Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 37 of 425
Found at i:9563517 original size:17 final size:17
Alignment explanation
Indices: 9563485--9563518 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9563475 CAATTTCCTT
*
9563485 ATTGTTATTCTCAATTA
1 ATTGTTATTATCAATTA
*
9563502 ATTGTTATTATTAATTA
1 ATTGTTATTATCAATTA
9563519 TTTATTATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (17 bp):
ATTGTTATTATCAATTA
Found at i:9568020 original size:16 final size:16
Alignment explanation
Indices: 9567999--9568031 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9567989 TTTATAGTAA
9567999 ATCAGAAGCTCGTTGG
1 ATCAGAAGCTCGTTGG
9568015 ATCAGAAGCTCGTTGG
1 ATCAGAAGCTCGTTGG
9568031 A
1 A
9568032 GATCACTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (16 bp):
ATCAGAAGCTCGTTGG
Found at i:9568607 original size:42 final size:42
Alignment explanation
Indices: 9568560--9568659 Score: 200
Period size: 42 Copynumber: 2.4 Consensus size: 42
9568550 AGAATTGAGC
9568560 ACACAGGCGTGTGTCTCAGCCGTGTATGCTACACGGCCTAGA
1 ACACAGGCGTGTGTCTCAGCCGTGTATGCTACACGGCCTAGA
9568602 ACACAGGCGTGTGTCTCAGCCGTGTATGCTACACGGCCTAGA
1 ACACAGGCGTGTGTCTCAGCCGTGTATGCTACACGGCCTAGA
9568644 ACACAGGCGTGTGTCT
1 ACACAGGCGTGTGTCT
9568660 TGGCTGTGTG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.21, C:0.28, G:0.29, T:0.22
Consensus pattern (42 bp):
ACACAGGCGTGTGTCTCAGCCGTGTATGCTACACGGCCTAGA
Found at i:9574379 original size:40 final size:40
Alignment explanation
Indices: 9574334--9574599 Score: 288
Period size: 40 Copynumber: 6.7 Consensus size: 40
9574324 CACCAACACA
* * * * *
9574334 AAGCCTACGGGACTTTAAGCCCGGATATAGTACCAGTACG
1 AAGCCTGCGGGTCTTTAAGCCCGGATATAATTCCAGCACG
* * * * * * *
9574374 AAGCCTGC-GGACCTTAAGTCTGAATATAGTACCAGCACG
1 AAGCCTGCGGGTCTTTAAGCCCGGATATAATTCCAGCACG
* * *
9574413 AAGCCTGTGGATC-TTAAGTCCGGATA-AATTCCAGCACG
1 AAGCCTGCGGGTCTTTAAGCCCGGATATAATTCCAGCACG
*
9574451 AAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACG
1 AAGCCTGCGGGTCTTTAAGCCCGGATATAATTCCAGCACG
* ** *
9574491 AAGCCTGTGGGTCTTTAAGTTCGGATATAATTCCAGCACA
1 AAGCCTGCGGGTCTTTAAGCCCGGATATAATTCCAGCACG
* * *
9574531 AAGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAGCA-T
1 AAGCCTGCGGGTCTTTAAGCCCGGATATAATTCCAGCACG
9574570 ATAGCCTGCGGGTCTTTAAGCCCGGATATA
1 A-AGCCTGCGGGTCTTTAAGCCCGGATATA
9574600 CATCAAATAT
Statistics
Matches: 193, Mismatches: 29, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
38 21 0.11
39 57 0.30
40 115 0.60
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (40 bp):
AAGCCTGCGGGTCTTTAAGCCCGGATATAATTCCAGCACG
Found at i:9588585 original size:11 final size:11
Alignment explanation
Indices: 9588571--9588611 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
9588561 TGTTTTCTCC
9588571 CTATTTTGCTA
1 CTATTTTGCTA
*
9588582 CTATTTTACTA
1 CTATTTTGCTA
* *
9588593 TTATGTTGCTA
1 CTATTTTGCTA
9588604 CTATTTTG
1 CTATTTTG
9588612 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:9593880 original size:40 final size:39
Alignment explanation
Indices: 9593814--9593964 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
9593804 AAATTGAATG
* * *
9593814 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
9593853 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
9593893 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
9593933 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
9593965 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:9593978 original size:40 final size:39
Alignment explanation
Indices: 9593851--9593980 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
9593841 ATGCTGGAAA
* *
9593851 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
9593891 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
9593931 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
9593971 TTATATCCGG
1 TTATATCCGG
9593981 TTATATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:9601865 original size:40 final size:40
Alignment explanation
Indices: 9601799--9601941 Score: 121
Period size: 40 Copynumber: 3.6 Consensus size: 40
9601789 AAATTGAATG
* ** *
9601799 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGAAACT
* * ***
9601838 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGAAACT
* * ** *
9601878 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-ATGCAAGAAACT
*
9601918 CTATCCGGGCTAAGACCCG-AGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
9601942 TTTGTGCACA
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 20 0.23
40 66 0.77
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGAAACT
Found at i:9604488 original size:40 final size:40
Alignment explanation
Indices: 9604422--9604572 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
9604412 AAATTGAATG
* * *
9604422 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
9604461 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
9604501 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
9604541 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
9604573 ACATGGTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:9604586 original size:40 final size:40
Alignment explanation
Indices: 9604459--9604588 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
9604449 ATGCTGGAAA
* * *
9604459 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
9604499 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
9604539 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
9604579 TTATATCCGG
1 TTATATCCGG
9604589 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:9612525 original size:39 final size:39
Alignment explanation
Indices: 9612444--9612609 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 39
9612434 AAATTGAATG
* *
9612444 ATATCCGGGCTAAG-CCCGAAGACAATTATGC--TGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGG---TT
* *
9612483 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGGTT
**
9612522 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGC-AGTGGTT
* * *
9612562 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCA-GTGGTT
9612602 ATATCCGG
1 ATATCCGG
9612610 TTATATTCCG
Statistics
Matches: 106, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.40
40 56 0.53
41 2 0.02
42 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGGTT
Found at i:9616679 original size:26 final size:27
Alignment explanation
Indices: 9616629--9616679 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
9616619 TTTCCTCATA
*
9616629 TTTTGAATAACATAAAGAACTATGAGT
1 TTTTGAATAACATAAAGAACAATGAGT
*
9616656 TTTTGAATAACATAAA-ATCAATGA
1 TTTTGAATAACATAAAGAACAATGA
9616680 TTATGGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (27 bp):
TTTTGAATAACATAAAGAACAATGAGT
Found at i:9620380 original size:23 final size:23
Alignment explanation
Indices: 9620297--9620384 Score: 72
Period size: 23 Copynumber: 3.7 Consensus size: 23
9620287 CTCACCGCAA
*
9620297 CTCGTATGAGCTTACCGATATATAAG
1 CTCGTATGAGCTTA-CGAT-T-TCAG
* *
9620323 CTCGTAAGAGCTTACTATTTTCAG
1 CTCGTATGAGCTTACGA-TTTCAG
*
9620347 CTCAT-TGGAGCTTATC-ATTTCAG
1 CTCGTAT-GAGCTTA-CGATTTCAG
9620370 CTCGTATGAGCTTAC
1 CTCGTATGAGCTTAC
9620385 TGTTCTCAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
22 1 0.02
23 17 0.33
24 16 0.31
25 4 0.08
26 14 0.27
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (23 bp):
CTCGTATGAGCTTACGATTTCAG
Found at i:9620401 original size:19 final size:19
Alignment explanation
Indices: 9620377--9620431 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 19
9620367 CAGCTCGTAT
9620377 GAGCTTACTGTTCTCAATA
1 GAGCTTACTGTTCTCAATA
*
9620396 GAGCTTACCGTTTTAGCTCAATA
1 GAGCTTA-C-TGTT--CTCAATA
*
9620419 GAGCTTAGTGTTC
1 GAGCTTACTGTTC
9620432 ATCAGCTCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
19 8 0.28
20 1 0.03
21 6 0.21
23 14 0.48
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (19 bp):
GAGCTTACTGTTCTCAATA
Found at i:9623919 original size:197 final size:199
Alignment explanation
Indices: 9623586--9623954 Score: 480
Period size: 197 Copynumber: 1.9 Consensus size: 199
9623576 ATCGGCATAG
* * *
9623586 TTTTTCCAAGAAATGATATAATAATGACAACATATATAGTCACTATTATTAATCACTACTGTGAT
1 TTTTTCCAAGAAATGATATAATAATGACAACATATATAATCACTATTATTAATCACTACTGTAAG
*
9623651 GATAGAATTTTTGGTCACTATAAAATTTACTTTTACAATGACGTAATTATGATGATTTAAATTAC
66 GATAGAATTTTT-GTCACTAT-AAATTTACTTTTACAATGACGTAAGTATGATGATTTAAATTAC
* *
9623716 TTCACAAGTAAATTGTCACCATAAG-TGTATAATTGTTACTAATGAAATACTAAAAATTAGTTCT
129 TTCACAAATAAATTGTCACCATAAGCT-TATAATTGTGACTAATGAAATACTAAAAATTAGTTCT
9623780 AGGTTCT
193 AGGTTCT
* * * * *
9623787 TTTTTCCAAGAAATGATGTAATGATGATAACATATCTAATAATCACTATTATTAATCATTATTGT
1 TTTTTCCAAGAAATGATATAATAATGACAACATA--T-ATAATCACTATTATTAATCACTACTGT
* * * * *
9623852 AAGGATA-AA-TTTT-TCACTAT-AATTT-TTTTTATAATTATGTAAGTATGATGGTTTAAATTA
63 AAGGATAGAATTTTTGTCACTATAAATTTACTTTTACAATGACGTAAGTATGATGATTTAAATTA
* *
9623912 CTTCACAAATAAATTGTCACTATAAGCTTATATTTGTGACTAA
128 CTTCACAAATAAATTGTCACCATAAGCTTATAATTGTGACTAA
9623955 AACTATTTGG
Statistics
Matches: 146, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
197 66 0.45
198 6 0.04
200 7 0.05
201 31 0.21
202 4 0.03
203 3 0.02
204 29 0.20
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (199 bp):
TTTTTCCAAGAAATGATATAATAATGACAACATATATAATCACTATTATTAATCACTACTGTAAG
GATAGAATTTTTGTCACTATAAATTTACTTTTACAATGACGTAAGTATGATGATTTAAATTACTT
CACAAATAAATTGTCACCATAAGCTTATAATTGTGACTAATGAAATACTAAAAATTAGTTCTAGG
TTCT
Found at i:9625576 original size:13 final size:13
Alignment explanation
Indices: 9625558--9625583 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9625548 TCGTGTTTCC
9625558 AAAACCATTTGTT
1 AAAACCATTTGTT
9625571 AAAACCATTTGTT
1 AAAACCATTTGTT
9625584 TGCATAATGT
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:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:9628942 original size:21 final size:21
Alignment explanation
Indices: 9628918--9628961 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
9628908 CTTTCCTATG
* *
9628918 TTCAATTGATTGTTTCTTGTT
1 TTCAATTGATTATTACTTGTT
9628939 TTCAATTGATTATTACTTGTT
1 TTCAATTGATTATTACTTGTT
9628960 TT
1 TT
9628962 TTGTAACACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.09, G:0.11, T:0.61
Consensus pattern (21 bp):
TTCAATTGATTATTACTTGTT
Found at i:9631171 original size:28 final size:28
Alignment explanation
Indices: 9631139--9631195 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 28
9631129 TAGCATCTCT
9631139 TAAATCATATC-TTTCATATTCATGAATA
1 TAAATCATA-CATTTCATATTCATGAATA
9631167 TAAATCATACATTTCATATTCATGAATA
1 TAAATCATACATTTCATATTCATGAATA
9631195 T
1 T
9631196 TCATACTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 1 0.04
28 27 0.96
ACGTcount: A:0.40, C:0.14, G:0.04, T:0.42
Consensus pattern (28 bp):
TAAATCATACATTTCATATTCATGAATA
Found at i:9631583 original size:87 final size:87
Alignment explanation
Indices: 9631433--9631606 Score: 249
Period size: 87 Copynumber: 2.0 Consensus size: 87
9631423 TACATTCGTA
* * * *
9631433 GTTCCATAACCCAGTTATGATCTTATCATAATATTACCATAGCCCAGCTATGGTCTTATATATAA
1 GTTCCATAACCCAGTTATGATCTTATCATAAGAATACCATAGCCCAACTATGGTCTTACATATAA
*
9631498 ACACTGCCACGGTCAAACCATG
66 ACACTCCCACGGTCAAACCATG
* * * *
9631520 GTTCCATAACCTAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATAA
1 GTTCCATAACCCAGTTATGATCTTATCATAAGAATACCATAGCCCAACTATGGTCTTACATATAA
* *
9631585 ACACTCCCATGGTCCAACCATG
66 ACACTCCCACGGTCAAACCATG
9631607 CTCTTACGTT
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
87 76 1.00
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.29
Consensus pattern (87 bp):
GTTCCATAACCCAGTTATGATCTTATCATAAGAATACCATAGCCCAACTATGGTCTTACATATAA
ACACTCCCACGGTCAAACCATG
Found at i:9635101 original size:33 final size:33
Alignment explanation
Indices: 9635064--9635127 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
9635054 TTGATCTGTG
* *
9635064 GGGATCCTATAGAGTTTCTACTCATGGTGGTTA
1 GGGATCCTATAGAGTCTCTACTCATAGTGGTTA
9635097 GGGATCCTATAGAGTCTCTACTCATAGTGGT
1 GGGATCCTATAGAGTCTCTACTCATAGTGGT
9635128 CATAGGTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (33 bp):
GGGATCCTATAGAGTCTCTACTCATAGTGGTTA
Found at i:9638680 original size:74 final size:74
Alignment explanation
Indices: 9638595--9638900 Score: 187
Period size: 74 Copynumber: 4.1 Consensus size: 74
9638585 AAGAAATATA
* * ** *
9638595 GTGACAATTTAATTTTGTTACAATTGCTTGTGA-GTTTAGTGTAAAAAAATTGGTCACAAACAAA
1 GTGACCATTTAATTTTGTCACAATTGCTTAAGATGTTTAGTGTAAAAAAATTGGGCACAAA-AAA
*
9638659 TTTAATAATT
65 TTGAATAATT
* * * *
9638669 GTG-CCTATTTAA-TTTGTCACAATTGCTTAAGATTTTTAGTGTACAAAATTTGGGCATAAAAAA
1 GTGACC-ATTTAATTTTGTCACAATTGCTTAAGATGTTTAGTGTAAAAAAATTGGGCACAAAAAA
*
9638732 TTGAATAGTT
65 TTGAATAATT
* * * * ** * ** *
9638742 GTGACCATTTACA-TTTGACATAATTACTTACA-AT-TTTAGTATTTGACATTTTGGTCACAAAA
1 GTGACCATTTA-ATTTTGTCACAATTGCTTA-AGATGTTTAGT-GTAAAAAAATTGGGCACAAAA
**
9638804 AATTGAATACCT
63 AATTGAATAATT
* * * * * * ***
9638816 GTTACCATTTATTTTTTTTCACAATTGCTTACAG-TTTTTA-TGTCAAAAATTTCATCACAAAAA
1 GTGACCATTTA-ATTTTGTCACAATTGCTTA-AGATGTTTAGTGTAAAAAAATTGGGCACAAAAA
9638879 TATTGAATAATT
64 -ATTGAATAATT
*
9638891 GTGACGATTT
1 GTGACCATTT
9638901 CGTAACAGCT
Statistics
Matches: 181, Mismatches: 41, Indels: 19
0.75 0.17 0.08
Matches are distributed among these distances:
73 43 0.24
74 99 0.55
75 35 0.19
76 4 0.02
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (74 bp):
GTGACCATTTAATTTTGTCACAATTGCTTAAGATGTTTAGTGTAAAAAAATTGGGCACAAAAAAT
TGAATAATT
Found at i:9643083 original size:21 final size:21
Alignment explanation
Indices: 9643059--9643152 Score: 80
Period size: 21 Copynumber: 4.5 Consensus size: 21
9643049 AATTGAAGCG
* *
9643059 CATAAGTGCTAAACAGAAACC
1 CATAAGAGCTAAACAGAAACT
* * * * *
9643080 CATAAGGGTTGAATAGAAGCT
1 CATAAGAGCTAAACAGAAACT
*
9643101 CATAAGAGCTAAACGGAAACT
1 CATAAGAGCTAAACAGAAACT
* * *
9643122 CATAAAAGTTAAACAGAAGCT
1 CATAAGAGCTAAACAGAAACT
*
9643143 CAAAAGAGCT
1 CATAAGAGCT
9643153 TAATGGAAAC
Statistics
Matches: 54, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (21 bp):
CATAAGAGCTAAACAGAAACT
Found at i:9643105 original size:42 final size:42
Alignment explanation
Indices: 9643053--9643215 Score: 184
Period size: 42 Copynumber: 3.9 Consensus size: 42
9643043 AGGCTAAATT
* * *
9643053 GAAGCGCATAAGTGCTAAACAGAAACCCATAAGGGTTGAATA
1 GAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTGAATA
* ** * *
9643095 GAAGCTCATAAGAGCTAAACGGAAACTCATAAAAGTTAAACA
1 GAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTGAATA
* * * *
9643137 GAAGCTCAAAAGAGCTTAATGGAAACCCATTAGGGTTGAATA
1 GAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTGAATA
* *
9643179 GAAGCTCGTAAGAGCTGAACGGAAACCCA-ATAGGGTT
1 GAAGCTCATAAGAGCTAAACGGAAACCCATA-AGGGTT
9643216 AAATGCAAAC
Statistics
Matches: 98, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 98 1.00
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (42 bp):
GAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTGAATA
Found at i:9646931 original size:16 final size:17
Alignment explanation
Indices: 9646902--9646935 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9646892 AAGGTTAATT
9646902 AGGTAAATAGTTAATAA
1 AGGTAAATAGTTAATAA
*
9646919 AGGTTAATA-TTAATAA
1 AGGTAAATAGTTAATAA
9646935 A
1 A
9646936 ACAAAAGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (17 bp):
AGGTAAATAGTTAATAA
Found at i:9647864 original size:43 final size:43
Alignment explanation
Indices: 9647816--9647979 Score: 190
Period size: 43 Copynumber: 3.8 Consensus size: 43
9647806 TATCGAGATG
*
9647816 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
* *
9647859 TGATTACGTATAAGACCATGTCTGGGACATTGGCATCGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
* * * * * *
9647902 TGATTTCATGTAAGACCCTGTCTGAGACAGTGGCATCG-ACATG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTA-TTA
* *
9647945 TGA-TAGCATGTAAGACCATATCTGGGATA-TGGCAT
1 TGATTA-CATGTAAGACCATGTCTGGGACATTGGCAT
9647980 TGTACGAGCT
Statistics
Matches: 103, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 8 0.08
43 95 0.92
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
Found at i:9648565 original size:60 final size:60
Alignment explanation
Indices: 9648472--9648591 Score: 213
Period size: 60 Copynumber: 2.0 Consensus size: 60
9648462 AGGTATGTAC
*
9648472 GGAAAACTACTCAAGTATCGAGTTATATGAAGTTGAGAACTTACGAATGAGGAAATGAGT
1 GGAAAACTAATCAAGTATCGAGTTATATGAAGTTGAGAACTTACGAATGAGGAAATGAGT
* *
9648532 GGAAAACTAATCAAGTATCGAGTTATATGAAGTTGAGAACTTGCGAATGAGGACATGAGT
1 GGAAAACTAATCAAGTATCGAGTTATATGAAGTTGAGAACTTACGAATGAGGAAATGAGT
9648592 AATTTGATGT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.39, C:0.10, G:0.26, T:0.25
Consensus pattern (60 bp):
GGAAAACTAATCAAGTATCGAGTTATATGAAGTTGAGAACTTACGAATGAGGAAATGAGT
Found at i:9651417 original size:25 final size:25
Alignment explanation
Indices: 9651380--9651435 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
9651370 GTTGATTTAA
* **
9651380 TTTTTTAATAAGT-TATTAAAATAT
1 TTTTTTAAAAAGTATACAAAAATAT
9651404 TTTTTTAAAAAAGTAATACAAAAATAT
1 TTTTTT-AAAAAGT-ATACAAAAATAT
9651431 TTTTT
1 TTTTT
9651436 ATCTTTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 6 0.23
25 6 0.23
27 14 0.54
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (25 bp):
TTTTTTAAAAAGTATACAAAAATAT
Found at i:9656358 original size:2 final size:2
Alignment explanation
Indices: 9656307--9656343 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9656297 CTAAAAAGGA
9656307 AT AT AT AT 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 AT AT AT AT A
9656344 CACGTCGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9667405 original size:26 final size:26
Alignment explanation
Indices: 9667369--9667452 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
9667359 CATGAAATTC
9667369 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9667395 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
9667421 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
9667447 TTATCA
1 TTATCA
9667453 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:9673183 original size:26 final size:26
Alignment explanation
Indices: 9673147--9673230 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
9673137 CATGAAATTC
9673147 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9673173 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
9673199 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
9673225 TTATCA
1 TTATCA
9673231 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:9678840 original size:21 final size:23
Alignment explanation
Indices: 9678806--9678849 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
9678796 ATTTGTGCTT
9678806 GTATCAATCTTCT-A-CCTTCAC
1 GTATCAATCTTCTAAGCCTTCAC
9678827 GTATCATATC-TCTAAGCCTTCAC
1 GTATCA-ATCTTCTAAGCCTTCAC
9678850 TCTCTCACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 7 0.35
ACGTcount: A:0.25, C:0.32, G:0.07, T:0.36
Consensus pattern (23 bp):
GTATCAATCTTCTAAGCCTTCAC
Found at i:9680891 original size:33 final size:32
Alignment explanation
Indices: 9680852--9680918 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 32
9680842 AAAAGTTAGA
9680852 TATACTTTGTGTATACCACATGAAAAGGAAATG
1 TATACTTTGTGTATACCACATGAAAAGG-AATG
* * *
9680885 TATACTTTGTGTGTACCACTTGGAAAGGAATG
1 TATACTTTGTGTATACCACATGAAAAGGAATG
9680917 TA
1 TA
9680919 CACCTTAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 6 0.19
33 25 0.81
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (32 bp):
TATACTTTGTGTATACCACATGAAAAGGAATG
Found at i:9681047 original size:37 final size:37
Alignment explanation
Indices: 9680997--9681073 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
9680987 CATAGTAATA
9680997 TAAAGAGAAATGGTATGATGAGCTCATCTATGCATTT
1 TAAAGAGAAATGGTATGATGAGCTCATCTATGCATTT
*
9681034 TAAAGAGAAATGGTATGATGAGCTCATCTATGTATTT
1 TAAAGAGAAATGGTATGATGAGCTCATCTATGCATTT
9681071 TAA
1 TAA
9681074 TATTTTTGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (37 bp):
TAAAGAGAAATGGTATGATGAGCTCATCTATGCATTT
Found at i:9683692 original size:2 final size:2
Alignment explanation
Indices: 9683685--9683715 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9683675 GACTATTTGC
9683685 AT 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 AT A
9683716 CACACACATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9688679 original size:43 final size:43
Alignment explanation
Indices: 9688626--9688770 Score: 170
Period size: 43 Copynumber: 3.4 Consensus size: 43
9688616 TCCGAGGTGT
* *
9688626 GATTTCGTGTAAGACCAAGTCTAGGACATTGGCATCGATATGA
1 GATTACGTGTAAGACCATGTCTAGGACATTGGCATCGATATGA
9688669 GATTACGTGTAAGACCATGTCTAGGACATTGGCATCG-TAT-A
1 GATTACGTGTAAGACCATGTCTAGGACATTGGCATCGATATGA
* * * ** *
9688710 TGATT-CGTATAAGACCCTGCCTAGGACAGAGGCATCGATATGT
1 -GATTACGTGTAAGACCATGTCTAGGACATTGGCATCGATATGA
* *
9688753 GATAACATGTAAGACCAT
1 GATTACGTGTAAGACCAT
9688771 ATCTGGGATA
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
41 28 0.33
42 13 0.15
43 45 0.52
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTAGGACATTGGCATCGATATGA
Found at i:9691321 original size:21 final size:20
Alignment explanation
Indices: 9691288--9691326 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9691278 TATATTATAT
*
9691288 TATATATATTAAATTATAAA
1 TATATATATTAAAATATAAA
9691308 TATATATCATTAAAATATA
1 TATATAT-ATTAAAATATA
9691327 GATTAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
TATATATATTAAAATATAAA
Found at i:9692369 original size:29 final size:29
Alignment explanation
Indices: 9692330--9692385 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
9692320 TATTTGAAAA
*
9692330 TTTTTTCAAAGAGAAGAGAGAGAGAGATT
1 TTTTTTCAAAGAAAAGAGAGAGAGAGATT
9692359 TTTTTTCAAAGAAAAGAGAGAGAGAGA
1 TTTTTTCAAAGAAAAGAGAGAGAGAGA
9692386 GGGGAGAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.45, C:0.04, G:0.27, T:0.25
Consensus pattern (29 bp):
TTTTTTCAAAGAAAAGAGAGAGAGAGATT
Found at i:9692544 original size:20 final size:21
Alignment explanation
Indices: 9692507--9692567 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 21
9692497 CTTTTCTTAA
*
9692507 AAAAATAAATTTTAAATTTTTT
1 AAAAAT-AATTTTGAATTTTTT
*
9692529 ATAAAT-ATTTTGAA--TTTT
1 AAAAATAATTTTGAATTTTTT
9692547 AAAAATAATTTTGTAATTTTT
1 AAAAATAATTTTG-AATTTTT
9692568 GTTGAAGGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 9 0.28
19 6 0.19
20 9 0.28
22 8 0.25
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (21 bp):
AAAAATAATTTTGAATTTTTT
Found at i:9700434 original size:18 final size:18
Alignment explanation
Indices: 9700388--9700423 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
9700378 ATATTATATT
9700388 AATAAGATTAAAATTAAA
1 AATAAGATTAAAATTAAA
9700406 AATAAGATTAAAATTAAA
1 AATAAGATTAAAATTAAA
9700424 GTTAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (18 bp):
AATAAGATTAAAATTAAA
Found at i:9700838 original size:13 final size:13
Alignment explanation
Indices: 9700822--9700859 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
9700812 TAAATTTGAG
9700822 ATTTAATTTTTAT
1 ATTTAATTTTTAT
9700835 ATTTAA-TTTTA-
1 ATTTAATTTTTAT
9700846 ATTTAATTTGTTAT
1 ATTTAATTT-TTAT
9700860 CTCAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 6 0.27
12 7 0.32
13 9 0.41
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (13 bp):
ATTTAATTTTTAT
Found at i:9700866 original size:24 final size:24
Alignment explanation
Indices: 9700822--9700868 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
9700812 TAAATTTGAG
* *
9700822 ATTTAATTTTTATATTTAATTTTA
1 ATTTAATTTTTATACTCAATTTTA
9700846 ATTTAATTTGTTAT-CTCAATTTT
1 ATTTAATTT-TTATACTCAATTTT
9700869 TGAATATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (24 bp):
ATTTAATTTTTATACTCAATTTTA
Found at i:9703358 original size:22 final size:23
Alignment explanation
Indices: 9703320--9703363 Score: 72
Period size: 22 Copynumber: 1.9 Consensus size: 23
9703310 GGTAAAGAAT
9703320 ATAAATATAAATTCTATATTTTGA
1 ATAAATAT-AATTCTATATTTTGA
9703344 ATAAATAT-ATTCTATATTTT
1 ATAAATATAATTCTATATTTT
9703364 ATATGTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.60
24 8 0.40
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (23 bp):
ATAAATATAATTCTATATTTTGA
Found at i:9710036 original size:41 final size:41
Alignment explanation
Indices: 9709991--9710068 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
9709981 TTTGAACAAA
*
9709991 AAACGCCGCAAAAAACAG-AGCAATAGCGGCGTTTTTGGCCC
1 AAACGCCGCAAAAAACAGAAG-AATAGCGGCGCTTTTGGCCC
* * *
9710032 AAACGTCGCTAAAAACTGAAGAATAGCGGCGCTTTTG
1 AAACGCCGCAAAAAACAGAAGAATAGCGGCGCTTTTG
9710069 TAAAAACGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 30 0.94
42 2 0.06
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (41 bp):
AAACGCCGCAAAAAACAGAAGAATAGCGGCGCTTTTGGCCC
Found at i:9710100 original size:41 final size:41
Alignment explanation
Indices: 9710055--9710203 Score: 244
Period size: 41 Copynumber: 3.6 Consensus size: 41
9710045 AACTGAAGAA
*
9710055 TAGCGGCGCTTTTGTAAAAACGCCGCTATAGGCCGATGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGATGTTT
* ** *
9710096 TAGCGGCACTTTTGGAAAAACGCCGCTATAGGTAGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGATGTTT
*
9710137 TAGCGGCGCTTTTGTAAAAACGCCGCTATAGGCCGATGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGATGTTT
9710178 TAGCGGCGCTTTTGGAAAAACGCCGC
1 TAGCGGCGCTTTTGGAAAAACGCCGC
9710204 AAAAAAGTAA
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 97 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGATGTTT
Found at i:9710539 original size:18 final size:18
Alignment explanation
Indices: 9710510--9710560 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
9710500 TTGTTCCTTG
9710510 TTATATATATATATTAA-A
1 TTATA-ATATATATTAAGA
*
9710528 CTTCTAATATATATTAAGA
1 -TTATAATATATATTAAGA
9710547 TTATAATATATATT
1 TTATAATATATATT
9710561 TAGGGTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (18 bp):
TTATAATATATATTAAGA
Found at i:9710997 original size:15 final size:15
Alignment explanation
Indices: 9710977--9711011 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
9710967 GATTTTAATG
*
9710977 TATAAGATAAATGTA
1 TATAAGATAAATATA
9710992 TATAAGATAAATATA
1 TATAAGATAAATATA
9711007 TATAA
1 TATAA
9711012 ATTATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (15 bp):
TATAAGATAAATATA
Found at i:9711050 original size:24 final size:23
Alignment explanation
Indices: 9710983--9711050 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
9710973 AATGTATAAG
* *
9710983 ATAAATGTATATAAGATAAATATAT
1 ATAAAT-TATATATGA-AAAAATAT
* *
9711008 ATAAATTATTATTTTAAAAAATAT
1 ATAAATTA-TATATGAAAAAATAT
9711032 ATAAATATATATATGAAAA
1 ATAAAT-TATATATGAAAA
9711051 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
ATAAATTATATATGAAAAAATAT
Found at i:9713985 original size:635 final size:635
Alignment explanation
Indices: 9712775--9714734 Score: 3839
Period size: 635 Copynumber: 3.1 Consensus size: 635
9712765 GATTGGGAGG
9712775 TAAACTGAAATATATTTGGTGCTACTCTTATAATCTTACATCTGTTCTAGGTACTTATCTTTTAT
1 TAAACTGAAATATATTTGGTGCTACTCTTATAATCTTACATCTGTTCTAGGTACTTATCTTTTAT
9712840 TTGCAAGAAACAGATTTAGGTAATGGAAGATGTATGCCTGTGTGTTTGTGTCTCTATATATGTAT
66 TTGCAAGAAACAGATTTAGGTAATGGAAGATGTATGCCTGTGTGTTTGTGTCTCTATATATGTAT
*
9712905 GTATTTGGTACTAGATGAAATCTTTACTCCACTTTTGAAATATAGACCAGGTTTTGCATACATTG
131 GTATTTGGTACTAGATGAAATCTTTACTCCAGTTTTGAAATATAGACCAGGTTTTGCATACATTG
9712970 ATCATTTTCTGGCTCTTTTCCTTCGAATACATGGTTCTCTTGAAATTAAATGCTCAGGTACTTTC
196 ATCATTTTCTGGCTCTTTTCCTTCGAATACATGGTTCTCTTGAAATTAAATGCTCAGGTACTTTC
9713035 TGCATATTCTGTGATTCTTATTAGATAAGTTATAAATCAACAGTTATGTTAGTTTTGATCAAGGC
261 TGCATATTCTGTGATTCTTATTAGATAAGTTATAAATCAACAGTTATGTTAGTTTTGATCAAGGC
*
9713100 CTCTGTAAACATAAAGTTGGTATTCTGGTTAGGAGAAGTTAAAGTTTATGAGTTTTGTGGAGTAT
326 CTCTGTAAACATAAAGTTGGTATTCTGGTTAGGAGAAGTTAATGTTTATGAGTTTTGTGGAGTAT
9713165 GATTCTGCACATGCAAAGTTGGTTTGTTTAAAGCTGTGCATTTTCATGTTTACATACTAATGGTG
391 GATTCTGCACATGCAAAGTTGGTTTGTTTAAAGCTGTGCATTTTCATGTTTACATACTAATGGTG
9713230 ATTCCATTTTTGTTTTTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTCTGTGTT
456 ATTCCATTTTTGTTTTTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTCTGTGTT
9713295 TACTGTGCAGTTTTGCCATATTTTGGTAAGGTGTATAGCTTCATTGGCAGTGTCTTTGATCCTGG
521 TACTGTGCAGTTTTGCCATATTTTGGTAAGGTGTATAGCTTCATTGGCAGTGTCTTTGATCCTGG
9713360 TACAAGTGGGCACTTGCAAAACTGATATAGGTAAAGTTCCTATATTTGCT
586 TACAAGTGGGCACTTGCAAAACTGATATAGGTAAAGTTCCTATATTTGCT
9713410 TAAACTGAAATATATTTGGTGCTACTCTTATAATCTTACATCTGTTCTAGGTACTTATCTTTTAT
1 TAAACTGAAATATATTTGGTGCTACTCTTATAATCTTACATCTGTTCTAGGTACTTATCTTTTAT
*
9713475 TTGCAAGAAACAGATTTAGGTAATGGAAGATGTATGCCTGTGTGTTTGTGTCTTTATATATGTAT
66 TTGCAAGAAACAGATTTAGGTAATGGAAGATGTATGCCTGTGTGTTTGTGTCTCTATATATGTAT
9713540 GTATTTGGTACTAGATGAAATCTTTACTCCAGTTTTGAAATATAGACCAGGTTTTGCATACATTG
131 GTATTTGGTACTAGATGAAATCTTTACTCCAGTTTTGAAATATAGACCAGGTTTTGCATACATTG
*
9713605 ATCATTTTCTGGCTCTTTTCTTTCGAATACATGGTTCTCTTGAAATTAAATGCTCAGGTACTTTC
196 ATCATTTTCTGGCTCTTTTCCTTCGAATACATGGTTCTCTTGAAATTAAATGCTCAGGTACTTTC
*
9713670 TACATATTCTGTGATTCTTATTAGATAAGTTATAAATCAACAGTTATGTTAGTTTTGATCAAGGC
261 TGCATATTCTGTGATTCTTATTAGATAAGTTATAAATCAACAGTTATGTTAGTTTTGATCAAGGC
9713735 CTCTGTAAACATAAAGTTGGTATTCTGGTTAGGAGAAGTTAATGTTTATGAGTTTTGTGGAGTAT
326 CTCTGTAAACATAAAGTTGGTATTCTGGTTAGGAGAAGTTAATGTTTATGAGTTTTGTGGAGTAT
*
9713800 GATTCTACACATGCAAAGTTGGTTTGTTTAAAGCTGTGCATTTTCATGTTTACATACTAATGGTG
391 GATTCTGCACATGCAAAGTTGGTTTGTTTAAAGCTGTGCATTTTCATGTTTACATACTAATGGTG
9713865 ATTCCATTTTTGTTTTTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTCTGTGTT
456 ATTCCATTTTTGTTTTTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTCTGTGTT
9713930 TACTGTGCAGTTTTGCCATATTTTGGTAAGGTGTATAGCTTCATTGGCAGTGTCTTTGATCCTGG
521 TACTGTGCAGTTTTGCCATATTTTGGTAAGGTGTATAGCTTCATTGGCAGTGTCTTTGATCCTGG
9713995 TACAAGTGGGCACTTGCAAAACTGATATAGGTAAAGTTCCTATATTTGCT
586 TACAAGTGGGCACTTGCAAAACTGATATAGGTAAAGTTCCTATATTTGCT
9714045 TAAACTGAAATATATTTGGTGCTACTCTTATAATCTTACATCTGTTCTAGGTACTTATCTTTTAT
1 TAAACTGAAATATATTTGGTGCTACTCTTATAATCTTACATCTGTTCTAGGTACTTATCTTTTAT
9714110 TTGCAAGAAACAGATTTAGGTAATGGAAGATGTATGCCTGTGTGTTTGTGTCTCTATATATGTAT
66 TTGCAAGAAACAGATTTAGGTAATGGAAGATGTATGCCTGTGTGTTTGTGTCTCTATATATGTAT
*
9714175 GTATTTGGTACTAGATGAAAGCTTTACTCCAGTTTTGAAATATAGACCAGGTTTTGCATACATTG
131 GTATTTGGTACTAGATGAAATCTTTACTCCAGTTTTGAAATATAGACCAGGTTTTGCATACATTG
9714240 ATCATTTTCTGGCTCTTTTCCTTCGAATACATGGTTCTCTTGAAATTAAATGCTCAGGTACTTTC
196 ATCATTTTCTGGCTCTTTTCCTTCGAATACATGGTTCTCTTGAAATTAAATGCTCAGGTACTTTC
9714305 TGCATATTCTGTGATTCTTATTAGATAAGTTATAAATCAACAGTTATGTTAGTTTTGATCAAGGC
261 TGCATATTCTGTGATTCTTATTAGATAAGTTATAAATCAACAGTTATGTTAGTTTTGATCAAGGC
9714370 CTCTGTAAACATAAAGTTGGTATTCTGGTTAGGAGAAGTTAATGTTTATGAGTTTTGTGGAGTAT
326 CTCTGTAAACATAAAGTTGGTATTCTGGTTAGGAGAAGTTAATGTTTATGAGTTTTGTGGAGTAT
9714435 GATTCTGCACATGCAAAGTTGGTTTGTTTAAAGCTGTGCATTTTCATGTTTACATACTAATGGTG
391 GATTCTGCACATGCAAAGTTGGTTTGTTTAAAGCTGTGCATTTTCATGTTTACATACTAATGGTG
9714500 ATTCCATTTTTGTTTTTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTCTGTGTT
456 ATTCCATTTTTGTTTTTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTCTGTGTT
9714565 TACTGTGCAGTTTTGCCATATTTTGGTAAGGTGTATAGCTTCATTGGCAGTGTCTTTGATCCTGG
521 TACTGTGCAGTTTTGCCATATTTTGGTAAGGTGTATAGCTTCATTGGCAGTGTCTTTGATCCTGG
*
9714630 TACAAGTGGGCACTTGCAAAACTGATATAGGTAAAGTTCCTATATTTACT
586 TACAAGTGGGCACTTGCAAAACTGATATAGGTAAAGTTCCTATATTTGCT
*
9714680 TAAACTGAAATATATTTGGTGCTACTCTTATAATCTTACATCTGTTTTAGGTACT
1 TAAACTGAAATATATTTGGTGCTACTCTTATAATCTTACATCTGTTCTAGGTACT
9714735 ATCGAGCACC
Statistics
Matches: 1312, Mismatches: 13, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
635 1312 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (635 bp):
TAAACTGAAATATATTTGGTGCTACTCTTATAATCTTACATCTGTTCTAGGTACTTATCTTTTAT
TTGCAAGAAACAGATTTAGGTAATGGAAGATGTATGCCTGTGTGTTTGTGTCTCTATATATGTAT
GTATTTGGTACTAGATGAAATCTTTACTCCAGTTTTGAAATATAGACCAGGTTTTGCATACATTG
ATCATTTTCTGGCTCTTTTCCTTCGAATACATGGTTCTCTTGAAATTAAATGCTCAGGTACTTTC
TGCATATTCTGTGATTCTTATTAGATAAGTTATAAATCAACAGTTATGTTAGTTTTGATCAAGGC
CTCTGTAAACATAAAGTTGGTATTCTGGTTAGGAGAAGTTAATGTTTATGAGTTTTGTGGAGTAT
GATTCTGCACATGCAAAGTTGGTTTGTTTAAAGCTGTGCATTTTCATGTTTACATACTAATGGTG
ATTCCATTTTTGTTTTTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTCTGTGTT
TACTGTGCAGTTTTGCCATATTTTGGTAAGGTGTATAGCTTCATTGGCAGTGTCTTTGATCCTGG
TACAAGTGGGCACTTGCAAAACTGATATAGGTAAAGTTCCTATATTTGCT
Found at i:9715824 original size:24 final size:24
Alignment explanation
Indices: 9715797--9715864 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
9715787 ATTATTATTG
*
9715797 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
9715821 AAATATTATTC-TCCGTTTTATTAC
1 AAATATTA-TCGTCCGTTTTATCAC
9715845 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
9715865 CCATTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:9716085 original size:15 final size:15
Alignment explanation
Indices: 9716041--9716096 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
9716031 AACGACATGT
9716041 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
9716057 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
9716070 ATATTATTTAATTAA
1 ATATTATTTAATTAA
9716085 ATATTATTTAAT
1 ATATTATTTAAT
9716097 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:9716213 original size:9 final size:9
Alignment explanation
Indices: 9716201--9716312 Score: 118
Period size: 9 Copynumber: 12.6 Consensus size: 9
9716191 TATTTGATAT
*
9716201 CATAATTTA
1 CATAACTTA
9716210 CATAACTTA
1 CATAACTTA
* *
9716219 TATAACATA
1 CATAACTTA
*
9716228 TATAACTTA
1 CATAACTTA
9716237 CATAACTTA
1 CATAACTTA
* *
9716246 TATAACATA
1 CATAACTTA
9716255 CATAACTTA
1 CATAACTTA
*
9716264 TATAACTTA
1 CATAACTTA
*
9716273 TATAACTTA
1 CATAACTTA
* *
9716282 GATAA-ATA
1 CATAACTTA
*
9716290 TATAACTTA
1 CATAACTTA
9716299 CATAACTTA
1 CATAACTTA
9716308 CATAA
1 CATAA
9716313 TACTTAAATA
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
8 6 0.07
9 81 0.93
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (9 bp):
CATAACTTA
Found at i:9716232 original size:27 final size:27
Alignment explanation
Indices: 9716201--9716312 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 27
9716191 TATTTGATAT
*
9716201 CATAATTTACATAACTTATATAACATA
1 CATAACTTACATAACTTATATAACATA
*
9716228 TATAACTTACATAACTTATATAACATA
1 CATAACTTACATAACTTATATAACATA
* *
9716255 CATAACTTATATAACTTATATAACTTA
1 CATAACTTACATAACTTATATAACATA
* * * * *
9716282 GATAA-ATATATAACTTACATAACTTA
1 CATAACTTACATAACTTATATAACATA
9716308 CATAA
1 CATAA
9716313 TACTTAAATA
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
26 23 0.30
27 53 0.70
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (27 bp):
CATAACTTACATAACTTATATAACATA
Found at i:9721989 original size:21 final size:21
Alignment explanation
Indices: 9721956--9722006 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
9721946 ACAACTTAGA
*
9721956 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
9721977 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
9721998 GCAGAGGCA
1 GCAGAGGCA
9722007 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:9722537 original size:43 final size:43
Alignment explanation
Indices: 9722398--9722764 Score: 553
Period size: 43 Copynumber: 8.6 Consensus size: 43
9722388 AAAAAGCGCA
* *
9722398 GCTAAAAGCCTTGACGTTTAGTGGCGCTTTACCCACAAACGCC
1 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAACGCC
* *
9722441 ACT-AAAGCCTTGACCTTGAGCGGCGCTTTACCCAC-AACGCC
1 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAACGCC
* *
9722482 GCTAAAAACCTTGACGTTTAGCGGCGCTTTACCCACAAACGCC
1 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAACGCC
* *
9722525 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAGACGCC
1 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAACGCC
* *
9722568 GCAAAAAGCCTTGACCTTTAGCGGCGCTTTTA-CCACAGACGCC
1 GCTAAAAGCCTTGACCTTTAGCGGCGC-TTTACCCACAAACGCC
*
9722611 GCTAAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCAC-AACGCC
1 GCT-AAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAACGCC
* *
9722654 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCTACAAACGCC
1 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAACGCC
* *
9722697 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCTACAAACGCC
1 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAACGCC
9722740 GCTAAAAGCCTTGACCTTTAGCGGC
1 GCTAAAAGCCTTGACCTTTAGCGGC
9722765 TTTTTTTTCC
Statistics
Matches: 300, Mismatches: 18, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
41 8 0.03
42 90 0.30
43 171 0.57
44 31 0.10
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (43 bp):
GCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAACGCC
Found at i:9723882 original size:23 final size:22
Alignment explanation
Indices: 9723833--9723896 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
9723823 CCTGATCAGT
*
9723833 ATACGACACATAAAGTGCCTAA
1 ATACGACACACAAAGTGCCTAA
* *
9723855 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCT-AA
*
9723877 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
9723897 GATCGATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 15 0.44
22 4 0.12
23 15 0.44
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.16
Consensus pattern (22 bp):
ATACGACACACAAAGTGCCTAA
Found at i:9723897 original size:23 final size:23
Alignment explanation
Indices: 9723833--9723898 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
9723823 CCTGATCAGT
9723833 ATACGACACATAAAGTGCCT-AA
1 ATACGACACATAAAGTGCCTGAA
** *
9723855 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
9723877 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
9723899 TCGATAAAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.42
22 4 0.11
23 17 0.47
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:9724294 original size:15 final size:15
Alignment explanation
Indices: 9724269--9724326 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
9724259 TCATATATAT
9724269 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
9724285 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
9724300 AATAATTTCAATCAA
1 TATAAATTCAATCAA
9724315 TATAAATTCAAT
1 TATAAATTCAAT
9724327 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:9725591 original size:8 final size:8
Alignment explanation
Indices: 9725578--9725606 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
9725568 TATCTTTATT
9725578 ATATAATA
1 ATATAATA
9725586 ATATAATA
1 ATATAATA
9725594 ATATAATA
1 ATATAATA
9725602 ATATA
1 ATATA
9725607 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:9728490 original size:29 final size:29
Alignment explanation
Indices: 9728438--9728494 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
9728428 TTGAACGAGA
*
9728438 TGAAAAAGAAGAAAAAGAATGTATGGAGT
1 TGAAAAAGAAGAAAAAGAAGGTATGGAGT
* * *
9728467 TGAACAAGAAGAAGAATAAGGTATGGAG
1 TGAAAAAGAAGAAAAAGAAGGTATGGAG
9728495 CCGATCGCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.30, T:0.16
Consensus pattern (29 bp):
TGAAAAAGAAGAAAAAGAAGGTATGGAGT
Found at i:9729798 original size:18 final size:18
Alignment explanation
Indices: 9729775--9729817 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
9729765 GTTCAAGGTG
9729775 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTGTT
9729793 TAATTAATTAAAATTGTT
1 TAATTAATTAAAATTGTT
9729811 TAATTAA
1 TAATTAA
9729818 AAACCTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TAATTAATTAAAATTGTT
Found at i:9730168 original size:21 final size:21
Alignment explanation
Indices: 9730119--9730168 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
9730109 AAGAAGTTTT
*
9730119 TAATA-TTATTTGATATTTGA
1 TAATATTTATTTGATATTTAA
*
9730139 T-ATGTTTTATTTGATATTTAA
1 TAAT-ATTTATTTGATATTTAA
9730160 TAATATTTA
1 TAATATTTA
9730169 CATAATTGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
19 2 0.08
20 1 0.04
21 19 0.79
22 2 0.08
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (21 bp):
TAATATTTATTTGATATTTAA
Found at i:9737740 original size:51 final size:50
Alignment explanation
Indices: 9737664--9737768 Score: 156
Period size: 51 Copynumber: 2.1 Consensus size: 50
9737654 GTAGCTGCAA
*
9737664 ATCATTTGTTTAGATTAAGTGTCCATGTGTTGTATGTATCAAGATAGGGC
1 ATCATTTGTTTAGATTAAGTGTCCATGTGTTGTACGTATCAAGATAGGGC
* * * *
9737714 ATCATTTGTTTATATTTAAGTGTCCATTTGTTGTACGTATGAAGATAGGGT
1 ATCATTTGTTTAGA-TTAAGTGTCCATGTGTTGTACGTATCAAGATAGGGC
9737765 ATCA
1 ATCA
9737769 GAACCAGCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 13 0.27
51 36 0.73
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.42
Consensus pattern (50 bp):
ATCATTTGTTTAGATTAAGTGTCCATGTGTTGTACGTATCAAGATAGGGC
Found at i:9740933 original size:14 final size:14
Alignment explanation
Indices: 9740914--9740967 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
9740904 TTAGATCAAT
9740914 TAAAATTATATATA
1 TAAAATTATATATA
* *
9740928 TAAAATTACATAAAA
1 TAAAATTATAT-ATA
9740943 TTAAAATT-TATTATA
1 -TAAAATTATA-TATA
9740958 TAAAATTATA
1 TAAAATTATA
9740968 CATTAAATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
14 17 0.53
15 7 0.22
16 8 0.25
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAATTATATATA
Found at i:9740970 original size:32 final size:31
Alignment explanation
Indices: 9740911--9740998 Score: 99
Period size: 32 Copynumber: 2.8 Consensus size: 31
9740901 AAATTAGATC
9740911 AATTAAAA-TTATATATATAAAA-TTACATAA
1 AATTAAAATTTAT-TATATAAAATTTACATAA
*
9740941 AATTAAAATTTATTATATAAAATTATACATTA
1 AATTAAAATTTATTATATAAAATT-TACATAA
* * *
9740973 AATGAAAATTCATTCATATATAATTT
1 AATTAAAATTTATT-ATATAAAATTT
9740999 GAAGATTTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
30 17 0.34
31 5 0.10
32 19 0.38
33 9 0.18
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (31 bp):
AATTAAAATTTATTATATAAAATTTACATAA
Found at i:9741706 original size:31 final size:31
Alignment explanation
Indices: 9741671--9741745 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
9741661 CTTAATACTT
9741671 AATAGTTCAGTGACTTAAATGAAAACTTTCA
1 AATAGTTCAGTGACTTAAATGAAAACTTTCA
**
9741702 AATAGTTCAGTGACTTAAATGAAAACTTTTG
1 AATAGTTCAGTGACTTAAATGAAAACTTTCA
*
9741733 AATAGTTTAGTGA
1 AATAGTTCAGTGA
9741746 TCATTTTGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (31 bp):
AATAGTTCAGTGACTTAAATGAAAACTTTCA
Found at i:9741913 original size:14 final size:14
Alignment explanation
Indices: 9741894--9741931 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
9741884 TGTTTCACTA
9741894 AAAATGATTTCTGG
1 AAAATGATTTCTGG
9741908 AAAATGATTTCTGG
1 AAAATGATTTCTGG
9741922 AAAATGATTT
1 AAAATGATTT
9741932 ATTTTTCTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:9744257 original size:103 final size:102
Alignment explanation
Indices: 9744131--9744335 Score: 356
Period size: 103 Copynumber: 2.0 Consensus size: 102
9744121 CTCTTGACTT
* * *
9744131 GGAAATGTGACTTGACAACAAAATAAAATTTGAGCATGAAACTTTAATTTTGTGGTTGGTTTGAT
1 GGAAATGTGACTTGACAACAAAATAAAATTTGAGCATGAAACCTTAATTTTGTAGTTGATTTGAT
9744196 GAATATTGAAGGTTGGTCATCTTGAAACATATATAAA
66 GAATATTGAAGGTTGGTCATCTTGAAACATATATAAA
* *
9744233 GGAAATGTGAACTTGACAACAAAATGAAATTTTAGCATGAAACCTTAATTTTGTAGTTGATTTGA
1 GGAAATGTG-ACTTGACAACAAAATAAAATTTGAGCATGAAACCTTAATTTTGTAGTTGATTTGA
9744298 TGAATATTGAAGGTTGGTCATCTTGAAACATATATAAA
65 TGAATATTGAAGGTTGGTCATCTTGAAACATATATAAA
9744336 ATTAAATGAT
Statistics
Matches: 97, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
102 9 0.09
103 88 0.91
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (102 bp):
GGAAATGTGACTTGACAACAAAATAAAATTTGAGCATGAAACCTTAATTTTGTAGTTGATTTGAT
GAATATTGAAGGTTGGTCATCTTGAAACATATATAAA
Found at i:9745664 original size:7 final size:8
Alignment explanation
Indices: 9745644--9745728 Score: 59
Period size: 8 Copynumber: 10.5 Consensus size: 8
9745634 ATAACATTGA
9745644 ATTTTTAT
1 ATTTTTAT
9745652 ATTTTTAT
1 ATTTTTAT
* *
9745660 ATTTTAAAAAA
1 ATTTT---TAT
9745671 ATATTTT-T
1 AT-TTTTAT
*
9745679 ATTTTTAA
1 ATTTTTAT
*
9745687 ATTTTAAT
1 ATTTTTAT
*
9745695 ATTTTAAT
1 ATTTTTAT
9745703 ATTTTTAT
1 ATTTTTAT
*
9745711 -TTTTCAT
1 ATTTTTAT
9745718 ATTTTT-T
1 ATTTTTAT
9745725 ATTT
1 ATTT
9745729 ATTTTAAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
7 15 0.25
8 40 0.66
11 3 0.05
12 3 0.05
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (8 bp):
ATTTTTAT
Found at i:9746072 original size:29 final size:29
Alignment explanation
Indices: 9746016--9746072 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
9746006 TATATTTTAA
* * **
9746016 CAAAATTTTTAATGTGATACCTTTATTTT
1 CAAAATGTCTAATGTGATACCTAAATTTT
*
9746045 CAAAATGTCTAATGTGGTACCTAAATTT
1 CAAAATGTCTAATGTGATACCTAAATTT
9746073 AATTTTCGTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (29 bp):
CAAAATGTCTAATGTGATACCTAAATTTT
Found at i:9746117 original size:42 final size:42
Alignment explanation
Indices: 9746058--9746141 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
9746048 AATGTCTAAT
9746058 GTGGTACCTAAATTTAATTTTCGTCTACCAATCTAGCACCTC
1 GTGGTACCTAAATTTAATTTTCGTCTACCAATCTAGCACCTC
*
9746100 GTGGTACCTAAATTTAATTTTCGTCTACCAATCTAGTACCTC
1 GTGGTACCTAAATTTAATTTTCGTCTACCAATCTAGCACCTC
9746142 CTCTAACGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (42 bp):
GTGGTACCTAAATTTAATTTTCGTCTACCAATCTAGCACCTC
Found at i:9747313 original size:29 final size:29
Alignment explanation
Indices: 9747280--9747367 Score: 70
Period size: 29 Copynumber: 3.0 Consensus size: 29
9747270 GTTCAGGTAT
9747280 CACATTGGACATTTTGAAAGTAGAGATAC
1 CACATTGGACATTTTGAAAGTAGAGATAC
* * * * ** * *
9747309 CACATT-AATAATTTTATTAAAATTTAGGTAT
1 CACATTGGA-CA-TTT-TGAAAGTAGAGATAC
9747340 CACATTGGACATTTTGAAAGTAGAGATA
1 CACATTGGACATTTTGAAAGTAGAGATA
9747368 TCGCATTAAT
Statistics
Matches: 40, Mismatches: 15, Indels: 8
0.63 0.24 0.13
Matches are distributed among these distances:
28 1 0.03
29 16 0.40
30 6 0.15
31 16 0.40
32 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (29 bp):
CACATTGGACATTTTGAAAGTAGAGATAC
Found at i:9747360 original size:60 final size:60
Alignment explanation
Indices: 9747274--9747394 Score: 199
Period size: 60 Copynumber: 2.0 Consensus size: 60
9747264 AATTAAGTTC
9747274 AGGTATCACATTGGACATTTTGAAAGTAGAGATACCACATTAATAATTTTATTAA-AATTT
1 AGGTATCACATTGGACATTTTGAAAGTAGAGATACCACATTAATAATTTT-TTAATAATTT
* * *
9747334 AGGTATCACATTGGACATTTTGAAAGTAGAGATATCGCATTAATTATTTTTTAATAATTT
1 AGGTATCACATTGGACATTTTGAAAGTAGAGATACCACATTAATAATTTTTTAATAATTT
9747394 A
1 A
9747395 TTTGCTTTGA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 4 0.07
60 53 0.93
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (60 bp):
AGGTATCACATTGGACATTTTGAAAGTAGAGATACCACATTAATAATTTTTTAATAATTT
Found at i:9747706 original size:19 final size:19
Alignment explanation
Indices: 9747668--9747706 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9747658 TTTTAATGAG
** *
9747668 TTTTTATTTTTTTCATAAT
1 TTTTTATTTTTTAAAAAAT
9747687 TTTTTATTTTTTAAAAAAT
1 TTTTTATTTTTTAAAAAAT
9747706 T
1 T
9747707 ATTGTAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTATTTTTTAAAAAAT
Found at i:9749048 original size:46 final size:45
Alignment explanation
Indices: 9748998--9749169 Score: 215
Period size: 46 Copynumber: 3.8 Consensus size: 45
9748988 TGGTTGAGCA
9748998 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
9749044 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
9749090 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
9749136 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
9749170 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 96 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:9749152 original size:92 final size:92
Alignment explanation
Indices: 9748995--9749164 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
9748985 GGATGGTTGA
* *
9748995 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
9749060 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
9749087 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
9749152 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
9749165 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:9754524 original size:28 final size:28
Alignment explanation
Indices: 9754484--9754541 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
9754474 GAGAGAGTAA
9754484 TTCAGATTCTTGAAGACATGCTCAGATG
1 TTCAGATTCTTGAAGACATGCTCAGATG
9754512 TTCAGATTCTTGAAGACATGCTCAGATG
1 TTCAGATTCTTGAAGACATGCTCAGATG
9754540 TT
1 TT
9754542 GCGTATTGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (28 bp):
TTCAGATTCTTGAAGACATGCTCAGATG
Found at i:9756624 original size:46 final size:46
Alignment explanation
Indices: 9756574--9756699 Score: 216
Period size: 46 Copynumber: 2.7 Consensus size: 46
9756564 TGGTTGAGCA
* *
9756574 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
9756620 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* *
9756666 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
9756700 GGGGCGGGTT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:9758497 original size:20 final size:21
Alignment explanation
Indices: 9758472--9758512 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
9758462 TGAGTTTGGG
9758472 ATTATTT-TTTATAAAAAAAT
1 ATTATTTATTTATAAAAAAAT
*
9758492 ATTATTTATTTTTAAAAAAAT
1 ATTATTTATTTATAAAAAAAT
9758513 CTGTTATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTATTTATTTATAAAAAAAT
Found at i:9760689 original size:27 final size:27
Alignment explanation
Indices: 9760659--9760712 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
9760649 CCCTGTGGAG
9760659 ATGATAACTTATTTCTTACTTGTTACT
1 ATGATAACTTATTTCTTACTTGTTACT
9760686 ATGATAACTTATTTCTTACTTGTTACT
1 ATGATAACTTATTTCTTACTTGTTACT
9760713 TGAACAACTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (27 bp):
ATGATAACTTATTTCTTACTTGTTACT
Found at i:9760721 original size:27 final size:27
Alignment explanation
Indices: 9760659--9760721 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
9760649 CCCTGTGGAG
*
9760659 ATGATAACTTATTTCTTACTTGTTACT
1 ATGACAACTTATTTCTTACTTGTTACT
*
9760686 ATGATAACTTATTTCTTACTTGTTACT
1 ATGACAACTTATTTCTTACTTGTTACT
9760713 -TGAACAACT
1 ATG-ACAACT
9760722 GTGTACACTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.48
Consensus pattern (27 bp):
ATGACAACTTATTTCTTACTTGTTACT
Found at i:9763150 original size:40 final size:40
Alignment explanation
Indices: 9763041--9763175 Score: 144
Period size: 40 Copynumber: 3.4 Consensus size: 40
9763031 ATCGGTTATT
* * * * ** *
9763041 TATGGCACTTAGTGTGCGATACGACATAACTTCGGTTATA
1 TATGACACTTAGTGTGCGATTCGAGATAGCTTTAGCTATA
*
9763081 TATGACACTTAGTGTGCGATTCGATATAGCTTTAGCTATA
1 TATGACACTTAGTGTGCGATTCGAGATAGCTTTAGCTATA
* * * *
9763121 TATGACACTTAGTGTGTGATTTGAGATAGCTTTGGCTATG
1 TATGACACTTAGTGTGCGATTCGAGATAGCTTTAGCTATA
* *
9763161 TACGGCACTTAGTGT
1 TATGACACTTAGTGT
9763176 ATGAGATATT
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (40 bp):
TATGACACTTAGTGTGCGATTCGAGATAGCTTTAGCTATA
Found at i:9767617 original size:23 final size:23
Alignment explanation
Indices: 9767573--9767617 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9767563 ATCAATTCAA
*
9767573 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
9767596 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
9767618 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:9772817 original size:16 final size:17
Alignment explanation
Indices: 9772786--9772818 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9772776 TTCATAAGTA
9772786 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
9772803 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
9772819 GCTCTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:9773164 original size:46 final size:46
Alignment explanation
Indices: 9773099--9773417 Score: 381
Period size: 46 Copynumber: 7.0 Consensus size: 46
9773089 TTATCTTTGA
* * * * * *
9773099 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* * *** *
9773145 CAGGTTGCCATGGCATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** * * ** ***
9773191 TACATTGGCATGGTATCTTTCAACCATAGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
9773236 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
9773282 CCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
9773328 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
9773374 CATGTTGCCATGGTATCTTTCAACCATGGTCTTTCACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
9773418 TTCAGAAAGC
Statistics
Matches: 237, Mismatches: 34, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
45 40 0.17
46 197 0.83
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:9773340 original size:137 final size:138
Alignment explanation
Indices: 9773099--9773414 Score: 391
Period size: 137 Copynumber: 2.3 Consensus size: 138
9773089 TTATCTTTGA
* * * * * * *
9773099 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCAGGTTGCCATGGCATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGCATCTT
*** * * * **
9773164 TCAACCATGGTCTTGTTCATTTCATGTTACATTGGCATGGTATCTTTCAACCATAGTCTTATTCA
66 TCAACCATGGTCTTACACATTTCATATCACATTGCCATGGTATCTTTCAACCATAGTCTTACACA
* *
9773229 -TTCCCGT
131 TTTCACAT
** *
9773236 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCCTGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGCATCTT
** * *
9773301 TCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACA
66 TCAACCATGGTCTTACACATTTCATATCACATTGCCATGGTATCTTTCAACCATAGTCTTACACA
*
9773366 TTTCATAT
131 TTTCACAT
*
9773374 CATGTTGCCATGGTATCTTTCAACCATGGTCTTTCACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
9773415 CATTTCAGAA
Statistics
Matches: 152, Mismatches: 26, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
137 108 0.71
138 44 0.29
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (138 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGCATCTT
TCAACCATGGTCTTACACATTTCATATCACATTGCCATGGTATCTTTCAACCATAGTCTTACACA
TTTCACAT
Found at i:9779314 original size:40 final size:40
Alignment explanation
Indices: 9779269--9779402 Score: 133
Period size: 40 Copynumber: 3.4 Consensus size: 40
9779259 TTATTTGTGG
*
9779269 CACTTAGTGTGCGATACGACATAGCTTCAACTCTATATGA
1 CACTTAGTGTGCGATACGACATAGCTTCAACTATATATGA
* * ** *
9779309 CACTTAGTGTGCGATTCGACATCGCTTCGGCTATATATGG
1 CACTTAGTGTGCGATACGACATAGCTTCAACTATATATGA
* ** * ** * *
9779349 CACTTAGTGTGCAATTTGAGATAGCTTCGGCTATGTACGA
1 CACTTAGTGTGCGATACGACATAGCTTCAACTATATATGA
*
9779389 CACTTAGTATGCGA
1 CACTTAGTGTGCGA
9779403 GATATTGAGT
Statistics
Matches: 79, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (40 bp):
CACTTAGTGTGCGATACGACATAGCTTCAACTATATATGA
Found at i:9779432 original size:28 final size:28
Alignment explanation
Indices: 9779389--9779442 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
9779379 CTATGTACGA
* *
9779389 CACTTAGTATGCGAGATATTGAGTATGG
1 CACTTAGTATGAGAGACATTGAGTATGG
*
9779417 CACTTAGTGTGAGAGACATTGAGTAT
1 CACTTAGTATGAGAGACATTGAGTAT
9779443 TCAACGACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.31
Consensus pattern (28 bp):
CACTTAGTATGAGAGACATTGAGTATGG
Found at i:9794197 original size:19 final size:19
Alignment explanation
Indices: 9794157--9794198 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
9794147 TAAATAAGAT
* *
9794157 AAATAAAGATAAAAAGTGA
1 AAATAAAAATAAAAAGTAA
9794176 AAATAAAAATAATAAA-TAA
1 AAATAAAAATAA-AAAGTAA
9794195 AAAT
1 AAAT
9794199 TTTTTAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (19 bp):
AAATAAAAATAAAAAGTAA
Found at i:9800680 original size:9 final size:9
Alignment explanation
Indices: 9800623--9800699 Score: 73
Period size: 9 Copynumber: 8.6 Consensus size: 9
9800613 ATAAGTATAA
*
9800623 AATTAACCA
1 AATTAACCG
*
9800632 AATTAATCG
1 AATTAACCG
9800641 AATTAACCG
1 AATTAACCG
*
9800650 AATTACCCG
1 AATTAACCG
* *
9800659 AATTACCCA
1 AATTAACCG
*
9800668 AATTAACTG
1 AATTAACCG
**
9800677 AATTAATTG
1 AATTAACCG
*
9800686 AATTAACTG
1 AATTAACCG
9800695 AATTA
1 AATTA
9800700 TTTGTATAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 58 1.00
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTAACCG
Found at i:9800920 original size:18 final size:18
Alignment explanation
Indices: 9800897--9800931 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9800887 TTTCTTTATT
9800897 AATTTTTTCAGTTAACCA
1 AATTTTTTCAGTTAACCA
*
9800915 AATTTTTTCGGTTAACC
1 AATTTTTTCAGTTAACC
9800932 GACTGATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.17, G:0.09, T:0.46
Consensus pattern (18 bp):
AATTTTTTCAGTTAACCA
Found at i:9807743 original size:40 final size:40
Alignment explanation
Indices: 9807688--9807769 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
9807678 AGTATCGATT
* * *
9807688 CCTTTAACAAAGTATCGATACTTTTCCTATTTTATCAATA
1 CCTTTAACAAAGTATCAATACCTTCCCTATTTTATCAATA
*
9807728 CCTTTAACAAAGTATCAATACCTTCCCTATTTTATCGATA
1 CCTTTAACAAAGTATCAATACCTTCCCTATTTTATCAATA
9807768 CC
1 CC
9807770 CCTACCTGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (40 bp):
CCTTTAACAAAGTATCAATACCTTCCCTATTTTATCAATA
Found at i:9810142 original size:19 final size:18
Alignment explanation
Indices: 9810120--9810172 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
9810110 TTATTTTTTT
*
9810120 ATTAATCATATTTAATTTA
1 ATTAATCATAATT-ATTTA
9810139 ATTAATCATAATTATTTA
1 ATTAATCATAATTATTTA
*
9810157 ACCTTAAGCATAATTA
1 A--TTAATCATAATTA
9810173 ACTAATTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 6 0.20
19 12 0.40
20 12 0.40
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATCATAATTATTTA
Found at i:9814269 original size:35 final size:35
Alignment explanation
Indices: 9814146--9814274 Score: 145
Period size: 35 Copynumber: 3.7 Consensus size: 35
9814136 TCCTTATTGA
* * *
9814146 AATACCATAACTACATTTCACAACTCAGAATGGGA-
1 AATACCATACCTACGTTTCACAACTCAGTAT-GGAT
* ***
9814181 AATGCCATACCTACGTTTTTTAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
9814216 AATACCATACCTACGTTTCACAACTCAGTATTGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
9814251 AACACCATACCTACGTTTCA-AACT
1 AATACCATACCTACGTTTCACAACT
9814275 TTGTCATGGA
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
34 7 0.09
35 72 0.91
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:9822429 original size:113 final size:109
Alignment explanation
Indices: 9822309--9822580 Score: 336
Period size: 113 Copynumber: 2.4 Consensus size: 109
9822299 AAGTTTTAAA
9822309 AAAAAAAAGAATTTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGTAATTTAAAAAAAATT-
1 AAAAAAAA-AATTTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGTAATTTAAAAAAAATTA
* * * * *
9822373 AATTTTTTTTTGTGTTGGCCTGTCAATGGCCTGTACCAGAATACGAGTTTTT
65 AATTTTTTTTGGTGATGGCCTATCAATGGCCGGCACCAG--TA--A---TTT
** *
9822425 AAAAAAAAAA---AATTTGGCTGCTGGCCCGTCAATGGCCGGCACCAGTAATTTAAAAAAAATTA
1 AAAAAAAAAATTTTTTTTGG-TGCTGGCCTGTCAATGGCCGGCACCAGTAATTTAAAAAAAATTA
9822487 AATTTTTTTTGGTGATGGCCTATCAATGGCCGGCACCAGTAATTT
65 AATTTTTTTTGGTGATGGCCTATCAATGGCCGGCACCAGTAATTT
9822532 AAAAAAAAATTAATTTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCA
1 -AAAAAAAA--AATTTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCA
9822581 AAATACGAGT
Statistics
Matches: 137, Mismatches: 11, Indels: 20
0.82 0.07 0.12
Matches are distributed among these distances:
107 3 0.02
108 8 0.06
110 3 0.02
112 32 0.23
113 47 0.34
114 34 0.25
115 2 0.01
116 8 0.06
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (109 bp):
AAAAAAAAAATTTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCAGTAATTTAAAAAAAATTAA
ATTTTTTTTGGTGATGGCCTATCAATGGCCGGCACCAGTAATTT
Found at i:9822518 original size:56 final size:56
Alignment explanation
Indices: 9822453--9822580 Score: 222
Period size: 56 Copynumber: 2.3 Consensus size: 56
9822443 TGCTGGCCCG
9822453 TCAATGGCCGGCACCAGTAATTT-AAAAAAAATTAAATTTTTTTTGGTGATGGCCTA
1 TCAATGGCCGGCACCAGTAATTTAAAAAAAAATT-AATTTTTTTTGGTGATGGCCTA
* *
9822509 TCAATGGCCGGCACCAGTAATTTAAAAAAAAATTAATTTTTTTTGGTGCTGGCCTG
1 TCAATGGCCGGCACCAGTAATTTAAAAAAAAATTAATTTTTTTTGGTGATGGCCTA
9822565 TCAATGGCCGGCACCA
1 TCAATGGCCGGCACCA
9822581 AAATACGAGT
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
56 59 0.86
57 10 0.14
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (56 bp):
TCAATGGCCGGCACCAGTAATTTAAAAAAAAATTAATTTTTTTTGGTGATGGCCTA
Found at i:9826423 original size:14 final size:14
Alignment explanation
Indices: 9826406--9826505 Score: 93
Period size: 14 Copynumber: 7.2 Consensus size: 14
9826396 TTTCAATTCA
9826406 TTTCATATTATTTT
1 TTTCATATTATTTT
*
9826420 TTTCATATTATTAT
1 TTTCATATTATTTT
*
9826434 TTTC-TTTTCATATTAT
1 TTTCATATT-AT-TT-T
*
9826450 TTTTATATTATTTT
1 TTTCATATTATTTT
*
9826464 TTCCATATTA---T
1 TTTCATATTATTTT
9826475 TTTCATATTATTTT
1 TTTCATATTATTTT
9826489 TTTCA-ATTCATTTT
1 TTTCATATT-ATTTT
9826503 TTT
1 TTT
9826506 TTCATATTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
11 10 0.14
13 6 0.09
14 42 0.60
15 3 0.04
16 6 0.09
17 3 0.04
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTCATATTATTTT
Found at i:9826441 original size:19 final size:17
Alignment explanation
Indices: 9826411--9826524 Score: 73
Period size: 17 Copynumber: 6.7 Consensus size: 17
9826401 ATTCATTTCA
9826411 TATTATTTTTTTCATAT
1 TATTATTTTTTTCATAT
9826428 TATTATTTTCTTTTCATAT
1 TATTA-TTT-TTTTCATAT
*
9826447 TATT-TTTATATT-AT-T
1 TATTATTT-TTTTCATAT
*
9826462 TTTTCCATATTATTTTC--A-
1 TATT--AT-TT-TTTTCATAT
9826480 TATTATTTTTTTCA-AT
1 TATTATTTTTTTCATAT
9826496 TCATT-TTTTTTTCATAT
1 T-ATTATTTTTTTCATAT
*
9826513 TAATATTTTTTT
1 TATTATTTTTTT
9826525 TCAAATTAAT
Statistics
Matches: 78, Mismatches: 6, Indels: 26
0.71 0.05 0.24
Matches are distributed among these distances:
14 5 0.06
15 7 0.09
16 16 0.21
17 24 0.31
18 7 0.09
19 19 0.24
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTATTTTTTTCATAT
Found at i:9826457 original size:11 final size:11
Alignment explanation
Indices: 9826410--9826489 Score: 63
Period size: 11 Copynumber: 7.0 Consensus size: 11
9826400 AATTCATTTC
9826410 ATATTATTTTT
1 ATATTATTTTT
* *
9826421 TTCA-TATTATT
1 AT-ATTATTTTT
* * *
9826432 ATTTTCTTTTC
1 ATATTATTTTT
9826443 ATATTATTTTT
1 ATATTATTTTT
9826454 ATATTATTTTTT
1 ATATTA-TTTTT
*
9826466 CCATATTATTTTC
1 --ATATTATTTTT
9826479 ATATTATTTTT
1 ATATTATTTTT
9826490 TTCAATTCAT
Statistics
Matches: 52, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
11 36 0.69
12 6 0.12
13 4 0.08
14 6 0.12
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:9826470 original size:25 final size:25
Alignment explanation
Indices: 9826428--9826503 Score: 100
Period size: 25 Copynumber: 3.0 Consensus size: 25
9826418 TTTTTCATAT
9826428 TATTATTTTCTTTTCATATTATTTTTA
1 TATTA-TTT-TTTTCATATTATTTTTA
* *
9826455 TATTATTTTTTCCATATTATTTTCA
1 TATTATTTTTTTCATATTATTTTTA
9826480 TATTATTTTTTTCA-ATTCATTTTT
1 TATTATTTTTTTCATATT-ATTTTT
9826504 TTTTCATATT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
24 3 0.07
25 33 0.75
26 3 0.07
27 5 0.11
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.68
Consensus pattern (25 bp):
TATTATTTTTTTCATATTATTTTTA
Found at i:9826521 original size:18 final size:16
Alignment explanation
Indices: 9826485--9826535 Score: 66
Period size: 18 Copynumber: 3.0 Consensus size: 16
9826475 TTTCATATTA
*
9826485 TTTTTTTCAATTCATT
1 TTTTTTTCAATTAATT
9826501 TTTTTTTCATATTAATAT
1 TTTTTTTCA-ATTAAT-T
9826519 TTTTTTTCAAATTAATT
1 TTTTTTTC-AATTAATT
9826536 AAAAGTGGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
16 9 0.29
17 6 0.19
18 15 0.48
19 1 0.03
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTTTCAATTAATT
Found at i:9826522 original size:69 final size:68
Alignment explanation
Indices: 9826388--9826514 Score: 183
Period size: 69 Copynumber: 1.9 Consensus size: 68
9826378 TTTCATTTCA
*
9826388 ATTATTTTTTTCAATTCATTTCATATTATTTTTTTCATATTATTATTTTCTTTTCATATTATTTT
1 ATTATTTTTTCCAATTCATTTCATATTATTTTTTTCATATTATTATTTTCTTTTCATATTATTTT
9826453 TAT
66 TAT
9826456 ATTATTTTTTCCATATT-ATTTTCATATTATTTTTTTCA-ATTCA-T-TTTT-TTTTCATATTA
1 ATTATTTTTTCCA-ATTCA-TTTCATATTATTTTTTTCATATT-ATTATTTTCTTTTCATATTA
9826515 ATATTTTTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
66 11 0.20
67 4 0.07
68 17 0.31
69 23 0.42
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (68 bp):
ATTATTTTTTCCAATTCATTTCATATTATTTTTTTCATATTATTATTTTCTTTTCATATTATTTT
TAT
Found at i:9826818 original size:5 final size:5
Alignment explanation
Indices: 9826810--9826886 Score: 82
Period size: 5 Copynumber: 14.6 Consensus size: 5
9826800 AACTTTTTTT
* *
9826810 TTTCA TTTCT TTTCA TTTTCA TTTCA TTTTCA TTTTA TTTCA TTTCAA
1 TTTCA TTTCA TTTCA -TTTCA TTTCA -TTTCA TTTCA TTTCA TTTC-A
* *
9826858 CTTCA TTTCA TTCTAA TTTCA TTTCA TTT
1 TTTCA TTTCA TT-TCA TTTCA TTTCA TTT
9826887 AAATTATTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
5 42 0.70
6 18 0.30
ACGTcount: A:0.19, C:0.18, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTCA
Found at i:9826829 original size:11 final size:11
Alignment explanation
Indices: 9826804--9826849 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
9826794 ATGTCAAACT
*
9826804 TTTTTTTTTCA
1 TTTTCTTTTCA
9826815 -TTTCTTTTCA
1 TTTTCTTTTCA
*
9826825 TTTTCATTTCA
1 TTTTCTTTTCA
9826836 TTTTCATTTT-A
1 TTTTC-TTTTCA
9826847 TTT
1 TTT
9826850 CATTTCAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 9 0.30
11 18 0.60
12 3 0.10
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTCTTTTCA
Found at i:9826867 original size:16 final size:16
Alignment explanation
Indices: 9826810--9826891 Score: 87
Period size: 16 Copynumber: 5.1 Consensus size: 16
9826800 AACTTTTTTT
* *
9826810 TTTCATTTCTTTTCAT
1 TTTCATTTCATTTCAA
9826826 TTTCATTTCATTTTC-A
1 TTTCATTTCA-TTTCAA
*
9826842 TTTTATTTCATTTCAA
1 TTTCATTTCATTTCAA
*
9826858 CTTCATTTCA-TTCTAA
1 TTTCATTTCATTTC-AA
*
9826874 TTTCATTTCATTTAAA
1 TTTCATTTCATTTCAA
9826890 TT
1 TT
9826892 ATTTTTTTTC
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
15 7 0.13
16 42 0.76
17 6 0.11
ACGTcount: A:0.22, C:0.17, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTCATTTCATTTCAA
Found at i:9826908 original size:20 final size:21
Alignment explanation
Indices: 9826879--9826926 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
9826869 TCTAATTTCA
9826879 TTTC-ATTTAAA-TTATTTTT
1 TTTCAATTTAAATTTATTTTT
9826898 TTTCAATTTAAATTTATTTTT
1 TTTCAATTTAAATTTATTTTT
*
9826919 TCTCAATT
1 TTTCAATT
9826927 CATTTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 4 0.15
20 7 0.27
21 15 0.58
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTCAATTTAAATTTATTTTT
Found at i:9827140 original size:27 final size:25
Alignment explanation
Indices: 9827106--9827244 Score: 108
Period size: 27 Copynumber: 5.4 Consensus size: 25
9827096 TTTCTTTCAA
9827106 ATTTAATTTCATTTTTTTCTCATTTC
1 ATTTAATTT-ATTTTTTTCTCATTTC
* *
9827132 ATTTCAATTAAATTTTTTCCTCATTTC
1 ATTT-AATT-TATTTTTTTCTCATTTC
*
9827159 ATTTAAATTTATCTTTCTTTC-AATTTTC
1 ATTT-AATTTAT-TTT-TTTCTCA-TTTC
* * *
9827187 ATTTAA---ATTTTGTAC-CGTTTC
1 ATTTAATTTATTTTTTTCTCATTTC
9827208 ATTTTAATTTATTTTTTTCTCATTTC
1 A-TTTAATTTATTTTTTTCTCATTTC
*
9827234 ATTTAAATTAT
1 ATTTAATTTAT
9827245 CAATTTTTCC
Statistics
Matches: 89, Mismatches: 14, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
21 5 0.06
22 7 0.08
23 3 0.03
24 2 0.02
25 16 0.18
26 12 0.13
27 33 0.37
28 11 0.12
ACGTcount: A:0.24, C:0.14, G:0.01, T:0.60
Consensus pattern (25 bp):
ATTTAATTTATTTTTTTCTCATTTC
Found at i:9827141 original size:76 final size:76
Alignment explanation
Indices: 9827035--9827197 Score: 231
Period size: 76 Copynumber: 2.1 Consensus size: 76
9827025 CTATCTTTCC
9827035 ATTTAATTTTTTTCTCATCTTATTTAAATTAAAAGTTTCTCC-CATTTCATTTAAATTTATCTTT
1 ATTTAATTTTTTTCTCATCTTATTTAAATT-AAAGTTTCTCCTCATTTCATTTAAATTTATCTTT
9827099 CTTTCAAATTTA
65 CTTTCAAATTTA
* * * *
9827111 ATTTCATTTTTTTCTCAT-TTCATTTCAATTAAATTTTTTCCTCATTTCATTTAAATTTATCTTT
1 ATTTAATTTTTTTCTCATCTT-ATTTAAATTAAAGTTTCTCCTCATTTCATTTAAATTTATCTTT
* *
9827175 CTTTCAATTTTC
65 CTTTCAAATTTA
*
9827187 ATTTAAATTTT
1 ATTTAATTTTT
9827198 GTACCGTTTC
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
75 11 0.14
76 66 0.86
ACGTcount: A:0.26, C:0.15, G:0.01, T:0.58
Consensus pattern (76 bp):
ATTTAATTTTTTTCTCATCTTATTTAAATTAAAGTTTCTCCTCATTTCATTTAAATTTATCTTTC
TTTCAAATTTA
Found at i:9827208 original size:76 final size:75
Alignment explanation
Indices: 9827077--9827242 Score: 226
Period size: 76 Copynumber: 2.2 Consensus size: 75
9827067 AAGTTTCTCC
* * *
9827077 CATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTCATTTTTTTCTCATTTCATTTCAATTA
1 CATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAATTTTGTACTCATTTCATTTCAATT-
9827142 AATTTTTTCCT
65 AATTTTTTCCT
* * * *
9827153 CATTTCATTTAAATTTATCTTTCTTTCAATTTTCATTTAAATTTTGTAC-CGTTTCATTTTAATT
1 CATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTT-AATTTTGTACTCATTTCATTTCAATT
* *
9827217 TATTTTTTTCT
65 AATTTTTTCCT
9827228 CATTTCATTTAAATT
1 CATTTCATTTAAATT
9827243 ATCAATTTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
75 24 0.30
76 49 0.61
77 7 0.09
ACGTcount: A:0.25, C:0.14, G:0.01, T:0.60
Consensus pattern (75 bp):
CATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAATTTTGTACTCATTTCATTTCAATTA
ATTTTTTCCT
Found at i:9830343 original size:56 final size:56
Alignment explanation
Indices: 9830221--9830650 Score: 310
Period size: 57 Copynumber: 7.7 Consensus size: 56
9830211 GATAAATTTA
* *
9830221 GTGCCAGCCATTGACAGGCCGGCACCAAAAAAATTTC-AA--TTTTTTTAATACTG
1 GTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTCAAATTTTTTTTTAATACTG
* * * *
9830274 ATGCCGACCATTGACAGACTAGCACCAAAAAAATTTCAAATTTTTTTTTAATACTG
1 GTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTCAAATTTTTTTTTAATACTG
* *
9830330 GTGCCGGCCATTGATAGGCCAGCA-CAAAAAAA-ATC-AA-TTTTTTTTAATACTG
1 GTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTCAAATTTTTTTTTAATACTG
* * * * * * * * *
9830382 GCGCCAGCCATTAACAGGCCAGCACTAAAAAAA-AT-ATATTTTTTGAAAACTCATATTCTG
1 GTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTCAAATTTTTT-----TTTA-ATACTG
** * * *
9830442 GTGCCGGCCATTGACAGGTTAGCACC-AAAAAATTTTAATTTTTTTTTTAAATTACTA
1 GTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTCAAATTTTTTTTT-AA-TACTG
* * * *
9830499 GTGCCAGCCATTGACAGGCCAGCA-CAAAAAAATTTTGAATTTTTTTTTTAAATTGCTG
1 GTGCCGGCCATTGACAGGCCAGCACCAAAAAAA-TTTCAAATTTTTTTTT-AA-TACTG
* * *** * * *
9830557 GTGCTGGCCATTGACAAGCCAGCACCAAAAAAAAAATTTCAAA-AAATTTGT-ATTCTA
1 GTGCCGGCCATTGACAGGCCAGCACC---AAAAAAATTTCAAATTTTTTTTTAATACTG
* **
9830614 GTGCCGGCCATTAACAGGGAAGCACCAAAAAAATTTC
1 GTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTC
9830651 TTTTTTTTGA
Statistics
Matches: 299, Mismatches: 56, Indels: 43
0.75 0.14 0.11
Matches are distributed among these distances:
52 35 0.12
53 43 0.14
54 20 0.07
55 8 0.03
56 36 0.12
57 55 0.18
58 44 0.15
59 9 0.03
60 30 0.10
61 12 0.04
62 7 0.02
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (56 bp):
GTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTCAAATTTTTTTTTAATACTG
Found at i:9830567 original size:58 final size:57
Alignment explanation
Indices: 9830221--9830589 Score: 300
Period size: 53 Copynumber: 6.6 Consensus size: 57
9830211 GATAAATTTA
* * *
9830221 GTGCCAGCCATTGACAGGCCGGCACCAAAAAAATTTCAA---TTTTTTT-AA-TACTG
1 GTGCCGGCCATTGACAGGCCAGCA-CAAAAAAATTTTAATTTTTTTTTTAAATTACTG
* * * * * *
9830274 ATGCCGACCATTGACAGACTAGCACCAAAAAAATTTCAAATTTTTTTTT-AA-TACTG
1 GTGCCGGCCATTGACAGGCCAGCA-CAAAAAAATTTTAATTTTTTTTTTAAATTACTG
* * *
9830330 GTGCCGGCCATTGATAGGCCAGCACAAAAAAA-ATCAA--TTTTTTTT-AA-TACTG
1 GTGCCGGCCATTGACAGGCCAGCACAAAAAAATTTTAATTTTTTTTTTAAATTACTG
* * * * * **
9830382 GCGCCAGCCATTAACAGGCCAGCACTAAAAAAA--AT-ATATTTTTTGAAAACTCATATTCTG
1 GTGCCGGCCATTGACAGGCCAGCAC-AAAAAAATTTTAATTTTTTTTTTAAA-T--TA--CTG
** * *
9830442 GTGCCGGCCATTGACAGGTTAGCACCAAAAAATTTTAATTTTTTTTTTAAATTACTA
1 GTGCCGGCCATTGACAGGCCAGCACAAAAAAATTTTAATTTTTTTTTTAAATTACTG
* *
9830499 GTGCCAGCCATTGACAGGCCAGCACAAAAAAATTTTGAATTTTTTTTTTAAATTGCTG
1 GTGCCGGCCATTGACAGGCCAGCACAAAAAAATTTT-AATTTTTTTTTTAAATTACTG
* *
9830557 GTGCTGGCCATTGACAAGCCAGCACCAAAAAAA
1 GTGCCGGCCATTGACAGGCCAGCA-CAAAAAAA
9830590 AAATTTCAAA
Statistics
Matches: 258, Mismatches: 40, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
51 1 0.00
52 36 0.14
53 46 0.18
54 6 0.02
55 8 0.03
56 33 0.13
57 34 0.13
58 42 0.16
59 16 0.06
60 23 0.09
61 2 0.01
62 11 0.04
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (57 bp):
GTGCCGGCCATTGACAGGCCAGCACAAAAAAATTTTAATTTTTTTTTTAAATTACTG
Found at i:9833085 original size:21 final size:22
Alignment explanation
Indices: 9833061--9833162 Score: 84
Period size: 21 Copynumber: 4.6 Consensus size: 22
9833051 TACAAAAGTG
*
9833061 TTAATATTTA-ATTAAAAATAT
1 TTAATATTTATATTATAAATAT
*
9833082 TTAATAATTATATT-TAAATAT
1 TTAATATTTATATTATAAATAT
* * * *
9833103 TTAAAATATATTTTATAAATAA
1 TTAATATTTATATTATAAATAT
*
9833125 TTAATATTAATTACTT-TAAAATAT
1 TTAATATTTA-TA-TTAT-AAATAT
*
9833149 TTAAAATTTATATT
1 TTAATATTTATATT
9833163 TCATATATTA
Statistics
Matches: 62, Mismatches: 14, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
21 25 0.40
22 18 0.29
23 4 0.06
24 15 0.24
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAATATTTATATTATAAATAT
Found at i:9833111 original size:30 final size:30
Alignment explanation
Indices: 9833075--9833179 Score: 81
Period size: 36 Copynumber: 3.3 Consensus size: 30
9833065 TATTTAATTA
9833075 AAAATATTTAATAATTATATTTAAATATTT
1 AAAATATTTAATAATTATATTTAAATATTT
*
9833105 AAAATATATTTTATAAATAATTA-ATATTAATTACTTT
1 -AAA-ATA--TT-T-AATAATTATAT-TTAAATA-TTT
*
9833142 AAAATATTTAA-AATTTATATTT-CATATATT
1 AAAATATTTAATAA-TTATATTTAAATAT-TT
9833172 AAAATATT
1 AAAATATT
9833180 AACAAGTTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 21
0.72 0.04 0.25
Matches are distributed among these distances:
29 1 0.02
30 14 0.23
31 10 0.16
32 6 0.10
33 2 0.03
34 2 0.03
35 6 0.10
36 17 0.28
37 3 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.49
Consensus pattern (30 bp):
AAAATATTTAATAATTATATTTAAATATTT
Found at i:9839493 original size:25 final size:23
Alignment explanation
Indices: 9839467--9839511 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
9839457 TACTAAATAT
* *
9839467 ATATATATTTTTTATTTTTAATC
1 ATATTTATATTTTATTTTTAATC
9839490 ATATTTATATTTTATTTTTAAT
1 ATATTTATATTTTATTTTTAAT
9839512 TTTAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
ATATTTATATTTTATTTTTAATC
Found at i:9839507 original size:29 final size:27
Alignment explanation
Indices: 9839475--9839529 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
9839465 ATATATATAT
* *
9839475 TTTTTATTTTTAATCATATTTATATTTTA
1 TTTTTAATTTTAAT-ATAATTA-ATTTTA
9839504 TTTTTAATTTTAATATAATTAATTTT
1 TTTTTAATTTTAATATAATTAATTTT
9839530 TATTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 6 0.25
29 13 0.54
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTTAATTTTAATATAATTAATTTTA
Found at i:9840620 original size:13 final size:13
Alignment explanation
Indices: 9840604--9840631 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9840594 AAAAACCTTT
9840604 AAAAATACAAAAA
1 AAAAATACAAAAA
9840617 AAAAATACAAAAA
1 AAAAATACAAAAA
9840630 AA
1 AA
9840632 TATTTTAAAA
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:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAAATACAAAAA
Found at i:9840641 original size:21 final size:20
Alignment explanation
Indices: 9840617--9840706 Score: 73
Period size: 19 Copynumber: 4.7 Consensus size: 20
9840607 AATACAAAAA
*
9840617 AAAAATACAAAAAAATATTTT
1 AAAAATACAAAAAAAT-TATT
*
9840638 AAAAAT-TAAAAAAATTATT
1 AAAAATACAAAAAAATTATT
* *
9840657 AAAAAT--AGAAAATTTA-T
1 AAAAATACAAAAAAATTATT
**
9840674 AAATTTACAAAAAAATTA-T
1 AAAAATACAAAAAAATTATT
*
9840693 AAAAATATAAAAAA
1 AAAAATACAAAAAA
9840707 CTTAAATTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
17 5 0.09
18 8 0.14
19 29 0.52
20 8 0.14
21 6 0.11
ACGTcount: A:0.69, C:0.02, G:0.01, T:0.28
Consensus pattern (20 bp):
AAAAATACAAAAAAATTATT
Found at i:9840650 original size:19 final size:19
Alignment explanation
Indices: 9840626--9840706 Score: 71
Period size: 18 Copynumber: 4.3 Consensus size: 19
9840616 AAAAAATACA
*
9840626 AAAAAATATTTTAAAAATT
1 AAAAAATATTATAAAAATT
9840645 AAAAAA-ATTATTAAAAA-T
1 AAAAAATATTA-TAAAAATT
* *
9840663 AGAAAAT-TTAT-AAATTT
1 AAAAAATATTATAAAAATT
*
9840680 ACAAAAAAATTATAAAAATAT
1 A-AAAAATATTATAAAAAT-T
9840701 AAAAAA
1 AAAAAA
9840707 CTTAAATTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
16 3 0.06
17 3 0.06
18 16 0.33
19 16 0.33
20 9 0.18
21 2 0.04
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (19 bp):
AAAAAATATTATAAAAATT
Found at i:9840713 original size:36 final size:37
Alignment explanation
Indices: 9840645--9840737 Score: 93
Period size: 36 Copynumber: 2.5 Consensus size: 37
9840635 TTTAAAAATT
* **
9840645 AAAAAAATTATTAAAAATA-GAAAATTTATAAATTTAC
1 AAAAAAATTA-TAAAAATATAAAAAACTATAAATTTAC
*
9840682 AAAAAAATTATAAAAATATAAAAAACT-TAAATTTTC
1 AAAAAAATTATAAAAATATAAAAAACTATAAATTTAC
* *
9840718 -TAAAAATTTTAAAAGATATA
1 AAAAAAATTATAAAA-ATATA
9840738 TTAGAAATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
35 12 0.25
36 21 0.44
37 15 0.31
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.32
Consensus pattern (37 bp):
AAAAAAATTATAAAAATATAAAAAACTATAAATTTAC
Found at i:9840723 original size:37 final size:38
Alignment explanation
Indices: 9840644--9840723 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 38
9840634 TTTTAAAAAT
* **
9840644 TAAAAAAATTATTAAAAATAGAAAATTTATAAATTTAC
1 TAAAAAAATTATTAAAAATAAAAAAACTATAAATTTAC
*
9840682 -AAAAAAATTA-TAAAAATATAAAAAACT-TAAATTTTC
1 TAAAAAAATTATTAAAAATA-AAAAAACTATAAATTTAC
9840718 TAAAAA
1 TAAAAA
9840724 TTTTAAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
36 16 0.44
37 20 0.56
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (38 bp):
TAAAAAAATTATTAAAAATAAAAAAACTATAAATTTAC
Found at i:9841073 original size:9 final size:9
Alignment explanation
Indices: 9841014--9841181 Score: 78
Period size: 9 Copynumber: 19.8 Consensus size: 9
9841004 AATATTAAAC
9841014 TTTTTA-AA
1 TTTTTATAA
*
9841022 TTTTTTTAA
1 TTTTTATAA
9841031 TTTTTAGTAAA
1 TTTTTA-T-AA
* * *
9841042 TCTTAAAAA
1 TTTTTATAA
*
9841051 TTTTCAT-A
1 TTTTTATAA
9841059 -TTTTATAA
1 TTTTTATAA
9841067 TTTTTATAA
1 TTTTTATAA
9841076 -TTTTATAA
1 TTTTTATAA
*
9841084 GTTTTTCT-A
1 -TTTTTATAA
*
9841093 -TTTT-CAA
1 TTTTTATAA
*
9841100 TATTTTGTAA
1 T-TTTTATAA
*
9841110 TTTTTAATAT
1 TTTTT-ATAA
9841120 TTTTTATAA
1 TTTTTATAA
9841129 TTTTT-TAA
1 TTTTTATAA
* *
9841137 TATGTAT--
1 TTTTTATAA
9841144 TTTTTAT--
1 TTTTTATAA
9841151 TTTTTAT--
1 TTTTTATAA
*
9841158 TTTTTGTAA
1 TTTTTATAA
9841167 -TTTTATAA
1 TTTTTATAA
9841175 TTTTTAT
1 TTTTTAT
9841182 TTTTCTATTT
Statistics
Matches: 123, Mismatches: 21, Indels: 31
0.70 0.12 0.18
Matches are distributed among these distances:
7 28 0.23
8 28 0.23
9 45 0.37
10 16 0.13
11 6 0.05
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Done.