTAAACA
Statistics
Matches: 49, Mismatches: 9, Indels: 15
0.67 0.12 0.21
Matches are distributed among these distances:
26 8 0.16
27 3 0.06
28 1 0.02
29 11 0.22
30 16 0.33
31 1 0.02
32 1 0.02
33 8 0.16
ACGTcount: A:0.48, C:0.11, G:0.01, T:0.40
Consensus pattern (29 bp):
AATTTAATTCTAATTCAAAAAATTCAATA
Found at i:31842079 original size:59 final size:59
Alignment explanation
Indices: 31841965--31842077 Score: 136
Period size: 60 Copynumber: 1.9 Consensus size: 59
31841955 ATTTTTATCA
* ** * *
31841965 ATTTAATTCTAAATCTAAAAATTCAACAAATTTAATTCTCAATATTTAAAAAAATTTTC
1 ATTTAATTCTAAATCAAAAAATTCAACAAATTTAACCCTAAACATTTAAAAAAATTTTC
* * * *
31842024 ATTTAATTCTAATTCAAAAAAGTTCAATAAATTTAGCCCTAAACATTTATAAAA
1 ATTTAATTCTAAATCAAAAAA-TTCAACAAATTTAACCCTAAACATTTAAAAAA
31842078 TTCATCAATT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
59 19 0.43
60 25 0.57
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (59 bp):
ATTTAATTCTAAATCAAAAAATTCAACAAATTTAACCCTAAACATTTAAAAAAATTTTC
Found at i:31848466 original size:12 final size:12
Alignment explanation
Indices: 31848449--31848479 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
31848439 ACCATAACAA
31848449 GCCAAATTTTAT
1 GCCAAATTTTAT
31848461 GCCAAATTTTAT
1 GCCAAATTTTAT
31848473 GCCAAAT
1 GCCAAAT
31848480 AAAGCCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (12 bp):
GCCAAATTTTAT
Found at i:31856817 original size:44 final size:43
Alignment explanation
Indices: 31856754--31856912 Score: 182
Period size: 43 Copynumber: 3.7 Consensus size: 43
31856744 TATGTGATAT
*
31856754 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACT-TTTGTTTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTG-TTTA
* *
31856798 CGTGTAAGACCATGTCTGGGACATTGGCATCG-TATCTGATTT-
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTG-TTTA
* * * *
31856840 CGTGTAAGACC-CTATCTGGGACAGTGGCATCGATGTTTGATTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGTTTA
*
31856883 CATGTAAGACCACGTCTGGGACATTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
31856913 TGTATACGAT
Statistics
Matches: 97, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
42 31 0.32
43 35 0.36
44 31 0.32
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGTTTA
Found at i:31856924 original size:85 final size:86
Alignment explanation
Indices: 31856748--31856925 Score: 231
Period size: 85 Copynumber: 2.1 Consensus size: 86
31856738 TTTCGATATG
* * * * *
31856748 TGATATCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTTTGTTTTACGTGTAAGACCATGT
1 TGATTTCGTGTAAGACCACATCTGGGACGTTGGCATCGACTTTTGTATTACATGTAAGACCACGT
31856813 CTGGGACATTGGCATCGTATC
66 CTGGGACATTGGCATCGTATC
31856834 TGATTTCGTGTAAGACC-CTATCTGGGACAG-TGGCATCGA-TGTTTG-ATTACATGTAAGACCA
1 TGATTTCGTGTAAGACCAC-ATCTGGGAC-GTTGGCATCGACT-TTTGTATTACATGTAAGACCA
*
31856895 CGTCTGGGACATTGGCATTGTATAC
63 CGTCTGGGACATTGGCATCGTAT-C
31856920 -GATTTC
1 TGATTTC
31856926 CGATCTATTC
Statistics
Matches: 82, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
85 43 0.52
86 38 0.46
87 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (86 bp):
TGATTTCGTGTAAGACCACATCTGGGACGTTGGCATCGACTTTTGTATTACATGTAAGACCACGT
CTGGGACATTGGCATCGTATC
Found at i:31868931 original size:28 final size:28
Alignment explanation
Indices: 31868883--31868951 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
31868873 ATTTAAACCC
*
31868883 TAGGGGT-ATATCGGTAATTTTACTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
31868910 TAGGGGTAATTTCGGTAATTTTACTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
31868938 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
31868952 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.22, C:0.10, G:0.25, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTACTCTT
Found at i:31870712 original size:12 final size:12
Alignment explanation
Indices: 31870697--31870721 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31870687 ACAGTAAATA
31870697 ATAAAAATTTTC
1 ATAAAAATTTTC
31870709 ATAAAAATTTTC
1 ATAAAAATTTTC
31870721 A
1 A
31870722 AACATACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:31870772 original size:19 final size:18
Alignment explanation
Indices: 31870735--31870778 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
31870725 ATACATACAG
31870735 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
31870752 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
31870771 TACTAATT
1 TAATAATT
31870779 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:31877747 original size:25 final size:25
Alignment explanation
Indices: 31877710--31877760 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
31877700 GTACTGATAG
31877710 TAGCAAATCAGGAAAGTAGGGGCTT
1 TAGCAAATCAGGAAAGTAGGGGCTT
*
31877735 TAGCAAATTAGGAAAGTAGGGGCTT
1 TAGCAAATCAGGAAAGTAGGGGCTT
31877760 T
1 T
31877761 CCTCATTCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.10, G:0.31, T:0.24
Consensus pattern (25 bp):
TAGCAAATCAGGAAAGTAGGGGCTT
Found at i:31880315 original size:5 final size:5
Alignment explanation
Indices: 31880305--31880337 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
31880295 ATCATAATAT
*
31880305 TATAA TATAA TATAA CATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TAT
31880338 TGGCATGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:31881148 original size:34 final size:35
Alignment explanation
Indices: 31881085--31881150 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
31881075 GTACAGCCAA
*
31881085 AACAGCTTTGGGCCTAAGCCCTTTCCAGTATAAGT
1 AACAGCTTTGGGCCTAAGCCCTCTCCAGTATAAGT
*
31881120 AACAG-TTTGGGCCTTAGCCCATCT-CAGTATA
1 AACAGCTTTGGGCCTAAGCCC-TCTCCAGTATA
31881151 GTATTAAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 21 0.75
35 7 0.25
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (35 bp):
AACAGCTTTGGGCCTAAGCCCTCTCCAGTATAAGT
Found at i:31882777 original size:44 final size:44
Alignment explanation
Indices: 31882677--31882943 Score: 299
Period size: 44 Copynumber: 6.0 Consensus size: 44
31882667 AGCTCGTACA
* ** * *
31882677 ATGCCAATGTCCCAGACATGGTCTTACGTGTAATCA-AATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCACTATATCG
* *
31882720 ATGCCACTGTCCCAGACATGGTCTTACACGTAAATCACTA-ATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AAATCACTATATCG
* *
31882764 ATGCCAATATCCCAGAC-TCGGTCTTACACGAAATCAAGTATATCG
1 ATGCCAATGTCCCAGACGT-GGTCTTACACGAAATC-ACTATATCG
* *
31882809 TTGCCAACGTCCCAGACGTGGTCTTACACGAAAATCACTA-ATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AAATCACTATATCG
* * *
31882853 ATGCCAATATCCCAAACGCGGTCTTACACGAAATCACGTATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAC-TATATCG
* *
31882898 CTGCCAACGTCCCAGACGTGGTCTTACACGAAAATCACATATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AAATCAC-TATATCG
31882944 CTCTTTGATA
Statistics
Matches: 191, Mismatches: 23, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
43 40 0.21
44 69 0.36
45 62 0.32
46 20 0.10
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCACTATATCG
Found at i:31882836 original size:89 final size:89
Alignment explanation
Indices: 31882677--31882935 Score: 373
Period size: 89 Copynumber: 2.9 Consensus size: 89
31882667 AGCTCGTACA
* ** * *
31882677 ATGCCAATGTCCCAGACAT-GGTCTTACGTGTAATCAA--ATATCGATGCC-ACTGTCCCAGACA
1 ATGCCAATATCCCAGAC-TCGGTCTTACACGAAATCAAGTATATCGATGCCAAC-GTCCCAGACG
*
31882738 TGGTCTTACACGTAAATCACTAATCG
64 TGGTCTTACACGAAAATCACTAATCG
*
31882764 ATGCCAATATCCCAGACTCGGTCTTACACGAAATCAAGTATATCGTTGCCAACGTCCCAGACGTG
1 ATGCCAATATCCCAGACTCGGTCTTACACGAAATCAAGTATATCGATGCCAACGTCCCAGACGTG
31882829 GTCTTACACGAAAATCACTAATCG
66 GTCTTACACGAAAATCACTAATCG
* * * *
31882853 ATGCCAATATCCCAAACGCGGTCTTACACGAAATCACGTATATCGCTGCCAACGTCCCAGACGTG
1 ATGCCAATATCCCAGACTCGGTCTTACACGAAATCAAGTATATCGATGCCAACGTCCCAGACGTG
31882918 GTCTTACACGAAAATCAC
66 GTCTTACACGAAAATCAC
31882936 ATATATCGCT
Statistics
Matches: 157, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
86 1 0.01
87 31 0.20
89 123 0.78
90 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (89 bp):
ATGCCAATATCCCAGACTCGGTCTTACACGAAATCAAGTATATCGATGCCAACGTCCCAGACGTG
GTCTTACACGAAAATCACTAATCG
Found at i:31883478 original size:38 final size:38
Alignment explanation
Indices: 31883436--31883609 Score: 303
Period size: 38 Copynumber: 4.6 Consensus size: 38
31883426 TCAAGTAGAA
31883436 CCTGCGGGATTTAACCCGGATATAATACCAGCACGAAG
1 CCTGCGGGATTTAACCCGGATATAATACCAGCACGAAG
31883474 CCTGCGGGATTTAACCCGGATATAATACCAGCACGAAG
1 CCTGCGGGATTTAACCCGGATATAATACCAGCACGAAG
* * *
31883512 CCTGCGAGATTTAACCCGTATATAATACCAACACGAAG
1 CCTGCGGGATTTAACCCGGATATAATACCAGCACGAAG
**
31883550 CCTGCGATATTTAACCCGGATATAATACCAGCACGAAG
1 CCTGCGGGATTTAACCCGGATATAATACCAGCACGAAG
31883588 CCTGCGGGATTTAACCCGGATA
1 CCTGCGGGATTTAACCCGGATA
31883610 CACATCAAAT
Statistics
Matches: 128, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 128 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.20
Consensus pattern (38 bp):
CCTGCGGGATTTAACCCGGATATAATACCAGCACGAAG
Found at i:31887374 original size:2 final size:2
Alignment explanation
Indices: 31887369--31887425 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
31887359 AGGATATATA
*
31887369 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TT TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
31887411 TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG T
31887426 TATTTTCTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
TG
Found at i:31889149 original size:23 final size:23
Alignment explanation
Indices: 31889119--31889162 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
31889109 AATTAAATTG
31889119 ATAAATTT-TGTAAATATTTAGGT
1 ATAAATTTAT-TAAATATTTAGGT
*
31889142 ATAAATTTATTAAATTTTTAG
1 ATAAATTTATTAAATATTTAG
31889163 AATTAGAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
ATAAATTTATTAAATATTTAGGT
Found at i:31890354 original size:19 final size:19
Alignment explanation
Indices: 31890313--31890370 Score: 82
Period size: 20 Copynumber: 3.1 Consensus size: 19
31890303 TTACAAAATT
*
31890313 ATTCAAAATAATTTTCAAAA
1 ATTCAAAATAATTTT-TAAA
31890333 ATTCAAAATAATTTTTAAA
1 ATTCAAAATAATTTTTAAA
*
31890352 ATTCAAAAT-ATTTATAAA
1 ATTCAAAATAATTTTTAAA
31890370 A
1 A
31890371 ATCCCAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.25
19 12 0.33
20 15 0.42
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTCAAAATAATTTTTAAA
Found at i:31890371 original size:19 final size:19
Alignment explanation
Indices: 31890313--31890372 Score: 86
Period size: 19 Copynumber: 3.1 Consensus size: 19
31890303 TTACAAAATT
31890313 ATTCAAAATAATTTTCAAAA
1 ATTCAAAATAATTTT-AAAA
*
31890333 ATTCAAAATAATTTTTAAA
1 ATTCAAAATAATTTTAAAA
31890352 ATTCAAAAT-ATTTATAAAA
1 ATTCAAAATAATTT-TAAAA
31890371 AT
1 AT
31890373 CCCAAAATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
18 4 0.11
19 18 0.49
20 15 0.41
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTCAAAATAATTTTAAAA
Found at i:31895854 original size:22 final size:22
Alignment explanation
Indices: 31895814--31895871 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
31895804 TAACACTCTT
* * * *
31895814 AAAGGGCTTTCATATGTCCCAT
1 AAAGGACTATCATACGTCCCAC
*
31895836 ATAGGACTATCATACGTCCCAC
1 AAAGGACTATCATACGTCCCAC
*
31895858 AAAGGACTCTCATA
1 AAAGGACTATCATA
31895872 TACTGATGCG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (22 bp):
AAAGGACTATCATACGTCCCAC
Found at i:31897186 original size:18 final size:18
Alignment explanation
Indices: 31897152--31897339 Score: 76
Period size: 18 Copynumber: 10.1 Consensus size: 18
31897142 TCATTAACTC
* *
31897152 TCAG-AATAATTATTTAT
1 TCAGTAATAATCAGTTAT
*
31897169 TCAGTAATAGTCAGTTAT
1 TCAGTAATAATCAGTTAT
* * **
31897187 TCGGTAACAATCAAATAT
1 TCAGTAATAATCAGTTAT
* *
31897205 TCAATAATAACCAGTTAT
1 TCAGTAATAATCAGTTAT
*
31897223 TCAGTATCGATCAATTGATCGGTTAT
1 TCAGTA---AT--A---ATCAGTTAT
* * * *
31897249 CCAGTAACAGTCAATTAT
1 TCAGTAATAATCAGTTAT
*
31897267 TCAGTAA-AATCAGATAT
1 TCAGTAATAATCAGTTAT
* *
31897284 TCAGTAACAATTAAGTTAT
1 TCAGTAATAA-TCAGTTAT
* *
31897303 TTAGTAATAGTCA-TTCAT
1 TCAGTAATAATCAGTT-AT
* *
31897321 TCAGTGACAATCAGTTAT
1 TCAGTAATAATCAGTTAT
31897339 T
1 T
31897340 TTATACCTTT
Statistics
Matches: 122, Mismatches: 36, Indels: 25
0.67 0.20 0.14
Matches are distributed among these distances:
17 20 0.16
18 70 0.57
19 15 0.12
21 3 0.02
23 2 0.02
26 12 0.10
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (18 bp):
TCAGTAATAATCAGTTAT
Found at i:31897572 original size:45 final size:45
Alignment explanation
Indices: 31897513--31897661 Score: 221
Period size: 45 Copynumber: 3.3 Consensus size: 45
31897503 AACAGTAACA
* *
31897513 GTAACAGT-ATAGTAACAATA-TCTGGCACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTC-GACACACAAAGTGCCGAATCG
*
31897557 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
31897602 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCTGAATCA
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
31897647 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
31897662 GCGGTAACAG
Statistics
Matches: 96, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
44 7 0.07
45 87 0.91
46 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.19
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:31898002 original size:22 final size:23
Alignment explanation
Indices: 31897977--31898036 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 23
31897967 TTAATAGGGT
31897977 ATTTAATTCACTTTTCAGTAT-A
1 ATTTAATTCACTTTTCAGTATCA
* *
31897999 ATTT-CTATCA-TAGTTCAGTATCA
1 ATTTAAT-TCACT-TTTCAGTATCA
31898022 ATTATAATTCACTTT
1 ATT-TAATTCACTTT
31898037 CTCAATTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 10
0.67 0.10 0.24
Matches are distributed among these distances:
21 2 0.07
22 15 0.54
23 4 0.14
24 5 0.18
25 2 0.07
ACGTcount: A:0.32, C:0.15, G:0.05, T:0.48
Consensus pattern (23 bp):
ATTTAATTCACTTTTCAGTATCA
Found at i:31898125 original size:2 final size:2
Alignment explanation
Indices: 31898118--31898153 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
31898108 ATTCAATTCA
31898118 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31898154 CTCAATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31899288 original size:8 final size:8
Alignment explanation
Indices: 31899271--31899307 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
31899261 TATCTTTATT
31899271 ATATAATA
1 ATATAATA
*
31899279 ATATATTA
1 ATATAATA
31899287 ATATAATA
1 ATATAATA
31899295 ATATAATA
1 ATATAATA
31899303 ATATA
1 ATATA
31899308 CTAAACATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATAATA
Found at i:31899945 original size:14 final size:14
Alignment explanation
Indices: 31899926--31899964 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
31899916 ATATTTGACT
31899926 TGTTCTTAATTATG
1 TGTTCTTAATTATG
31899940 TGTTCTTAATTATG
1 TGTTCTTAATTATG
31899954 TGTTCTTAATT
1 TGTTCTTAATT
31899965 CTTGTTTCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:31906411 original size:46 final size:45
Alignment explanation
Indices: 31906359--31906534 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
31906349 TGGTTGAGCA
31906359 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
31906405 TTCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
31906452 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
31906498 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31906535 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:31906515 original size:93 final size:93
Alignment explanation
Indices: 31906356--31906526 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
31906346 GGATGGTTGA
* **
31906356 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
31906421 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
31906449 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
31906514 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
31906527 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:31910613 original size:13 final size:13
Alignment explanation
Indices: 31910595--31910621 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31910585 AAAGTAATTG
31910595 CACACGGGCGTGT
1 CACACGGGCGTGT
31910608 CACACGGGCGTGT
1 CACACGGGCGTGT
31910621 C
1 C
31910622 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:31916385 original size:40 final size:39
Alignment explanation
Indices: 31916294--31916404 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 39
31916284 ATAACCATGT
* *
31916294 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
31916334 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
*
31916374 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
31916405 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.06
40 57 0.92
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:31916428 original size:80 final size:79
Alignment explanation
Indices: 31916294--31916442 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
31916284 ATAACCATGT
* *
31916294 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATACCTTCGGG-CTTAGCC
31916359 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
31916374 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTATCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TACCTTCGGGCTTAGC
31916437 CCGGAT
64 CCGGAT
31916443 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 15 0.25
80 45 0.75
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATACCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:31922954 original size:68 final size:67
Alignment explanation
Indices: 31922882--31923031 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
31922872 CATCATGTGT
* * * *
31922882 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
31922944 ATGTAG
62 ATGTAG
** * *
31922950 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
31923015 AG
66 AG
31923017 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
31923032 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:31922987 original size:64 final size:64
Alignment explanation
Indices: 31922906--31923089 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
31922896 AGACATTATG
* *
31922906 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
31922970 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
31923035 AA
63 AA
* * * *
31923037 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
31923090 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:31925685 original size:10 final size:10
Alignment explanation
Indices: 31925670--31925698 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
31925660 CACCTTATTT
31925670 ATGAAAATTC
1 ATGAAAATTC
31925680 ATGAAAATTC
1 ATGAAAATTC
31925690 ATGAAAATT
1 ATGAAAATT
31925699 AAATTCGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (10 bp):
ATGAAAATTC
Found at i:31933481 original size:11 final size:12
Alignment explanation
Indices: 31933456--31933485 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
31933446 GGAAAGAAAG
31933456 TTTCTTTTTTCT
1 TTTCTTTTTTCT
31933468 TTTCTTTTTT-T
1 TTTCTTTTTTCT
31933479 TTTCTTT
1 TTTCTTT
31933486 CTTGTGGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTCTTTTTTCT
Found at i:31935448 original size:22 final size:21
Alignment explanation
Indices: 31935418--31935464 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
31935408 TACAAATTAA
31935418 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
31935440 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
31935461 ATCT
1 ATCT
31935465 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:31935458 original size:16 final size:16
Alignment explanation
Indices: 31935437--31935487 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
31935427 ATTACAAGAT
31935437 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
31935453 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
31935472 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
31935488 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:31935470 original size:19 final size:21
Alignment explanation
Indices: 31935435--31935477 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
31935425 AGATTACAAG
31935435 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
31935456 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
31935475 ATC
1 ATC
31935478 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:31936115 original size:44 final size:43
Alignment explanation
Indices: 31936066--31936635 Score: 486
Period size: 44 Copynumber: 13.0 Consensus size: 43
31936056 CCAGATTTAT
* *
31936066 TATCTTTGATTTGTTCCCTATAAATACAGGGATGCCAAATCTGC
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCC-AATCTGC
* * *
31936110 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGA
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAT-CTGC
* * ** * * * **
31936153 AATCTTCGATCTGCTTTGCTATAAGCATAGGAATGTTAGATCTGC
1 TATCTTCGATTTG-TTCCCTATAAACACAGGGATGCCA-ATCTGC
31936198 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCC-AATCTGC
* * * *
31936242 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGATGA
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAT-CTGC
* ** * * * * **
31936285 AATCTTCGATCTACTTCGCTGTAATCACAGGAATATCAGATCTGC
1 TATCTTCGAT-TTGTTCCCTATAAACACAGGGATGCCA-ATCTGC
*
31936330 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATTTGC
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCC-AATCTGC
* * * *
31936374 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCCGA
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAT-CTGC
* * * * * **
31936417 AATCTTCGATCTGCTTCGCTGTAATCACA-GGAGTGTTAGATCTGC
1 TATCTTCGATTTG-TTCCCTATAAACACAGGGA-TGCCA-ATCTGC
*
31936462 TATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGC
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCC-AATCTGC
* * *
31936506 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGA
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAT-CTGC
* * * * *
31936549 AATCTTCGATTTGCTTCGCTGTAAGCACA-GGAGTGTCAGATCTGC
1 TATCTTCGATTTG-TTCCCTATAAACACAGGGA-TGCCA-ATCTGC
*
31936594 TATCTTCGATCTGTTCCCTATAAACACAGGGATGCCATATCT
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCA-ATCT
31936636 TGTTTCTTTG
Statistics
Matches: 409, Mismatches: 94, Indels: 46
0.74 0.17 0.08
Matches are distributed among these distances:
42 8 0.02
43 50 0.12
44 281 0.69
45 62 0.15
46 8 0.02
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (43 bp):
TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAATCTGC
Found at i:31936227 original size:132 final size:132
Alignment explanation
Indices: 31936066--31936635 Score: 960
Period size: 132 Copynumber: 4.3 Consensus size: 132
31936056 CCAGATTTAT
* *
31936066 TATCTTTGATTTGTTCCCTATAAATACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
* * * *
31936131 AAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTGCTATAAGCATAGGAATGTTAGATCT
66 AAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCT
31936196 GC
131 GC
31936198 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
* * * *
31936263 AAACACAGGGATGCCATGATGAAATCTTCGATCTACTTCGCTGTAATCACAGGAATATCAGATCT
66 AAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCT
31936328 GC
131 GC
*
31936330 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATTTGCTATCTTCAACTTGTTCCCTAT
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
* * * *
31936395 AAACACAGGGATGCCATGCCGAAATCTTCGATCTGCTTCGCTGTAATCACAGGAGTGTTAGATCT
66 AAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCT
31936460 GC
131 GC
*
31936462 TATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
* *
31936527 AAACACAGGGATGCCATGCTGAAATCTTCGATTTGCTTCGCTGTAAGCACAGGAGTGTCAGATCT
66 AAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCT
31936592 GC
131 GC
* *
31936594 TATCTTCGATCTGTTCCCTATAAACACAGGGATGCCATATCT
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCT
31936636 TGTTTCTTTG
Statistics
Matches: 414, Mismatches: 24, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 414 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (132 bp):
TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
AAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCT
GC
Found at i:31940192 original size:16 final size:14
Alignment explanation
Indices: 31940151--31940203 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 14
31940141 TTTATAATTT
31940151 TGAATGCAAATG-A
1 TGAATGCAAATGCA
31940164 TGCAATG-AAATGCTA
1 TG-AATGCAAATGC-A
31940179 TGAGATGCAAATGCA
1 TGA-ATGCAAATGCA
31940194 TGAATGCAAA
1 TGAATGCAAA
31940204 AGGTATCGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 7 0.20
14 12 0.34
15 10 0.29
16 6 0.17
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (14 bp):
TGAATGCAAATGCA
Found at i:31943210 original size:22 final size:21
Alignment explanation
Indices: 31943180--31943226 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
31943170 TACAAATTAA
31943180 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
31943202 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
31943223 ATCT
1 ATCT
31943227 AAAATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:31943235 original size:19 final size:21
Alignment explanation
Indices: 31943197--31943239 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
31943187 AGATTACAAG
*
31943197 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAAATTGCAT
31943218 ATCATATC-T-AAAATTGCAT
1 ATCATATCTTCAAAATTGCAT
31943237 ATC
1 ATC
31943240 CTTAAAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
20 1 0.05
21 8 0.38
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAAATTGCAT
Found at i:31944153 original size:31 final size:30
Alignment explanation
Indices: 31944104--31944173 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
31944094 TAATTGAATT
*
31944104 TTAAA-AAAAAATCTTAATAACCTAATGAC
1 TTAAATAAAAAATCCTAATAACCTAATGAC
** *
31944133 TTAAATAAAAAATTCCTAATAATTTAGTGAC
1 TTAAATAAAAAA-TCCTAATAACCTAATGAC
*
31944164 ATAAATAAAA
1 TTAAATAAAA
31944174 TCTTTCGAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 5 0.15
30 6 0.18
31 23 0.68
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.30
Consensus pattern (30 bp):
TTAAATAAAAAATCCTAATAACCTAATGAC
Found at i:31946090 original size:32 final size:32
Alignment explanation
Indices: 31946053--31946119 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
31946043 AAGCCACGCC
31946053 CTTCCTTCCATTTTGTTTTGAAATTCGGCCAG
1 CTTCCTTCCATTTTGTTTTGAAATTCGGCCAG
*
31946085 CTTCCTTCCATTTTGTTTTGAAATTTGGCCAG
1 CTTCCTTCCATTTTGTTTTGAAATTCGGCCAG
31946117 CTT
1 CTT
31946120 TGGGAAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.15, C:0.24, G:0.15, T:0.46
Consensus pattern (32 bp):
CTTCCTTCCATTTTGTTTTGAAATTCGGCCAG
Found at i:31947733 original size:37 final size:36
Alignment explanation
Indices: 31947617--31947756 Score: 110
Period size: 37 Copynumber: 3.8 Consensus size: 36
31947607 TAGATTAAAT
* * *
31947617 TTAATATTAAAACTTATTAAAATAATAGATAAACATTAAA
1 TTAATA-TAAAAC-TATTAAGATAATA-TTAAATATT-AA
*
31947657 TTAA-ATTAAA-TATTAAGATAATCACTT-AATATTAA
1 TTAATATAAAACTATTAAGATAAT-A-TTAAATATTAA
31947692 TTAATA-AAATACTATTAAGATAAGTATTAAAT-TTAA
1 TTAATATAAA-ACTATTAAGATAA-TATTAAATATTAA
* *
31947728 TTTAATATTAAACTATTAAAATAATATTA
1 -TTAATATAAAACTATTAAGATAATATTA
31947757 TTTTTGAAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
35 8 0.10
36 29 0.35
37 35 0.42
38 7 0.08
39 1 0.01
40 4 0.05
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (36 bp):
TTAATATAAAACTATTAAGATAATATTAAATATTAA
Found at i:31949382 original size:15 final size:15
Alignment explanation
Indices: 31949362--31949391 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31949352 CTATACATGT
*
31949362 AAAATATAAAAGACA
1 AAAATACAAAAGACA
31949377 AAAATACAAAAGACA
1 AAAATACAAAAGACA
31949392 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.10, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAATACAAAAGACA
Found at i:31962377 original size:40 final size:40
Alignment explanation
Indices: 31962332--31962461 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
31962322 CGGAATATAA
31962332 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
31962372 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
31962412 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
31962452 CCGGATATAA
1 CCGGATATAA
31962462 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:31970373 original size:40 final size:40
Alignment explanation
Indices: 31970328--31970457 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
31970318 CGGAATATAA
31970328 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
31970368 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
31970408 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
31970448 CCGGATATAA
1 CCGGATATAA
31970458 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:31973312 original size:40 final size:40
Alignment explanation
Indices: 31973267--31973433 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
31973257 CGGAATATAA
31973267 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
31973307 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
31973347 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
31973387 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
31973426 CCGGATAT
1 CCGGATAT
31973434 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 14 0.13
40 90 0.87
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:31981249 original size:40 final size:40
Alignment explanation
Indices: 31981204--31981332 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
31981194 CGGAATATAA
31981204 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
31981244 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
31981284 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTA-A
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
31981323 CCGGATATAA
1 CCGGATATAA
31981333 TTTCCAGCAT
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
39 9 0.12
40 64 0.88
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:31984804 original size:9 final size:10
Alignment explanation
Indices: 31984785--31984809 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
31984775 TAAGAATATG
31984785 AAAAAGAAAA
1 AAAAAGAAAA
31984795 AAAAAGAAAA
1 AAAAAGAAAA
31984805 AAAAA
1 AAAAA
31984810 TGTTCATCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:31986180 original size:40 final size:40
Alignment explanation
Indices: 31986136--31986264 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
31986126 TGCTGGAAAT
* * *
31986136 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
* * *
31986176 TATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* * *
31986216 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGAC
31986256 TATATCCGG
1 TATATCCGG
31986265 TTATATTCCG
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
39 4 0.05
40 69 0.92
41 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:31991919 original size:40 final size:40
Alignment explanation
Indices: 31991835--31992013 Score: 134
Period size: 40 Copynumber: 4.5 Consensus size: 40
31991825 ACATTCAAAT
* * * *
31991835 GCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCACACGAAA
* * *
31991875 GCCTTCGGGACTTAACCCGGATTTAGTAGCTCACTCGAAA
1 GCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACGAAA
* * * *
31991915 GCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTAT
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCACACGAAA
** * * *
31991955 GCCGTT--GGATCTTATTCCAGATTTAGTCACTTAGCAC-AAA
1 GCC-TTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACGAAA
31991995 GCCTTCGGGACTTAGCCCG
1 GCCTTCGGGACTTAGCCCG
31992014 AATATCATTC
Statistics
Matches: 109, Mismatches: 24, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
39 5 0.05
40 94 0.86
41 10 0.09
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACGAAA
Found at i:31994691 original size:18 final size:18
Alignment explanation
Indices: 31994668--31994705 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
31994658 TTTGATTATT
*
31994668 TAAAATT-TATTATTATAA
1 TAAAATTATAATATTA-AA
31994686 TAAAATTATAATATTAAA
1 TAAAATTATAATATTAAA
31994704 TA
1 TA
31994706 CTTTATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAAATTATAATATTAAA
Found at i:31998627 original size:694 final size:694
Alignment explanation
Indices: 31997298--31998682 Score: 2405
Period size: 694 Copynumber: 2.0 Consensus size: 694
31997288 CCCGTTTTTA
31997298 ATGTTCTTCATATTTTTGAAATCCCGGTAGCTTACTCTCTCCATTTCTACCTATATTTTGAGTTA
1 ATGTTCTTCATATTTTTGAAATCCCGGTAGCTTACTCTCTCCATTTCTACCTATATTTTGAGTTA
* * * *
31997363 TGGTTCATGTTTTCAAAATGACCCATGTGTGACATGTTTATTCTTTGATGTTTTATGGAGGAATA
66 GGGTCCATGTTTTCAAAATGACACATGTGTGACATGTTTATTCTGTGATGTTTTATGGAGGAATA
*
31997428 TGAAAGTTGGATGTGAGTTAAACATCTTTTTCTAGGTGATTTTCATGAAAAACCCCTAAAAGGAC
131 TGAAAGTTGAATGTGAGTTAAACATCTTTTTCTAGGTGATTTTCATGAAAAACCCCTAAAAGGAC
*
31997493 CTTTTTGAAAAAGGTGTAAAATATGTGGTAGAAATGTGGAATAATGGAAAATGTGAGCTTTCATA
196 CTTTTTGAAAAAAGTGTAAAATATGTGGTAGAAATGTGGAATAATGGAAAATGTGAGCTTTCATA
* * * * *
31997558 AGAGTAAATAACATTCGGCTAGGCTTGGGTAATGTATAAATTGTATGCATTTCATTATACAAGCT
261 AGAGGAAATAACATTCGGATAGGCTTGGGTAATGTAGAAATTGCATGCATTTCATTATACAAGCC
*
31997623 TAGGGACTAAATCGTAAAAATGTGAAAGGTTAGGGGCAAAACGATCATTTGGACCAGGGGTGAAA
326 TAGGGACTAAATCGTAAAAATGTGAAAGGTTAGGAGCAAAACGATCATTTGGACCAGGGGTGAAA
31997688 TTTAGACTCGAATAGTATAACGTGAGGTGTTAATGATTCATTTTTATTGTTATAGACCCCGAGAA
391 TTTAGACTCGAATAGTATAACGTGAGGTGTTAATGATTCATTTTTATTGTTATAGACCCCGAGAA
* **
31997753 ACAAATTTCGGAGGTTGATCGAGGAAAATGAAAGGTTTCAGAATAATCGAAACACGATACCAAGA
456 ACAAATTTCGGAGGTCGATCGAGGAAAACAAAAGGTTTCAGAATAATCGAAACACGATACCAAGA
*
31997818 TGAGTACCAGGTAAGTTCGAATAACTTAAAGTAAACTCATAGTATGCTTAATTGCATGGTTCATG
521 CGAGTACCAGGTAAGTTCGAATAACTTAAAGTAAACTCATAGTATGCTTAATTGCATGGTTCATG
* *
31997883 AATGTATGATAATTGCATTTGATGATGGCATGAAAATCCATGAAATGTATCCTTAATAATAACAT
586 AATGTATCATAATTGAATTTGATGATGGCATGAAAATCCATGAAATGTATCCTTAATAATAACAT
*
31997948 ATCGATAAATGTCCCGATTGAGGTTGAAAAGGAAGTTCGATAGT
651 ATCGATAAATGTCCCGATTGAAGTTGAAAAGGAAGTTCGATAGT
*
31997992 ATGTTCTTCGTATTTTTGAAATCCCGGTAGCTTACTCTCTCCATTTCTACCTATATTTTGAGTTA
1 ATGTTCTTCATATTTTTGAAATCCCGGTAGCTTACTCTCTCCATTTCTACCTATATTTTGAGTTA
*
31998057 GGGTCCATGTTTTCAAAATGACACATGTGTGACTTGTTTATTCTGTGATGTTTTATGGAGGAATA
66 GGGTCCATGTTTTCAAAATGACACATGTGTGACATGTTTATTCTGTGATGTTTTATGGAGGAATA
31998122 TGAAAGTTGAATGTGAGTTAAACATCTTTTTCTAGGTGATTTTCATGAAAAACCCCTAAAAGGAC
131 TGAAAGTTGAATGTGAGTTAAACATCTTTTTCTAGGTGATTTTCATGAAAAACCCCTAAAAGGAC
*
31998187 CTTTTTGAAAAAAGTGTAAAATATGTGGTAGAAATGTGGAATAATGGAAAATGTGGGCTTTCATA
196 CTTTTTGAAAAAAGTGTAAAATATGTGGTAGAAATGTGGAATAATGGAAAATGTGAGCTTTCATA
*
31998252 AGAGGAAATAACATTCGGATAGGCTTGGGTAATGTAGAAATTGCATGCATTTCATTATACGAGCC
261 AGAGGAAATAACATTCGGATAGGCTTGGGTAATGTAGAAATTGCATGCATTTCATTATACAAGCC
* **
31998317 TAGGGACTAAATCGTAAAAATGTGAAAGGTTAGGAGTAAAACTG-TCATTTGGACGGGGGGTGAA
326 TAGGGACTAAATCGTAAAAATGTGAAAGGTTAGGAGCAAAAC-GATCATTTGGACCAGGGGTGAA
** *
31998381 ATTTAGACTCGAATAGTATAATTTGAGGTGTTAATGATTCATTTTTATTGTTATAGACCCCGAGG
390 ATTTAGACTCGAATAGTATAACGTGAGGTGTTAATGATTCATTTTTATTGTTATAGACCCCGAGA
* * *
31998446 AACAAATTAT-GGAGGTCGATCGAGGGAAACAAAAGGTTTCAGAATAATCGAAACACGGTACCGA
455 AACAAATT-TCGGAGGTCGATCGAGGAAAACAAAAGGTTTCAGAATAATCGAAACACGATACCAA
* *
31998510 GACGAGTACCAGGTAAGTTCGAATAACTTAAAGTGAACTCATAGTATGCTTAATTGCATGGTTTA
519 GACGAGTACCAGGTAAGTTCGAATAACTTAAAGTAAACTCATAGTATGCTTAATTGCATGGTTCA
*
31998575 TGAATGTATCATAATTGAATTTTATGATGGCATGAAAATCCATGAAATGTATCCTTAATAATAAC
584 TGAATGTATCATAATTGAATTTGATGATGGCATGAAAATCCATGAAATGTATCCTTAATAATAAC
* *
31998640 ATATTGATAAATGTCCCGATTTAAGTTGAAAAGGAAGTTCGAT
649 ATATCGATAAATGTCCCGATTGAAGTTGAAAAGGAAGTTCGAT
31998683 GGATGAGCCA
Statistics
Matches: 652, Mismatches: 37, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
694 650 1.00
695 2 0.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (694 bp):
ATGTTCTTCATATTTTTGAAATCCCGGTAGCTTACTCTCTCCATTTCTACCTATATTTTGAGTTA
GGGTCCATGTTTTCAAAATGACACATGTGTGACATGTTTATTCTGTGATGTTTTATGGAGGAATA
TGAAAGTTGAATGTGAGTTAAACATCTTTTTCTAGGTGATTTTCATGAAAAACCCCTAAAAGGAC
CTTTTTGAAAAAAGTGTAAAATATGTGGTAGAAATGTGGAATAATGGAAAATGTGAGCTTTCATA
AGAGGAAATAACATTCGGATAGGCTTGGGTAATGTAGAAATTGCATGCATTTCATTATACAAGCC
TAGGGACTAAATCGTAAAAATGTGAAAGGTTAGGAGCAAAACGATCATTTGGACCAGGGGTGAAA
TTTAGACTCGAATAGTATAACGTGAGGTGTTAATGATTCATTTTTATTGTTATAGACCCCGAGAA
ACAAATTTCGGAGGTCGATCGAGGAAAACAAAAGGTTTCAGAATAATCGAAACACGATACCAAGA
CGAGTACCAGGTAAGTTCGAATAACTTAAAGTAAACTCATAGTATGCTTAATTGCATGGTTCATG
AATGTATCATAATTGAATTTGATGATGGCATGAAAATCCATGAAATGTATCCTTAATAATAACAT
ATCGATAAATGTCCCGATTGAAGTTGAAAAGGAAGTTCGATAGT
Found at i:32007607 original size:2 final size:2
Alignment explanation
Indices: 32007600--32007624 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32007590 ATTTAATGCC
32007600 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
32007625 GTGTGTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32007741 original size:45 final size:46
Alignment explanation
Indices: 32007675--32007793 Score: 161
Period size: 45 Copynumber: 2.6 Consensus size: 46
32007665 GAAAAAAAAT
32007675 AAGTAAGACCATAGCTAAAAGACGCTATGGCACCACGAATCAAAC-
1 AAGTAAGACCATAGCTAAAAGACGCTATGGCACCACGAATCAAACG
* * * *
32007720 AAGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCAAACG
1 AAGTAAGACCATAGCTAAAAGACGCTATGGCACCACGAATCAAACG
* * *
32007766 TA-TAATACCATAGCTAAAAGACACTATG
1 AAGTAAGACCATAGCTAAAAGACGCTATG
32007794 ACACTATACC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 63 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (46 bp):
AAGTAAGACCATAGCTAAAAGACGCTATGGCACCACGAATCAAACG
Found at i:32022074 original size:13 final size:13
Alignment explanation
Indices: 32022048--32022091 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
32022038 TTCCTGTAAA
* *
32022048 CATTTCACACAAC
1 CATTTCATATAAC
*
32022061 CATTTTATATAAC
1 CATTTCATATAAC
*
32022074 CAATTCATATAAC
1 CATTTCATATAAC
32022087 CATTT
1 CATTT
32022092 GTCATCTGGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.36
Consensus pattern (13 bp):
CATTTCATATAAC
Found at i:32022237 original size:46 final size:46
Alignment explanation
Indices: 32022187--32022543 Score: 529
Period size: 46 Copynumber: 7.8 Consensus size: 46
32022177 AATGCCATAA
** * *
32022187 TATCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
** *** * *
32022233 TATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTACCATGG
1 TATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGG
* ** * *
32022280 TATCTTTCAACCCTGGTCTTATTCATTTCATGTCACGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
32022326 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
32022372 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
32022418 --TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
32022462 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
* *
32022508 TATCTTTCAACCATGGTCTTACATATTTCATTTCAG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAG
32022544 AGAGCACACT
Statistics
Matches: 293, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
44 44 0.15
46 207 0.71
47 42 0.14
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
Found at i:32022462 original size:90 final size:91
Alignment explanation
Indices: 32022187--32022543 Score: 509
Period size: 90 Copynumber: 3.9 Consensus size: 91
32022177 AATGCCATAA
** * *
32022187 TATCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGTCT
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG-ATCTTTCAACCATGGTCT
** *** * *
32022252 TATTCATTTTCCCGTCATGTTACCATGG
65 TACACA-TTTCATATCAGGTTGCCATGG
* ** * *
32022280 TATCTTTCAACCCTGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCT
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG-ATCTTTCAACCATGGTCT
32022345 TACACATTTCATATCAGGTTGCCATGG
65 TACACATTTCATATCAGGTTGCCATGG
32022372 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG-TCTTTCAACCATGGTCTT
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGATCTTTCAACCATGGTCTT
32022436 ACACATTTCATATCAGGTTGCCATGG
66 ACACATTTCATATCAGGTTGCCATGG
32022462 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCT
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG-ATCTTTCAACCATGGTCT
* *
32022527 TACATATTTCATTTCAG
65 TACACATTTCATATCAG
32022544 AGAGCACACT
Statistics
Matches: 246, Mismatches: 16, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
90 90 0.37
92 89 0.36
93 67 0.27
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (91 bp):
TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGATCTTTCAACCATGGTCTT
ACACATTTCATATCAGGTTGCCATGG
Found at i:32022485 original size:136 final size:137
Alignment explanation
Indices: 32022187--32022543 Score: 527
Period size: 136 Copynumber: 2.6 Consensus size: 137
32022177 AATGCCATAA
** * *
32022187 TATCTTTCAACCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGTCT
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCT
** *** * * ** *
32022252 TATTCATTTTCCCGTCATGTTACCATGGTATCTTTCAACCCTGGTCTTATTCATTTCATGTCACG
66 TACACA-TTTCATATCAGGTTACCATGG-ATCTTTCAACCATGGTCTTACACATTTCATATCACG
32022317 TTGCCATGG
129 TTGCCATGG
32022326 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCT
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCT
* *
32022391 TACACATTTCATATCAGGTTGCCATGG-TCTTTCAACCATGGTCTTACACATTTCATATCAGGTT
66 TACACATTTCATATCAGGTTACCATGGATCTTTCAACCATGGTCTTACACATTTCATATCACGTT
32022455 GCCATGG
131 GCCATGG
32022462 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCT
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCT
* *
32022527 TACATATTTCATTTCAG
66 TACACATTTCATATCAG
32022544 AGAGCACACT
Statistics
Matches: 200, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
136 119 0.60
138 16 0.08
139 65 0.32
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (137 bp):
TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCT
TACACATTTCATATCAGGTTACCATGGATCTTTCAACCATGGTCTTACACATTTCATATCACGTT
GCCATGG
Found at i:32025062 original size:2 final size:2
Alignment explanation
Indices: 32025055--32025081 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32025045 AATGAACATT
32025055 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
32025082 GTGTGTGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32026774 original size:27 final size:26
Alignment explanation
Indices: 32026740--32026860 Score: 88
Period size: 26 Copynumber: 4.7 Consensus size: 26
32026730 TAGTATATAT
*
32026740 TATTTTTAT-TTATATATTATCCATTA
1 TATTTTTATATTAT-TATTATACATTA
*
32026766 TATTATTTATATTATTATTATACATTT
1 TATT-TTTATATTATTATTATACATTA
* * *
32026793 TATTTATAAATT-TTATTATATATTA
1 TATTTTTATATTATTATTATACATTA
* * * *
32026818 TATGTTATTATA-TA-TACTATTCCTTG
1 TAT-TT-TTATATTATTATTATACATTA
*
32026844 TATTTTTATTTTATTAT
1 TATTTTTATATTATTAT
32026861 AAATTATGTA
Statistics
Matches: 73, Mismatches: 15, Indels: 14
0.72 0.15 0.14
Matches are distributed among these distances:
24 4 0.05
25 18 0.25
26 25 0.34
27 22 0.30
28 4 0.05
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (26 bp):
TATTTTTATATTATTATTATACATTA
Found at i:32026795 original size:24 final size:23
Alignment explanation
Indices: 32026743--32026800 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
32026733 TATATATTAT
*
32026743 TTTTATTTATATATTATCCATTA
1 TTTTATTTATATATTATCCATCA
* *
32026766 TATTATTTATATTATTAT-TATACA
1 TTTTATTTATA-TATTATCCAT-CA
32026790 TTTTATTTATA
1 TTTTATTTATA
32026801 AATTTTATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 12 0.41
24 17 0.59
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTATTTATATATTATCCATCA
Found at i:32026993 original size:10 final size:10
Alignment explanation
Indices: 32026952--32027011 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
32026942 GTACTATCCT
*
32026952 TATTTATATGA
1 TATTT-TATTA
*
32026963 TA-TTTATTG
1 TATTTTATTA
*
32026972 TATTAT-TTA
1 TATTTTATTA
*
32026981 TATTTCATTA
1 TATTTTATTA
32026991 TATTTTATTTA
1 TATTTTA-TTA
32027002 TATTTTATTA
1 TATTTTATTA
32027012 CTTATCATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
9 11 0.28
10 16 0.41
11 12 0.31
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (10 bp):
TATTTTATTA
Found at i:32027031 original size:10 final size:10
Alignment explanation
Indices: 32026972--32027037 Score: 59
Period size: 10 Copynumber: 6.7 Consensus size: 10
32026962 ATATTTATTG
32026972 TATTATT-TA
1 TATTATTATA
32026981 TATTTCATTATA
1 TA-TT-ATTATA
*
32026993 TTTTATT-TA
1 TATTATTATA
32027002 TATT-TTAT-
1 TATTATTATA
*
32027010 TACTTATCATA
1 TA-TTATTATA
32027021 TATTATTATA
1 TATTATTATA
32027031 TATTATT
1 TATTATT
32027038 CCCTATATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
8 4 0.09
9 10 0.22
10 22 0.48
11 7 0.15
12 3 0.07
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (10 bp):
TATTATTATA
Found at i:32027087 original size:7 final size:7
Alignment explanation
Indices: 32026966--32027092 Score: 50
Period size: 7 Copynumber: 17.4 Consensus size: 7
32026956 TATATGATAT
32026966 TTATTGTA
1 TTATT-TA
32026974 TTATTTA
1 TTATTTA
32026981 -TATTTCA
1 TTATTT-A
32026988 TTATATT-
1 TTAT-TTA
32026995 TTATTTA
1 TTATTTA
32027002 -TATTTTA
1 TTA-TTTA
*
32027009 TTACTTA
1 TTATTTA
* *
32027016 TCATATA
1 TTATTTA
32027023 TTA-TTA
1 TTATTTA
32027029 -TATATTA
1 TTAT-TTA
* *
32027036 TTCCCTATA
1 TT--ATTTA
*
32027045 TTATCTTC
1 TTAT-TTA
*
32027053 CT-TTTA
1 TTATTTA
32027059 TTATATATA
1 TTAT-T-TA
32027068 TTATTTCA
1 TTATTT-A
32027076 TTATTTA
1 TTATTTA
32027083 TTATTTA
1 TTATTTA
32027090 TTA
1 TTA
32027093 GTATATAAAA
Statistics
Matches: 89, Mismatches: 14, Indels: 33
0.65 0.10 0.24
Matches are distributed among these distances:
5 2 0.02
6 14 0.16
7 38 0.43
8 22 0.25
9 12 0.13
10 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.01, T:0.62
Consensus pattern (7 bp):
TTATTTA
Found at i:32039475 original size:220 final size:218
Alignment explanation
Indices: 32039091--32039522 Score: 702
Period size: 220 Copynumber: 2.0 Consensus size: 218
32039081 TGACCTTCAG
* *
32039091 GTGTTTACGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
1 GTGTTTACGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTATCAGAGAACAAATCAAAG
*
32039156 AAACAGATTTGGCATCTCCATATTCGACGGAAAGCAGATCGAAGACATGGCAGATCTAACCTTCG
66 AAACAGATTTGGCATCTCCATATTCGACGGAAAGCAGATCGAAGACATGGCAAATCTAACCTTCG
* * * * *
32039221 GATGTTTTTACATCGAAGTAGATCCAAGATGATTTGGTATCCTTGCATTTATAAGGAGCAGATCG
131 GATGTTTTTACATCGAAGCAGATCCAAAATGATTTAGCATCCTTGCATTTACAAGGAGCAGATCG
*
32039286 AAGACGTAGTAGATTTGGCTTTTAC
196 AAGA--TAGAAGATTTGGCTTTTAC
* *
32039311 GTGTTTACGCTGAAGTAGATCTAAGATGATTTGGCATCTCTGTATTATCAGAGAACAAATCAAAG
1 GTGTTTACGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTATCAGAGAACAAATCAAAG
* *
32039376 AAACAGATTTGGCATCTCTATATTCGACGGAGAGCAGATCGAAGACATGGCAAATCTAACCTTCG
66 AAACAGATTTGGCATCTCCATATTCGACGGAAAGCAGATCGAAGACATGGCAAATCTAACCTTCG
* **
32039441 GATGTTTTTGCATCGAAGCAGATCCAAAATGATTTAGCATCCTTGTGTTTACAAGGAGCAGATCG
131 GATGTTTTTACATCGAAGCAGATCCAAAATGATTTAGCATCCTTGCATTTACAAGGAGCAGATCG
32039506 AAGATAGAAGATTTGGC
196 AAGATAGAAGATTTGGC
32039523 GTCTCTGTAT
Statistics
Matches: 196, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
218 12 0.06
220 184 0.94
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (218 bp):
GTGTTTACGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTATCAGAGAACAAATCAAAG
AAACAGATTTGGCATCTCCATATTCGACGGAAAGCAGATCGAAGACATGGCAAATCTAACCTTCG
GATGTTTTTACATCGAAGCAGATCCAAAATGATTTAGCATCCTTGCATTTACAAGGAGCAGATCG
AAGATAGAAGATTTGGCTTTTAC
Found at i:32039550 original size:44 final size:44
Alignment explanation
Indices: 32039500--32039622 Score: 182
Period size: 44 Copynumber: 2.9 Consensus size: 44
32039490 TACAAGGAGC
*
32039500 AGATCGAAGATAGAAGATTTGGCGTCTCTGTATTGTCAGAGAGA
1 AGATCGAAGATAGAAGATTTGGCATCTCTGTATTGTCAGAGAGA
* * *
32039544 AGATCGAAGATAGCAGATTTGGTATCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGAAGATTTGGCATCTCTGTATTGTCAGAGAGA
32039588 AGATCGAAGAT----GATTTGGCATCTCTGTATTGTCAG
1 AGATCGAAGATAGAAGATTTGGCATCTCTGTATTGTCAG
32039623 GGAACAAAAC
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
40 23 0.31
44 51 0.69
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (44 bp):
AGATCGAAGATAGAAGATTTGGCATCTCTGTATTGTCAGAGAGA
Found at i:32039614 original size:84 final size:85
Alignment explanation
Indices: 32039496--32039679 Score: 230
Period size: 84 Copynumber: 2.1 Consensus size: 85
32039486 TGTTTACAAG
* * * *
32039496 GAGCAGATCGAAGATAGAAGATTTGGCGTCTCTGTATTGTCAGAGAGA-AGATCGAAGATAGCAG
1 GAGCAGATCGAAGAT---AGATTTGGCATCTCTGTATTGTCAGAGA-ACAAAACGAAGA-AGCAA
*
32039560 ATTTGGTATCTCTGT-ATTGTCAGA
61 ATTTGGTATCTCTGTGATTGACAGA
*
32039584 GAGCAGATCGAAGAT-GATTTGGCATCTCTGTATTGTCAGGGAACAAAACGAAGAAGCAAATTTG
1 GAGCAGATCGAAGATAGATTTGGCATCTCTGTATTGTCAGAGAACAAAACGAAGAAGCAAATTTG
* *
32039648 GTGTCTCTGTGTTTGACAGA
66 GTATCTCTGTGATTGACAGA
32039668 GAGCAGATCGAA
1 GAGCAGATCGAA
32039680 ATATCAGCAT
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
83 19 0.22
84 52 0.60
88 15 0.17
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.27
Consensus pattern (85 bp):
GAGCAGATCGAAGATAGATTTGGCATCTCTGTATTGTCAGAGAACAAAACGAAGAAGCAAATTTG
GTATCTCTGTGATTGACAGA
Found at i:32039636 original size:40 final size:41
Alignment explanation
Indices: 32039499--32039637 Score: 147
Period size: 44 Copynumber: 3.3 Consensus size: 41
32039489 TTACAAGGAG
*
32039499 CAGATCGAAGATAGAAGATTTGGCGTCTCTGTATTGTCAGAGAGA
1 CAGATCGAAGAT---AGATTTGGCATCTCTGTATTGTCAGAGA-A
* *
32039544 -AGATCGAAGATAGCAGATTTGGTATCTCTGTATTGTCAGAGAG
1 CAGATCGAAGAT---AGATTTGGCATCTCTGTATTGTCAGAGAA
*
32039587 CAGATCGAAGAT-GATTTGGCATCTCTGTATTGTCAGGGAA
1 CAGATCGAAGATAGATTTGGCATCTCTGTATTGTCAGAGAA
* *
32039627 CAAAACGAAGA
1 CAGATCGAAGA
32039638 AGCAAATTTG
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
40 34 0.40
44 50 0.60
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (41 bp):
CAGATCGAAGATAGATTTGGCATCTCTGTATTGTCAGAGAA
Found at i:32041316 original size:47 final size:46
Alignment explanation
Indices: 32041234--32041335 Score: 113
Period size: 47 Copynumber: 2.2 Consensus size: 46
32041224 TATAAAATAG
32041234 TATATAT-CATTTTTATTTATATTTTATCCATTATATTATTTATATTAT
1 TATATATACA-TTTTATTTATATTTTATCCATTATATTA--TATATTAT
* *
32041282 TAT-TATACATTTTATTTATAAATTTTAT-TA-TATATTATATGTTAT
1 TATATATACATTTTATTTAT--ATTTTATCCATTATATTATATATTAT
32041327 TATATATAC
1 TATATATAC
32041336 TATTCCTTGT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
45 10 0.21
46 5 0.10
47 20 0.42
48 6 0.12
49 7 0.15
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (46 bp):
TATATATACATTTTATTTATATTTTATCCATTATATTATATATTAT
Found at i:32041540 original size:10 final size:10
Alignment explanation
Indices: 32041473--32041540 Score: 52
Period size: 10 Copynumber: 6.7 Consensus size: 10
32041463 ATATTTATTG
32041473 TATTATT-TA
1 TATTATTATA
32041482 TATTTCATTATA
1 TA-TT-ATTATA
*
32041494 TTTTATTTATA
1 TATTA-TTATA
32041505 TATT-TTAT-
1 TATTATTATA
*
32041513 TACTTATCATA
1 TA-TTATTATA
*
32041524 TAATATTATA
1 TATTATTATA
32041534 TATTATT
1 TATTATT
32041541 CCCTATATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
8 2 0.04
9 8 0.17
10 18 0.39
11 15 0.33
12 3 0.07
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (10 bp):
TATTATTATA
Found at i:32043079 original size:46 final size:46
Alignment explanation
Indices: 32043029--32043204 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
32043019 TGGTTGAGCA
32043029 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
32043075 TCCGAACTCGTGGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
32043120 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
32043168 GCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
32043205 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:32043185 original size:93 final size:93
Alignment explanation
Indices: 32043026--32043197 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
32043016 GGATGGTTGA
* *
32043026 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTGGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCGTGGAGT
32043091 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
32043119 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCGTGGAGT
32043184 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
32043198 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCGTGGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:32047179 original size:46 final size:46
Alignment explanation
Indices: 32046881--32047193 Score: 437
Period size: 46 Copynumber: 6.8 Consensus size: 46
32046871 GATGCCATAA
** * *
32046881 TATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
** * * *
32046927 TATCTTTCAACCATGGTCTTATTCATTTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGG
* ** * *
32046974 TATCTTTCAACCCTGGTCTTATTCATTTCATGTCAGGTTGCCATAG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
*
32047020 TATCTTTCAACTATGGTCTTACACATTTCATATCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
* * *
32047066 TATCTTTCAACCATAGTCTTACATATTTCATATCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
32047112 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
* *
32047158 TATCTTTCAACCATGGTCTTACATATTTCATTTCAG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAG
32047194 AGAGCACACC
Statistics
Matches: 245, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 202 0.82
47 43 0.18
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
Found at i:32048799 original size:2 final size:2
Alignment explanation
Indices: 32048794--32048843 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
32048784 TTATTTCCTT
32048794 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32048836 TA TA TA TA
1 TA TA TA TA
32048844 CACATATGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32049012 original size:21 final size:21
Alignment explanation
Indices: 32048988--32049027 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32048978 ATTATTTAAT
* *
32048988 TAATAAATATCTTTTATAAAA
1 TAATAAATATATATTATAAAA
32049009 TAATAAATATATATTATAA
1 TAATAAATATATATTATAA
32049028 TTAAAATCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATAAATATATATTATAAAA
Found at i:32051755 original size:43 final size:43
Alignment explanation
Indices: 32051707--32051793 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
32051697 AATAATTTGA
*
32051707 TCACAATTTTCAAAATTTATATTTGCATACAATTATTTAATTT
1 TCACAATTTTCAAAATTTATATTTGCATACAATCATTTAATTT
* *
32051750 TCACAATTTTCAATATTTCTATTTGCATACAATCATTTAATTT
1 TCACAATTTTCAAAATTTATATTTGCATACAATCATTTAATTT
32051793 T
1 T
32051794 TAACAATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.34, C:0.14, G:0.02, T:0.49
Consensus pattern (43 bp):
TCACAATTTTCAAAATTTATATTTGCATACAATCATTTAATTT
Found at i:32053590 original size:42 final size:42
Alignment explanation
Indices: 32053528--32053682 Score: 116
Period size: 42 Copynumber: 3.7 Consensus size: 42
32053518 TAAGATGCCA
* * *
32053528 ATGCCATGTCCCAGACATGGTCTTACATGGGATCTCACTTCG
1 ATGCCATATCCCAAACATGGTCTTACATGGAATCTCACTTCG
* * * *
32053570 ATGCCATATCCCAAATATGGTCTTATA-CGAATTCTCATTTCG
1 ATGCCATATCCCAAACATGGTCTTACATGGAA-TCTCACTTCG
* * * * * * * *
32053612 AAGCCATGTCCCAAACGTAGTCTTACACGAAATCTC-GTATCA
1 ATGCCATATCCCAAACATGGTCTTACATGGAATCTCACT-TCG
* * *
32053654 ACGCCATATCCCAGATATGGTCTTACATG
1 ATGCCATATCCCAAACATGGTCTTACATG
32053683 ATAACTCATA
Statistics
Matches: 86, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
41 3 0.03
42 81 0.94
43 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAAACATGGTCTTACATGGAATCTCACTTCG
Found at i:32058935 original size:21 final size:21
Alignment explanation
Indices: 32058910--32058952 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
32058900 GTACTAAGAG
32058910 TCAGATTATAGTTTGTCCCTT
1 TCAGATTATAGTTTGTCCCTT
32058931 TCAGATTATAGTTTGTCCCTT
1 TCAGATTATAGTTTGTCCCTT
32058952 T
1 T
32058953 TACTCAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.49
Consensus pattern (21 bp):
TCAGATTATAGTTTGTCCCTT
Found at i:32062994 original size:16 final size:16
Alignment explanation
Indices: 32062975--32063023 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
32062965 ATAAATATGT
32062975 AATTAAATAATATTTA
1 AATTAAATAATATTTA
*
32062991 AATT--A-AATATGT-
1 AATTAAATAATATTTA
32063003 AATTAAATAATATTTA
1 AATTAAATAATATTTA
32063019 AATTA
1 AATTA
32063024 TTCACTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
12 4 0.15
13 6 0.22
14 2 0.07
15 6 0.22
16 9 0.33
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
AATTAAATAATATTTA
Found at i:32063006 original size:28 final size:28
Alignment explanation
Indices: 32062966--32063023 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
32062956 TATCAAATAA
32062966 TAAATATGTAATTAAATAATATTTAAAT
1 TAAATATGTAATTAAATAATATTTAAAT
32062994 TAAATATGTAATTAAATAATATTTAAAT
1 TAAATATGTAATTAAATAATATTTAAAT
32063022 TA
1 TA
32063024 TTCACTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (28 bp):
TAAATATGTAATTAAATAATATTTAAAT
Found at i:32066090 original size:41 final size:41
Alignment explanation
Indices: 32066045--32066162 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
32066035 TGAAAGATAA
32066045 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
32066086 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
32066116 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
32066157 ATGTAG
1 ATGTAG
32066163 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:32066101 original size:71 final size:71
Alignment explanation
Indices: 32066013--32066176 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
32066003 GAGATGTATC
32066013 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
32066078 AGGACA
66 AGGACA
32066084 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
32066149 AGGACA
66 AGGACA
32066155 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
32066177 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:32071031 original size:18 final size:18
Alignment explanation
Indices: 32070993--32071033 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
32070983 GGCCTATAAT
*
32070993 ATTTG-GAAAGATTATTT
1 ATTTGAGAAAGATTATTA
32071010 ATTTGAGAAA-ATTAGTTA
1 ATTTGAGAAAGATTA-TTA
32071028 ATTTGA
1 ATTTGA
32071034 TAGATTAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (18 bp):
ATTTGAGAAAGATTATTA
Found at i:32073753 original size:13 final size:13
Alignment explanation
Indices: 32073717--32073756 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
32073707 AGTTTGGCAA
32073717 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
32073730 TGATGTGGAAAAG
1 TGCTTTTGAAAAG
32073743 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
32073756 T
1 T
32073757 TTGGTTTAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:32075515 original size:34 final size:34
Alignment explanation
Indices: 32075471--32075538 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
32075461 GCACAGTTGA
* *
32075471 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTA-CAGTG
*
32075506 ACAGT-TTGGGCCTTAGCCCATCTCAGTACAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
32075539 TCAAAAATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
Found at i:32093602 original size:17 final size:19
Alignment explanation
Indices: 32093574--32093612 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
32093564 CAACCGATTT
32093574 GGGCAGTGTGGGCC-ACAC
1 GGGCAGTGTGGGCCTACAC
32093592 GGGCA-TGTGGGCCTACAC
1 GGGCAGTGTGGGCCTACAC
32093610 GGG
1 GGG
32093613 TAAGCCACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.15, C:0.26, G:0.46, T:0.13
Consensus pattern (19 bp):
GGGCAGTGTGGGCCTACAC
Found at i:32095796 original size:23 final size:23
Alignment explanation
Indices: 32095763--32095916 Score: 128
Period size: 23 Copynumber: 6.7 Consensus size: 23
32095753 CTCACCACAA
* * *
32095763 CTCGTATGAGCTTACCGATTCAG
1 CTCGTAAGAGCTTACTGTTTCAG
*
32095786 CTCGTAAGAGCTTACTTTTTCAG
1 CTCGTAAGAGCTTACTGTTTCAG
* ** * *
32095809 CTCATTGGAGCTTACCGATTCAG
1 CTCGTAAGAGCTTACTGTTTCAG
* *
32095832 CTTGCAAGAGCTTACTGTTTCAG
1 CTCGTAAGAGCTTACTGTTTCAG
* **
32095855 CTCATTGGAGCTTACTGTTTCAG
1 CTCGTAAGAGCTTACTGTTTCAG
* **
32095878 CTCATTGGAGCTTACTGTTTCAG
1 CTCGTAAGAGCTTACTGTTTCAG
** *
32095901 CTTATTAGAGCTTACT
1 CTCGTAAGAGCTTACT
32095917 ATCCACAGCT
Statistics
Matches: 107, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 107 1.00
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (23 bp):
CTCGTAAGAGCTTACTGTTTCAG
Found at i:32095841 original size:46 final size:46
Alignment explanation
Indices: 32095770--32095915 Score: 188
Period size: 46 Copynumber: 3.2 Consensus size: 46
32095760 CAACTCGTAT
* * *
32095770 GAGCTTACCGATTCAGCTCGTAAGAGCTTACTTTTTCAGCTCATTG
1 GAGCTTACCGATTCAGCTTGCAAGAGCTTACTGTTTCAGCTCATTG
32095816 GAGCTTACCGATTCAGCTTGCAAGAGCTTACTGTTTCAGCTCATTG
1 GAGCTTACCGATTCAGCTTGCAAGAGCTTACTGTTTCAGCTCATTG
* * * * *
32095862 GAGCTTACTGTTTCAGC-T-CATTGGAGCTTACTGTTTCAGCTTATTA
1 GAGCTTACCGATTCAGCTTGCA--AGAGCTTACTGTTTCAGCTCATTG
32095908 GAGCTTAC
1 GAGCTTAC
32095916 TATCCACAGC
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
44 2 0.02
45 1 0.01
46 87 0.97
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (46 bp):
GAGCTTACCGATTCAGCTTGCAAGAGCTTACTGTTTCAGCTCATTG
Found at i:32095881 original size:69 final size:69
Alignment explanation
Indices: 32095770--32095903 Score: 196
Period size: 69 Copynumber: 1.9 Consensus size: 69
32095760 CAACTCGTAT
* *
32095770 GAGCTTACCGATTCAGCTCGTAAGAGCTTACTTTTTCAGCTCATTGGAGCTTACCGATTCAGCTT
1 GAGCTTACCGATTCAGCTCATAAGAGCTTACTGTTTCAGCTCATTGGAGCTTACCGATTCAGCTT
32095835 GCAA
66 GCAA
* * ** * *
32095839 GAGCTTACTGTTTCAGCTCATTGGAGCTTACTGTTTCAGCTCATTGGAGCTTACTGTTTCAGCTT
1 GAGCTTACCGATTCAGCTCATAAGAGCTTACTGTTTCAGCTCATTGGAGCTTACCGATTCAGCTT
32095904 ATTAGAGCTT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 57 1.00
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (69 bp):
GAGCTTACCGATTCAGCTCATAAGAGCTTACTGTTTCAGCTCATTGGAGCTTACCGATTCAGCTT
GCAA
Found at i:32097298 original size:19 final size:19
Alignment explanation
Indices: 32097256--32097295 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
32097246 AATGAATGTG
*
32097256 AATGAATGATATTTAGTAA
1 AATGAATGATATTTAATAA
*
32097275 AATGAGATGATTTTTAATAA
1 AATGA-ATGATATTTAATAA
32097295 A
1 A
32097296 TGATTGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (19 bp):
AATGAATGATATTTAATAA
Found at i:32098070 original size:24 final size:24
Alignment explanation
Indices: 32098041--32098088 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
32098031 TTATTTTTGA
*
32098041 TAGTATATCCTGAAACTGCTATAG
1 TAGTATATCCTGAAACTACTATAG
* *
32098065 TAGTATATGCTGAGACTACTATAG
1 TAGTATATCCTGAAACTACTATAG
32098089 ATAGACTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (24 bp):
TAGTATATCCTGAAACTACTATAG
Found at i:32099708 original size:18 final size:18
Alignment explanation
Indices: 32099685--32099727 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
32099675 ACATCGTGAT
32099685 CTGAAGCCCGAAGTTTAG
1 CTGAAGCCCGAAGTTTAG
32099703 CTGAAGCCCGAAGTTTAG
1 CTGAAGCCCGAAGTTTAG
32099721 CTGAAGC
1 CTGAAGC
32099728 ACATAAGTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (18 bp):
CTGAAGCCCGAAGTTTAG
Found at i:32099751 original size:39 final size:38
Alignment explanation
Indices: 32099705--32099844 Score: 172
Period size: 39 Copynumber: 3.6 Consensus size: 38
32099695 AAGTTTAGCT
* * *
32099705 GAAGCCCGAAGTTTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAG-CTAACTGAAGCACACAAGTGCTAAACG
* *
32099744 AAAGCCCGAAGGCTAACTGAAGCACACAAGTGTTAAACG
1 GAAGCCCGAA-GCTAACTGAAGCACACAAGTGCTAAACG
* *
32099783 GAAGCTCGAAAGCTAACTGAAGCACACAAGTGCTAAATG
1 GAAGCCCG-AAGCTAACTGAAGCACACAAGTGCTAAACG
*
32099822 GAAGCCCCAAGGCTAACTGAAGC
1 GAAGCCCGAA-GCTAACTGAAGC
32099845 TCATCAGAGC
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
38 2 0.02
39 82 0.94
40 3 0.03
ACGTcount: A:0.39, C:0.23, G:0.24, T:0.14
Consensus pattern (38 bp):
GAAGCCCGAAGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:32105881 original size:3 final size:3
Alignment explanation
Indices: 32105870--32105901 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
32105860 TTTTGTTTAT
32105870 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32105902 AAAAACTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Done.