Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 40 of 82
Found at i:14865191 original size:15 final size:15
Alignment explanation
Indices: 14865171--14865199 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14865161 AATCAAGTAG
14865171 GATTTGATTTGATTC
1 GATTTGATTTGATTC
14865186 GATTTGATTTGATT
1 GATTTGATTTGATT
14865200 TTCCATGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.03, G:0.21, T:0.55
Consensus pattern (15 bp):
GATTTGATTTGATTC
Found at i:14872971 original size:11 final size:11
Alignment explanation
Indices: 14872957--14872982 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14872947 GGAAGAAAAA
14872957 TGGAGTTCAAT
1 TGGAGTTCAAT
14872968 TGGAGTTCAAT
1 TGGAGTTCAAT
14872979 TGGA
1 TGGA
14872983 CATATTGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.08, G:0.31, T:0.35
Consensus pattern (11 bp):
TGGAGTTCAAT
Found at i:14877581 original size:22 final size:21
Alignment explanation
Indices: 14877556--14877596 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14877546 ACCTTTTTTT
*
14877556 CACTTGTTTCCATGAATTTTCA
1 CACTT-TTCCCATGAATTTTCA
*
14877578 CACTTTTCCCTTGAATTTT
1 CACTTTTCCCATGAATTTT
14877597 TCCACCTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.20, C:0.24, G:0.07, T:0.49
Consensus pattern (21 bp):
CACTTTTCCCATGAATTTTCA
Found at i:14890871 original size:145 final size:145
Alignment explanation
Indices: 14890611--14890939 Score: 435
Period size: 145 Copynumber: 2.3 Consensus size: 145
14890601 AGGATGGTTC
* *
14890611 TAACAGTTTGTGTTCAATAATTCCATATGTGATTATCGAATAACATATCTGTGTTTACAGTTGGA
1 TAACAGTTTGTGTTCAACAATTCCATATGTGATTATCGAATAACATATCTGTGTTTACAGTTAGA
* **
14890676 CCATACGACGATAGCTCCACAACCACCGAAAGGTCCTACTCAAACTCACAATGCTAACAACCCGT
66 CCATACGACGACAGCTCCACAACCACCGAAAGGTCCTACTCAAACTCACAATGCTAACAACCAAT
14890741 CGGTAAGATCGATTA
131 CGGTAAGATCGATTA
* * *
14890756 TAACAATTTGTGTTCAACAATTCCATATGTGATTATCGAATAACATATTTGTGTTTGCAGTTAGA
1 TAACAGTTTGTGTTCAACAATTCCATATGTGATTATCGAATAACATATCTGTGTTTACAGTTAGA
* * * * * * *
14890821 CCATGCGACGACAGCTCCTCAACCACCGAGAGGTCTTCCTCAGA-TGCACAATGCTAACGACCAA
66 CCATACGACGACAGCTCCACAACCACCGAAAGGTCCTACTCAAACT-CACAATGCTAACAACCAA
* *
14890885 TCGGTAAGATCGGTTC
130 TCGGTAAGATCGATTA
* * * * * *
14890901 TAACAGTTTCTATTCAACATTTCCAGATATGTTTATCGA
1 TAACAGTTTGTGTTCAACAATTCCATATGTGATTATCGA
14890940 GCAAAATAGT
Statistics
Matches: 159, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
144 1 0.01
145 158 0.99
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.29
Consensus pattern (145 bp):
TAACAGTTTGTGTTCAACAATTCCATATGTGATTATCGAATAACATATCTGTGTTTACAGTTAGA
CCATACGACGACAGCTCCACAACCACCGAAAGGTCCTACTCAAACTCACAATGCTAACAACCAAT
CGGTAAGATCGATTA
Found at i:14893131 original size:31 final size:31
Alignment explanation
Indices: 14893095--14893195 Score: 96
Period size: 31 Copynumber: 3.3 Consensus size: 31
14893085 AACAAGTCAA
*
14893095 CGTGTCAAGCCACATATCTGCTTCCACTCAG
1 CGTGTCACGCCACATATCTGCTTCCACTCAG
* * ** * *
14893126 TGTGTCACCCCACA-ATACTGCAACAAATCAG
1 CGTGTCACGCCACATAT-CTGCTTCCACTCAG
* * *
14893157 CGTGTCACGTCACGTATCTGCTTCCACTCAA
1 CGTGTCACGCCACATATCTGCTTCCACTCAG
14893188 CGTGTCAC
1 CGTGTCAC
14893196 CTCACAATAT
Statistics
Matches: 52, Mismatches: 16, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
30 2 0.04
31 48 0.92
32 2 0.04
ACGTcount: A:0.25, C:0.35, G:0.16, T:0.25
Consensus pattern (31 bp):
CGTGTCACGCCACATATCTGCTTCCACTCAG
Found at i:14893162 original size:62 final size:62
Alignment explanation
Indices: 14893085--14893256 Score: 202
Period size: 62 Copynumber: 2.8 Consensus size: 62
14893075 TGAATATTGT
* **
14893085 AACAAGTCAACGTGTCAAGCCACATATCTGCTTCCACTCAGTGTGTCACCCCACAATACTGC
1 AACAAGTCAGCGTGTCAAGCCACATATCTGCTTCCACTCAACGTGTCACCCCACAATACTGC
* * * * * *
14893147 AACAAATCAGCGTGTCACGTCACGTATCTGCTTCCACTCAACGTGTCACCTCACAATATTGC
1 AACAAGTCAGCGTGTCAAGCCACATATCTGCTTCCACTCAACGTGTCACCCCACAATACTGC
* * * * *
14893209 AACAAGTAAGCGTGTCACA-TCATAAATCTTCTTCCACTCAACGTGTCA
1 AACAAGTCAGCGTGTCA-AGCCACATATCTGCTTCCACTCAACGTGTCA
14893257 ACACTATTGA
Statistics
Matches: 93, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
62 93 1.00
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.25
Consensus pattern (62 bp):
AACAAGTCAGCGTGTCAAGCCACATATCTGCTTCCACTCAACGTGTCACCCCACAATACTGC
Found at i:14893223 original size:31 final size:31
Alignment explanation
Indices: 14893127--14893226 Score: 78
Period size: 31 Copynumber: 3.2 Consensus size: 31
14893117 TCCACTCAGT
* * *
14893127 GTGTCACCCCACAATACTGCAACAAATCAGC
1 GTGTCACCTCACAATATTGCAACAAATAAGC
* * ** * *
14893158 GTGTCACGTCAC-GTATCTGCTTCCACTCAA-C
1 GTGTCACCTCACAATAT-TGCAACAAAT-AAGC
*
14893189 GTGTCACCTCACAATATTGCAACAAGTAAGC
1 GTGTCACCTCACAATATTGCAACAAATAAGC
14893220 GTGTCAC
1 GTGTCAC
14893227 ATCATAAATC
Statistics
Matches: 50, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
30 4 0.08
31 42 0.84
32 4 0.08
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.23
Consensus pattern (31 bp):
GTGTCACCTCACAATATTGCAACAAATAAGC
Found at i:14900346 original size:19 final size:19
Alignment explanation
Indices: 14900306--14900347 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
14900296 AGGTCTAAGG
* *
14900306 AATAAATGAATGAGGGTAA
1 AATAAATGAATGAAGATAA
14900325 AATAAATGAA-GAAGATATA
1 AATAAATGAATGAAGATA-A
14900344 AATA
1 AATA
14900348 CTGATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (19 bp):
AATAAATGAATGAAGATAA
Found at i:14901075 original size:2 final size:2
Alignment explanation
Indices: 14901068--14901184 Score: 189
Period size: 2 Copynumber: 58.5 Consensus size: 2
14901058 TATAAGATGC
* * *
14901068 TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA TA TA TA GA TC
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14901110 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
* *
14901152 TA TA TA TA TA CA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14901185 GTTGTATATC
Statistics
Matches: 105, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 105 1.00
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:14901351 original size:37 final size:37
Alignment explanation
Indices: 14901290--14901360 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
14901280 TGGATGATGA
* * * * *
14901290 TATTTTCTGTGCCCGATGTGGGGGATGCACACGACGG
1 TATTTGCTGTGCACAATGTCGGGGATACACACGACGG
14901327 TATTTGCTGTGCACAATGTCGGGGATACACACGA
1 TATTTGCTGTGCACAATGTCGGGGATACACACGA
14901361 TGACTTCAGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (37 bp):
TATTTGCTGTGCACAATGTCGGGGATACACACGACGG
Found at i:14904466 original size:73 final size:73
Alignment explanation
Indices: 14904389--14904546 Score: 169
Period size: 73 Copynumber: 2.2 Consensus size: 73
14904379 GAAATGGGTC
*** *
14904389 AGTCGACTAAGAGC-CTACTGCCAGAAATCT-AGATTTTAAGACAGAAACAACTTAATCGACTAA
1 AGTCGACTAAGAGCTC-ACTGCCAGAAA-CTGAGATCAGAAAACAGAAACAACTTAATCGACTAA
14904452 GAAG-GAAGTT
64 G-AGCGAAGTT
* * * * *
14904462 AGTCGACTAAGTGTTCACTGCCAGAAACTGGGATCAGAAAACAGAAACGACTTAGTCGACTAAGA
1 AGTCGACTAAGAGCTCACTGCCAGAAACTGAGATCAGAAAACAGAAACAACTTAATCGACTAAGA
*
14904527 GCGCAGTT
66 GCGAAGTT
*
14904535 AGTCAACTAAGA
1 AGTCGACTAAGA
14904547 TCATTCGGTC
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
72 4 0.06
73 65 0.93
74 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (73 bp):
AGTCGACTAAGAGCTCACTGCCAGAAACTGAGATCAGAAAACAGAAACAACTTAATCGACTAAGA
GCGAAGTT
Found at i:14905569 original size:86 final size:86
Alignment explanation
Indices: 14905287--14905584 Score: 357
Period size: 86 Copynumber: 3.5 Consensus size: 86
14905277 TGGGACCAAC
* * * * * * **
14905287 ACAAGTCAGCGTGTCACACCATAAATTTGCTTCCACTTAGCGTGTCAACACAATTGAGGCATAAC
1 ACAAGTCAGCGTGTCACGCCATAAATCTGCTTCCACTCAACATGTCAACACAATTGAGGCGTGGC
** ** *
14905352 GTGTCACCTTACAATTTTACA
66 GTGTCACCCCACAATACTGCA
* * *
14905373 ACAAGTTAGCGTGTTACGCCATAAATCTGCTTCCACTCAACATGTCAACACAATTCGTATTG-G-
1 ACAAGTCAGCGTGTCACGCCATAAATCTGCTTCCACTCAACATGTCAACACAATT-G-A-GGCGT
*
14905436 GGTGTGTCACCCCACAATACTGCA
63 GGCGTGTCACCCCACAATACTGCA
* * *
14905460 ACAAGTCAGCGTGTTACGGCATAAATCTGCTTCCACTCAACATGTCAACACAATTGGGGCGTGGC
1 ACAAGTCAGCGTGTCACGCCATAAATCTGCTTCCACTCAACATGTCAACACAATTGAGGCGTGGC
*
14905525 ATGTCACCCCACAATACTGCA
66 GTGTCACCCCACAATACTGCA
*
14905546 ACCAGTCAGCGTGTCACGCCATAAATCTGCTTCCACTCA
1 ACAAGTCAGCGTGTCACGCCATAAATCTGCTTCCACTCA
14905585 GCGTGTAACC
Statistics
Matches: 181, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
84 1 0.01
85 1 0.01
86 107 0.59
87 70 0.39
88 1 0.01
89 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (86 bp):
ACAAGTCAGCGTGTCACGCCATAAATCTGCTTCCACTCAACATGTCAACACAATTGAGGCGTGGC
GTGTCACCCCACAATACTGCA
Found at i:14909508 original size:31 final size:31
Alignment explanation
Indices: 14909353--14909510 Score: 185
Period size: 31 Copynumber: 5.1 Consensus size: 31
14909343 TTGTTACATG
* * *
14909353 CCATGCATAT-AACGTAAAATGTTGTAATACG
1 CCATGCATATCAA-GTCAAATGTTGTAACACA
* *
14909384 CCATGCATAT-AATGTAAAATGTTGTAACACG
1 CCATGCATATCAA-GTCAAATGTTGTAACACA
14909415 CCATGCATATCAAGTCAAATGTTGTAACACA
1 CCATGCATATCAAGTCAAATGTTGTAACACA
* * * *
14909446 CCATGCGTATCAAGGCCAATGTTGTAGCACA
1 CCATGCATATCAAGTCAAATGTTGTAACACA
* *
14909477 CCATGCATATCAAGTCAAATTTTGTTACACA
1 CCATGCATATCAAGTCAAATGTTGTAACACA
14909508 CCA
1 CCA
14909511 ACGCTGACAC
Statistics
Matches: 112, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
31 110 0.98
32 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (31 bp):
CCATGCATATCAAGTCAAATGTTGTAACACA
Found at i:14909966 original size:63 final size:64
Alignment explanation
Indices: 14909851--14909979 Score: 179
Period size: 63 Copynumber: 2.0 Consensus size: 64
14909841 GATAGACCAC
* * *
14909851 AGCTCGATGACGATGGTGCTCAACAGAAAGTTGACAGAGCACATACAGTTCAGAAAGCTGATAG
1 AGCTCGATGACGATGGTGCTCAACAGAAAGTTGACAGAGCACAGACAATTCAGAAAGCTGAGAG
* *** *
14909915 AGCT-GATGACGATGGTGCTCAACAGAGAGTTGACAGAGTTGAGACAATTCAGAGAGCTGAGAG
1 AGCTCGATGACGATGGTGCTCAACAGAAAGTTGACAGAGCACAGACAATTCAGAAAGCTGAGAG
14909978 AG
1 AG
14909980 AAAGATGAGC
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
63 53 0.93
64 4 0.07
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (64 bp):
AGCTCGATGACGATGGTGCTCAACAGAAAGTTGACAGAGCACAGACAATTCAGAAAGCTGAGAG
Found at i:14912482 original size:7 final size:7
Alignment explanation
Indices: 14912467--14912594 Score: 81
Period size: 7 Copynumber: 18.6 Consensus size: 7
14912457 TTCCTTTTCC
14912467 TTTTC-T
1 TTTTCTT
*
14912473 TTTT-TG
1 TTTTCTT
14912479 TTTTCTT
1 TTTTCTT
14912486 TTTTCTT
1 TTTTCTT
14912493 TTTTCTT
1 TTTTCTT
14912500 TTTTCTT
1 TTTTCTT
14912507 TTTAT-TT
1 TTT-TCTT
**
14912514 GCTT-TT
1 TTTTCTT
*
14912520 TTTTCCT
1 TTTTCTT
* *
14912527 CTCTCTT
1 TTTTCTT
14912534 TATTTC--
1 T-TTTCTT
14912540 TTTTCTT
1 TTTTCTT
*
14912547 TCTTCTT
1 TTTTCTT
*
14912554 TTGTCCTT
1 TT-TTCTT
*
14912562 TTGTCCTT
1 TT-TTCTT
14912570 TTTTCTT
1 TTTTCTT
14912577 TCTTT-TT
1 T-TTTCTT
14912584 TTTTCTT
1 TTTTCTT
14912591 TTTT
1 TTTT
14912595 AATGCCTAAC
Statistics
Matches: 96, Mismatches: 16, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
5 4 0.04
6 17 0.18
7 54 0.56
8 21 0.22
ACGTcount: A:0.02, C:0.17, G:0.03, T:0.78
Consensus pattern (7 bp):
TTTTCTT
Found at i:14912502 original size:8 final size:8
Alignment explanation
Indices: 14912461--14912594 Score: 57
Period size: 8 Copynumber: 16.5 Consensus size: 8
14912451 CAATCATTCC
*
14912461 TTTTCCTT
1 TTTTTCTT
14912469 TTCTTT-TT
1 TT-TTTCTT
14912477 TGTTTTC-T
1 T-TTTTCTT
14912485 TTTTTC-T
1 TTTTTCTT
14912492 TTTTTC-T
1 TTTTTCTT
14912499 TTTTTCTTT
1 TTTTTC-TT
14912508 TTATTTGCTT
1 TT-TTT-CTT
*
14912518 TTTTT-TCC
1 TTTTTCT-T
* *
14912526 TCTCTCTT
1 TTTTTCTT
*
14912534 TATTTCTT
1 TTTTTCTT
14912542 TTCTTTCTT
1 TT-TTTCTT
*
14912551 CTTTTGTCCT
1 -TTTT-TCTT
* *
14912561 TTTGTCCT
1 TTTTTCTT
14912569 TTTTTC-T
1 TTTTTCTT
*
14912576 TTCTT-TT
1 TTTTTCTT
14912583 TTTTTCTT
1 TTTTTCTT
14912591 TTTT
1 TTTT
14912595 AATGCCTAAC
Statistics
Matches: 99, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
7 30 0.30
8 35 0.35
9 21 0.21
10 12 0.12
11 1 0.01
ACGTcount: A:0.01, C:0.18, G:0.03, T:0.78
Consensus pattern (8 bp):
TTTTTCTT
Found at i:14912522 original size:26 final size:26
Alignment explanation
Indices: 14912467--14912521 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
14912457 TTCCTTTTCC
* * *
14912467 TTTTCTTTTTTGTTTTCTTTTTTCTT
1 TTTTCTTTTTTCTTTTCTATTTGCTT
14912493 TTTTCTTTTTTCTTTT-TATTTGCTT
1 TTTTCTTTTTTCTTTTCTATTTGCTT
14912518 TTTT
1 TTTT
14912522 TTCCTCTCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.84
Consensus pattern (26 bp):
TTTTCTTTTTTCTTTTCTATTTGCTT
Found at i:14912554 original size:12 final size:12
Alignment explanation
Indices: 14912461--14912594 Score: 75
Period size: 12 Copynumber: 11.4 Consensus size: 12
14912451 CAATCATTCC
*
14912461 TTTTCCTTTTCT
1 TTTTTCTTTTCT
*
14912473 TTTTTGTTTTCT
1 TTTTTCTTTTCT
14912485 TTTTTCTTTTTTCT
1 TTTTTC--TTTTCT
14912499 TTTTTCTTTT-T
1 TTTTTCTTTTCT
* *
14912510 ATTTGC-TTT-T
1 TTTTTCTTTTCT
* *
14912520 TTTTCCTCTCTCT
1 TTTTTCT-TTTCT
14912533 TTATTTCTTTTCT
1 TT-TTTCTTTTCT
* *
14912546 TTCTTCTTTTGT
1 TTTTTCTTTTCT
** * *
14912558 CCTTT-TGTCCT
1 TTTTTCTTTTCT
14912569 TTTTTC-TTTC-
1 TTTTTCTTTTCT
14912579 TTTTT-TTTTCT
1 TTTTTCTTTTCT
14912590 TTTTT
1 TTTTT
14912595 AATGCCTAAC
Statistics
Matches: 91, Mismatches: 22, Indels: 19
0.69 0.17 0.14
Matches are distributed among these distances:
10 17 0.19
11 18 0.20
12 31 0.34
13 9 0.10
14 16 0.18
ACGTcount: A:0.01, C:0.18, G:0.03, T:0.78
Consensus pattern (12 bp):
TTTTTCTTTTCT
Found at i:14913508 original size:18 final size:18
Alignment explanation
Indices: 14913487--14913526 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
14913477 GTATATACGT
*
14913487 TTAAACACGATAACACGA
1 TTAAACACGATAACACAA
*
14913505 TTAAACATGATAACACAA
1 TTAAACACGATAACACAA
14913523 TTAA
1 TTAA
14913527 GTAAACATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.17, G:0.07, T:0.23
Consensus pattern (18 bp):
TTAAACACGATAACACAA
Found at i:14917742 original size:29 final size:26
Alignment explanation
Indices: 14917687--14917747 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
14917677 ACCATATACC
*
14917687 CATAATCATCATGCACACCATCCCAT
1 CATAATCATCATACACACCATCCCAT
*
14917713 CATAATTATCATACACACCATCCCAT
1 CATAATCATCATACACACCATCCCAT
*
14917739 CATCATCAT
1 CATAATCAT
14917748 TCCCAGCTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.36, G:0.02, T:0.26
Consensus pattern (26 bp):
CATAATCATCATACACACCATCCCAT
Found at i:14917805 original size:43 final size:43
Alignment explanation
Indices: 14917757--14917909 Score: 209
Period size: 43 Copynumber: 3.6 Consensus size: 43
14917747 TTCCCAGCTC
**
14917757 ATGCGCACTCCCTACTCGCACATGGCTAGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAACTAGGTCATCACCGGGTT
*
14917800 ATGCGCACTCGCTACTCGCACATAACTAGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAACTAGGTCATCACCGGGTT
* * * **
14917843 ATGCGCACTCCCTCCTCGCACATAAC-CGAGTCATCATCGACTT
1 ATGCGCACTCCCTACTCGCACATAACTAG-GTCATCACCGGGTT
*
14917886 ATGCGCACTCCCTACTCTCACATA
1 ATGCGCACTCCCTACTCGCACATA
14917910 GCCAAGTCAA
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 1 0.01
43 97 0.99
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACTAGGTCATCACCGGGTT
Found at i:14927309 original size:34 final size:35
Alignment explanation
Indices: 14927259--14927332 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
14927249 ACTTGTAATG
* * *
14927259 TTTAAGTTGTTGTTTG-AATATTTGTTTTT-AGTTA
1 TTTAAGTTGATATTTGAAATATTTATTTTTGA-TTA
14927293 TTTAAGTTGATATTTGAAATATTTATTTTTGATTA
1 TTTAAGTTGATATTTGAAATATTTATTTTTGATTA
14927328 TTTAA
1 TTTAA
14927333 ATTTAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
34 14 0.40
35 20 0.57
36 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.59
Consensus pattern (35 bp):
TTTAAGTTGATATTTGAAATATTTATTTTTGATTA
Found at i:14937424 original size:29 final size:29
Alignment explanation
Indices: 14937369--14937425 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
14937359 TCCCTGACCC
*
14937369 CAGCTGCCGACTGACCACGCCACGCTCGT
1 CAGCTGCCGACTGACCACGCCAAGCTCGT
**
14937398 CAGCTGCCGACCT-ACCATTCCAAGCTCG
1 CAGCTGCCGA-CTGACCACGCCAAGCTCG
14937426 GGTACTTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.19, C:0.44, G:0.21, T:0.16
Consensus pattern (29 bp):
CAGCTGCCGACTGACCACGCCAAGCTCGT
Found at i:14938776 original size:30 final size:30
Alignment explanation
Indices: 14938740--14938822 Score: 148
Period size: 30 Copynumber: 2.8 Consensus size: 30
14938730 GGTCAAAATA
* *
14938740 TTTCCAACAGAAAATTCCGTTGGTAATATT
1 TTTCCAACGGAAATTTCCGTTGGTAATATT
14938770 TTTCCAACGGAAATTTCCGTTGGTAATATT
1 TTTCCAACGGAAATTTCCGTTGGTAATATT
14938800 TTTCCAACGGAAATTTCCGTTGG
1 TTTCCAACGGAAATTTCCGTTGG
14938823 AAATGCCACA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (30 bp):
TTTCCAACGGAAATTTCCGTTGGTAATATT
Found at i:14939069 original size:12 final size:11
Alignment explanation
Indices: 14939031--14939069 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
14939021 TTCTGTTGGA
14939031 AATTTCCAACG
1 AATTTCCAACG
14939042 AATTTCCAACG
1 AATTTCCAACG
*
14939053 AATTTCTAACAG
1 AATTTCCAAC-G
14939065 AATTT
1 AATTT
14939070 TCCGTTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 20 0.77
12 6 0.23
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (11 bp):
AATTTCCAACG
Found at i:14939180 original size:15 final size:15
Alignment explanation
Indices: 14939160--14939195 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
14939150 TCCGTTAGAA
14939160 ATGTTGAACTTTTAC
1 ATGTTGAACTTTTAC
14939175 ATGTTGAACTTTTAC
1 ATGTTGAACTTTTAC
14939190 ATGTTG
1 ATGTTG
14939196 GAGTTCAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.47
Consensus pattern (15 bp):
ATGTTGAACTTTTAC
Found at i:14942163 original size:21 final size:21
Alignment explanation
Indices: 14942136--14942184 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
14942126 TTAGGCATTA
14942136 CGTGACTGACTTTGGATATTG
1 CGTGACTGACTTTGGATATTG
* *
14942157 TGTGACTGACTTTGGGTATTG
1 CGTGACTGACTTTGGATATTG
14942178 CGTGACT
1 CGTGACT
14942185 AATTTTTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.16, C:0.14, G:0.31, T:0.39
Consensus pattern (21 bp):
CGTGACTGACTTTGGATATTG
Found at i:14942237 original size:26 final size:26
Alignment explanation
Indices: 14942174--14942505 Score: 277
Period size: 26 Copynumber: 13.5 Consensus size: 26
14942164 GACTTTGGGT
*
14942174 ATTGCGTGACTAATTTTTGATAAGGC
1 ATTGCGTGACTAGTTTTTGATAAGGC
** * *
14942200 ATTGCGCAACTAGTTTCTGATAAGGT
1 ATTGCGTGACTAGTTTTTGATAAGGC
14942226 ATTGCGTGACTAG---TTGAT-AGGC
1 ATTGCGTGACTAGTTTTTGATAAGGC
** *
14942248 ATTGCGTGACT-GACTTTG----GAC
1 ATTGCGTGACTAGTTTTTGATAAGGC
* ** * *
14942269 ATTGTGTGGTTAGTTTTTTATAAAGC
1 ATTGCGTGACTAGTTTTTGATAAGGC
*
14942295 ATTGCGTGACTAGTTTCTGATAAGGC
1 ATTGCGTGACTAGTTTTTGATAAGGC
* * *
14942321 ATTGCATGACTA---ATCGAT-AGGC
1 ATTGCGTGACTAGTTTTTGATAAGGC
**
14942343 ATTGCGTGACTA--ACTT--T-AGGC
1 ATTGCGTGACTAGTTTTTGATAAGGC
**
14942364 ATTGCGTGACTAGTTTTTGATAAGAT
1 ATTGCGTGACTAGTTTTTGATAAGGC
* * *
14942390 ATTACGTGACCAATTTTTGATAAGGC
1 ATTGCGTGACTAGTTTTTGATAAGGC
* **
14942416 ATTGCGTGACTAGTTTCTGATAAATC
1 ATTGCGTGACTAGTTTTTGATAAGGC
*
14942442 ATTGCGTGACTAGTTTTTGATAAAGC
1 ATTGCGTGACTAGTTTTTGATAAGGC
*
14942468 ATTACGTGACTAGTTTTTGATAAGGC
1 ATTGCGTGACTAGTTTTTGATAAGGC
14942494 ATTGCGTGACTA
1 ATTGCGTGACTA
14942506 ACTAATAGGC
Statistics
Matches: 241, Mismatches: 51, Indels: 28
0.75 0.16 0.09
Matches are distributed among these distances:
21 28 0.12
22 33 0.14
23 10 0.04
24 3 0.01
25 1 0.00
26 166 0.69
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (26 bp):
ATTGCGTGACTAGTTTTTGATAAGGC
Found at i:14942262 original size:95 final size:95
Alignment explanation
Indices: 14942153--14942505 Score: 364
Period size: 95 Copynumber: 3.6 Consensus size: 95
14942143 GACTTTGGAT
* * * **
14942153 ATTGTGTGACTGACTTTGGGTATTGCGTGACTAATTTTTGATAAGGCATTGCGCAACTAGTTTCT
1 ATTGCGTGACTGACTTTGGGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAGTTTCT
*
14942218 GATAAGGTATTGCGTGACTAGTTGATAGGC
66 GATAAGGCATTGCGTGACTAGTTGATAGGC
* * ** * *
14942248 ATTGCGTGACTGACTTTGGACATTGTGTGGTTAGTTTTTTATAAAGCATTGCGTGACTAGTTTCT
1 ATTGCGTGACTGACTTTGGGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAGTTTCT
* * *
14942313 GATAAGGCATTGCATGACTAATCGATAGGC
66 GATAAGGCATTGCGTGACTAGTTGATAGGC
* * ** * * * *
14942343 ATTGCGTGACTAACTTTAGGCATTGCGTGACTAGTTTTTGATAAGATATTACGTGACCAATTTTT
1 ATTGCGTGACTGACTTTGGGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAGTTTCT
**
14942408 GATAAGGCATTGCGTGACTAGTTTCTGATAAATC
66 GATAAGGCATTGCGTGACTAG--T-TGAT-AGGC
** * *
14942442 ATTGCGTGACTAGTTTTTGATAAAGCATTACGTGACTAGTTTTTGATAAGGCATTGCGTGACTA
1 ATTGCGTGACT-GACTTTG----GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTA
14942506 ACTAATAGGC
Statistics
Matches: 205, Mismatches: 44, Indels: 9
0.79 0.17 0.03
Matches are distributed among these distances:
95 150 0.73
97 1 0.00
98 3 0.01
99 13 0.06
100 3 0.01
104 35 0.17
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.37
Consensus pattern (95 bp):
ATTGCGTGACTGACTTTGGGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAGTTTCT
GATAAGGCATTGCGTGACTAGTTGATAGGC
Found at i:14942364 original size:21 final size:22
Alignment explanation
Indices: 14942293--14942375 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 22
14942283 TTTTTATAAA
*
14942293 GCATTGCGTGACTAGTTTCTGATAAG
1 GCATTGCGTGACTA--ATC-GAT-AG
*
14942319 GCATTGCATGACTAATCGATAG
1 GCATTGCGTGACTAATCGATAG
**
14942341 GCATTGCGTGACTAA-CTTTAG
1 GCATTGCGTGACTAATCGATAG
14942362 GCATTGCGTGACTA
1 GCATTGCGTGACTA
14942376 GTTTTTGATA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.35
22 16 0.31
23 3 0.06
24 2 0.04
26 13 0.25
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (22 bp):
GCATTGCGTGACTAATCGATAG
Found at i:14942546 original size:23 final size:23
Alignment explanation
Indices: 14942488--14942596 Score: 121
Period size: 23 Copynumber: 4.8 Consensus size: 23
14942478 TAGTTTTTGA
*** *
14942488 TAAGGCATTGCGTGACTAACTAA
1 TAAGGCATTGCGTGACTTGTTAG
*
14942511 T-AGGCATTACGTGACTTGTTAG
1 TAAGGCATTGCGTGACTTGTTAG
* *
14942533 TAAGACATTGCGTGACTTATTAG
1 TAAGGCATTGCGTGACTTGTTAG
* *
14942556 TAAGGCATTGTGTGACTAGTTAG
1 TAAGGCATTGCGTGACTTGTTAG
*
14942579 TAAGGCATTGTGTGACTT
1 TAAGGCATTGCGTGACTT
14942597 AGGCATTGCT
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
22 17 0.24
23 55 0.76
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.34
Consensus pattern (23 bp):
TAAGGCATTGCGTGACTTGTTAG
Found at i:14942572 original size:46 final size:45
Alignment explanation
Indices: 14942466--14942597 Score: 147
Period size: 46 Copynumber: 2.8 Consensus size: 45
14942456 TTTTGATAAA
* *
14942466 GCATTACGTGACTAGTTTTTGATAAGGCATTGCGTGACTAACTAATAG
1 GCATTACGTGACTAG--TTAG-TAAGGCATTGCGTGACTTACTAATAG
* * * *
14942514 GCATTACGTGACTTGTTAGTAAGACATTGCGTGACTTATTAGTAAG
1 GCATTACGTGACTAGTTAGTAAGGCATTGCGTGACTTACTAAT-AG
** *
14942560 GCATTGTGTGACTAGTTAGTAAGGCATTGTGTGACTTA
1 GCATTACGTGACTAGTTAGTAAGGCATTGCGTGACTTA
14942598 GGCATTGCTT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
45 20 0.28
46 38 0.53
48 14 0.19
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (45 bp):
GCATTACGTGACTAGTTAGTAAGGCATTGCGTGACTTACTAATAG
Found at i:14942653 original size:22 final size:21
Alignment explanation
Indices: 14942628--14942676 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
14942618 CACGCAATGT
14942628 CTAAACACTAGTCATGTAATAC
1 CTAAA-ACTAGTCATGTAATAC
* * *
14942650 CTAAAACCAATCATGTAATGC
1 CTAAAACTAGTCATGTAATAC
14942671 CTAAAA
1 CTAAAA
14942677 ACTGTCACAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.24
Consensus pattern (21 bp):
CTAAAACTAGTCATGTAATAC
Found at i:14943849 original size:17 final size:17
Alignment explanation
Indices: 14943827--14943862 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
14943817 TCTACGCACT
14943827 TATGTCATGATAAAAAA
1 TATGTCATGATAAAAAA
14943844 TATGTCATGATAAAAAA
1 TATGTCATGATAAAAAA
14943861 TA
1 TA
14943863 CTGATGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.11, T:0.31
Consensus pattern (17 bp):
TATGTCATGATAAAAAA
Found at i:14944711 original size:24 final size:23
Alignment explanation
Indices: 14944675--14944730 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
14944665 ATCACTAACT
* * * *
14944675 TTAATTTTTTATATAATTTTTTG
1 TTAAATTTTTATACAATTGTTTA
14944698 TTAAAATTTTTATACAATTGTTTA
1 TT-AAATTTTTATACAATTGTTTA
14944722 TTAAATTTT
1 TTAAATTTT
14944731 ACACACCCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (23 bp):
TTAAATTTTTATACAATTGTTTA
Found at i:14961064 original size:5 final size:5
Alignment explanation
Indices: 14961054--14961199 Score: 97
Period size: 5 Copynumber: 28.4 Consensus size: 5
14961044 TTTTTAATAA
* *
14961054 TTTAT TTTAT TTTAT GCTAAT TTTAT ATTTA- TTTAT TTTAT TTTAAT
1 TTTAT TTTAT TTTAT -TTTAT TTTAT -TTTAT TTTAT TTTAT TTT-AT
* * * *
14961101 TATTA- TTTAT ATATAT TTTA- TATAT TCTATT NTTTTT TTTAT TTTATT
1 T-TTAT TTTAT -TTTAT TTTAT TTTAT TTTA-T -TTTAT TTTAT TTTA-T
*
14961149 TTTAT TTTTT TTTAT TTTAT ATTTA- -TTAT TTTAT TTTAT TATTA- TTTAT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTAT TTTAT TTTAT T-TTAT TTTAT
14961198 TT
1 TT
14961200 AATATTTTTA
Statistics
Matches: 112, Mismatches: 13, Indels: 32
0.71 0.08 0.20
Matches are distributed among these distances:
3 3 0.03
4 13 0.12
5 63 0.56
6 29 0.26
7 4 0.04
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:14961088 original size:4 final size:4
Alignment explanation
Indices: 14961079--14961200 Score: 50
Period size: 4 Copynumber: 31.5 Consensus size: 4
14961069 GCTAATTTTA
* * * *
14961079 TATT TATT TATTT TATTT TAAT TA-T TATT TATA TATA T-TT TATA TATT
1 TATT TATT TA-TT TA-TT TATT TATT TATT TATT TATT TATT TATT TATT
* *
14961127 CTATT NT-TT TTTT TATT T-TAT T-TT TATT T-TT T-TT TATT T-TA TATT
1 -TATT -TATT TATT TATT TAT-T TATT TATT TATT TATT TATT TATT TATT
14961172 TA-T TATTT TATT T-TAT TA-T TATT TATT TA
1 TATT TA-TT TATT TAT-T TATT TATT TATT TA
14961201 ATATTTTTAT
Statistics
Matches: 95, Mismatches: 9, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
3 24 0.25
4 54 0.57
5 17 0.18
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:14961156 original size:19 final size:19
Alignment explanation
Indices: 14961134--14961200 Score: 80
Period size: 19 Copynumber: 3.4 Consensus size: 19
14961124 ATTCTATTNT
14961134 TTTTTTTATTTTATTTTTA
1 TTTTTTTATTTTATTTTTA
*
14961153 TTTTTTTTTATTTTATATTTA
1 --TTTTTTTATTTTATTTTTA
* *
14961174 TTATTTTATTTTATTATTA
1 TTTTTTTATTTTATTTTTA
*
14961193 TTTATTTA
1 TTTTTTTA
14961201 ATATTTTTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
19 22 0.55
21 18 0.45
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTTTATTTTATTTTTA
Found at i:14961165 original size:47 final size:45
Alignment explanation
Indices: 14961085--14961214 Score: 135
Period size: 44 Copynumber: 2.9 Consensus size: 45
14961075 TTTATATTTA
* *
14961085 TTTATTTTATTTTAATTATTATTTATATATATTTTATATATTCTATTNT
1 TTTATTTTATTTT-ATTTTTATTTATATATA-TTT-TATATT-TATTAT
* * *
14961134 TTT-TTTTATTTTATTTTTATTTTTTTTTATTTTATATTTATTAT
1 TTTATTTTATTTTATTTTTATTTATATATATTTTATATTTATTAT
14961178 TTTATTTTA--TTATTATTTATTTA-ATAT-TTTTATATTT
1 TTTATTTTATTTTATT-TTTATTTATATATATTTTATATTT
14961215 TTGTAAGATA
Statistics
Matches: 71, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
42 10 0.14
43 7 0.10
44 15 0.21
45 11 0.15
46 3 0.04
47 13 0.18
48 9 0.13
49 3 0.04
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.74
Consensus pattern (45 bp):
TTTATTTTATTTTATTTTTATTTATATATATTTTATATTTATTAT
Found at i:14961184 original size:40 final size:41
Alignment explanation
Indices: 14961073--14961214 Score: 135
Period size: 40 Copynumber: 3.3 Consensus size: 41
14961063 TTTTATGCTA
14961073 ATTTTATATTTATTTATTTTATTTTAATTATTATTTATATATATTTT
1 ATTTTATATTTA-TTATTTTATTTT-ATTATTA-TT-TAT-T-TTTT
* * *
14961120 ATATATTCTATTNT-TTTTTTTATTTTATTTTTATTT-TTTTTT
1 AT-T-TTATATT-TATTATTTTATTTTATTATTATTTATTTTTT
**
14961162 ATTTTATATTTATTATTTTATTTTATTATTATTTATTTAAT
1 ATTTTATATTTATTATTTTATTTTATTATTATTTATTTTTT
14961203 ATTTTTATATTT
1 A-TTTTATATTT
14961215 TTGTAAGATA
Statistics
Matches: 81, Mismatches: 8, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
39 1 0.01
40 26 0.32
41 6 0.07
42 16 0.20
43 1 0.01
44 1 0.01
45 1 0.01
46 2 0.02
47 8 0.10
48 12 0.15
49 6 0.07
50 1 0.01
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.73
Consensus pattern (41 bp):
ATTTTATATTTATTATTTTATTTTATTATTATTTATTTTTT
Found at i:14961200 original size:14 final size:14
Alignment explanation
Indices: 14961010--14961210 Score: 79
Period size: 14 Copynumber: 14.4 Consensus size: 14
14961000 TTAGATTAAG
*
14961010 ATTTATTTATTTTT
1 ATTTATTTATTATT
* * *
14961024 AGTTATTTTTTGTT
1 ATTTATTTATTATT
*
14961038 AGTTTATTT-TTAATA
1 A-TTTATTTATT-ATT
14961053 ATTTATTTTATT-TT
1 ATTTA-TTTATTATT
* *
14961067 ATGCTAATT-TTA-T
1 AT-TTATTTATTATT
14961080 ATTTATTTATT-TT
1 ATTTATTTATTATT
*
14961093 ATTTTAATTATTATTT
1 A-TTTATTTATTA-TT
*
14961109 ATATATATT-TTATAT
1 ATTTAT-TTATTAT-T
14961124 ATTCTATTNT-TT-TT
1 ATT-TATT-TATTATT
*
14961138 -TTTATTTTATTTTT
1 ATTTA-TTTATTATT
*
14961152 ATTT-TTTTTTATT
1 ATTTATTTATTATT
14961165 -TTATATTTATTA-T
1 ATT-TATTTATTATT
14961178 -TTTATTTTATTATT
1 ATTTA-TTTATTATT
*
14961192 ATTTATTTAATATT
1 ATTTATTTATTATT
14961206 -TTTAT
1 ATTTAT
14961211 ATTTTTGTAA
Statistics
Matches: 144, Mismatches: 19, Indels: 49
0.68 0.09 0.23
Matches are distributed among these distances:
12 11 0.08
13 38 0.26
14 51 0.35
15 31 0.22
16 13 0.09
ACGTcount: A:0.25, C:0.01, G:0.02, T:0.72
Consensus pattern (14 bp):
ATTTATTTATTATT
Found at i:14961208 original size:68 final size:68
Alignment explanation
Indices: 14961073--14961210 Score: 151
Period size: 68 Copynumber: 2.0 Consensus size: 68
14961063 TTTTATGCTA
* *
14961073 ATTTTATATTTATTTATTTTATTTTAATTATTATTTATATATATTTTATATATTCTATTNTTTTT
1 ATTTTATATTTATTTATTTTATTTTAATTATTATTTATATATATTTTATATATTCTATTATTATT
14961138 TTT
66 TTT
* *
14961141 ATTTTATTTTTATTTTTTTTTATTTTATATTTATTATTT-TAT-T-TTATTAT-TATT-TATTTA
1 ATTTTATATTTA-TTTATTTTATTTTA-A-TTATTATTTATATATATT-TTATATATTCTA-TTA
*
14961201 ATATTTTT
61 TTATTTTT
14961209 AT
1 AT
14961211 ATTTTTGTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
67 2 0.03
68 27 0.45
69 18 0.30
70 4 0.07
71 9 0.15
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.73
Consensus pattern (68 bp):
ATTTTATATTTATTTATTTTATTTTAATTATTATTTATATATATTTTATATATTCTATTATTATT
TTT
Found at i:14961214 original size:35 final size:35
Alignment explanation
Indices: 14961135--14961215 Score: 110
Period size: 34 Copynumber: 2.3 Consensus size: 35
14961125 TTCTATTNTT
* * *
14961135 TTTTTTATTTTATTTTTATTTTTTTTTATTTTATA
1 TTTTTTATTTTATTTTTATTATTATTTATTTAATA
*
14961170 TTTATTATTTTA-TTTTATTATTATTTATTTAATA
1 TTTTTTATTTTATTTTTATTATTATTTATTTAATA
14961204 TTTTTATATTTT
1 TTTTT-TATTTT
14961216 TGTAAGATAC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 23 0.57
35 17 0.43
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (35 bp):
TTTTTTATTTTATTTTTATTATTATTTATTTAATA
Found at i:14962426 original size:35 final size:35
Alignment explanation
Indices: 14962387--14962481 Score: 163
Period size: 35 Copynumber: 2.7 Consensus size: 35
14962377 CTTACTCAAC
14962387 TCATGTGCACTCCCTACACACACAAGGCAATATCA
1 TCATGTGCACTCCCTACACACACAAGGCAATATCA
* *
14962422 TCATGTGCACTCCCTATACACACAAGGTAATATCA
1 TCATGTGCACTCCCTACACACACAAGGCAATATCA
14962457 TCATGTGCACTCCCTACACCACACA
1 TCATGTGCACTCCCTACA-CACACA
14962482 CCACCGGCAC
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 50 0.89
36 6 0.11
ACGTcount: A:0.33, C:0.35, G:0.11, T:0.22
Consensus pattern (35 bp):
TCATGTGCACTCCCTACACACACAAGGCAATATCA
Found at i:14962507 original size:37 final size:37
Alignment explanation
Indices: 14962461--14962549 Score: 171
Period size: 37 Copynumber: 2.4 Consensus size: 37
14962451 ATATCATCAT
14962461 GTGCACTCCCTACACCACACACCACCGGCACAGTCAC
1 GTGCACTCCCTACACCACACACCACCGGCACAGTCAC
14962498 GTGCACTCCCTACACCACACACCACCGGCACAGTCAC
1 GTGCACTCCCTACACCACACACCACCGGCACAGTCAC
14962535 GTGCACTCCC-ACACC
1 GTGCACTCCCTACACC
14962550 GCACGTGCAC
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 5 0.10
37 47 0.90
ACGTcount: A:0.26, C:0.49, G:0.13, T:0.11
Consensus pattern (37 bp):
GTGCACTCCCTACACCACACACCACCGGCACAGTCAC
Found at i:14965066 original size:2 final size:2
Alignment explanation
Indices: 14965059--14965083 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14965049 TGATTTTCTA
14965059 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
14965084 AATTATATAC
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:14965661 original size:2 final size:2
Alignment explanation
Indices: 14965654--14965709 Score: 58
Period size: 2 Copynumber: 28.0 Consensus size: 2
14965644 GAACCAAGTG
* * * * *
14965654 TA TA TA TA CA TA TA TA CA TA TA TA CA TA TG TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
14965696 TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA
14965710 ATGTTTCCAA
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:14965690 original size:16 final size:16
Alignment explanation
Indices: 14965654--14965709 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
14965644 GAACCAAGTG
*
14965654 TATATATACATATATA
1 TATATATACATATGTA
*
14965670 CATATATACATATGTA
1 TATATATACATATGTA
* *
14965686 TATATGTATATATGTA
1 TATATATACATATGTA
14965702 TATATATA
1 TATATATA
14965710 ATGTTTCCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (16 bp):
TATATATACATATGTA
Found at i:14966296 original size:55 final size:55
Alignment explanation
Indices: 14966210--14966400 Score: 250
Period size: 55 Copynumber: 3.6 Consensus size: 55
14966200 CAACCACCGG
* * * *
14966210 TCATCAGCTCATGTGCACTCCCACACCGCACATAACTGGAATCATCATCCTTCGA
1 TCATCAGCTCATGTGCACTCCCACACTGCACATAGCTGGAATCATCACCCATCGA
* * *
14966265 TCATCAGCTCATGTGCACTCCCACACTGCACATGGTTGGAATCATCACCCATCGG
1 TCATCAGCTCATGTGCACTCCCACACTGCACATAGCTGGAATCATCACCCATCGA
14966320 TCATCAGCTCATGTGCACTCCCACACTGCACATAGCTGG-A--ATCACCCATC-A
1 TCATCAGCTCATGTGCACTCCCACACTGCACATAGCTGGAATCATCACCCATCGA
* * *
14966371 TCA-CCG-GCATGTGCACTCCCACACCGCACA
1 TCATCAGCTCATGTGCACTCCCACACTGCACA
14966401 CGCGCGGTTA
Statistics
Matches: 123, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
49 22 0.18
50 2 0.02
51 3 0.02
52 10 0.08
54 1 0.01
55 85 0.69
ACGTcount: A:0.26, C:0.38, G:0.15, T:0.21
Consensus pattern (55 bp):
TCATCAGCTCATGTGCACTCCCACACTGCACATAGCTGGAATCATCACCCATCGA
Found at i:14985580 original size:9 final size:10
Alignment explanation
Indices: 14985553--14985585 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
14985543 TCTTTTCCAG
14985553 CTCTCTTTTT
1 CTCTCTTTTT
14985563 CTCTCTTTTT
1 CTCTCTTTTT
*
14985573 C-CTTTTTTT
1 CTCTCTTTTT
14985582 CTCT
1 CTCT
14985586 TCTTCTCCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
CTCTCTTTTT
Found at i:14986974 original size:19 final size:19
Alignment explanation
Indices: 14986952--14986991 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
14986942 TGGTAAGGTA
*
14986952 AAAATGGCGTGGGAGCATG
1 AAAATGGCATGGGAGCATG
14986971 AAAATGGCATGGGAGCATG
1 AAAATGGCATGGGAGCATG
14986990 AA
1 AA
14986992 GGAGAAAAAG
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:0.38, C:0.10, G:0.38, T:0.15
Consensus pattern (19 bp):
AAAATGGCATGGGAGCATG
Found at i:14987672 original size:40 final size:40
Alignment explanation
Indices: 14987622--14987701 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
14987612 TACAATAACT
* *
14987622 TTTCATAAAGTCTTTGTCATTTCAAGGTTAAAGTACAATC
1 TTTCACAAAGTCTTTGTCATTTCAAGATTAAAGTACAATC
**
14987662 TTTCACAAAGTCTTTGTTTTTTCAAGATTAAAGTACAATC
1 TTTCACAAAGTCTTTGTCATTTCAAGATTAAAGTACAATC
14987702 CTTTTACCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (40 bp):
TTTCACAAAGTCTTTGTCATTTCAAGATTAAAGTACAATC
Found at i:15001368 original size:43 final size:42
Alignment explanation
Indices: 15001238--15001370 Score: 196
Period size: 42 Copynumber: 3.1 Consensus size: 42
15001228 TTATGTGATA
*
15001238 ATGATGACCTAGCTATGTGC-GTGTGGAAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGGTG-GGAAGTGCACATGAGCTG
* *
15001280 ATGATGACCCAGCTATGTGCGGTGTGAAGTGCACATGAGTTG
1 ATGATGACCCAGCTATGTGCGGTGGGAAGTGCACATGAGCTG
* *
15001322 ATGATGACCCAACTATGTGCGAGTGGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCG-GTGGGAAGTGCACATGAGCTG
15001365 ATGATG
1 ATGATG
15001371 GTGGGATGGT
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
42 55 0.67
43 27 0.33
ACGTcount: A:0.25, C:0.17, G:0.34, T:0.25
Consensus pattern (42 bp):
ATGATGACCCAGCTATGTGCGGTGGGAAGTGCACATGAGCTG
Found at i:15001406 original size:2 final size:2
Alignment explanation
Indices: 15001399--15001439 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
15001389 TGATGTGTAT
*
15001399 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15001440 GTGTGTTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:15001931 original size:19 final size:19
Alignment explanation
Indices: 15001907--15001946 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
15001897 GGGTTTTAAA
15001907 GAGAAACCCTCGGCCAGTT
1 GAGAAACCCTCGGCCAGTT
* *
15001926 GAGAAACCCTTGTCCAGTT
1 GAGAAACCCTCGGCCAGTT
15001945 GA
1 GA
15001947 TAATTTGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.20
Consensus pattern (19 bp):
GAGAAACCCTCGGCCAGTT
Found at i:15007854 original size:28 final size:28
Alignment explanation
Indices: 15007816--15007889 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
15007806 AATTTAGTGT
*
15007816 GTTAAATGTATTCATCCATTTATGAC-GG
1 GTTAAAAGTATTCATCCATTTAT-ACTGG
*
15007844 GTTAAAAGTATTCATCCATTTCTACTGG
1 GTTAAAAGTATTCATCCATTTATACTGG
*
15007872 GTTAAAAGTATTTATCCA
1 GTTAAAAGTATTCATCCA
15007890 CTTGCTACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
27 2 0.05
28 40 0.95
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (28 bp):
GTTAAAAGTATTCATCCATTTATACTGG
Found at i:15007916 original size:16 final size:17
Alignment explanation
Indices: 15007895--15007933 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
15007885 ATCCACTTGC
*
15007895 TACAAA-ATAGATATCA
1 TACAAATATAAATATCA
*
15007911 TACAAATTTAAATATCA
1 TACAAATATAAATATCA
15007928 TACAAA
1 TACAAA
15007934 GTCAATTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.56, C:0.13, G:0.03, T:0.28
Consensus pattern (17 bp):
TACAAATATAAATATCA
Found at i:15008143 original size:60 final size:60
Alignment explanation
Indices: 15008077--15008194 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
15008067 TGCTCAACCT
* *
15008077 GATTTAATAAATCAAGGGACAAAATATGA-TATATACTACATCATAGCAAATTCACATTCC
1 GATTTAATAAATCAAGAGACAAAATAT-ATTACATACTACATCATAGCAAATTCACATTCC
*
15008137 GATTTAATAAATCAAGAGACAAAATATATTACATACTACATGATAGCAAATTCACATT
1 GATTTAATAAATCAAGAGACAAAATATATTACATACTACATCATAGCAAATTCACATT
15008195 AAAGTTCATT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 1 0.02
60 53 0.98
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (60 bp):
GATTTAATAAATCAAGAGACAAAATATATTACATACTACATCATAGCAAATTCACATTCC
Found at i:15010579 original size:17 final size:18
Alignment explanation
Indices: 15010534--15010573 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
15010524 AGGATTCTAA
*
15010534 AAAAAAGAAAAAATCTTG
1 AAAAAAGAAAAAATCTGG
15010552 AAAAAAGAAAAAATCTGG
1 AAAAAAGAAAAAATCTGG
15010570 AAAA
1 AAAA
15010574 TAAAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.70, C:0.05, G:0.12, T:0.12
Consensus pattern (18 bp):
AAAAAAGAAAAAATCTGG
Found at i:15018207 original size:18 final size:20
Alignment explanation
Indices: 15018166--15018207 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
15018156 AGCAGAACGC
*
15018166 TCTTAGTCGACTAACTTATG
1 TCTTAGTCGACTAACGTATG
15018186 TCTTAGTCGACTAA-GT-TG
1 TCTTAGTCGACTAACGTATG
15018204 TCTT
1 TCTT
15018208 TGTTTTCTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 1 0.05
20 14 0.67
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (20 bp):
TCTTAGTCGACTAACGTATG
Found at i:15028826 original size:27 final size:28
Alignment explanation
Indices: 15028778--15028832 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
15028768 GACAAGTGTT
* *
15028778 GGGTGGTGCAAAATTACAATTTTGCCCTC
1 GGGTGGT-CAAAATGACAATTTTACCCTC
*
15028807 GGGTGGT-AAAATGACCATTTTACCCT
1 GGGTGGTCAAAATGACAATTTTACCCT
15028833 TACGTCATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 16 0.70
29 7 0.30
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (28 bp):
GGGTGGTCAAAATGACAATTTTACCCTC
Found at i:15031013 original size:19 final size:18
Alignment explanation
Indices: 15030986--15031028 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
15030976 GAAATTCCTG
*
15030986 TTTTTTTTACATT-TATGA
1 TTTTTTTTA-ATTCTAGGA
15031004 TTTTTGTTTAATTCTAGGA
1 TTTTT-TTTAATTCTAGGA
15031023 TTTTTT
1 TTTTTT
15031029 AAGGGCTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.19, C:0.05, G:0.09, T:0.67
Consensus pattern (18 bp):
TTTTTTTTAATTCTAGGA
Found at i:15043055 original size:2 final size:2
Alignment explanation
Indices: 15043048--15043074 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15043038 TTGGATGTTT
15043048 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
15043075 GCTTTCCAAA
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:15046310 original size:15 final size:14
Alignment explanation
Indices: 15046285--15046328 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
15046275 TGGAAGCTAG
15046285 TTAGGAAAATAACT
1 TTAGGAAAATAACT
* *
15046299 TTTGGAAAAATATTCT
1 TTAGG-AAAATA-ACT
15046315 TTAGGAAAATAACT
1 TTAGGAAAATAACT
15046329 AATCAAATGG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 6 0.25
15 12 0.50
16 6 0.25
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (14 bp):
TTAGGAAAATAACT
Found at i:15050189 original size:16 final size:16
Alignment explanation
Indices: 15050167--15050205 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
15050157 AGAAGCAAGA
*
15050167 AAAAAAACAAAGAAAAG
1 AAAAAAA-AAACAAAAG
15050184 AAAAAAAAAACAAAAG
1 AAAAAAAAAACAAAAG
15050200 AAAAAA
1 AAAAAA
15050206 GAGAAAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.87, C:0.05, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAACAAAAG
Found at i:15050212 original size:21 final size:21
Alignment explanation
Indices: 15050163--15050212 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
15050153 AGAGAGAAGC
15050163 AAGAAAAAAAACAAAGAAAAG
1 AAGAAAAAAAACAAAGAAAAG
15050184 AA-AAAAAAAACAAAAGAAAA-
1 AAGAAAAAAAAC-AAAGAAAAG
*
15050204 AAGAGAAAA
1 AAGAAAAAA
15050213 GAAGAAGTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (21 bp):
AAGAAAAAAAACAAAGAAAAG
Found at i:15050669 original size:2 final size:2
Alignment explanation
Indices: 15050662--15050690 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15050652 ATAATAATTA
15050662 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15050691 AAGAAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15050747 original size:2 final size:2
Alignment explanation
Indices: 15050742--15050776 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
15050732 TATTAAAATA
15050742 AT AT AT AT AT AT AT A- AT AT A- AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15050777 AAGAAAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:15050764 original size:20 final size:20
Alignment explanation
Indices: 15050739--15050777 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
15050729 AAATATTAAA
15050739 ATAATATATATATATATAAT
1 ATAATATATATATATATAAT
15050759 ATAATATATATATATATAA
1 ATAATATATATATATATAA
15050778 AGAAAGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAATATATATATATATAAT
Found at i:15053449 original size:105 final size:104
Alignment explanation
Indices: 15053267--15053475 Score: 355
Period size: 105 Copynumber: 2.0 Consensus size: 104
15053257 TGACAAGTTG
** *
15053267 GATAGTACTATATTAGCCATGTTATGCTGTCGAAATTTTATTGATTTGGTGGGTTATGTATTTAG
1 GATAGTACTATATTAGCCATGTTATGCTACCAAAATTTTATTGATTTGGTGGGTTATGTATTTAG
15053332 CTTACTGCAGTGGGCGGGTTTCCGTGGACCAGCCTATTA
66 CTTACTGCAGTGGGCGGGTTTCCGTGGACCAGCCTATTA
15053371 NGATAGTACTATATTAGCCATGTTATGCTACCAAAATTTTATTGATTTGGTGGGTTATGTATTTA
1 -GATAGTACTATATTAGCCATGTTATGCTACCAAAATTTTATTGATTTGGTGGGTTATGTATTTA
* * *
15053436 GCTTACTGTAGTGGGCGGGTTTTCGTGGATCAGCCTATTA
65 GCTTACTGCAGTGGGCGGGTTTCCGTGGACCAGCCTATTA
15053476 AAAGGGCACG
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
105 98 1.00
ACGTcount: A:0.22, C:0.13, G:0.25, T:0.39
Consensus pattern (104 bp):
GATAGTACTATATTAGCCATGTTATGCTACCAAAATTTTATTGATTTGGTGGGTTATGTATTTAG
CTTACTGCAGTGGGCGGGTTTCCGTGGACCAGCCTATTA
Found at i:15068195 original size:20 final size:20
Alignment explanation
Indices: 15068169--15068214 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
15068159 AATCTTACAT
* *
15068169 TTTTTCACTTGTTTCCTTGAA
1 TTTTACACTT-TTCCCTTGAA
15068190 TTTTCACACTTTTCCCTTGAA
1 TTTT-ACACTTTTCCCTTGAA
15068211 TTTT
1 TTTT
15068215 TCCACATAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.15, C:0.22, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTACACTTTTCCCTTGAA
Found at i:15068216 original size:22 final size:22
Alignment explanation
Indices: 15068174--15068214 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
15068164 TACATTTTTT
*
15068174 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
15068196 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
15068215 TCCACATAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:15072964 original size:42 final size:42
Alignment explanation
Indices: 15072905--15073022 Score: 173
Period size: 42 Copynumber: 2.8 Consensus size: 42
15072895 ATTGACCCGA
* * * ***
15072905 CTATGTGCGAGTAGGAGTGCACATAAGCTGTTGCTGACTTGG
1 CTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTAACCCAG
*
15072947 CTATGTGCGAGTGGGAGTGCACATAAGCCGTTACTAACCCAG
1 CTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTAACCCAG
15072989 CTATGTGCGAGTGGGAGTGCACATAAGCCGTTGC
1 CTATGTGCGAGTGGGAGTGCACATAAGCCGTTGC
15073023 ATATGAGATG
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (42 bp):
CTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTAACCCAG
Found at i:15073076 original size:2 final size:2
Alignment explanation
Indices: 15073069--15073102 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
15073059 ATGATGATTG
* *
15073069 AT AT AT AT AT AT AT AT AT AT TT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15073103 GGTATATGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15076042 original size:22 final size:21
Alignment explanation
Indices: 15076000--15076064 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 21
15075990 TTACATTAGT
15076000 ATCAGAGCTTTTGGTTTAAAG
1 ATCAGAGCTTTTGGTTTAAAG
*
15076021 ATTAGAGCTTTTGGTTTTAAAG
1 ATCAGAGCTTTTGG-TTTAAAG
15076043 ATCAGAGCTTTTGGGTTTAAAG
1 ATCAGAGCTTTT-GGTTTAAAG
15076065 TTGTTTTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
21 13 0.32
22 25 0.62
23 2 0.05
ACGTcount: A:0.28, C:0.08, G:0.25, T:0.40
Consensus pattern (21 bp):
ATCAGAGCTTTTGGTTTAAAG
Found at i:15081988 original size:20 final size:19
Alignment explanation
Indices: 15081963--15082001 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
15081953 GTGGTTTTAT
15081963 CCATTTTGTG-TATTTATGG
1 CCATTTTGTGAT-TTTATGG
15081982 NCCATTTTGTGATTTTATGG
1 -CCATTTTGTGATTTTATGG
15082002 AAAATGAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.15, C:0.10, G:0.21, T:0.51
Consensus pattern (19 bp):
CCATTTTGTGATTTTATGG
Found at i:15093952 original size:40 final size:40
Alignment explanation
Indices: 15093905--15094009 Score: 192
Period size: 40 Copynumber: 2.6 Consensus size: 40
15093895 GATAGTGCCC
*
15093905 ATGTGCACGATGTGGGGGGATGCACCTGATGACTCCGGTT
1 ATGTGCACGATGTGGGGGGATGCACCTGATGACTCCAGTT
*
15093945 ATTTGCACGATGTGGGGGGATGCACCTGATGACTCCAGTT
1 ATGTGCACGATGTGGGGGGATGCACCTGATGACTCCAGTT
15093985 ATGTGCACGATGTGGGGGGATGCAC
1 ATGTGCACGATGTGGGGGGATGCAC
15094010 ATGAGCTAGA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.19, C:0.19, G:0.37, T:0.25
Consensus pattern (40 bp):
ATGTGCACGATGTGGGGGGATGCACCTGATGACTCCAGTT
Found at i:15098314 original size:31 final size:31
Alignment explanation
Indices: 15098262--15098329 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
15098252 ATTGGAATTA
* *
15098262 AAGAAATG-TTGGAAGGACCAAATTGTAAAG
1 AAGAAAAGTTTGGAAGGACCAAATGGTAAAG
* *
15098292 AATGAAAAGTTTGGGAGG-CCAAATGGTAAAT
1 AA-GAAAAGTTTGGAAGGACCAAATGGTAAAG
15098323 AAGAAAA
1 AAGAAAA
15098330 AGTTGGAGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 7 0.22
31 18 0.56
32 7 0.22
ACGTcount: A:0.49, C:0.06, G:0.26, T:0.19
Consensus pattern (31 bp):
AAGAAAAGTTTGGAAGGACCAAATGGTAAAG
Found at i:15098333 original size:31 final size:32
Alignment explanation
Indices: 15098270--15098329 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
15098260 TAAAGAAATG
*
15098270 TTGGAAGGACCAAATTGTAAAGAATGAAAAGT
1 TTGGAAGGACCAAATGGTAAAGAATGAAAAGT
* *
15098302 TTGGGAGG-CCAAATGGTAAATAA-GAAAA
1 TTGGAAGGACCAAATGGTAAAGAATGAAAA
15098330 AGTTGGAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 5 0.20
31 13 0.52
32 7 0.28
ACGTcount: A:0.47, C:0.07, G:0.27, T:0.20
Consensus pattern (32 bp):
TTGGAAGGACCAAATGGTAAAGAATGAAAAGT
Found at i:15098837 original size:22 final size:22
Alignment explanation
Indices: 15098812--15098853 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
15098802 TAAGTGGAAA
15098812 TTAA-AGGAGATGAAATGAAATG
1 TTAATAGG-GATGAAATGAAATG
*
15098834 TTAATTGGGATGAAATGAAA
1 TTAATAGGGATGAAATGAAA
15098854 GGAAATGTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (22 bp):
TTAATAGGGATGAAATGAAATG
Found at i:15099012 original size:13 final size:13
Alignment explanation
Indices: 15098994--15099019 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15098984 TTCCACCCGA
15098994 GAAGAAAAAAAAG
1 GAAGAAAAAAAAG
15099007 GAAGAAAAAAAAG
1 GAAGAAAAAAAAG
15099020 AGAAAAAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
GAAGAAAAAAAAG
Found at i:15103818 original size:10 final size:10
Alignment explanation
Indices: 15103803--15103827 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15103793 GGTGTTTATC
15103803 TATGTATATA
1 TATGTATATA
15103813 TATGTATATA
1 TATGTATATA
15103823 TATGT
1 TATGT
15103828 TTATGAAATA
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:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (10 bp):
TATGTATATA
Found at i:15106454 original size:22 final size:22
Alignment explanation
Indices: 15106412--15106459 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
15106402 TGTGTCACTT
**
15106412 TCCATTTGTTTTTAAAATTTCA
1 TCCATTTGTTTCCAAAATTTCA
*
15106434 TCCATTTGTTTCCAAATTTTCA
1 TCCATTTGTTTCCAAAATTTCA
15106456 -CCAT
1 TCCAT
15106460 ACACTTGTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.25, C:0.21, G:0.04, T:0.50
Consensus pattern (22 bp):
TCCATTTGTTTCCAAAATTTCA
Found at i:15118308 original size:28 final size:28
Alignment explanation
Indices: 15118277--15118380 Score: 138
Period size: 28 Copynumber: 3.7 Consensus size: 28
15118267 AGTGCACCAT
15118277 AAACTCATGGTTTTAATGGGTTCATCAC
1 AAACTCATGGTTTTAATGGGTTCATCAC
* **
15118305 AAACCCATGGTTTTAATAAGTTCATCAC
1 AAACTCATGGTTTTAATGGGTTCATCAC
* *
15118333 AAAC-CTAAGGTTTTAATGGGTTCACCAC
1 AAACTC-ATGGTTTTAATGGGTTCATCAC
15118361 AAACTCATGGTTTTTAATGG
1 AAACTCATGG-TTTTAATGG
15118381 AATCACCACA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
27 1 0.02
28 54 0.83
29 10 0.15
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (28 bp):
AAACTCATGGTTTTAATGGGTTCATCAC
Found at i:15118313 original size:56 final size:56
Alignment explanation
Indices: 15118253--15118374 Score: 165
Period size: 56 Copynumber: 2.2 Consensus size: 56
15118243 GGTTCAACCA
* * *
15118253 CCATGGTTTTAACAAGTGCACCATAAA-CTCATGGTTTTAATGGGTTCATCACAAAC
1 CCATGGTTTTAACAAGTGCACCACAAACCT-AAGGTTTTAATGGGTTCACCACAAAC
* * *
15118309 CCATGGTTTTAATAAGTTCATCACAAACCTAAGGTTTTAATGGGTTCACCACAAAC
1 CCATGGTTTTAACAAGTGCACCACAAACCTAAGGTTTTAATGGGTTCACCACAAAC
*
15118365 TCATGGTTTT
1 CCATGGTTTT
15118375 TAATGGAATC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
56 56 0.97
57 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (56 bp):
CCATGGTTTTAACAAGTGCACCACAAACCTAAGGTTTTAATGGGTTCACCACAAAC
Found at i:15118386 original size:29 final size:28
Alignment explanation
Indices: 15118271--15118393 Score: 108
Period size: 28 Copynumber: 4.4 Consensus size: 28
15118261 TTAACAAGTG
* **
15118271 CACCATAAACTCATGGTTTTAATGGGTT
1 CACCACAAACTCATGGTTTTAATGGAAT
* *
15118299 CATCACAAACCCATGGTTTTAAT--AAGTT
1 CACCACAAACTCATGGTTTTAATGGAA--T
* * **
15118327 CATCACAAAC-CTAAGGTTTTAATGGGTT
1 CACCACAAACTC-ATGGTTTTAATGGAAT
15118355 CACCACAAACTCATGGTTTTTAATGGAAT
1 CACCACAAACTCATGG-TTTTAATGGAAT
15118384 CACCACAAAC
1 CACCACAAAC
15118394 CTATACTAAC
Statistics
Matches: 76, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
27 1 0.01
28 54 0.71
29 21 0.28
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (28 bp):
CACCACAAACTCATGGTTTTAATGGAAT
Found at i:15119931 original size:19 final size:18
Alignment explanation
Indices: 15119898--15119940 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
15119888 AGGTGAGAAA
*
15119898 AATAATTTAGAATAAAAT
1 AATATTTTAGAATAAAAT
*
15119916 ATTATTTTATGAATAAAAT
1 AATATTTTA-GAATAAAAT
15119935 AATATT
1 AATATT
15119941 AAAATATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
AATATTTTAGAATAAAAT
Found at i:15120309 original size:2 final size:2
Alignment explanation
Indices: 15120302--15120343 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
15120292 AGTTACTAAA
*
15120302 AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT A- AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15120341 AT A
1 AT A
15120344 GGAAGAAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:15123458 original size:43 final size:43
Alignment explanation
Indices: 15123387--15123556 Score: 234
Period size: 43 Copynumber: 4.0 Consensus size: 43
15123377 TTTTGTGTGA
**
15123387 TAATGATGACCCAGCTATGTGCAATGTGGGAGTGCACATGAGC
1 TAATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGC
*
15123430 TAATGATGACCCAGCTATATGCGGTGTGGGAGTGCACATGAGC
1 TAATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGC
* * *
15123473 TGATGATGACCTAGCTATGTGCGGTGTGGGAGTGCACATGAGT
1 TAATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGC
* * * *
15123516 TGATGATGACCCGGCTATGTGCGAGT-AGGGAGGGCACATGA
1 TAATGATGACCCAGCTATGTGCG-GTGTGGGAGTGCACATGA
15123557 TGATGATATT
Statistics
Matches: 115, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
43 113 0.98
44 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.35, T:0.24
Consensus pattern (43 bp):
TAATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGC
Found at i:15129019 original size:73 final size:72
Alignment explanation
Indices: 15128883--15129020 Score: 206
Period size: 73 Copynumber: 1.9 Consensus size: 72
15128873 ATTACATAGC
* * *
15128883 CATAGTCGACCTTGACAAGTCAAAAGGCAAGAAAAGTCAAGATTAAATAGCCATAGTCGACTATA
1 CATAGTCGACCTTGACAAGTCAAAAGGCAAAAAAAATCAAGATTAAACAGCCATAGTCGACTATA
15128948 AAAGAGG
66 AAAGAGG
* *
15128955 CATAGTCGACCTTGACAAGTC-AAAGGCCAAAAAAAAATCAAGATTACACAGCCATTGTCGACTA
1 CATAGTCGACCTTGACAAGTCAAAAGG-C-AAAAAAAATCAAGATTAAACAGCCATAGTCGACTA
15129019 TA
64 TA
15129021 GAGGAAGCAT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
71 5 0.08
72 22 0.37
73 32 0.54
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (72 bp):
CATAGTCGACCTTGACAAGTCAAAAGGCAAAAAAAATCAAGATTAAACAGCCATAGTCGACTATA
AAAGAGG
Found at i:15129046 original size:73 final size:72
Alignment explanation
Indices: 15128883--15129046 Score: 161
Period size: 73 Copynumber: 2.3 Consensus size: 72
15128873 ATTACATAGC
* * * * * *
15128883 CATAGTCGACCTTGACAAGTCAAAAGGCAAGAAAAGTCAAGATTAAATAGCCATAGTCGACTATA
1 CATAGTCCAACTTAACAAGTCAAAAGGCAAAAAAAATCAAGATTAAACAGCCATAGTCGACTATA
*
15128948 AAAGAGG
66 AAAGAAG
* * * * *
15128955 CATAGTCGACCTTGACAAGTC-AAAGGCCAAAAAAAAATCAAGATTACACAGCCATTGTCGACTA
1 CATAGTCCAACTTAACAAGTCAAAAGG-C-AAAAAAAATCAAGATTAAACAGCCATAGTCGACTA
* *
15129019 TAGAGGAAG
64 TAAAAGAAG
15129028 CATAG-CCAACTATAACAAG
1 CATAGTCCAACT-TAACAAG
15129047 CTAAATTTGC
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
71 5 0.06
72 26 0.33
73 47 0.60
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.18
Consensus pattern (72 bp):
CATAGTCCAACTTAACAAGTCAAAAGGCAAAAAAAATCAAGATTAAACAGCCATAGTCGACTATA
AAAGAAG
Found at i:15135634 original size:15 final size:15
Alignment explanation
Indices: 15135614--15135665 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
15135604 TTATAAAATG
15135614 ATAAAAAGCTACATA
1 ATAAAAAGCTACATA
*
15135629 ATAAAAAGCTACATG
1 ATAAAAAGCTACATA
* *
15135644 ACAAAAAGCTAAATA
1 ATAAAAAGCTACATA
*
15135659 AGAAAAA
1 ATAAAAA
15135666 AGACAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.63, C:0.12, G:0.10, T:0.15
Consensus pattern (15 bp):
ATAAAAAGCTACATA
Found at i:15144766 original size:17 final size:17
Alignment explanation
Indices: 15144741--15144775 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15144731 CTATTTATAT
*
15144741 GTGATTATTCAAATTAA
1 GTGACTATTCAAATTAA
*
15144758 GTGACTATTCAGATTAA
1 GTGACTATTCAAATTAA
15144775 G
1 G
15144776 ACATCACTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (17 bp):
GTGACTATTCAAATTAA
Found at i:15144903 original size:23 final size:24
Alignment explanation
Indices: 15144855--15144906 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
15144845 ATTTCAACAA
*
15144855 ACACATCTCTTAAAAATTAATAAG
1 ACACATCTCTTAAAAATAAATAAG
* *
15144879 ACACATCTGTT-AAAATAAATTAG
1 ACACATCTCTTAAAAATAAATAAG
15144902 ACACA
1 ACACA
15144907 ACTTTTCAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.27
Consensus pattern (24 bp):
ACACATCTCTTAAAAATAAATAAG
Found at i:15149987 original size:2 final size:2
Alignment explanation
Indices: 15149980--15150079 Score: 143
Period size: 2 Copynumber: 51.0 Consensus size: 2
15149970 ATCAAGAGAT
* * *
15149980 TA TA TA TA TA TA TA TA TA TA TA TA TA TA NA TA -A GA GGA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
15150021 TA TA TA TA TA TA TA TA T- 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
15150062 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
15150080 ATACAAATAT
Statistics
Matches: 91, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
1 3 0.03
2 86 0.95
3 2 0.02
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:15154951 original size:52 final size:52
Alignment explanation
Indices: 15154871--15154981 Score: 177
Period size: 52 Copynumber: 2.1 Consensus size: 52
15154861 TGGAGTTCTA
* * * *
15154871 GTCATTATCCGTGGATGAGTTTTGCTGGATTGAACAATTGCTGTAGGTCCTT
1 GTCATTATCCATGGATCAGTTTTGCTGGACTGAACAATTACTGTAGGTCCTT
*
15154923 GTCATTATCCATGGATCAGTTTTTCTGGACTGAACAATTACTGTAGGTCCTT
1 GTCATTATCCATGGATCAGTTTTGCTGGACTGAACAATTACTGTAGGTCCTT
15154975 GTCATTA
1 GTCATTA
15154982 ATAGTTTTCT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.39
Consensus pattern (52 bp):
GTCATTATCCATGGATCAGTTTTGCTGGACTGAACAATTACTGTAGGTCCTT
Found at i:15162634 original size:14 final size:14
Alignment explanation
Indices: 15162615--15162641 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15162605 ATATTATATA
15162615 TTTTATTTTAATTT
1 TTTTATTTTAATTT
15162629 TTTTATTTTAATT
1 TTTTATTTTAATT
15162642 ATAACGTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTATTTTAATTT
Found at i:15165539 original size:16 final size:15
Alignment explanation
Indices: 15165513--15165542 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15165503 GTGTGTAAAA
15165513 TTATTTTAAATATTT
1 TTATTTTAAATATTT
15165528 TTATTATTAAATATT
1 TTATT-TTAAATATT
15165543 AATAATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATTTTAAATATTT
Found at i:15165572 original size:25 final size:27
Alignment explanation
Indices: 15165520--15165579 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
15165510 AAATTATTTT
15165520 AAATATTTTTATTATTAAATATTAATAA
1 AAAT-TTTTTATTATTAAATATTAATAA
*
15165548 TAATTTTTTAATT-TTAAATA-T-ATAA
1 AAATTTTTT-ATTATTAAATATTAATAA
15165573 AAATTTT
1 AAATTTT
15165580 AATTGCATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 10 0.34
26 1 0.03
27 12 0.41
28 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
AAATTTTTTATTATTAAATATTAATAA
Found at i:15165800 original size:17 final size:17
Alignment explanation
Indices: 15165749--15165801 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
15165739 GTTGAAACAT
* *
15165749 TAATTTTCTTTTAAATA
1 TAATTATCTTTTAATTA
15165766 TAATTAT-TTTTCAATTA
1 TAATTATCTTTT-AATTA
* *
15165783 TAATTGTCTTTTATTTA
1 TAATTATCTTTTAATTA
15165800 TA
1 TA
15165802 GACAATTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 4 0.13
17 22 0.73
18 4 0.13
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (17 bp):
TAATTATCTTTTAATTA
Found at i:15171274 original size:19 final size:18
Alignment explanation
Indices: 15171238--15171276 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
15171228 ACTTTGTTTG
* *
15171238 TTTTCTTTTCCTTTCTTT
1 TTTTCTTTTCCCTCCTTT
15171256 TTTTCCTTTTCCCTCCTTT
1 TTTT-CTTTTCCCTCCTTT
15171275 TT
1 TT
15171277 GAAAAACATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTCTTTTCCCTCCTTT
Found at i:15174619 original size:19 final size:19
Alignment explanation
Indices: 15174595--15174632 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
15174585 ACTTCTTAAC
15174595 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
*
15174614 CTCAAATCATACTCTAATA
1 CTCAAATCATACTCCAATA
15174633 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:15175176 original size:30 final size:30
Alignment explanation
Indices: 15175140--15175204 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
15175130 AAATCAAGTG
*
15175140 AAACCCATGGTTTTTAATGGATTCAACCAC
1 AAACCCAAGGTTTTTAATGGATTCAACCAC
*
15175170 AAACCCAAGGTTTTTAATGGGTTCAACCAC
1 AAACCCAAGGTTTTTAATGGATTCAACCAC
15175200 AAACC
1 AAACC
15175205 TACACTAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (30 bp):
AAACCCAAGGTTTTTAATGGATTCAACCAC
Found at i:15176632 original size:21 final size:21
Alignment explanation
Indices: 15176606--15176649 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
15176596 AAAGGGATCT
15176606 ATCGATAGATGCCTCTTATCC
1 ATCGATAGATGCCTCTTATCC
15176627 ATCGATAGATGCCTCTTATCC
1 ATCGATAGATGCCTCTTATCC
15176648 AT
1 AT
15176650 GTAAAAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (21 bp):
ATCGATAGATGCCTCTTATCC
Found at i:15179455 original size:46 final size:43
Alignment explanation
Indices: 15179404--15179556 Score: 145
Period size: 43 Copynumber: 3.5 Consensus size: 43
15179394 AATGTTATGT
15179404 GATGATGATGACCCAGCTATGTGCGATGTGGGAGTGCACATGAG
1 GATGATGATGACCCAGCTATGTGCGATGTGGGAGTGCACAT-AG
* * * *
15179448 G-TGATGATGACTC-GACTATGTGCGAAT-AGGGAGTGCGCATAA
1 GATGATGATGACCCAG-CTATGTGCG-ATGTGGGAGTGCACATAG
* *
15179490 GATGATGATGACCCGGCTATGTGCGA-GTAGGGATTG-AGCATAAG
1 GATGATGATGACCCAGCTATGTGCGATGT-GGGAGTGCA-CAT-AG
15179534 CCGATGATGATGACCCAGCTATG
1 --GATGATGATGACCCAGCTATG
15179557 ACGATGAATG
Statistics
Matches: 89, Mismatches: 10, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
42 4 0.04
43 60 0.67
44 5 0.06
46 20 0.22
ACGTcount: A:0.27, C:0.16, G:0.34, T:0.23
Consensus pattern (43 bp):
GATGATGATGACCCAGCTATGTGCGATGTGGGAGTGCACATAG
Found at i:15186455 original size:73 final size:73
Alignment explanation
Indices: 15186344--15186515 Score: 227
Period size: 73 Copynumber: 2.4 Consensus size: 73
15186334 CAAGAAATGG
* * * * *
15186344 GTTAATCGACTAAGAGCCTATTGCCAGAAATCTGGACTTCAAGACAAAACCAACTTAATCGACCA
1 GTTAGTCGACTAAGAGCTTACTGCCAGAAATCTGGACTTCAAGACAAAAACAACTCAATCGACCA
*
15186409 AGAAGTAA
66 AGAAGGAA
* * * *
15186417 GTTAGTCGACTAAGAGCTTACTGCTAGATATTTGGACTTCAAGACAAAAACAACTCAATCGACTA
1 GTTAGTCGACTAAGAGCTTACTGCCAGAAATCTGGACTTCAAGACAAAAACAACTCAATCGACCA
15186482 AGAAGGAA
66 AGAAGGAA
* * *
15186490 GTTAGTCGATTAAGTGCTCACTGCCA
1 GTTAGTCGACTAAGAGCTTACTGCCA
15186516 TTAACTGGGA
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
73 85 1.00
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (73 bp):
GTTAGTCGACTAAGAGCTTACTGCCAGAAATCTGGACTTCAAGACAAAAACAACTCAATCGACCA
AGAAGGAA
Found at i:15187031 original size:35 final size:35
Alignment explanation
Indices: 15186987--15187055 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
15186977 AGTTAGTTTG
* * *
15186987 GGTTTTGGTTGATCTTGGAAAAAACCATTGTAAAA
1 GGTTGTGGTTGAGCTTGCAAAAAACCATTGTAAAA
* *
15187022 GGTTGTGGTTGAGCTTGCTAAAAGCCATTGTAAA
1 GGTTGTGGTTGAGCTTGCAAAAAACCATTGTAAA
15187056 GCTTGGTGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.33
Consensus pattern (35 bp):
GGTTGTGGTTGAGCTTGCAAAAAACCATTGTAAAA
Found at i:15193804 original size:2 final size:2
Alignment explanation
Indices: 15193797--15193842 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
15193787 CATTATGATG
15193797 AT AT AT 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 AT AT AT
15193839 AT AT
1 AT AT
15193843 GTTGTGCATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15194003 original size:38 final size:40
Alignment explanation
Indices: 15193960--15194065 Score: 128
Period size: 38 Copynumber: 2.7 Consensus size: 40
15193950 ATAATGCCCG
*
15193960 TGTGCACGATGTGGGGGGATGTACACT-ATGGC-ACTGAT-
1 TGTGCACGATGTGGGGGGATGTACA-TGATGGCGACGGATA
* * *
15193998 TGTGCACGATGTGGGGGGATGCACATGATGGCGCCGGCTA
1 TGTGCACGATGTGGGGGGATGTACATGATGGCGACGGATA
* *
15194038 TGTGCACGATGTGTGGGAATGTACATGA
1 TGTGCACGATGTGGGGGGATGTACATGA
15194066 GCCGGGTGTG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
37 1 0.02
38 29 0.50
39 3 0.05
40 25 0.43
ACGTcount: A:0.21, C:0.16, G:0.39, T:0.25
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACATGATGGCGACGGATA
Found at i:15199500 original size:42 final size:42
Alignment explanation
Indices: 15199440--15199552 Score: 154
Period size: 42 Copynumber: 2.7 Consensus size: 42
15199430 TATTGACCCA
* * *
15199440 GCTATGTGCGAGTAGGAGTGTGCATAAGCCGATGCCGATTCG
1 GCTATGTGCGAGTGGGAGTGTACATAAGCCGATGCCGACTCG
* * **
15199482 GCTATGTGCGAGTGGGAGTGTACATAAGTCGTTGTTGACTCG
1 GCTATGTGCGAGTGGGAGTGTACATAAGCCGATGCCGACTCG
*
15199524 GCTATGTGCGAGTGGGAGTGCACATAAGC
1 GCTATGTGCGAGTGGGAGTGTACATAAGC
15199553 AGATCCATAT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.21, C:0.17, G:0.36, T:0.26
Consensus pattern (42 bp):
GCTATGTGCGAGTGGGAGTGTACATAAGCCGATGCCGACTCG
Found at i:15199604 original size:2 final size:2
Alignment explanation
Indices: 15199599--15199646 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
15199589 ATGATGATTG
15199599 AT AT AT 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 AT AT AT
15199641 AT AT AT
1 AT AT AT
15199647 GGTATATGGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15205320 original size:73 final size:73
Alignment explanation
Indices: 15205188--15205323 Score: 177
Period size: 73 Copynumber: 1.9 Consensus size: 73
15205178 GAGTATTGAG
* * ** * *
15205188 AGACAAAAAAGACTTAGTCGACCAAGGAATGGGTTAGTCGACTAAGAAGCTACTTCCAGAAATCT
1 AGACAAAAAAGACTTAGTCAACCAAGAAATAAGTTAGTCGACTAAGAAGCCACTGCCAGAAATCT
15205253 GGACTTCA
66 GGACTTCA
*
15205261 AGACAAAACAA-ACTTAGTCAACCAAGAAATAAGTTAGTCGACTAAG-TGCCCACTGCCAGAAAT
1 AGACAAAA-AAGACTTAGTCAACCAAGAAATAAGTTAGTCGACTAAGAAG-CCACTGCCAGAAAT
15205324 TGAAAATAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
72 1 0.02
73 51 0.94
74 2 0.04
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (73 bp):
AGACAAAAAAGACTTAGTCAACCAAGAAATAAGTTAGTCGACTAAGAAGCCACTGCCAGAAATCT
GGACTTCA
Found at i:15207334 original size:69 final size:69
Alignment explanation
Indices: 15207254--15207405 Score: 198
Period size: 69 Copynumber: 2.2 Consensus size: 69
15207244 CCCAGTGGTG
* * *
15207254 TTCTTATCCCCACACCGAAACTCATAAAGAAGGG-AAAAGTGGTATGATGCCCAACTTAACCTTG
1 TTCTTATCCCCACACAGAAACTCAT-AAGAAGGGAAAAAGTGGTATGATGCCCAACCTAACCCTG
15207318 CAGTA
65 CAGTA
* ** * *
15207323 TTCTTATCCCCACATAGGGACTCATAAGGAGGGAAAAAGTGGTATGATGCCCAACCTAACCCTGT
1 TTCTTATCCCCACACAGAAACTCATAAGAAGGGAAAAAGTGGTATGATGCCCAACCTAACCCTGC
*
15207388 GGTA
66 AGTA
*
15207392 TTCTTACCCCCACA
1 TTCTTATCCCCACA
15207406 TCGGAACTAC
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
68 7 0.10
69 65 0.90
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (69 bp):
TTCTTATCCCCACACAGAAACTCATAAGAAGGGAAAAAGTGGTATGATGCCCAACCTAACCCTGC
AGTA
Found at i:15207619 original size:80 final size:80
Alignment explanation
Indices: 15207471--15207662 Score: 215
Period size: 80 Copynumber: 2.4 Consensus size: 80
15207461 ACATTGTGGT
* * * * ** * * *
15207471 ATTCTTACCCCCACATCGGGACTAGAGTTAATATATATAAGGGGAATGGATGGTGTGCTTACTAA
1 ATTCTTACACCCACACCGAGACTAAAGCCAATATATATAAGAGGAATGGATGGTGCGCTCACTAA
*
15207536 TCTCATCCTTATGGA
66 TCTCACCCTTATGGA
* *
15207551 ATTTTTACACCCACACCTAGACTAAAGCCAATATATATAAGAGGAATGGATGGTGCGCTCACCT-
1 ATTCTTACACCCACACCGAGACTAAAGCCAATATATATAAGAGGAATGGATGGTGCGCTCA-CTA
* *
15207615 ATCTCACCCTTGTGGT
65 ATCTCACCCTTATGGA
* * *
15207631 ATTCTTCCCCCCACACCGAGACTAATGCCAAT
1 ATTCTTACACCCACACCGAGACTAAAGCCAAT
15207663 CACAACAAAA
Statistics
Matches: 92, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
80 90 0.98
81 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (80 bp):
ATTCTTACACCCACACCGAGACTAAAGCCAATATATATAAGAGGAATGGATGGTGCGCTCACTAA
TCTCACCCTTATGGA
Found at i:15208752 original size:21 final size:21
Alignment explanation
Indices: 15208726--15208792 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
15208716 AACTGTATCG
15208726 ATACATTATGAACATGCATCA
1 ATACATTATGAACATGCATCA
* ** * **
15208747 ATACATGACCATATAT--ATTG
1 ATACATTATGA-ACATGCATCA
15208767 ATACATTATGAACATGCATCA
1 ATACATTATGAACATGCATCA
15208788 ATACA
1 ATACA
15208793 CGACCATATA
Statistics
Matches: 31, Mismatches: 12, Indels: 6
0.63 0.24 0.12
Matches are distributed among these distances:
19 3 0.10
20 10 0.32
21 15 0.48
22 3 0.10
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (21 bp):
ATACATTATGAACATGCATCA
Found at i:15208833 original size:41 final size:41
Alignment explanation
Indices: 15208721--15208823 Score: 188
Period size: 41 Copynumber: 2.5 Consensus size: 41
15208711 AGAAAAACTG
*
15208721 TATCGATACATTATGAACATGCATCAATACATGACCATATA
1 TATCGATACATTATGAACATGCATCAATACACGACCATATA
*
15208762 TATTGATACATTATGAACATGCATCAATACACGACCATATA
1 TATCGATACATTATGAACATGCATCAATACACGACCATATA
15208803 TATCGATACATTATGAACATG
1 TATCGATACATTATGAACATG
15208824 TATTGATACA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (41 bp):
TATCGATACATTATGAACATGCATCAATACACGACCATATA
Found at i:15209039 original size:16 final size:16
Alignment explanation
Indices: 15209020--15209050 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15209010 ATAAAAATAT
15209020 AAAAAAATCAAAATCC
1 AAAAAAATCAAAATCC
15209036 AAAAAAATCAAAATC
1 AAAAAAATCAAAATC
15209051 TAAATTTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.71, C:0.16, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAAAAATCAAAATCC
Found at i:15210051 original size:49 final size:50
Alignment explanation
Indices: 15209788--15210057 Score: 200
Period size: 49 Copynumber: 5.5 Consensus size: 50
15209778 TTGTTTAGAA
* * * * * * *
15209788 TGGTTCTTCAAAT-CTTCTTTCTTGGACTTGTGGAACTTTGAAGATATTT
1 TGGTTCTTCAGATACTTCCTTCTTGGACTTGTGAAACTTTGTACAGACTT
*** * * * *
15209837 TTAATCTTCAAAT-CTTCCTTCTTGCAATTGT-AGAACTTT-TAGGAGACTT
1 TGGTTCTTCAGATACTTCCTTCTTGGACTTGTGA-AACTTTGTA-CAGACTT
* *
15209886 TGGTTCTTAAGAT-CATT-TTTCTTGGACTTGTGAAACTTTGTATC-GACTT
1 TGGTTCTTCAGATAC-TTCCTTCTTGGACTTGTGAAACTTTGTA-CAGACTT
** * *
15209935 TGGTTCTTCAGA-ACTTTTTTCTTGGACTTATGAAACTTTGTAGAGACTT
1 TGGTTCTTCAGATACTTCCTTCTTGGACTTGTGAAACTTTGTACAGACTT
* * * * *
15209984 TAGTTCTTCA-AAACTTCCTTCTTGGACTTGTGAAAATTTGGACAGAATT
1 TGGTTCTTCAGATACTTCCTTCTTGGACTTGTGAAACTTTGTACAGACTT
*
15210033 TGGTTCTTTAGATA-TTCCTTCTTGG
1 TGGTTCTTCAGATACTTCCTTCTTGG
15210058 TTTTTTAGAT
Statistics
Matches: 177, Mismatches: 34, Indels: 20
0.77 0.15 0.09
Matches are distributed among these distances:
48 4 0.02
49 166 0.94
50 7 0.04
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.45
Consensus pattern (50 bp):
TGGTTCTTCAGATACTTCCTTCTTGGACTTGTGAAACTTTGTACAGACTT
Found at i:15210055 original size:147 final size:147
Alignment explanation
Indices: 15209788--15210057 Score: 325
Period size: 147 Copynumber: 1.8 Consensus size: 147
15209778 TTGTTTAGAA
* * * * *
15209788 TGGTTCTTCAAATCTTCTTTCTTGGACTTGTGGAACTTTGAAGATATTTTTAATCTTCAAATCTT
1 TGGTTCTTCAAATCTTCTTTCTTGGACTTATGAAACTTTGAAGAGATCTTTAATCTTCAAAACTT
** * *
15209853 CCTTCTTGCAATTGTAGAACTTTTAGGAGACTTTGGTTCTTAAGATCATTTTTCTTGGACTTGTG
66 CCTTCTTGCAATTGTAGAAAATTTAGGAGAATTTGGTTCTTAAGATCATTCTTCTTGGACTTGTG
15209918 AAACTTTGTATCGACTT
131 AAACTTTGTATCGACTT
* * *
15209935 TGGTTCTTCAGAA-CTTTTTTCTTGGACTTATGAAACTTTGTAGAGA-CTTTAGTTCTTCAAAAC
1 TGGTTCTTCA-AATCTTCTTTCTTGGACTTATGAAACTTTGAAGAGATCTTTA-ATCTTCAAAAC
* * *
15209998 TTCCTTCTTGGACTTGT-GAAAATTT-GGACAGAATTTGGTTCTTTAGAT-ATTCCTTCTTGG
64 TTCCTTCTTGCAATTGTAGAAAATTTAGG--AGAATTTGGTTCTTAAGATCATT-CTTCTTGG
15210058 TTTTTTAGAT
Statistics
Matches: 103, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
145 2 0.02
146 13 0.13
147 86 0.83
148 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.45
Consensus pattern (147 bp):
TGGTTCTTCAAATCTTCTTTCTTGGACTTATGAAACTTTGAAGAGATCTTTAATCTTCAAAACTT
CCTTCTTGCAATTGTAGAAAATTTAGGAGAATTTGGTTCTTAAGATCATTCTTCTTGGACTTGTG
AAACTTTGTATCGACTT
Found at i:15210785 original size:26 final size:24
Alignment explanation
Indices: 15210740--15210791 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
15210730 TTAAGTAATC
* * *
15210740 AAAAAATTGAAGAAAAACTAAGTA
1 AAAAAATTAAAAAAAAACTAAATA
15210764 AAAAAATTAAAAATAAACACTAAATA
1 AAAAAATTAAAAA-AAA-ACTAAATA
15210790 AA
1 AA
15210792 CTAACACACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 11 0.48
25 3 0.13
26 9 0.39
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.17
Consensus pattern (24 bp):
AAAAAATTAAAAAAAAACTAAATA
Done.