Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 28 of 292
Found at i:7359183 original size:47 final size:46
Alignment explanation
Indices: 7359078--7359284 Score: 190
Period size: 47 Copynumber: 4.5 Consensus size: 46
7359068 TATACGTGCT
* * ** * *
7359078 GATGGATGTCCCAGACATGTCTTACACTAGCAGAAAC-T-TA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCATCATCATCGAGGCC
*
7359121 GATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ATCATCATCGAGGCC
* * * * *
7359168 GATGCATGTCTCAGACATGTCTTACACTAGCACTTATC-TCTACGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCA-TCATCATCGAGGCC
* * * *
7359214 GATGCCATGTCCCAGACATGGTTTTACACTGGCCATCATAAT-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGG-CATCATCATCGAGGCC
7359262 GATGCATGTCCCAGACATGTCTT
1 GATGCATGTCCCAGACATGTCTT
7359285 CTTTAGCCCT
Statistics
Matches: 132, Mismatches: 23, Indels: 15
0.78 0.14 0.09
Matches are distributed among these distances:
43 28 0.21
44 3 0.02
45 1 0.01
46 16 0.12
47 62 0.47
48 19 0.14
49 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCATCATCATCGAGGCC
Found at i:7359269 original size:94 final size:91
Alignment explanation
Indices: 7359025--7359284 Score: 285
Period size: 94 Copynumber: 2.8 Consensus size: 91
7359015 GGGTTAAGTT
* * * * *
7359025 GCCGCTGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCGTGTATACGT-GCTGATGGATGTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-CATC--ATA-ATGTGGCTGATGCATGTC
7359088 CCAGACATGTCTTACACTAGCAGAAACTTA
62 CCAGACATGTCTTACACTAGCAGAAACTTA
* * * * * *
7359118 GCCGATG-CATGTCCCAGACA-CGTCTTACACTGGCTATCATCATCGAGGCCGATGCATGTCTCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCCATCATAAT-GTGGCTGATGCATGTCCCA
** *
7359181 GACATGTCTTACACTAGCACTTATCTCTA
65 GACATGTCTTACACTAGCA-GAAACT-TA
*
7359210 CGCCGATGCCATGTCCCAGACATGGTTTTACACTGGCCATCATAATGTGGCTGATGCATGTCCCA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCCATCATAATGTGGCTGATGCATGTCCCA
7359275 GACATGTCTT
65 GACATGTCTT
7359285 CTTTAGCCCT
Statistics
Matches: 138, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
88 1 0.01
89 2 0.01
90 32 0.23
91 17 0.12
92 15 0.11
93 13 0.09
94 39 0.28
95 19 0.14
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (91 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCCATCATAATGTGGCTGATGCATGTCCCAG
ACATGTCTTACACTAGCAGAAACTTA
Found at i:7362526 original size:29 final size:30
Alignment explanation
Indices: 7362494--7362565 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
7362484 ATAATTACAG
*
7362494 AAAATCTGTCAAATAAAGAATAAATGCGAA-
1 AAAAT-TGCCAAATAAAGAATAAATGCGAAC
* * *
7362524 AAAATGGCCAAATAACGAATAAATGTG-AC
1 AAAATTGCCAAATAAAGAATAAATGCGAAC
7362553 AAAATTGCCAAAT
1 AAAATTGCCAAAT
7362566 CCCTTCAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 1 0.03
29 30 0.83
30 5 0.14
ACGTcount: A:0.54, C:0.12, G:0.14, T:0.19
Consensus pattern (30 bp):
AAAATTGCCAAATAAAGAATAAATGCGAAC
Found at i:7363637 original size:35 final size:35
Alignment explanation
Indices: 7363566--7363640 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 35
7363556 TTAGAATCAG
* *
7363566 ACAGATACAGATTCGGGCCTAAGCCCATTACCGAT
1 ACAGATACAGATTCAGGCCTAAGCCCATTACAGAT
*
7363601 ACAGATGCAGATTCAGGCCTAAGCCCA-TATCAGAT
1 ACAGATACAGATTCAGGCCTAAGCCCATTA-CAGAT
7363636 ACAGA
1 ACAGA
7363641 CATAGATGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 2 0.06
35 34 0.94
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.19
Consensus pattern (35 bp):
ACAGATACAGATTCAGGCCTAAGCCCATTACAGAT
Found at i:7370135 original size:10 final size:10
Alignment explanation
Indices: 7370120--7370181 Score: 63
Period size: 10 Copynumber: 6.1 Consensus size: 10
7370110 TAAATCTAAG
*
7370120 ATTTATTTTT
1 ATTTATCTTT
7370130 ATTTATCTTT
1 ATTTATCTTT
*
7370140 AATTATCTTT
1 ATTTATCTTT
* *
7370150 AATTACCTTT
1 ATTTATCTTT
7370160 ATTTAT-TTGT
1 ATTTATCTT-T
7370170 ATTTATCGTTT
1 ATTTATC-TTT
7370181 A
1 A
7370182 GAATTAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
9 2 0.05
10 38 0.86
11 2 0.05
12 2 0.05
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.65
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:7384672 original size:24 final size:24
Alignment explanation
Indices: 7384645--7384701 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
7384635 ATGTTGTTGA
*
7384645 TGCTTTGAGCCGAAAATCCCTTGC
1 TGCTTTGAGCCGAAAAACCCTTGC
* ** *
7384669 TGCTTTAAGTTGAAAAACCCTTGT
1 TGCTTTGAGCCGAAAAACCCTTGC
*
7384693 TGATTTGAG
1 TGCTTTGAG
7384702 ATAAATGTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (24 bp):
TGCTTTGAGCCGAAAAACCCTTGC
Found at i:7388827 original size:25 final size:24
Alignment explanation
Indices: 7388773--7388829 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
7388763 TGTCATGTTA
*
7388773 ATAAATAATTTAAAATTATAAAAT
1 ATAAAAAATTTAAAATTATAAAAT
7388797 ATTAAAAAATTTAAAATTCA-AAGAAT
1 A-TAAAAAATTTAAAATT-ATAA-AAT
7388823 ATAAAAA
1 ATAAAAA
7388830 GTTCATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 1 0.03
25 23 0.79
26 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (24 bp):
ATAAAAAATTTAAAATTATAAAAT
Found at i:7389485 original size:26 final size:26
Alignment explanation
Indices: 7389452--7389512 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
7389442 AAAACATTTA
*
7389452 TTTTAAATTTAAA-TATTTTTAATAAT
1 TTTTAAATTTAAACCA-TTTTAATAAT
7389478 TTTTAAATTTAAACCATTTTAATAAT
1 TTTTAAATTTAAACCATTTTAATAAT
*
7389504 TGTTAAATT
1 TTTTAAATT
7389513 ATAGTTTTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 31 0.97
27 1 0.03
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (26 bp):
TTTTAAATTTAAACCATTTTAATAAT
Found at i:7391505 original size:39 final size:40
Alignment explanation
Indices: 7391447--7391530 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 40
7391437 TTAGTGGCAT
* * * *
7391447 TAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGAGC-C
1 TAGCGACGCTATTTAAAAAACGCCGCTATAGATCGACCAC
* * *
7391486 TAGCGACGCTATTTAAAAAATGCCGCTGTAGGTCGACCAC
1 TAGCGACGCTATTTAAAAAACGCCGCTATAGATCGACCAC
7391526 TAGCG
1 TAGCG
7391531 GCACTTTGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 31 0.84
40 6 0.16
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (40 bp):
TAGCGACGCTATTTAAAAAACGCCGCTATAGATCGACCAC
Found at i:7391680 original size:40 final size:39
Alignment explanation
Indices: 7391596--7391703 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 39
7391586 GCTTTAGTGG
** *
7391596 CATTAGCAACGCTTTTTGAAAACGCCGCTATAGATCGAT
1 CATTAGCGGCGCTTTTTAAAAACGCCGCTATAGATCGAT
* *
7391635 CATTAGCGGCGCTTTTTAAAAAATGCCGCTATAGGTCGA-
1 CATTAGCGGCGCTTTTT-AAAAACGCCGCTATAGATCGAT
*
7391674 CTATTAGTGGCGCTTTTTGAAAAACGCCGC
1 C-ATTAGCGGCGCTTTTT-AAAAACGCCGC
7391704 AAAAAAATTA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
39 16 0.27
40 43 0.73
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (39 bp):
CATTAGCGGCGCTTTTTAAAAACGCCGCTATAGATCGAT
Found at i:7391754 original size:154 final size:152
Alignment explanation
Indices: 7391345--7391770 Score: 577
Period size: 152 Copynumber: 2.8 Consensus size: 152
7391335 GGCGTTTGGA
* * * ***
7391345 TAAAAAAAGCCGCTATAGATCAAGCATTAGCGGCACTTTTTGAAAAATGTTACAAAAAAATTAAG
1 TAAAAAATGCCGCTATAGGTCGA-CATTAGCGGCACTTTTTGAAAAATGCCGCAAAAAAATTAAG
* *
7391410 CACAATGCTGTCGTTTTATGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTGAAAAACGCCGCTA
65 CACAATGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTAGCGACGCTTTTTG-AAAACGCCGCTA
7391475 TAGATCGAGCCTAGCGACGCTATT
129 TAGATCGAGCCTAGCGACGCTATT
* * *
7391499 TAAAAAATGCCGCTGTAGGTCGACCACTAGCGGCAC--TTTGAAAAATGCCGTAAAAAAATTAAG
1 TAAAAAATGCCGCTATAGGTCGA-CATTAGCGGCACTTTTTGAAAAATGCCGCAAAAAAATTAAG
** * *
7391562 CACAACACCGTTGTTTTATGTTGAGCTTTAGTGGCATTAGCAACGCTTTTTGAAAACGCCGCTAT
65 CACAATGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTAGCGACGCTTTTTGAAAACGCCGCTAT
* * * *
7391627 AGATCGATCATTAGCGGCGCTTTT
130 AGATCGAGC-CTAGCGACGCTATT
* * *
7391651 TAAAAAATGCCGCTATAGGTCGACTATTAGTGGCGCTTTTTGAAAAACGCCGCAAAAAAATTAAG
1 TAAAAAATGCCGCTATAGGTCGAC-ATTAGCGGCACTTTTTGAAAAATGCCGCAAAAAAATTAAG
* *
7391716 CACAATGCCATCGTTTTATGTTTAGCTTTAGTGGCATTAGCGACGCTTTTTGAAA
65 CACAATGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTAGCGACGCTTTTTGAAA
7391771 TATTTATCAT
Statistics
Matches: 236, Mismatches: 32, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
151 22 0.09
152 110 0.47
154 104 0.44
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (152 bp):
TAAAAAATGCCGCTATAGGTCGACATTAGCGGCACTTTTTGAAAAATGCCGCAAAAAAATTAAGC
ACAATGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTAGCGACGCTTTTTGAAAACGCCGCTATA
GATCGAGCCTAGCGACGCTATT
Found at i:7391797 original size:7 final size:7
Alignment explanation
Indices: 7391785--7391910 Score: 78
Period size: 7 Copynumber: 17.7 Consensus size: 7
7391775 TATCATTATA
7391785 GTTTAGG
1 GTTTAGG
7391792 GTTTAGG
1 GTTTAGG
7391799 GTTTAGG
1 GTTTAGG
*
7391806 GTTTAAG
1 GTTTAGG
7391813 GTTTAGG
1 GTTTAGG
7391820 AGTTACTA--
1 -GTT--TAGG
* *
7391828 TTTTAAG
1 GTTTAGG
*
7391835 GTTTATG
1 GTTTAGG
*
7391842 GATTATGG
1 GTTTA-GG
7391850 GTTTAGG
1 GTTTAGG
* *
7391857 GATTATG
1 GTTTAGG
*
7391864 GTTTATG
1 GTTTAGG
7391871 GTTTAAGG
1 GTTT-AGG
*
7391879 G-TTGGG
1 GTTTAGG
*
7391885 GTTTAAG
1 GTTTAGG
*
7391892 GTTTAAG
1 GTTTAGG
*
7391899 GTTTATG
1 GTTTAGG
7391906 GTTTA
1 GTTTA
7391911 TATCTTATAA
Statistics
Matches: 95, Mismatches: 16, Indels: 16
0.75 0.13 0.13
Matches are distributed among these distances:
5 2 0.02
6 3 0.03
7 77 0.81
8 11 0.12
10 2 0.02
ACGTcount: A:0.21, C:0.01, G:0.33, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:7391809 original size:21 final size:21
Alignment explanation
Indices: 7391785--7391910 Score: 94
Period size: 21 Copynumber: 5.9 Consensus size: 21
7391775 TATCATTATA
*
7391785 GTTTAGGGTTTAGGGTTTAGG
1 GTTTAAGGTTTAGGGTTTAGG
7391806 GTTTAAGGTTTAGGAGTTACTA--
1 GTTTAAGGTTTAGG-GTT--TAGG
* * *
7391828 TTTTAAGGTTTATGGATTATGG
1 GTTTAAGGTTTAGGGTTTA-GG
* * * *
7391850 GTTTAGGGATTATGGTTTATG
1 GTTTAAGGTTTAGGGTTTAGG
* * *
7391871 GTTTAAGGGTTGGGGTTTAAG
1 GTTTAAGGTTTAGGGTTTAGG
*
7391892 GTTTAAGGTTTATGGTTTA
1 GTTTAAGGTTTAGGGTTTA
7391911 TATCTTATAA
Statistics
Matches: 82, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
19 2 0.02
21 48 0.59
22 30 0.37
24 2 0.02
ACGTcount: A:0.21, C:0.01, G:0.33, T:0.45
Consensus pattern (21 bp):
GTTTAAGGTTTAGGGTTTAGG
Found at i:7391854 original size:15 final size:15
Alignment explanation
Indices: 7391834--7391881 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
7391824 ACTATTTTAA
7391834 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
7391849 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
* *
7391863 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
7391878 GGTT
1 GGTT
7391882 GGGGTTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:7395827 original size:42 final size:43
Alignment explanation
Indices: 7395751--7396109 Score: 297
Period size: 43 Copynumber: 8.5 Consensus size: 43
7395741 ATTTTTTTAC
* ** * *
7395751 AAGGTCATGTTCTTTAGCAGCATTCGTGGGAAAAGCGCCGCTA
1 AAGGTCATGTTCTATAGTGGCGTTTGTGGGAAAAGCGCCGCTA
* * * *
7395794 AAGGTCTAT-TT-TATAGTGGCATTTTTGGAAAAAGTGCCGCTA
1 AAGGTC-ATGTTCTATAGTGGCGTTTGTGGGAAAAGCGCCGCTA
* * * * **
7395836 AAGATC-TGTTTTATAGCGGCGTTTGTGGGAAAAGAGCCATTA
1 AAGGTCATGTTCTATAGTGGCGTTTGTGGGAAAAGCGCCGCTA
* * *
7395878 AAGGTCATGTTCTATAGCT-GCGATTGTGGG-AGAGCGCTGCTA
1 AAGGTCATGTTCTATAG-TGGCGTTTGTGGGAAAAGCGCCGCTA
* * * * ** *
7395920 AAGGTTATGTTCTATAGTGGGGTTTGTAGGAAAACCATCTCTA
1 AAGGTCATGTTCTATAGTGGCGTTTGTGGGAAAAGCGCCGCTA
* * * **
7395963 AAAGTCATGTTCTATAGAGGCGTTTGTGGAAAAAATGCCGCTA
1 AAGGTCATGTTCTATAGTGGCGTTTGTGGGAAAAGCGCCGCTA
*
7396006 AAGGTCA-----TATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
1 AAGGTCATGTTCTATAGTGGCGTTTGTGGGAAAAGCGCCGCTA
* * * *
7396044 AAAGTCATGTTCTATAGTGGCATTTATGGGAAAAGCACCGCTA
1 AAGGTCATGTTCTATAGTGGCGTTTGTGGGAAAAGCGCCGCTA
* *
7396087 AATGTCATGTTTTATAGTGGCGT
1 AAGGTCATGTTCTATAGTGGCGT
7396110 GTTTCTATAT
Statistics
Matches: 246, Mismatches: 58, Indels: 24
0.75 0.18 0.07
Matches are distributed among these distances:
38 33 0.13
40 1 0.00
41 3 0.01
42 89 0.36
43 118 0.48
44 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (43 bp):
AAGGTCATGTTCTATAGTGGCGTTTGTGGGAAAAGCGCCGCTA
Found at i:7396023 original size:38 final size:38
Alignment explanation
Indices: 7395975--7396051 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
7395965 AGTCATGTTC
* *
7395975 TATAGAGGCGTTTGTGGAAAAAATGCCGCTAAAGGTCA
1 TATAGAGGCGTTTGTGGAAAAAACGCCGCTAAAAGTCA
* * *
7396013 TATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCA
1 TATAGAGGCGTTTGTGGAAAAAACGCCGCTAAAAGTCA
7396051 T
1 T
7396052 GTTCTATAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (38 bp):
TATAGAGGCGTTTGTGGAAAAAACGCCGCTAAAAGTCA
Found at i:7396085 original size:81 final size:81
Alignment explanation
Indices: 7395776--7396094 Score: 243
Period size: 81 Copynumber: 3.9 Consensus size: 81
7395766 AGCAGCATTC
* * *
7395776 GTGGGAAAAGCGCCGCTAAAGGTCTAT-TT-TATAGTGGCATTTTTGGAAAAAGTGCCGCTAAAG
1 GTGGGAAAAGCGCCGCTAAAAGTC-ATGTTCTATAGTGGCATTTGTGGAAAAAGCGCCGCTAAAG
**
7395839 ATCTGTTTTATAGCGGCGTTT
65 ----GTCATATAGCGGCGTTT
* ** * * * *
7395860 GTGGGAAAAGAGCCATTAAAGGTCATGTTCTATAGCT-GCGA-TTGTGG-GAGAGCGCTGCTAAA
1 GTGGGAAAAGCGCCGCTAAAAGTCATGTTCTATAG-TGGC-ATTTGTGGAAAAAGCGCCGCTAAA
* * *
7395922 GGTTATGTTCTATAGTGGGGTTT
64 GGTCA-----TATAGCGGCGTTT
* * ** * * * **
7395945 GTAGGAAAACCATCTCTAAAAGTCATGTTCTATAGAGGCGTTTGTGGAAAAAATGCCGCTAAAGG
1 GTGGGAAAAGCGCCGCTAAAAGTCATGTTCTATAGTGGCATTTGTGGAAAAAGCGCCGCTAAAGG
7396010 TCATATAGCGGCGTTT
66 TCATATAGCGGCGTTT
* * * *
7396026 GTGGGAAAAGCGCCGCTAAAAGTCATGTTCTATAGTGGCATTTATGGGAAAAGCACCGCTAAATG
1 GTGGGAAAAGCGCCGCTAAAAGTCATGTTCTATAGTGGCATTTGTGGAAAAAGCGCCGCTAAAGG
7396091 TCAT
66 TCAT
7396095 GTTTTATAGT
Statistics
Matches: 181, Mismatches: 42, Indels: 27
0.72 0.17 0.11
Matches are distributed among these distances:
80 3 0.02
81 67 0.37
83 2 0.01
84 35 0.19
85 58 0.32
86 16 0.09
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GTGGGAAAAGCGCCGCTAAAAGTCATGTTCTATAGTGGCATTTGTGGAAAAAGCGCCGCTAAAGG
TCATATAGCGGCGTTT
Found at i:7396472 original size:17 final size:18
Alignment explanation
Indices: 7396431--7396473 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
7396421 TCAATTCCCT
*
7396431 CTTTTTTTCTCACTCAAA
1 CTTTATTTCTCACTCAAA
* *
7396449 ATTTATTTCTCGCTC-AA
1 CTTTATTTCTCACTCAAA
7396466 CTTTATTT
1 CTTTATTT
7396474 ATTTATTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.21, C:0.23, G:0.02, T:0.53
Consensus pattern (18 bp):
CTTTATTTCTCACTCAAA
Found at i:7397312 original size:27 final size:27
Alignment explanation
Indices: 7397257--7397312 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
7397247 TGTTGGCGAC
* **
7397257 GTTGTTTAGGAAGATGTGTCAGGTGAT
1 GTTGTATAGGAAGATGTGTCAGGCAAT
* *
7397284 GTTGTATAGGGAGATGTGTCGGGCAAT
1 GTTGTATAGGAAGATGTGTCAGGCAAT
7397311 GT
1 GT
7397313 AACCACACAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.05, G:0.39, T:0.34
Consensus pattern (27 bp):
GTTGTATAGGAAGATGTGTCAGGCAAT
Found at i:7400100 original size:19 final size:19
Alignment explanation
Indices: 7400078--7400117 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
7400068 TCAAATTAAA
7400078 ACCATTCGTGCCATCAAAC
1 ACCATTCGTGCCATCAAAC
*
7400097 ACCATTTGTGCCATCAAAC
1 ACCATTCGTGCCATCAAAC
7400116 AC
1 AC
7400118 ATACCAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.35, G:0.10, T:0.23
Consensus pattern (19 bp):
ACCATTCGTGCCATCAAAC
Found at i:7401298 original size:24 final size:24
Alignment explanation
Indices: 7401231--7401309 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 24
7401221 AGCTCCTCCT
* **
7401231 GAGCTGATAAACAGTAAGCTCTATT
1 GAGCTGA-AAAAAGTAAGCTCTAAC
7401256 GAGCT-AAAAAAGTAAGCTCTAAC
1 GAGCTGAAAAAAGTAAGCTCTAAC
* *
7401279 GAGCTGAGAATAGTAAGCTCTAAC
1 GAGCTGAAAAAAGTAAGCTCTAAC
7401303 GAGCTGA
1 GAGCTGA
7401310 TATATCGGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 19 0.40
24 24 0.50
25 5 0.10
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (24 bp):
GAGCTGAAAAAAGTAAGCTCTAAC
Found at i:7408701 original size:48 final size:45
Alignment explanation
Indices: 7408598--7408709 Score: 129
Period size: 48 Copynumber: 2.4 Consensus size: 45
7408588 TCATGTTTGT
*
7408598 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CAAATTATGA
*
7408644 GAGCCAGTGTAAGACTATGTCTGGGACATGGCATC-G-AAATTGAGATGA
1 GAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCAGCAAATT---ATGA
*
7408692 GTGCTAGTGTAAGACATG
1 GAGCTAGTGTAAGACATG
7408710 CATGCATCGG
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
45 4 0.07
46 14 0.25
47 17 0.30
48 22 0.39
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.24
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCAAATTATGA
Found at i:7408854 original size:49 final size:49
Alignment explanation
Indices: 7408733--7408866 Score: 157
Period size: 49 Copynumber: 2.7 Consensus size: 49
7408723 CAAGATGTGT
*
7408733 CAGTGTAAGACCATGTCT-GGAACATGGCATCGGCACGGATATACGAGAGC
1 CAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCACCGATATA-GAGAGC
* * * * *
7408783 TAGTGTAAGACCATGTCCAGGACTTGGTATCGGC-CTCGATGAT-GATAGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCAC-CGAT-ATAGAGAGC
7408832 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
7408867 ACTTGTCCTA
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
49 36 0.51
50 30 0.43
51 4 0.06
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGGCACCGATATAGAGAGC
Found at i:7409441 original size:16 final size:16
Alignment explanation
Indices: 7409420--7409451 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7409410 AAGATGTATT
7409420 GTCATGGTTAAATGAA
1 GTCATGGTTAAATGAA
7409436 GTCATGGTTAAATGAA
1 GTCATGGTTAAATGAA
7409452 TGTCTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (16 bp):
GTCATGGTTAAATGAA
Found at i:7415194 original size:26 final size:26
Alignment explanation
Indices: 7415165--7415214 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
7415155 TTGGGTGAAT
* * * *
7415165 TTTTTCTTCTTCTTCTTCTTTTTAAG
1 TTTTTATTCTGCTACTTATTTTTAAG
7415191 TTTTTATTCTGCTACTTATTTTTA
1 TTTTTATTCTGCTACTTATTTTTA
7415215 TTTCATTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.12, C:0.16, G:0.04, T:0.68
Consensus pattern (26 bp):
TTTTTATTCTGCTACTTATTTTTAAG
Found at i:7416720 original size:92 final size:91
Alignment explanation
Indices: 7416537--7416850 Score: 416
Period size: 92 Copynumber: 3.4 Consensus size: 91
7416527 GGATGGCCAT
* * * * *
7416537 ATTGCATTATACCGCATGTACGTTAG-TACGCTACGTATCTTTGACTGAACTGGCA-ATTTACTA
1 ATTGCACTGTACCGCATGTACGTTAGCTACGCTACGTACCTTTGACTGAACTGGCAGTTTTACTG
*
7416600 CAACCTATCGATATAGCGGATTATCGC
66 CAACCTATCG-TATAGCGGATTACCGC
* *
7416627 ATTGCACTGTACCGTATGTACGTTAGCTACGCTACGTACCTTTGATTGAACTGGCAGTTTTACTG
1 ATTGCACTGTACCGCATGTACGTTAGCTACGCTACGTACCTTTGACTGAACTGGCAGTTTTACTG
*
7416692 TAACCTATCAGTATAGCGGATTACCGC
66 CAACCTATC-GTATAGCGGATTACCGC
* * * * * * *
7416719 ATTGCACTGTACTGCATTTACGTTAGCTACGCTATGTACTTTTAACTAAACTGGCAGTTTTATTG
1 ATTGCACTGTACCGCATGTACGTTAGCTACGCTACGTACCTTTGACTGAACTGGCAGTTTTACTG
*
7416784 CAACCTATCGGTATAGCGGTTTACCGC
66 CAACCTATC-GTATAGCGGATTACCGC
* *
7416811 ATTGCACTGTACCACATGTACGTTAGCTACGTTACGTACC
1 ATTGCACTGTACCGCATGTACGTTAGCTACGCTACGTACC
7416851 ACTATCTGAT
Statistics
Matches: 194, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
90 23 0.12
91 27 0.14
92 143 0.74
93 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (91 bp):
ATTGCACTGTACCGCATGTACGTTAGCTACGCTACGTACCTTTGACTGAACTGGCAGTTTTACTG
CAACCTATCGTATAGCGGATTACCGC
Found at i:7424837 original size:17 final size:18
Alignment explanation
Indices: 7424800--7424843 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
7424790 AAGGCAAAGT
7424800 AATTTGGTATGAAATTTG
1 AATTTGGTATGAAATTTG
7424818 AATTTGGT-TGATAA-TTG
1 AATTTGGTATGA-AATTTG
7424835 AATTATGGT
1 AATT-TGGT
7424844 GTCGATGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (18 bp):
AATTTGGTATGAAATTTG
Found at i:7433219 original size:48 final size:47
Alignment explanation
Indices: 7433143--7433298 Score: 161
Period size: 48 Copynumber: 3.3 Consensus size: 47
7433133 TATCCTAAAT
* *
7433143 ATGGTCTTACACTGG-CATACATAACAACGTAAATGCCATGTCCCAGAC
1 ATGGTCTTACACTGGCCCT-CATATCAACGT-AATGCCATGTCCCAGAC
* * *
7433191 ATGGCCTTACACTGGCCCTCATATCAACGCCAATGCTATGTCCCAGAC
1 ATGGTCTTACACTGGCCCTCATATCAACG-TAATGCCATGTCCCAGAC
* * * * * *
7433239 ATGATCTTACACTGGCACACATATCAACCCTGATGCCATGTCCTAGAC
1 ATGGTCTTACACTGGCCCTCATATCAA-CGTAATGCCATGTCCCAGAC
*
7433287 GTGGTCTTACAC
1 ATGGTCTTACAC
7433299 GGGATCTTAT
Statistics
Matches: 89, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
48 86 0.97
49 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (47 bp):
ATGGTCTTACACTGGCCCTCATATCAACGTAATGCCATGTCCCAGAC
Found at i:7441757 original size:41 final size:41
Alignment explanation
Indices: 7441710--7441793 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
7441700 TACCCCATAC
7441710 ATACCATATTTAAATGTAATAAACAAATTATACCCCAAAAG
1 ATACCATATTTAAATGTAATAAACAAATTATACCCCAAAAG
7441751 ATACCATATTTAAATGTAATAAACAAATTATACCCCAAAAG
1 ATACCATATTTAAATGTAATAAACAAATTATACCCCAAAAG
7441792 AT
1 AT
7441794 TTGTTGATAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.51, C:0.17, G:0.05, T:0.27
Consensus pattern (41 bp):
ATACCATATTTAAATGTAATAAACAAATTATACCCCAAAAG
Found at i:7442354 original size:48 final size:42
Alignment explanation
Indices: 7442231--7442428 Score: 139
Period size: 42 Copynumber: 4.6 Consensus size: 42
7442221 AATTCCAAAT
* * * * * *
7442231 CCATGTCCCCGACATGGTCTTACATG-GGACTACATATCGATG
1 CCATGTCCCAGACATGGTCTTACACGAAGCCT-CACATCCATG
* * * * *
7442273 CCATATCCCAGATATGGTCTTATACGAAGCCTCATGTCGGTGCTTATG
1 CCATGTCCCAGACATGGTCTTACACGAAGCCTCA---C-AT-C-CATG
*
7442321 CCATGTGCCAGACATGGTCTTACACG-AGACCTCACATCCATG
1 CCATGTCCCAGACATGGTCTTACACGAAG-CCTCACATCCATG
** * * *
7442363 CCATGTCCCAGACATGGTCTTACACGAAATCTCATATCAACG
1 CCATGTCCCAGACATGGTCTTACACGAAGCCTCACATCCATG
* *
7442405 CCATATCCCAGATATGGTCTTACA
1 CCATGTCCCAGACATGGTCTTACA
7442429 TGAAATCACA
Statistics
Matches: 123, Mismatches: 24, Indels: 18
0.75 0.15 0.11
Matches are distributed among these distances:
42 82 0.67
43 5 0.04
44 1 0.01
45 1 0.01
46 1 0.01
47 3 0.02
48 30 0.24
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (42 bp):
CCATGTCCCAGACATGGTCTTACACGAAGCCTCACATCCATG
Found at i:7442377 original size:42 final size:42
Alignment explanation
Indices: 7442318--7442433 Score: 151
Period size: 42 Copynumber: 2.8 Consensus size: 42
7442308 GTCGGTGCTT
* * *
7442318 ATGCCATGTGCCAGACATGGTCTTACACGAGACCTCACATCC
1 ATGCCATGTCCCAGACATGGTCTTACACGAAACCTCACATCA
* *
7442360 ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATATCA
1 ATGCCATGTCCCAGACATGGTCTTACACGAAACCTCACATCA
* * * *
7442402 ACGCCATATCCCAGATATGGTCTTACATGAAA
1 ATGCCATGTCCCAGACATGGTCTTACACGAAA
7442434 TCACATACCG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAACCTCACATCA
Found at i:7442397 original size:90 final size:90
Alignment explanation
Indices: 7442231--7442397 Score: 219
Period size: 90 Copynumber: 1.9 Consensus size: 90
7442221 AATTCCAAAT
* * * * * * *
7442231 CCATGTCCCCGACATGGTCTTACATGGGACTACATATCGATGCCATATCCCAGATATGGTCTTAT
1 CCATGTCCCAGACATGGTCTTACACGAGACTACACATCCATGCCATATCCCAGACATGGTCTTAC
*
7442296 ACGAAGCCTCATGTCGGTGCTTATG
66 ACGAAACCTCATGTCGGTGCTTATG
* *
7442321 CCATGTGCCAGACATGGTCTTACACGAGACCT-CACATCCATGCCATGTCCCAGACATGGTCTTA
1 CCATGTCCCAGACATGGTCTTACACGAGA-CTACACATCCATGCCATATCCCAGACATGGTCTTA
*
7442385 CACGAAATCTCAT
65 CACGAAACCTCAT
7442398 ATCAACGCCA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
90 63 0.97
91 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (90 bp):
CCATGTCCCAGACATGGTCTTACACGAGACTACACATCCATGCCATATCCCAGACATGGTCTTAC
ACGAAACCTCATGTCGGTGCTTATG
Found at i:7442456 original size:132 final size:132
Alignment explanation
Indices: 7442231--7442474 Score: 301
Period size: 132 Copynumber: 1.8 Consensus size: 132
7442221 AATTCCAAAT
* * ** * * *
7442231 CCATGTCCCCGACATGGTCTTACATGGGACTACATATCGATGCCATATCCCAGATATGGTCTTAT
1 CCATGTCCCAGACATGGTCTTACACGAAACTACATATCAACGCCATATCCCAGATATGGTCTTAC
* * ** * * * *
7442296 ACGAAGCCTCATGTCGGTGCTTATGCCATGTGCCAGACATGGTCTTACACGAGACCTCACATCCA
66 ACGAAACCACATACCGATGCTGACGCCATATGCCAGACATGGTCTTACACGAGACCTCACATCCA
7442361 TG
131 TG
7442363 CCATGTCCCAGACATGGTCTTACACGAAATCT-CATATCAACGCCATATCCCAGATATGGTCTTA
1 CCATGTCCCAGACATGGTCTTACACGAAA-CTACATATCAACGCCATATCCCAGATATGGTCTTA
* * * *
7442427 CATGAAATCACATACCGATGCTGACGCCATATTCCAGATATGGTCTTA
65 CACGAAACCACATACCGATGCTGACGCCATATGCCAGACATGGTCTTA
7442475 TGCTGGCATA
Statistics
Matches: 92, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
132 90 0.98
133 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (132 bp):
CCATGTCCCAGACATGGTCTTACACGAAACTACATATCAACGCCATATCCCAGATATGGTCTTAC
ACGAAACCACATACCGATGCTGACGCCATATGCCAGACATGGTCTTACACGAGACCTCACATCCA
TG
Found at i:7442568 original size:48 final size:49
Alignment explanation
Indices: 7442360--7442573 Score: 169
Period size: 48 Copynumber: 4.6 Consensus size: 49
7442350 CCTCACATCC
* *
7442360 ATGCCATGTCCCAGACATGGTCTTACAC-GAAATCTCATATCAACGCC-
1 ATGCCATGTCCCAGATATGGTCTTACACTGAAATCACATATCAACGCCG
* * * *
7442407 AT---A--TCCCAGATATGGTCTTACA-TGAAATCACATACCGATGCTG
1 ATGCCATGTCCCAGATATGGTCTTACACTGAAATCACATATCAACGCCG
* * * ** ** * *
7442450 ACGCCATATTCCAGATATGGTCTTATGCTGGCAT-ACATATCAGCGCGG
1 ATGCCATGTCCCAGATATGGTCTTACACTGAAATCACATATCAACGCCG
* * * **
7442498 ATGCAATGTCCCAAATAGGGTCTTACACTGGCA-CACATATCAACGCCG
1 ATGCCATGTCCCAGATATGGTCTTACACTGAAATCACATATCAACGCCG
*
7442546 ATGCCATGTCCCAGACATGGTCTTACAC
1 ATGCCATGTCCCAGATATGGTCTTACAC
7442574 GGGATCTCAT
Statistics
Matches: 127, Mismatches: 31, Indels: 17
0.73 0.18 0.10
Matches are distributed among these distances:
42 32 0.25
43 1 0.01
44 1 0.01
46 1 0.01
47 2 0.02
48 86 0.68
49 4 0.03
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
ATGCCATGTCCCAGATATGGTCTTACACTGAAATCACATATCAACGCCG
Found at i:7445445 original size:16 final size:17
Alignment explanation
Indices: 7445424--7445456 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7445414 ATAATAGCGA
*
7445424 CAAAAGTGTA-ATTTTG
1 CAAAAGTATATATTTTG
7445440 CAAAAGTATATATTTTG
1 CAAAAGTATATATTTTG
7445457 GACTGAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.39
Consensus pattern (17 bp):
CAAAAGTATATATTTTG
Found at i:7456448 original size:67 final size:67
Alignment explanation
Indices: 7456331--7456460 Score: 190
Period size: 67 Copynumber: 1.9 Consensus size: 67
7456321 GCTAGGACAC
* * * * *
7456331 GGCCGTGTGACCCAAGTCAGAGAGTTACACGGGCATGGATACGGGATAGGACATGGTCGTGTGGT
1 GGCCCTGTGACCCAAGTCAGAGAGTTACACAGGCATGGACACGCGATAGGACATGGCCGTGTGGT
7456396 TT
66 TT
*
7456398 GGCCCTGTGACCCAAGTCAGAGAGTTACATAGGCATGGACAC-CGACTAGGACATGGCCGTGTG
1 GGCCCTGTGACCCAAGTCAGAGAGTTACACAGGCATGGACACGCGA-TAGGACATGGCCGTGTG
7456461 TCTCTATTTC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 2 0.04
67 54 0.96
ACGTcount: A:0.24, C:0.22, G:0.35, T:0.20
Consensus pattern (67 bp):
GGCCCTGTGACCCAAGTCAGAGAGTTACACAGGCATGGACACGCGATAGGACATGGCCGTGTGGT
TT
Found at i:7457762 original size:11 final size:11
Alignment explanation
Indices: 7457746--7457770 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7457736 ATATGATATT
7457746 TTATTATTTTA
1 TTATTATTTTA
7457757 TTATTATTTTA
1 TTATTATTTTA
7457768 TTA
1 TTA
7457771 GTATATATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:7461166 original size:28 final size:28
Alignment explanation
Indices: 7461126--7461180 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
7461116 ATTCATAACT
* *
7461126 ATTTTCAAACTTATTCAATGCTTATTAA
1 ATTTTCAAACTTAGTCAATACTTATTAA
7461154 ATTTTCAAACTTAGTCAATACTTATTA
1 ATTTTCAAACTTAGTCAATACTTATTA
7461181 GTGGCGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.04, T:0.45
Consensus pattern (28 bp):
ATTTTCAAACTTAGTCAATACTTATTAA
Found at i:7463702 original size:25 final size:26
Alignment explanation
Indices: 7463650--7463704 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
7463640 AAATCTAAGG
*
7463650 TTTCATTTTTCTTCCTCCTCTTTTTT
1 TTTCATTTTTCTTCCTCCCCTTTTTT
* *
7463676 TTTC-TTTTTCTT-TTCCCCTTTTCT
1 TTTCATTTTTCTTCCTCCCCTTTTTT
7463700 TTTCA
1 TTTCA
7463705 ACAGAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 13 0.52
25 8 0.32
26 4 0.16
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (26 bp):
TTTCATTTTTCTTCCTCCCCTTTTTT
Found at i:7488093 original size:46 final size:46
Alignment explanation
Indices: 7488026--7488207 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
7488016 AGTGTGCTCT
*
7488026 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
7488072 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
7488118 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
7488164 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
7488208 TCATGTCAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 123 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:7493103 original size:26 final size:26
Alignment explanation
Indices: 7493066--7493201 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
7493056 TGATACAAAT
* *
7493066 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
7493092 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
7493118 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
7493144 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
7493170 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
7493196 TGATAA
1 TGATAA
7493202 GAATTTCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:7494861 original size:27 final size:27
Alignment explanation
Indices: 7494820--7494932 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
7494810 GAGGAAGCGT
*
7494820 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
7494847 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
7494874 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
7494902 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
7494928 TCTGG
1 TCTGG
7494933 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:7494925 original size:54 final size:54
Alignment explanation
Indices: 7494818--7494932 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
7494808 TGGAGGAAGC
*
7494818 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
7494872 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
7494926 GTTCTGG
1 GTTCTGG
7494933 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:7498979 original size:26 final size:26
Alignment explanation
Indices: 7498892--7499025 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
7498882 TGATACAAAT
7498892 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
7498918 TGATAAT-GGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
7498942 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
7498968 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
7498994 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
7499020 TGATAA
1 TGATAA
7499026 GAATTTCATG
Statistics
Matches: 104, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
24 9 0.09
25 30 0.29
26 65 0.62
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:7500681 original size:27 final size:27
Alignment explanation
Indices: 7500640--7500752 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
7500630 GAGGAAGCGT
*
7500640 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
7500667 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
7500694 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
7500722 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
7500748 TCTGG
1 TCTGG
7500753 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:7500745 original size:54 final size:54
Alignment explanation
Indices: 7500638--7500752 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
7500628 TGGAGGAAGC
*
7500638 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
7500692 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
7500746 GTTCTGG
1 GTTCTGG
7500753 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:7506925 original size:25 final size:25
Alignment explanation
Indices: 7506888--7506953 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
7506878 AGTATGCCAT
*
7506888 AAGG-GTCAAACAGAATACACCACA
1 AAGGCGTCATACAGAATACACCACA
** **
7506912 AAGGCGTCATACAGAATATGCTGCA
1 AAGGCGTCATACAGAATACACCACA
*
7506937 AAGGCATCATACAGAAT
1 AAGGCGTCATACAGAAT
7506954 CATGTGTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
24 4 0.11
25 31 0.89
ACGTcount: A:0.44, C:0.21, G:0.20, T:0.15
Consensus pattern (25 bp):
AAGGCGTCATACAGAATACACCACA
Found at i:7509381 original size:28 final size:28
Alignment explanation
Indices: 7509350--7509503 Score: 139
Period size: 28 Copynumber: 5.5 Consensus size: 28
7509340 GAACTCTTGC
* * **
7509350 TTGAAAAATAGTCCCTGTGGACTCTTTT
1 TTGAAAAATAATCCATGCAGACTCTTTT
* *
7509378 TTGAAAGATAATTCATGCAGACTCTTTT
1 TTGAAAAATAATCCATGCAGACTCTTTT
* * *
7509406 TTGAAAGATAATTCATGCAGACTCTTTC
1 TTGAAAAATAATCCATGCAGACTCTTTT
* * * *
7509434 TTGAAAGATAATTCATGCGGACTCTTTC
1 TTGAAAAATAATCCATGCAGACTCTTTT
* * **
7509462 TTGAAAGATAATTCATGCA-AGCTCTTGC
1 TTGAAAAATAATCCATGCAGA-CTCTTTT
7509490 TTGAAAAATAATCC
1 TTGAAAAATAATCC
7509504 TTGTAAACTC
Statistics
Matches: 113, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 1 0.01
28 112 0.99
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36
Consensus pattern (28 bp):
TTGAAAAATAATCCATGCAGACTCTTTT
Found at i:7509393 original size:56 final size:55
Alignment explanation
Indices: 7509300--7509501 Score: 163
Period size: 56 Copynumber: 3.6 Consensus size: 55
7509290 TTGCTTAAGG
* * * * * ** *
7509300 AATAGTCCTTGCAGAATCTTGCTTGAATGATGGTTCATGTGAACTCTTGCTTGAAA
1 AATAATCCATGCAGACTCTTTCTTGAAAGATAATTCATG-GAACTCTTTCTTGAAA
* * ** * * *
7509356 AATAGTCCCTGTGGACTCTTTTTTGAAAGATAATTCATGCAGACTCTTTTTTGAAA
1 AATAATCCATGCAGACTCTTTCTTGAAAGATAATTCATGGA-ACTCTTTCTTGAAA
* * *
7509412 GATAATTCATGCAGACTCTTTCTTGAAAGATAATTCATGCGGACTCTTTCTTGAAA
1 AATAATCCATGCAGACTCTTTCTTGAAAGATAATTCATG-GAACTCTTTCTTGAAA
* * * *
7509468 GATAATTCATGCA-AGCTCTTGCTTGAAAAATAAT
1 AATAATCCATGCAGA-CTCTTTCTTGAAAGATAAT
7509502 CCTTGTAAAC
Statistics
Matches: 119, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
55 2 0.02
56 117 0.98
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.36
Consensus pattern (55 bp):
AATAATCCATGCAGACTCTTTCTTGAAAGATAATTCATGGAACTCTTTCTTGAAA
Found at i:7509514 original size:28 final size:28
Alignment explanation
Indices: 7509369--7509578 Score: 217
Period size: 28 Copynumber: 7.5 Consensus size: 28
7509359 AGTCCCTGTG
*
7509369 GACTCTTTTTTGAAAGATAATTCATGCA
1 GACTCTTTCTTGAAAGATAATTCATGCA
*
7509397 GACTCTTTTTTGAAAGATAATTCATGCA
1 GACTCTTTCTTGAAAGATAATTCATGCA
*
7509425 GACTCTTTCTTGAAAGATAATTCATGCG
1 GACTCTTTCTTGAAAGATAATTCATGCA
7509453 GACTCTTTCTTGAAAGATAATTCATGCA
1 GACTCTTTCTTGAAAGATAATTCATGCA
* * * * *
7509481 -AGCTCTTGCTTGAAAAATAATCCTTGTA
1 GA-CTCTTTCTTGAAAGATAATTCATGCA
* * * * **
7509509 AACTCTTGCTTGAAAGACAATTCAAGTG
1 GACTCTTTCTTGAAAGATAATTCATGCA
* * * **
7509537 GACTCTTACTTGAATGAT-AGTCTATGTG
1 GACTCTTTCTTGAAAGATAATTC-ATGCA
7509565 GACTCTTTCTTGAA
1 GACTCTTTCTTGAA
7509579 GAATAGTCCC
Statistics
Matches: 158, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
27 4 0.03
28 153 0.97
29 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (28 bp):
GACTCTTTCTTGAAAGATAATTCATGCA
Found at i:7516666 original size:9 final size:9
Alignment explanation
Indices: 7516652--7516676 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
7516642 AGTTCAAGGC
7516652 TGCAAGGTT
1 TGCAAGGTT
7516661 TGCAAGGTT
1 TGCAAGGTT
7516670 TGCAAGG
1 TGCAAGG
7516677 GATGTGGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.36, T:0.28
Consensus pattern (9 bp):
TGCAAGGTT
Found at i:7519541 original size:27 final size:27
Alignment explanation
Indices: 7519462--7519568 Score: 115
Period size: 27 Copynumber: 4.0 Consensus size: 27
7519452 AAACATACAT
* * * *
7519462 CACATAGGGGTAAAACAGTCATCTTAA
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
7519489 CATAAAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
7519516 CACATAAGGGCAAAACAGTCACTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
7519543 CTCATAAAGGCAAAATAGTCATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
7519569 TTAATTAAGA
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:7519710 original size:18 final size:17
Alignment explanation
Indices: 7519684--7519717 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7519674 CCATATTACG
7519684 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
7519702 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
7519718 AAGCCCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:7528227 original size:43 final size:43
Alignment explanation
Indices: 7528166--7528304 Score: 197
Period size: 43 Copynumber: 3.2 Consensus size: 43
7528156 AAAATGCCGT
* * *
7528166 TAAAGGTCATGACCTTTAGCTACGTTTTTCCCACAAACGTTGC
1 TAAAGGTCATGACCTTTAGCGACGTTTCTCCCACAAACGTAGC
* * **
7528209 TAAAGGTCATGACCTTTAGCGGCGCTTCTCCCACAAACGCCGC
1 TAAAGGTCATGACCTTTAGCGACGTTTCTCCCACAAACGTAGC
* *
7528252 TAAAGGTCATGACCTTTAGCGATGTTTCTCCCAAAAACGTAGC
1 TAAAGGTCATGACCTTTAGCGACGTTTCTCCCACAAACGTAGC
7528295 TAAAGGTCAT
1 TAAAGGTCAT
7528305 AAAATTTTAA
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 84 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (43 bp):
TAAAGGTCATGACCTTTAGCGACGTTTCTCCCACAAACGTAGC
Found at i:7529415 original size:16 final size:16
Alignment explanation
Indices: 7529394--7529425 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7529384 TCCTTACACC
*
7529394 AAAAGATTTTTTAAAG
1 AAAAGATTTTTCAAAG
7529410 AAAAGATTTTTCAAAG
1 AAAAGATTTTTCAAAG
7529426 TATGATTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.34
Consensus pattern (16 bp):
AAAAGATTTTTCAAAG
Found at i:7532976 original size:45 final size:43
Alignment explanation
Indices: 7532927--7533021 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 43
7532917 GACTTCAGGG
* ** *
7532927 AGATAAGATACTCAATTTTCAGTCTGCTTTCTTGCTACCTCAGAA
1 AGATAAG--ACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
* * *
7532972 AGATAAGACTCCATCTTCAACCTGCTCTCTTGCTACCTTAGAG
1 AGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
7533015 AGATAAG
1 AGATAAG
7533022 GCTGGTGGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 36 0.84
45 7 0.16
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (43 bp):
AGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
Found at i:7533133 original size:179 final size:179
Alignment explanation
Indices: 7532762--7533661 Score: 1266
Period size: 179 Copynumber: 5.0 Consensus size: 179
7532752 TTCGAAAATA
* * *
7532762 AATCTTCAATCTGC-TTCTTTGCTACATCAAGAAA-ATACGACTCCAATTGC--CAACCTGCTCT
1 AATCTTCAGTCTGCTTTC-TTGCTACCTC-AGAAAGATAAGACT-C-ATT-CTTCAACCTGCTCT
* * ** *
7532823 CTTGCTACCTCAGAGAGATAAAGCTAGTGGCTAAAATCTGCTCCATTGTTGACACATGGAGATAA
61 CTTGCTACCTCAGAGAGATAAGGCTGGTGG-TAAAATCTGCTCCATTGCCGATACATGGAGATAA
* * * *
7532888 GGTTCACCATTTTC---GATCTACTCCA-TTGCGACTTCAGGGAGATAAGATAC-TC
125 GATTCACCATCTGCGAAGATCTACTCCACTGGC-ACTTCAGGGAGATAAGAT-CTTC
*
7532940 AATTTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCCA-TCTTCAACCTGCTCTCTTG
1 AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACT-CATTCTTCAACCTGCTCTCTTG
*
7533004 CTACCTTAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
65 CTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
*
7533069 ACCATCTGCGAAGATCTACTCCACTGGCATTTCAGGGAGATAAGATCTTC
130 ACCATCTGCGAAGATCTACTCCACTGGCACTTCAGGGAGATAAGATCTTC
*
7533119 AATCTTCAGTCTGCTTTCTTGCTACCTTAGAAAGATAAGACTCATTCTTCAACCTGCTCTCTTGC
1 AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTTCAACCTGCTCTCTTGC
* *
7533184 TGCCTCAAAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCA
66 TACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCA
*** * *
7533249 CCATCTATAAAGATCTACTCGACTGCCACTTCAGGGAGATAAGATCTTC
131 CCATCTGCGAAGATCTACTCCACTGGCACTTCAGGGAGATAAGATCTTC
* *
7533298 AATCTTTAGTCAGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTTCAACCTGCTCTCTTGC
1 AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTTCAACCTGCTCTCTTGC
*
7533363 TACCTCAGAGAGATAAGGCTGGTGGTAAAATTTGCTCCATTGCCGATACATGGAGATAAGATTCA
66 TACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCA
* * ** *
7533428 CCATCTG-TAATGATCTACTCGACTACCACTTCATGGAGATAAGATCTTC
131 CCATCTGCGAA-GATCTACTCCACTGGCACTTCAGGGAGATAAGATCTTC
*
7533477 AATCTTCAGTCTGCTTTCTTGCTACCTTAGAAAGATAAGACTCATTCTTCAACCTGCTCTCTTGC
1 AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTTCAACCTGCTCTCTTGC
*
7533542 TACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCA
66 TACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCA
* * * * * *
7533607 CCATCTGCGAAGATCTGCTTC-GTTGCAATCTCAGGGAGATAAGATCCTC
131 CCATCTGCGAAGATCTACTCCACTGGCACT-TCAGGGAGATAAGATCTTC
7533656 AATCTT
1 AATCTT
7533662 TACCAATGTC
Statistics
Matches: 658, Mismatches: 51, Indels: 25
0.90 0.07 0.03
Matches are distributed among these distances:
175 1 0.00
176 43 0.07
177 44 0.07
178 39 0.06
179 526 0.80
180 5 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (179 bp):
AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTTCAACCTGCTCTCTTGC
TACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCA
CCATCTGCGAAGATCTACTCCACTGGCACTTCAGGGAGATAAGATCTTC
Found at i:7533198 original size:43 final size:46
Alignment explanation
Indices: 7533105--7533200 Score: 110
Period size: 43 Copynumber: 2.2 Consensus size: 46
7533095 GCATTTCAGG
** * *
7533105 GAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTTAGAA
1 GAGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
* *
7533151 -AGATAAGA-C-TCATTCTTCAACCTGCTCTCTTGCTGCCTCA-AA
1 GAGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
7533193 GAGATAAG
1 GAGATAAG
7533201 GCTGGTGGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
42 2 0.05
43 32 0.74
44 1 0.02
45 8 0.19
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (46 bp):
GAGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
Found at i:7533534 original size:43 final size:45
Alignment explanation
Indices: 7533464--7533558 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 45
7533454 CACTTCATGG
** * *
7533464 AGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTTAGAA
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
* *
7533509 AGATAAGA-C-TCATTCTTCAACCTGCTCTCTTGCTACCTCAGAG
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
7533552 AGATAAG
1 AGATAAG
7533559 GCTGGTGGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
43 35 0.80
44 1 0.02
45 8 0.18
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
Found at i:7534925 original size:52 final size:53
Alignment explanation
Indices: 7534791--7534940 Score: 182
Period size: 52 Copynumber: 2.8 Consensus size: 53
7534781 TCTTTTTTTG
* *
7534791 TTTTTATTATTGAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCCCTTTTCA
1 TTTTTA-T-TTGAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCACTCTT-A
* * *
7534847 TTTTTATTTG-GTCTCAAAGTGCCCTTTACGAGTTTTCACTTTGG-ACTCTT-
1 TTTTTATTTGAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCACTCTTA
7534897 TTTTT-TTTGAAAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTT
1 TTTTTATTTG--AGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTT
7534941 AGGCTTCCCT
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
49 4 0.05
50 5 0.06
52 33 0.40
53 31 0.37
54 3 0.04
55 1 0.01
56 6 0.07
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.46
Consensus pattern (53 bp):
TTTTTATTTGAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCACTCTTA
Found at i:7535770 original size:16 final size:17
Alignment explanation
Indices: 7535729--7535770 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
7535719 AGGTAGATAA
*
7535729 AAAAATGAATACTACGAT
1 AAAAA-GAATAATACGAT
7535747 AAAAAGAATAATAC-AT
1 AAAAAGAATAATACGAT
*
7535763 ATAAAGAA
1 AAAAAGAA
7535771 AAAAAATGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 9 0.41
17 8 0.36
18 5 0.23
ACGTcount: A:0.64, C:0.07, G:0.10, T:0.19
Consensus pattern (17 bp):
AAAAAGAATAATACGAT
Found at i:7536473 original size:11 final size:11
Alignment explanation
Indices: 7536373--7536474 Score: 66
Period size: 12 Copynumber: 8.8 Consensus size: 11
7536363 TAAAAAATAT
7536373 TATATAATAAA
1 TATATAATAAA
*
7536384 -ATGTAATATAAA
1 TATAT-A-ATAAA
*
7536396 TATATAAGAAA
1 TATATAATAAA
7536407 TATAATAGATATAA
1 TAT-ATA-ATA-AA
*
7536421 TATAAAATAACA
1 TATATAATAA-A
* *
7536433 TGTAAAAT-AA
1 TATATAATAAA
7536443 TATATATATAAA
1 TATATA-ATAAA
7536455 TA-ATTAATAAA
1 TATA-TAATAAA
7536466 TATATAATA
1 TATATAATA
7536475 TATGTGAAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 22
0.71 0.08 0.22
Matches are distributed among these distances:
10 8 0.11
11 25 0.35
12 27 0.38
13 7 0.10
14 5 0.07
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (11 bp):
TATATAATAAA
Found at i:7537534 original size:83 final size:83
Alignment explanation
Indices: 7537291--7537542 Score: 353
Period size: 83 Copynumber: 3.0 Consensus size: 83
7537281 ACCGAATCAA
* * * * * * *
7537291 CTTGAATCCGTTTGAGAATGTTTGAGAGTTATATCTACCA-GTCCTCGATTTGTCCCTTGTAAGC
1 CTTGAGTCTGTTTGAGAATATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGC
*
7537355 ACAAGGATGCAAAACCAT
66 ACAAGGATGCCAAACCAT
* * *
7537373 CTTGAGTTTGTTTGAGAATATTTGAGAGTCATACCTGCAATGTCCTAGATTTGTTCCTTGTAAGC
1 CTTGAGTCTGTTTGAGAATATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGC
7537438 ACAAGGATGCCAAACCAT
66 ACAAGGATGCCAAACCAT
* *
7537456 CTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAAC
1 CTTGAGTCTGTTTGAGAATATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGC
* * *
7537521 ACAAGAATACCAAATCAT
66 ACAAGGATGCCAAACCAT
7537539 CTTG
1 CTTG
7537543 GATCTGCTTC
Statistics
Matches: 150, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
82 32 0.21
83 118 0.79
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (83 bp):
CTTGAGTCTGTTTGAGAATATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGC
ACAAGGATGCCAAACCAT
Found at i:7537677 original size:119 final size:119
Alignment explanation
Indices: 7537466--7537938 Score: 779
Period size: 119 Copynumber: 4.0 Consensus size: 119
7537456 CTTGAGTCTG
* * * * *
7537466 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
*
7537531 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCCATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
7537585 TTTGAGAACGTCTGAGAGCCAAATCTGCTATGTCTTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
*
7537650 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
7537704 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTG-TTCTTTGTAAACACAAGAATA
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTC-TTGTAAACACAAGAATA
*
7537768 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAACGTTAGATCTGCTATA
65 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
7537823 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCAATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* **
7537888 CAAATCATTTTGGATCTGCTTCAGTATAAATGTCTGAA-GTCTAGATCTGCT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGT-TAGATCTGCT
7537939 GTCTTCAATT
Statistics
Matches: 333, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
118 5 0.02
119 325 0.98
120 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:7550068 original size:11 final size:11
Alignment explanation
Indices: 7549968--7550069 Score: 59
Period size: 11 Copynumber: 8.8 Consensus size: 11
7549958 TAAAAAATAT
7549968 TATATAATAAA
1 TATATAATAAA
*
7549979 -ATGTAATATAAA
1 TATAT-A-ATAAA
*
7549991 TATATAAGAAA
1 TATATAATAAA
7550002 TATAATAGATATAA
1 TAT-ATA-ATA-AA
*
7550016 TATAAAATAACA
1 TATATAATAA-A
*
7550028 TGTA-AA-ACAA
1 TATATAATA-AA
7550038 TATATATATAAA
1 TATATA-ATAAA
7550050 TA-ATTAATAAA
1 TATA-TAATAAA
7550061 TATATAATA
1 TATATAATA
7550070 TATGTGAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 26
0.68 0.07 0.25
Matches are distributed among these distances:
10 8 0.11
11 26 0.37
12 24 0.34
13 8 0.11
14 5 0.07
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (11 bp):
TATATAATAAA
Found at i:7553689 original size:21 final size:22
Alignment explanation
Indices: 7553661--7553709 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
7553651 TTTCAGAGAC
7553661 CATAAATTGT-AGCATTTAACA
1 CATAAATTGTCAGCATTTAACA
* *
7553682 CCTAAATTTTCAGCATTTAACA
1 CATAAATTGTCAGCATTTAACA
7553704 CATAAA
1 CATAAA
7553710 ATGGTTTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (22 bp):
CATAAATTGTCAGCATTTAACA
Found at i:7556409 original size:40 final size:40
Alignment explanation
Indices: 7556354--7556535 Score: 262
Period size: 40 Copynumber: 4.6 Consensus size: 40
7556344 TATTCGAATG
*
7556354 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGCCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
7556394 ATATCCGGCCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGCCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
7556434 ATATCCGGGCC-AAGTCCCAAAGGCATTTGTGCTATTGACT
1 ATATCC-GGCCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
7556474 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-CT
1 ATATCCGGCCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
7556514 ATATCCGG-CTAAATCCCGAAGG
1 ATATCCGGCCTAAGTCCCGAAGG
7556536 TACTTGGGTT
Statistics
Matches: 129, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 15 0.12
40 108 0.84
41 6 0.05
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGCCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:7561177 original size:6 final size:6
Alignment explanation
Indices: 7561155--7561190 Score: 51
Period size: 5 Copynumber: 6.5 Consensus size: 6
7561145 AAATGAGTAT
7561155 GTGGGA GT-GGA GT-GGA GTGGGA GTGGGA GT-GGA GTG
1 GTGGGA GTGGGA GTGGGA GTGGGA GTGGGA GTGGGA GTG
7561191 TGAACGAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 15 0.54
6 13 0.46
ACGTcount: A:0.17, C:0.00, G:0.64, T:0.19
Consensus pattern (6 bp):
GTGGGA
Found at i:7562675 original size:7 final size:7
Alignment explanation
Indices: 7562663--7562789 Score: 80
Period size: 7 Copynumber: 18.0 Consensus size: 7
7562653 ACTAATTAAT
7562663 CTAAACC
1 CTAAACC
*
7562670 CTAAACT
1 CTAAACC
*
7562677 CTTAACC
1 CTAAACC
*
7562684 TCT-ATCC
1 -CTAAACC
* *
7562691 CAAAAACA
1 C-TAAACC
*
7562699 CTAAACA
1 CTAAACC
7562706 CTAAACC
1 CTAAACC
* *
7562713 TTAAACT
1 CTAAACC
*
7562720 TTAAACC
1 CTAAACC
*
7562727 CTTAACC
1 CTAAACC
7562734 CTAAACC
1 CTAAACC
*
7562741 CTTACACC
1 C-TAAACC
*
7562749 TTAAACTC
1 CTAAAC-C
7562757 C--AACC
1 CTAAACC
*
7562762 TTAAACC
1 CTAAACC
7562769 CTAAACC
1 CTAAACC
7562776 CTAAACC
1 CTAAACC
7562783 CTAAACC
1 CTAAACC
7562790 ATAATCTCTA
Statistics
Matches: 92, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
5 1 0.01
6 4 0.04
7 76 0.83
8 11 0.12
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:7563106 original size:41 final size:41
Alignment explanation
Indices: 7563044--7563196 Score: 180
Period size: 41 Copynumber: 3.7 Consensus size: 41
7563034 GTTATACGAC
* * * * *
7563044 TTTTAGCGGCATTCTATCGAAAACGCCGCTTATGCTTTGGT
1 TTTTAGCGGCGTTTTACCGAAAACGCCGCTAATGCTCTGGT
* * *
7563085 TTTTAGCGGCGTTTTACCGAAAGCGCAGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCGAAAACGCCGCTAATGCTCTGGT
* **
7563126 TTTTAGCGGCGTTTTACCGAAAGCAACGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAACGCCGCTAATGCTCTGGT
***
7563167 TTTTAGCGGCGTTTTATTAAAAACGCCGCT
1 TTTTAGCGGCGTTTTACCGAAAACGCCGCT
7563197 CAAAACGCTA
Statistics
Matches: 94, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 94 1.00
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAACGCCGCTAATGCTCTGGT
Found at i:7565576 original size:10 final size:10
Alignment explanation
Indices: 7565561--7565596 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
7565551 AAATCTTAAC
7565561 TTTTTATATT
1 TTTTTATATT
*
7565571 TTTTTAGATT
1 TTTTTATATT
*
7565581 TTTTTATAAT
1 TTTTTATATT
7565591 TTTTTA
1 TTTTTA
7565597 AAAATATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (10 bp):
TTTTTATATT
Found at i:7565639 original size:27 final size:27
Alignment explanation
Indices: 7565612--7565664 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
7565602 ATAAATTTTG
* *
7565612 AAATTTTTTTAAATATTTTGAAAATTGA
1 AAATTATTTTAAA-ATTTTCAAAATTGA
*
7565640 AAATTATTTTGAAATTTTCAAAATT
1 AAATTATTTTAAAATTTTCAAAATT
7565665 ATTTTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (27 bp):
AAATTATTTTAAAATTTTCAAAATTGA
Found at i:7565649 original size:19 final size:19
Alignment explanation
Indices: 7565625--7565675 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
7565615 TTTTTTTAAA
*
7565625 TATTTTGAAAATTGAAAAT
1 TATTTTGAAAATTCAAAAT
*
7565644 TATTTTGAAATTTTCAAAAT
1 TATTTTGAAA-ATTCAAAAT
7565664 TATTTT-AAAATT
1 TATTTTGAAAATT
7565676 TTTTGTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 2 0.07
19 13 0.46
20 13 0.46
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (19 bp):
TATTTTGAAAATTCAAAAT
Found at i:7565664 original size:20 final size:20
Alignment explanation
Indices: 7565606--7565677 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
7565596 AAAAATATAA
**
7565606 ATTTTGAAATTTTTTTAAA-T
1 ATTTTGAAA-TTTTCAAAATT
* *
7565626 ATTTTGAAA-ATTGAAAATT
1 ATTTTGAAATTTTCAAAATT
7565645 ATTTTGAAATTTTCAAAATT
1 ATTTTGAAATTTTCAAAATT
*
7565665 ATTTTAAAATTTT
1 ATTTTGAAATTTT
7565678 TTGTATTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
18 5 0.11
19 10 0.23
20 29 0.66
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (20 bp):
ATTTTGAAATTTTCAAAATT
Found at i:7568458 original size:13 final size:13
Alignment explanation
Indices: 7568440--7568467 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7568430 AATTTTTATT
7568440 AGGGGTTAATTTG
1 AGGGGTTAATTTG
7568453 AGGGGTTAATTTG
1 AGGGGTTAATTTG
7568466 AG
1 AG
7568468 TTAAAGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.00, G:0.39, T:0.36
Consensus pattern (13 bp):
AGGGGTTAATTTG
Found at i:7571012 original size:22 final size:22
Alignment explanation
Indices: 7570982--7571061 Score: 133
Period size: 22 Copynumber: 3.6 Consensus size: 22
7570972 TATGCCTGTC
* *
7570982 CACAGGGGCATGTGAAAGGTTG
1 CACACGGGCGTGTGAAAGGTTG
7571004 CACACGGGCGTGTGAAAGGTTG
1 CACACGGGCGTGTGAAAGGTTG
7571026 CACACGGGCGTGTGAAAGGTTG
1 CACACGGGCGTGTGAAAGGTTG
*
7571048 CACATGGGCGTGTG
1 CACACGGGCGTGTG
7571062 GAAACTGGAG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.23, C:0.17, G:0.41, T:0.19
Consensus pattern (22 bp):
CACACGGGCGTGTGAAAGGTTG
Found at i:7573689 original size:23 final size:23
Alignment explanation
Indices: 7573661--7573707 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
7573651 AAGGTAATTA
*
7573661 AACCATCGAATTCGTATGAACTT
1 AACCATCGAATTCATATGAACTT
7573684 AACCATCGAATTCATATGAACTT
1 AACCATCGAATTCATATGAACTT
7573707 A
1 A
7573708 CTAAGTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (23 bp):
AACCATCGAATTCATATGAACTT
Found at i:7580745 original size:23 final size:26
Alignment explanation
Indices: 7580687--7580746 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 26
7580677 TGAAAATTTC
*
7580687 AAATACAATAATATATATATTTTCCTA
1 AAAT-CAATAATATATATATTTCCCTA
7580714 ATAAT-AATAAT-TATA-ATTTCCCT-
1 A-AATCAATAATATATATATTTCCCTA
7580737 AAATCAATAA
1 AAATCAATAA
7580747 AAATAGATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
22 3 0.10
23 6 0.20
24 7 0.23
25 4 0.13
26 6 0.20
27 1 0.03
28 3 0.10
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (26 bp):
AAATCAATAATATATATATTTCCCTA
Found at i:7581440 original size:16 final size:18
Alignment explanation
Indices: 7581403--7581442 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
7581393 AATGAATACA
7581403 TGTTGTGGAAAGCATATG
1 TGTTGTGGAAAGCATATG
7581421 TGTT-TGGAAA-CATGAT-
1 TGTTGTGGAAAGCAT-ATG
7581437 TGTTGT
1 TGTTGT
7581443 TGAGCCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.35
17 9 0.45
18 4 0.20
ACGTcount: A:0.25, C:0.05, G:0.30, T:0.40
Consensus pattern (18 bp):
TGTTGTGGAAAGCATATG
Found at i:7582745 original size:20 final size:21
Alignment explanation
Indices: 7582696--7582745 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
7582686 TAATTTTAGA
7582696 ATTTAT-TTTCATTTATCTTT
1 ATTTATCTTTCATTTATCTTT
* *
7582716 AATTACCTTT-ATTTAT-TTGT
1 ATTTATCTTTCATTTATCTT-T
7582736 ATTTATCTTT
1 ATTTATCTTT
7582746 TAGAATATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (21 bp):
ATTTATCTTTCATTTATCTTT
Found at i:7583493 original size:17 final size:18
Alignment explanation
Indices: 7583465--7583498 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
7583455 TATTCTTCAT
7583465 TTTAATTTTTGCAATTTA
1 TTTAATTTTTGCAATTTA
7583483 TTTAA-TTTTGCAATTT
1 TTTAATTTTTGCAATTT
7583499 CAGTTCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (18 bp):
TTTAATTTTTGCAATTTA
Found at i:7589255 original size:23 final size:22
Alignment explanation
Indices: 7589224--7589267 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
7589214 AAAGACAAAA
7589224 AACCTGCAGCC-AATCAGCCCAT
1 AACCTGCAGCCAAAT-AGCCCAT
7589246 AACCTTGCAGCCAAATAGCCCA
1 AACC-TGCAGCCAAATAGCCCA
7589268 CTCAAGCCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
23 13 0.65
24 3 0.15
ACGTcount: A:0.34, C:0.39, G:0.14, T:0.14
Consensus pattern (22 bp):
AACCTGCAGCCAAATAGCCCAT
Found at i:7589522 original size:20 final size:20
Alignment explanation
Indices: 7589497--7589536 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7589487 TTTTATCTAC
*
7589497 TGTTGTTGCTGCTATTTTTG
1 TGTTGTTGATGCTATTTTTG
*
7589517 TGTTGTTGATGCTGTTTTTG
1 TGTTGTTGATGCTATTTTTG
7589537 CTTTATAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.07, G:0.28, T:0.60
Consensus pattern (20 bp):
TGTTGTTGATGCTATTTTTG
Found at i:7589819 original size:6 final size:6
Alignment explanation
Indices: 7589808--7589841 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
7589798 AGACAACCCA
7589808 ATTTTT ATTTTT ATTTTT -TATTTT ATTTTT ATTT
1 ATTTTT ATTTTT ATTTTT AT-TTTT ATTTTT ATTT
7589842 ATTTTATCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 1 0.04
6 24 0.92
7 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:7589976 original size:23 final size:22
Alignment explanation
Indices: 7589945--7589988 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
7589935 AAATATAAAA
7589945 AACCTGCAGCC-AATCAGCCCAT
1 AACCTGCAGCCAAAT-AGCCCAT
7589967 AACCTTGCAGCCAAATAGCCCA
1 AACC-TGCAGCCAAATAGCCCA
7589989 CTCAAGCCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
23 13 0.65
24 3 0.15
ACGTcount: A:0.34, C:0.39, G:0.14, T:0.14
Consensus pattern (22 bp):
AACCTGCAGCCAAATAGCCCAT
Found at i:7591597 original size:10 final size:10
Alignment explanation
Indices: 7591582--7591631 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
7591572 TAATTTTAGG
7591582 ATTTAT-TTT
1 ATTTATCTTT
7591591 CATTTATCTTT
1 -ATTTATCTTT
*
7591602 AATTATCTTT
1 ATTTATCTTT
7591612 ATTTAT-TTGT
1 ATTTATCTT-T
*
7591622 ATTTACCTTT
1 ATTTATCTTT
7591632 TAGAATATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:7595143 original size:27 final size:26
Alignment explanation
Indices: 7595090--7595148 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
7595080 TTTTAACCAC
*
7595090 CACTTTTTACATTTTTACAAATTAAT
1 CACTTTTTACATTTTTACAAATAAAT
* *
7595116 CCCTTTTTGACATTTTTTTCAAA-AAAT
1 CACTTTTT-ACA-TTTTTACAAATAAAT
7595143 CACTTT
1 CACTTT
7595149 ACAAAACTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 7 0.26
27 11 0.41
28 9 0.33
ACGTcount: A:0.31, C:0.19, G:0.02, T:0.49
Consensus pattern (26 bp):
CACTTTTTACATTTTTACAAATAAAT
Found at i:7604239 original size:23 final size:22
Alignment explanation
Indices: 7604183--7604248 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 22
7604173 ATAAACATAA
*
7604183 AAAATTAAAAATAATAAT-ATT
1 AAAATTAAAAATGATAATAATT
7604204 AACAACTTAAAAATGATAATAATT
1 AA-AA-TTAAAAATGATAATAATT
7604228 AAAATTAAAAAATG-TAATAAT
1 AAAATT-AAAAATGATAATAAT
7604249 ATTTTCTTAC
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
21 2 0.05
22 11 0.28
23 22 0.55
24 5 0.12
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (22 bp):
AAAATTAAAAATGATAATAATT
Found at i:7607406 original size:36 final size:36
Alignment explanation
Indices: 7607359--7607432 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
7607349 TTGAAAGTTG
7607359 TTGAAAATGCTTTATCAAAGGTGGTCAGAATTTTCC
1 TTGAAAATGCTTTATCAAAGGTGGTCAGAATTTTCC
7607395 TTGAAAATGCTTTATCAAAGGTGGTCAGAATTTTCC
1 TTGAAAATGCTTTATCAAAGGTGGTCAGAATTTTCC
7607431 TT
1 TT
7607433 TAAATGTGAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (36 bp):
TTGAAAATGCTTTATCAAAGGTGGTCAGAATTTTCC
Found at i:7607595 original size:26 final size:25
Alignment explanation
Indices: 7607566--7607614 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
7607556 TATAAGTTTT
*
7607566 ATATATTATTAGTAAATAATAATATG
1 ATATATTATCAGTAAATAA-AATATG
* *
7607592 ATATTTTATCATTAAATAAAATA
1 ATATATTATCAGTAAATAAAATA
7607615 AAAATAATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (25 bp):
ATATATTATCAGTAAATAAAATATG
Found at i:7607809 original size:21 final size:20
Alignment explanation
Indices: 7607734--7607814 Score: 63
Period size: 21 Copynumber: 3.7 Consensus size: 20
7607724 CATTAAAGAG
7607734 TTATTAATATTTATTTATAATA
1 TTATTAATATTTATTTA-AA-A
* *
7607756 GTTACAATTAATGTTTAATTAAAA
1 -TT---ATTAATATTTATTTAAAA
*
7607780 TTATCAATATTTATTTACAAA
1 TTATTAATATTTATTTA-AAA
*
7607801 TTTTTAATATTTAT
1 TTATTAATATTTAT
7607815 ATTTAATTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 12 0.26
21 15 0.32
23 4 0.09
24 1 0.02
25 2 0.04
26 13 0.28
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (20 bp):
TTATTAATATTTATTTAAAA
Found at i:7608172 original size:7 final size:7
Alignment explanation
Indices: 7608162--7608199 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
7608152 ATTTTTCAGG
*
7608162 AAAAATA
1 AAAAAGA
7608169 AAAAAGA
1 AAAAAGA
7608176 AAAAAGA
1 AAAAAGA
7608183 AAAAAGA
1 AAAAAGA
*
7608190 AAGAAGA
1 AAAAAGA
7608197 AAA
1 AAA
7608200 GTCATTCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (7 bp):
AAAAAGA
Found at i:7608456 original size:23 final size:24
Alignment explanation
Indices: 7608430--7608474 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
7608420 ATAAATATTT
7608430 AATTAATTTTTAA-AATTTTAAAA
1 AATTAATTTTTAATAATTTTAAAA
*
7608453 AATTTATTTTTAATAATTTTAA
1 AATTAATTTTTAATAATTTTAA
7608475 TGATTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTAATAATTTTAAAA
Found at i:7610187 original size:21 final size:20
Alignment explanation
Indices: 7610150--7610191 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
7610140 CTGGTGTCAT
7610150 ATTCGTTTCCCCCAACAATG
1 ATTCGTTTCCCCCAACAATG
* *
7610170 ATTCGATTTCTCCGAACAATG
1 ATTCG-TTTCCCCCAACAATG
7610191 A
1 A
7610192 ATGAGAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (20 bp):
ATTCGTTTCCCCCAACAATG
Found at i:7625793 original size:39 final size:39
Alignment explanation
Indices: 7625724--7625992 Score: 463
Period size: 39 Copynumber: 7.0 Consensus size: 39
7625714 ATTATATTAT
* *
7625724 CAGCACAAAGCCTGC-GGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
7625762 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
7625801 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
7625840 CAGCACGAAGCCTGCGGGACTTTAG-CCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
7625878 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
7625917 CAGCACGAAGCCTGC-GGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
7625955 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
7625993 TCAGTGTCTT
Statistics
Matches: 220, Mismatches: 8, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
38 87 0.40
39 133 0.60
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:7625875 original size:77 final size:78
Alignment explanation
Indices: 7625724--7625992 Score: 463
Period size: 77 Copynumber: 3.5 Consensus size: 78
7625714 ATTATATTAT
* * *
7625724 CAGCACAAAGCCTGC-GGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGC
7625788 CCGGATACATTTC
66 CCGGATACATTTC
*
7625801 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAG-
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGC
7625865 CCGGATACATTTC
66 CCGGATACATTTC
* *
7625878 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTCCAGCACGAAGCCTGC-GGACTTTAGC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGC
7625942 CCGGATACATTTC
66 CCGGATACATTTC
7625955 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
7625993 TCAGTGTCTT
Statistics
Matches: 183, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
76 9 0.05
77 129 0.70
78 45 0.25
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (78 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGC
CCGGATACATTTC
Found at i:7625928 original size:116 final size:115
Alignment explanation
Indices: 7625724--7625992 Score: 468
Period size: 116 Copynumber: 2.3 Consensus size: 115
7625714 ATTATATTAT
* *
7625724 CAGCACAAAGCCTGC-GGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGC
1 CAGCACGAAGCCTGCGGGACTTT-AGCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGC
*
7625788 CCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
65 CCGGATACATTTCCAGCACGAAGCCTGC-GGACTTTAGCCCGGATACATTTC
7625840 CAGCACGAAGCCTGCGGGACTTTAGCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCC
1 CAGCACGAAGCCTGCGGGACTTTAGCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCC
*
7625905 CGGATATATTTCCAGCACGAAGCCTGCGGACTTTAGCCCGGATACATTTC
66 CGGATACATTTCCAGCACGAAGCCTGCGGACTTTAGCCCGGATACATTTC
7625955 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAG-CCGGATACATTT
7625993 TCAGTGTCTT
Statistics
Matches: 147, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
115 47 0.32
116 93 0.63
117 7 0.05
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (115 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCC
CGGATACATTTCCAGCACGAAGCCTGCGGACTTTAGCCCGGATACATTTC
Found at i:7631618 original size:39 final size:39
Alignment explanation
Indices: 7631549--7631816 Score: 427
Period size: 39 Copynumber: 7.0 Consensus size: 39
7631539 ATTATATTAT
* *
7631549 CAGCACAAAGCCTGC-GGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
7631587 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
7631626 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
7631665 CAGCACGAAGCCTGCGGGACTTTAG--CGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
7631702 CAGCACGAAGCCTGCGGGACTTT-GGCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
7631740 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
7631779 CGGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
7631817 TCAGTGTCTT
Statistics
Matches: 218, Mismatches: 8, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
36 1 0.00
37 34 0.16
38 49 0.22
39 134 0.61
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:7631768 original size:114 final size:115
Alignment explanation
Indices: 7631549--7631816 Score: 423
Period size: 114 Copynumber: 2.3 Consensus size: 115
7631539 ATTATATTAT
* *
7631549 CAGCACAAAGCCTGC-GGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGC
1 CAGCACGAAGCCTGCGGGACTTT-A-GCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGC
*
7631613 CCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
64 CCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
7631665 CAGCACGAAGCCTGCGGGACTTTAGCGGATATATTTCCAGCACGAAGCCTGCGGGACTTTGG-CC
1 CAGCACGAAGCCTGCGGGACTTTAGCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCCC
* *
7631729 GGATATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
66 GGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
7631779 CGGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAG--CGGATACATTT
7631817 TCAGTGTCTT
Statistics
Matches: 141, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
114 73 0.52
115 36 0.26
116 25 0.18
117 7 0.05
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (115 bp):
CAGCACGAAGCCTGCGGGACTTTAGCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCCC
GGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:7635832 original size:11 final size:11
Alignment explanation
Indices: 7635816--7635846 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
7635806 TCTTTACTTC
7635816 ATTTTATTTTT
1 ATTTTATTTTT
7635827 ATTTTATTTTT
1 ATTTTATTTTT
7635838 A-TTTATTTT
1 ATTTTATTTT
7635847 CATAAATTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:7641016 original size:24 final size:24
Alignment explanation
Indices: 7641010--7641132 Score: 246
Period size: 24 Copynumber: 5.1 Consensus size: 24
7641000 GCTTATTATG
7641010 ATCGCACACATAGTGCCATAGTAA
1 ATCGCACACATAGTGCCATAGTAA
7641034 ATCGCACACATAGTGCCATAGTAA
1 ATCGCACACATAGTGCCATAGTAA
7641058 ATCGCACACATAGTGCCATAGTAA
1 ATCGCACACATAGTGCCATAGTAA
7641082 ATCGCACACATAGTGCCATAGTAA
1 ATCGCACACATAGTGCCATAGTAA
7641106 ATCGCACACATAGTGCCATAGTAA
1 ATCGCACACATAGTGCCATAGTAA
7641130 ATC
1 ATC
7641133 TCGTCACCAT
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 99 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.21
Consensus pattern (24 bp):
ATCGCACACATAGTGCCATAGTAA
Found at i:7644080 original size:20 final size:21
Alignment explanation
Indices: 7644055--7644094 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7644045 CTCTTGAAAC
*
7644055 AGGGC-ACAAGCCGGTGTGGA
1 AGGGCAACAAGCCCGTGTGGA
*
7644075 AGGGCAACACGCCCGTGTGG
1 AGGGCAACAAGCCCGTGTGG
7644095 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.25, G:0.42, T:0.10
Consensus pattern (21 bp):
AGGGCAACAAGCCCGTGTGGA
Found at i:7647845 original size:19 final size:22
Alignment explanation
Indices: 7647795--7647838 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
7647785 TTTGAAAATT
7647795 GAGCTATTTAATTCTTCTAGCA
1 GAGCTATTTAATTCTTCTAGCA
7647817 GAGCTATTTAATTCTTCTAGCA
1 GAGCTATTTAATTCTTCTAGCA
7647839 ACTTTTACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (22 bp):
GAGCTATTTAATTCTTCTAGCA
Found at i:7651553 original size:21 final size:19
Alignment explanation
Indices: 7651524--7651562 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
7651514 TTCCAAGTTT
7651524 ATTTATGTTATAATTGTTGCA
1 ATTTATGTT-TAATT-TTGCA
*
7651545 ATTTGTGTTTAATTTTGC
1 ATTTATGTTTAATTTTGC
7651563 TAAAATCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 5 0.29
21 8 0.47
ACGTcount: A:0.23, C:0.05, G:0.15, T:0.56
Consensus pattern (19 bp):
ATTTATGTTTAATTTTGCA
Found at i:7659871 original size:57 final size:57
Alignment explanation
Indices: 7659804--7659918 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
7659794 GAGTTTTTTT
7659804 TTTTGTTAATAAAATAGTTTGTATGCAAGTATGAATGACGATTTTATTGAGTGAAAG
1 TTTTGTTAATAAAATAGTTTGTATGCAAGTATGAATGACGATTTTATTGAGTGAAAG
* *
7659861 TTTTGTTAATAAGATAGTTTGTATGCAAGTATGAATGATGATTTTATTGAGTGAAAG
1 TTTTGTTAATAAAATAGTTTGTATGCAAGTATGAATGACGATTTTATTGAGTGAAAG
7659918 T
1 T
7659919 ATGTTATCAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.42
Consensus pattern (57 bp):
TTTTGTTAATAAAATAGTTTGTATGCAAGTATGAATGACGATTTTATTGAGTGAAAG
Found at i:7663882 original size:33 final size:31
Alignment explanation
Indices: 7663802--7663882 Score: 99
Period size: 31 Copynumber: 2.5 Consensus size: 31
7663792 CTTCCTGCAT
7663802 TAAAATCCAACCAAAAACAACAAATATAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* * * *
7663833 TGAAATCCAACCAAAAACAGCAAATGTAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
*
7663864 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
7663883 TATTAAATCT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 28 0.67
33 14 0.33
ACGTcount: A:0.60, C:0.20, G:0.06, T:0.14
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:7669724 original size:9 final size:9
Alignment explanation
Indices: 7669710--7669791 Score: 67
Period size: 9 Copynumber: 9.1 Consensus size: 9
7669700 TATGTATTAC
*
7669710 GTAAGTTAA
1 GTAAGTTAT
*
7669719 GTAAGTTTT
1 GTAAGTTAT
7669728 GTAAGTTAT
1 GTAAGTTAT
*
7669737 GTAAGTCAT
1 GTAAGTTAT
* *
7669746 GATATGATAT
1 G-TAAGTTAT
* *
7669756 -AAATTTAT
1 GTAAGTTAT
*
7669764 GTAAGGTAT
1 GTAAGTTAT
7669773 GTAAGTTAT
1 GTAAGTTAT
*
7669782 GTAAATTAT
1 GTAAGTTAT
7669791 G
1 G
7669792 ATATGAAATA
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
8 4 0.07
9 46 0.84
10 5 0.09
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:7669839 original size:43 final size:43
Alignment explanation
Indices: 7669727--7669881 Score: 211
Period size: 43 Copynumber: 3.6 Consensus size: 43
7669717 AAGTAAGTTT
* * *
7669727 TGTAAGTTATGTAAGTCATGATATGATATAAATTTATGTAAGGTA
1 TGTAAGTTATGTAAGTTATGATATGATATATATTTATGT-A-TTA
* *
7669772 TGTAAGTTATGTAAATTATGATATGAAATATATTTATGTATTA
1 TGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTA
* * *
7669815 CGCAAGTTATGTAAGTTATTATATGATATATATTTATGTATTA
1 TGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTA
*
7669858 TGTAAGTTATGTAAGCTATGATAT
1 TGTAAGTTATGTAAGTTATGATAT
7669882 CATGTATTTA
Statistics
Matches: 96, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 60 0.62
44 1 0.01
45 35 0.36
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.44
Consensus pattern (43 bp):
TGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTA
Found at i:7670089 original size:15 final size:16
Alignment explanation
Indices: 7670061--7670118 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
7670051 AGAAAAAAAT
7670061 TATTT-TAATTAAATAA
1 TATTTATAA-TAAATAA
7670077 TATTTATAA-AAAT--
1 TATTTATAATAAATAA
7670090 TATTT-TAATTAAATAA
1 TATTTATAA-TAAATAA
7670106 TATTTA-AATAAAT
1 TATTTATAATAAAT
7670119 TAATCCAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
12 3 0.08
13 5 0.14
14 4 0.11
15 9 0.25
16 12 0.33
17 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTATAATAAATAA
Found at i:7670106 original size:29 final size:28
Alignment explanation
Indices: 7670054--7670120 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 28
7670044 ATCACCTAGA
7670054 AAAAAATTATTTTAATTAAATAATATTT
1 AAAAAATTATTTTAATTAAATAATATTT
7670082 ATAAAAATTATTTTAATTAAATAATATTT
1 A-AAAAATTATTTTAATTAAATAATATTT
7670111 AAATAAATTA
1 AAA-AAATTA
7670121 ATCCAAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
AAAAAATTATTTTAATTAAATAATATTT
Found at i:7670109 original size:16 final size:16
Alignment explanation
Indices: 7670061--7670110 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
7670051 AGAAAAAAAT
7670061 TATTTTAATTAAATAA
1 TATTTTAATTAAATAA
7670077 TA-TTT-A-TAAA-AA
1 TATTTTAATTAAATAA
7670089 TTATTTTAATTAAATAA
1 -TATTTTAATTAAATAA
7670106 TATTT
1 TATTT
7670111 AAATAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
12 2 0.07
13 6 0.21
14 4 0.14
15 4 0.14
16 11 0.38
17 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTTTAATTAAATAA
Found at i:7670306 original size:19 final size:19
Alignment explanation
Indices: 7670282--7670342 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
7670272 TATTTAAATA
7670282 AATTAATCCAAATTATATT
1 AATTAATCCAAATTATATT
* * *
7670301 AATTAAT-TAATATTTAAATA
1 AATTAATCCAA-A-TTATATT
7670321 AATTAATCCAAATTATA-T
1 AATTAATCCAAATTATATT
7670339 AATT
1 AATT
7670343 TAAAAAATTG
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
18 6 0.18
19 12 0.36
20 13 0.39
21 2 0.06
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTAATCCAAATTATATT
Found at i:7670306 original size:39 final size:39
Alignment explanation
Indices: 7670252--7670342 Score: 157
Period size: 39 Copynumber: 2.4 Consensus size: 39
7670242 ACCTGGAAAA
*
7670252 AAATTATTTTAATTAAATAATATTTAAATAAATTAATCC
1 AAATTATATTAATTAAATAATATTTAAATAAATTAATCC
*
7670291 AAATTATATTAATTAATTAATATTTAAATAAATTAATCC
1 AAATTATATTAATTAAATAATATTTAAATAAATTAATCC
7670330 AAATTATA-TAATT
1 AAATTATATTAATT
7670343 TAAAAAATTG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 5 0.10
39 45 0.90
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (39 bp):
AAATTATATTAATTAAATAATATTTAAATAAATTAATCC
Found at i:7670327 original size:20 final size:20
Alignment explanation
Indices: 7670262--7670327 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
7670252 AAATTATTTT
*
7670262 AATTAAATAATATTTAAATA
1 AATTAATTAATATTTAAATA
* * *
7670282 AATTAATCCAA-A-TTATATT
1 AATTAAT-TAATATTTAAATA
7670301 AATTAATTAATATTTAAATA
1 AATTAATTAATATTTAAATA
7670321 AATTAAT
1 AATTAAT
7670328 CCAAATTATA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 2 0.06
19 13 0.36
20 19 0.53
21 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTAATTAATATTTAAATA
Found at i:7670345 original size:19 final size:19
Alignment explanation
Indices: 7670279--7670345 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
7670269 TAATATTTAA
7670279 ATAAATTAATCCAAATTAT
1 ATAAATTAATCCAAATTAT
* * *
7670298 ATTAATTAAT-TAATATTTAA
1 ATAAATTAATCCAA-A-TTAT
7670318 ATAAATTAATCCAAATTAT
1 ATAAATTAATCCAAATTAT
*
7670337 ATAATTTAA
1 ATAAATTAA
7670346 AAAATTGTGT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
18 2 0.05
19 21 0.55
20 13 0.34
21 2 0.05
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (19 bp):
ATAAATTAATCCAAATTAT
Found at i:7670363 original size:205 final size:195
Alignment explanation
Indices: 7669891--7670438 Score: 918
Period size: 196 Copynumber: 2.8 Consensus size: 195
7669881 TCATGTATTT
*
7669891 AATTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATATTTTAAAAAATTGTGTA
1 AATTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTA
*
7669956 TAAAAAAGTCGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCTTGAAAAAAATAATAATAAT
66 TAAAAAAGTCGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCTTGGAAAAAA-AATAATAAT
7670021 AATAAAATTTGACGATGTGGAAAATCACCTAGAAAAAAATTATTTTAATTAAATAATATTTATAA
130 AATAAAATTTGACGATGTGGAAAATCACCTAGAAAAAAATTATTTTAATTAAATAATATTTATAA
7670086 A
195 A
* *
7670087 AATTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTTAAAAATTGTGTA
1 AATTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTA
7670152 TAAAAAAGTCGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCTTGGAAAAAAAATAATAATA
66 TAAAAAAGTCGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCTTGGAAAAAAAATAATAATA
*
7670217 ATAAAATTTGACGATGTGGAAAATCACCTGGAAAAAAATTATTTTAATTAAATAATATTTAAATA
131 ATAAAATTTGACGATGTGGAAAATCACCTAGAAAAAAATTATTTTAATTAAATAATA-TT---T-
7670282 AATTAATCCA
191 -A-TAA---A
*
7670292 AATTATATTAATTAATTAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTA
1 AATTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTA
* *
7670357 TAAAAAAGTCGAAAACCGTATAAGATTAAATGTCAACTTTGTTCCTTGG-AAAAAAATAATAAAA
66 TAAAAAAGTCGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCTTGGAAAAAAAATAATAATA
7670421 ATAAAATTTGACGATGTG
131 ATAAAATTTGACGATGTG
7670439 AAGAATAAGT
Statistics
Matches: 332, Mismatches: 10, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
195 66 0.20
196 118 0.36
199 1 0.00
201 1 0.00
202 3 0.01
204 32 0.10
205 111 0.33
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.35
Consensus pattern (195 bp):
AATTATATTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTA
TAAAAAAGTCGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCTTGGAAAAAAAATAATAATA
ATAAAATTTGACGATGTGGAAAATCACCTAGAAAAAAATTATTTTAATTAAATAATATTTATAAA
Found at i:7671912 original size:22 final size:21
Alignment explanation
Indices: 7671882--7671947 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
7671872 TACAAATTAA
7671882 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
7671904 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
7671925 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
7671944 ATCT
1 ATCT
7671948 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:7671934 original size:19 final size:19
Alignment explanation
Indices: 7671899--7671977 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
7671889 AGATTACAAG
7671899 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
7671920 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
7671939 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
7671956 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
7671975 ATC
1 ATC
7671978 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:7671941 original size:14 final size:15
Alignment explanation
Indices: 7671921--7671977 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
7671911 AGATTGCATA
7671921 TCATATCTAAGATTG
1 TCATATCTAAGATTG
7671936 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
7671955 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
7671972 -CATATC
1 TCATATC
7671978 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:7671963 original size:36 final size:39
Alignment explanation
Indices: 7671899--7671977 Score: 128
Period size: 36 Copynumber: 2.1 Consensus size: 39
7671889 AGATTACAAG
7671899 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTG-ATATCATATCTAAGATTGCAT
7671939 ATCATATC-T-AAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
7671975 ATC
1 ATC
7671978 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
39 1 0.03
40 8 0.21
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (39 bp):
ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
Done.