Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7304151
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 31
Found at i:4336686 original size:55 final size:55
Alignment explanation
Indices: 4336500--4336819 Score: 273
Period size: 57 Copynumber: 5.9 Consensus size: 55
4336490 CCTGCTTATA
* *
4336500 ATGAACTTCTTA-TATTTGCACATATATTTG-CCATACGGAAATTCAT--AC--AGT
1 ATGAACTTCTTAGT-TTTGCACACATA-GTGCCCATACGGAAATTCATACACTTAGT
* * *
4336551 ATGAATTTTTTAG-TTCGCACACATAGTGCCCATACGGAAATTCATACACTT-GT
1 ATGAACTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATACACTTAGT
* *
4336604 ATGAACTTCTTAGTTTTGTACACATAGTGCCCATACAGAAATTCATACACTTAGT
1 ATGAACTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATACACTTAGT
* * * ** *
4336659 ATGAACTTCTTAGTTTTGCACACATAGTTCCCATACGAAAATTCATAAACAAATT
1 ATGAACTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATACACTTAGT
* * * * * ** *
4336714 ATGAATTTCTTAACTTTTTGCACA-AGAAGTCCCCATACGGAAATTCATAAACAAATT
1 ATGAACTTCTT-A-GTTTTGCACACA-TAGTGCCCATACGGAAATTCATACACTTAGT
* * * *
4336771 ATGAATTTCTTAACTTTTTGCGCACGA-AGTGCCCAAACGGAAATTCATA
1 ATGAACTTCTT-A-GTTTTGCACAC-ATAGTGCCCATACGGAAATTCATA
4336820 AGCAAATTAT
Statistics
Matches: 230, Mismatches: 26, Indels: 20
0.83 0.09 0.07
Matches are distributed among these distances:
49 2 0.01
50 26 0.11
51 10 0.04
52 2 0.01
53 13 0.06
54 35 0.15
55 59 0.26
56 2 0.01
57 80 0.35
59 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.33
Consensus pattern (55 bp):
ATGAACTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATACACTTAGT
Found at i:4336758 original size:57 final size:57
Alignment explanation
Indices: 4336688--4336839 Score: 250
Period size: 57 Copynumber: 2.7 Consensus size: 57
4336678 ACACATAGTT
*
4336688 CCCATACGAAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACAAGAAGTC
1 CCCATACGGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACAAGAAGTC
* * *
4336745 CCCATACGGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCGCACGAAGTG
1 CCCATACGGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACAAGAAGTC
* *
4336802 CCCAAACGGAAATTCATAAGCAAATTATGAATTTCTTA
1 CCCATACGGAAATTCATAAACAAATTATGAATTTCTTA
4336840 GCCATTTGGT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 89 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (57 bp):
CCCATACGGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACAAGAAGTC
Found at i:4337297 original size:20 final size:20
Alignment explanation
Indices: 4337261--4337309 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
4337251 GTTAACAATG
*
4337261 ATATCGATATCATCCTCTTA
1 ATATCGATATCACCCTCTTA
*
4337281 ATATCGATAT-ACCCCTCTTG
1 ATATCGATATCA-CCCTCTTA
*
4337301 GTATCGATA
1 ATATCGATA
4337310 CTTCTTGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (20 bp):
ATATCGATATCACCCTCTTA
Found at i:4339817 original size:2 final size:2
Alignment explanation
Indices: 4339806--4339834 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4339796 TTTATGCAAC
4339806 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4339835 GCGATAGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:4343536 original size:76 final size:68
Alignment explanation
Indices: 4343378--4343521 Score: 171
Period size: 76 Copynumber: 2.0 Consensus size: 68
4343368 ATATTAATAA
* *
4343378 AATATTTTAAGTTAATATATTTTAATATATATATTCATATTATATTCGTATTAAAAAATATTTTA
1 AATATTTTAAGTTAATATATTTAAATATATATATTCATATTATATTCATATTAAAAAATATTTTA
4343443 CAT
66 CAT
4343446 AATTTGTATTTTTAAGTTAATATATTTAAAATATATATATATTCATATTATATTCATATAATAAT
1 AA----TA-TTTTAAGTTAATATATTT--AA-ATATATATATTCATATTATATTCATAT--TAA-
4343511 AAAATATTTTA
55 AAAATATTTTA
4343522 AGTCAATATA
Statistics
Matches: 63, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
68 2 0.03
72 2 0.03
73 18 0.29
75 1 0.02
76 26 0.41
78 3 0.05
79 11 0.17
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (68 bp):
AATATTTTAAGTTAATATATTTAAATATATATATTCATATTATATTCATATTAAAAAATATTTTA
CAT
Found at i:4352756 original size:21 final size:20
Alignment explanation
Indices: 4352670--4352827 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
4352660 AAATGACCAA
**
4352670 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
4352689 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
4352709 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
4352729 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
4352750 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
4352771 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
4352791 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
4352812 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
4352828 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:4352856 original size:20 final size:20
Alignment explanation
Indices: 4352794--4352987 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
4352784 CGATTTTCCA
* ** *
4352794 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
4352814 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
4352834 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
4352854 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
4352874 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
4352894 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
4352914 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
4352934 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
4352954 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
4352975 AAATCGCAACGCG
1 AAATCGCAACGCG
4352988 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:4352878 original size:60 final size:60
Alignment explanation
Indices: 4352794--4352987 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
4352784 CGATTTTCCA
* ** * *
4352794 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
4352854 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
4352914 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
4352975 AAATCGCAACGCG
1 AAATCGCAACGCG
4352988 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:4353408 original size:19 final size:18
Alignment explanation
Indices: 4353368--4353476 Score: 63
Period size: 19 Copynumber: 6.2 Consensus size: 18
4353358 ATTTCACTTA
*
4353368 GATTTCATTTCGCGTTTTGC
1 GATTTTATTTCGCG--TTGC
4353388 GATTTTAATTTCGCGTTGC
1 GATTTT-ATTTCGCGTTGC
* *
4353407 GA---T-TCTCTCGTTGC
1 GATTTTATTTCGCGTTGC
4353421 GATTTTCATTTCGCGTTGC
1 GATTTT-ATTTCGCGTTGC
* *
4353440 GA---T-TCTCTCGTTGC
1 GATTTTATTTCGCGTTGC
*
4353454 GATTGTCATTTCGCGTTGC
1 GATT-TTATTTCGCGTTGC
4353473 GATT
1 GATT
4353477 CTCTCGTTGC
Statistics
Matches: 68, Mismatches: 10, Indels: 23
0.67 0.10 0.23
Matches are distributed among these distances:
14 22 0.32
16 2 0.03
17 1 0.01
19 30 0.44
20 5 0.07
21 8 0.12
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.46
Consensus pattern (18 bp):
GATTTTATTTCGCGTTGC
Found at i:4353420 original size:14 final size:14
Alignment explanation
Indices: 4353401--4353490 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
4353391 TTTAATTTCG
4353401 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4353415 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
4353434 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4353448 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
4353467 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
4353481 CGTTGCGATT
1 CGTTGCGATT
4353491 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.32
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4353421 original size:33 final size:33
Alignment explanation
Indices: 4353384--4353498 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
4353374 ATTTCGCGTT
*
4353384 TTGCGATTTTAATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
4353417 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
4353450 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
4353483 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
4353499 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:4355262 original size:13 final size:14
Alignment explanation
Indices: 4355246--4355280 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4355236 ATTGTTTAAT
4355246 TGATTTGT-AAAGA
1 TGATTTGTAAAAGA
*
4355259 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
4355273 TGATTTGT
1 TGATTTGT
4355281 GTAATTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:4355403 original size:19 final size:19
Alignment explanation
Indices: 4355387--4355484 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
4355377 AAAAATGACT
4355387 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4355406 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4355425 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
4355439 ATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4355458 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
4355478 ATCGCAA
1 ATCGCAA
4355485 CGAGAGAATC
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 38 0.54
20 16 0.23
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:4355516 original size:53 final size:53
Alignment explanation
Indices: 4355387--4355499 Score: 210
Period size: 53 Copynumber: 2.2 Consensus size: 53
4355377 AAAAATGACT
*
4355387 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATACGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
4355439 ATCGCAATACGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATACGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
4355492 ATCGCAAT
1 ATCGCAAT
4355500 GCGTTTATAA
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 28 0.47
53 31 0.53
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (53 bp):
ATCGCAATACGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:4355546 original size:33 final size:33
Alignment explanation
Indices: 4355509--4355660 Score: 141
Period size: 33 Copynumber: 4.5 Consensus size: 33
4355499 TGCGTTTATA
4355509 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
4355542 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * * *
4355582 GTTGCG-ATTTTC-ATT-TCGCATTTCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
4355613 ATTTCGCATTGCGATTCTCTCGTTGCGA-TTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
4355645 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
4355661 TTCATTTCGC
Statistics
Matches: 94, Mismatches: 14, Indels: 23
0.72 0.11 0.18
Matches are distributed among these distances:
31 9 0.10
32 25 0.27
33 29 0.31
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.09
39 3 0.03
40 9 0.10
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:4355555 original size:19 final size:19
Alignment explanation
Indices: 4355531--4355744 Score: 220
Period size: 19 Copynumber: 12.4 Consensus size: 19
4355521 GATTCTCTCG
4355531 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4355550 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4355569 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
4355583 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4355602 TTTCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4355621 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
4355635 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4355653 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4355672 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
4355686 TTGCGATTTTCATTCCGCA
1 TTGCGATTTTCATTTCGCA
4355705 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
4355719 TTGGGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4355737 TTGCGATT
1 TTGCGATT
4355745 CTCTCGTTGC
Statistics
Matches: 162, Mismatches: 12, Indels: 42
0.75 0.06 0.19
Matches are distributed among these distances:
13 5 0.03
14 23 0.14
15 4 0.02
16 24 0.15
17 16 0.10
18 11 0.07
19 79 0.49
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:4355566 original size:52 final size:52
Alignment explanation
Indices: 4355509--4355717 Score: 393
Period size: 52 Copynumber: 4.0 Consensus size: 52
4355499 TGCGTTTATA
4355509 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
4355561 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTTCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
4355613 ATTTCGCATTGCGATTCTCTCGTTGCGA-TTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
4355664 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
4355716 AT
1 AT
4355718 GTTGGGATTT
Statistics
Matches: 153, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
51 50 0.33
52 103 0.67
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:4355676 original size:103 final size:104
Alignment explanation
Indices: 4355509--4355717 Score: 393
Period size: 103 Copynumber: 2.0 Consensus size: 104
4355499 TGCGTTTATA
4355509 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
* *
4355574 ATTCTCTCGTTGCGATTTTCATTTCGCATTTCGATTTTC
66 ATTCTCTCGTTGCGATTTTCATTCCGCATTGCGATTTTC
4355613 ATTTCGCATTGCGATTCTCTCGTTGCGA-TTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
4355677 ATTCTCTCGTTGCGATTTTCATTCCGCATTGCGATTTTC
66 ATTCTCTCGTTGCGATTTTCATTCCGCATTGCGATTTTC
4355716 AT
1 AT
4355718 GTTGGGATTT
Statistics
Matches: 103, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
103 75 0.73
104 28 0.27
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (104 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
ATTCTCTCGTTGCGATTTTCATTCCGCATTGCGATTTTC
Found at i:4358058 original size:12 final size:12
Alignment explanation
Indices: 4358041--4358065 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4358031 TCTTCGGGGA
4358041 CTTTTTCTTCTT
1 CTTTTTCTTCTT
4358053 CTTTTTCTTCTT
1 CTTTTTCTTCTT
4358065 C
1 C
4358066 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:4358995 original size:20 final size:20
Alignment explanation
Indices: 4358967--4359196 Score: 221
Period size: 20 Copynumber: 11.5 Consensus size: 20
4358957 AAATTTCAGT
* * *
4358967 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
4358987 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
4359007 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
4359027 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
4359047 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
4359067 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
4359087 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* * *
4359107 ATTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
4359127 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
4359147 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
**
4359167 GTTGCGATTTTA-ATATTCGC
1 GTTGCGA-TTTACGGATTCGC
4359187 GTTGCGATTT
1 GTTGCGATTT
4359197 TGGAAAATCG
Statistics
Matches: 183, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
19 3 0.02
20 175 0.96
21 5 0.03
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:4359197 original size:20 final size:20
Alignment explanation
Indices: 4359163--4359260 Score: 83
Period size: 21 Copynumber: 4.8 Consensus size: 20
4359153 ATTTATGTGT
*
4359163 TCGCGTTGCGATTTTAATAT
1 TCGCGTTGCGATTTTAATAA
4359183 TCGCGTTGCGATTTTGGAA-AA
1 TCGCGTTGCGATTTT--AATAA
** *
4359204 TCGCAATGCGAATTTGTACT-A
1 TCGCGTTGCG-ATTT-TAATAA
* *
4359225 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTT-AATAA
4359246 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
4359261 GGGAACTGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.02
20 20 0.32
21 35 0.56
22 6 0.10
23 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTAATAA
Found at i:4359256 original size:42 final size:43
Alignment explanation
Indices: 4359163--4359261 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 43
4359153 ATTTATGTGT
* *
4359163 TCGCGTTGCG-ATTT-TAATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAAAA
** *
4359204 TCGCAATGCGAATTTGTACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAA-AA
*
4359246 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
4359262 GGAACTGATT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
41 10 0.21
42 33 0.70
43 4 0.09
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAAAA
Found at i:4361483 original size:2 final size:2
Alignment explanation
Indices: 4361476--4361535 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
4361466 TTCATACTTT
4361476 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4361518 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
4361536 GGATGAGAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4368327 original size:12 final size:12
Alignment explanation
Indices: 4368310--4368334 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4368300 GTCAAATAAT
4368310 TTAGGCACCAAA
1 TTAGGCACCAAA
4368322 TTAGGCACCAAA
1 TTAGGCACCAAA
4368334 T
1 T
4368335 GGTGCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (12 bp):
TTAGGCACCAAA
Found at i:4371145 original size:25 final size:25
Alignment explanation
Indices: 4371117--4371165 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
4371107 CTAACATAGC
*
4371117 TGCTACCTGGTCGAATGAAACTAGT
1 TGCTACCTGATCGAATGAAACTAGT
* *
4371142 TGCTGCCTGATCGAATGAAGCTAG
1 TGCTACCTGATCGAATGAAACTAG
4371166 CTGCAATCGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (25 bp):
TGCTACCTGATCGAATGAAACTAGT
Found at i:4371490 original size:34 final size:34
Alignment explanation
Indices: 4371434--4371504 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
4371424 GGCCCACTAA
* * *
4371434 TTTTGTGGATATTCGGATAATCCAAAATTGAGAT
1 TTTTGTGGACATTCAGAAAATCCAAAATTGAGAT
* *
4371468 TTTTTTGGACATTCAGAAAATCCGAAATTGAGAT
1 TTTTGTGGACATTCAGAAAATCCAAAATTGAGAT
4371502 TTT
1 TTT
4371505 CTTGATTCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (34 bp):
TTTTGTGGACATTCAGAAAATCCAAAATTGAGAT
Found at i:4384961 original size:36 final size:36
Alignment explanation
Indices: 4384909--4385016 Score: 173
Period size: 36 Copynumber: 3.0 Consensus size: 36
4384899 TATTGCAACT
* *
4384909 CACACACCCACACCCACAACCACACGCGCGAGCGCG
1 CACACACACACACCCACACCCACACGCGCGAGCGCG
*
4384945 CACATACACACACCCACACCCACACGCGCGAGCGCG
1 CACACACACACACCCACACCCACACGCGCGAGCGCG
*
4384981 CACACACACACACACAC-CCCACACGCGCGAGCGCG
1 CACACACACACACCCACACCCACACGCGCGAGCGCG
4385016 C
1 C
4385017 GCGCGCATAC
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
35 19 0.28
36 48 0.72
ACGTcount: A:0.31, C:0.52, G:0.17, T:0.01
Consensus pattern (36 bp):
CACACACACACACCCACACCCACACGCGCGAGCGCG
Found at i:4398132 original size:22 final size:21
Alignment explanation
Indices: 4398090--4398129 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4398080 GAGTTTATTT
*
4398090 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
4398111 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
4398130 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:4403178 original size:19 final size:20
Alignment explanation
Indices: 4403141--4403179 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
4403131 TTTAAAATAA
*
4403141 TTTAATAAAATTTTAATTTT
1 TTTAATAAAATTATAATTTT
*
4403161 TTTAA-AAAATTATCATTTT
1 TTTAATAAAATTATAATTTT
4403180 AATCATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTAATAAAATTATAATTTT
Found at i:4406150 original size:3 final size:3
Alignment explanation
Indices: 4406142--4406285 Score: 288
Period size: 3 Copynumber: 48.0 Consensus size: 3
4406132 AATATAATTG
4406142 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4406190 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4406238 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4406286 ACACCCGGAC
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 141 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4409584 original size:42 final size:42
Alignment explanation
Indices: 4409536--4409619 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
4409526 AAGGTGAATG
*
4409536 CAATTTATTTATTTAATTATTCTGATTGAGGAAGACTTGTGA
1 CAATTTATTTATTTAATTATTCTGATTAAGGAAGACTTGTGA
*
4409578 CAATTTATTTATTTAATTATTTTGATTAAGGAAGACTTGTGA
1 CAATTTATTTATTTAATTATTCTGATTAAGGAAGACTTGTGA
4409620 TAAGTTAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.46
Consensus pattern (42 bp):
CAATTTATTTATTTAATTATTCTGATTAAGGAAGACTTGTGA
Found at i:4413911 original size:40 final size:40
Alignment explanation
Indices: 4413838--4413947 Score: 166
Period size: 40 Copynumber: 2.7 Consensus size: 40
4413828 TACATGTTTA
* *
4413838 TAATACACATCGATGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGATGTATATGGTGGACACGACCTTATGTG
* * *
4413878 TAATGCACTTCGGTGTATATGGTGGACATGACCTTATGTG
1 TAATACACTTCGATGTATATGGTGGACACGACCTTATGTG
4413918 TAATACACTTCGATGTATATGGTGGGACAC
1 TAATACACTTCGATGTATATGGT-GGACAC
4413948 TTCGGTGTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
40 56 0.92
41 5 0.08
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (40 bp):
TAATACACTTCGATGTATATGGTGGACACGACCTTATGTG
Found at i:4413947 original size:22 final size:22
Alignment explanation
Indices: 4413922--4413965 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4413912 TATGTGTAAT
4413922 ACACTTCGATGTATATGGTGGG
1 ACACTTCGATGTATATGGTGGG
*
4413944 ACACTTCGGTGTATATGGTGGG
1 ACACTTCGATGTATATGGTGGG
4413966 CACAACCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.14, G:0.34, T:0.32
Consensus pattern (22 bp):
ACACTTCGATGTATATGGTGGG
Found at i:4413980 original size:62 final size:62
Alignment explanation
Indices: 4413883--4414005 Score: 210
Period size: 62 Copynumber: 2.0 Consensus size: 62
4413873 ATGTGTAATG
**
4413883 CACTTCGGTGTATATGGTGGACATGACCTTATGTGTAATACACTTCGATGTATATGGTGGGA
1 CACTTCGGTGTATATGGTGGACACAACCTTATGTGTAATACACTTCGATGTATATGGTGGGA
* *
4413945 CACTTCGGTGTATATGGTGGGCACAACCTTATGTGTAATACACTTCGGTGTATATGGTGGG
1 CACTTCGGTGTATATGGTGGACACAACCTTATGTGTAATACACTTCGATGTATATGGTGGG
4414006 CACGACCTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (62 bp):
CACTTCGGTGTATATGGTGGACACAACCTTATGTGTAATACACTTCGATGTATATGGTGGGA
Found at i:4413988 original size:40 final size:40
Alignment explanation
Indices: 4413944--4414021 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
4413934 ATATGGTGGG
4413944 ACACTTCGGTGTATATGGTGGGCACAACCTTATGTGTAAT
1 ACACTTCGGTGTATATGGTGGGCACAACCTTATGTGTAAT
*
4413984 ACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTA
1 ACACTTCGGTGTATATGGTGGGCACAACCTTATGTGTA
4414022 GCACTACGGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (40 bp):
ACACTTCGGTGTATATGGTGGGCACAACCTTATGTGTAAT
Found at i:4414611 original size:21 final size:21
Alignment explanation
Indices: 4414587--4414628 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4414577 TAGCAGGTAT
4414587 TGTAGCAGTGCATCGATACAC
1 TGTAGCAGTGCATCGATACAC
*
4414608 TGTAGTAGTGCATCGATACAC
1 TGTAGCAGTGCATCGATACAC
4414629 ATTTTAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (21 bp):
TGTAGCAGTGCATCGATACAC
Found at i:4414726 original size:22 final size:22
Alignment explanation
Indices: 4414701--4414743 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4414691 TACATTGTTC
*
4414701 ACTGTTCATGGTACTATTCATT
1 ACTGTTCACGGTACTATTCATT
4414723 ACTGTTCACGGTACTATTCAT
1 ACTGTTCACGGTACTATTCAT
4414744 AAAAAAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (22 bp):
ACTGTTCACGGTACTATTCATT
Found at i:4419791 original size:29 final size:31
Alignment explanation
Indices: 4419741--4419812 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 31
4419731 AATTTTGGAT
* *
4419741 AGTGACCAAAATAAAAA-TTTTG-AAAGTTA
1 AGTGACTAAAATAAAAACTTTGGAAAAGTTA
* * *
4419770 AGTGACTAAAGTATAAACTTTGGAAAAGTTT
1 AGTGACTAAAATAAAAACTTTGGAAAAGTTA
*
4419801 AGGGACTAAAAT
1 AGTGACTAAAAT
4419813 GATAATTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 14 0.41
30 4 0.12
31 16 0.47
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.28
Consensus pattern (31 bp):
AGTGACTAAAATAAAAACTTTGGAAAAGTTA
Found at i:4439509 original size:20 final size:20
Alignment explanation
Indices: 4439484--4439527 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
4439474 TCGGTAGGTA
*
4439484 ATCGATACC-AAGGGTTTAGT
1 ATCGATACCGAA-GGATTAGT
4439504 ATCGATACCGAAGGATTAGT
1 ATCGATACCGAAGGATTAGT
4439524 ATCG
1 ATCG
4439528 GCACCAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (20 bp):
ATCGATACCGAAGGATTAGT
Found at i:4445985 original size:18 final size:19
Alignment explanation
Indices: 4445964--4446000 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4445954 TATCAGTACT
4445964 CAAGG-GAGTATCGATACC
1 CAAGGAGAGTATCGATACC
4445982 CAAGGTAGAGTATCGATAC
1 CAAGG-AGAGTATCGATAC
4446001 TCCAGTAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
20 12 0.71
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (19 bp):
CAAGGAGAGTATCGATACC
Found at i:4446077 original size:18 final size:18
Alignment explanation
Indices: 4446054--4446099 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
4446044 CCTAATTTTG
4446054 GTATCGATACTCAGGCTA
1 GTATCGATACTCAGGCTA
4446072 GTATCGATACTCAGGCTA
1 GTATCGATACTCAGGCTA
4446090 GTATCGATAC
1 GTATCGATAC
4446100 CCCAACATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (18 bp):
GTATCGATACTCAGGCTA
Found at i:4446198 original size:20 final size:20
Alignment explanation
Indices: 4446173--4446226 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
4446163 TCAATCAGTA
*
4446173 GGTATCTATACCAACAAGTG
1 GGTATCAATACCAACAAGTG
* * *
4446193 GGTATCGATACCAATAGGTG
1 GGTATCAATACCAACAAGTG
4446213 GGTATCAATACCAA
1 GGTATCAATACCAA
4446227 GGGTTCAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (20 bp):
GGTATCAATACCAACAAGTG
Found at i:4452021 original size:17 final size:18
Alignment explanation
Indices: 4451999--4452032 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4451989 TTAAACGTGC
4451999 TTTTAG-TTAATCCTTCA
1 TTTTAGCTTAATCCTTCA
*
4452016 TTTTAGCTTTATCCTTC
1 TTTTAGCTTAATCCTTC
4452033 CCAATGACGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTTAGCTTAATCCTTCA
Found at i:4462848 original size:21 final size:21
Alignment explanation
Indices: 4462791--4462849 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
4462781 TTGTTTCACA
* * **
4462791 CCCTAGAATTTTAGTTCGGCC
1 CCCTAAAATTTAAGTTCTTCC
*
4462812 CCCTAAAATTTTAGTTCTTCC
1 CCCTAAAATTTAAGTTCTTCC
* *
4462833 CCCTTAAGTTTAAGTTC
1 CCCTAAAATTTAAGTTC
4462850 GCGCTCCTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (21 bp):
CCCTAAAATTTAAGTTCTTCC
Found at i:4464101 original size:12 final size:11
Alignment explanation
Indices: 4464084--4464116 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
4464074 TGAAGCCTTT
4464084 AAACCGAACCG
1 AAACCGAACCG
4464095 AAAACCGAACCG
1 -AAACCGAACCG
4464107 -AACCGAACCG
1 AAACCGAACCG
4464117 TTTTACTCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
12 11 0.52
ACGTcount: A:0.45, C:0.36, G:0.18, T:0.00
Consensus pattern (11 bp):
AAACCGAACCG
Found at i:4465270 original size:15 final size:15
Alignment explanation
Indices: 4465250--4465279 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4465240 CTTTTCTATC
4465250 ATTGGAGATGGTTGG
1 ATTGGAGATGGTTGG
4465265 ATTGGAGATGGTTGG
1 ATTGGAGATGGTTGG
4465280 GATAGATTTA
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:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (15 bp):
ATTGGAGATGGTTGG
Found at i:4469848 original size:20 final size:19
Alignment explanation
Indices: 4469823--4469874 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
4469813 TTTTGTTCTT
4469823 AGTATCGATACTACCCTGC
1 AGTATCGATACTACCCTGC
* * *
4469842 AAGTATCAATATCGACCCTTC
1 -AGTATCGATA-CTACCCTGC
4469863 AGTATCGATACT
1 AGTATCGATACT
4469875 TATTGAATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 1 0.04
20 18 0.69
21 7 0.27
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (19 bp):
AGTATCGATACTACCCTGC
Found at i:4475223 original size:156 final size:157
Alignment explanation
Indices: 4474881--4475433 Score: 675
Period size: 158 Copynumber: 3.5 Consensus size: 157
4474871 CATGATTTCA
* * * * *
4474881 TTATTTCTTCAATTCCT-ATTTCATTTTAAGTCCATTTTCTACCAAATTAGAACCACATGTTCCT
1 TTATTTCTTCAATTCGTCATTT-ATTTTAAGTCCATTTTTTACCAAATTTGAGCCACATGCTCCT
* * *
4474945 AAACCATAGTAGAATACATGTGTACTTTAAATTCCTCTTTTTGATAACAAATATTTTATTTTTCA
65 AAACCATAGTAGAATACATGTGTACTTTCAATTCCTCTTTTTGATAA-AATTTTTTTATTTTTCA
*
4475010 ATTTAGTCCTTCAATTTTTCATAATCTAC
129 ATTTAGTCCTTCAATTTTTCATAATCTCC
*
4475039 TTATTTCTTCAATTCGTCATTTATTTTAAGTCCATTTTTTGCCAAATTTGAGCCACATGCTCCTA
1 TTATTTCTTCAATTCGTCATTTATTTTAAGTCCATTTTTTACCAAATTTGAGCCACATGCTCCTA
* * *
4475104 AACCATAGTAGAATACATTTGTATTTTCAACTCCTCTTTTTGAT-AAATTTTTTTATTTTTCAAT
66 AACCATAGTAGAATACATGTGTACTTTCAATTCCTCTTTTTGATAAAATTTTTTTATTTTTCAAT
*
4475168 TTAGTCCTTTAATTTTTCATAATCTCC
131 TTAGTCCTTCAATTTTTCATAATCTCC
* * * *
4475195 TTATTTCTTCAATTCGTCATTTATTTTAAGTTC--GTTTTACCAAATTTGAGACACGTGCTCCTA
1 TTATTTCTTCAATTCGTCATTTATTTTAAGTCCATTTTTTACCAAATTTGAGCCACATGCTCCTA
* * * * *
4475258 AAACATAGTAGAATACATGTGTACTTTCAATTCATATTTTTTATAACAAATATTTTTATTTTTCA
66 AACCATAGTAGAATACATGTGTACTTTCAATTCCTCTTTTTGAT-A-AAATTTTTTTATTTTTCA
* * *
4475323 ATTTAGTCCTTCAATTTTTCATTATTTCT
129 ATTTAGTCCTTCAATTTTTCATAATCTCC
* * * * * * * * *
4475352 TTGTTACTTCAATTTGTGATTTACTTTAAGT-CATTTTTTTTACCAAGTTTGAACCATATGCTCA
1 TTATTTCTTCAATTCGTCATTTATTTTAAGTCCA--TTTTTTACCAAATTTGAGCCACATGCTCC
* * *
4475416 TATACCACAATAGAATAC
64 TAAACCATAGTAGAATAC
4475434 CTATGTAACT
Statistics
Matches: 340, Mismatches: 47, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
154 63 0.19
156 75 0.22
157 69 0.20
158 94 0.28
159 4 0.01
160 35 0.10
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.47
Consensus pattern (157 bp):
TTATTTCTTCAATTCGTCATTTATTTTAAGTCCATTTTTTACCAAATTTGAGCCACATGCTCCTA
AACCATAGTAGAATACATGTGTACTTTCAATTCCTCTTTTTGATAAAATTTTTTTATTTTTCAAT
TTAGTCCTTCAATTTTTCATAATCTCC
Found at i:4485717 original size:21 final size:21
Alignment explanation
Indices: 4485674--4485747 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
4485664 AAACCGACGG
* *
4485674 GTGTATCGGTACA-CTTCAGA
1 GTGTATCGATACATATTCAGA
*
4485694 GTGTATCGATACATATTCATA
1 GTGTATCGATACATATTCAGA
* *
4485715 GTGTATCTATACATA-GCGAGA
1 GTGTATCGATACATATTC-AGA
*
4485736 ATGTATCGATAC
1 GTGTATCGATAC
4485748 CTAGGTATCG
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
20 13 0.30
21 31 0.70
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (21 bp):
GTGTATCGATACATATTCAGA
Found at i:4498381 original size:19 final size:19
Alignment explanation
Indices: 4498354--4498390 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4498344 CCGTTATTTG
*
4498354 ACCAAGTGTATCGTTACAT
1 ACCAAGTGTATCGGTACAT
*
4498373 ACCAGGTGTATCGGTACA
1 ACCAAGTGTATCGGTACA
4498391 CTAATTGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (19 bp):
ACCAAGTGTATCGGTACAT
Found at i:4502367 original size:6 final size:6
Alignment explanation
Indices: 4502356--4502390 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
4502346 GAAAATAGGA
4502356 TATTTT TATTTT TATTTT TATTTT TATTTT TATTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTT
4502391 CTTAGAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TATTTT
Found at i:4502929 original size:20 final size:20
Alignment explanation
Indices: 4502886--4502929 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
4502876 ATTGTAGATT
* *
4502886 GTCATGTAAGTTTGTGACCT
1 GTCATGTAAGTTTCTGACCG
4502906 GTCATGTAAGTGTTCTGA-CG
1 GTCATGTAAGT-TTCTGACCG
4502926 GTCA
1 GTCA
4502930 ACGTTTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.36
Consensus pattern (20 bp):
GTCATGTAAGTTTCTGACCG
Found at i:4507154 original size:27 final size:29
Alignment explanation
Indices: 4507124--4507182 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 29
4507114 GATACCCTTA
*
4507124 AAACGTCTATTTG-TAC-CTATCAATCTC
1 AAACGTCTATTTGTTACTCTAGCAATCTC
4507151 AAACGTCTATTTGTTACTTCTAGCAATCTC
1 AAACGTCTATTTGTTAC-TCTAGCAATCTC
4507181 AA
1 AA
4507183 GCGAATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 13 0.46
28 3 0.11
30 12 0.43
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (29 bp):
AAACGTCTATTTGTTACTCTAGCAATCTC
Found at i:4507803 original size:31 final size:30
Alignment explanation
Indices: 4507768--4507874 Score: 160
Period size: 31 Copynumber: 3.5 Consensus size: 30
4507758 ATTTTTAAAA
*
4507768 GTAACAAACTGGTCACTAACATTGTCAATTT
1 GTAACAAA-TGGTCACTAACATTATCAATTT
*
4507799 GTAACGAATTGGTCACTAACATTATCAATTT
1 GTAAC-AAATGGTCACTAACATTATCAATTT
*
4507830 GTAACAAAATGGTCACTAACATTATCGATTT
1 GTAAC-AAATGGTCACTAACATTATCAATTT
4507861 GTAACAAATGGTCA
1 GTAACAAATGGTCA
4507875 TTCCACCGTT
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
30 9 0.13
31 59 0.84
32 2 0.03
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (30 bp):
GTAACAAATGGTCACTAACATTATCAATTT
Found at i:4509312 original size:15 final size:15
Alignment explanation
Indices: 4509292--4509321 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4509282 AGGTGTTAAA
*
4509292 ATATAATTTATTATT
1 ATATAATTTAATATT
4509307 ATATAATTTAATATT
1 ATATAATTTAATATT
4509322 TGTAATATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATAATTTAATATT
Found at i:4510374 original size:22 final size:23
Alignment explanation
Indices: 4510326--4510374 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
4510316 ATAATTATCT
** *
4510326 TAAATTATTAAAATTAATTTAAC
1 TAAATTATTAAAATTAACATAAA
*
4510349 TAAATT-TTAATATTAACATAAA
1 TAAATTATTAAAATTAACATAAA
4510371 TAAA
1 TAAA
4510375 AGTGTAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAATTATTAAAATTAACATAAA
Found at i:4510399 original size:17 final size:17
Alignment explanation
Indices: 4510379--4510430 Score: 50
Period size: 20 Copynumber: 2.9 Consensus size: 17
4510369 AATAAAAGTG
4510379 TAAAATAATTTTTATAT
1 TAAAATAATTTTTATAT
*
4510396 TAAAATTTATTTTTTTATAT
1 TAAAA--TA-ATTTTTATAT
* *
4510416 AAAAATTATTTTTAT
1 TAAAATAATTTTTAT
4510431 TGTTTTGTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
17 12 0.43
18 1 0.04
19 2 0.07
20 13 0.46
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TAAAATAATTTTTATAT
Found at i:4510409 original size:18 final size:19
Alignment explanation
Indices: 4510380--4510430 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
4510370 ATAAAAGTGT
*
4510380 AAAATAATTTTTATAT-TA
1 AAAATTATTTTTATATATA
* *
4510398 AAATTTATTTTTTTATATA
1 AAAATTATTTTTATATATA
4510417 AAAATTATTTTTAT
1 AAAATTATTTTTAT
4510431 TGTTTTGTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
AAAATTATTTTTATATATA
Found at i:4513163 original size:3 final size:3
Alignment explanation
Indices: 4513149--4513234 Score: 163
Period size: 3 Copynumber: 28.7 Consensus size: 3
4513139 TATTAAGATG
*
4513149 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4513197 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4513235 CTTGAGGAAT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4515352 original size:25 final size:24
Alignment explanation
Indices: 4515318--4515431 Score: 122
Period size: 24 Copynumber: 4.8 Consensus size: 24
4515308 GAGTCGAGGG
4515318 TTCTACGTGGTCCTTCGGGACAAA
1 TTCTACGTGGTCCTTCGGGACAAA
* *
4515342 TTTCTACGTGGTTCTTCGAGACAAA
1 -TTCTACGTGGTCCTTCGGGACAAA
* * *
4515367 TTATACGCGGTCCTTCGAGACAAA
1 TTCTACGTGGTCCTTCGGGACAAA
* * *
4515391 TTATGCGCGGTCCTTCGGGACAAA
1 TTCTACGTGGTCCTTCGGGACAAA
* *
4515415 -TCTATGTGGTACTTCGG
1 TTCTACGTGGTCCTTCGG
4515432 TGCATATTCT
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
23 12 0.16
24 43 0.56
25 22 0.29
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.31
Consensus pattern (24 bp):
TTCTACGTGGTCCTTCGGGACAAA
Found at i:4519306 original size:65 final size:64
Alignment explanation
Indices: 4519192--4519337 Score: 170
Period size: 65 Copynumber: 2.2 Consensus size: 64
4519182 TGCACTAAGA
* * * *
4519192 GTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAAGCCTGAGTGCATCGATGCATAGTTTT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCAAAAAGCCTGAGTGCATCGATGCATAGATTG
** *
4519257 GTGCATCGATGCATCAAATGCATTCGATG-TTCAATTAATTCCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAA--AAAGCC-TGAGTGCATCGATGCATAGAT
4519320 TG
63 TG
*
4519322 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
4519338 CTTCGAAAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
63 4 0.06
65 64 0.91
66 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAAAGCCTGAGTGCATCGATGCATAGATTG
Found at i:4532147 original size:25 final size:25
Alignment explanation
Indices: 4532115--4532181 Score: 109
Period size: 24 Copynumber: 2.7 Consensus size: 25
4532105 GAGGGTTCTA
4532115 CGCTCCTTCGGGACAAATTTCTACG
1 CGCTCCTTCGGGACAAATTTCTACG
*
4532140 TGCTCCTTCGGGACAAA-TTCTACG
1 CGCTCCTTCGGGACAAATTTCTACG
*
4532164 CGATCCTTCGGGACAAAT
1 CGCTCCTTCGGGACAAAT
4532182 CTATGTGGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 22 0.58
25 16 0.42
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (25 bp):
CGCTCCTTCGGGACAAATTTCTACG
Found at i:4532213 original size:24 final size:24
Alignment explanation
Indices: 4532186--4532232 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4532176 ACAAATCTAT
* * *
4532186 GTGGTACTTCATTGCATATTATAC
1 GTGGCACTTCAGTGCAAATTATAC
4532210 GTGGCACTTCAGTGCAAATTATA
1 GTGGCACTTCAGTGCAAATTATA
4532233 TGAGCACTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
GTGGCACTTCAGTGCAAATTATAC
Found at i:4533424 original size:14 final size:14
Alignment explanation
Indices: 4533378--4533426 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
4533368 CACCAACACC
4533378 ATGACATAGTGTGG
1 ATGACATAGTGTGG
*
4533392 ATGCACAATCGCTGATGG
1 ATG-AC-ATAG-TG-TGG
4533410 ATGACATAGTGTGG
1 ATGACATAGTGTGG
4533424 ATG
1 ATG
4533427 CACGACCAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.31
15 4 0.14
16 6 0.21
17 4 0.14
18 6 0.21
ACGTcount: A:0.29, C:0.12, G:0.33, T:0.27
Consensus pattern (14 bp):
ATGACATAGTGTGG
Found at i:4538629 original size:65 final size:64
Alignment explanation
Indices: 4538552--4538700 Score: 183
Period size: 65 Copynumber: 2.3 Consensus size: 64
4538542 TATACTAGGG
*** * *
4538552 TGTGCATCGGTGCACAAATTTGCTTCGATGTTTCAAAAATAAT-CGGGGTGCATCGATGCATGGC
1 TGTGCATCGGTGCACAAATTCAATTCGATGTTTCAAAAA-AATCCAGAGTGCATCGATGCATGG-
4538616 T
64 T
* * *
4538617 TGTGCATCGGTGCACAAAATCAATTCGATGTTTTAATAAAATCCAGAGTGCATCGATGCATGGT
1 TGTGCATCGGTGCACAAATTCAATTCGATGTTTCAAAAAAATCCAGAGTGCATCGATGCATGGT
* *
4538681 TGTGCATCGGTTCATAAATT
1 TGTGCATCGGTGCACAAATT
4538701 GTATTCAAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 21 0.29
65 51 0.71
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (64 bp):
TGTGCATCGGTGCACAAATTCAATTCGATGTTTCAAAAAAATCCAGAGTGCATCGATGCATGGT
Found at i:4547675 original size:28 final size:27
Alignment explanation
Indices: 4547612--4547676 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 27
4547602 TTTTCAACAT
*
4547612 TTTCAAAATTATACTTTAGGTCTCTAAC
1 TTTCAAAATTATACTTTA-GACTCTAAC
*
4547640 TTTCCAAATTTATACTTT-GACTACTAAAC
1 TTT-CAAAATTATACTTTAGACT-CT-AAC
4547669 TTTCAAAA
1 TTTCAAAA
4547677 CTTACATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 3 0.10
28 9 0.29
29 19 0.61
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (27 bp):
TTTCAAAATTATACTTTAGACTCTAAC
Found at i:4549562 original size:2 final size:2
Alignment explanation
Indices: 4549555--4549586 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4549545 ATTGATTTAA
4549555 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4549587 GCTTAAGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4550591 original size:15 final size:15
Alignment explanation
Indices: 4550571--4550599 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4550561 AATTTCTTTT
4550571 TCGTTATCTAAACCC
1 TCGTTATCTAAACCC
4550586 TCGTTATCTAAACC
1 TCGTTATCTAAACC
4550600 AAATGTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.34
Consensus pattern (15 bp):
TCGTTATCTAAACCC
Found at i:4555488 original size:18 final size:18
Alignment explanation
Indices: 4555447--4555489 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4555437 AACTCCAATG
*
4555447 TTCTTCTTTTTCTCTGTC
1 TTCTTCTTTGTCTCTGTC
*
4555465 TCCTTCTTTGTCTC-GTCC
1 TTCTTCTTTGTCTCTGT-C
4555483 TTCTTCT
1 TTCTTCT
4555490 CGAGGTCTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.00, C:0.33, G:0.07, T:0.60
Consensus pattern (18 bp):
TTCTTCTTTGTCTCTGTC
Found at i:4562294 original size:266 final size:264
Alignment explanation
Indices: 4561778--4562310 Score: 1012
Period size: 266 Copynumber: 2.0 Consensus size: 264
4561768 TCAAATCACT
4561778 AATTATGAATTCTTCATGAATTCATTTCAACCTTTCCATTTTGTTCATAATTGCCCTTCACTATT
1 AATTATGAATTCTTCATGAATTCATTTCAACCTTTCCATTTTGTTCATAATTGCCCTTCACTATT
4561843 ATGATCACTTTTTATTAATTACCCAAAATTTCCAGAAAATCATTAATACACTCAATCCAACTTTA
66 ATGATCACTTTTTATTAATTACCCAAAATTTCCAGAAAATCATTAATACACTCAATCCAACTTTA
4561908 ATATTTGAAAACTTGTAATTTCATCCTCTATTTGCCTAGCCTTTTTGAATTCAAGCCTTAACTTT
131 ATATTTGAAAACTTGTAATTTCATCCTCTATTTGCCTAGCCTTTTTGAATTCAAGCCTTAACTTT
*
4561973 AGTAAACTCACAAATTTGATCCTAAATAAATATTTATATTTAAATTCCAGCATTGTAGCATCCAA
196 AGCAAACTCACAAATTTGATCCTAAATAAATATTTATATTTAAATTCCAGCATTGTAGCATCCAA
4562038 CTCA
261 CTCA
4562042 AATTATGAATTCTTCATGAATTCATTTCAACCTTTCCATTTTGTTCATAATTGCCCTTCACTATT
1 AATTATGAATTCTTCATGAATTCATTTCAACCTTTCCATTTTGTTCATAATTGCCCTTCACTATT
*
4562107 ATGATCGCTTTTTATTAATTACCCAAAATTTCCAGAAAATCATTAATACACTCAATCCAATACTT
66 ATGATCACTTTTTATTAATTACCCAAAATTTCCAGAAAATCATTAATACACTCAATCC-A-ACTT
* *
4562172 TAATATTTGAAAACTTGTAATTTCATCCTCTATTTTCCTAGCCTTTTTGAATTCAATCCTTAACT
129 TAATATTTGAAAACTTGTAATTTCATCCTCTATTTGCCTAGCCTTTTTGAATTCAAGCCTTAACT
4562237 TTAGCAAACTCACAAATTTGATCCTAAATAAATATTTATATTTAAATTCCAGCATTGTAGCATCC
194 TTAGCAAACTCACAAATTTGATCCTAAATAAATATTTATATTTAAATTCCAGCATTGTAGCATCC
4562302 AACTCA
259 AACTCA
4562308 AAT
1 AAT
4562311 AGTAACTTCC
Statistics
Matches: 263, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
264 122 0.46
265 1 0.00
266 140 0.53
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.40
Consensus pattern (264 bp):
AATTATGAATTCTTCATGAATTCATTTCAACCTTTCCATTTTGTTCATAATTGCCCTTCACTATT
ATGATCACTTTTTATTAATTACCCAAAATTTCCAGAAAATCATTAATACACTCAATCCAACTTTA
ATATTTGAAAACTTGTAATTTCATCCTCTATTTGCCTAGCCTTTTTGAATTCAAGCCTTAACTTT
AGCAAACTCACAAATTTGATCCTAAATAAATATTTATATTTAAATTCCAGCATTGTAGCATCCAA
CTCA
Found at i:4563622 original size:30 final size:29
Alignment explanation
Indices: 4563557--4563627 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 29
4563547 CAAAATATAT
*
4563557 AACTTTTCAAAATTATACTTTAGTTCCCTA
1 AACTTTTCAAAATTATACTTTAG-ACCCTA
*
4563587 AACTTTTCCAAATTTATACTTTA-ACCACTA
1 AACTTTT-CAAAATTATACTTTAGACC-CTA
*
4563617 TAC-TTTCAAAA
1 AACTTTTCAAAA
4563628 CTTACATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 4 0.11
29 5 0.14
30 12 0.34
31 14 0.40
ACGTcount: A:0.37, C:0.21, G:0.01, T:0.41
Consensus pattern (29 bp):
AACTTTTCAAAATTATACTTTAGACCCTA
Found at i:4568200 original size:24 final size:24
Alignment explanation
Indices: 4568173--4568224 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
4568163 TTAACATTTT
*
4568173 TAAAATATATATATAATTA-ATTAA
1 TAAAATATATAAAT-ATTATATTAA
* *
4568197 TAAAATGTATAAATATTATATTTA
1 TAAAATATATAAATATTATATTAA
4568221 TAAA
1 TAAA
4568225 TAACAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
TAAAATATATAAATATTATATTAA
Found at i:4568523 original size:11 final size:11
Alignment explanation
Indices: 4568494--4568528 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
4568484 ATAATTTCTT
* *
4568494 AAATATTATAA
1 AAATATTGTTA
4568505 AAATATTGTTA
1 AAATATTGTTA
4568516 AAATATTGTTA
1 AAATATTGTTA
4568527 AA
1 AA
4568529 CTTAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (11 bp):
AAATATTGTTA
Found at i:4568913 original size:11 final size:11
Alignment explanation
Indices: 4568878--4568920 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 11
4568868 TTTAGTGACT
4568878 AAATTAAAATA
1 AAATTAAAATA
*
4568889 AAATTCGAATATA
1 AAATT--AAAATA
4568902 AAATTAAAAT-
1 AAATTAAAATA
4568912 AAATTAAAA
1 AAATTAAAA
4568921 CATGCTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
10 9 0.32
11 9 0.32
13 10 0.36
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (11 bp):
AAATTAAAATA
Found at i:4569676 original size:23 final size:24
Alignment explanation
Indices: 4569642--4569690 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
4569632 CTCTTTCTGT
4569642 TTGTTCATCGTTG-T-TTTAGTCTC
1 TTGTTCATCGTTGCTCTTT-GTCTC
4569665 TTGTTC-TCCGTTGCTCTTTGTCTC
1 TTGTTCAT-CGTTGCTCTTTGTCTC
4569689 TT
1 TT
4569691 CTCTTGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 1 0.04
23 11 0.48
24 8 0.35
25 3 0.13
ACGTcount: A:0.04, C:0.22, G:0.16, T:0.57
Consensus pattern (24 bp):
TTGTTCATCGTTGCTCTTTGTCTC
Found at i:4570172 original size:3 final size:3
Alignment explanation
Indices: 4570164--4570228 Score: 67
Period size: 3 Copynumber: 21.3 Consensus size: 3
4570154 TGTATTTATT
* * *
4570164 TAA TAA TAA TAA TAA TAA TGTA TAT TAA TAA TAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
** *
4570210 TAA TTT TAA AAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA T
4570229 TTAAATAATT
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
3 47 0.96
4 2 0.04
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:4570404 original size:45 final size:45
Alignment explanation
Indices: 4570353--4571194 Score: 1287
Period size: 45 Copynumber: 18.8 Consensus size: 45
4570343 GATGAAAATG
* * * *
4570353 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGC
1 TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
* * *
4570398 TTTGAAAAACATCATGCACTGAAGGACTTACAGATTACCCGAAGGT
1 TTTG-AAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
* * *
4570444 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
* * * *
4570489 TTTCAAAACATCAAGCACTGAAGGGCTTACAGATGACCCAAAGGT
1 TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
*
4570534 TTTGAAGACATCAAGCACTGAAGGACTTACAAATGACCCGAAGGT
1 TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
*
4570579 TTTGAAGACATCAAGCACTGAAGGACTTACAAATGACCCGAAGGT
1 TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
*
4570624 TTTGAAGACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-
1 TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
* *
4570668 TTTGAAAACATCAAGC-TTGAAGGACTTACAGATGACCCGAAGGT
1 TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
4570712 TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
1 TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
* *
4570757 TTTGAAGACATCATGCACTGAAGGGCTTAC--ATGACCCGAAGGT
1 TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
*
4570800 TTTGAAAACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
1 TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
*
4570845 TTTGAAGACATCAAGCACTGAATGACTTACAGATGACCCGAAGGT
1 TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
** * * *
4570890 TTTGAAGACATCGTGCACTGAAGGGCTTATAGATTACCCGAAGGT
1 TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
* * * *
4570935 TTTGAAAACATAAAACACTGAAGGACTTACAGATTACCCGAAGGT
1 TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
* *
4570980 TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCTGAATGT
1 TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
*
4571025 TTTGAAAACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
1 TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
4571070 TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
1 TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
* * *
4571115 TTTGAAGACATCATGCACTGAAGGGCTTACAGATGACCCGAAGAT
1 TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
* *
4571160 TTTGAAGACATCATGCACTGAAGGGCTTACAGATG
1 TTTGAAGACATCAAGCACTGAAGGACTTACAGATG
4571195 TTAGAAGTAG
Statistics
Matches: 739, Mismatches: 53, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
43 66 0.09
44 29 0.04
45 602 0.81
46 42 0.06
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (45 bp):
TTTGAAGACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGT
Found at i:4571875 original size:22 final size:22
Alignment explanation
Indices: 4571850--4571929 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 22
4571840 AATAAAGCTT
*
4571850 TCATATTTGAAAAGAAAATCTA
1 TCATCTTTGAAAAGAAAATCTA
*
4571872 TCATCTTT--AAAGAGATATGCTA
1 TCATCTTTGAAAAGA-AAAT-CTA
*
4571894 TCATCTTTGAAGAA-AGAATCTA
1 TCATCTTTGAA-AAGAAAATCTA
4571916 TCATCTTTGAAAAG
1 TCATCTTTGAAAAG
4571930 TGTAGATGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
20 5 0.10
21 5 0.10
22 32 0.67
23 2 0.04
24 2 0.04
25 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAAAATCTA
Found at i:4572210 original size:54 final size:54
Alignment explanation
Indices: 4572117--4572220 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
4572107 TCTTGTTGTA
* * * *
4572117 AAACATTTGACAACACATTCATCATTTCTTGTGATTTCTGTACAGATGTTTCGT
1 AAACATTTAACAACACATTCATCATTTCATGTGACTTCTGCACAGATGTTTCGT
* * * * *
4572171 AAACATTTAATAATACATTCATTATTTCATGTGGCTTCTGCCCAGATGTT
1 AAACATTTAACAACACATTCATCATTTCATGTGACTTCTGCACAGATGTT
4572221 CTCAATCAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.40
Consensus pattern (54 bp):
AAACATTTAACAACACATTCATCATTTCATGTGACTTCTGCACAGATGTTTCGT
Found at i:4576273 original size:7 final size:7
Alignment explanation
Indices: 4576261--4576316 Score: 53
Period size: 7 Copynumber: 7.7 Consensus size: 7
4576251 TTTTCCCCTT
4576261 TTTTTCC
1 TTTTTCC
4576268 TTTTTCC
1 TTTTTCC
4576275 TCTTTT--
1 T-TTTTCC
4576281 TTTTTCC
1 TTTTTCC
*
4576288 TTTTTTCTTT
1 -TTTTTC--C
4576298 TTTTTCC
1 TTTTTCC
4576305 TTTTTCC
1 TTTTTCC
4576312 TTTTT
1 TTTTT
4576317 TTTCGAGTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
5 4 0.10
6 1 0.02
7 20 0.49
8 10 0.24
9 6 0.15
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTCC
Found at i:4576280 original size:17 final size:18
Alignment explanation
Indices: 4576245--4576320 Score: 93
Period size: 17 Copynumber: 4.2 Consensus size: 18
4576235 GGTTCAATTA
*
4576245 TTCCTTTTTTCCCCTTTTT
1 TTCC-TTTTTCCTCTTTTT
4576264 TTCCTTTTTCCTCTTTTTTT
1 TTCCTTTTTCCTC--TTTTT
*
4576284 TTCCTTTTTTCT-TTTTT
1 TTCCTTTTTCCTCTTTTT
4576301 TTCCTTTTTCCT-TTTTT
1 TTCCTTTTTCCTCTTTTT
4576318 TTC
1 TTC
4576321 GAGTATAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
17 24 0.46
18 8 0.15
19 4 0.08
20 16 0.31
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (18 bp):
TTCCTTTTTCCTCTTTTT
Found at i:4576284 original size:13 final size:12
Alignment explanation
Indices: 4576268--4576319 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 12
4576258 CTTTTTTTCC
4576268 TTTTTCCTCTTTT
1 TTTTTCCT-TTTT
4576281 TTTTTCCTTTTT
1 TTTTTCCTTTTT
*
4576293 TCTTTT--TTTTCC
1 T-TTTTCCTTTT-T
4576305 TTTTTCCTTTTT
1 TTTTTCCTTTTT
4576317 TTT
1 TTT
4576320 CGAGTATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
11 8 0.24
12 9 0.27
13 16 0.48
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTCCTTTTT
Found at i:4576309 original size:37 final size:37
Alignment explanation
Indices: 4576245--4576319 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 37
4576235 GGTTCAATTA
4576245 TTCCTTTTTTCCCCTTTTTTTCCTTTTTCCTCTTTTTTT
1 TTCCTTTTTT-CCCTTTTTTTCCTTTTTCCT-TTTTTTT
*
4576284 TTCCTTTTTT-CTTTTTTTTCCTTTTTCCTTTTTTTT
1 TTCCTTTTTTCCCTTTTTTTCCTTTTTCCTTTTTTTT
4576320 CGAGTATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
36 7 0.20
37 18 0.51
39 10 0.29
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (37 bp):
TTCCTTTTTTCCCTTTTTTTCCTTTTTCCTTTTTTTT
Found at i:4582420 original size:24 final size:24
Alignment explanation
Indices: 4582393--4582444 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
4582383 TTAACATTTT
*
4582393 TAAAATATATATATAATTA-ATTAA
1 TAAAATATATAAAT-ATTATATTAA
* *
4582417 TAAAATGTATAAATATTATATTTA
1 TAAAATATATAAATATTATATTAA
4582441 TAAA
1 TAAA
4582445 TAACAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
TAAAATATATAAATATTATATTAA
Found at i:4582578 original size:11 final size:11
Alignment explanation
Indices: 4582545--4582579 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
4582535 ATAATTTCTT
*
4582545 AAATATTATAA
1 AAATATTATTA
4582556 AAATATTATTA
1 AAATATTATTA
*
4582567 AAATATTGTTA
1 AAATATTATTA
4582578 AA
1 AA
4582580 CTTAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
AAATATTATTA
Found at i:4583951 original size:13 final size:13
Alignment explanation
Indices: 4583933--4583960 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4583923 TCGTGGCAGC
4583933 GGCGGAGCAACGT
1 GGCGGAGCAACGT
4583946 GGCGGAGCAACGT
1 GGCGGAGCAACGT
4583959 GG
1 GG
4583961 AGGTGATGGC
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:0.21, C:0.21, G:0.50, T:0.07
Consensus pattern (13 bp):
GGCGGAGCAACGT
Found at i:4584225 original size:3 final size:3
Alignment explanation
Indices: 4584217--4584291 Score: 78
Period size: 3 Copynumber: 24.3 Consensus size: 3
4584207 TGTATTTATT
* * *
4584217 TAA TAA TAA TAA TAAA TAA TAA TAA TAA TGTA TAT TAA TAA TAA CAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
** *
4584264 TAA TAA TAA TAA TTT TAA AAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
4584292 TTAAATAATT
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
3 53 0.91
4 5 0.09
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:4588169 original size:14 final size:14
Alignment explanation
Indices: 4588133--4588159 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4588123 ATTTATTTTT
4588133 TAATTATATTTATA
1 TAATTATATTTATA
4588147 TAATTATATTTAT
1 TAATTATATTTAT
4588160 TATTTAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTATATTTATA
Found at i:4592221 original size:3 final size:3
Alignment explanation
Indices: 4592208--4592247 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
4592198 TACTAATTTG
*
4592208 TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TGA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4592248 ATATAAATCC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:4593528 original size:16 final size:16
Alignment explanation
Indices: 4593509--4593560 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
4593499 TTCAGATCTA
4593509 GGTACCCGGGTTTTCG
1 GGTACCCGGGTTTTCG
** *
4593525 GGTACCCAAAG-TGTCG
1 GGTACCC-GGGTTTTCG
*
4593541 GGTACCCGGGTCTTCG
1 GGTACCCGGGTTTTCG
4593557 GGTA
1 GGTA
4593561 GTTGATTTGT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
15 1 0.04
16 25 0.93
17 1 0.04
ACGTcount: A:0.13, C:0.25, G:0.37, T:0.25
Consensus pattern (16 bp):
GGTACCCGGGTTTTCG
Found at i:4606069 original size:18 final size:17
Alignment explanation
Indices: 4606010--4606074 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
4606000 AGAGTTAGTC
* *
4606010 TAATAAATGAACTAGTT
1 TAATTAATGAACTAATT
* *
4606027 TGATGAATGAACT-ATT
1 TAATTAATGAACTAATT
4606043 TAATTAATGAACTAAATT
1 TAATTAATGAACT-AATT
4606061 T-ATTCAATGAACTA
1 TAATT-AATGAACTA
4606075 GATGCATGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 13 0.32
17 15 0.38
18 12 0.30
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.37
Consensus pattern (17 bp):
TAATTAATGAACTAATT
Found at i:4611355 original size:21 final size:21
Alignment explanation
Indices: 4611329--4611368 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
4611319 CAGATGGGGA
4611329 GAATCGATACCCCTTCATATG
1 GAATCGATACCCCTTCATATG
4611350 GAATCGATACCCCTTCATA
1 GAATCGATACCCCTTCATA
4611369 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.28
Consensus pattern (21 bp):
GAATCGATACCCCTTCATATG
Found at i:4611538 original size:34 final size:35
Alignment explanation
Indices: 4611481--4611564 Score: 136
Period size: 34 Copynumber: 2.4 Consensus size: 35
4611471 AAACCATGCA
*
4611481 GGGGGAATCTGTACCGGGGAATCGATACCCC-T-G
1 GGGGGAATCTGTTCCGGGGAATCGATACCCCTTGG
4611514 GGGGGAATCTGTTCTCGGGGAATCGATACCCCTTGG
1 GGGGGAATCTGTTC-CGGGGAATCGATACCCCTTGG
4611550 GGGGGAATCTGTTCC
1 GGGGGAATCTGTTCC
4611565 CTCTGGGCAA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
33 13 0.28
34 17 0.36
35 2 0.04
36 15 0.32
ACGTcount: A:0.18, C:0.23, G:0.37, T:0.23
Consensus pattern (35 bp):
GGGGGAATCTGTTCCGGGGAATCGATACCCCTTGG
Found at i:4612907 original size:23 final size:23
Alignment explanation
Indices: 4612881--4612931 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
4612871 TCTCTCGCCC
4612881 TCTTTAAATTTTTC-TTCTTTTTT
1 TCTTTAAATTTTTCATT-TTTTTT
**
4612904 TCTTCGAATTTTTCATTTTTTTT
1 TCTTTAAATTTTTCATTTTTTTT
*
4612927 GCTTT
1 TCTTT
4612932 TTTCACTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.12, C:0.14, G:0.04, T:0.71
Consensus pattern (23 bp):
TCTTTAAATTTTTCATTTTTTTT
Found at i:4613594 original size:18 final size:18
Alignment explanation
Indices: 4613571--4613615 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
4613561 TTCATACATC
4613571 TAGTTCATTGAATAAAGT
1 TAGTTCATTGAATAAAGT
*
4613589 TAGTTCATTGAATAATGT
1 TAGTTCATTGAATAAAGT
4613607 TAGTTCATT
1 TAGTTCATT
4613616 AATCAAACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (18 bp):
TAGTTCATTGAATAAAGT
Found at i:4616080 original size:21 final size:21
Alignment explanation
Indices: 4616041--4616080 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4616031 GAAACGAGAG
*
4616041 TTGAAAAAGACATTTAGAGCA
1 TTGAAAAAGACATTGAGAGCA
4616062 TTGAAAAGAGA-ATTGAGAG
1 TTGAAAA-AGACATTGAGAG
4616081 TGAAAATGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.47, C:0.05, G:0.25, T:0.23
Consensus pattern (21 bp):
TTGAAAAAGACATTGAGAGCA
Found at i:4617441 original size:17 final size:17
Alignment explanation
Indices: 4617400--4617471 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 17
4617390 ATTCATGCAT
4617400 CTAGTTCATTGAA-TAAA
1 CTAGTTCATT-AATTAAA
*
4617417 GTTAGTTCATTAATTAAA
1 -CTAGTTCATTAATTAAA
* *
4617435 CTAGTTCATTCATCAAA
1 CTAGTTCATTAATTAAA
* *
4617452 CTAGTTCATTTATTAGA
1 CTAGTTCATTAATTAAA
4617469 CTA
1 CTA
4617472 ACTCTTAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
17 33 0.72
18 13 0.28
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (17 bp):
CTAGTTCATTAATTAAA
Found at i:4618563 original size:17 final size:17
Alignment explanation
Indices: 4618512--4618583 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 17
4618502 AATTAATATT
*
4618512 TAGTCTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* *
4618529 TAGTTTGATGAATGAAC
1 TAGTTTAATAAATGAAC
* *
4618546 TAGTTTAATTAATTAAC
1 TAGTTTAATAAATGAAC
* * *
4618563 TAACTTTATTCAATGAAC
1 T-AGTTTAATAAATGAAC
4618581 TAG
1 TAG
4618584 ATGCATGAAT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
17 30 0.70
18 13 0.30
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:4622629 original size:17 final size:17
Alignment explanation
Indices: 4622599--4622651 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
4622589 AATTAAGAGT
* *
4622599 TAGTCTAATAAATGAAC
1 TAGTTTAATGAATGAAC
*
4622616 TAGTTTGATGAATGAAC
1 TAGTTTAATGAATGAAC
*
4622633 TAGTTTAATTAATGAAC
1 TAGTTTAATGAATGAAC
4622650 TA
1 TA
4622652 ACTTTATTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.36
Consensus pattern (17 bp):
TAGTTTAATGAATGAAC
Found at i:4622664 original size:18 final size:17
Alignment explanation
Indices: 4622604--4622666 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
4622594 AGAGTTAGTC
* *
4622604 TAATAAATGAACTAGTT
1 TAATTAATGAACTACTT
* * *
4622621 TGATGAATGAACTAGTT
1 TAATTAATGAACTACTT
4622638 TAATTAATGAACTAACTT
1 TAATTAATGAACT-ACTT
4622656 T-ATTCAATGAA
1 TAATT-AATGAA
4622667 AGATGCATGA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
17 29 0.74
18 10 0.26
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.37
Consensus pattern (17 bp):
TAATTAATGAACTACTT
Found at i:4631340 original size:20 final size:21
Alignment explanation
Indices: 4631315--4631366 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4631305 TTTTCTCAAT
*
4631315 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
4631335 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
4631356 TCGCAATGCGA
1 TCGCAATGCGA
4631367 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:4631380 original size:20 final size:20
Alignment explanation
Indices: 4631355--4631468 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
4631345 AATTGGGAAA
*
4631355 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
4631375 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
4631395 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
4631416 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
4631436 TTCGCAGCGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
4631456 TTCGCAACGCGAT
1 ATCGCAACGCGAT
4631469 TTACATAGCG
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
19 2 0.03
20 62 0.78
21 13 0.16
22 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:4631399 original size:61 final size:61
Alignment explanation
Indices: 4631352--4631468 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
4631342 GCGAATTGGG
* * * * *
4631352 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * *
4631413 AAAATCGCAACGAGATACTGACTTTCGCAGCGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
4631469 TTACATAGCG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:4632071 original size:19 final size:19
Alignment explanation
Indices: 4632023--4632064 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
4632013 ACGAGATAAT
*
4632023 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
*
4632042 CGCAACGCGAAACAAAAAT
1 CGCAACGCGAAACAAAAAA
4632061 CGCA
1 CGCA
4632065 TTGCGAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.52, C:0.26, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:4632137 original size:39 final size:38
Alignment explanation
Indices: 4632060--4632149 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
4632050 GAAACAAAAA
* *
4632060 TCGCATTGCGAATTTTATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTTATTTCGCGTTGCGATTTTCATT
4632098 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTTATTTCGC-GTTGCGATTTTCATT
4632137 TCGCGTTGCGATT
1 TCGCGTTGCGATT
4632150 GTCTGGTCGC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 21 0.43
39 28 0.57
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (38 bp):
TCGCGTTGCGATTTTTATTTCGCGTTGCGATTTTCATT
Found at i:4632148 original size:19 final size:19
Alignment explanation
Indices: 4632060--4632244 Score: 158
Period size: 19 Copynumber: 10.1 Consensus size: 19
4632050 GAAACAAAAA
*
4632060 TCGCATTGCGAATTTT-ATT
1 TCGCGTTGCG-ATTTTCATT
4632079 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
4632098 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
4632117 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
4632137 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
4632153 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
4632170 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
4632184 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
4632203 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
4632223 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
4632243 TC
1 TC
4632245 AACCAAAAGA
Statistics
Matches: 137, Mismatches: 15, Indels: 28
0.76 0.08 0.16
Matches are distributed among these distances:
14 20 0.15
15 1 0.01
16 3 0.02
17 3 0.02
18 6 0.04
19 54 0.39
20 49 0.36
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:4632160 original size:39 final size:39
Alignment explanation
Indices: 4632079--4632160 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 39
4632069 GAATTTTATT
* **
4632079 TCGC-GTTGCGATTTTCATTTCGCGTTGCGATTTTTATT
1 TCGCGGTTGCGATTTTCATTTCGCGTTGCGATTTCTAGG
4632117 TCGCGGTTGCGATTTTCATTTCGCGTTGCGATTGTCT-GG
1 TCGCGGTTGCGATTTTCATTTCGCGTTGCGATT-TCTAGG
4632156 TCGCG
1 TCGCG
4632161 ATAGTCATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
38 4 0.10
39 33 0.85
40 2 0.05
ACGTcount: A:0.09, C:0.21, G:0.27, T:0.44
Consensus pattern (39 bp):
TCGCGGTTGCGATTTTCATTTCGCGTTGCGATTTCTAGG
Found at i:4632169 original size:33 final size:33
Alignment explanation
Indices: 4632132--4632219 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
4632122 GTTGCGATTT
* *
4632132 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
4632165 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
4632198 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
4632220 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:4632221 original size:20 final size:20
Alignment explanation
Indices: 4632187--4632244 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
4632177 GCGATTCTCT
**
4632187 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
4632207 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
4632227 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
4632245 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:4634300 original size:42 final size:42
Alignment explanation
Indices: 4634240--4634362 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
4634230 GCCCGACTCG
* * *
4634240 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
4634282 CCTATCATTCCTCGAGAGTCCTCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
4634324 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
4634363 CTCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.24
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:4635739 original size:14 final size:14
Alignment explanation
Indices: 4635720--4635755 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
4635710 ATTGTTTAAT
4635720 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
4635734 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
4635748 TGATTTGT
1 TGATTTGT
4635756 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:4635956 original size:19 final size:19
Alignment explanation
Indices: 4635934--4636064 Score: 103
Period size: 19 Copynumber: 7.7 Consensus size: 19
4635924 CGAAATTAAA
*
4635934 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
4635953 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
4635969 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
4635986 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
*
4636000 TTAGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
4636019 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
4636035 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
4636052 TTCGCATTGCGAT
1 TTCGCATTGCGAT
4636065 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 11, Indels: 30
0.68 0.09 0.24
Matches are distributed among these distances:
14 24 0.28
16 13 0.15
17 13 0.15
19 36 0.42
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:4635980 original size:33 final size:32
Alignment explanation
Indices: 4635938--4636064 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
4635928 ATTAAATTCG
4635938 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
4635971 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
4636004 CATTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
4636037 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
4636065 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:4636027 original size:66 final size:66
Alignment explanation
Indices: 4635931--4636063 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
4635921 ACGCGAAATT
* *
4635931 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
4635996 G
66 G
*
4635997 AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
4636062 G
66 G
4636063 A
1 A
4636064 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (66 bp):
AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:4638345 original size:12 final size:12
Alignment explanation
Indices: 4638328--4638352 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4638318 TCTTCGGGGA
4638328 CTTTTTCTTCTT
1 CTTTTTCTTCTT
4638340 CTTTTTCTTCTT
1 CTTTTTCTTCTT
4638352 C
1 C
4638353 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:4638561 original size:24 final size:24
Alignment explanation
Indices: 4638527--4638580 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
4638517 CTGAAACATC
* *
4638527 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
4638551 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
4638575 ATCAAA
1 ATCAAA
4638581 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:4639661 original size:20 final size:20
Alignment explanation
Indices: 4639636--4639693 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
4639626 ATTCATTTGA
4639636 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
4639656 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
4639676 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
4639694 CGCAATGCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:4639712 original size:19 final size:19
Alignment explanation
Indices: 4639688--4639755 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
4639678 ATCGCAACGA
4639688 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4639707 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4639726 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
4639740 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
4639756 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:4639915 original size:14 final size:14
Alignment explanation
Indices: 4639896--4639932 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4639886 CATCAATTAA
4639896 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
4639910 ACAAATCATCTTTT
1 ACAAATCAACATTT
4639924 ACAAATCAA
1 ACAAATCAA
4639933 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:4641833 original size:20 final size:19
Alignment explanation
Indices: 4641798--4641864 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
4641788 GAAACTTAAA
4641798 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
4641817 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
4641837 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
4641856 ATCGCAACG
1 ATCGCAACG
4641865 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Done.