Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 4 of 79
Found at i:1262877 original size:20 final size:21
Alignment explanation
Indices: 1262669--1263211 Score: 408
Period size: 21 Copynumber: 24.9 Consensus size: 21
1262659 CCTAATTAAA
*
1262669 TTAA-TTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACC--C
* * **
1262691 TTAAATTAAAAACACTAACAA
1 TTAACTTAAAAACCCTAACCC
* *
1262712 TTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACC--C
* *
1262735 TTAAATTCAAAACCCTAACCC
1 TTAACTTAAAAACCCTAACCC
*
1262756 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACC--C
* * **
1262779 TTAAATTAAGAACCCTAACTTAA
1 TTAACTTAAAAACCCTAAC--CC
*
1262802 TTAAATTAAAAACCCTAACCC
1 TTAACTTAAAAACCCTAACCC
*
1262823 GTT-ACTTAAAAACTCTAACCC
1 -TTAACTTAAAAACCCTAACCC
*
1262844 TTAGCTTAAAAACCCTAACCC
1 TTAACTTAAAAACCCTAACCC
* *
1262865 TTAACGT-AAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACC--C
* * *
1262887 TTAAATTAAGAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACC--C
* **
1262910 TTAAATTAAAAACCCTAACAA
1 TTAACTTAAAAACCCTAACCC
* *
1262931 TTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACC--C
* * *
1262954 TTAAATTAAAAACTCTAACCTAA
1 TTAACTTAAAAACCCTAACC--C
* * *
1262977 TTAAATTAAAAATCCTAACTC
1 TTAACTTAAAAACCCTAACCC
* **
1262998 TTAGCTTAAAAACCCTAACAA
1 TTAACTTAAAAACCCTAACCC
* *
1263019 TTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACC--C
* *
1263042 TTAAATTTAAAACCCTAACCC
1 TTAACTTAAAAACCCTAACCC
* *
1263063 TTAACTTAAAAACTCTAACCTAA
1 TTAACTTAAAAACCCTAACC--C
* * **
1263086 TTAAATTAAAAACCTTAACAA
1 TTAACTTAAAAACCCTAACCC
*
1263107 TTAAATTAAAAACCCTAACCC
1 TTAACTTAAAAACCCTAACCC
*
1263128 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACC--C
*
1263151 TTAAATTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCT-AACCC
1263173 TTAACTTAAAAACCCTAACCC
1 TTAACTTAAAAACCCTAACCC
1263194 TTAACTTAAAAACCCTAA
1 TTAACTTAAAAACCCTAA
1263212 ACTAAGTTAA
Statistics
Matches: 441, Mismatches: 59, Indels: 43
0.81 0.11 0.08
Matches are distributed among these distances:
20 14 0.03
21 205 0.46
22 26 0.06
23 192 0.44
24 4 0.01
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.26
Consensus pattern (21 bp):
TTAACTTAAAAACCCTAACCC
Found at i:1263008 original size:175 final size:175
Alignment explanation
Indices: 1262669--1263211 Score: 724
Period size: 175 Copynumber: 3.1 Consensus size: 175
1262659 CCTAATTAAA
* *
1262669 TTAA-TTAAAAACCCTAACCTAATTAAA-TTAAAAACACTAA-CAATTAAATTAAAAACCCTAAC
1 TTAACTTAAAAACCCTAACC-AATTAAACGT-AAAACCCTAACCAATTAAATTAAAAACCCTAAC
* ** * *
1262731 CTAATTAAATTCAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAGAACCCTA
64 CTAATTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* *
1262796 ACTTAATTAAATTAAAAACCCTAACCCGTTACTTAAAAACTCTAACCC
129 ACCTAATTAAATTAAAAACCCTAACCC-TTACTTAAAAACCCTAACCC
* * *
1262844 TTAGCTTAAAAACCCTAACC-CTT-AACGTAAAACCCTAACCTAATTAAATTAAGAACCCTAACC
1 TTAACTTAAAAACCCTAACCAATTAAACGTAAAACCCTAACC-AATTAAATTAAAAACCCTAACC
*
1262907 TAATTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACTCTAA
65 TAATTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
* * **
1262972 CCTAATTAAATTAAAAATCCTAACTCTTAGCTTAAAAACCCTAACAA
130 CCTAATTAAATTAAAAACCCTAACCCTTA-CTTAAAAACCCTAACCC
* ** * * *
1263019 TTAAATTAAAAACCCTAACCTAATTAAATTTAAAACCCTAACC-CTTAACTTAAAAACTCTAACC
1 TTAACTTAAAAACCCTAACC-AATTAAACGTAAAACCCTAACCAATTAAATTAAAAACCCTAACC
* * *
1263083 TAATTAAATTAAAAACCTTAACAATTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCCTAA
65 TAATTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
1263146 CCTAATTAAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCC
130 CCTAATTAAATTAAAAACCCT-AACCCTT-ACTTAAAAACCCTAACCC
1263194 TTAACTTAAAAACCCTAA
1 TTAACTTAAAAACCCTAA
1263212 ACTAAGTTAA
Statistics
Matches: 323, Mismatches: 35, Indels: 20
0.85 0.09 0.05
Matches are distributed among these distances:
173 11 0.03
174 43 0.13
175 176 0.54
176 76 0.24
177 2 0.01
178 15 0.05
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.26
Consensus pattern (175 bp):
TTAACTTAAAAACCCTAACCAATTAAACGTAAAACCCTAACCAATTAAATTAAAAACCCTAACCT
AATTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
CTAATTAAATTAAAAACCCTAACCCTTACTTAAAAACCCTAACCC
Found at i:1263801 original size:17 final size:18
Alignment explanation
Indices: 1263779--1263818 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1263769 TGTTTTTGTT
1263779 TTTTTATT-TTTATTTCA
1 TTTTTATTCTTTATTTCA
* *
1263796 TTTTTATTCTTTCTTTCG
1 TTTTTATTCTTTATTTCA
1263814 TTTTT
1 TTTTT
1263819 TTTACATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTATTCTTTATTTCA
Found at i:1264537 original size:3 final size:3
Alignment explanation
Indices: 1264511--1264582 Score: 67
Period size: 3 Copynumber: 23.0 Consensus size: 3
1264501 TTTAGCAATT
* *
1264511 TTA TTA TTTA GTTAA TTA TT- TTA TTA TTG TT- TTCA TTA TTA TTA TCA
1 TTA TTA -TTA -TT-A TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
1264558 TTA TTA TTA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA
1264583 GTTTTATTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
2 4 0.07
3 42 0.71
4 12 0.20
5 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:1264655 original size:16 final size:17
Alignment explanation
Indices: 1264631--1264664 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1264621 AATATATTAA
*
1264631 TTAGTTTTA-TTTTATT
1 TTAGCTTTATTTTTATT
1264647 TTAGCTTTATTTTTATT
1 TTAGCTTTATTTTTATT
1264664 T
1 T
1264665 CATATATATA
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:0.18, C:0.03, G:0.06, T:0.74
Consensus pattern (17 bp):
TTAGCTTTATTTTTATT
Found at i:1269067 original size:123 final size:123
Alignment explanation
Indices: 1268845--1269215 Score: 571
Period size: 123 Copynumber: 3.0 Consensus size: 123
1268835 TAAACATACT
* *
1268845 ACTGTAGAAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATCCTTCTCAAATAGCATCCTGCT
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTT-ACAAATTCTTCTCAAATAGCATCCTGCT
1268910 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTCCATGACCG
65 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTCCATGACCG
* *
1268969 ATTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCTA
* * * *
1269034 TAAGCGATTTTATATTATTTGCTTAGAAACGTCAAAAAAATTATTTCTTCCATGACCT
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTCCATGACCG
* * *
1269092 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCAAATAGCATCCTGTTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCTA
* * ** *
1269157 GAAGCGATTTTATACTATTTGATCAGAAACATCAACTCGAAATTATTTCTTCCAAGACC
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAA--AAAAATTATTTCTTCCATGACC
1269216 TAAAAACCCT
Statistics
Matches: 224, Mismatches: 21, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
123 172 0.77
124 33 0.15
125 19 0.08
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (123 bp):
ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCTA
GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTCCATGACCG
Found at i:1270328 original size:55 final size:55
Alignment explanation
Indices: 1270252--1270413 Score: 200
Period size: 55 Copynumber: 2.9 Consensus size: 55
1270242 ACAATTGATC
1270252 TAAACATATAAACAATCGATTCAAAAGAAGTAGTATTCCAACATAACAACCAATT
1 TAAACATATAAACAATCGATTCAAAAGAAGTAGTATTCCAACATAACAACCAATT
* * * * * * *
1270307 TGAACATATAAACAGTTGATTCAAAAGCAA-CAATATTCCAACATAACAATCGATT
1 TAAACATATAAACAATCGATTCAAAAG-AAGTAGTATTCCAACATAACAACCAATT
* *
1270362 TAAACATATAAACAATCGATTAAAAAGAAGAAGTAGTATTCCACCATAACAA
1 TAAACATATAAACAATCGATT--CAA-AAGAAGTAGTATTCCAACATAACAA
1270414 TCGATTCAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
55 63 0.72
56 2 0.02
57 4 0.05
58 19 0.22
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.23
Consensus pattern (55 bp):
TAAACATATAAACAATCGATTCAAAAGAAGTAGTATTCCAACATAACAACCAATT
Found at i:1270436 original size:34 final size:36
Alignment explanation
Indices: 1270372--1270449 Score: 97
Period size: 37 Copynumber: 2.2 Consensus size: 36
1270362 TAAACATATA
*
1270372 AACAATCGATTAAAAAGAAGAAGTAGTATTCCACCAT
1 AACAATCGATTAAAAAGAAGAAG-AGTATTCCAACAT
* *
1270409 AACAATCGATTCAAAAGAAGCA-A-TATTCCAACAT
1 AACAATCGATTAAAAAGAAGAAGAGTATTCCAACAT
*
1270443 GACAATC
1 AACAATC
1270450 AATTTAAACA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 16 0.43
35 1 0.03
37 20 0.54
ACGTcount: A:0.49, C:0.19, G:0.12, T:0.21
Consensus pattern (36 bp):
AACAATCGATTAAAAAGAAGAAGAGTATTCCAACAT
Found at i:1271420 original size:21 final size:20
Alignment explanation
Indices: 1271372--1271420 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
1271362 TAGGAGTTTG
* **
1271372 AATCAATTCAAACAATAATG
1 AATCAATTCAAACAACAAAC
*
1271392 AATTAATTCAAAACAACAAAC
1 AATCAATTC-AAACAACAAAC
1271413 AATCAATT
1 AATCAATT
1271421 GAAATAAGCG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.24
Consensus pattern (20 bp):
AATCAATTCAAACAACAAAC
Found at i:1271698 original size:55 final size:55
Alignment explanation
Indices: 1271602--1271832 Score: 257
Period size: 55 Copynumber: 4.2 Consensus size: 55
1271592 ATGTGTTATG
* * *
1271602 TAACAATTCGATTTAA-CATATAAACAATCGATTCAAGAGAAGTAGTATTCCAACA
1 TAACAA-TCAATTTAATCATATACACAATCGATTCAAAAGAAGTAGTATTCCAACA
* * *
1271657 TAACAATCAATTTAATCATATACACAATCAATTAAAAAGAAGCAGTATTCCAACA
1 TAACAATCAATTTAATCATATACACAATCGATTCAAAAGAAGTAGTATTCCAACA
* * **
1271712 TAACAATCAATTTAATCATATACACAATCGATTCAAAAGAAGTAGTGTTCTAATT
1 TAACAATCAATTTAATCATATACACAATCGATTCAAAAGAAGTAGTATTCCAACA
* * * * * * * * *
1271767 TGACAATCGATTTAAACATACAAAGAATCGACTCAAAAGAAGCACTATTCCAACA
1 TAACAATCAATTTAATCATATACACAATCGATTCAAAAGAAGTAGTATTCCAACA
* *
1271822 TGATAATCAAT
1 TAACAATCAAT
1271833 CCAAAAGAAG
Statistics
Matches: 147, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
54 8 0.05
55 139 0.95
ACGTcount: A:0.47, C:0.17, G:0.09, T:0.27
Consensus pattern (55 bp):
TAACAATCAATTTAATCATATACACAATCGATTCAAAAGAAGTAGTATTCCAACA
Found at i:1285991 original size:55 final size:55
Alignment explanation
Indices: 1285922--1286140 Score: 269
Period size: 55 Copynumber: 4.0 Consensus size: 55
1285912 ATGTGTTATG
* *
1285922 TAACAATCGATTTAAACATATA-AGCAATCGATTCAAAAGAAGTAATATTCCAACA
1 TAACAATCGATTTAAACATATACA-CAATCGATTCAAAAGAAGCAGTATTCCAACA
* * * *
1285977 TAATAATCGATTTAATCATATACACAATCAATTAAAAAGAAGCAGTATTCCAACA
1 TAACAATCGATTTAAACATATACACAATCGATTCAAAAGAAGCAGTATTCCAACA
* * * * *
1286032 TAACAATCAATTTAATCATATACACAATCGATTCAAAAGAAGTAGTGTTCCAACT
1 TAACAATCGATTTAAACATATACACAATCGATTCAAAAGAAGCAGTATTCCAACA
* * * * * *
1286087 TGACAATCGATTTAAACATATAAAGAATTGACTCAAAAGAAGCACTATTCCAAC
1 TAACAATCGATTTAAACATATACACAATCGATTCAAAAGAAGCAGTATTCCAAC
1286141 GTGATAATCG
Statistics
Matches: 140, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
55 139 0.99
56 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.09, T:0.26
Consensus pattern (55 bp):
TAACAATCGATTTAAACATATACACAATCGATTCAAAAGAAGCAGTATTCCAACA
Found at i:1288545 original size:14 final size:14
Alignment explanation
Indices: 1288526--1288573 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
1288516 ACTAATAATT
1288526 AAATTTAAAATTTA
1 AAATTTAAAATTTA
* *
1288540 AAATTTGAAATATAA
1 AAATTTAAAAT-TTA
*
1288555 AAATTAAAAATTTTA
1 AAATTTAAAA-TTTA
1288570 AAAT
1 AAAT
1288574 AAAAATAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 10 0.37
15 16 0.59
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
AAATTTAAAATTTA
Found at i:1288555 original size:21 final size:21
Alignment explanation
Indices: 1288526--1288584 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
1288516 ACTAATAATT
* *
1288526 AAATTTAAAATTTAAAATTTG
1 AAATATAAAATTAAAAATTTG
*
1288547 AAATATAAAAATTAAAAATTTT
1 AAATAT-AAAATTAAAAATTTG
*
1288569 AAA-ATAAAAATAAAAA
1 AAATATAAAATTAAAAA
1288585 ATAAATTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 10 0.30
21 7 0.21
22 16 0.48
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
AAATATAAAATTAAAAATTTG
Found at i:1288564 original size:22 final size:21
Alignment explanation
Indices: 1288532--1288586 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 21
1288522 AATTAAATTT
*
1288532 AAAATTTAAAATTTGAAATATA
1 AAAATTAAAAATTTGAAA-ATA
*
1288554 AAAATTAAAAATTTTAAAATA
1 AAAATTAAAAATTTGAAAATA
*
1288575 AAAATAAAAAAT
1 AAAATTAAAAAT
1288587 AAATTTCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 14 0.47
22 16 0.53
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAATTAAAAATTTGAAAATA
Found at i:1288572 original size:8 final size:7
Alignment explanation
Indices: 1288526--1288573 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
1288516 ACTAATAATT
1288526 AAATTTA
1 AAATTTA
1288533 AAATTTA
1 AAATTTA
*
1288540 AAATTTG
1 AAATTTA
*
1288547 AAATATAA
1 AAAT-TTA
*
1288555 AAATTAA
1 AAATTTA
1288562 AAATTTTA
1 AAA-TTTA
1288570 AAAT
1 AAAT
1288574 AAAAATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
7 24 0.69
8 11 0.31
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (7 bp):
AAATTTA
Found at i:1288585 original size:21 final size:22
Alignment explanation
Indices: 1288539--1288586 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
1288529 TTTAAAATTT
*
1288539 AAAATTTGAAATATAAAAATTA
1 AAAATTTGAAATATAAAAATAA
*
1288561 AAAATTTTAAA-ATAAAAATAA
1 AAAATTTGAAATATAAAAATAA
1288582 AAAAT
1 AAAAT
1288587 AAATTTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAATTTGAAATATAAAAATAA
Found at i:1289225 original size:74 final size:74
Alignment explanation
Indices: 1289104--1289256 Score: 261
Period size: 74 Copynumber: 2.1 Consensus size: 74
1289094 AAATGTTGAG
* * *
1289104 CACCAAATGGACCGTAAGCATGACTCCAAAATGGAAAGCGATTGAAACGCGTTTTCTAGTACCGC
1 CACCAAATGGACCGTAAGCATGACTCCAAAATGAAAAGCGATTGAAACGCGTTTTCTACTACCAC
1289169 TATTTTCCA
66 TATTTTCCA
* *
1289178 CACCAAATGGACCGTAAGCATGACTCCGAAATGAAAAGCGATTGAAACGCGTTTTCTACTGCCAC
1 CACCAAATGGACCGTAAGCATGACTCCAAAATGAAAAGCGATTGAAACGCGTTTTCTACTACCAC
1289243 TATTTTCCA
66 TATTTTCCA
1289252 CACCA
1 CACCA
1289257 GATACTTACG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.24
Consensus pattern (74 bp):
CACCAAATGGACCGTAAGCATGACTCCAAAATGAAAAGCGATTGAAACGCGTTTTCTACTACCAC
TATTTTCCA
Found at i:1290833 original size:28 final size:28
Alignment explanation
Indices: 1290801--1290857 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
1290791 TTATTTGATT
1290801 TAATTTGATTTTGAAAGTAATAATTCTA
1 TAATTTGATTTTGAAAGTAATAATTCTA
*
1290829 TAATTTGATTTTGAATGTAATAATTCTA
1 TAATTTGATTTTGAAAGTAATAATTCTA
1290857 T
1 T
1290858 CATATATGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.49
Consensus pattern (28 bp):
TAATTTGATTTTGAAAGTAATAATTCTA
Found at i:1290873 original size:28 final size:29
Alignment explanation
Indices: 1290801--1290874 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 29
1290791 TTATTTGATT
* *
1290801 TAATTTGATTTTGAAA-GTAATAATTCTA
1 TAATATGATGTTGAAATGTAATAATTCTA
* *
1290829 TAATTTGATTTTG-AATGTAATAATTCTA
1 TAATATGATGTTGAAATGTAATAATTCTA
*
1290857 TCATAT-ATGTTGAAATGT
1 TAATATGATGTTGAAATGT
1290875 TGCATTAGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
27 7 0.17
28 34 0.83
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.47
Consensus pattern (29 bp):
TAATATGATGTTGAAATGTAATAATTCTA
Found at i:1299586 original size:13 final size:13
Alignment explanation
Indices: 1299568--1299593 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1299558 AAGTGCGAGC
1299568 CTGTTGAAGACAA
1 CTGTTGAAGACAA
1299581 CTGTTGAAGACAA
1 CTGTTGAAGACAA
1299594 TATGCAAAGA
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:0.23, T:0.23
Consensus pattern (13 bp):
CTGTTGAAGACAA
Found at i:1302146 original size:13 final size:12
Alignment explanation
Indices: 1302130--1302163 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1302120 TATTTATTTG
1302130 TTTTTTTTCTCTT
1 TTTTTTTTCT-TT
1302143 TTTTTTTTCTTT
1 TTTTTTTTCTTT
*
1302155 TTTTCTTTC
1 TTTTTTTTC
1302164 AAATCCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:1302155 original size:19 final size:19
Alignment explanation
Indices: 1302113--1302162 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1302103 TCTTTTGATA
*
1302113 TTTTTTCTATTTATTTGTT
1 TTTTTTCTCTTTATTTGTT
*
1302132 TTTTTTCTCTTT-TTTTTT
1 TTTTTTCTCTTTATTTGTT
*
1302150 TCTTTTTTTCTTT
1 T-TTTTTCTCTTT
1302163 CAAATCCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 6 0.22
19 21 0.78
ACGTcount: A:0.04, C:0.10, G:0.02, T:0.84
Consensus pattern (19 bp):
TTTTTTCTCTTTATTTGTT
Found at i:1302163 original size:12 final size:11
Alignment explanation
Indices: 1302130--1302163 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
1302120 TATTTATTTG
*
1302130 TTTTTTTTCTC
1 TTTTTTTTTTC
1302141 TTTTTTTTTTC
1 TTTTTTTTTTC
1302152 TTTTTTTCTTTC
1 TTTTTTT-TTTC
1302164 AAATCCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:1306703 original size:23 final size:23
Alignment explanation
Indices: 1306673--1306729 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 23
1306663 TAGTGGAGGC
*
1306673 AAAAAAAGAGAAGCAAAAAAGTA
1 AAAAAAAGAGAAGCAAAAAAATA
1306696 AAAAAAAGAG--GCAAAAAAATA
1 AAAAAAAGAGAAGCAAAAAAATA
*
1306717 AAACAAAACAGAA
1 AAA-AAAAGAGAA
1306730 AACGAGAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 13 0.45
22 6 0.21
23 10 0.34
ACGTcount: A:0.75, C:0.07, G:0.14, T:0.04
Consensus pattern (23 bp):
AAAAAAAGAGAAGCAAAAAAATA
Found at i:1307206 original size:15 final size:15
Alignment explanation
Indices: 1307186--1307237 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
1307176 ACTTCACTTG
1307186 AAAAAAAAGAAAA-A
1 AAAAAAAAGAAAAGA
*
1307200 AACAAAAAATAAAAGA
1 AA-AAAAAAGAAAAGA
*
1307216 AAATAAAAGAAGAACGA
1 AAAAAAAAGAA-AA-GA
1307233 AAAAA
1 AAAAA
1307238 GAAAAGGAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 2 0.07
15 17 0.57
16 5 0.17
17 6 0.20
ACGTcount: A:0.83, C:0.04, G:0.10, T:0.04
Consensus pattern (15 bp):
AAAAAAAAGAAAAGA
Found at i:1307760 original size:108 final size:107
Alignment explanation
Indices: 1307562--1307770 Score: 289
Period size: 108 Copynumber: 1.9 Consensus size: 107
1307552 TAATTTATTC
** *
1307562 TCATTTGTATTCTAGCAAAATTGGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAAT
1 TCATTTGTATTCTAGCAAAATTGGCTATCTTGATTAATTCATTCATTTAGAGCTTTGCTCTCAAA
*
1307627 AAATTTCCATATTATCCTTTGTGATAATCTTTTTCATCTTAT
66 AAATTTCCATATTATCCTTTGTGATAACCTTTTTCATCTTAT
* *
1307669 TCATCTTGTA-TCTTAGCAAAATTTGCTATCTTGATTAATTCATTCATTTATAGCTTTGCTCTCA
1 TCAT-TTGTATTC-TAGCAAAATTGGCTATCTTGATTAATTCATTCATTTAGAGCTTTGCTCTCA
* *
1307733 ACAAAATTT-CATCTTGTCCATTT-TGATAACCTTTTTCA
64 A-AAAATTTCCATATTATCC-TTTGTGATAACCTTTTTCA
1307771 AGCATTTTTC
Statistics
Matches: 90, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
107 6 0.07
108 75 0.83
109 9 0.10
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (107 bp):
TCATTTGTATTCTAGCAAAATTGGCTATCTTGATTAATTCATTCATTTAGAGCTTTGCTCTCAAA
AAATTTCCATATTATCCTTTGTGATAACCTTTTTCATCTTAT
Found at i:1308484 original size:45 final size:45
Alignment explanation
Indices: 1308446--1308584 Score: 226
Period size: 45 Copynumber: 3.1 Consensus size: 45
1308436 AGATGGCAGA
1308446 TCTTGTCTTCCTATATTGGCAGTGAAGTAGATCAAAGATAGCAAG
1 TCTTGTCTTCCTATATTGGCAGTGAAGTAGATCAAAGATAGCAAG
* * * *
1308491 TCTTGTCTTTCTGTATTGGCAGCGAAGTAGA-CTGAAGATAGCAAG
1 TCTTGTCTTCCTATATTGGCAGTGAAGTAGATC-AAAGATAGCAAG
1308536 TCTTGTCTTCCTATATTGGCAGTGAAGTAGATCAAAGATAGCAAG
1 TCTTGTCTTCCTATATTGGCAGTGAAGTAGATCAAAGATAGCAAG
1308581 TCTT
1 TCTT
1308585 ATCTCCCGAA
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
44 1 0.01
45 82 0.98
46 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (45 bp):
TCTTGTCTTCCTATATTGGCAGTGAAGTAGATCAAAGATAGCAAG
Found at i:1308759 original size:84 final size:84
Alignment explanation
Indices: 1308671--1309067 Score: 216
Period size: 84 Copynumber: 4.6 Consensus size: 84
1308661 CCACAGATCT
* * *
1308671 TATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAGTCTTATCTCCCT-AAGCAGTAGTGGAG
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATCAAATCCAGTCTTATCTCCCTGAAGCAGTAGTAGAG
*
1308735 CAGACAGAAGAAAGCAATCC
66 CAGACAGAA-AAACCAATCC
* * * * * * * ** *
1308755 TATCTCCCTAAAGTTGCAGTGGAACGGATTGAAACCACAGATCTTATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTAGAGCAGA-TCAAATC-CAG-TCTTATCTCCCTGAAGCAGTAGTA
* * * *
1308820 GAGCAGATC---ACATCCAGTCT
63 GAGCAGA-CAGAAAAACCAATCC
** * * * * * ** *
1308840 TATCTCCCT-AAGCAGTAGTGGAGCAGA-CAGAAGAAACCAATCCTATCTCCCTGAAGTTGTAAT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATC---A-AATCCAGTCTTATCTCCCTGAAGCAGTAGT
* ** * *
1308903 AGAGCGGATTG-AAACCACAGATCT
62 AGAGCAGACAGAAAAAC-CA-ATCC
* ** *
1308927 TATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT-AAGCAGTAGTGGAG
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATCAAATCCAGTCTTATCTCCCTGAAGCAGTAGTAGAG
1308991 CAGACAGAAGAAACCAATCC
66 CAGACAGAA-AAACCAATCC
* * * * * *
1309011 TATCTCCCTGAAGTTGTAGTTGAGCGGATTGAAACCACAGATCTTATCTCTCTGAAG
1 TATCTCCCTGAAGTTGCAGTAGAGCAGA-TCAAATC-CAG-TCTTATCTCCCTGAAG
1309068 TTGCAATAGA
Statistics
Matches: 229, Mismatches: 63, Indels: 38
0.69 0.19 0.12
Matches are distributed among these distances:
84 103 0.45
85 45 0.20
86 15 0.07
87 33 0.14
88 31 0.14
89 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (84 bp):
TATCTCCCTGAAGTTGCAGTAGAGCAGATCAAATCCAGTCTTATCTCCCTGAAGCAGTAGTAGAG
CAGACAGAAAAACCAATCC
Found at i:1308807 original size:128 final size:128
Alignment explanation
Indices: 1308579--1309468 Score: 1413
Period size: 128 Copynumber: 7.0 Consensus size: 128
1308569 AAAGATAGCA
* * *
1308579 AGTCTTATCTCCCGAAGCAGTAGTGGAGCAGACAGAAGAAAGCAATCCTATCTCCCTAAAGTTGC
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGC
* *
1308644 AGTGGAACGGATTGAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCC
66 AGTGGAGCGGATTGAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCC
* *
1308707 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAGCAATCCTATCTCCCTAAAGTTGC
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGC
* *
1308772 AGTGGAACGGATTGAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCC
66 AGTGGAGCGGATTGAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCC
*
1308835 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGC
* *
1308900 AATAGAGCGGATTGAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCC
66 AGTGGAGCGGATTGAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCC
*
1308963 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGC
* *
1309028 AGTTGAGCGGATTGAAACCACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCGCATCC
66 AGTGGAGCGGATTGAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCC
*
1309091 AGTCTTATCTCCCTAAGCAGTAGTGGAACAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGC
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGC
* * * * * * *
1309156 AATGGAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGCTGCAGTAGAGTAGATCGTATTC
66 AGTGGAGCGGATTGAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCC
* * * *
1309219 AGTCTTATCTCTCTAAGCAGTAGTGGGGCAGACAGAAGAAACCAATCCTATCTCCCTGAAATTAC
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGC
* * * * *
1309284 AGTGGAGTGGATTAAAACCACATATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCA
66 AGTGGAGCGGATTGAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCC
* * ** *
1309347 AGTTTTATCTCCCTAAGCAGTAGTGGAGTAGACTA-AAGCTACTAATCCTATCTCCCTGAAGTTG
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC-AGAAGAAACCAATCCTATCTCCCTGAAGTTG
* *
1309411 CAGTGGAGCGGATTAAAACCACATATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC
65 CAGTGGAGCGGATTGAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC
1309469 ACGCCATAAC
Statistics
Matches: 713, Mismatches: 48, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
128 712 1.00
129 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (128 bp):
AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGC
AGTGGAGCGGATTGAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCC
Found at i:1308938 original size:44 final size:44
Alignment explanation
Indices: 1308627--1309557 Score: 309
Period size: 44 Copynumber: 21.6 Consensus size: 44
1308617 AAAGCAATCC
* * * * *
1308627 TATCTCCCTAAAGTTGCAGTGGAACGGATTGAAACCACAGATCT
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAACCACAGATCT
* * * * *
1308671 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TCACATC-CAG-TCT
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAACCACAGATCT
** * ** * *
1308712 TATCTCCCT-AAGCAGTAGTGGAGCAGACAGAAGA-AAGCA-ATCC
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAA-ACCA-CAGATCT
* * * * *
1308755 TATCTCCCTAAAGTTGCAGTGGAACGGATTGAAACCACAGATCT
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAACCACAGATCT
* * * * *
1308799 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TCACATC-CAG-TCT
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAACCACAGATCT
** * ** * *
1308840 TATCTCCCT-AAGCAGTAGTGGAGCAGACAGAAGA-AACCA-ATCC
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAA-ACCA-CAGATCT
* *
1308883 TATCTCCCTGAAGTTGTAATAGAGCGGATTGAAACCACAGATCT
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAACCACAGATCT
* * * * *
1308927 TATCTCTCTGAAGTTGCAGTAGAGCAGATCG-CATC-CAG-TCT
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAACCACAGATCT
** * ** * *
1308968 TATCTCCCT-AAGCAGTAGTGGAGCAGACAGAAGA-AACCA-ATCC
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAA-ACCA-CAGATCT
* *
1309011 TATCTCCCTGAAGTTGTAGTTGAGCGGATTGAAACCACAGATCT
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAACCACAGATCT
* * * * * *
1309055 TATCTCTCTGAAGTTGCAATAGAGCAGATCG-CATC-CAG-TCT
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAACCACAGATCT
** * * ** * *
1309096 TATCTCCCT-AAGCAGTAGTGGAACAGACAGAAGA-AACCA-ATCC
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAA-ACCA-CAGATCT
* * * *
1309139 TATCTCCCTGAAGTTGCAATGGAGCAGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAACCACAGATCT
* * * * * * **
1309183 TATCTCTCTGAAGCTGCAGTAGAGTAGATCG-TA-TTCAG-TCT
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAACCACAGATCT
* ** * * ** * *
1309224 TATCTCTCT-AAGCAGTAGTGGGGCAGACAGAAGA-AACCA-ATCC
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAA-ACCA-CAGATCT
* ** * ** * *
1309267 TATCTCCCTGAAATTACAGTGGAGTGGATTAAAACCACATATCT
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAACCACAGATCT
* ** * * * *
1309311 TATCTCTCTGAAGTTACAGTAGAGCAGATCG-CATCA-AG-TTT
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAACCACAGATCT
** * * * * *
1309352 TATCTCCCT-AAGCAGTAGTGGAGTAGACT-AAAGCTACTA-ATCC
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAA-CCAC-AGATCT
* * * * *
1309395 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACATATCT
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAACCACAGATCT
* * * ** * *
1309439 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TCACGCCATAACAAACCT
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAACC---ACAGATCT
* * * **
1309485 TATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAACA-AGTCT
1 TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAA-ACCACAGA-TCT
* *
1309530 TATCTCCCTAAAGTTGTAGTGGAGCAGA
1 TATCTCCCTGAAGTTGTAGTAGAGCAGA
1309558 CTGTAGATAA
Statistics
Matches: 637, Mismatches: 197, Indels: 105
0.68 0.21 0.11
Matches are distributed among these distances:
40 83 0.13
41 69 0.11
42 21 0.03
43 111 0.17
44 287 0.45
45 33 0.05
46 31 0.05
47 2 0.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAACCACAGATCT
Found at i:1309150 original size:84 final size:84
Alignment explanation
Indices: 1308799--1309167 Score: 243
Period size: 84 Copynumber: 4.3 Consensus size: 84
1308789 CCACAGATCT
* *
1308799 TATCTCTCTGAAGTTGCAGTAGAGCAGATC-ACATCCAGTCTTATCTCCCTAAGCAGTAGTGGAG
1 TATCTCCCTGAAGTTGCAATAGAGCAGATCGA-ATCCAGTCTTATCTCCCTAAGCAGTAGTGGAG
1308863 CAGACAGAAGAAACCAATCC
65 CAGACAGAAGAAACCAATCC
* * * * * * *
1308883 TATCTCCCTGAAGTTGTAATAGAGCGGATTGAAACCACAGATCTTATCTCTCT--GAAGT--TGC
1 TATCTCCCTGAAGTTGCAATAGAGCAGATCG-AATC-CAG-TCTTATCTCCCTAAGCAGTAGTGG
* * * * * *
1308944 AGTAGAGCAGATCGCATCCAGTCT
63 AGCAGA-CAGA-AGAAACCAATCC
** * * * * * * **
1308968 TATCTCCCT-AAGCAGTAGTGGAGCAGACAGA-AGAAACCAATCCTATCTCCCTGAAGTTGTAGT
1 TATCTCCCTGAAGTTGCAAT--AG-AG-CAGATCGAATCCAGTCTTATCTCCCT-AAGCAGTAGT
* * ** * *
1309031 TGAGCGGATTG-A-AACCACAGATCT
61 GGAGCAGACAGAAGAAAC-CA-ATCC
* * *
1309055 TATCTCTCTGAAGTTGCAATAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAAC
1 TATCTCCCTGAAGTTGCAATAGAGCAGATCGAATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGC
1309120 AGACAGAAGAAACCAATCC
66 AGACAGAAGAAACCAATCC
*
1309139 TATCTCCCTGAAGTTGCAATGGAGCAGAT
1 TATCTCCCTGAAGTTGCAATAGAGCAGAT
1309168 TAAAACCACA
Statistics
Matches: 207, Mismatches: 57, Indels: 42
0.68 0.19 0.14
Matches are distributed among these distances:
83 7 0.03
84 94 0.45
85 47 0.23
86 16 0.08
87 28 0.14
88 10 0.05
89 5 0.02
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (84 bp):
TATCTCCCTGAAGTTGCAATAGAGCAGATCGAATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGC
AGACAGAAGAAACCAATCC
Found at i:1309538 original size:45 final size:43
Alignment explanation
Indices: 1309390--1309556 Score: 156
Period size: 45 Copynumber: 3.7 Consensus size: 43
1309380 TAAAGCTACT
* * **
1309390 AATCCTATCTCCCTGAAGTTGCAGTGGAGC-GGATTAAAACCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGG-TTAAGATAAC
* * * * *
1309433 ATATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACGCCATAAC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAG--ATAAC
*
1309479 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT-AAGATAAC
* *
1309524 AAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAG
1309557 ACTGTAGATA
Statistics
Matches: 99, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
43 1 0.01
44 30 0.30
45 33 0.33
46 32 0.32
47 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAGATAAC
Found at i:1310332 original size:9 final size:9
Alignment explanation
Indices: 1310322--1310369 Score: 60
Period size: 9 Copynumber: 5.1 Consensus size: 9
1310312 TCTTTTGATA
1310322 TTTTTTCTAT
1 TTTTTTCT-T
* *
1310332 TTATTTGTT
1 TTTTTTCTT
1310341 TTTTTCTCTT
1 TTTTT-TCTT
1310351 TTTTTTCTT
1 TTTTTTCTT
1310360 TTTTTTCTT
1 TTTTTTCTT
1310369 T
1 T
1310370 CAAATCCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 19 0.58
10 14 0.42
ACGTcount: A:0.04, C:0.10, G:0.02, T:0.83
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:1311239 original size:32 final size:32
Alignment explanation
Indices: 1311196--1311265 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
1311186 TTTAAGTCAT
*
1311196 TATATATACGTACATGCA-TTTTT-TATAATACA
1 TATATACACGTACAT--ATTTTTTCTATAATACA
*
1311228 TATATACACGTACATATTTTTTCTATAATATA
1 TATATACACGTACATATTTTTTCTATAATACA
1311260 TATATA
1 TATATA
1311266 TACTCATTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 1 0.03
31 5 0.15
32 28 0.82
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (32 bp):
TATATACACGTACATATTTTTTCTATAATACA
Found at i:1312696 original size:9 final size:9
Alignment explanation
Indices: 1312678--1312723 Score: 69
Period size: 9 Copynumber: 5.3 Consensus size: 9
1312668 ATTTAGGAAT
1312678 ATATTAATA
1 ATATTAATA
*
1312687 ATATTGATA
1 ATATTAATA
1312696 ATA--AATA
1 ATATTAATA
1312703 ATATTAATA
1 ATATTAATA
1312712 ATATTAATA
1 ATATTAATA
1312721 ATA
1 ATA
1312724 AATAAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 6 0.18
9 27 0.82
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (9 bp):
ATATTAATA
Found at i:1312699 original size:3 final size:3
Alignment explanation
Indices: 1312682--1312752 Score: 54
Period size: 3 Copynumber: 22.7 Consensus size: 3
1312672 AGGAATATAT
* * * *
1312682 TAA TAA TAT TGA TAA TAAA TAA TAT TAA TAA TAT TAA TAA TAAA TAAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA T-AA T-AA
*
1312730 TAAA TAA TAA -AA TGA TAA TAA TA
1 T-AA TAA TAA TAA TAA TAA TAA TA
1312753 TAGAAAGACA
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
2 2 0.04
3 39 0.71
4 14 0.25
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1312704 original size:16 final size:16
Alignment explanation
Indices: 1312683--1312738 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 16
1312673 GGAATATATT
*
1312683 AATAATATTGATAATA
1 AATAATATTAATAATA
1312699 AATAATATTAATAATA
1 AATAATATTAATAATA
1312715 TTAATAATA--AATAAATA
1 --AATAATATTAAT-AATA
1312732 AATAATA
1 AATAATA
1312739 AAATGATAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
15 7 0.19
16 18 0.50
17 4 0.11
18 7 0.19
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
AATAATATTAATAATA
Found at i:1312707 original size:25 final size:25
Alignment explanation
Indices: 1312678--1312738 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
1312668 ATTTAGGAAT
*
1312678 ATATTAATAATATTGATAATAAATA
1 ATATTAATAATATTAATAATAAATA
1312703 ATATTAATAATATTAATAATAAATA
1 ATATTAATAATATTAATAATAAATA
*
1312728 A-ATAAATAATA
1 ATATTAATAATA
1312739 AAATGATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
24 9 0.26
25 25 0.74
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
ATATTAATAATATTAATAATAAATA
Found at i:1312748 original size:29 final size:29
Alignment explanation
Indices: 1312695--1312752 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
1312685 TAATATTGAT
*
1312695 AATAAATAATATTAATAATATTAATAATA
1 AATAAATAATAATAATAATATTAATAATA
1312724 AATAAATAAATAATAA-AATGA-TAATAATA
1 AATAAAT-AATAATAATAAT-ATTAATAATA
1312753 TAGAAAGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (29 bp):
AATAAATAATAATAATAATATTAATAATA
Found at i:1313250 original size:16 final size:16
Alignment explanation
Indices: 1313229--1313269 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
1313219 TGTTTTAAAG
1313229 AACAAGAAAATAAAAA
1 AACAAGAAAATAAAAA
* *
1313245 AACAAGACAGTAAAAA
1 AACAAGAAAATAAAAA
1313261 AA-AAGAAAA
1 AACAAGAAAA
1313270 ACAGAACCCC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.78, C:0.07, G:0.10, T:0.05
Consensus pattern (16 bp):
AACAAGAAAATAAAAA
Found at i:1319777 original size:2 final size:2
Alignment explanation
Indices: 1319772--1319796 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1319762 TGTGTATGTG
1319772 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
1319797 TTATGTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1324509 original size:18 final size:19
Alignment explanation
Indices: 1324465--1324511 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
1324455 AGCAAATAAA
1324465 GTTGGCATTGCAACTATTT
1 GTTGGCATTGCAACTATTT
1324484 GTTGGCATTGCAACTATTT
1 GTTGGCATTGCAACTATTT
1324503 G-TGGCATTG
1 GTTGGCATTG
1324512 GAGGCATTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 8 0.29
19 20 0.71
ACGTcount: A:0.19, C:0.15, G:0.26, T:0.40
Consensus pattern (19 bp):
GTTGGCATTGCAACTATTT
Found at i:1325853 original size:20 final size:20
Alignment explanation
Indices: 1325814--1325855 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
1325804 GTGTTAGAGT
*
1325814 TAATATAGTCAAAGCAGTTG
1 TAATATAGTCAAAACAGTTG
*
1325834 TAATATAGTCAAAACCGTTG
1 TAATATAGTCAAAACAGTTG
1325854 TA
1 TA
1325856 CCATTGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
TAATATAGTCAAAACAGTTG
Found at i:1325884 original size:15 final size:15
Alignment explanation
Indices: 1325864--1325894 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1325854 TACCATTGTA
1325864 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
1325879 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
1325894 A
1 A
1325895 AAGATGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTCTGTTAGCAGTT
Found at i:1344148 original size:13 final size:13
Alignment explanation
Indices: 1344132--1344156 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1344122 AAGAAAAGAT
1344132 GAAAAAAATGAGA
1 GAAAAAAATGAGA
1344145 GAAAAAAATGAG
1 GAAAAAAATGAG
1344157 GGCCCCCCTA
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:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (13 bp):
GAAAAAAATGAGA
Found at i:1344989 original size:44 final size:44
Alignment explanation
Indices: 1344941--1345137 Score: 120
Period size: 44 Copynumber: 4.5 Consensus size: 44
1344931 TAATCCGATT
*
1344941 CACTGTAACTTCAGGAAGATAAGATTGGTTTCTTCAATCTGCTC
1 CACTGCAACTTCAGGAAGATAAGATTGGTTTCTTCAATCTGCTC
* * * * * *
1344985 CACTGCAACTTTAGGGAGATAAGTTTGG---ATACGATCTGCTC
1 CACTGCAACTTCAGGAAGATAAGATTGGTTTCTTCAATCTGCTC
* * * **
1345026 TACTGCAACTTCA-GAGTGATAAGATCTGTGGTT-TT-AATCCACTC
1 CACTGCAACTTCAGGA-AGATAAGAT-TG-GTTTCTTCAATCTGCTC
* ** **
1345070 CACTGCAACTTCAAGG-AGATAGGATTACTAGCTTCAATCTGCTC
1 CACTGCAACTTC-AGGAAGATAAGATTGGTTTCTTCAATCTGCTC
** * *
1345114 CACTGTGACATCAGGGAGATAAGA
1 CACTGCAACTTCAGGAAGATAAGA
1345138 CTTGTAATTT
Statistics
Matches: 112, Mismatches: 30, Indels: 22
0.68 0.18 0.13
Matches are distributed among these distances:
40 1 0.01
41 28 0.25
42 2 0.02
43 7 0.06
44 71 0.63
45 2 0.02
46 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
CACTGCAACTTCAGGAAGATAAGATTGGTTTCTTCAATCTGCTC
Found at i:1345064 original size:129 final size:129
Alignment explanation
Indices: 1344889--1345136 Score: 293
Period size: 129 Copynumber: 1.9 Consensus size: 129
1344879 GTCTGATGCT
* * *
1344889 ATCTACTCTACTGCAACTTCAGAGAGATAAGTTCCATCATTCTAATCCGA-TTCACTGTAACTTC
1 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCCATCATTCTAATCC-ACTCCACTGCAACTTC
** ** * *
1344953 -AGGAAGATAAGATTGGTTTCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGTTTGGATAC
65 AAGG-AGATAAGATTACTAGCTTCAATCTGCTCCACTGCAACATCAGGGAGATAAGTTTGGATAC
1345017 G
129 G
* * ** ** *
1345018 ATCTGCTCTACTGCAACTTCAGAGTGATAAGATCTGTGGTTTTAATCCACTCCACTGCAACTTCA
1 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCCATCATTCTAATCCACTCCACTGCAACTTCA
* **
1345083 AGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTGACATCAGGGAGATAAG
66 AGGAGATAAGATTACTAGCTTCAATCTGCTCCACTGCAACATCAGGGAGATAAG
1345137 ACTTGTAATT
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
128 1 0.01
129 94 0.96
130 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (129 bp):
ATCTACTCTACTGCAACTTCAGAGAGATAAGATCCATCATTCTAATCCACTCCACTGCAACTTCA
AGGAGATAAGATTACTAGCTTCAATCTGCTCCACTGCAACATCAGGGAGATAAGTTTGGATACG
Found at i:1345313 original size:87 final size:87
Alignment explanation
Indices: 1345191--1345543 Score: 553
Period size: 87 Copynumber: 4.1 Consensus size: 87
1345181 ACTTATAATC
* ** * * *
1345191 TTCGATCTGCTTCACTGTCGACGCAGGAGGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATATGCTATCTTCAACCAGCTCCACTGCAA
1345256 CCAATGGAGGCAAGGCTTTGTT
66 CCAATGGAGGCAAGGCTTTGTT
* *
1345278 TTCGATCTGCTTCGCTGTTAACGGAGGAAGGCAAGATATGCTATCTTCAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATATGCTATCTTCAACCAGCTCCACTGCAA
* *
1345343 CCGATGGAGGCAAGGCTTCGTT
66 CCAATGGAGGCAAGGCTTTGTT
* *
1345365 TCCAATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATATGCTATCTTCAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATATGCTATCTTCAACCAGCTCCACTGCAA
*
1345430 CCGATGGAGGCAAGGCTTTGTT
66 CCAATGGAGGCAAGGCTTTGTT
* *
1345452 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATATGCTATCTTCAACCAGCTCCACTGCAA
* *
1345517 CCAATAGAGGCTAGGCTTTGTT
66 CCAATGGAGGCAAGGCTTTGTT
1345539 TTCGA
1 TTCGA
1345544 ACTACTTCTT
Statistics
Matches: 244, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 244 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATATGCTATCTTCAACCAGCTCCACTGCAA
CCAATGGAGGCAAGGCTTTGTT
Found at i:1350541 original size:46 final size:46
Alignment explanation
Indices: 1350210--1350528 Score: 534
Period size: 46 Copynumber: 6.9 Consensus size: 46
1350200 AAAGTATTCA
*
1350210 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGG
*
1350256 ATCGAAGATAGTAGATCTTGTCTTCCTGTATTTGGCAGCGGAG-GAG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTG-G
*
1350302 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGG
*
1350348 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAACGGAG-GAG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTG-G
* *
1350394 ATCGAAGATAGAAGATCTTGTCTTCGTGTATTTGGCAGCGGAGTGG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGG
*
1350440 ATCGAAGATAGTAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGG
*
1350486 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCTGCGGAG
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAG
1350529 GAGTTCAAAG
Statistics
Matches: 256, Mismatches: 13, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
45 2 0.01
46 252 0.98
47 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (46 bp):
ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGG
Found at i:1350555 original size:28 final size:28
Alignment explanation
Indices: 1350514--1350569 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
1350504 TGTCTTCCTG
** * *
1350514 TATTTGGCTGCGGAGGAGTTCAAAGATA
1 TATTTGGCAACGGAAGAGATCAAAGATA
*
1350542 TATTTGGCAACGGAAGAGATCGAAGATA
1 TATTTGGCAACGGAAGAGATCAAAGATA
1350570 GTAGATCTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (28 bp):
TATTTGGCAACGGAAGAGATCAAAGATA
Found at i:1350589 original size:74 final size:74
Alignment explanation
Indices: 1350468--1350615 Score: 208
Period size: 74 Copynumber: 2.0 Consensus size: 74
1350458 TGTCTTCCTG
* * * * *
1350468 TATTTGGCAGCGGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCTGCGGAGGAGT
1 TATTTGGCAACGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGGAGA
1350533 TCAAAGATA
66 TCAAAGATA
* *
1350542 TATTTGGCAACGGAAG-AGATCGAAGATAGTAGATCTTGTCTTTCTGTATTTGGCAGCGAAGGAG
1 TATTTGGCAACGG-AGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGGAG
*
1350606 ATCGAAGATA
65 ATCAAAGATA
1350616 GCAGATCTTG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
74 63 0.97
75 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.29
Consensus pattern (74 bp):
TATTTGGCAACGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGGAGA
TCAAAGATA
Found at i:1350609 original size:46 final size:46
Alignment explanation
Indices: 1350542--1350735 Score: 257
Period size: 46 Copynumber: 4.2 Consensus size: 46
1350532 TTCAAAGATA
* * *
1350542 TATTTGGCAACGGAA-GAGATCGAAGATAGTAGATCTTGTCTTTCTG
1 TATTTGGCAGC-GAAGGAGATCGAAGATAGCAGATCTTGTCTTCCTG
*
1350588 TATTTGGCAGCGAAGGAGATCGAAGATAGCAGATCTTGTCTTTCTG
1 TATTTGGCAGCGAAGGAGATCGAAGATAGCAGATCTTGTCTTCCTG
* *
1350634 TATTTGGCAG-TAGAGGATATCGAAGATAGCAGATCTTGTCTTCCTG
1 TATTTGGCAGCGA-AGGAGATCGAAGATAGCAGATCTTGTCTTCCTG
* * * *
1350680 TATTTGGCAGCGGAGTAGATCGAAGATAGCAAATATTGTCTTCCTG
1 TATTTGGCAGCGAAGGAGATCGAAGATAGCAGATCTTGTCTTCCTG
*
1350726 TATCTGGCAG
1 TATTTGGCAG
1350736 TAAAGCAAAT
Statistics
Matches: 133, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
45 4 0.03
46 129 0.97
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (46 bp):
TATTTGGCAGCGAAGGAGATCGAAGATAGCAGATCTTGTCTTCCTG
Found at i:1350635 original size:120 final size:120
Alignment explanation
Indices: 1350422--1350641 Score: 363
Period size: 120 Copynumber: 1.8 Consensus size: 120
1350412 TGTCTTCGTG
* * *
1350422 TATTTGGCAGCGGAGTGGATCGAAGATAGTAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGA
1 TATTTGGCAACGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTGGA
1350487 TCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCTGCGGAGGAGTTCAAAGATA
66 TCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCTGCGGAGGAGTTCAAAGATA
*
1350542 TATTTGGCAACGGAAG-AGATCGAAGATAGTAGATCTTGTCTTTCTGTATTTGGCAGCGAAG-GA
1 TATTTGGCAACGG-AGTAGATCGAAGATAGTAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTG-
*
1350605 GATCGAAGATAGCAGATCTTGTCTTTCTGTATTTGGC
64 GATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGC
1350642 AGTAGAGGAT
Statistics
Matches: 93, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
119 1 0.01
120 90 0.97
121 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.32
Consensus pattern (120 bp):
TATTTGGCAACGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTGGA
TCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCTGCGGAGGAGTTCAAAGATA
Found at i:1350658 original size:166 final size:166
Alignment explanation
Indices: 1350376--1350694 Score: 509
Period size: 166 Copynumber: 1.9 Consensus size: 166
1350366 TGTCTTCCTG
* *
1350376 TATTTGGCAACGGAGGAGATCGAAGATAGAAGATCTTGTCTTCGTGTATTTGGCAGCGGAGTGGA
1 TATTTGGCAACGGAAGAGATCGAAGATAGAAGATCTTGTCTTCGTGTATTTGGCAGCGAAGTGGA
* *
1350441 TCGAAGATAGTAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGATAGCAGATCTTG
66 TCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTG
*
1350506 TCTTCCTGTATTTGGCTGCGGAGGAGTTCAAAGATA
131 TCTTCCTGTATTTGGCAGCGGAGGAGTTCAAAGATA
*
1350542 TATTTGGCAACGGAAGAGATCGAAGATAGTAGATCTTGTCTTTC-TGTATTTGGCAGCGAAG-GA
1 TATTTGGCAACGGAAGAGATCGAAGATAGAAGATCTTGTC-TTCGTGTATTTGGCAGCGAAGTG-
* * *
1350605 GATCGAAGATAGCAGATCTTGTCTTTCTGTATTTGGCAGTAGAG-GATATCGAAGATAGCAGATC
64 GATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTG-GATCGAAGATAGCAGATC
1350669 TTGTCTTCCTGTATTTGGCAGCGGAG
128 TTGTCTTCCTGTATTTGGCAGCGGAG
1350695 TAGATCGAAG
Statistics
Matches: 141, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
165 2 0.01
166 136 0.96
167 3 0.02
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (166 bp):
TATTTGGCAACGGAAGAGATCGAAGATAGAAGATCTTGTCTTCGTGTATTTGGCAGCGAAGTGGA
TCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTG
TCTTCCTGTATTTGGCAGCGGAGGAGTTCAAAGATA
Found at i:1350700 original size:92 final size:92
Alignment explanation
Indices: 1350560--1350737 Score: 284
Period size: 92 Copynumber: 1.9 Consensus size: 92
1350550 AACGGAAGAG
* * * *
1350560 ATCGAAGATAGTAGATCTTGTCTTTCTGTATTTGGCAGCGAAGGAGATCGAAGATAGCAGATCTT
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGGAGATCGAAGATAGCAAATATT
* *
1350625 GTCTTTCTGTATTTGGCAGTAGAGGAT
66 GTCTTCCTGTATCTGGCAGTAGAGGAT
* *
1350652 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAAATATT
1 ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGGAGATCGAAGATAGCAAATATT
1350717 GTCTTCCTGTATCTGGCAGTA
66 GTCTTCCTGTATCTGGCAGTA
1350738 AAGCAAATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 78 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (92 bp):
ATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGGAGATCGAAGATAGCAAATATT
GTCTTCCTGTATCTGGCAGTAGAGGAT
Found at i:1350703 original size:212 final size:212
Alignment explanation
Indices: 1350347--1350733 Score: 625
Period size: 212 Copynumber: 1.8 Consensus size: 212
1350337 CAGCAGAGTG
*
1350347 GATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAACGGAGGAGATCGAAGATAGAAGATCT
1 GATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAACGAAGGAGATCGAAGATAGAAGATCT
* *
1350412 TGTCTTCGTGTATTTGGCAGCGGAGTGGATCGAAGATAGTAGATCTTGTCTTCCTGTATTTGGCA
66 TGTCTTCGTGTATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCA
* * * *
1350477 GCGGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCTGCGGAGGAGTTCAAAGATA
131 GCGGAGTAGATCGAAGATAGCAAATATTGTCTTCCTGTATCTGGCTGCGGAGGAGTTCAAAGATA
1350542 TATTTGGCAACGGAAGA
196 TATTTGGCAACGGAAGA
* * * *
1350559 GATCGAAGATAGTAGATCTTGTCTTTCTGTATTTGGCAGCGAAGGAGATCGAAGATAGCAGATCT
1 GATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAACGAAGGAGATCGAAGATAGAAGATCT
* *
1350624 TGTCTTTC-TGTATTTGGCAGTAGAG-GATATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
66 TGTC-TTCGTGTATTTGGCAGCAGAGTG-GATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
1350687 CAGCGGAGTAGATCGAAGATAGCAAATATTGTCTTCCTGTATCTGGC
129 CAGCGGAGTAGATCGAAGATAGCAAATATTGTCTTCCTGTATCTGGC
1350734 AGTAAAGCAA
Statistics
Matches: 160, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
211 1 0.01
212 156 0.98
213 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (212 bp):
GATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAACGAAGGAGATCGAAGATAGAAGATCT
TGTCTTCGTGTATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCA
GCGGAGTAGATCGAAGATAGCAAATATTGTCTTCCTGTATCTGGCTGCGGAGGAGTTCAAAGATA
TATTTGGCAACGGAAGA
Found at i:1352463 original size:3 final size:3
Alignment explanation
Indices: 1352457--1352515 Score: 57
Period size: 3 Copynumber: 19.3 Consensus size: 3
1352447 TCTAGTTAGG
* * *
1352457 TTA TTA TTA TTA TTA TCT- TTA CTA TTA TTA TTA GTA TTA ATA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
1352502 TTG TTA TTAA TTA T
1 TTA TTA TT-A TTA T
1352516 ATTTTCATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
2 1 0.02
3 40 0.89
4 4 0.09
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:1352836 original size:16 final size:16
Alignment explanation
Indices: 1352815--1352845 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1352805 TGGTTATATA
*
1352815 CATATATACGTATGTT
1 CATATATACCTATGTT
1352831 CATATATACCTATGT
1 CATATATACCTATGT
1352846 ATTTTCGTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (16 bp):
CATATATACCTATGTT
Found at i:1353393 original size:30 final size:30
Alignment explanation
Indices: 1353352--1353431 Score: 115
Period size: 30 Copynumber: 2.7 Consensus size: 30
1353342 CATATTTATG
*
1353352 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* * *
1353382 GAAAGTCAAAGATGTGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
*
1353412 GAAAGTCAAAGATAAGGGTA
1 GAAAGTCAAAGATATGGGTA
1353432 CCAAGATATT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.47, C:0.06, G:0.24, T:0.23
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:1359274 original size:30 final size:30
Alignment explanation
Indices: 1359233--1359312 Score: 124
Period size: 30 Copynumber: 2.7 Consensus size: 30
1359223 CATATTTATG
* *
1359233 GAAAATCAAAGATATGGGTATTAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
1359263 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
1359293 GAAAGTCAAAGATATGGGTA
1 GAAAGTCAAAGATATGGGTA
1359313 CCGAGATATT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.47, C:0.05, G:0.23, T:0.25
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:1362744 original size:55 final size:55
Alignment explanation
Indices: 1362668--1362807 Score: 210
Period size: 55 Copynumber: 2.5 Consensus size: 55
1362658 ACAATTGATC
* *
1362668 TAAACATATAAACAATCGATTCAAAAGAAGTAGTATTTCAACATAACAATCAATT
1 TAAACATATAAACAATCGATTCAAAAGAAGCAGTATTCCAACATAACAATCAATT
* * * *
1362723 TGAACATATAAACAGTTGATTCAAAAGCAA-CAGTATTCCAACATAACAATCGATT
1 TAAACATATAAACAATCGATTCAAAAG-AAGCAGTATTCCAACATAACAATCAATT
1362778 TAAACATATAAACAATCGATTCAAAAGAAG
1 TAAACATATAAACAATCGATTCAAAAGAAG
1362808 AAGAAGAAGT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
54 2 0.03
55 70 0.95
56 2 0.03
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.25
Consensus pattern (55 bp):
TAAACATATAAACAATCGATTCAAAAGAAGCAGTATTCCAACATAACAATCAATT
Found at i:1363607 original size:14 final size:15
Alignment explanation
Indices: 1363580--1363609 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1363570 TCTATTAAAC
1363580 ATTTTTATTAAAAAT
1 ATTTTTATTAAAAAT
1363595 ATTTTTATTAAAAAT
1 ATTTTTATTAAAAAT
1363610 GTTGAGCACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTTTATTAAAAAT
Found at i:1380788 original size:24 final size:24
Alignment explanation
Indices: 1380761--1380812 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
1380751 TTAGTAAGTC
*
1380761 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
1380785 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
1380809 AAAT
1 AAAT
1380813 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:1393894 original size:2 final size:2
Alignment explanation
Indices: 1393887--1393914 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1393877 AGGTTCCAGC
1393887 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1393915 CTACACATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1400276 original size:50 final size:51
Alignment explanation
Indices: 1400205--1400302 Score: 180
Period size: 50 Copynumber: 1.9 Consensus size: 51
1400195 ATCATTCATG
1400205 TATGTGAATTGTGTTTCATTGATTGTATTAAAATTTTAAAACCAAATAATA
1 TATGTGAATTGTGTTTCATTGATTGTATTAAAATTTTAAAACCAAATAATA
*
1400256 TATGTGAA-TGTGTTTTATTGATTGTATTAAAATTTTAAAACCAAATA
1 TATGTGAATTGTGTTTCATTGATTGTATTAAAATTTTAAAACCAAATA
1400303 TTTTTGTTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 38 0.83
51 8 0.17
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (51 bp):
TATGTGAATTGTGTTTCATTGATTGTATTAAAATTTTAAAACCAAATAATA
Found at i:1400630 original size:33 final size:34
Alignment explanation
Indices: 1400587--1400655 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 34
1400577 CCCCTCACTT
*
1400587 TAAATTCATATTTCACTACACT-ATATCACTGGC
1 TAAATCCATATTTCACTACACTAATATCACTGGC
*
1400620 TAAATCCATATTTCACTACACTAATATCATTGGC
1 TAAATCCATATTTCACTACACTAATATCACTGGC
1400654 TA
1 TA
1400656 TCATTTTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
33 21 0.64
34 12 0.36
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.36
Consensus pattern (34 bp):
TAAATCCATATTTCACTACACTAATATCACTGGC
Found at i:1404318 original size:49 final size:48
Alignment explanation
Indices: 1404263--1404361 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 48
1404253 GCAAAATTAG
1404263 CATTCTTTAAAAATAAACTTTTTGAAATTGTTTTTGAAAGAAACAAAAA
1 CATTCTTTAAAAATAAACTTTTTGAAATTG-TTTTGAAAGAAACAAAAA
1404312 CATTCTTTAAAAATAAACTTTTTGAAATTGTTTTGAAAGAAACAAAAA
1 CATTCTTTAAAAATAAACTTTTTGAAATTGTTTTGAAAGAAACAAAAA
1404360 CA
1 CA
1404362 GCCTAACGGA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 20 0.40
49 30 0.60
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.35
Consensus pattern (48 bp):
CATTCTTTAAAAATAAACTTTTTGAAATTGTTTTGAAAGAAACAAAAA
Found at i:1404707 original size:27 final size:27
Alignment explanation
Indices: 1404677--1404734 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
1404667 TAATGAAAAC
1404677 AAATTACAGACCCACTACAGCATGTAT
1 AAATTACAGACCCACTACAGCATGTAT
*
1404704 AAATTACAGACCCACTACAGTATGTAT
1 AAATTACAGACCCACTACAGCATGTAT
1404731 AAAT
1 AAAT
1404735 AACCCACTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.24
Consensus pattern (27 bp):
AAATTACAGACCCACTACAGCATGTAT
Found at i:1412283 original size:111 final size:111
Alignment explanation
Indices: 1412089--1412310 Score: 428
Period size: 111 Copynumber: 2.0 Consensus size: 111
1412079 TATATATATA
1412089 TGTGTGTGTGTGTGTGTGTATGCATCACCATAATGCGATACACACGCGAACGAGAGTAAATACGA
1 TGTGTGTGTGTGTGTGTGTATGCATCACCATAATGCGATACACACGCGAACGAGAGTAAATACGA
1412154 GGTCTTAAACCATATATGCATTTCAATGAATCAAACTAGTGTTATT
66 GGTCTTAAACCATATATGCATTTCAATGAATCAAACTAGTGTTATT
1412200 TGTGTGT-TGTTGTGTGTGTATGCATCACCATAATGCGATACACACGCGAACGAGAGTAAATACG
1 TGTGTGTGTG-TGTGTGTGTATGCATCACCATAATGCGATACACACGCGAACGAGAGTAAATACG
1412264 AGGTCTTAAACCATATATGCATTTCAATGAATCAAACTAGTGTTATT
65 AGGTCTTAAACCATATATGCATTTCAATGAATCAAACTAGTGTTATT
1412311 ATTGCAGGTT
Statistics
Matches: 110, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
110 2 0.02
111 108 0.98
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (111 bp):
TGTGTGTGTGTGTGTGTGTATGCATCACCATAATGCGATACACACGCGAACGAGAGTAAATACGA
GGTCTTAAACCATATATGCATTTCAATGAATCAAACTAGTGTTATT
Found at i:1416888 original size:23 final size:23
Alignment explanation
Indices: 1416845--1416888 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
1416835 AGTAATAAAT
* *
1416845 CTAAATTTTAAAATCTGAAAGGA
1 CTAAATTTTAAAATATAAAAGGA
1416868 CTAAATTCTTAAAA-ATAAAAG
1 CTAAATT-TTAAAATATAAAAG
1416889 CATAGAGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (23 bp):
CTAAATTTTAAAATATAAAAGGA
Found at i:1426801 original size:15 final size:15
Alignment explanation
Indices: 1426783--1426814 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1426773 ATTTTTGGGT
1426783 TTGTAGGCTTAGAAG
1 TTGTAGGCTTAGAAG
1426798 TTGTAGGCTTAGAAG
1 TTGTAGGCTTAGAAG
1426813 TT
1 TT
1426815 TGACGACCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.31, T:0.38
Consensus pattern (15 bp):
TTGTAGGCTTAGAAG
Found at i:1432544 original size:17 final size:17
Alignment explanation
Indices: 1432510--1432543 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1432500 CAATCGATTC
*
1432510 ATTTAAAAATCATTAAA
1 ATTTAAAAATCATAAAA
1432527 ATTTAAAAAT-ATAAAA
1 ATTTAAAAATCATAAAA
1432543 A
1 A
1432544 AAATTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
ATTTAAAAATCATAAAA
Found at i:1436326 original size:5 final size:5
Alignment explanation
Indices: 1436318--1436389 Score: 89
Period size: 5 Copynumber: 15.2 Consensus size: 5
1436308 TATTTAATTT
* * *
1436318 ATATA ATATA AAACA ATATA ATATA ATATA ATATA ATATA ATAT- ATATT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1436367 ATATA ATA-A A-ATA ATAT- ATATA A
1 ATATA ATATA ATATA ATATA ATATA A
1436390 AACATAAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
3 1 0.02
4 12 0.21
5 45 0.78
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:1441453 original size:17 final size:16
Alignment explanation
Indices: 1441417--1441456 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
1441407 ACAATATTTA
1441417 ATTTAAAAAAAAACCG
1 ATTTAAAAAAAAACCG
* *
1441433 ATTTGAAAAAAAACTG
1 ATTTAAAAAAAAACCG
1441449 TATTTAAA
1 -ATTTAAA
1441457 TTTGGTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.28
Consensus pattern (16 bp):
ATTTAAAAAAAAACCG
Found at i:1441797 original size:8 final size:8
Alignment explanation
Indices: 1441784--1441814 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
1441774 TATCATTAAA
1441784 TAAATTAT
1 TAAATTAT
1441792 TAAATTAT
1 TAAATTAT
1441800 TAAATTAT
1 TAAATTAT
1441808 TAAATTA
1 TAAATTA
1441815 AGATGCATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
TAAATTAT
Found at i:1455104 original size:32 final size:33
Alignment explanation
Indices: 1455068--1455134 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
1455058 TTGATTCCGT
1455068 GTCAATTTCTA-GTCCGA-TCATTTTGGGTTTGG
1 GTCAATTT-TAGGTCCGAGTCATTTTGGGTTTGG
* *
1455100 GTCAATTTTAGGTTCTAGTCATTTTGGGTTTGG
1 GTCAATTTTAGGTCCGAGTCATTTTGGGTTTGG
1455133 GT
1 GT
1455135 TTGAGTTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 2 0.06
32 12 0.39
33 17 0.55
ACGTcount: A:0.15, C:0.12, G:0.27, T:0.46
Consensus pattern (33 bp):
GTCAATTTTAGGTCCGAGTCATTTTGGGTTTGG
Found at i:1455113 original size:17 final size:16
Alignment explanation
Indices: 1455085--1455134 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
1455075 TCTAGTCCGA
1455085 TCATTTTGGGTTTGGG
1 TCATTTTGGGTTTGGG
* *
1455101 TCAATTTTAGGTTCT-AG
1 TC-ATTTTGGGTT-TGGG
1455118 TCATTTTGGGTTTGGG
1 TCATTTTGGGTTTGGG
1455134 T
1 T
1455135 TTGAGTTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
15 1 0.04
16 13 0.48
17 12 0.44
18 1 0.04
ACGTcount: A:0.12, C:0.08, G:0.30, T:0.50
Consensus pattern (16 bp):
TCATTTTGGGTTTGGG
Found at i:1455129 original size:16 final size:16
Alignment explanation
Indices: 1455085--1455131 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
1455075 TCTAGTCCGA
*
1455085 TCATTTTGGGTTTGGG
1 TCATTTTGGGTTTGAG
*
1455101 TCAATTTTAGGTTCT-AG
1 TC-ATTTTGGGTT-TGAG
1455118 TCATTTTGGGTTTG
1 TCATTTTGGGTTTG
1455132 GGTTTGAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
15 1 0.04
16 11 0.44
17 12 0.48
18 1 0.04
ACGTcount: A:0.13, C:0.09, G:0.28, T:0.51
Consensus pattern (16 bp):
TCATTTTGGGTTTGAG
Found at i:1456191 original size:36 final size:36
Alignment explanation
Indices: 1456139--1456216 Score: 138
Period size: 36 Copynumber: 2.2 Consensus size: 36
1456129 ATCATATTGG
* *
1456139 TGTTAATTTAGGTGTTAAATGTTAGCTTGAATTTGA
1 TGTTGATTTAGGTGTTAAATGTTAGCTTGAATCTGA
1456175 TGTTGATTTAGGTGTTAAATGTTAGCTTGAATCTGA
1 TGTTGATTTAGGTGTTAAATGTTAGCTTGAATCTGA
1456211 TGTTGA
1 TGTTGA
1456217 ACATATTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.26, C:0.04, G:0.24, T:0.46
Consensus pattern (36 bp):
TGTTGATTTAGGTGTTAAATGTTAGCTTGAATCTGA
Found at i:1456506 original size:1 final size:1
Alignment explanation
Indices: 1456456--1456494 Score: 78
Period size: 1 Copynumber: 39.0 Consensus size: 1
1456446 TCAAGCATAG
1456456 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1456495 CTCTTTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1463481 original size:31 final size:31
Alignment explanation
Indices: 1463423--1463482 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
1463413 AACCTAGTGA
*
1463423 CTTAAATAAAAACTTTCGAATGATTTAGTCG
1 CTTAAATAAAAACTTTCAAATGATTTAGTCG
*
1463454 CTTAAATGAAAACTTTCAAAT-AGTTTAGT
1 CTTAAATAAAAACTTTCAAATGA-TTTAGT
1463483 GATCATTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 25 0.96
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (31 bp):
CTTAAATAAAAACTTTCAAATGATTTAGTCG
Found at i:1481574 original size:14 final size:15
Alignment explanation
Indices: 1481552--1481594 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
1481542 TCAAATTTAT
1481552 TTATAAATTTATATA
1 TTATAAATTTATATA
* *
1481567 TT-TAAATTGAGATA
1 TTATAAATTTATATA
1481581 TTACTAAATTTATA
1 TTA-TAAATTTATA
1481595 GAAATTCGAC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
14 12 0.55
15 2 0.09
16 8 0.36
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (15 bp):
TTATAAATTTATATA
Found at i:1484919 original size:14 final size:15
Alignment explanation
Indices: 1484887--1484919 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1484877 ACCTTTTCAC
1484887 TTTTCGGGCTTATAT
1 TTTTCGGGCTTATAT
1484902 TTTTCGGGCTTATAT
1 TTTTCGGGCTTATAT
1484917 TTT
1 TTT
1484920 AAAATCACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.58
Consensus pattern (15 bp):
TTTTCGGGCTTATAT
Found at i:1497893 original size:17 final size:16
Alignment explanation
Indices: 1497858--1497904 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
1497848 TTATTTTGGA
*
1497858 TTTAAGTAATTTTAAT
1 TTTAAGTAATTTAAAT
*
1497874 TTTAAGTTATTTCAAAT
1 TTTAAGTAATTT-AAAT
*
1497891 TTTAAAT-ATTTAAA
1 TTTAAGTAATTTAAA
1497905 ATATATTAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 3 0.11
16 15 0.56
17 9 0.33
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (16 bp):
TTTAAGTAATTTAAAT
Found at i:1503958 original size:119 final size:119
Alignment explanation
Indices: 1503747--1503984 Score: 309
Period size: 119 Copynumber: 2.0 Consensus size: 119
1503737 ATAGGATATC
* **
1503747 CATGATTCATTTATATTAACTCTATTTTCCTAATTCGATCCATCTTTTTCTCATGGTTGTCATTG
1 CATGATTCATTTATATTAACTCTATTTTCCTAATTCGATCCATCTTTTTCTCATCGTCATCATTG
* * *
1503812 TATCTTTTGTGATAAAAATGACCATTACTTGAAATAGTAAATGATTAGTCATTT
66 TATCTTCTATGATAAAAATGACCATTACTTGAAATAGTAAATGAGTAGTCATTT
* * * * **
1503866 CATGATTCCTTTATATTAAACT-TGTTTTCCTAATTTGATCTAT-TTTTATCTTGTCGTCATCAT
1 CATGATTCATTTATATT-AACTCTATTTTCCTAATTCGATCCATCTTTT-TCTCATCGTCATCAT
* * *
1503929 TGTATCTTCTATGATGAAAATGATCATTACTTGCAATAGTAAATGAGTAGTCATTT
64 TGTATCTTCTATGATAAAAATGACCATTACTTGAAATAGTAAATGAGTAGTCATTT
1503985 GTCCTAGACA
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
118 4 0.04
119 94 0.92
120 4 0.04
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.46
Consensus pattern (119 bp):
CATGATTCATTTATATTAACTCTATTTTCCTAATTCGATCCATCTTTTTCTCATCGTCATCATTG
TATCTTCTATGATAAAAATGACCATTACTTGAAATAGTAAATGAGTAGTCATTT
Found at i:1525634 original size:20 final size:22
Alignment explanation
Indices: 1525584--1525635 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
1525574 TCTTTCAAAA
*
1525584 CTTTTGAAAATTTTTATTATTC
1 CTTTTGAAAATTTTTATAATTC
1525606 CTTTT--AAATTTTTA-AATT-
1 CTTTTGAAAATTTTTATAATTC
*
1525624 TTTTTGAAAATT
1 CTTTTGAAAATT
1525636 CTTTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 4 0.15
19 3 0.12
20 14 0.54
22 5 0.19
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (22 bp):
CTTTTGAAAATTTTTATAATTC
Found at i:1526519 original size:20 final size:19
Alignment explanation
Indices: 1526478--1526519 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
1526468 TTATACTATC
* *
1526478 ATTTTTTTTAATTCAATCA
1 ATTTTTTTTAATTAAATAA
1526497 ATTTTGTTTTAATTAAATAA
1 ATTTT-TTTTAATTAAATAA
1526517 ATT
1 ATT
1526520 ATTAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (19 bp):
ATTTTTTTTAATTAAATAA
Found at i:1538545 original size:26 final size:26
Alignment explanation
Indices: 1538516--1538567 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
1538506 GTATAATAAG
1538516 GATTAATGATGAATTATGGAAATTAT
1 GATTAATGATGAATTATGGAAATTAT
1538542 GATTAATGATGAATTATGGAAATTAT
1 GATTAATGATGAATTATGGAAATTAT
1538568 ACTAAGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.38
Consensus pattern (26 bp):
GATTAATGATGAATTATGGAAATTAT
Found at i:1538579 original size:26 final size:26
Alignment explanation
Indices: 1538519--1538580 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
1538509 TAATAAGGAT
* *
1538519 TAATGATGAATTATGGAAATTATGAT
1 TAATAATGAATTATGGAAATTATGAC
*
1538545 TAATGATGAATTATGGAAATTAT-AC
1 TAATAATGAATTATGGAAATTATGAC
1538570 TAAGTAATGAA
1 TAA-TAATGAA
1538581 ACATGTTACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 4 0.12
26 29 0.88
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.35
Consensus pattern (26 bp):
TAATAATGAATTATGGAAATTATGAC
Found at i:1546097 original size:110 final size:110
Alignment explanation
Indices: 1545959--1546167 Score: 303
Period size: 110 Copynumber: 1.9 Consensus size: 110
1545949 CATATGCCAC
** *
1545959 CATGCAATTGCTAATTTATATCCGTTTGTTGATTTTTCCATTGGGAATCATCTTTTCATTCTTGA
1 CATGCAATTGCTAATTTATATCCGTTTGTTGATTTTTCCATAAGGAATCATCGTTTCATTCTTGA
* ** *
1546024 AACCCCATTTCTGTATACCGATTAGATGCCTTGGGCTTATGCTGT
66 AACCCCAATTCCATACACCGATTAGATGCCTTGGGCTTATGCTGT
* *
1546069 CATGCAATTGCTTATTTAT-TTCGATTTGTTGATTTTTCCATAAGGAATCATCGTTTCATTCTTG
1 CATGCAATTGCTAATTTATATCCG-TTTGTTGATTTTTCCATAAGGAATCATCGTTTCATTCTTG
* *
1546133 AAACCCCAATTCCATACACTGATTAGTTGCCTTGG
65 AAACCCCAATTCCATACACCGATTAGATGCCTTGG
1546168 ACATATATCA
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
109 3 0.03
110 84 0.97
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.42
Consensus pattern (110 bp):
CATGCAATTGCTAATTTATATCCGTTTGTTGATTTTTCCATAAGGAATCATCGTTTCATTCTTGA
AACCCCAATTCCATACACCGATTAGATGCCTTGGGCTTATGCTGT
Found at i:1547106 original size:16 final size:16
Alignment explanation
Indices: 1547085--1547117 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1547075 ATTAAATTCT
*
1547085 AAATTTTGTGAATATG
1 AAATTTTGAGAATATG
1547101 AAATTTTGAGAATATG
1 AAATTTTGAGAATATG
1547117 A
1 A
1547118 GAGAAGACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (16 bp):
AAATTTTGAGAATATG
Found at i:1552824 original size:37 final size:37
Alignment explanation
Indices: 1552782--1552897 Score: 98
Period size: 33 Copynumber: 3.2 Consensus size: 37
1552772 ACTTTCATAG
1552782 TAGTTTTACCAAATTTAATGTTGTATTGGTACCTTTA
1 TAGTTTTACCAAATTTAATGTTGTATTGGTACCTTTA
* * * * * * *
1552819 TAG-TTT---ATATTAAATTTTATACATAG-ACTTTCATA
1 TAGTTTTACCAAATTTAATGTTGTA-TTGGTACCTT--TA
1552854 GTAGTTTTACCAAATTTAATGTTGTATTGGTACCTTTA
1 -TAGTTTTACCAAATTTAATGTTGTATTGGTACCTTTA
1552892 TAGTTT
1 TAGTTT
1552898 ATATAAGGAC
Statistics
Matches: 56, Mismatches: 14, Indels: 18
0.64 0.16 0.20
Matches are distributed among these distances:
33 15 0.27
34 2 0.04
35 2 0.04
36 6 0.11
37 12 0.21
38 2 0.04
39 2 0.04
40 15 0.27
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.49
Consensus pattern (37 bp):
TAGTTTTACCAAATTTAATGTTGTATTGGTACCTTTA
Found at i:1552847 original size:73 final size:74
Alignment explanation
Indices: 1552754--1552901 Score: 289
Period size: 73 Copynumber: 2.0 Consensus size: 74
1552744 AAAATAAAAT
1552754 TTAAATTTTAGTACATAGACTTTCATAGTAGTTTTACCAAATTTAATGTTGTATTGGTACCTTTA
1 TTAAATTTTAGTACATAGACTTTCATAGTAGTTTTACCAAATTTAATGTTGTATTGGTACCTTTA
1552819 TAGTTTATA
66 TAGTTTATA
1552828 TTAAATTTTA-TACATAGACTTTCATAGTAGTTTTACCAAATTTAATGTTGTATTGGTACCTTTA
1 TTAAATTTTAGTACATAGACTTTCATAGTAGTTTTACCAAATTTAATGTTGTATTGGTACCTTTA
1552892 TAGTTTATA
66 TAGTTTATA
1552901 T
1 T
1552902 AAGGACCTTT
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
73 64 0.86
74 10 0.14
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.48
Consensus pattern (74 bp):
TTAAATTTTAGTACATAGACTTTCATAGTAGTTTTACCAAATTTAATGTTGTATTGGTACCTTTA
TAGTTTATA
Found at i:1561931 original size:20 final size:20
Alignment explanation
Indices: 1561894--1561963 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
1561884 ATTGGAAGAA
* *
1561894 GATTGAATTGACATAAAACT
1 GATTGAATTGATAAAAAACT
*
1561914 GATTGAATTGATAAAAAAAT
1 GATTGAATTGATAAAAAACT
1561934 -AGTTGAATTGGATAAAAAACT
1 GA-TTGAATT-GATAAAAAACT
*
1561955 GGTTGAATT
1 GATTGAATT
1561964 AAATTTAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
19 1 0.02
20 24 0.57
21 17 0.40
ACGTcount: A:0.46, C:0.04, G:0.19, T:0.31
Consensus pattern (20 bp):
GATTGAATTGATAAAAAACT
Found at i:1561947 original size:21 final size:20
Alignment explanation
Indices: 1561916--1561963 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
1561906 ATAAAACTGA
1561916 TTGAATTGATAAAAAAATAG
1 TTGAATTGATAAAAAAATAG
* *
1561936 TTGAATTGGATAAAAAACTGG
1 TTGAATT-GATAAAAAAATAG
1561957 TTGAATT
1 TTGAATT
1561964 AAATTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.46, C:0.02, G:0.19, T:0.33
Consensus pattern (20 bp):
TTGAATTGATAAAAAAATAG
Found at i:1562233 original size:2 final size:2
Alignment explanation
Indices: 1562222--1562256 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
1562212 TTTATTAATT
*
1562222 TA TA TA -A TA TA TA TA TG TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1562257 AAAGCACGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1563142 original size:21 final size:22
Alignment explanation
Indices: 1563090--1563143 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
1563080 AGACAAATTC
*
1563090 TTATTTAATTAGTAAATATATA
1 TTATTTAATTAGTAAAAATATA
*
1563112 TT-TTAAAATTA-TAAAAATATA
1 TTATT-TAATTAGTAAAAATATA
1563133 TTATTTAATTA
1 TTATTTAATTA
1563144 ATTTGAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TTATTTAATTAGTAAAAATATA
Found at i:1565407 original size:164 final size:164
Alignment explanation
Indices: 1565136--1565466 Score: 662
Period size: 164 Copynumber: 2.0 Consensus size: 164
1565126 TGTTTCATAT
1565136 TATCATCTCAATTCACTATCATTTATCAAGTTCATATTTTATAATCCCTATTAACCTAACTCAGA
1 TATCATCTCAATTCACTATCATTTATCAAGTTCATATTTTATAATCCCTATTAACCTAACTCAGA
1565201 CTCGGGATAGATACGTGGATCATCCGGCCAACACACCAATCTGACACCTAGTGCCTCATCAGAAC
66 CTCGGGATAGATACGTGGATCATCCGGCCAACACACCAATCTGACACCTAGTGCCTCATCAGAAC
1565266 GTCTGAAGTATACATTGTGCCAAACACTCATTGG
131 GTCTGAAGTATACATTGTGCCAAACACTCATTGG
1565300 TATCATCTCAATTCACTATCATTTATCAAGTTCATATTTTATAATCCCTATTAACCTAACTCAGA
1 TATCATCTCAATTCACTATCATTTATCAAGTTCATATTTTATAATCCCTATTAACCTAACTCAGA
1565365 CTCGGGATAGATACGTGGATCATCCGGCCAACACACCAATCTGACACCTAGTGCCTCATCAGAAC
66 CTCGGGATAGATACGTGGATCATCCGGCCAACACACCAATCTGACACCTAGTGCCTCATCAGAAC
1565430 GTCTGAAGTATACATTGTGCCAAACACTCATTGG
131 GTCTGAAGTATACATTGTGCCAAACACTCATTGG
1565464 TAT
1 TAT
1565467 AACCGAAGTA
Statistics
Matches: 167, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
164 167 1.00
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (164 bp):
TATCATCTCAATTCACTATCATTTATCAAGTTCATATTTTATAATCCCTATTAACCTAACTCAGA
CTCGGGATAGATACGTGGATCATCCGGCCAACACACCAATCTGACACCTAGTGCCTCATCAGAAC
GTCTGAAGTATACATTGTGCCAAACACTCATTGG
Found at i:1576034 original size:12 final size:12
Alignment explanation
Indices: 1576017--1576046 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1576007 TAGCCTCATA
*
1576017 AAATAAGTATTC
1 AAATAAGGATTC
1576029 AAATAAGGATTC
1 AAATAAGGATTC
1576041 AAATAA
1 AAATAA
1576047 ATGAAATAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.27
Consensus pattern (12 bp):
AAATAAGGATTC
Found at i:1580383 original size:103 final size:103
Alignment explanation
Indices: 1580204--1580518 Score: 630
Period size: 103 Copynumber: 3.1 Consensus size: 103
1580194 AATAAAAAAA
1580204 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTATTGGTTCCTCGACTCATTGGTGGT
1 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTATTGGTTCCTCGACTCATTGGTGGT
1580269 TGCTAAGTGCTGATTCCACCGTATCTTTAAATATAAAG
66 TGCTAAGTGCTGATTCCACCGTATCTTTAAATATAAAG
1580307 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTATTGGTTCCTCGACTCATTGGTGGT
1 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTATTGGTTCCTCGACTCATTGGTGGT
1580372 TGCTAAGTGCTGATTCCACCGTATCTTTAAATATAAAG
66 TGCTAAGTGCTGATTCCACCGTATCTTTAAATATAAAG
1580410 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTATTGGTTCCTCGACTCATTGGTGGT
1 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTATTGGTTCCTCGACTCATTGGTGGT
1580475 TGCTAAGTGCTGATTCCACCGTATCTTTAAATATAAAG
66 TGCTAAGTGCTGATTCCACCGTATCTTTAAATATAAAG
1580513 GGGGTT
1 GGGGTT
1580519 ATATATGGTG
Statistics
Matches: 212, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 212 1.00
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (103 bp):
GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTATTGGTTCCTCGACTCATTGGTGGT
TGCTAAGTGCTGATTCCACCGTATCTTTAAATATAAAG
Found at i:1593190 original size:49 final size:48
Alignment explanation
Indices: 1593137--1593243 Score: 119
Period size: 48 Copynumber: 2.2 Consensus size: 48
1593127 TTATAATTAC
*
1593137 AATAAATAAAC-ATATAAAAATACA-TAAAATTTTCAAAAAAAAATAAAAA
1 AATAAA-AAACTATAT-AAAATACATTAAAATTAT-AAAAAAAAATAAAAA
* * *
1593186 AATAAAAAACTTTATAAAATAGATTAAAATTATAAAAATAAATAAAAA
1 AATAAAAAACTATATAAAATACATTAAAATTATAAAAAAAAATAAAAA
*
1593234 ATTATAAAAA
1 AATA-AAAAA
1593244 TAATTCAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
48 28 0.56
49 22 0.44
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.25
Consensus pattern (48 bp):
AATAAAAAACTATATAAAATACATTAAAATTATAAAAAAAAATAAAAA
Found at i:1593253 original size:19 final size:18
Alignment explanation
Indices: 1593197--1593253 Score: 62
Period size: 20 Copynumber: 3.0 Consensus size: 18
1593187 ATAAAAAACT
1593197 TTAT-AAAATAGATTAAAA
1 TTATAAAAATA-ATTAAAA
*
1593215 TTATAAAAATAAATAAAAAA
1 TTATAAAAAT-AAT-TAAAA
1593235 TTATAAAAATAATTCAAAA
1 TTATAAAAATAATT-AAAA
1593254 ANNNNNNNNN
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 4 0.12
19 14 0.42
20 15 0.45
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
TTATAAAAATAATTAAAA
Found at i:1593254 original size:20 final size:20
Alignment explanation
Indices: 1593181--1593246 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
1593171 AAAAAAAAAT
1593181 AAAA-AAATAAAAAACTT-TA
1 AAAATAAATAAAAAA-TTATA
* *
1593200 TAAAATAGAT-TAAAATTATA
1 -AAAATAAATAAAAAATTATA
1593220 AAAATAAATAAAAAATTATA
1 AAAATAAATAAAAAATTATA
1593240 AAAATAA
1 AAAATAA
1593247 TTCAAAAANN
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 10 0.26
20 26 0.67
21 3 0.08
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAATAAATAAAAAATTATA
Found at i:1593662 original size:26 final size:27
Alignment explanation
Indices: 1593624--1593683 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
1593614 AAGAACTAAA
1593624 ATTTATTATATTTTT-ATTTTATGAAT-T
1 ATTT-TTATATTTTTGATTTT-TGAATCT
*
1593651 ATTTTTATATTTTTGATTTTTTAATCT
1 ATTTTTATATTTTTGATTTTTGAATCT
1593678 ATTTTT
1 ATTTTT
1593684 TCATGTACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 14 0.47
27 16 0.53
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (27 bp):
ATTTTTATATTTTTGATTTTTGAATCT
Found at i:1596753 original size:28 final size:28
Alignment explanation
Indices: 1596713--1596767 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
1596703 TCTAGGGTTG
1596713 ATTCTACTTTGTTTGTTGCCCCTGTCTT
1 ATTCTACTTTGTTTGTTGCCCCTGTCTT
1596741 ATTCTACTTTGTTTGTTGCCCCTGTCT
1 ATTCTACTTTGTTTGTTGCCCCTGTCT
1596768 CACAGTTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.07, C:0.25, G:0.15, T:0.53
Consensus pattern (28 bp):
ATTCTACTTTGTTTGTTGCCCCTGTCTT
Found at i:1611530 original size:11 final size:10
Alignment explanation
Indices: 1611498--1611522 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1611488 TATTTTGGAA
1611498 TTTTAAAATT
1 TTTTAAAATT
1611508 TTTTAAAATT
1 TTTTAAAATT
1611518 TTTTA
1 TTTTA
1611523 GAACTTTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:1612638 original size:27 final size:28
Alignment explanation
Indices: 1612608--1612663 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
1612598 TATTGAAGGA
1612608 TTTAAAAAAAAATA-TAAATAAATTTAT
1 TTTAAAAAAAAATATTAAATAAATTTAT
* * *
1612635 TTTAAAAATAAATATTAATTATATTTAT
1 TTTAAAAAAAAATATTAAATAAATTTAT
1612663 T
1 T
1612664 AAACATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
TTTAAAAAAAAATATTAAATAAATTTAT
Found at i:1612654 original size:23 final size:24
Alignment explanation
Indices: 1612615--1612660 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
1612605 GGATTTAAAA
1612615 AAAAATATAAATAAATT-TATTTT
1 AAAAATATAAATAAATTATATTTT
*
1612638 AAAAATA-AATATTAATTATATTT
1 AAAAATATAA-ATAAATTATATTT
1612661 ATTAAACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 2 0.10
23 13 0.65
24 5 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AAAAATATAAATAAATTATATTTT
Found at i:1614925 original size:43 final size:43
Alignment explanation
Indices: 1614877--1615144 Score: 208
Period size: 43 Copynumber: 6.2 Consensus size: 43
1614867 CCATGGAAAG
* * * *
1614877 ACGCCGCTAAAGGTCATGGTCTTTAGCGGCGCTTACCAAACAA
1 ACGCCGCTAAAGATCCTGATCTTTAGCGGCGCTTTCCAAACAA
** * **
1614920 ACGCCGCTAAAGATAATGACCTTTAGCGGCGC-TTCTCTGACAA
1 ACGCCGCTAAAGATCCTGATCTTTAGCGGCGCTTTC-CAAACAA
* * *
1614963 ACGCCGCTAAAGACCCTGATCTTTAGTGGCGCTTCTCCAGA-AA
1 ACGCCGCTAAAGATCCTGATCTTTAGCGGCGCTT-TCCAAACAA
* *
1615006 ACGCCGCTAAAAACCCTGATCTTTAGCGGTAC-CTTTCC-AACAA
1 ACGCCGCTAAAGATCCTGATCTTTAGCGG--CGCTTTCCAAACAA
** **
1615049 ACGCCGCTAAAG-TCCCTGATCTTTAGCGGCG-TTTTTATCGCAA
1 ACGCCGCTAAAGAT-CCTGATCTTTAGCGGCGCTTTCCA-AACAA
** * * *
1615092 ACGCCGCGGAAGATCGTGATCTTTAGCAGCGCTTTTCC-CACAA
1 ACGCCGCTAAAGATCCTGATCTTTAGCGGCGC-TTTCCAAACAA
*
1615135 ACGCCACTAA
1 ACGCCGCTAA
1615145 TTTTGATAGA
Statistics
Matches: 180, Mismatches: 32, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
41 4 0.02
42 3 0.02
43 159 0.88
44 8 0.04
45 6 0.03
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (43 bp):
ACGCCGCTAAAGATCCTGATCTTTAGCGGCGCTTTCCAAACAA
Found at i:1615129 original size:86 final size:86
Alignment explanation
Indices: 1614877--1615144 Score: 243
Period size: 86 Copynumber: 3.1 Consensus size: 86
1614867 CCATGGAAAG
** * * * * * *
1614877 ACGCCGCTAAAGGTCATGGTCTTTAGCGGCGCTTAC-CAAACAAACGCCGCTAAAGATAATGACC
1 ACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTT-CTCCAGCAAACGCCGCTAAAGATCATGATC
* **
1614941 TTTAGCGGCGCTTCTCTGACAA
65 TTTAGCGGCGCTTTTCCAACAA
* * * * *
1614963 ACGCCGCTAAAGACCCTGATCTTTAGTGGCGCTTCTCCAGAAAACGCCGCTAAAAACCCTGATCT
1 ACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTCCAGCAAACGCCGCTAAAGATCATGATCT
** *
1615028 TTAGCGGTACCTTTCCAACAA
66 TTAGCGGCGCTTTTCCAACAA
* * * * ** *
1615049 ACGCCGCTAAAGTCCCTGATCTTTAGCGGCGTTTTTATC-GCAAACGCCGCGGAAGATCGTGATC
1 ACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCT-CCAGCAAACGCCGCTAAAGATCATGATC
* *
1615113 TTTAGCAGCGCTTTTCCCACAA
65 TTTAGCGGCGCTTTTCCAACAA
*
1615135 ACGCCACTAA
1 ACGCCGCTAA
1615145 TTTTGATAGA
Statistics
Matches: 144, Mismatches: 36, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
85 1 0.01
86 142 0.99
87 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (86 bp):
ACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTCCAGCAAACGCCGCTAAAGATCATGATCT
TTAGCGGCGCTTTTCCAACAA
Found at i:1615495 original size:21 final size:21
Alignment explanation
Indices: 1615465--1615524 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
1615455 TTTTACACTG
*
1615465 CTCTACTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGCAAC
* *
1615486 CTCTATTTCCCTCGCTTCAAC
1 CTCTACTTCCCTCGCTGCAAC
* *
1615507 CTCTGCTTCTCTCGCTGC
1 CTCTACTTCCCTCGCTGC
1615525 CGCATCTGCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.08, C:0.45, G:0.12, T:0.35
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCAAC
Found at i:1615587 original size:66 final size:60
Alignment explanation
Indices: 1615504--1615646 Score: 162
Period size: 60 Copynumber: 2.3 Consensus size: 60
1615494 CCCTCGCTTC
* * * *
1615504 AACCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAACTGTTGCTGGAGTTCTTCATA-CTTTCGT
1 AACCTCAGCTTCTCTCGCTACCGCATCTGC--T----TGTAGCTAGAGTTCTTCATATCTTT-GT
1615568 TG
59 TG
* *
1615570 AACCTCAGCTTCTCTCGCTACTGCATCTGCTTGTAGCTAGAGTTCTTCATATCTTTTTTG
1 AACCTCAGCTTCTCTCGCTACCGCATCTGCTTGTAGCTAGAGTTCTTCATATCTTTGTTG
1615630 AACCTCAGCTTCTCTCG
1 AACCTCAGCTTCTCTCG
1615647 ATGTTGCCTC
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
60 38 0.54
61 4 0.06
64 1 0.01
66 27 0.39
ACGTcount: A:0.15, C:0.29, G:0.16, T:0.39
Consensus pattern (60 bp):
AACCTCAGCTTCTCTCGCTACCGCATCTGCTTGTAGCTAGAGTTCTTCATATCTTTGTTG
Found at i:1617351 original size:117 final size:118
Alignment explanation
Indices: 1617172--1617401 Score: 417
Period size: 117 Copynumber: 2.0 Consensus size: 118
1617162 CAAACGCCGT
* *
1617172 TATTTTATTCACACTTGCGGCGTTTTAATAAAAAATGCCACTAATATTTCAAAGAACGTAAAGAA
1 TATTTTATTCAAACTTGCGGCGTTTTAATAAAAAAAGCCACTAATATTTCAAAGAACGTAAAGAA
1617237 ACGGAGCCGTTTTAATAAATTAGAGTGCAATGTTGTGGCGTTTTCCCATCCGC
66 ACGGAGCCGTTTTAATAAATTAGAGTGCAATGTTGTGGCGTTTTCCCATCCGC
1617290 TATTTTATTCAAACTTGCGGCGTTTTAA-AAAAAAAGCCACTAATATTTCAAAGAACGTAAAGAA
1 TATTTTATTCAAACTTGCGGCGTTTTAATAAAAAAAGCCACTAATATTTCAAAGAACGTAAAGAA
* *
1617354 ACGGCGTCGTTTTAATAAATTAGAGTGCAATGTTGTGGCGTTTTCCCA
66 ACGGAGCCGTTTTAATAAATTAGAGTGCAATGTTGTGGCGTTTTCCCA
1617402 AAAAAGCCAC
Statistics
Matches: 108, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
117 81 0.75
118 27 0.25
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (118 bp):
TATTTTATTCAAACTTGCGGCGTTTTAATAAAAAAAGCCACTAATATTTCAAAGAACGTAAAGAA
ACGGAGCCGTTTTAATAAATTAGAGTGCAATGTTGTGGCGTTTTCCCATCCGC
Found at i:1618606 original size:5 final size:5
Alignment explanation
Indices: 1618596--1618662 Score: 61
Period size: 5 Copynumber: 13.8 Consensus size: 5
1618586 CTTTCCATTT
* * *
1618596 TTTTC TTTTC TTTTC -TCTC TTTTC TTTT- TCTTCC TTTCC TTTTC TTTT-
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T-TTTC TTTTC TTTTC TTTTC
1618644 TCTTTC -TTTC TTTTC TTTT
1 T-TTTC TTTTC TTTTC TTTT
1618663 GCTCATCGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
4 9 0.17
5 42 0.81
6 1 0.02
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:1618616 original size:14 final size:13
Alignment explanation
Indices: 1618593--1618662 Score: 72
Period size: 14 Copynumber: 5.3 Consensus size: 13
1618583 CCTCTTTCCA
*
1618593 TTTTTTTCTTTTC
1 TTTTTCTCTTTTC
1618606 TTTTCTCTCTTTTC
1 TTTT-TCTCTTTTC
*
1618620 TTTTTCTTCCTTTC
1 TTTTTC-TCTTTTC
*
1618634 CTTTTCT-TTTTC
1 TTTTTCTCTTTTC
1618646 TTTCTT-TCTTTTC
1 TTT-TTCTCTTTTC
1618659 TTTT
1 TTTT
1618663 GCTCATCGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
12 8 0.17
13 17 0.35
14 23 0.48
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTCTCTTTTC
Found at i:1618618 original size:20 final size:19
Alignment explanation
Indices: 1618596--1618662 Score: 91
Period size: 20 Copynumber: 3.5 Consensus size: 19
1618586 CTTTCCATTT
*
1618596 TTTTC-TTTTCTTTTCTCTC
1 TTTTCTTTTTC-TTTCTTTC
*
1618615 TTTTCTTTTTCTTCCTTTCC
1 TTTTCTTTTTCTTTCTTT-C
1618635 TTTTCTTTTTCTTTCTTTC
1 TTTTCTTTTTCTTTCTTTC
1618654 TTTTCTTTT
1 TTTTCTTTT
1618663 GCTCATCGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 20 0.47
20 23 0.53
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTTTTTCTTTCTTTC
Found at i:1631549 original size:31 final size:32
Alignment explanation
Indices: 1631486--1631550 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
1631476 AAAAACTTAA
1631486 TAGTGCAGTAAAATAAAAATTTTCGAAAAGTT
1 TAGTGCAGTAAAATAAAAATTTTCGAAAAGTT
* * *
1631518 TAGTG-AGTTAAATGAAAACTTTT-GAATAGTT
1 TAGTGCAGTAAAAT-AAAAATTTTCGAAAAGTT
1631549 TA
1 TA
1631551 ATGAATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 16 0.55
32 13 0.45
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.35
Consensus pattern (32 bp):
TAGTGCAGTAAAATAAAAATTTTCGAAAAGTT
Found at i:1635754 original size:14 final size:13
Alignment explanation
Indices: 1635722--1635754 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1635712 TTCATACGTG
1635722 GAATATTTTTAAT
1 GAATATTTTTAAT
1635735 GAATATTTTTAAT
1 GAATATTTTTAAT
1635748 GAGATAT
1 GA-ATAT
1635755 AATTTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
GAATATTTTTAAT
Found at i:1635841 original size:21 final size:21
Alignment explanation
Indices: 1635808--1635860 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
1635798 AATAATAAAA
*
1635808 TAAATAAAA-AATTCATGAAGT
1 TAAAGAAAATAATTC-TGAAGT
* *
1635829 TAAA-AAAATAATTCTTAATT
1 TAAAGAAAATAATTCTGAAGT
1635849 TAAAGAAAATAA
1 TAAAGAAAATAA
1635861 ACGTAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (21 bp):
TAAAGAAAATAATTCTGAAGT
Found at i:1639961 original size:2 final size:2
Alignment explanation
Indices: 1639954--1639978 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1639944 TTTCAACAGC
1639954 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 A
1639979 AAGACAATAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.