Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 101 of 129
Found at i:18324297 original size:62 final size:62
Alignment explanation
Indices: 18324209--18324331 Score: 169
Period size: 62 Copynumber: 2.0 Consensus size: 62
18324199 ACAGTTAGTG
18324209 AAGGCATTTATTCTAGAAAAAGGCCTTCACTAATTCCTTCTAATTTACATACATAATTATTA
1 AAGGCATTTATTCTAGAAAAAGGCCTTCACTAATTCCTTCTAATTTACATACATAATTATTA
* * ***
18324271 AAGGCATTT-TT-TAGGAACAAATGCCTTCACTAATTCCTTTTAATTTTTGTACATAATTATT
1 AAGGCATTTATTCTA-GAA-AAAGGCCTTCACTAATTCCTTCTAATTTACATACATAATTATT
18324332 GAAAACAGAT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
60 2 0.04
61 5 0.09
62 47 0.87
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (62 bp):
AAGGCATTTATTCTAGAAAAAGGCCTTCACTAATTCCTTCTAATTTACATACATAATTATTA
Found at i:18328179 original size:35 final size:35
Alignment explanation
Indices: 18328111--18328180 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
18328101 ATATATAAAC
* * ** *
18328111 CAAATGTTTTCTGGGCATAAATGTACAATTGACTT
1 CAAATATTTTCTGAGCATAAACCTACAACTGACTT
*
18328146 CAAATATTTTCTGAGCATAAACCTATAACTGACTT
1 CAAATATTTTCTGAGCATAAACCTACAACTGACTT
18328181 GACATATACA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (35 bp):
CAAATATTTTCTGAGCATAAACCTACAACTGACTT
Found at i:18329485 original size:287 final size:287
Alignment explanation
Indices: 18328969--18329528 Score: 897
Period size: 287 Copynumber: 2.0 Consensus size: 287
18328959 GTTTTTGACA
* * * *
18328969 AAAACTGCCTTTAATAATCCTAATTACAAATTTATTGATTGAACTATAAAAGGCGAATTCGGCCA
1 AAAACTGCCTTTAATAATCCTAACTAAAAATTTATTGATTGAACTATAAAAGGCGAATTCGACAA
* *
18329034 AAATACCTTCAAGAATCGGTTTTATATTTTTCCTATGGATTATTAAAGGCATTTTTCTAAGAAAA
66 AAATACCTTCAAGAATCGGTTTCATATTTTTCCTATGGATTATTAAAGGCATTTCTCTAAGAAAA
* * *
18329099 ATGCCTTCAATATTCTCTTCAAAGTTTTTTTAAAGCAATTGGTGAAGGCATTTTTGCCAAGAAAA
131 ACGCCTTCAATATTCTCTCCAAAGATTTTTTAAAGCAATTGGTGAAGGCATTTTTGCCAAGAAAA
* * *
18329164 CGCCTAGAATAATTAATTACAAATAATCTCTGCAAAAACCCAAAGCTAAAGGGAGGGATCGAACC
196 CGCATAGAATAATCAATTACAAATAATCTCTGCAAAAACCCAAAGCTAAAGGGAGGGATCAAACC
*
18329229 TACCACCTTATGGACCGAACCTCTAAG
261 TACCACCCTATGGACCGAACCTCTAAG
** * * * *
18329256 AAAACTGCCTTTAATAATTTTAACTAAAAATTTATTGATTGGATTATAGAAGGCGAGTTCGACTA
1 AAAACTGCCTTTAATAATCCTAACTAAAAATTTATTGATTGAACTATAAAAGGCGAATTCGAC-A
* * *
18329321 AAAATGCTTTCAAGAATCGGTTTCATATTTTTCCTATGGATTATTAAGGGCATTTCTCTAAGAAA
65 AAAATACCTTCAAGAATCGGTTTCATATTTTTCCTATGGATTATTAAAGGCATTTCTCTAAGAAA
18329386 AACGCCTTCAATATTCTCTCCAAA-ATTTTTTAAAGCAATTGGTGAAGGCATTTTTGCCAAGAAA
130 AACGCCTTCAATATTCTCTCCAAAGATTTTTTAAAGCAATTGGTGAAGGCATTTTTGCCAAGAAA
*
18329450 ATGCATAGAATAATCAATTACAAATAATCTCTGCAAAAACCCAAAGCTAAAGGGAGGGATCAAAC
195 ACGCATAGAATAATCAATTACAAATAATCTCTGCAAAAACCCAAAGCTAAAGGGAGGGATCAAAC
18329515 CTACCACCCTATGG
260 CTACCACCCTATGG
18329529 TTAACATTCG
Statistics
Matches: 249, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
287 167 0.67
288 82 0.33
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (287 bp):
AAAACTGCCTTTAATAATCCTAACTAAAAATTTATTGATTGAACTATAAAAGGCGAATTCGACAA
AAATACCTTCAAGAATCGGTTTCATATTTTTCCTATGGATTATTAAAGGCATTTCTCTAAGAAAA
ACGCCTTCAATATTCTCTCCAAAGATTTTTTAAAGCAATTGGTGAAGGCATTTTTGCCAAGAAAA
CGCATAGAATAATCAATTACAAATAATCTCTGCAAAAACCCAAAGCTAAAGGGAGGGATCAAACC
TACCACCCTATGGACCGAACCTCTAAG
Found at i:18329761 original size:63 final size:61
Alignment explanation
Indices: 18329636--18329766 Score: 147
Period size: 63 Copynumber: 2.1 Consensus size: 61
18329626 TTTCTTGTAG
* * *
18329636 AAAATGCCTTCAATAATCACATACATTTTTTTTAAAAGATTATTGAAGGCGTTGTCTGCCA
1 AAAATGCCTTCAATAATCACATACAATTTTTTTAAAAGATTATTCAAGGCGTTGTCTACCA
* * * ** *
18329697 AAAATGCCTTCAGTAATTC-CCTATCAATTTTTTTAAAGGGATTATTCAAGTTGTTTTCTACCA
1 AAAATGCCTTCAATAA-TCACATA-CAATTTTTTTAAA-AGATTATTCAAGGCGTTGTCTACCA
18329760 AAAATGC
1 AAAATGC
18329767 TTTTAGTATT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
61 18 0.31
62 14 0.24
63 26 0.45
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (61 bp):
AAAATGCCTTCAATAATCACATACAATTTTTTTAAAAGATTATTCAAGGCGTTGTCTACCA
Found at i:18330235 original size:8 final size:8
Alignment explanation
Indices: 18330224--18330256 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
18330214 AAACCATATC
18330224 TTTTTTA-
1 TTTTTTAT
18330231 TTTTTTAT
1 TTTTTTAT
18330239 TTTTTGTAT
1 TTTTT-TAT
18330248 TTTTTTAT
1 TTTTTTAT
18330256 T
1 T
18330257 GTATTACTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.29
8 9 0.38
9 8 0.33
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (8 bp):
TTTTTTAT
Found at i:18330631 original size:23 final size:23
Alignment explanation
Indices: 18330589--18330632 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
18330579 TAGCTTTTTT
* *
18330589 CATGCAACAAATTTAATCCACGC
1 CATGCAACAAAATCAATCCACGC
*
18330612 CATGCAACAAAATCACTCCAC
1 CATGCAACAAAATCAATCCAC
18330633 CGAGAAGGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.34, G:0.07, T:0.18
Consensus pattern (23 bp):
CATGCAACAAAATCAATCCACGC
Found at i:18331605 original size:14 final size:16
Alignment explanation
Indices: 18331576--18331608 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
18331566 TCCTCTTAAA
18331576 ATTATAATTATTTTAT
1 ATTATAATTATTTTAT
18331592 ATTATAA-T-TTTTAT
1 ATTATAATTATTTTAT
18331606 ATT
1 ATT
18331609 TTAAAACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 1 0.06
16 7 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTATAATTATTTTAT
Found at i:18331784 original size:2 final size:2
Alignment explanation
Indices: 18331777--18331802 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18331767 TTGCCTATCA
18331777 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
18331803 TTATTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18336947 original size:21 final size:21
Alignment explanation
Indices: 18336923--18336968 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
18336913 TATAATACTA
18336923 AAAAATATTCATAACATCCAC
1 AAAAATATTCATAACATCCAC
*
18336944 AAAAATATTTATAACATCCAC
1 AAAAATATTCATAACATCCAC
18336965 AAAA
1 AAAA
18336969 GTCCTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAATATTCATAACATCCAC
Found at i:18337712 original size:80 final size:80
Alignment explanation
Indices: 18337552--18337700 Score: 217
Period size: 80 Copynumber: 1.9 Consensus size: 80
18337542 TAAAATTCAC
* * * * *
18337552 AATAGTTTTCACCTTTATAAAGTCATTACATCTCAATAAGCACAAAACACTATATAGTTTAATAC
1 AATAGTTTTCACCTTCACAAAGTCATTACATCTCAATAAACACAAAAAACTATATAGTTCAATAC
18337617 CATTGATCCTACAAT
66 CATTGATCCTACAAT
* * * *
18337632 AATAGTTTTCATCTTCACAAAGTCATTGCATCTTAATAAACACAAAAAACTATATGGTTCAATAC
1 AATAGTTTTCACCTTCACAAAGTCATTACATCTCAATAAACACAAAAAACTATATAGTTCAATAC
18337697 CATT
66 CATT
18337701 CGTCGTACAA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 60 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34
Consensus pattern (80 bp):
AATAGTTTTCACCTTCACAAAGTCATTACATCTCAATAAACACAAAAAACTATATAGTTCAATAC
CATTGATCCTACAAT
Found at i:18338092 original size:259 final size:260
Alignment explanation
Indices: 18337644--18338139 Score: 715
Period size: 259 Copynumber: 1.9 Consensus size: 260
18337634 TAGTTTTCAT
* * *
18337644 CTTCACAAAGTCATTGCATCTTAATAAACACAAAAAACTATATGGTTCAATACCATTCGTCGTAC
1 CTTCACAAAGTCATTGCATCTCAATAAACACAAAAAACTATATAGTTCAATACCATTCGTCCTAC
* * * *
18337709 AATATTTATTCTTTTCAATTACTACACTATCTACTTCATCAACAATCACAATACATAACCAAAAT
66 AATATTAAGTCTTTTCAATTACTACACTATCTACTTAATCAACAATCACAATACACAACCAAAAT
* * *
18337774 CACAAAGCAAAATAAGTAATATTTTCACTTTTCACAATTGTAATCTCATCGCAATATACTATAAA
131 CACAAAGCAAAATAAGCAATATTTTCACTTTTCACAAATGCAATCTCATCGCAATATACTATAAA
*
18337839 GATAGTTCATCAACAATCACAATACATAACTAGAATCACAAAGTAAAATACGCAATAGTTTTTGC
196 GATAGTTCATCAACAATCACAATACATAACCAGAATCACAAAGTAAAATACGCAATAGTTTTTGC
* ** ** * *
18337904 CTTCACAATGTCATTGCATCTCAATAAATGCAAATCACTATATAGTTCAATGCCATTCGTCCTGC
1 CTTCACAAAGTCATTGCATCTCAATAAACACAAAAAACTATATAGTTCAATACCATTCGTCCTAC
* * * * * *
18337969 AATGTTAAGTC-TTTCAATTACTACATTATCTACTTAATCAATAATTACAATATACAACCAGAAT
66 AATATTAAGTCTTTTCAATTACTACACTATCTACTTAATCAACAATCACAATACACAACCAAAAT
* * *
18338033 CACAAAGCAAAATATGCAATATTTTCACTTTTCATAAATGCGATCTCATCGCAATATACTATAAA
131 CACAAAGCAAAATAAGCAATATTTTCACTTTTCACAAATGCAATCTCATCGCAATATACTATAAA
* * *
18338098 GATAGTTTATCAATAATCACAATACATAACCAGAATCCCAAA
196 GATAGTTCATCAACAATCACAATACATAACCAGAATCACAAA
18338140 ATCACAAAGT
Statistics
Matches: 206, Mismatches: 30, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
259 143 0.69
260 63 0.31
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (260 bp):
CTTCACAAAGTCATTGCATCTCAATAAACACAAAAAACTATATAGTTCAATACCATTCGTCCTAC
AATATTAAGTCTTTTCAATTACTACACTATCTACTTAATCAACAATCACAATACACAACCAAAAT
CACAAAGCAAAATAAGCAATATTTTCACTTTTCACAAATGCAATCTCATCGCAATATACTATAAA
GATAGTTCATCAACAATCACAATACATAACCAGAATCACAAAGTAAAATACGCAATAGTTTTTGC
Found at i:18340704 original size:49 final size:50
Alignment explanation
Indices: 18340651--18340801 Score: 143
Period size: 50 Copynumber: 3.1 Consensus size: 50
18340641 AGATTAAAAA
*
18340651 AAAAAAAAGAAATTTTAAAATAGACCCAAATGGTAAAAAATTTAGAAA-T
1 AAAAAAAAGAAATTTTAAAATAGGCCCAAATGGTAAAAAATTTAGAAATT
* * * **
18340700 -AAAAAATGAAAATTTCT-AAATAGGCCTAAAATTGTGGAAAATTTAGAAATT
1 AAAAAAAAG-AAATTT-TAAAATAGGCC-CAAATGGTAAAAAATTTAGAAATT
* * * *
18340751 AAAAAAAA-ATATTTCAAAATAGGCCCAAATGGT--TAAATTTAAAAATT
1 AAAAAAAAGAAATTTTAAAATAGGCCCAAATGGTAAAAAATTTAGAAATT
18340798 AAAA
1 AAAA
18340802 TGAAAAGATA
Statistics
Matches: 83, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
47 16 0.19
48 7 0.08
49 20 0.24
50 33 0.40
51 1 0.01
52 6 0.07
ACGTcount: A:0.57, C:0.07, G:0.11, T:0.26
Consensus pattern (50 bp):
AAAAAAAAGAAATTTTAAAATAGGCCCAAATGGTAAAAAATTTAGAAATT
Found at i:18340831 original size:50 final size:47
Alignment explanation
Indices: 18340644--18340815 Score: 127
Period size: 50 Copynumber: 3.5 Consensus size: 47
18340634 TTTCCAAAGA
* * * *
18340644 TTAAAAA--AAAAAAAAGAAATTTTAAAATAGACCCAAATGGTAAAAAAT
1 TTAAAAATTAAAAAAAA-ATATTTCAAAATAGGCCCAAATGGT--TAAAT
* * * **
18340692 TTAGAAA-TAAAAAATGAAA-ATTTCTAAATAGGCCTAAAATTGTGGAAAAT
1 TTAAAAATTAAAAAA--AAATATTTCAAAATAGGCC-CAAA-TG-GTTAAAT
*
18340742 TTAGAAATTAAAAAAAAATATTTCAAAATAGGCCCAAATGGTTAAAT
1 TTAAAAATTAAAAAAAAATATTTCAAAATAGGCCCAAATGGTTAAAT
18340789 TTAAAAATTAAAATGAAAAGATATTTC
1 TTAAAAATTAAAA--AAAA-ATATTTC
18340816 TAATTTAGCC
Statistics
Matches: 102, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
47 17 0.17
48 8 0.08
49 28 0.27
50 37 0.36
51 11 0.11
52 1 0.01
ACGTcount: A:0.56, C:0.06, G:0.10, T:0.27
Consensus pattern (47 bp):
TTAAAAATTAAAAAAAAATATTTCAAAATAGGCCCAAATGGTTAAAT
Found at i:18345137 original size:16 final size:16
Alignment explanation
Indices: 18345112--18345158 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
18345102 TTTCTATTTT
*
18345112 ATTTGTTTATTCT-TTC
1 ATTTGCTTATT-TATTC
18345128 ATTTGCTTATTTATTC
1 ATTTGCTTATTTATTC
**
18345144 ATTTATTTATTTATT
1 ATTTGCTTATTTATT
18345159 TACTTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 1 0.04
16 26 0.96
ACGTcount: A:0.19, C:0.09, G:0.04, T:0.68
Consensus pattern (16 bp):
ATTTGCTTATTTATTC
Found at i:18356962 original size:43 final size:43
Alignment explanation
Indices: 18356914--18357037 Score: 162
Period size: 43 Copynumber: 2.9 Consensus size: 43
18356904 AAGATTTTAT
18356914 TTTAAAGTTGTTTAGCCTCT-TAATAGAGAAGTTCATTTCTTAA
1 TTTAAAGTTGTTTAGCCTCTAT-ATAGAGAAGTTCATTTCTTAA
* * *
18356957 TTTAAAGTTGTTTAACCTCTATATA-AAAGAGCTCATTTCTTAA
1 TTTAAAGTTGTTTAGCCTCTATATAGAGA-AGTTCATTTCTTAA
* * *
18357000 TTTAAAATTGTTTAGCCTCTATATAGAGGAGTCCATTT
1 TTTAAAGTTGTTTAGCCTCTATATAGAGAAGTTCATTT
18357038 TGTTGATTTA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 2 0.03
43 65 0.94
44 2 0.03
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (43 bp):
TTTAAAGTTGTTTAGCCTCTATATAGAGAAGTTCATTTCTTAA
Found at i:18358468 original size:4 final size:4
Alignment explanation
Indices: 18358442--18358508 Score: 59
Period size: 4 Copynumber: 17.0 Consensus size: 4
18358432 ATTTAGGTAT
* * *
18358442 TTTA TTT- TTT- TCTA TTTA TTTTA TTTA TTTA TTCT- TTCA TTTG TTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TT-TA TTTA TTTA TTTA
*
18358489 TTTA TTCA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA
18358509 CTTTTAAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
3 5 0.10
4 41 0.80
5 5 0.10
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:18358488 original size:16 final size:16
Alignment explanation
Indices: 18358454--18358508 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
18358444 TATTTTTTTC
*
18358454 TATTTATTTTATTTATT
1 TATTTA-TTCATTTATT
*
18358471 TATTCT-TTCATTTGTT
1 TATT-TATTCATTTATT
18358487 TATTTATTCATTTATT
1 TATTTATTCATTTATT
18358503 TATTTA
1 TATTTA
18358509 CTTTTAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
15 1 0.03
16 27 0.82
17 4 0.12
18 1 0.03
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (16 bp):
TATTTATTCATTTATT
Found at i:18358490 original size:20 final size:20
Alignment explanation
Indices: 18358455--18358508 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
18358445 ATTTTTTTCT
18358455 ATTTATTTTATTTATTTATTC
1 ATTTA-TTTATTTATTTATTC
*
18358476 -TTTCATTTGTTTATTTATTC
1 ATTT-ATTTATTTATTTATTC
18358496 ATTTATTTATTTA
1 ATTTATTTATTTA
18358509 CTTTTAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (20 bp):
ATTTATTTATTTATTTATTC
Found at i:18361711 original size:17 final size:17
Alignment explanation
Indices: 18361689--18361739 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
18361679 TAAGATTCTT
*
18361689 AAAATAAAATCTTACTA
1 AAAATAAAATCTTACCA
*
18361706 AAAAT--AAGCTTACCA
1 AAAATAAAATCTTACCA
*
18361721 AAAATAAAATCTTGCCA
1 AAAATAAAATCTTACCA
18361738 AA
1 AA
18361740 TCAAGAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.57, C:0.16, G:0.04, T:0.24
Consensus pattern (17 bp):
AAAATAAAATCTTACCA
Found at i:18363239 original size:18 final size:18
Alignment explanation
Indices: 18363183--18363233 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
18363173 TTTTTATTTA
18363183 TTTATTTATATGTTTTCTT
1 TTTA-TTATATGTTTTCTT
*
18363202 TATATTATATGTTTTCTT
1 TTTATTATATGTTTTCTT
*
18363220 TTTGTTATATGTTT
1 TTTATTATATGTTT
18363234 ATTTTTCTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 26 0.90
19 3 0.10
ACGTcount: A:0.18, C:0.04, G:0.08, T:0.71
Consensus pattern (18 bp):
TTTATTATATGTTTTCTT
Found at i:18364058 original size:15 final size:14
Alignment explanation
Indices: 18364040--18364069 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
18364030 AAAATCAATC
18364040 AAAAAAAGTAAACAA
1 AAAAAAAG-AAACAA
18364055 AAAAAAAGAAACAA
1 AAAAAAAGAAACAA
18364069 A
1 A
18364070 TAATGAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.83, C:0.07, G:0.07, T:0.03
Consensus pattern (14 bp):
AAAAAAAGAAACAA
Found at i:18369068 original size:11 final size:11
Alignment explanation
Indices: 18369054--18369096 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
18369044 TTATTTTATA
18369054 TTATATTTAAT
1 TTATATTTAAT
*
18369065 TTATATCTAAT
1 TTATATTTAAT
* * *
18369076 TGAAAGTTAAT
1 TTATATTTAAT
18369087 TTATATTTAA
1 TTATATTTAA
18369097 CTGAAAGAGA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (11 bp):
TTATATTTAAT
Found at i:18369085 original size:22 final size:22
Alignment explanation
Indices: 18369060--18369103 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
18369050 TATATTATAT
*
18369060 TTAATTTATATCTAATTGAAAG
1 TTAATTTATATCTAACTGAAAG
*
18369082 TTAATTTATATTTAACTGAAAG
1 TTAATTTATATCTAACTGAAAG
18369104 AGATAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (22 bp):
TTAATTTATATCTAACTGAAAG
Found at i:18369367 original size:27 final size:27
Alignment explanation
Indices: 18369329--18369381 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
18369319 ATAAAATAAA
*
18369329 ATAATATTATTTAATTTAATCTTATTC
1 ATAATATCATTTAATTTAATCTTATTC
* * *
18369356 ATAATATCATTTTATTTTATTTTATT
1 ATAATATCATTTAATTTAATCTTATT
18369382 AAACTTTTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (27 bp):
ATAATATCATTTAATTTAATCTTATTC
Found at i:18375982 original size:119 final size:124
Alignment explanation
Indices: 18375845--18376120 Score: 418
Period size: 119 Copynumber: 2.3 Consensus size: 124
18375835 TAAAAAAAGC
** * * *
18375845 TACCTTCAAAGATATCAAATTCTTCAAACTCATAATAGTTAATTAATTAACATAACCTACAATTA
1 TACCTTCATCGATTTCAAATTCTTCAAACTCATAAAAGTTAATTAATTAACATAACCTAAAATTA
*
18375910 AACCCTAACCTCCAAGAAAA-TT-TAAAAAAAA-GTAGA-AAAAAAGGGAAA-AAGAAT
66 AACCCTAACCTCCAAGAAAATTTCTAAAAAAAATGTAGATAAAAAAGGAAAATAAGAAT
*
18375964 TACCTTCATCGGTTTCAAATTCTTCAAACTCATAAAAGTTAATTAATTAACATAACCTAAAATTA
1 TACCTTCATCGATTTCAAATTCTTCAAACTCATAAAAGTTAATTAATTAACATAACCTAAAATTA
** *
18376029 AACCCTAACCTCCATTAAAATTTCTAAAAAAAATGTAGATAAAACAGGAAAATAAGAAT
66 AACCCTAACCTCCAAGAAAATTTCTAAAAAAAATGTAGATAAAAAAGGAAAATAAGAAT
*
18376088 TACTTTCATCGATTTCAAATTCTTCAAACTCAT
1 TACCTTCATCGATTTCAAATTCTTCAAACTCAT
18376121 CGTCATCTTC
Statistics
Matches: 140, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
119 77 0.55
120 2 0.01
121 9 0.06
122 5 0.04
123 10 0.07
124 37 0.26
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.29
Consensus pattern (124 bp):
TACCTTCATCGATTTCAAATTCTTCAAACTCATAAAAGTTAATTAATTAACATAACCTAAAATTA
AACCCTAACCTCCAAGAAAATTTCTAAAAAAAATGTAGATAAAAAAGGAAAATAAGAAT
Found at i:18378676 original size:28 final size:29
Alignment explanation
Indices: 18378637--18378699 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
18378627 AATTCTTAAT
18378637 TATTTTATTTAT-TAAAAAATAAATTTTTA
1 TATTTTATTTATAT-AAAAATAAATTTTTA
**
18378666 TATTTTA-TTATATCCAAATAAATTTTTA
1 TATTTTATTTATATAAAAATAAATTTTTA
18378694 TATTTT
1 TATTTT
18378700 GACTTGTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 23 0.74
29 8 0.26
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (29 bp):
TATTTTATTTATATAAAAATAAATTTTTA
Found at i:18379446 original size:23 final size:24
Alignment explanation
Indices: 18379418--18379464 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
18379408 ATTTAATTTA
*
18379418 TTTAAAATATGAGA-AATTTAAAT
1 TTTAAAATATAAGATAATTTAAAT
*
18379441 TTTAAAATATAATATAATTTAAAT
1 TTTAAAATATAAGATAATTTAAAT
18379465 ATATTAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTTAAAATATAAGATAATTTAAAT
Found at i:18379603 original size:15 final size:14
Alignment explanation
Indices: 18379569--18379610 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
18379559 ACAAAAATAA
18379569 AATAATTTAA-TTT
1 AATAATTTAATTTT
18379582 AATTAATTTAATTTT
1 AA-TAATTTAATTTT
*
18379597 AGATAATTCAATTT
1 A-ATAATTTAATTT
18379611 CAAATTACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 2 0.08
14 8 0.32
15 14 0.56
16 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (14 bp):
AATAATTTAATTTT
Found at i:18381152 original size:29 final size:29
Alignment explanation
Indices: 18381115--18381173 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
18381105 AATTAACAGA
*
18381115 TTTATAATTAAAATATCACATAAAAAATT
1 TTTAAAATTAAAATATCACATAAAAAATT
* * * *
18381144 TTTAAAATTTAAATATGACATTAAATATT
1 TTTAAAATTAAAATATCACATAAAAAATT
18381173 T
1 T
18381174 CACTATATTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTAAAATTAAAATATCACATAAAAAATT
Found at i:18385848 original size:137 final size:138
Alignment explanation
Indices: 18385580--18385854 Score: 401
Period size: 137 Copynumber: 2.0 Consensus size: 138
18385570 TAGATGTTAT
* *
18385580 ACAATATTTATGAATAACATAAAAATTAATTTTAAATGTATTTTTTTAATTAAGTATATTTACCT
1 ACAATATTTATGAATAACATAAAAATTAATTTTAAATATATTTTTTAAATTAAGTATATTTACCT
* * * * * * *
18385645 TATAAAGTTTTAAAATTATTAAGCATCTAATTTAAAATAAATTGACAATAAGTGAAGGAACTCAA
66 TATAAAGTTTTAAAATTATTAAGCATCCAACTTAAAATAAATTAACAATAAATAAAAGAACCCAA
18385710 CTTAAATA
131 CTTAAATA
18385718 ACAATATTTATGAATAACATAAAAATTAATTTTAAATATA-TTTTTAAATTAAGTATATTTACCT
1 ACAATATTTATGAATAACATAAAAATTAATTTTAAATATATTTTTTAAATTAAGTATATTTACCT
* * * * *
18385782 TTTAGAGTTTTAAAATTATTAAGTATCCAACTTAAAATTAATTAACAGTAAATAAATAG-ACCCA
66 TATAAAGTTTTAAAATTATTAAGCATCCAACTTAAAATAAATTAACAATAAATAAA-AGAACCCA
18385846 ACTTAAATA
130 ACTTAAATA
18385855 TAAAGCTATA
Statistics
Matches: 122, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
137 82 0.67
138 40 0.33
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (138 bp):
ACAATATTTATGAATAACATAAAAATTAATTTTAAATATATTTTTTAAATTAAGTATATTTACCT
TATAAAGTTTTAAAATTATTAAGCATCCAACTTAAAATAAATTAACAATAAATAAAAGAACCCAA
CTTAAATA
Found at i:18386812 original size:27 final size:26
Alignment explanation
Indices: 18386768--18386820 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
18386758 AGTACACAAA
18386768 ATTATAATAGAATAAGATTAAATAAT
1 ATTATAATAGAATAAGATTAAATAAT
* *
18386794 ATTATAAATAGGATTAGATTAAATAAT
1 ATTAT-AATAGAATAAGATTAAATAAT
18386821 GCCATGATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (26 bp):
ATTATAATAGAATAAGATTAAATAAT
Found at i:18387538 original size:17 final size:18
Alignment explanation
Indices: 18387516--18387553 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
18387506 AAAGGATAGG
*
18387516 ATAAGATGATATTAAA-A
1 ATAAGATGAGATTAAATA
*
18387533 ATAAGATTAGATTAAATA
1 ATAAGATGAGATTAAATA
18387551 ATA
1 ATA
18387554 TTATCTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (18 bp):
ATAAGATGAGATTAAATA
Found at i:18388346 original size:9 final size:9
Alignment explanation
Indices: 18388332--18388356 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
18388322 GGTTAAACAA
18388332 CTCATTCCT
1 CTCATTCCT
18388341 CTCATTCCT
1 CTCATTCCT
18388350 CTCATTC
1 CTCATTC
18388357 TTTGGTTTCT
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:0.12, C:0.44, G:0.00, T:0.44
Consensus pattern (9 bp):
CTCATTCCT
Found at i:18390300 original size:12 final size:11
Alignment explanation
Indices: 18390282--18390311 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
18390272 ATAAACAATC
18390282 ATATAAATAAA
1 ATATAAATAAA
18390293 ATACTAAATAAA
1 ATA-TAAATAAA
18390305 ATATAAA
1 ATATAAA
18390312 AATACCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (11 bp):
ATATAAATAAA
Found at i:18390743 original size:19 final size:19
Alignment explanation
Indices: 18390701--18390748 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
18390691 GAAGTTCATA
*
18390701 AAAAAATTCAACCGACATC
1 AAAAAATTCAACCGACACC
*
18390720 GAAAAATTCAACCGA-AGCC
1 AAAAAATTCAACCGACA-CC
18390739 AAAAAATTCA
1 AAAAAATTCA
18390749 CCAAAAGCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 1 0.04
19 24 0.96
ACGTcount: A:0.54, C:0.23, G:0.08, T:0.15
Consensus pattern (19 bp):
AAAAAATTCAACCGACACC
Found at i:18390756 original size:19 final size:19
Alignment explanation
Indices: 18390721--18390765 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
18390711 ACCGACATCG
*
18390721 AAAAATTCAACCGAAGCCA
1 AAAAATTCAACCAAAGCCA
*
18390740 AAAAATTC-ACCAAAAGCTA
1 AAAAATTCAACC-AAAGCCA
18390759 AAAAATT
1 AAAAATT
18390766 TCATCGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.58, C:0.20, G:0.07, T:0.16
Consensus pattern (19 bp):
AAAAATTCAACCAAAGCCA
Found at i:18391104 original size:21 final size:20
Alignment explanation
Indices: 18391055--18391105 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
18391045 CACAGCCAAA
*
18391055 ATTTTTTATTTTATTTTACT
1 ATTTTTTATTTTATTTAACT
18391075 ATTTATTTATTTT-TTTAATCTT
1 ATTT-TTTATTTTATTTAA-C-T
18391097 ATTTTTTAT
1 ATTTTTTAT
18391106 CTTAATAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 8 0.30
21 14 0.52
22 5 0.19
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (20 bp):
ATTTTTTATTTTATTTAACT
Found at i:18391218 original size:7 final size:8
Alignment explanation
Indices: 18391193--18391224 Score: 50
Period size: 7 Copynumber: 4.2 Consensus size: 8
18391183 AGATAAAACC
18391193 AAAATAAT
1 AAAATAAT
18391201 AAAATAAT
1 AAAATAAT
18391209 AAAA-AAT
1 AAAATAAT
18391216 AAAA-AAT
1 AAAATAAT
18391223 AA
1 AA
18391225 GTAACTGGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 12 0.50
8 12 0.50
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (8 bp):
AAAATAAT
Found at i:18391533 original size:20 final size:21
Alignment explanation
Indices: 18391508--18391548 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
18391498 CTACAAGCAG
18391508 AGGAAATCGAAGTTT-CAACA
1 AGGAAATCGAAGTTTGCAACA
*
18391528 AGGAAATTGAAGTTTGCAACA
1 AGGAAATCGAAGTTTGCAACA
18391549 CAAATTGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (21 bp):
AGGAAATCGAAGTTTGCAACA
Found at i:18391761 original size:30 final size:30
Alignment explanation
Indices: 18391742--18391805 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
18391732 TATGTGTTAT
*
18391742 GTGAACAC-TCAAATAAAAGTGTTTTATTAA
1 GTGAAC-CTTCAAATAAAAGTGTTGTATTAA
* *
18391772 GTGAACCTTCAAATAAAAGTGTTTTATAAA
1 GTGAACCTTCAAATAAAAGTGTTGTATTAA
18391802 GTGA
1 GTGA
18391806 GGAGATAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 1 0.03
30 31 0.97
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (30 bp):
GTGAACCTTCAAATAAAAGTGTTGTATTAA
Found at i:18392805 original size:2 final size:2
Alignment explanation
Indices: 18392798--18392824 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18392788 GGTTTAAATC
18392798 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
18392825 TGCATAATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18393035 original size:2 final size:2
Alignment explanation
Indices: 18393030--18393075 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
18393020 ATATATATAA
18393030 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
18393072 AG AG
1 AG AG
18393076 GATGGTTCAA
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18393502 original size:72 final size:73
Alignment explanation
Indices: 18393421--18393566 Score: 251
Period size: 72 Copynumber: 2.0 Consensus size: 73
18393411 TATTTTTTAT
*
18393421 AAGTTTGCTTAAGATCTAATCAATTT-GTTCTTTTAAATTTATTTAA-ATTCTTTTAATTCTAAT
1 AAGTTTGCTTAAGATCTAATCAATTTGGTT-TTTAAAATTTATTTAAGATTCTTTTAATTCTAAT
18393484 TTATTAGTA
65 TTATTAGTA
*
18393493 AAGTTTGCTTAAGATCTAATCAATTTGGTTTTTAAAATTTATTTAAGTTTCTTTTAATTCTAATT
1 AAGTTTGCTTAAGATCTAATCAATTTGGTTTTTAAAATTTATTTAAGATTCTTTTAATTCTAATT
18393558 TATTAGTA
66 TATTAGTA
18393566 A
1 A
18393567 CGCATTAATA
Statistics
Matches: 70, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
72 41 0.59
73 29 0.41
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (73 bp):
AAGTTTGCTTAAGATCTAATCAATTTGGTTTTTAAAATTTATTTAAGATTCTTTTAATTCTAATT
TATTAGTA
Found at i:18396314 original size:23 final size:21
Alignment explanation
Indices: 18396270--18396311 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
18396260 AATGTGTAAA
18396270 ACTAAAAAAGAGCTACATTGT
1 ACTAAAAAAGAGCTACATTGT
18396291 ACTAAAAAAGAGCTACATTGT
1 ACTAAAAAAGAGCTACATTGT
18396312 GTAAATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (21 bp):
ACTAAAAAAGAGCTACATTGT
Found at i:18396347 original size:2 final size:2
Alignment explanation
Indices: 18396340--18396364 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18396330 ACTCATAATC
18396340 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
18396365 CATCCAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18402162 original size:15 final size:16
Alignment explanation
Indices: 18402133--18402162 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18402123 ACAAAAATCA
18402133 AATTAAAAAATAACTC
1 AATTAAAAAATAACTC
18402149 AATTAAAAAA-AACT
1 AATTAAAAAATAACT
18402163 AAAATAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (16 bp):
AATTAAAAAATAACTC
Found at i:18406288 original size:9 final size:9
Alignment explanation
Indices: 18406276--18406316 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
18406266 TTTTATTTTA
*
18406276 TATCTTGTT
1 TATCTTATT
18406285 TATCTTATT
1 TATCTTATT
18406294 TAT-TTATT
1 TATCTTATT
18406302 TATCTT-TT
1 TATCTTATT
18406310 TAGTCTT
1 TA-TCTT
18406317 TTGTTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 12 0.41
9 17 0.59
ACGTcount: A:0.17, C:0.10, G:0.05, T:0.68
Consensus pattern (9 bp):
TATCTTATT
Found at i:18406316 original size:26 final size:25
Alignment explanation
Indices: 18406267--18406316 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
18406257 TTGCATTTTT
18406267 TTTATTTTATATCTTGTTTATCTTA
1 TTTATTTTATATCTTGTTTATCTTA
*
18406292 TTTATTTATTTATCTT-TTTAGTCTT
1 TTTATTT-TATATCTTGTTTA-TCTT
18406317 TTGTTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.18, C:0.08, G:0.04, T:0.70
Consensus pattern (25 bp):
TTTATTTTATATCTTGTTTATCTTA
Found at i:18407276 original size:16 final size:17
Alignment explanation
Indices: 18407245--18407277 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
18407235 GACAAGATAA
*
18407245 AAATTGAAAGATTTTCT
1 AAATTGAAAAATTTTCT
18407262 AAATT-AAAAATTTTCT
1 AAATTGAAAAATTTTCT
18407278 TATCTTAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (17 bp):
AAATTGAAAAATTTTCT
Found at i:18422859 original size:11 final size:11
Alignment explanation
Indices: 18422843--18422867 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18422833 AGGAGCCAAC
18422843 CAAGATGGGTT
1 CAAGATGGGTT
18422854 CAAGATGGGTT
1 CAAGATGGGTT
18422865 CAA
1 CAA
18422868 TAAGGTTCCT
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:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (11 bp):
CAAGATGGGTT
Found at i:18425635 original size:149 final size:149
Alignment explanation
Indices: 18425365--18425660 Score: 520
Period size: 149 Copynumber: 2.0 Consensus size: 149
18425355 GATCCTTATG
*
18425365 GAGAGAACTTTTCAAGATATTAGGGTCCTAACTTAACATCTCCTCAAGCTACCACCCTCAAACCG
1 GAGAGAACTTTTCAAGATATTAGGGTCCCAACTTAACATCTCCTCAAGCTACCACCCTCAAACCG
* *
18425430 ATGGTCAAACAAAACGATTCAATGGATTACTAGAAGAATATTTAAGTTACTTTGTTCAAGCCAAT
66 ATGGTCAAACAAAACGATTCAATGGATTACTAGAAGAATACTTAAATTACTTTGTTCAAGCCAAT
18425495 CAGAAGAACTGACCTTCTA
131 CAGAAGAACTGACCTTCTA
*
18425514 GAGAGAACTTTTCAAGATATTAGGGTCCCAACTTAACATCTCCTCAAGCTACCACCTTCAAACCG
1 GAGAGAACTTTTCAAGATATTAGGGTCCCAACTTAACATCTCCTCAAGCTACCACCCTCAAACCG
* * *
18425579 ATGGTCAAACAAAATGGTTCAATGGATTACTAGAGGAATACTTAAATTACTTTGTTCAAGCCAAT
66 ATGGTCAAACAAAACGATTCAATGGATTACTAGAAGAATACTTAAATTACTTTGTTCAAGCCAAT
*
18425644 CAGAAGAACTGGCCTTC
131 CAGAAGAACTGACCTTC
18425661 GTATTGGACA
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
149 139 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (149 bp):
GAGAGAACTTTTCAAGATATTAGGGTCCCAACTTAACATCTCCTCAAGCTACCACCCTCAAACCG
ATGGTCAAACAAAACGATTCAATGGATTACTAGAAGAATACTTAAATTACTTTGTTCAAGCCAAT
CAGAAGAACTGACCTTCTA
Found at i:18438540 original size:156 final size:158
Alignment explanation
Indices: 18438352--18438665 Score: 391
Period size: 156 Copynumber: 2.0 Consensus size: 158
18438342 TCAAATGATA
* * * * *
18438352 CCACCTCATTCATAAGTGAGTTTTTCAAAAAATATTAAATTTTTATATATTTGTTTTAAGAGTTA
1 CCACCTCATTAATAAGTGAGTTTTTCAAAAAATATTAAATTTTTACATATTTATTTTAAAAGGTA
* * * * *
18438417 ATAGTTACTCATTAATAAAATAATATCATTTAATTTACTAATAGTGTAT-GAAATC-TATACAAA
66 ATAGTTACTCATTAATAAAATAATATCATCTAATTCACTAACAGTATATAAAAATCATATACAAA
* *
18438480 TACTGCGTCAAATATAAACTCAATTATG
131 TAATGCATCAAATATAAACTCAATTATG
* *
18438508 CCACCTCATTAATGAA-TGAGTTTTTTAAAAAATATTAAATTTTTGCATATTTATTTTAAAAGGT
1 CCACCTCATTAAT-AAGTGAGTTTTTCAAAAAATATTAAATTTTTACATATTTATTTTAAAAGGT
* * * ** * *
18438572 GATATTTACTCATTAATAAGATTGTATCATCTCATTCACTAACGGTATATAAAAATCTATATACA
65 AATAGTTACTCATTAATAAAATAATATCATCTAATTCACTAACAGTATATAAAAATC-ATATACA
*
18438637 AATAATGCATTAAATATAAACTCAATTAT
129 AATAATGCATCAAATATAAACTCAATTAT
18438666 AAATCTATTA
Statistics
Matches: 132, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
156 93 0.70
157 7 0.05
159 32 0.24
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (158 bp):
CCACCTCATTAATAAGTGAGTTTTTCAAAAAATATTAAATTTTTACATATTTATTTTAAAAGGTA
ATAGTTACTCATTAATAAAATAATATCATCTAATTCACTAACAGTATATAAAAATCATATACAAA
TAATGCATCAAATATAAACTCAATTATG
Found at i:18448797 original size:3 final size:3
Alignment explanation
Indices: 18448791--18448822 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18448781 TTTCTATTTC
18448791 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18448823 TTCATTTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18450104 original size:34 final size:34
Alignment explanation
Indices: 18450061--18450128 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
18450051 AAACCTACCA
18450061 AAGAAAGAGACTTCAGTCTTCACCAACTCAAAAT
1 AAGAAAGAGACTTCAGTCTTCACCAACTCAAAAT
*
18450095 AAGAAAGAGATTTCAGTCTTCACCAACTCAAAAT
1 AAGAAAGAGACTTCAGTCTTCACCAACTCAAAAT
18450129 CAAATTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.44, C:0.22, G:0.12, T:0.22
Consensus pattern (34 bp):
AAGAAAGAGACTTCAGTCTTCACCAACTCAAAAT
Found at i:18451898 original size:31 final size:31
Alignment explanation
Indices: 18451856--18451921 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 31
18451846 GTACTTAAAG
*
18451856 AAATAAAATATAATTTGTAT-TATAAACTTTT
1 AAATAAAATATAATTTATATGT-TAAACTTTT
*
18451887 AAATAATATATAATTTATATGTTAAACTTTT
1 AAATAAAATATAATTTATATGTTAAACTTTT
18451918 AAAT
1 AAAT
18451922 TATGTACTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (31 bp):
AAATAAAATATAATTTATATGTTAAACTTTT
Found at i:18452714 original size:23 final size:21
Alignment explanation
Indices: 18452688--18452740 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
18452678 ATTAAATTAC
18452688 ATAAAAAAAATTTGAATTAAAAT
1 ATAAAAAAAATTT--ATTAAAAT
*
18452711 ATAAAATTAAATTTATTAAAAT
1 ATAAAA-AAAATTTATTAAAAT
*
18452733 -TAATAAAA
1 ATAAAAAAA
18452741 TAAAAAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 2 0.08
21 4 0.15
22 8 0.31
23 6 0.23
24 6 0.23
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
ATAAAAAAAATTTATTAAAAT
Found at i:18452738 original size:24 final size:25
Alignment explanation
Indices: 18452676--18452745 Score: 78
Period size: 24 Copynumber: 2.9 Consensus size: 25
18452666 TAAACTTTTA
18452676 TAATT-AAATTACATAAAA-AAAATT
1 TAATTAAAATTA-ATAAAATAAAATT
*
18452700 TGAATTAAAA-T-ATAAAATTAAATT
1 T-AATTAAAATTAATAAAATAAAATT
18452724 T-ATTAAAATTAATAAAATAAAA
1 TAATTAAAATTAATAAAATAAAA
18452746 AATCAACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
22 7 0.18
23 7 0.18
24 17 0.44
25 5 0.13
26 3 0.08
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (25 bp):
TAATTAAAATTAATAAAATAAAATT
Found at i:18458404 original size:87 final size:87
Alignment explanation
Indices: 18458258--18458433 Score: 343
Period size: 87 Copynumber: 2.0 Consensus size: 87
18458248 TTTTCCTTTA
18458258 AATTTTCTTGTTTTTCAATCCCTATCTTTACTTTTGCATCTGCCTCTGGCTATCATCTTTGGTTG
1 AATTTTCTTGTTTTTCAATCCCTATCTTTACTTTTGCATCTGCCTCTGGCTATCATCTTTGGTTG
18458323 TGAAGCTAATGAAGCAGTTGAT
66 TGAAGCTAATGAAGCAGTTGAT
18458345 AATTTTCTTGTTTTTCAATCCCTATCTTTACTTTTGCATCTGCCTCTGGCTATCATCTTTGGTTG
1 AATTTTCTTGTTTTTCAATCCCTATCTTTACTTTTGCATCTGCCTCTGGCTATCATCTTTGGTTG
*
18458410 TGAAGTTAATGAAGCAGTTGAT
66 TGAAGCTAATGAAGCAGTTGAT
18458432 AA
1 AA
18458434 GGATTAAAAA
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.45
Consensus pattern (87 bp):
AATTTTCTTGTTTTTCAATCCCTATCTTTACTTTTGCATCTGCCTCTGGCTATCATCTTTGGTTG
TGAAGCTAATGAAGCAGTTGAT
Found at i:18465994 original size:34 final size:35
Alignment explanation
Indices: 18465925--18466015 Score: 84
Period size: 34 Copynumber: 2.6 Consensus size: 35
18465915 ATATTTTTTA
*
18465925 AATATTTATTTATAAAA-ATATT-ATTTGATATATAT
1 AATA-TTA-TTATAAAATTTATTAATTTGATATATAT
* *
18465960 ACATAATT-TTA-ATAATTTATTAATTTTATA-ATAT
1 A-AT-ATTATTATAAAATTTATTAATTTGATATATAT
18465994 AATATTATTATAAAATTTATTA
1 AATATTATTATAAAATTTATTA
18466016 TATAAAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
32 3 0.07
33 8 0.17
34 22 0.48
35 8 0.17
36 4 0.09
37 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (35 bp):
AATATTATTATAAAATTTATTAATTTGATATATAT
Found at i:18466021 original size:14 final size:15
Alignment explanation
Indices: 18465996--18466026 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
18465986 TATAATATAA
18465996 TATTATTATAAAATT
1 TATTATTATAAAATT
18466011 TATTA-TATAAAATT
1 TATTATTATAAAATT
18466025 TA
1 TA
18466027 ATTTAATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTATTATAAAATT
Found at i:18470071 original size:18 final size:18
Alignment explanation
Indices: 18470048--18470084 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
18470038 ATTTAAAGAT
* *
18470048 TTATAATTTAAATTTTAA
1 TTATAATTAAAAATTTAA
18470066 TTATAATTAAAAATTTAA
1 TTATAATTAAAAATTTAA
18470084 T
1 T
18470085 ATTTTATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTATAATTAAAAATTTAA
Found at i:18472480 original size:22 final size:21
Alignment explanation
Indices: 18472441--18472481 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
18472431 AGAAATAGGC
*
18472441 ATTTTTATGCTTGCATTGGGG
1 ATTTTTATACTTGCATTGGGG
*
18472462 ATTTTGTATACTTGTATTGG
1 ATTTT-TATACTTGCATTGG
18472482 AAAGTAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.17, C:0.07, G:0.24, T:0.51
Consensus pattern (21 bp):
ATTTTTATACTTGCATTGGGG
Found at i:18472913 original size:195 final size:196
Alignment explanation
Indices: 18472704--18473129 Score: 590
Period size: 195 Copynumber: 2.2 Consensus size: 196
18472694 GTAAATAATA
* * * * * *
18472704 TATTATTGTATATGTACTTGTGTTGGAAAATTTGTGTTAAAATTTTTTGTTCTTGTTGCTTACTT
1 TATTATTATATATGTACTTGTGTTGGAGAATTTGTATTAAAATTTTATATTCTTGTTACTTACTT
* * * *
18472769 TTTTTGGAATAAAATAGAC-AATTTTTTTTTTTTTGTTTATTTGAACTAGAAATA-AGCATTTCT
66 TCTTTGGAATAAAACAGACAAATATTTTTTTTTTGGTTTA-TTGAACTAGAAATAGA-CATTTCT
18472832 TTGTTATTGTAATAAAAATATAATC-TCAAAGT-AAATATCAAAGCATATTCTCAAACTTTAAAC
129 TTGTTATTGTAATAAAAATATAATCTTC-AAGTAAAATATCAAAGCATATTCTCAAACTTTAAAC
18472895 AAAG
193 AAAG
* * *
18472899 TATTATTATATATGTACTTGTGTTGGAGAATATATATTTAAATTTTATATTCTTGTTACTTACTT
1 TATTATTATATATGTACTTGTGTTGGAGAATTTGTATTAAAATTTTATATTCTTGTTACTTACTT
* * * *
18472964 TCTTTGGATTGAAACAGGCAAATATTTTTTTTTTGGTTTATTGAACTTGAAATAGACATTTCTTT
66 TCTTTGGAATAAAACAGACAAATATTTTTTTTTTGGTTTATTGAACTAGAAATAGACATTTCTTT
* * *
18473029 GTTATTGTAATAAAATTATTATCTTCAAGTAAAATCTCAAAGCATATTCTCAAACTTTAAACAAA
131 GTTATTGTAATAAAAATATAATCTTCAAGTAAAATATCAAAGCATATTCTCAAACTTTAAACAAA
18473094 G
196 G
* * *
18473095 TATTATTACATATGCACTTGTATTGGAGAATTTGT
1 TATTATTATATATGTACTTGTGTTGGAGAATTTGT
18473130 TGAGTAAAAT
Statistics
Matches: 202, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
195 117 0.58
196 85 0.42
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (196 bp):
TATTATTATATATGTACTTGTGTTGGAGAATTTGTATTAAAATTTTATATTCTTGTTACTTACTT
TCTTTGGAATAAAACAGACAAATATTTTTTTTTTGGTTTATTGAACTAGAAATAGACATTTCTTT
GTTATTGTAATAAAAATATAATCTTCAAGTAAAATATCAAAGCATATTCTCAAACTTTAAACAAA
G
Found at i:18477230 original size:27 final size:27
Alignment explanation
Indices: 18477199--18477252 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
18477189 ATGATGCACC
*
18477199 ATACGGGTCATCTTTCGCATTGATGAT
1 ATACGAGTCATCTTTCGCATTGATGAT
*
18477226 ATACGAGTCATCTTTTGCATTGATGAT
1 ATACGAGTCATCTTTCGCATTGATGAT
18477253 GGATGATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (27 bp):
ATACGAGTCATCTTTCGCATTGATGAT
Found at i:18478534 original size:146 final size:146
Alignment explanation
Indices: 18478270--18478562 Score: 586
Period size: 146 Copynumber: 2.0 Consensus size: 146
18478260 CAACATGTCC
18478270 AAAGTTGTTAGTATATGTGACTTTCCAATGGCTTTGTGAATACTTTCAAATTGTTGCCTTACTTT
1 AAAGTTGTTAGTATATGTGACTTTCCAATGGCTTTGTGAATACTTTCAAATTGTTGCCTTACTTT
18478335 ATTGAAATAGATAATATCTTATGAGTTTTGAGATGTAAAGACTTTGTGAAAAATGAAAACTGTTG
66 ATTGAAATAGATAATATCTTATGAGTTTTGAGATGTAAAGACTTTGTGAAAAATGAAAACTGTTG
18478400 CATAACTTGCTTTATG
131 CATAACTTGCTTTATG
18478416 AAAGTTGTTAGTATATGTGACTTTCCAATGGCTTTGTGAATACTTTCAAATTGTTGCCTTACTTT
1 AAAGTTGTTAGTATATGTGACTTTCCAATGGCTTTGTGAATACTTTCAAATTGTTGCCTTACTTT
18478481 ATTGAAATAGATAATATCTTATGAGTTTTGAGATGTAAAGACTTTGTGAAAAATGAAAACTGTTG
66 ATTGAAATAGATAATATCTTATGAGTTTTGAGATGTAAAGACTTTGTGAAAAATGAAAACTGTTG
18478546 CATAACTTGCTTTATG
131 CATAACTTGCTTTATG
18478562 A
1 A
18478563 GTCTGGTTGT
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
146 147 1.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (146 bp):
AAAGTTGTTAGTATATGTGACTTTCCAATGGCTTTGTGAATACTTTCAAATTGTTGCCTTACTTT
ATTGAAATAGATAATATCTTATGAGTTTTGAGATGTAAAGACTTTGTGAAAAATGAAAACTGTTG
CATAACTTGCTTTATG
Found at i:18478866 original size:156 final size:156
Alignment explanation
Indices: 18478668--18478978 Score: 421
Period size: 156 Copynumber: 2.0 Consensus size: 156
18478658 AAATGAAAAT
* * * *
18478668 TATTGTGTATTTTGCTTTGTGATTATGGTTGTGTATTATGATTGTTGATAAACTATCTTTGTAGT
1 TATTGCGTATTTTGCTTTGTGATTATGGTTGTGCATTATGATTGTTGATAAACTATATTTATAGT
* * * *
18478733 AATTGAAAGCCTAAACATTGCAAAAAATTTAGTATTGAACTAGATA-G-TATTGTGTATGTATTG
66 AATTAAAAGCCTAAACATTGCAAAAAATTCAGTATTGAACTAGATAGGTTATTGTGCA--TATTA
18478796 AGATGT-AATGACTTTGTGAAAGGTGAAG
129 AGAT-TCAATGACTTTGTGAAAGGTGAAG
* * * *
18478824 TATTGCGTATTTTGCTTTGTGGTTTTGGTTGTGCATTGTGATTGTTGATGAACTATATTTATAGT
1 TATTGCGTATTTTGCTTTGTGATTATGGTTGTGCATTATGATTGTTGATAAACTATATTTATAGT
* ** * *
18478889 AATTAAAAGCCTAAACATTGTAGGATATTCAGTATTGAACTAGATAGGTTTTTGTGCATATTAAG
66 AATTAAAAGCCTAAACATTGCAAAAAATTCAGTATTGAACTAGATAGGTTATTGTGCATATTAAG
18478954 ATTCAATGACTTTGTGAAAGGTGAA
131 ATTCAATGACTTTGTGAAAGGTGAA
18478979 AACTATTGGA
Statistics
Matches: 135, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
155 1 0.01
156 126 0.93
157 1 0.01
158 7 0.05
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.42
Consensus pattern (156 bp):
TATTGCGTATTTTGCTTTGTGATTATGGTTGTGCATTATGATTGTTGATAAACTATATTTATAGT
AATTAAAAGCCTAAACATTGCAAAAAATTCAGTATTGAACTAGATAGGTTATTGTGCATATTAAG
ATTCAATGACTTTGTGAAAGGTGAAG
Found at i:18484694 original size:12 final size:12
Alignment explanation
Indices: 18484677--18484719 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
18484667 AAAAGATGCA
18484677 AATAAAAATTTT
1 AATAAAAATTTT
18484689 AAT-AAAATTTT
1 AATAAAAATTTT
*
18484700 -ATATAAA-TTT
1 AATAAAAATTTT
18484710 AATAAAAATT
1 AATAAAAATT
18484720 AAAAAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 5 0.19
11 17 0.65
12 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AATAAAAATTTT
Found at i:18487392 original size:2 final size:2
Alignment explanation
Indices: 18487385--18487414 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18487375 ATAACAACAA
*
18487385 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18487415 TTTCAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18493087 original size:19 final size:19
Alignment explanation
Indices: 18493046--18493088 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
18493036 AGTAATGAGT
* *
18493046 AAAATAATAATCAAAGATG
1 AAAATAATAATAAAAGATA
18493065 AAAATAATAATAATAAG-TA
1 AAAATAATAATAA-AAGATA
18493084 AAAAT
1 AAAAT
18493089 TTAAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.23
Consensus pattern (19 bp):
AAAATAATAATAAAAGATA
Found at i:18493451 original size:22 final size:22
Alignment explanation
Indices: 18493426--18493470 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
18493416 TAAATTCAGA
*
18493426 AAACCCAAAAG-CAAATGAAATC
1 AAACCC-AAAGCCAAATAAAATC
*
18493448 AAACTCAAAGCCAAATAAAATC
1 AAACCCAAAGCCAAATAAAATC
18493470 A
1 A
18493471 CAGAACCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.60, C:0.22, G:0.07, T:0.11
Consensus pattern (22 bp):
AAACCCAAAGCCAAATAAAATC
Found at i:18493971 original size:4 final size:4
Alignment explanation
Indices: 18493964--18494006 Score: 79
Period size: 4 Copynumber: 11.0 Consensus size: 4
18493954 AAAAAAAAAG
18493964 ATAA ATAA ATAA ATAA ATAA ATAA AT-A ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
18494007 GACAAACAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.08
4 35 0.92
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:18497385 original size:100 final size:99
Alignment explanation
Indices: 18497268--18497496 Score: 289
Period size: 100 Copynumber: 2.3 Consensus size: 99
18497258 TAATCTTATT
* * * * * *
18497268 AAACTATTAGAGGATTTAAATCTTGAGATTA-AATCATATCATATTATTGGCAGGTTTAATGATC
1 AAACTATTAGAAGATTTAAAT-TTGAAATTAGAA-CATAACAAATTATTGGAAGGTTTAATGATA
* *
18497332 TTTTAAAGAAATTAAATTTTAAAATTTAATCATACC
64 TTTTAAAGAAATTAAAATTTAAAATCTAATCATACC
* * * *
18497368 AAATTGTTGGAAGATTTAAAATTTGAAATTAGAACTTAACAAATTATTGGAAGGTTTAATGATAT
1 AAACTATTAGAAGATTT-AAATTTGAAATTAGAACATAACAAATTATTGGAAGGTTTAATGATAT
* *
18497433 TTTAAATAAATTAAAATTTAAAATCTAATCTTACC
65 TTTAAAGAAATTAAAATTTAAAATCTAATCATACC
*
18497468 AAACTATTAGAAGATTTAAATTTCAAATT
1 AAACTATTAGAAGATTTAAATTTGAAATT
18497497 CAATTTTACC
Statistics
Matches: 109, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
99 11 0.10
100 92 0.84
101 6 0.06
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.38
Consensus pattern (99 bp):
AAACTATTAGAAGATTTAAATTTGAAATTAGAACATAACAAATTATTGGAAGGTTTAATGATATT
TTAAAGAAATTAAAATTTAAAATCTAATCATACC
Found at i:18497506 original size:39 final size:39
Alignment explanation
Indices: 18497446--18497520 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
18497436 AAATAAATTA
18497446 AAATTTAAAATCTAATCTTACCAAACTATTAGAAGATTT
1 AAATTTAAAATCTAATCTTACCAAACTATTAGAAGATTT
* * *
18497485 AAATTTCAAAT-TCAATTTTACCAAACTATTGGAAGA
1 AAATTTAAAATCT-AATCTTACCAAACTATTAGAAGA
18497521 CTAAATAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 1 0.03
39 31 0.97
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (39 bp):
AAATTTAAAATCTAATCTTACCAAACTATTAGAAGATTT
Found at i:18498763 original size:31 final size:32
Alignment explanation
Indices: 18498686--18498756 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 32
18498676 TATTATTTTT
* *
18498686 AAAAATTAAGTAAAAACTTTTATATCAATTTA
1 AAAAATTAAATAAAAACTTCTATATCAATTTA
18498718 AAAAATTAAATAAAAAC-TCTATATC-ATGTTA
1 AAAAATTAAATAAAAACTTCTATATCAAT-TTA
*
18498749 AAATATTA
1 AAAAATTA
18498757 TTTAAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
30 2 0.06
31 17 0.49
32 16 0.46
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (32 bp):
AAAAATTAAATAAAAACTTCTATATCAATTTA
Found at i:18501597 original size:19 final size:19
Alignment explanation
Indices: 18501573--18501624 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 19
18501563 TTTCATTTTG
18501573 ATTTATTATTATATAATAA
1 ATTTATTATTATATAATAA
18501592 ATTTA-TA--A-AT-A-AA
1 ATTTATTATTATATAATAA
*
18501605 TTTTATTATTATATAATAA
1 ATTTATTATTATATAATAA
18501624 A
1 A
18501625 CTAATAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 12
0.64 0.05 0.31
Matches are distributed among these distances:
13 6 0.24
14 3 0.12
15 2 0.08
16 2 0.08
17 2 0.08
18 3 0.12
19 7 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTATTATTATATAATAA
Found at i:18501615 original size:32 final size:32
Alignment explanation
Indices: 18501574--18501647 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
18501564 TTCATTTTGA
* *
18501574 TTTATTATTATATAATAAATTTATAAATAAAT
1 TTTATTATTATATAATAAACTAATAAATAAAT
18501606 TTTATTATTATATAATAAACTAATAAATAAAT
1 TTTATTATTATATAATAAACTAATAAATAAAT
18501638 TTTAATTATT
1 TTT-ATTATT
18501648 TACTAATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 33 0.85
33 6 0.15
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (32 bp):
TTTATTATTATATAATAAACTAATAAATAAAT
Found at i:18504486 original size:21 final size:21
Alignment explanation
Indices: 18504460--18504501 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
18504450 TACAAACTAT
18504460 TGAAGAAATCAAATAACTAAG
1 TGAAGAAATCAAATAACTAAG
18504481 TGAAGAAATCAAATAACTAAG
1 TGAAGAAATCAAATAACTAAG
18504502 CAAACAACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.10, G:0.14, T:0.19
Consensus pattern (21 bp):
TGAAGAAATCAAATAACTAAG
Found at i:18509167 original size:9 final size:10
Alignment explanation
Indices: 18509153--18509188 Score: 56
Period size: 11 Copynumber: 3.6 Consensus size: 10
18509143 ACAAAAATAT
18509153 ATTTTAAAAA
1 ATTTTAAAAA
18509163 A-TTTAAAAA
1 ATTTTAAAAA
18509172 ATTTTAAAAAA
1 ATTTT-AAAAA
18509183 ATTTTA
1 ATTTTA
18509189 CCTGAACTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 9 0.38
10 5 0.21
11 10 0.42
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:18509171 original size:10 final size:10
Alignment explanation
Indices: 18509153--18509186 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
18509143 ACAAAAATAT
*
18509153 ATTTTAAAAA
1 ATTTAAAAAA
18509163 ATTTAAAAAA
1 ATTTAAAAAA
*
18509173 TTTTAAAAAA
1 ATTTAAAAAA
18509183 ATTT
1 ATTT
18509187 TACCTGAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTTAAAAAA
Found at i:18510739 original size:100 final size:99
Alignment explanation
Indices: 18510584--18511306 Score: 602
Period size: 100 Copynumber: 7.2 Consensus size: 99
18510574 AAGGCTTAAA
* * * * *
18510584 ACTTTAAAAATTTCATCTTGAAAAAA-CTCCTCTTAA-TAGAAGCTCAACAATTTTAAAAATTTT
1 ACTTTAAAAATCTCATCTTGAAAAAAGCTCCTC-TAAGCAGAGGCTCAACAACTTTAAAAA-TCT
* * *
18510647 TATCTTGAAAAAGCTTCTCTCAATAGAGGCTCAACG
64 CATCTTAAAAAAGCTTCTCTCAACAGAGGCTCAACG
* *
18510683 ACTTTAAAAATCTCATCTTGAAAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATCTCA
1 ACTTTAAAAATCTCATCTTGAAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCA
* * *
18510748 TTTTAAAAAAAGCTTCTCTCAACAGAAGCTCAATG
66 TCTT-AAAAAAGCTTCTCTCAACAGAGGCTCAACG
* * * ** * * *
18510783 ACTTTTAAAAATCTAATCTTGGAAAAAGATTTTCTAAGCATAGGTTCAACAACTTTAAAAATTTC
1 AC-TTTAAAAATCTCATCTTGAAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATCTC
* * * * *
18510848 ATCTTGAAAAAGCTCCTGT-AAGCAGAGGCTTAACA
65 ATCTTAAAAAAGCTTCTCTCAA-CAGAGGCTCAACG
* * * * **
18510883 ACTTTAAAAATCTCATTTTG-AAAAGGCTCTTCTAAGCAGAGGCTCAATAGTTTTAAAAATTCTC
1 ACTTTAAAAATCTCATCTTGAAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAA-TCTC
* * *
18510947 ATCTTAAAAAAAGC-TCATCTTAGCAGAGGCTTAACG
65 ATCTT-AAAAAAGCTTC-TCTCAACAGAGGCTCAACG
* * * * * * *
18510983 ACTTTAAAAATCTCATTTTAAAAAAAAACTCCTCTTAGCAGAAGCTTAACGACTTTAAAAATCTC
1 ACTTTAAAAATCTCATCTT-GAAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATCTC
*
18511048 ATCTTAAAAAAG-TTCATCTCAACAGAGGCTTAACG
65 ATCTTAAAAAAGCTTC-TCTCAACAGAGGCTCAACG
* * * * * * ** *
18511083 ATTTTAAAAATCTCATCTTGGAAAAAGCTCATCTCAGCAAAAGCTCAATGACTTTTAAAAATCTA
1 ACTTTAAAAATCTCATCTTGAAAAAAGCTCCTCTAAGCAGAGGCTCAACAAC-TTTAAAAATCTC
* * *
18511148 ATCTTGGAAAAAAAACTCCTCT-AAGCAGAAGGCTCAACA
65 ATCTT---AAAAAAGCTTCTCTCAA-CAG-AGGCTCAACG
* * * *
18511187 ACTTTGAAAATCTCATCTTG-AAAAAGCTTCCTCTAAACAGAGGCTCAATAACTTTAAAAATTTT
1 ACTTTAAAAATCTCATCTTGAAAAAAGC-TCCTCTAAGCAGAGGCTCAACAACTTTAAAAA-TCT
* * * * *
18511251 TATCTTAAAAAA--ATCTCATTTAAGTAGAGGCTCAACA
64 CATCTTAAAAAAGCTTCTC--TCAA-CAGAGGCTCAACG
*
18511288 ACTTTAAAAATTTCATCTT
1 ACTTTAAAAATCTCATCTT
18511307 TTTCCAAACC
Statistics
Matches: 512, Mismatches: 88, Indels: 46
0.79 0.14 0.07
Matches are distributed among these distances:
98 31 0.06
99 88 0.17
100 177 0.35
101 100 0.20
102 36 0.07
103 27 0.05
104 53 0.10
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (99 bp):
ACTTTAAAAATCTCATCTTGAAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCA
TCTTAAAAAAGCTTCTCTCAACAGAGGCTCAACG
Found at i:18510795 original size:51 final size:49
Alignment explanation
Indices: 18510584--18511306 Score: 471
Period size: 50 Copynumber: 14.4 Consensus size: 49
18510574 AAGGCTTAAA
* * * * * *
18510584 ACTTTAAAAATTTCATCTTGAAAAAA-CTCCTCTTAATAGAAGCTCAACA
1 ACTTTAAAAATCTCATCTT-AAAAAAGCTTCTCTCAACAGAGGCTCAACG
* * * * *
18510633 ATTTTAAAAATTTTTATCTTGAAAAAGCTTCTCTCAATAGAGGCTCAACG
1 ACTTTAAAAA-TCTCATCTTAAAAAAGCTTCTCTCAACAGAGGCTCAACG
* ** *
18510683 ACTTTAAAAATCTCATCTTGAAAAAAGCTCCTCTCAGTAGAGGCTCAACA
1 ACTTTAAAAATCTCATCTT-AAAAAAGCTTCTCTCAACAGAGGCTCAACG
* * *
18510733 ACTTTAAAAATCTCATTTTAAAAAAAGCTTCTCTCAACAGAAGCTCAATG
1 ACTTTAAAAATCTCATCTT-AAAAAAGCTTCTCTCAACAGAGGCTCAACG
* * * * * * *
18510783 ACTTTTAAAAATCTAATCTTGGAAAAAGATTTTCT-AAGCATAGGTTCAACA
1 AC-TTTAAAAATCTCATCTT-AAAAAAGCTTCTCTCAA-CAGAGGCTCAACG
* * * * * *
18510834 ACTTTAAAAATTTCATCTTGAAAAAGCTCCTGT-AAGCAGAGGCTTAACA
1 ACTTTAAAAATCTCATCTTAAAAAAGCTTCTCTCAA-CAGAGGCTCAACG
* * * *
18510883 ACTTTAAAAATCTCATTTTGAAAAGGC-TCT-TCTAAGCAGAGGCTCAA-T
1 ACTTTAAAAATCTCATCTTAAAAAAGCTTCTCTC-AA-CAGAGGCTCAACG
* * * *
18510931 AGTTTTAAAAATTCTCATCTTAAAAAAAGC-TCATCTTAGCAGAGGCTTAACG
1 A-CTTTAAAAA-TCTCATCTT-AAAAAAGCTTC-TCTCAACAGAGGCTCAACG
* * * * * * *
18510983 ACTTTAAAAATCTCATTTTAAAAAAAAACTCCTCTTAGCAGAAGCTTAACG
1 ACTTTAAAAATCTCATCTT--AAAAAAGCTTCTCTCAACAGAGGCTCAACG
*
18511034 ACTTTAAAAATCTCATCTTAAAAAAG-TTCATCTCAACAGAGGCTTAACG
1 ACTTTAAAAATCTCATCTTAAAAAAGCTTC-TCTCAACAGAGGCTCAACG
* * * * * *
18511083 ATTTTAAAAATCTCATCTTGGAAAAAGC-TCATCTCAGCAAAAGCTCAATG
1 ACTTTAAAAATCTCATCTT-AAAAAAGCTTC-TCTCAACAGAGGCTCAACG
* * * *
18511133 ACTTTTAAAAATCTAATCTTGGAAAAAAAACTCCTCT-AAGCAGAAGGCTCAACA
1 AC-TTTAAAAATCTCATCTT---AAAAAAGCTTCTCTCAA-CAG-AGGCTCAACG
* * * **
18511187 ACTTTGAAAATCTCATCTTGAAAAAGCTTCCTCTAAACAGAGGCTCAATA
1 ACTTTAAAAATCTCATCTTAAAAAAGCTT-CTCTCAACAGAGGCTCAACG
* * * * * *
18511237 ACTTTAAAAATTTTTATCTTAAAAAA--ATCTCATTTAAGTAGAGGCTCAACA
1 ACTTTAAAAA-TCTCATCTTAAAAAAGCTTCTC--TCAA-CAGAGGCTCAACG
*
18511288 ACTTTAAAAATTTCATCTT
1 ACTTTAAAAATCTCATCTT
18511307 TTTCCAAACC
Statistics
Matches: 544, Mismatches: 100, Indels: 59
0.77 0.14 0.08
Matches are distributed among these distances:
47 1 0.00
48 8 0.01
49 130 0.24
50 199 0.37
51 162 0.30
52 7 0.01
53 27 0.05
54 10 0.02
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (49 bp):
ACTTTAAAAATCTCATCTTAAAAAAGCTTCTCTCAACAGAGGCTCAACG
Found at i:18519433 original size:8 final size:8
Alignment explanation
Indices: 18519395--18519444 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
18519385 ATTTTTTAAT
18519395 TATTTTTA
1 TATTTTTA
*
18519403 -AATTTT-
1 TATTTTTA
*
18519409 TATTTATA
1 TATTTTTA
**
18519417 TATAATTA
1 TATTTTTA
18519425 TATTTTTA
1 TATTTTTA
18519433 TATTTTTA
1 TATTTTTA
18519441 TATT
1 TATT
18519445 AAAAATATTT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
7 9 0.28
8 23 0.72
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
TATTTTTA
Found at i:18519454 original size:17 final size:18
Alignment explanation
Indices: 18519432--18519467 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
18519422 TTATATTTTT
18519432 ATATTTT-TATATTAAAA
1 ATATTTTATATATTAAAA
*
18519449 ATATTTTATATTTTAAAA
1 ATATTTTATATATTAAAA
18519467 A
1 A
18519468 ATAATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATTTTATATATTAAAA
Found at i:18523620 original size:13 final size:13
Alignment explanation
Indices: 18523604--18523628 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18523594 TTATTGATAT
18523604 TTATTATTTTTTA
1 TTATTATTTTTTA
18523617 TTATTATTTTTT
1 TTATTATTTTTT
18523629 GAAGAGAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTATTTTTTA
Found at i:18525165 original size:11 final size:11
Alignment explanation
Indices: 18525151--18525193 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
18525141 CTTCTTGAAT
18525151 TCTTTTGTTTG
1 TCTTTTGTTTG
* *
18525162 TCTTTTTTTTT
1 TCTTTTGTTTG
*
18525173 TCTTTTTTTTG
1 TCTTTTGTTTG
*
18525184 TATTTTGTTT
1 TCTTTTGTTT
18525194 AATTTAACAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.02, C:0.07, G:0.09, T:0.81
Consensus pattern (11 bp):
TCTTTTGTTTG
Found at i:18529509 original size:387 final size:386
Alignment explanation
Indices: 18528787--18529849 Score: 1370
Period size: 387 Copynumber: 2.7 Consensus size: 386
18528777 TATTCAATAG
* *
18528787 CAAATGTAATTCAAAGTTGAATATTTATAATTGAAAAAAGTCTTCGCAAAATTATTTTATATATT
1 CAAATGTAATTCAAAGTTGAATATTTATAATTGAAAAAAGTCTTTGCAAAATTATTCTATATATT
* * *
18528852 AATTATGGCAATTAAA-TTTCTGTTACCATATTTATAAATTTAATTAAGAATAATTTAAGGTAAA
66 AATGATGGCAATTAAACTTT-TGTTACCTTATTTATAAATTTAATTGAGAATAATTTAAGGTAAA
18528916 TAAAAATTATTTATTTAATTTATTTTTTAATTATTAAATTACATTTATTAGAGAACACATATCAT
130 TAAAAATTATTTATTTAATTTATTTTTTAATTATTAAATTACATTTATTAGAGAACAC--ATCAT
* * * * * * *
18528981 TTTTTTAGATTGTCTACATATCGAAAATATAAATTATCCACATTAAATTATTT-CTTTTGGTTAG
193 TTTTTTAAATTATCCACATGTCGAAAATATAAACTAT-TACATTAAATTATTTCCTTTTTGTTAG
* * * * ** ***
18529045 AGTCTTTAGTTTTTGTATATTTATATAAGATATAAGATTAGTTGAAATGTTAATGCGGTGGATTG
257 AGGCTTTAGCTTTTATATATTTATATAAGATATAAGAATAGTTGAAATGAAAAAAAGGTGGATTG
* * * * * * *
18529110 ACAATGAAAACCTATTCATATCTTAAAAACTAGAATTAAATATTGGAAAGTGAAT-TTTTTTACA
322 ACAATAAAAACCTATTCATATATCAAAAAATAGAACTAAATATTGAAAAGTGAATATTGTTTACA
* * * *
18529174 TAAATGTAACTCAAAGTTGAATATTTATAATAGAAAAAAGTATTTGCAAAATTATTCTATATATT
1 CAAATGTAATTCAAAGTTGAATATTTATAATTGAAAAAAGTCTTTGCAAAATTATTCTATATATT
* * *
18529239 AATGATGGCAATTAAACTTTTGTTATCTTATTTATAAATTTAATTGAGAATGATTTAAGATAAAT
66 AATGATGGCAATTAAACTTTTGTTACCTTATTTATAAATTTAATTGAGAATAATTTAAGGTAAAT
* * * *
18529304 AAAAATAAATTTATTTCATTAATTTATTTAATTATTAAATTGCATTTATTAGAGAACACATCATT
131 AAAAAT-TATTTATTTAATTTATTT-TTTAATTATTAAATTACATTTATTAGAGAACACATCATT
* * *
18529369 TTTTTATATTATCCACATGTC-AAAATATACACTATTTACATTGAATTATTTCCTTTTTGTTAGA
194 TTTTTAAATTATCCACATGTCGAAAATATAAACTA-TTACATTAAATTATTTCCTTTTTGTTAGA
* * * *
18529433 GGCATTAGCTTTTATATATTCATATAAGATGAATTAGAAT-G-T-CAATGCAAAAAAAGGTGGAT
258 GGCTTTAGCTTTTATATATTTATATAAGAT--ATAAGAATAGTTGAAATG-AAAAAAAGGTGGAT
*
18529495 TGATAATAAAAACCTATTCATATATCAAAAAATAGAACTAAATATTGAAAAGTGAATATTGTTTA
320 TGACAATAAAAACCTATTCATATATCAAAAAATAGAACTAAATATTGAAAAGTGAATATTGTTTA
18529560 CA
385 CA
* * * * * *
18529562 CAAATATAATTTAAAGTTGGATATTTATACTTGAAAAAAATCTTTACAAAATTATTCTATATATT
1 CAAATGTAATTCAAAGTTGAATATTTATAATTGAAAAAAGTCTTTGCAAAATTATTCTATATATT
*
18529627 AATGATGGCAATTAAACTTTTATTACCTTATTTATAAATTTAATTGAGAATAATTTAAGGTAAAT
66 AATGATGGCAATTAAACTTTTGTTACCTTATTTATAAATTTAATTGAGAATAATTTAAGGTAAAT
* * * * * *
18529692 AAAAATTATTAATTTAATTTA-TTTTTAATTGTTAAATTATATTTATTAAAGAACATATATTATT
131 AAAAATTATTTATTTAATTTATTTTTTAATTATTAAATTACATTTATTAGAGAAC--ACATCATT
* * * *
18529756 TTTTTAAATTATCCACATGTCGAAAATGTAGACTA-TCCATCAAATTATTTCCTTTTTTGTTAGA
194 TTTTTAAATTATCCACATGTCGAAAATATAAACTATTACATTAAATTATTTCC-TTTTTGTTAGA
18529820 GGCTTTAGCTTTTATATATTTATATAAGAT
258 GGCTTTAGCTTTTATATATTTATATAAGAT
18529850 TAGTTTGTGT
Statistics
Matches: 585, Mismatches: 78, Indels: 26
0.85 0.11 0.04
Matches are distributed among these distances:
385 27 0.05
386 44 0.08
387 316 0.54
388 160 0.27
389 38 0.06
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (386 bp):
CAAATGTAATTCAAAGTTGAATATTTATAATTGAAAAAAGTCTTTGCAAAATTATTCTATATATT
AATGATGGCAATTAAACTTTTGTTACCTTATTTATAAATTTAATTGAGAATAATTTAAGGTAAAT
AAAAATTATTTATTTAATTTATTTTTTAATTATTAAATTACATTTATTAGAGAACACATCATTTT
TTTAAATTATCCACATGTCGAAAATATAAACTATTACATTAAATTATTTCCTTTTTGTTAGAGGC
TTTAGCTTTTATATATTTATATAAGATATAAGAATAGTTGAAATGAAAAAAAGGTGGATTGACAA
TAAAAACCTATTCATATATCAAAAAATAGAACTAAATATTGAAAAGTGAATATTGTTTACA
Found at i:18529983 original size:17 final size:18
Alignment explanation
Indices: 18529951--18529989 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
18529941 CATATATGGG
18529951 TTTAATAAAATAAAAAAA
1 TTTAATAAAATAAAAAAA
*
18529969 TTTAA-AAAATCAAAAAA
1 TTTAATAAAATAAAAAAA
18529986 TTTA
1 TTTA
18529990 TCTCATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
TTTAATAAAATAAAAAAA
Found at i:18530558 original size:2 final size:2
Alignment explanation
Indices: 18530551--18530592 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
18530541 ATGGATTACT
18530551 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18530591 TA
1 TA
18530593 CATAAATAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18533875 original size:24 final size:24
Alignment explanation
Indices: 18533848--18533894 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
18533838 AATTTTAGAT
*
18533848 TTTGTT-GGATTACATCTTTACAAA
1 TTTGTTAGG-TTACATCTCTACAAA
18533872 TTTGTTAGGTTACATCTCTACAA
1 TTTGTTAGGTTACATCTCTACAA
18533895 TATTATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.45
Consensus pattern (24 bp):
TTTGTTAGGTTACATCTCTACAAA
Found at i:18544250 original size:13 final size:13
Alignment explanation
Indices: 18544232--18544259 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18544222 AACAACACAA
18544232 AATCGAGGAACAT
1 AATCGAGGAACAT
18544245 AATCGAGGAACAT
1 AATCGAGGAACAT
18544258 AA
1 AA
18544260 ACTGGAAAGA
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:0.50, C:0.14, G:0.21, T:0.14
Consensus pattern (13 bp):
AATCGAGGAACAT
Found at i:18548576 original size:3 final size:3
Alignment explanation
Indices: 18548568--18548595 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
18548558 CCACTCAAAT
18548568 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
18548596 ACTAAGCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:18551106 original size:15 final size:17
Alignment explanation
Indices: 18551065--18551106 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
18551055 ATCATAATTG
*
18551065 ATATAA-ATCATATCAT
1 ATATAATATTATATCAT
18551081 ATATAATATTATATCAT
1 ATATAATATTATATCAT
18551098 A-AT-ATATTA
1 ATATAATATTA
18551107 CAAAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 6 0.25
16 8 0.33
17 10 0.42
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAATATTATATCAT
Found at i:18551447 original size:75 final size:77
Alignment explanation
Indices: 18551330--18551479 Score: 198
Period size: 76 Copynumber: 2.0 Consensus size: 77
18551320 TTTTAATTTA
* * * *
18551330 AATATATTATTTTTTAAAAATATATTTCCAAATAATCTAAATATATATATGTT-AATTTAAAATT
1 AATATATTATCTTTTAAAAATAGATTTCCAAATAATATAAATATATATATGTTAAATTTAAAAAT
*
18551394 TTCAAATATAAT
66 CTCAAATATAAT
* * *
18551406 AATATATTATCTTTT-AAAATAGACTTT-CTAATAATATAAATATATATTTTTTAAATTTAAAAA
1 AATATATTATCTTTTAAAAATAGA-TTTCCAAATAATATAAATATATATATGTTAAATTTAAAAA
18551469 TCTCAAATATA
65 TCTCAAATATA
18551480 GTGATATTAT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
75 28 0.44
76 36 0.56
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.45
Consensus pattern (77 bp):
AATATATTATCTTTTAAAAATAGATTTCCAAATAATATAAATATATATATGTTAAATTTAAAAAT
CTCAAATATAAT
Found at i:18551546 original size:69 final size:69
Alignment explanation
Indices: 18551420--18551548 Score: 168
Period size: 69 Copynumber: 1.9 Consensus size: 69
18551410 TATTATCTTT
* * *
18551420 TAAAATAGACTTTCTAATAATATAAATATATATTTTTTAAATTTAAAAATCTCAAATATAGTGAT
1 TAAAATAAACTTTCTAATAATATAAATATATATTATTTAAATTTAAAAATCTAAAATATAGTGAT
18551485 ATTA
66 ATTA
* * * * * * *
18551489 TAAAATAAATTTTTTAATAATTTAAATATATGTTATTTAAATTTGAAATTTTAAAATATA
1 TAAAATAAACTTTCTAATAATATAAATATATATTATTTAAATTTAAAAATCTAAAATATA
18551549 ATTTTTATTT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
69 50 1.00
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (69 bp):
TAAAATAAACTTTCTAATAATATAAATATATATTATTTAAATTTAAAAATCTAAAATATAGTGAT
ATTA
Found at i:18557523 original size:38 final size:38
Alignment explanation
Indices: 18557468--18557545 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
18557458 CATCCTAGAT
18557468 TTAACAATAGTAAAAAGTAAGACAAAAGGTAACAAATC
1 TTAACAATAGTAAAAAGTAAGACAAAAGGTAACAAATC
*
18557506 TTAACAATAGTAGAAAGTAAGACAAAAGGTAACAAATC
1 TTAACAATAGTAAAAAGTAAGACAAAAGGTAACAAATC
18557544 TT
1 TT
18557546 TTCTTTGAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (38 bp):
TTAACAATAGTAAAAAGTAAGACAAAAGGTAACAAATC
Found at i:18564637 original size:14 final size:14
Alignment explanation
Indices: 18564618--18564653 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
18564608 TTTTCTTTGT
18564618 TATTTTGAGGTAGC
1 TATTTTGAGGTAGC
* *
18564632 TATTTTAAGGTGGC
1 TATTTTGAGGTAGC
18564646 TATTTTGA
1 TATTTTGA
18564654 AGTGGCTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.22, C:0.06, G:0.25, T:0.47
Consensus pattern (14 bp):
TATTTTGAGGTAGC
Found at i:18564658 original size:14 final size:14
Alignment explanation
Indices: 18564618--18564660 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
18564608 TTTTCTTTGT
* *
18564618 TATTTTGAGGTAGC
1 TATTTTGAAGTGGC
18564632 TATTTT-AAGGTGGC
1 TATTTTGAA-GTGGC
18564646 TATTTTGAAGTGGC
1 TATTTTGAAGTGGC
18564660 T
1 T
18564661 TTATTCCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 1 0.04
14 22 0.88
15 2 0.08
ACGTcount: A:0.21, C:0.07, G:0.28, T:0.44
Consensus pattern (14 bp):
TATTTTGAAGTGGC
Found at i:18569590 original size:45 final size:45
Alignment explanation
Indices: 18569541--18569685 Score: 148
Period size: 45 Copynumber: 3.0 Consensus size: 45
18569531 TTTATATCCT
18569541 TTATTCAATATCATTTTATACTTTGTATATATTATTCTTAAAAAA
1 TTATTCAATATCATTTTATACTTTGTATATATTATTCTTAAAAAA
* * ***
18569586 TTATTCAATATCCTTTATTCAATATATACTTCGTATATATTATTCGTATAACCT
1 TTATTCAATAT-C---ATT---T-TATACTTTGTATATATTATTCTTA-AAAAA
*
18569640 TTATTCAATATC-TATTATACTTTGTATATATTATTCTTAAAAAA
1 TTATTCAATATCATTTTATACTTTGTATATATTATTCTTAAAAAA
18569684 TT
1 TT
18569686 TTGAGACATT
Statistics
Matches: 80, Mismatches: 11, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
44 4 0.05
45 33 0.41
46 2 0.03
49 4 0.05
52 1 0.01
53 23 0.29
54 13 0.16
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (45 bp):
TTATTCAATATCATTTTATACTTTGTATATATTATTCTTAAAAAA
Found at i:18571597 original size:16 final size:16
Alignment explanation
Indices: 18571578--18571625 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
18571568 AATTTGAATT
18571578 AATTTGAATTCGATTC
1 AATTTGAATTCGATTC
* ** *
18571594 AATTTGAGTTTAAATC
1 AATTTGAATTCGATTC
18571610 AATTTGAATTCTGATT
1 AATTTGAATTC-GATT
18571626 AACTTAAAAT
Statistics
Matches: 23, Mismatches: 8, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
16 21 0.91
17 2 0.09
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.46
Consensus pattern (16 bp):
AATTTGAATTCGATTC
Found at i:18571598 original size:32 final size:32
Alignment explanation
Indices: 18571558--18571633 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
18571548 TTCAAGTTTA
* *
18571558 GATTAATTTAAATTTGAATTAATTTGAATTC-
1 GATTAATTTAAATTTAAATCAATTTGAATTCT
* *
18571589 GATTCAATTTGAGTTTAAATCAATTTGAATTCT
1 GATT-AATTTAAATTTAAATCAATTTGAATTCT
*
18571622 GATTAACTTAAA
1 GATTAATTTAAA
18571634 ATCCAAAACA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
31 4 0.11
32 28 0.78
33 4 0.11
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.45
Consensus pattern (32 bp):
GATTAATTTAAATTTAAATCAATTTGAATTCT
Found at i:18573010 original size:14 final size:14
Alignment explanation
Indices: 18572991--18573018 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18572981 AACTAAACTT
18572991 TGAGTTTAAAGACA
1 TGAGTTTAAAGACA
18573005 TGAGTTTAAAGACA
1 TGAGTTTAAAGACA
18573019 GATTTTCTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (14 bp):
TGAGTTTAAAGACA
Found at i:18576779 original size:18 final size:17
Alignment explanation
Indices: 18576756--18576798 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
18576746 TATTATATGT
18576756 TAAATAATTTATTGATA
1 TAAATAATTTATTGATA
* *
18576773 CTAAATATTTTTTTTGATA
1 -TAAATA-ATTTATTGATA
18576792 TAAATAA
1 TAAATAA
18576799 AAAATATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (17 bp):
TAAATAATTTATTGATA
Found at i:18576803 original size:25 final size:26
Alignment explanation
Indices: 18576775--18576828 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
18576765 TATTGATACT
* *
18576775 AAATATTTTTTTTGATATA-AATAAA
1 AAATATATTTTTTAATATATAATAAA
*
18576800 AAATATATTTTTTAATATATATTAAA
1 AAATATATTTTTTAATATATAATAAA
18576826 AAA
1 AAA
18576829 ATGTTAATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
AAATATATTTTTTAATATATAATAAA
Found at i:18577022 original size:31 final size:31
Alignment explanation
Indices: 18576981--18577042 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
18576971 ACGGTACATA
18576981 ATTTAAAAATTTATGAA-ACAAATTATATATT
1 ATTTAAAAATTTA-GAATACAAATTATATATT
* * *
18577012 ATTTGAAAATTTAGAATGCAAATTGTATATT
1 ATTTAAAAATTTAGAATACAAATTATATATT
18577043 TTACTTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (31 bp):
ATTTAAAAATTTAGAATACAAATTATATATT
Found at i:18577766 original size:13 final size:13
Alignment explanation
Indices: 18577743--18577775 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
18577733 ACCACACCCT
*
18577743 ATTTGTTTTTTT-
1 ATTTTTTTTTTTA
18577755 ATTTTTTTTTTTA
1 ATTTTTTTTTTTA
18577768 ATTTTTTT
1 ATTTTTTT
18577776 ATTAATGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (13 bp):
ATTTTTTTTTTTA
Found at i:18580745 original size:13 final size:13
Alignment explanation
Indices: 18580727--18580773 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
18580717 AAGAATTTAA
18580727 AATATGATATAAT
1 AATATGATATAAT
18580740 AATATGATAT--T
1 AATATGATATAAT
* * *
18580751 AATACGATACAAA
1 AATATGATATAAT
18580764 AATATGATAT
1 AATATGATAT
18580774 GATTTAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
11 9 0.33
13 18 0.67
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (13 bp):
AATATGATATAAT
Found at i:18580875 original size:31 final size:31
Alignment explanation
Indices: 18580817--18580899 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 31
18580807 TTTAATAAAA
*
18580817 ATAAAA-AAAATATATAT-TAT-ATTTTTAT
1 ATAAAATAAAATATAAATATATAATTTTTAT
* * *
18580845 ATTGATATAAATTAT-AATATATAATTTTTAT
1 A-TAAAATAAAATATAAATATATAATTTTTAT
18580876 ATAAAATAAAATATAAATATATAA
1 ATAAAATAAAATATAAATATATAA
18580900 AATTTAATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
28 1 0.02
29 5 0.12
30 19 0.44
31 18 0.42
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (31 bp):
ATAAAATAAAATATAAATATATAATTTTTAT
Found at i:18580896 original size:20 final size:19
Alignment explanation
Indices: 18580873--18580933 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 19
18580863 ATATAATTTT
18580873 TATATAAAATAAAATATAAA
1 TATATAAAAT-AAATATAAA
* *
18580893 TATATAAAATTTAATAT-AT
1 TATATAAAA-TAAATATAAA
* *
18580912 TATATGATATAAATATAAA
1 TATATAAAATAAATATAAA
18580931 TAT
1 TAT
18580934 CATCTTGTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
18 6 0.18
19 12 0.36
20 14 0.42
21 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
TATATAAAATAAATATAAA
Found at i:18580898 original size:33 final size:33
Alignment explanation
Indices: 18580796--18580904 Score: 86
Period size: 31 Copynumber: 3.4 Consensus size: 33
18580786 TAGTATTAAT
* *
18580796 TATATTATAAATTTAATA-AAAATAAAA-A-AAA
1 TATA-TATAATTTTTATATAAAATAAAATATAAA
** *
18580827 TATATATTATATTTTTATAT-TGATATAAAT-TATA
1 TATATA-TA-ATTTTTATATAAAATA-AAATATAAA
18580861 -ATATATAATTTTTATATAAAATAAAATATAAA
1 TATATATAATTTTTATATAAAATAAAATATAAA
*
18580893 TATATAAAATTT
1 TATATATAATTT
18580905 AATATATTAT
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
30 2 0.03
31 20 0.33
32 18 0.30
33 18 0.30
34 2 0.03
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (33 bp):
TATATATAATTTTTATATAAAATAAAATATAAA
Found at i:18587889 original size:36 final size:38
Alignment explanation
Indices: 18587838--18587908 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
18587828 ATATAAAATA
18587838 ATTTTTATTATTTATTTAA--TTATATATTATATTATAT
1 ATTTTTATTATTTATTTAATGTTATAT-TTATATTATAT
18587875 ATTTTTA-TATTTATTTAATGTTATATTTATATTA
1 ATTTTTATTATTTATTTAATGTTATATTTATATTA
18587909 ATCAAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
36 11 0.34
37 15 0.47
38 6 0.19
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (38 bp):
ATTTTTATTATTTATTTAATGTTATATTTATATTATAT
Found at i:18595769 original size:12 final size:13
Alignment explanation
Indices: 18595752--18595783 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
18595742 TAACCAGACA
18595752 AAACAAAACA-AC
1 AAACAAAACACAC
18595764 AAAC-AAACACAC
1 AAACAAAACACAC
18595776 AAACAAAA
1 AAACAAAA
18595784 AAAAGCAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 10 0.56
13 3 0.17
ACGTcount: A:0.75, C:0.25, G:0.00, T:0.00
Consensus pattern (13 bp):
AAACAAAACACAC
Found at i:18597094 original size:21 final size:20
Alignment explanation
Indices: 18597039--18597100 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
18597029 AAATTAAAAA
18597039 ATAATAATAAAATTAATATT
1 ATAATAATAAAATTAATATT
** * *
18597059 GCAATAATGAGATTAGATATT
1 ATAATAATAAAATTA-ATATT
* *
18597080 ATAATAATAACATTAAAATT
1 ATAATAATAAAATTAATATT
18597100 A
1 A
18597101 AAGAAAAAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (20 bp):
ATAATAATAAAATTAATATT
Found at i:18597302 original size:18 final size:19
Alignment explanation
Indices: 18597257--18597303 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
18597247 TTATTAAAAA
*
18597257 TATAAAAATATTTTTATAT
1 TATAAAAATAATTTTATAT
*
18597276 TA-AATAATAATTTTAT-T
1 TATAAAAATAATTTTATAT
18597293 TATAAAAATAA
1 TATAAAAATAA
18597304 AAAATAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 3 0.12
18 19 0.79
19 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATAAAAATAATTTTATAT
Found at i:18599469 original size:18 final size:18
Alignment explanation
Indices: 18599443--18599477 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18599433 ACTTCCAAGT
* *
18599443 AATATACTCTAGATAAAC
1 AATACACTCTAAATAAAC
18599461 AATACACTCTAAATAAA
1 AATACACTCTAAATAAA
18599478 GTAACTCCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.17, G:0.03, T:0.26
Consensus pattern (18 bp):
AATACACTCTAAATAAAC
Found at i:18609297 original size:18 final size:18
Alignment explanation
Indices: 18609276--18609357 Score: 92
Period size: 18 Copynumber: 4.6 Consensus size: 18
18609266 CACTTATAGC
* *
18609276 ATTACCCTCACCACCAAT
1 ATTACCTTCACCACCAGT
*
18609294 ATTACCTTCACCACTAGT
1 ATTACCTTCACCACCAGT
* *
18609312 GTTACTTTCACCACCAGT
1 ATTACCTTCACCACCAGT
** *
18609330 ATTACCTTCATTACCATT
1 ATTACCTTCACCACCAGT
18609348 ATTACCTTCA
1 ATTACCTTCA
18609358 TCATTAACAT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.28, C:0.34, G:0.04, T:0.34
Consensus pattern (18 bp):
ATTACCTTCACCACCAGT
Found at i:18615237 original size:18 final size:18
Alignment explanation
Indices: 18615214--18615250 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
18615204 AGTCTTGTAA
18615214 AATTTAAAGATTCACAAG
1 AATTTAAAGATTCACAAG
* *
18615232 AATTTAAAGGTTCGCAAG
1 AATTTAAAGATTCACAAG
18615250 A
1 A
18615251 TTTTCAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (18 bp):
AATTTAAAGATTCACAAG
Found at i:18615623 original size:22 final size:21
Alignment explanation
Indices: 18615589--18615648 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
18615579 AAATTCAAAA
*
18615589 ACTCACATAAAAAATTTCAAGG
1 ACTCACATCAAAAATTT-AAGG
*
18615611 -CTCACATCCAAAATTTAAGG
1 ACTCACATCAAAAATTTAAGG
*
18615631 ATTCACATTCAAAAATTT
1 ACTCACA-TCAAAAATTT
18615649 TATAGATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 4 0.12
21 19 0.59
22 9 0.28
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (21 bp):
ACTCACATCAAAAATTTAAGG
Found at i:18615749 original size:46 final size:45
Alignment explanation
Indices: 18615612--18615752 Score: 117
Period size: 46 Copynumber: 3.1 Consensus size: 45
18615602 ATTTCAAGGC
* * **
18615612 TCACATCCAAAATTT-AAGGATTCACATTCAAAAATTTTATAGAT
1 TCACATCCAAGATTTCAAAGATTTTCATTCAAAAATTTTATAGAT
* * * * * * * * *
18615656 TTA-AACCTAGAATTCAAAAAATGTTCAATTGAAAAACTTTAGA-AT
1 TCACATCCAAGATTTC-AAAGATTTTC-ATTCAAAAATTTTATAGAT
18615701 TCACATCCAAGATTTCAAAGATTTTCATTCAAAAAGTTTTATAGAT
1 TCACATCCAAGATTTCAAAGATTTTCATTCAAAAA-TTTTATAGAT
18615747 TCACAT
1 TCACAT
18615753 TAAAAAATTT
Statistics
Matches: 69, Mismatches: 22, Indels: 10
0.68 0.22 0.10
Matches are distributed among these distances:
43 7 0.10
44 10 0.14
45 22 0.32
46 30 0.43
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (45 bp):
TCACATCCAAGATTTCAAAGATTTTCATTCAAAAATTTTATAGAT
Found at i:18615792 original size:30 final size:30
Alignment explanation
Indices: 18615732--18615795 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
18615722 TTTTCATTCA
18615732 AAAAGTTTTATAGATTCACATTAAAAAATTT
1 AAAAGTTTTATAGATTCACATT-AAAAATTT
18615763 AAAAGTTTTA-AGAATTCACATCT-AAAATTT
1 AAAAGTTTTATAG-ATTCACAT-TAAAAATTT
18615793 AAA
1 AAA
18615796 GATTCGCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 12 0.39
31 18 0.58
32 1 0.03
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (30 bp):
AAAAGTTTTATAGATTCACATTAAAAATTT
Found at i:18615800 original size:21 final size:21
Alignment explanation
Indices: 18615762--18615835 Score: 51
Period size: 22 Copynumber: 3.3 Consensus size: 21
18615752 TTAAAAAATT
*
18615762 TAAAAGTTTTAAGAATTCACATC
1 TAAAA-TTTAAAG-ATTCACATC
*
18615785 TAAAATTTAAAGATTCGCAAT-
1 TAAAATTTAAAGATTCAC-ATC
* *
18615806 TGAAACTTTTAGAGATTCACATC
1 T-AAA-ATTTAAAGATTCACATC
*
18615829 CAAAATT
1 TAAAATT
18615836 CAAAAGTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
21 8 0.20
22 16 0.40
23 16 0.40
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (21 bp):
TAAAATTTAAAGATTCACATC
Done.