Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 78
Found at i:1634993 original size:23 final size:21
Alignment explanation
Indices: 1634936--1635022 Score: 94
Period size: 20 Copynumber: 4.3 Consensus size: 21
1634926 TATACACACT
1634936 TATACTTTATATTA-TATATA
1 TATACTTTATATTATTATATA
*
1634956 TACACTTTATATTATTATATA
1 TATACTTTATATTATTATATA
*
1634977 TATACTTTATACT-TTATACT-
1 TATACTTTATATTATTATA-TA
* *
1634997 TATAC--TATATAAGTATATA
1 TATACTTTATATTATTATATA
1635016 TATACTT
1 TATACTT
1635023 ATAAGGTATG
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
18 5 0.09
19 9 0.16
20 23 0.42
21 18 0.33
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.52
Consensus pattern (21 bp):
TATACTTTATATTATTATATA
Found at i:1635081 original size:20 final size:20
Alignment explanation
Indices: 1635049--1635089 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1635039 TATAATGTAC
1635049 ATTATATATACATGCATCAT
1 ATTATATATACATGCATCAT
*
1635069 ATTATCATA-ACATTCATCAT
1 ATTAT-ATATACATGCATCAT
1635089 A
1 A
1635090 CATATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.39
Consensus pattern (20 bp):
ATTATATATACATGCATCAT
Found at i:1638286 original size:2 final size:2
Alignment explanation
Indices: 1638279--1638317 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1638269 TATTTCCTAC
1638279 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1638318 GGATTAGGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1638739 original size:231 final size:234
Alignment explanation
Indices: 1638306--1638783 Score: 644
Period size: 234 Copynumber: 2.0 Consensus size: 234
1638296 ATATATATAT
* * * * *
1638306 ATATATATATATGGATTAGGATCTACTTACACAATGTAAAACTCTTTTAGTTTTACACATATTTG
1 ATATATATATAGGGATTAGGATCTACTTACACAAGGTAAAACTATTTTAGTTTTACACAGATTTA
* * * *
1638371 GGACCATTGAATGACTGAAAATAAATGGTTGAGATTAACAGTAGGAAATGATAAGATATTAACTG
66 GGACCATTGAATAACTGAAAATAAACGGTTGAGATTAACAGCAGGAAATGAGAAGATATTAACT-
* *
1638436 GAAAAAAAACAAGAAGTCAATCTCAACTCCCTATTTTTAGTCATCCAACAGTCCTAAATCTGTAT
130 G-AAAAAAACAAGAAGTCAATCTCAACTCCCTATTTTCACTCATCCAACAGTCCTAAATCTGTAT
* *
1638501 AAAACTAAAGAGTTTTACGTTGTGTAAATGGATCATAA-CC
194 AAAACTAAAGAGTTTTACATTGTGTAAATAGATCATAATCC
* *
1638541 CTATATATATAGGGA-TAGGATCCT-GTTACACAAGGTAAAACTATTTTAGTTTTACACAGATTT
1 ATATATATATAGGGATTAGGAT-CTACTTACACAAGGTAAAACTATTTTAGTTTTACACAGATTT
* * * * *
1638604 AGGATCGTT-AGATAAGTGAAAATAGACGGTTGAGATTAACAGCAGGAAATGAGAAGATATTCAC
65 AGGACCATTGA-ATAACTGAAAATAAACGGTTGAGATTAACAGCAGGAAATGAGAAGATATTAAC
* * * *
1638668 T-AAAAAAACAAGGAGTCAATCTCAAC-CATCTATTTTCACTCATCCAACGGTCCTAAATCTGTG
129 TGAAAAAAACAAGAAGTCAATCTCAACTC-CCTATTTTCACTCATCCAACAGTCCTAAATCTGTA
*
1638731 TAAAACTAAAGAGTTTTACATTGTGTAAGTAGATCATAATCC
193 TAAAACTAAAGAGTTTTACATTGTGTAAATAGATCATAATCC
1638773 ATATATATATA
1 ATATATATATA
1638784 TATATATATA
Statistics
Matches: 213, Mismatches: 26, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
230 1 0.00
231 90 0.42
232 12 0.06
233 1 0.00
234 94 0.44
235 15 0.07
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (234 bp):
ATATATATATAGGGATTAGGATCTACTTACACAAGGTAAAACTATTTTAGTTTTACACAGATTTA
GGACCATTGAATAACTGAAAATAAACGGTTGAGATTAACAGCAGGAAATGAGAAGATATTAACTG
AAAAAAACAAGAAGTCAATCTCAACTCCCTATTTTCACTCATCCAACAGTCCTAAATCTGTATAA
AACTAAAGAGTTTTACATTGTGTAAATAGATCATAATCC
Found at i:1638780 original size:2 final size:2
Alignment explanation
Indices: 1638773--1638798 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1638763 ATCATAATCC
1638773 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
1638799 TAACAATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1643075 original size:24 final size:24
Alignment explanation
Indices: 1643029--1643119 Score: 68
Period size: 24 Copynumber: 3.9 Consensus size: 24
1643019 AAATGTTAAT
*
1643029 ATGATAATAAAAGATAAATAAAAA
1 ATGATAATAAAAGATAAAGAAAAA
*
1643053 ATGATAAT-AGAGATGAAAG-AAAA
1 ATGATAATAAAAGAT-AAAGAAAAA
*
1643076 AT-AT--TAAAAAATACAA-AAAAA
1 ATGATAATAAAAGATA-AAGAAAAA
* *
1643097 ATAATAATAAATAAATAAAGAAA
1 ATGATAATAAA-AGATAAAGAAA
1643120 CGAAATAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
20 2 0.04
21 12 0.22
22 4 0.07
23 11 0.20
24 17 0.31
25 8 0.15
ACGTcount: A:0.70, C:0.01, G:0.09, T:0.20
Consensus pattern (24 bp):
ATGATAATAAAAGATAAAGAAAAA
Found at i:1644493 original size:3 final size:3
Alignment explanation
Indices: 1644485--1644551 Score: 68
Period size: 3 Copynumber: 22.3 Consensus size: 3
1644475 TTAAATAAGA
* *
1644485 AAT AAT AAT AAT AAAT AA- AAT AAT -AC AAT AAT AAT AAAT GAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
1644530 AAT AAAT AAT -AT AAT AAT AAT A
1 AAT -AAT AAT AAT AAT AAT AAT A
1644552 TATATATATA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
2 5 0.09
3 40 0.74
4 9 0.17
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:1644496 original size:21 final size:18
Alignment explanation
Indices: 1644470--1644551 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
1644460 ACAAGAACAA
1644470 AATAATTAAATAAGAAATAAT
1 AATAA-TAAAT-A-AAATAAT
1644491 AATAATAAATAAAATAAT
1 AATAATAAATAAAATAAT
*
1644509 ACAATAAT-AAT-AAATGAT
1 --AATAATAAATAAAATAAT
*
1644527 AATAATAAATAATATAAT
1 AATAATAAATAAAATAAT
1644545 AATAATA
1 AATAATA
1644552 TATATATATA
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
16 6 0.11
17 3 0.06
18 25 0.46
19 4 0.07
20 11 0.20
21 5 0.09
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.29
Consensus pattern (18 bp):
AATAATAAATAAAATAAT
Found at i:1644515 original size:33 final size:33
Alignment explanation
Indices: 1644468--1644551 Score: 96
Period size: 36 Copynumber: 2.4 Consensus size: 33
1644458 AAACAAGAAC
*
1644468 AAAATAATTAAATAAGAAATAATAATAATAAAT
1 AAAATAATAAAATAAGAAATAATAATAATAAAT
* *
1644501 AAAATAATACAATAATAATAAATGATAATAATAAAT
1 AAAATAAT--AA-AATAAGAAATAATAATAATAAAT
*
1644537 AATATAATAATAATA
1 AAAATAATAA-AATA
1644552 TATATATATA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
33 8 0.18
34 7 0.16
35 1 0.02
36 28 0.64
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (33 bp):
AAAATAATAAAATAAGAAATAATAATAATAAAT
Found at i:1644518 original size:23 final size:23
Alignment explanation
Indices: 1644488--1644540 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
1644478 AATAAGAAAT
1644488 AATAATAATAAAT-AAAATAATA
1 AATAATAATAAATGAAAATAATA
*
1644510 CAATAATAATAAATGATAATAATA
1 -AATAATAATAAATGAAAATAATA
1644534 AATAATA
1 AATAATA
1644541 TAATAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 20 0.71
24 8 0.29
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (23 bp):
AATAATAATAAATGAAAATAATA
Found at i:1644664 original size:40 final size:39
Alignment explanation
Indices: 1644608--1644718 Score: 120
Period size: 37 Copynumber: 2.9 Consensus size: 39
1644598 TTTTTTTTTT
1644608 AAAATTATATAATATATATATTTTAAAAAATGTTTAAAAA
1 AAAATTATATAATATATAT-TTTTAAAAAATGTTTAAAAA
* * **
1644648 AAAATTATATATTATATATTTTTAAAATAT-TTT-TTAA
1 AAAATTATATAATATATATTTTTAAAAAATGTTTAAAAA
* * *
1644685 AAAACTATATAATATAAATGTTTT-CAAAATGTTT
1 AAAATTATATAATATATAT-TTTTAAAAAATGTTT
1644719 TCAAAACTAT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
37 22 0.37
38 10 0.17
39 10 0.17
40 18 0.30
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (39 bp):
AAAATTATATAATATATATTTTTAAAAAATGTTTAAAAA
Found at i:1644687 original size:37 final size:39
Alignment explanation
Indices: 1644608--1644724 Score: 121
Period size: 40 Copynumber: 3.0 Consensus size: 39
1644598 TTTTTTTTTT
*
1644608 AAAATTATATAATATATATATTTTAAAAAATGTTTAAAAA
1 AAAATTATATAATATATATATTTTAAAATAT-TTTAAAAA
* **
1644648 AAAATTATATATTATATAT-TTTTAAAATATTTT-TTAA
1 AAAATTATATAATATATATATTTTAAAATATTTTAAAAA
* * * * *
1644685 AAAACTATATAATATAAATGTTTTCAAAATGTTTTCAAAA
1 AAAATTATATAATATATATATTTT-AAAATATTTTAAAAA
1644725 CTATATCATA
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
37 18 0.28
38 7 0.11
39 19 0.30
40 20 0.31
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (39 bp):
AAAATTATATAATATATATATTTTAAAATATTTTAAAAA
Found at i:1644716 original size:11 final size:11
Alignment explanation
Indices: 1644700--1644724 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1644690 TATATAATAT
1644700 AAATGTTTTCA
1 AAATGTTTTCA
1644711 AAATGTTTTCA
1 AAATGTTTTCA
1644722 AAA
1 AAA
1644725 CTATATCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:1644771 original size:35 final size:36
Alignment explanation
Indices: 1644602--1644784 Score: 140
Period size: 36 Copynumber: 5.0 Consensus size: 36
1644592 TCCAATTTTT
* * *
1644602 TTTTTTAAAATTATATAATATATATATTTTAAAAAATG
1 TTTTTCAAAACTATATAATATA-A-ATTTTCAAAAATG
*** * * * *
1644640 TTTAAAAAAAAATTATATATTATATATTTTTAAAATAT-
1 TTT--TTCAAAACTATATAATATAAATTTTCAAAA-ATG
*
1644678 TTTTTAAAAAACTATATAATATAAATGTTTTC-AAAATG
1 TTTTT-CAAAACTATATAATATAAA--TTTTCAAAAATG
*
1644716 -TTTTCAAAACTATATCATATAAATTTTCAAAAATG
1 TTTTTCAAAACTATATAATATAAATTTTCAAAAATG
**
1644751 TTTTTCAAAACTATAT-ATATACGTTTTCAAAAAT
1 TTTTTCAAAACTATATAATATAAATTTTCAAAAAT
1644785 ATATATATAT
Statistics
Matches: 120, Mismatches: 16, Indels: 21
0.76 0.10 0.13
Matches are distributed among these distances:
34 5 0.04
35 22 0.18
36 32 0.27
37 22 0.18
38 18 0.15
39 6 0.05
40 15 0.12
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (36 bp):
TTTTTCAAAACTATATAATATAAATTTTCAAAAATG
Found at i:1644779 original size:22 final size:22
Alignment explanation
Indices: 1644752--1644793 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1644742 TCAAAAATGT
*
1644752 TTTTCAAAACTATATATATACG
1 TTTTCAAAAATATATATATACG
1644774 TTTTCAAAAATATATATATA
1 TTTTCAAAAATATATATATA
1644794 TATATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (22 bp):
TTTTCAAAAATATATATATACG
Found at i:1644788 original size:2 final size:2
Alignment explanation
Indices: 1644783--1644827 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1644773 GTTTTCAAAA
1644783 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1644825 AT A
1 AT A
1644828 CATTTTCAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1644788 original size:20 final size:21
Alignment explanation
Indices: 1644752--1644791 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
1644742 TCAAAAATGT
1644752 TTTTCAAAACTATATATATACG
1 TTTTCAAAAC-ATATATATACG
1644774 TTTTCAAAA-ATATATATA
1 TTTTCAAAACATATATATA
1644792 TATATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (21 bp):
TTTTCAAAACATATATATACG
Found at i:1645743 original size:84 final size:83
Alignment explanation
Indices: 1645622--1646486 Score: 871
Period size: 84 Copynumber: 10.4 Consensus size: 83
1645612 AAGGTCTTTA
* * *
1645622 GCAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGGAGTCGA
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
*
1645687 ACTCGAAGGTCTTTTGGTC
66 ACTCGAAGGTC-TTTGGTG
* * * * *
1645706 ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCGTT-GAGCTGAGCGTAGTCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCG
* *
1645770 AACTCAAAGGTCTTTTGTTG
65 AACTCGAAGGTC-TTTGGTG
* * * * * *
1645790 GCAGACAACCCTTCTAGACTTAAGTTGTGTTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAA
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
*
1645855 ACTCGAAGGTCTCTGGTTG
66 ACTCGAAGGTCTTTGG-TG
* * * *
1645874 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCG
**
1645939 AACTCGGGGGTC-TT--TG
65 AACTCGAAGGTCTTTGGTG
* * * * * * *
1645955 GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAACTGAGTGTAATCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCG
**
1646020 AACTCGGGGGTC-TT--TG
65 AACTCGAAGGTCTTTGGTG
* * * *
1646036 ACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGCTGATCGTAGTCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCG
* *
1646100 AACTCAAAGGTCTTTTGTTG
65 AACTCGAAGGTC-TTTGGTG
* * * * *
1646120 GCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
1646185 ACTCGAAGGTCTTTGGTTG
66 ACTCGAAGGTCTTTGG-TG
*** * *
1646204 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCAAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCG
**
1646269 AACTCGGGGGTC-TT--TG
65 AACTCGAAGGTCTTTGGTG
* * *
1646285 GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGCTGATCGTAGTCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCG
* *
1646349 AACTCAAAGGTCTTTTGGTC
65 AACTCGAAGGTC-TTTGGTG
** * * * * * * * *
1646369 ATAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCG
*
1646434 AACTC-AGGGGTC-TT--TG
65 AACTCGA-AGGTCTTTGGTG
* *
1646450 GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
1646487 AGTTTGTTTA
Statistics
Matches: 656, Mismatches: 105, Indels: 43
0.82 0.13 0.05
Matches are distributed among these distances:
80 45 0.07
81 197 0.30
82 4 0.01
83 13 0.02
84 320 0.49
85 77 0.12
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (83 bp):
GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
ACTCGAAGGTCTTTGGTG
Found at i:1646204 original size:330 final size:333
Alignment explanation
Indices: 1645600--1646486 Score: 1243
Period size: 330 Copynumber: 2.7 Consensus size: 333
1645590 AAGTTGAATA
*** * * *
1645600 TAATCGAACTCAAAGGTCTTTAGCAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
* * * * * *
1645665 -CCTTGGAGCTGAGCGGAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGA
66 CCCTCGAAACTGAGCGGAATCGAACTCGAAGGTCTTTTGG-CACAGATAACCCTTCTAGACTTAA
* *
1645729 GTTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAG
130 GCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAG
*
1645794 ACAACCCTTCTAGACTTAAGTTGTGTTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTC
195 ACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTC
*
1645859 GAAGGTCTCTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGA
260 GAAGGTCTCTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCAA
1645924 AGCTGAGTG
325 AGCTGAGTG
1645933 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
* * ** * *
1645998 CCCTCGAAACTGAGTGTAATCGAACTCGGGGGTC-TTT-G-ACAGATAGCCCTTCTCGACTTAAG
66 CCCTCGAAACTGAGCGGAATCGAACTCGAAGGTCTTTTGGCACAGATAACCCTTCTAGACTTAAG
*
1646060 CTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGA
131 CTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGA
* *
1646125 CAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCG
196 CAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCG
*
1646190 AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCAAA
261 AAGGTCTCTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCAAA
1646255 GCTGAGTG
326 GCTGAGTG
1646263 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
* * * * * * * * * *
1646328 CCGTTG-AGCTGATCGTAGTCGAACTCAAAGGTCTTTTGGTCATAGATAACCCTTCTAGCCTTGA
66 CCCTCGAAACTGAGCGGAATCGAACTCGAAGGTCTTTTGG-CACAGATAACCCTTCTAGACTTAA
* * * * * * **
1646392 GTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCAGGGGTC---T-TTGGCA
130 GCTATGCTGCAAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCA
* * * * *
1646453 GATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
194 GACAACCCTTCTAGACTTAAGTTGTGCTGCAAAT
1646487 AGTTTGTTTA
Statistics
Matches: 493, Mismatches: 55, Indels: 15
0.88 0.10 0.03
Matches are distributed among these distances:
329 20 0.04
330 321 0.65
331 2 0.00
332 1 0.00
333 102 0.21
334 47 0.10
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (333 bp):
TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
CCCTCGAAACTGAGCGGAATCGAACTCGAAGGTCTTTTGGCACAGATAACCCTTCTAGACTTAAG
CTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGA
CAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCG
AAGGTCTCTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCAAA
GCTGAGTG
Found at i:1646383 original size:414 final size:412
Alignment explanation
Indices: 1645600--1646486 Score: 1185
Period size: 414 Copynumber: 2.1 Consensus size: 412
1645590 AAGTTGAATA
** * *
1645600 TAATCGAACTCAAAGGTCTTT-AGCAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGT
1 TAATCGAACTCAGGGGTCTTTGA-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* * * *
1645664 GCCTTGGAGCTGAGCGGAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGA
65 GCCTTGGAGCTGAGCGGAGTCGAACTCAAAGGTCTTTTGGTCACAGACAACCCTTCTAGACTTAA
* * *
1645729 GTTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAG
130 GTTATGCTGCAAATGATATGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAG
* * *** *
1645794 ACAACCCTTCTAGACTTAAGTTGTGTTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTC
195 ACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTCAAAGCTGAGCGTAATCAAACTC
* *
1645859 GAAGGTCTCTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGA
260 G-AGGGCTCT-GTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGA
*** * *
1645924 AGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCA
323 AGCTGAGTGTAATCGAACTCAAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCA
1645989 AATGATGTGCCCTCGAAACTGAGTG
388 AATGATGTGCCCTCGAAACTGAGTG
*
1646014 TAATCGAACTCGGGGGTCTTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCAGGGGTCTTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
* * * ** *
1646079 CCGTT-GAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAA
66 CC-TTGGAGCTGAGCGGAGTCGAACTCAAAGGTCTTTTGGTCACAGACAACCCTTCTAGACTTAA
* *
1646143 GTTGTGCTGCAAATGATATGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCA
130 GTTATGCTGCAAATGATATGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCA
* * * * *
1646207 GATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCAAAGCTGAGTGTAATCGAAC
194 GACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG-CCTCAAAGCTGAGCGTAATCAAAC
* * * *
1646272 TCG-GGGGTCT-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTG-
258 TCGAGGGCTCTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGA
* * * *
1646334 AGCTGA-TCGTAGTCGAACTCAAAGGTCTTTTGGTCATAGATAACCCTTCTAGCCTTGAGTTATG
323 AGCTGAGT-GTAATCGAACTCAAAGGTC-TTTGG-C--AGATAACCCTTCTAGACTTAAGCTATG
* *
1646398 CTGTAAATGATGTGCCCTCGAAGCTGAGTG
383 CTGCAAATGATGTGCCCTCGAAACTGAGTG
*
1646428 TAATCGAACTCAGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
1 TAATCGAACTCAGGGGTCTTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
1646487 AGTTTGTTTA
Statistics
Matches: 414, Mismatches: 50, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
409 1 0.00
410 21 0.05
411 53 0.13
412 1 0.00
413 7 0.02
414 307 0.74
415 24 0.06
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (412 bp):
TAATCGAACTCAGGGGTCTTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
CCTTGGAGCTGAGCGGAGTCGAACTCAAAGGTCTTTTGGTCACAGACAACCCTTCTAGACTTAAG
TTATGCTGCAAATGATATGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGA
CAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTCAAAGCTGAGCGTAATCAAACTCG
AGGGCTCTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGC
TGAGTGTAATCGAACTCAAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAAT
GATGTGCCCTCGAAACTGAGTG
Found at i:1651475 original size:24 final size:26
Alignment explanation
Indices: 1651435--1651504 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 26
1651425 TAATAGAGAT
* * *
1651435 GAAAGAAA-AATATTAAAAAAATACA
1 GAAACAAATAATAATAAAAAAATAAA
*
1651460 -AAA-AAATAATAATAAATAAATAAA
1 GAAACAAATAATAATAAAAAAATAAA
1651484 GAAACGAAATAA-AATAAAAAA
1 GAAAC-AAATAATAATAAAAAA
1651505 TAATAAACAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
23 3 0.08
24 17 0.46
25 3 0.08
26 8 0.22
27 6 0.16
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.16
Consensus pattern (26 bp):
GAAACAAATAATAATAAAAAAATAAA
Found at i:1652867 original size:3 final size:3
Alignment explanation
Indices: 1652859--1652918 Score: 54
Period size: 3 Copynumber: 20.0 Consensus size: 3
1652849 AATAAGAAAT
* *
1652859 ATA ATA ATAA ATA A-A ATA ATT ACA ATA ATA ATAA ATA ATAA ATA AT-
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT-A ATA ATA
1652905 ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA
1652919 TATATATATA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
2 6 0.13
3 32 0.68
4 9 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1652916 original size:24 final size:25
Alignment explanation
Indices: 1652840--1652913 Score: 80
Period size: 24 Copynumber: 2.9 Consensus size: 25
1652830 AACAAGAACA
*
1652840 AAATAATTAAATAAGAAATATAATAAT
1 AAATAA-TAAATAATAAA-ATAATAAT
*
1652867 AAAT-A-AAATAATTACAATAATAAT
1 AAATAATAAATAA-TAAAATAATAAT
*
1652891 AAATAATAAATAATATAATAATA
1 AAATAATAAATAATAAAATAATA
1652914 TAATATATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
24 18 0.44
25 12 0.29
26 7 0.17
27 4 0.10
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (25 bp):
AAATAATAAATAATAAAATAATAAT
Found at i:1652932 original size:39 final size:40
Alignment explanation
Indices: 1652856--1652957 Score: 97
Period size: 39 Copynumber: 2.6 Consensus size: 40
1652846 TTAAATAAGA
*
1652856 AATATAATAATA-AATAAAATAATTACAATAATAATAAA-T
1 AATA-AATAATATAATAATATAATTACAATAATAATAAATT
*
1652895 AATAAATAATATAATAATATAA-TA-TATATATATATAAATT
1 AATAAATAATATAATAATATAATTACAATA-ATA-ATAAATT
** *
1652935 TTTAAAAAATATAAT-ATATAATT
1 AATAAATAATATAATAATATAATT
1652958 TCCAATTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
37 3 0.06
38 12 0.23
39 24 0.45
40 14 0.26
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (40 bp):
AATAAATAATATAATAATATAATTACAATAATAATAAATT
Found at i:1653121 original size:35 final size:34
Alignment explanation
Indices: 1652933--1653131 Score: 128
Period size: 34 Copynumber: 6.0 Consensus size: 34
1652923 TATATATAAA
* * ** *
1652933 TTTTTAAAAA-ATATAATATATAATTTCCAATTTT
1 TTTTTAAAAATATATTATATA-AATTTTCAAAATG
* * * * *
1652967 TTTTTTAAATTATATAATATATATTTTAAAAATG
1 TTTTTAAAAATATATTATATAAATTTTCAAAATG
* * * *
1653001 --TTTAAAAA-AAATTTTATATA-TTT-AAAATA
1 TTTTTAAAAATATATTATATAAATTTTCAAAATG
* *
1653030 TTTTTAAAAAAATAATAT-TAAATGTTTCAAAATG
1 TTTTTAAAAATATATTATATAAAT-TTTCAAAATG
* *
1653064 TTTTCAAAACTATATATCATATAAATTTTCAAAATG
1 TTTTTAAAA--ATATATTATATAAATTTTCAAAATG
1653100 TTTTTCAAAAATATATTATAT--ATTTTCAAAAT
1 TTTTT-AAAAATATATTATATAAATTTTCAAAAT
1653132 ATATATTATA
Statistics
Matches: 129, Mismatches: 25, Indels: 23
0.73 0.14 0.13
Matches are distributed among these distances:
29 5 0.04
30 3 0.02
31 20 0.16
32 10 0.08
33 14 0.11
34 28 0.22
35 20 0.16
36 20 0.16
37 9 0.07
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (34 bp):
TTTTTAAAAATATATTATATAAATTTTCAAAATG
Found at i:1653125 original size:22 final size:22
Alignment explanation
Indices: 1653101--1653143 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1653091 TTCAAAATGT
1653101 TTTTCAAAA-ATATATTATATA
1 TTTTCAAAATATATATTATATA
1653122 TTTTCAAAATATATATTATATA
1 TTTTCAAAATATATATTATATA
1653144 CATATATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTTCAAAATATATATTATATA
Found at i:1653130 original size:33 final size:33
Alignment explanation
Indices: 1652933--1653131 Score: 140
Period size: 33 Copynumber: 6.0 Consensus size: 33
1652923 TATATATAAA
* * ** *
1652933 TTTTTAAAAAATATAATATATAATTTCCAATTTTT
1 TTTTTAAAAAATATATTATAT-ATTTTCAA-AATG
** * *
1652968 TTTTTAAATTATATAATATATATTTTAAAAATG
1 TTTTTAAAAAATATATTATATATTTTCAAAATG
* * *
1653001 --TTTAAAAAAAATTTTATATA-TTT-AAAATA
1 TTTTTAAAAAATATATTATATATTTTCAAAATG
1653030 TTTTTAAAAAAATAATATTA-A-ATGTTTCAAAATG
1 TTTTT-AAAAAAT-ATATTATATAT-TTTCAAAATG
* * *
1653064 TTTTCAAAACTATATATCATATAAATTTTCAAAATG
1 TTTTTAAAA-AATATAT--TATATATTTTCAAAATG
*
1653100 TTTTTCAAAAATATATTATATATTTTCAAAAT
1 TTTTTAAAAAATATATTATATATTTTCAAAAT
1653132 ATATATTATA
Statistics
Matches: 130, Mismatches: 22, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
29 5 0.04
30 3 0.02
31 19 0.15
32 7 0.05
33 32 0.25
34 17 0.13
35 27 0.21
36 18 0.14
37 2 0.02
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (33 bp):
TTTTTAAAAAATATATTATATATTTTCAAAATG
Found at i:1653161 original size:63 final size:58
Alignment explanation
Indices: 1653064--1653185 Score: 149
Period size: 63 Copynumber: 2.0 Consensus size: 58
1653054 TTTCAAAATG
1653064 TTTTCAAAACTATATATCATATAAATTTTCAAAATGTTTTTCAAA-AATATATTATATA
1 TTTTCAAAACTATATATCATATAAATTTTCAAAATG-TTTTCAAAGAATATATTATATA
* *
1653122 TTTTCAAAA-TATATATTATATACATATATTTCAAAAAAATGTTTTCAAAGACTATATTATATA
1 TTTTCAAAACTATATATCATATA-A-AT-TTTC---AAAATGTTTTCAAAGAATATATTATATA
1653185 T
1 T
1653186 ATTTTTAAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
57 12 0.22
58 10 0.18
59 2 0.04
60 4 0.07
62 8 0.15
63 19 0.35
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.44
Consensus pattern (58 bp):
TTTTCAAAACTATATATCATATAAATTTTCAAAATGTTTTCAAAGAATATATTATATA
Found at i:1657123 original size:2 final size:2
Alignment explanation
Indices: 1657073--1657107 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1657063 CTTATCATTC
1657073 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1657108 CATAAAACAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1657324 original size:70 final size:70
Alignment explanation
Indices: 1657211--1657344 Score: 250
Period size: 70 Copynumber: 1.9 Consensus size: 70
1657201 TGAGAACTTA
1657211 AGGTATGTGAGTACATAGAGGTTGTGCACTAATGATGTCACCACAGCTCGTATAATTCCCACTAG
1 AGGTATGTGAGTACATAGAGGTTGTGCACTAATGATGTCACCACAGCTCGTATAATTCCCACTAG
1657276 GGCAC
66 GGCAC
* *
1657281 AGGTATGTGAGTACATAGAGGTTGTGCACTAATGCTGTCACCACAGCTTGTATAATTCCCACTA
1 AGGTATGTGAGTACATAGAGGTTGTGCACTAATGATGTCACCACAGCTCGTATAATTCCCACTA
1657345 AGGGAACATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (70 bp):
AGGTATGTGAGTACATAGAGGTTGTGCACTAATGATGTCACCACAGCTCGTATAATTCCCACTAG
GGCAC
Found at i:1659268 original size:24 final size:24
Alignment explanation
Indices: 1659241--1659306 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 24
1659231 TAGGAGTATT
1659241 TTGAAAGGGTAGTATCGATACCTG
1 TTGAAAGGGTAGTATCGATACCTG
*
1659265 TTG-AAGAG--GTATCGATA-CTG
1 TTGAAAGGGTAGTATCGATACCTG
* *
1659285 -T-AAGGGGTAGTATCAATACCTG
1 TTGAAAGGGTAGTATCGATACCTG
1659307 AAGAATGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 17 0.50
22 3 0.09
23 4 0.12
24 3 0.09
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.29
Consensus pattern (24 bp):
TTGAAAGGGTAGTATCGATACCTG
Found at i:1659390 original size:53 final size:52
Alignment explanation
Indices: 1659315--1659436 Score: 151
Period size: 53 Copynumber: 2.3 Consensus size: 52
1659305 TGAAGAATGA
1659315 TATCGATACCTTGAAACATCGAATG-TCAGATTGGTATCGGTACC-T-TGAAGAGG
1 TATCGATACCTTG-AACATCGAATGAT-AGATTGGTATCGGTACCATGTG-A-AGG
**
1659368 TATCGATATCCTTGAACATCGAATGATATTTTGGTATCGGTACCATGTGAAGG
1 TATCGATA-CCTTGAACATCGAATGATAGATTGGTATCGGTACCATGTGAAGG
1659421 TATCGATACCCTTGAA
1 TATCGATA-CCTTGAA
1659437 GGGTAGTATC
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
53 52 0.84
54 8 0.13
55 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (52 bp):
TATCGATACCTTGAACATCGAATGATAGATTGGTATCGGTACCATGTGAAGG
Found at i:1663351 original size:21 final size:21
Alignment explanation
Indices: 1663327--1663380 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
1663317 AATAGGTGTA
*
1663327 CCAAAGTACCACATATATGTT
1 CCAAAGGACCACATATATGTT
** *
1663348 CCAAAGGATTACATATATGTC
1 CCAAAGGACCACATATATGTT
*
1663369 CCGAAGGACCAC
1 CCAAAGGACCAC
1663381 GTAGAACCCT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (21 bp):
CCAAAGGACCACATATATGTT
Found at i:1677596 original size:181 final size:181
Alignment explanation
Indices: 1677217--1677699 Score: 439
Period size: 181 Copynumber: 2.7 Consensus size: 181
1677207 TTGAAGGCAT
* * ** * * *
1677217 ATAGTGACAACTTTTGTAACTA-AAAGTTTTAGTAACTATGACAAAAAAAATTGTCACAACAAAT
1 ATAGTAACAAATTTTGTAACTATAAA-TGATAATAATTATTACAAAAAAAATTGTCACAACAAAT
* * **
1677281 AATGAGATTTAGATTTGTTGTGACAAATTTTGTTTGTAATTATATATTTTAATTATAGTGACAAA
65 AATGAGATTTAGATTTGTTGTAAAAAATAATGTTTGTAATTATATATTTTAATTATAGTGACAAA
*
1677346 ATGTATAGTCACAAATGATTATCTCTAATTTTTGGTACAAAAATAAAATCAA
130 ATATATAGTCACAAATGATTATCTCTAATTTTTGGTACAAAAATAAAATCAA
* ** * *
1677398 ATAGTTACATGTTTTGTAACTATAAAAT-ATAATTATTGTTACAAAAAAAATTGTCACAACAAAT
1 ATAGTAACAAATTTTGTAACTAT-AAATGATAATAATTATTACAAAAAAAATTGTCACAACAAAT
** *
1677462 AATGAGATTTA-AGTTT-TTAGTAAAAAAATAATGTTTGTCGTTATATGTTTTAATTATAGTGAC
65 AATGAGATTTAGA-TTTGTT-GT-AAAAAATAATGTTTGTAATTATATATTTTAATTATAGTGAC
** * * * * * *
1677525 -AAATATATTTTCACAAA-GATTTTCCTCCATATTTTT-TTGAGC-CAAA-AAAGTCAT
127 AAAATATATAGTCACAAATGATTAT-CTCTA-ATTTTTGGT-A-CAAAAATAAAATCAA
* * * *
1677579 ATAGTAACAAATTTTGTAACTATAAGTGTTAATAATTATTACAAAAAACATTGTCACAAAAAATA
1 ATAGTAACAAATTTTGTAACTATAAATGATAATAATTATTACAAAAAAAATTGTCACAACAAATA
* * * * * * * *
1677644 ATGATATTCACATTT-TTGTGACAAAAT-ATATTTGTAGTTATAAATTTTAACTATAG
66 ATGAGATTTAGATTTGTTGT-AAAAAATAATGTTTGTAATTATATATTTTAATTATAG
1677700 CATATATTAA
Statistics
Matches: 248, Mismatches: 43, Indels: 24
0.79 0.14 0.08
Matches are distributed among these distances:
179 24 0.10
180 19 0.08
181 155 0.62
182 46 0.19
183 4 0.02
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (181 bp):
ATAGTAACAAATTTTGTAACTATAAATGATAATAATTATTACAAAAAAAATTGTCACAACAAATA
ATGAGATTTAGATTTGTTGTAAAAAATAATGTTTGTAATTATATATTTTAATTATAGTGACAAAA
TATATAGTCACAAATGATTATCTCTAATTTTTGGTACAAAAATAAAATCAA
Found at i:1678036 original size:139 final size:134
Alignment explanation
Indices: 1677815--1678074 Score: 385
Period size: 139 Copynumber: 1.9 Consensus size: 134
1677805 TCACATCAAA
1677815 TAATAAAATTCAATTTTTTTAATAATTTTTTTGTACTTATATATTTTAATCATTATGAAAAATTA
1 TAATAAAATTCAATTTTTTTAATAATTTTTTTGTACTTATATATTTTAATCATTATGAAAAATTA
* * *
1677880 TACTATCATAACCATTTCTCCCTATTTTTTAGTGTCAAAAATGTTATATAGTAACAAAATATATT
66 TACTATCAGAAACATTTCTCCCTATGTTTTAGTG-CAAAAATGTTATATAGTAACAAAATATATT
1677945 ATAAT
130 ATAAT
* *
1677950 TAATAAAATTTAAGTTTTTTGTAATTAATTATTTTTGTAGTTATATATTTTAATCATTATGAAAA
1 TAATAAAATTCAA-TTTTTT-TAA-TAATT-TTTTTGTACTTATATATTTTAATCATTATGAAAA
* * * * *
1678015 CTTATACTATTAGAAATATTTCTCCCTATGTTTTGGTGCAAAAATGTTATATAGTGACAA
62 ATTATACTATCAGAAACATTTCTCCCTATGTTTTAGTGCAAAAATGTTATATAGTAACAA
1678075 GTTTTGTAAC
Statistics
Matches: 111, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
135 12 0.11
136 6 0.05
137 3 0.03
138 26 0.23
139 64 0.58
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.47
Consensus pattern (134 bp):
TAATAAAATTCAATTTTTTTAATAATTTTTTTGTACTTATATATTTTAATCATTATGAAAAATTA
TACTATCAGAAACATTTCTCCCTATGTTTTAGTGCAAAAATGTTATATAGTAACAAAATATATTA
TAAT
Found at i:1678410 original size:23 final size:23
Alignment explanation
Indices: 1678384--1678445 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 23
1678374 TCAAACACAC
*
1678384 AAAAAATAAAATATAAAAATAGT
1 AAAAAATAAAATATAAAAATACT
*
1678407 -AAAAATGAAAAT-T-AAATTACT
1 AAAAAAT-AAAATATAAAAATACT
*
1678428 AAAAAATTGAAATATAAA
1 AAAAAA-TAAAATATAAA
1678446 TATATTGAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
21 6 0.19
22 16 0.52
23 7 0.23
24 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (23 bp):
AAAAAATAAAATATAAAAATACT
Found at i:1681800 original size:21 final size:21
Alignment explanation
Indices: 1681774--1681813 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1681764 TCACAATAAC
1681774 ATATTAAATTTAATAAAAAAT
1 ATATTAAATTTAATAAAAAAT
*
1681795 ATATTAAATTTAATCAAAA
1 ATATTAAATTTAATAAAAA
1681814 CAAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATTAAATTTAATAAAAAAT
Found at i:1691645 original size:16 final size:16
Alignment explanation
Indices: 1691624--1691657 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1691614 AACCAAAAAA
* *
1691624 AAAAGATTTAGAAATT
1 AAAAGATTCAAAAATT
1691640 AAAAGATTCAAAAATT
1 AAAAGATTCAAAAATT
1691656 AA
1 AA
1691658 GAGAGCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.09, T:0.26
Consensus pattern (16 bp):
AAAAGATTCAAAAATT
Found at i:1692999 original size:73 final size:73
Alignment explanation
Indices: 1692909--1693053 Score: 256
Period size: 73 Copynumber: 2.0 Consensus size: 73
1692899 CAATTGACAG
*
1692909 CCCTACTTGCCATAACTATTGTTTCATAA-TGACCGGTTTATGTGCAAGCCAAGCATATTGTGAA
1 CCCTACTTGCCATAACTATTGTTTCATAATTG-CCAGTTTATGTGCAAGCCAAGCATATTGTGAA
*
1692973 GGAGAAAGC
65 GGAAAAAGC
1692982 CCCTACTTGCCATAACTATTGTTTCATAATTGCCAGTTTATGTGCAAGCCAAGCATATTGTGAAG
1 CCCTACTTGCCATAACTATTGTTTCATAATTGCCAGTTTATGTGCAAGCCAAGCATATTGTGAAG
1693047 GAAAAAG
66 GAAAAAG
1693054 TCCTCTTCTG
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
73 67 0.97
74 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (73 bp):
CCCTACTTGCCATAACTATTGTTTCATAATTGCCAGTTTATGTGCAAGCCAAGCATATTGTGAAG
GAAAAAGC
Found at i:1697466 original size:36 final size:36
Alignment explanation
Indices: 1697416--1697504 Score: 144
Period size: 36 Copynumber: 2.5 Consensus size: 36
1697406 CATAAGTGAG
* *
1697416 GAATG-TAACTAAATTCTACTTGAACAGCAGCAGTA
1 GAATGTTAATTAAATTCCACTTGAACAGCAGCAGTA
1697451 GAATGTTAATTAAATTCCACTTGAACAGCAGCAGTA
1 GAATGTTAATTAAATTCCACTTGAACAGCAGCAGTA
*
1697487 GAATGTTGATTAAATTCC
1 GAATGTTAATTAAATTCC
1697505 CAACCGTTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
35 5 0.10
36 45 0.90
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (36 bp):
GAATGTTAATTAAATTCCACTTGAACAGCAGCAGTA
Found at i:1701084 original size:169 final size:169
Alignment explanation
Indices: 1700805--1701138 Score: 463
Period size: 169 Copynumber: 2.0 Consensus size: 169
1700795 TGTTGAGCGA
* * * ** *
1700805 ACGGCGACGAGGAAGCTAAATATGGTGGTGTTGAGGCGAACGGTGATCTGAGGCGGTCGGAATCG
1 ACGGCGACGAGGAAGCTAAATATGGTGGCGATGAGGCGAACGGAGATCCAAGGCGGTCGAAATCG
* * * *
1700870 TCCAAAATCTGAGGTGTCGGGGTGGATTTTCGACGAAACTTCAAGGGCTCGATTCTAGCGAACAA
66 TCCAAAATCCGAGGCGTCGGGGTGGATTTTCGACGAAACTTCAAGGGCTCAATTCCAGCGAACAA
*
1700935 CGACAGA-TATGCACGAATTGTTTTGGGAGCTTTGAGATG
131 CGAC-GACTATCCACGAATTGTTTTGGGAGCTTTGAGATG
* * * * *
1700974 ACGGCGACTAGGAAGCTAACTATGGTTGCGATGAGGGGAACGGAGGTCCAAGGCGGTCGAAATCG
1 ACGGCGACGAGGAAGCTAAATATGGTGGCGATGAGGCGAACGGAGATCCAAGGCGGTCGAAATCG
* * *
1701039 TCCAAAATCCGAGGCGTCGGGGTGGGTTTTCGACGAAAGTTCAAGGGCTCAATTCCAGCGAACAG
66 TCCAAAATCCGAGGCGTCGGGGTGGATTTTCGACGAAACTTCAAGGGCTCAATTCCAGCGAACAA
* *
1701104 CGACGACTATCCATGAATTGTTTTGGGGGCTTTGA
131 CGACGACTATCCACGAATTGTTTTGGGAGCTTTGA
1701139 TCATGGCGGC
Statistics
Matches: 143, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
168 2 0.01
169 141 0.99
ACGTcount: A:0.26, C:0.18, G:0.34, T:0.22
Consensus pattern (169 bp):
ACGGCGACGAGGAAGCTAAATATGGTGGCGATGAGGCGAACGGAGATCCAAGGCGGTCGAAATCG
TCCAAAATCCGAGGCGTCGGGGTGGATTTTCGACGAAACTTCAAGGGCTCAATTCCAGCGAACAA
CGACGACTATCCACGAATTGTTTTGGGAGCTTTGAGATG
Found at i:1703034 original size:21 final size:21
Alignment explanation
Indices: 1703010--1703049 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1703000 TTTTCAAAGG
1703010 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
1703031 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
1703050 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:1703099 original size:19 final size:19
Alignment explanation
Indices: 1703075--1703113 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1703065 TCGAATGCAT
1703075 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
1703094 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
1703113 T
1 T
1703114 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:1703138 original size:64 final size:64
Alignment explanation
Indices: 1703010--1703239 Score: 204
Period size: 64 Copynumber: 3.5 Consensus size: 64
1703000 TTTTCAAAGG
* * *
1703010 CATGCACCGATGCA-TCAATACCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGC
1 CATGCACCGATGCACTC--T-CCATGCATCGATGCACTC-ATGATTTAATTAAAACATCGAATGC
1703073 ATT
62 ATT
1703076 CCATGCACCGATGCACTCTCCATGCATCGATGCACTC-TGATTTAATTAAAACATCGAATGCATT
1 -CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCA-T
1703140 T
64 T
* ** ** * *
1703141 GATGCATTGATGCACAATCCATGCATCGATGCAC-CAAGCTATTT--TTCAAACATCGAATGCAC
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCATG--ATTTAATTAAAACATCGAATGCA-
1703203 TT
63 TT
* * *
1703205 CATGCATCGATGCACTCT-TAGTGCACCGATGCACT
1 CATGCACCGATGCACTCTCCA-TGCATCGATGCACT
1703240 AGGAGTCCAA
Statistics
Matches: 138, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
63 2 0.01
64 96 0.70
65 17 0.12
66 7 0.05
67 14 0.10
68 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCATT
Found at i:1703219 original size:17 final size:19
Alignment explanation
Indices: 1703191--1703239 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1703181 ATTTTTCAAA
1703191 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
1703209 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
1703228 CACCGATGCACT
1 CATCGATGCACT
1703240 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:1714620 original size:20 final size:20
Alignment explanation
Indices: 1714571--1714613 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
1714561 ATAATAATAA
1714571 TATA-TAAA-TTTAATTATT
1 TATACTAAATTTTAATTATT
*
1714589 TCTACTAAATTTTAATTTATT
1 TATACTAAATTTTAA-TTATT
1714610 TATA
1 TATA
1714614 TACATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 3 0.15
19 4 0.20
20 5 0.25
21 8 0.40
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
TATACTAAATTTTAATTATT
Found at i:1715633 original size:20 final size:20
Alignment explanation
Indices: 1715608--1715646 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1715598 TGCACGCAAA
*
1715608 AGGGAATTCACGTGGTGAGC
1 AGGGAATTCACGGGGTGAGC
1715628 AGGGAATTCACGGGGTGAG
1 AGGGAATTCACGGGGTGAG
1715647 TTGATAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.13, G:0.44, T:0.18
Consensus pattern (20 bp):
AGGGAATTCACGGGGTGAGC
Found at i:1715782 original size:31 final size:30
Alignment explanation
Indices: 1715680--1715793 Score: 108
Period size: 31 Copynumber: 3.7 Consensus size: 30
1715670 ATTAAGTAGA
* * *
1715680 GGATGTCTCGGCGTCTTCTTCACTTTGGGT
1 GGATGTCTCGGCGTCTTCTTCACATGGGGG
*
1715710 GGAT-TACTCGGCGTTTTCTT-ACATTTGGGGTG
1 GGATGT-CTCGGCGTCTTCTTCACA--TGGGG-G
* *
1715742 GAATG-CTCGGCGTTTTCTTCACATGGGAGG
1 GGATGTCTCGGCGTCTTCTTCACATGGG-GG
1715772 GGATGTCTCGGCGTCTTCTTCA
1 GGATGTCTCGGCGTCTTCTTCA
1715794 TAATAATGCA
Statistics
Matches: 69, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
29 3 0.04
30 26 0.38
31 34 0.49
32 6 0.09
ACGTcount: A:0.11, C:0.21, G:0.31, T:0.37
Consensus pattern (30 bp):
GGATGTCTCGGCGTCTTCTTCACATGGGGG
Found at i:1718482 original size:20 final size:20
Alignment explanation
Indices: 1718457--1718523 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
1718447 AATATAAATC
1718457 ATTAAAGTCAAGTAATTATT
1 ATTAAAGTCAAGTAATTATT
* * *
1718477 ATTAAA-TC-ATTAAAGGTAATC
1 ATTAAAGTCAAGT-AA--TTATT
*
1718498 ATTAAAGTTAAGTAATTATT
1 ATTAAAGTCAAGTAATTATT
1718518 ATTAAA
1 ATTAAA
1718524 TCATTAAAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
18 2 0.06
19 4 0.11
20 15 0.43
21 9 0.26
22 3 0.09
23 2 0.06
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (20 bp):
ATTAAAGTCAAGTAATTATT
Found at i:1718511 original size:41 final size:42
Alignment explanation
Indices: 1718434--1718543 Score: 159
Period size: 41 Copynumber: 2.6 Consensus size: 42
1718424 ATATTTACTA
* *
1718434 TATTATATCATTAAATATAAATCATTAAAGTCAAGTAATTAT
1 TATTAAATCATTAAAGATAAATCATTAAAGTCAAGTAATTAT
* *
1718476 TATTAAATCATTAAAGGT-AATCATTAAAGTTAAGTAATTAT
1 TATTAAATCATTAAAGATAAATCATTAAAGTCAAGTAATTAT
* *
1718517 TATTAAATCATTAAAGTTAAATAATTA
1 TATTAAATCATTAAAGATAAATCATTA
1718544 TTATTAAATC
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 39 0.64
42 22 0.36
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.40
Consensus pattern (42 bp):
TATTAAATCATTAAAGATAAATCATTAAAGTCAAGTAATTAT
Found at i:1718529 original size:28 final size:28
Alignment explanation
Indices: 1718494--1718718 Score: 162
Period size: 28 Copynumber: 8.5 Consensus size: 28
1718484 CATTAAAGGT
1718494 AATCATTAAAGTTAAGTAATTATTATTA
1 AATCATTAAAGTTAAGTAATTATTATTA
*
1718522 AATCATTAAAGTTAAATAATTATTATTA
1 AATCATTAAAGTTAAGTAATTATTATTA
* *
1718550 AATCATT-AAGTTAATTAAAGTAATTATTA
1 AATCATTAAAGTTAAGT-AA-TTATTATTA
* * * *
1718579 AATCATTAAAATTAAATCATTA-AAGTT-
1 AATCATTAAAGTTAAGTAATTATTA-TTA
* * * **
1718606 AATAATTATTA-TTAA-TCATTAAAATTA
1 AATCATTA-AAGTTAAGTAATTATTATTA
*
1718633 AATCATT--A---AAG-CA--ATTATTA
1 AATCATTAAAGTTAAGTAATTATTATTA
1718653 AATCATTAAAGTTAAGTAATTATTATTA
1 AATCATTAAAGTTAAGTAATTATTATTA
1718681 AATCATT--A---AAGTAATTATTATTA
1 AATCATTAAAGTTAAGTAATTATTATTA
*
1718704 AATCATTAAAATTAA
1 AATCATTAAAGTTAA
1718719 ATCATTAAAG
Statistics
Matches: 162, Mismatches: 14, Indels: 42
0.74 0.06 0.19
Matches are distributed among these distances:
20 12 0.07
22 5 0.03
23 22 0.14
24 1 0.01
25 4 0.02
26 10 0.06
27 28 0.17
28 57 0.35
29 16 0.10
30 7 0.04
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (28 bp):
AATCATTAAAGTTAAGTAATTATTATTA
Found at i:1718584 original size:57 final size:56
Alignment explanation
Indices: 1718494--1718718 Score: 164
Period size: 57 Copynumber: 4.3 Consensus size: 56
1718484 CATTAAAGGT
* *
1718494 AATCATTAAAGTTAAGTAATTATTATTAAATCATTAAAGTTAAATAATTATTATTA
1 AATCATTAAAGTTAAGTAATAATTATTAAATCATTAAAATTAAATAATTATTATTA
* * *
1718550 AATCATT-AAGTTAATTAAAGTAATTATTAAATCATTAAAATTAAATCATTA-AAGTT-
1 AATCATTAAAGTTAAGT-AA-TAATTATTAAATCATTAAAATTAAATAATTATTA-TTA
* * **
1718606 AATAATT--A-TT-A-T--TAATCATTAAA--ATTAAATCATTAAAGCA--ATTATTA
1 AATCATTAAAGTTAAGTAATAATTATTAAATCATTAAA--ATTAAATAATTATTATTA
* *
1718653 AATCATTAAAGTTAAGTAATTATTATTAAATCATT---A--AAGTAATTATTATTA
1 AATCATTAAAGTTAAGTAATAATTATTAAATCATTAAAATTAAATAATTATTATTA
*
1718704 AATCATTAAAATTAA
1 AATCATTAAAGTTAA
1718719 ATCATTAAAG
Statistics
Matches: 135, Mismatches: 16, Indels: 41
0.70 0.08 0.21
Matches are distributed among these distances:
46 9 0.07
47 7 0.05
48 18 0.13
49 4 0.03
50 2 0.01
51 23 0.17
52 2 0.01
53 1 0.01
54 11 0.08
55 9 0.07
56 19 0.14
57 30 0.22
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (56 bp):
AATCATTAAAGTTAAGTAATAATTATTAAATCATTAAAATTAAATAATTATTATTA
Found at i:1718631 original size:40 final size:40
Alignment explanation
Indices: 1718546--1718757 Score: 165
Period size: 40 Copynumber: 5.2 Consensus size: 40
1718536 AATAATTATT
*
1718546 ATTAAATCATT-AAGTTAATTAAAGTAATTATTAAATCATTAAA
1 ATTAAATCATTAAAGTTAA-T-AA-TTATTATT-AATCATTAAA
1718589 ATTAAATCATTAAAGTTAATAATTATTATTAATCATTAAA
1 ATTAAATCATTAAAGTTAATAATTATTATTAATCATTAAA
* * *
1718629 ATTAAATCATTAAAG-CAATTATTAAATCATTAA--AGTTAAGTA
1 ATTAAATCATTAAAGTTAATAATT--ATTATTAATCA-TTAA--A
* *
1718671 ATT--ATTATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
1 ATTAAATCATTAAA--GTT-AA-TAATTATTATT-AATCATTAAA
1718714 ATTAAATCATTAAAG----TAATTATTATTAATCATTAAA
1 ATTAAATCATTAAAGTTAATAATTATTATTAATCATTAAA
*
1718750 GTTAAATC
1 ATTAAATC
1718758 GTAATTGAAA
Statistics
Matches: 141, Mismatches: 12, Indels: 39
0.73 0.06 0.20
Matches are distributed among these distances:
36 17 0.12
37 11 0.08
39 7 0.05
40 37 0.26
41 14 0.10
42 6 0.04
43 21 0.15
44 11 0.08
45 16 0.11
46 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (40 bp):
ATTAAATCATTAAAGTTAATAATTATTATTAATCATTAAA
Found at i:1718632 original size:13 final size:14
Alignment explanation
Indices: 1718435--1718727 Score: 133
Period size: 14 Copynumber: 21.0 Consensus size: 14
1718425 TATTTACTAT
*
1718435 ATTATATCATT-AA
1 ATTAAATCATTAAA
1718448 ATATAAATCATTAAA
1 AT-TAAATCATTAAA
* * * * **
1718463 GTCAAGTAATTATT
1 ATTAAATCATTAAA
1718477 ATTAAATCATTAAA
1 ATTAAATCATTAAA
**
1718491 GGT-AATCATTAAA
1 ATTAAATCATTAAA
* * * **
1718504 GTTAAGTAATTATT
1 ATTAAATCATTAAA
1718518 ATTAAATCATTAAA
1 ATTAAATCATTAAA
* * **
1718532 GTTAAATAATTATT
1 ATTAAATCATTAAA
1718546 ATTAAATCATTAAGTTA
1 ATTAAATCATTAA---A
*
1718563 ATTAAAGTAATT---
1 ATTAAA-TCATTAAA
1718575 ATTAAATCATTAAA
1 ATTAAATCATTAAA
1718589 ATTAAATCATTAAA
1 ATTAAATCATTAAA
* * **
1718603 GTT-AATAATTATT
1 ATTAAATCATTAAA
1718616 ATT-AATCATTAAA
1 ATTAAATCATTAAA
1718629 ATTAAATCATTAAAGCAA
1 ATTAAATCATT--A--AA
1718647 TTATTAAATCATTAAA
1 --ATTAAATCATTAAA
* * * **
1718663 GTTAAGTAATTATT
1 ATTAAATCATTAAA
1718677 ATTAAATCATT-AA
1 ATTAAATCATTAAA
* *
1718690 AGT-AATTATT---
1 ATTAAATCATTAAA
1718700 ATTAAATCATTAAA
1 ATTAAATCATTAAA
1718714 ATTAAATCATTAAA
1 ATTAAATCATTAAA
1718728 GTAATTATTA
Statistics
Matches: 202, Mismatches: 57, Indels: 41
0.67 0.19 0.14
Matches are distributed among these distances:
10 2 0.01
11 10 0.05
12 12 0.06
13 35 0.17
14 113 0.56
15 3 0.01
16 3 0.01
17 6 0.03
18 7 0.03
20 11 0.05
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.40
Consensus pattern (14 bp):
ATTAAATCATTAAA
Found at i:1718657 original size:60 final size:60
Alignment explanation
Indices: 1718588--1718757 Score: 199
Period size: 60 Copynumber: 2.8 Consensus size: 60
1718578 AAATCATTAA
1718588 AATTAAATCATTAAAGTTAATAATTATTATTAATCATTAAAATTAAATCATTAAAGCAATT
1 AATTAAATCATTAAAGTTAATAATTATTATTAATCATTAAAATTAAATCATTAAAGC-ATT
* * *
1718649 -ATTAAATCATTAAAGTTAAGTAATTATTATTAAATCATT-AAAGTAATTATTATTAAATCATT
1 AATTAAATCATTAAAGTTAA-TAATTATTATT-AATCATTAAAATTAA--ATCATTAAAGCATT
*
1718711 AAAATTAAATCATTAAAG----TAATTATTATTAATCATTAAAGTTAAATC
1 --AATTAAATCATTAAAGTTAATAATTATTATTAATCATTAAAATTAAATC
1718758 GTAATTGAAA
Statistics
Matches: 95, Mismatches: 6, Indels: 19
0.79 0.05 0.16
Matches are distributed among these distances:
58 2 0.02
59 7 0.07
60 35 0.37
61 17 0.18
62 10 0.11
63 9 0.09
65 15 0.16
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (60 bp):
AATTAAATCATTAAAGTTAATAATTATTATTAATCATTAAAATTAAATCATTAAAGCATT
Found at i:1718696 original size:23 final size:23
Alignment explanation
Indices: 1718666--1718713 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
1718656 CATTAAAGTT
1718666 AAGTAATTATTATTAAATCATTA
1 AAGTAATTATTATTAAATCATTA
1718689 AAGTAATTATTATTAAATCATTA
1 AAGTAATTATTATTAAATCATTA
1718712 AA
1 AA
1718714 ATTAAATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (23 bp):
AAGTAATTATTATTAAATCATTA
Found at i:1718719 original size:37 final size:36
Alignment explanation
Indices: 1718677--1718757 Score: 144
Period size: 37 Copynumber: 2.2 Consensus size: 36
1718667 AGTAATTATT
1718677 ATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
1 ATTAAATCATTAAAGTAATTATTATT-AATCATTAAA
1718714 ATTAAATCATTAAAGTAATTATTATTAATCATTAAA
1 ATTAAATCATTAAAGTAATTATTATTAATCATTAAA
*
1718750 GTTAAATC
1 ATTAAATC
1718758 GTAATTGAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
36 17 0.40
37 26 0.60
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (36 bp):
ATTAAATCATTAAAGTAATTATTATTAATCATTAAA
Found at i:1718721 original size:85 final size:88
Alignment explanation
Indices: 1718589--1718754 Score: 275
Period size: 85 Copynumber: 1.9 Consensus size: 88
1718579 AATCATTAAA
1718589 ATTAAATCATTAAAGTTAATAATTATTATTAATCATTAAAATTAAATCATTAAAGCAATTATTA-
1 ATTAAATCATTAAAGTTAATAATTATTA-TAATCATTAAAATTAAATCATTAAAGCAATTATTAT
1718653 AATCATTAAAGTTAAGTAATTATT
65 AATCATTAAAGTTAAGTAATTATT
* *
1718677 ATTAAATCATTAAAG-TAATTATTATTA-AATCATTAAAATTAAATCATTAAAGTAATTATTATT
1 ATTAAATCATTAAAGTTAATAATTATTATAATCATTAAAATTAAATCATTAAAGCAATTATTA-T
1718740 AATCATTAAAGTTAA
65 AATCATTAAAGTTAA
1718755 ATCGTAATTG
Statistics
Matches: 74, Mismatches: 2, Indels: 5
0.91 0.02 0.06
Matches are distributed among these distances:
85 33 0.45
87 26 0.35
88 15 0.20
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.41
Consensus pattern (88 bp):
ATTAAATCATTAAAGTTAATAATTATTATAATCATTAAAATTAAATCATTAAAGCAATTATTATA
ATCATTAAAGTTAAGTAATTATT
Found at i:1721949 original size:31 final size:32
Alignment explanation
Indices: 1721899--1721981 Score: 132
Period size: 32 Copynumber: 2.6 Consensus size: 32
1721889 CTGCATGATG
1721899 AGAAGACGACCGAGAACTCCACCCCAAGG-TGA
1 AGAAGACG-CCGAGAACTCCACCCCAAGGCTGA
*
1721931 AGAAGACGCCAAGAACTCCACCCCAAGGCTGA
1 AGAAGACGCCGAGAACTCCACCCCAAGGCTGA
*
1721963 AGAAGACGCCGAGAGCTCC
1 AGAAGACGCCGAGAACTCC
1721982 CATAAACATC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 19 0.40
32 28 0.60
ACGTcount: A:0.36, C:0.33, G:0.25, T:0.06
Consensus pattern (32 bp):
AGAAGACGCCGAGAACTCCACCCCAAGGCTGA
Found at i:1722026 original size:45 final size:46
Alignment explanation
Indices: 1721962--1722068 Score: 180
Period size: 45 Copynumber: 2.3 Consensus size: 46
1721952 CCCAAGGCTG
1721962 AAGAAGACGCCGAGAGCTCCCATAAACATC-TTTGAACGAACATAT
1 AAGAAGACGCCGAGAGCTCCCATAAACATCTTTTGAACGAACATAT
* *
1722007 AAGAAGACGCCGAGAGCTCCCATGAACATCTTTTGAACTAACATAT
1 AAGAAGACGCCGAGAGCTCCCATAAACATCTTTTGAACGAACATAT
1722053 ATAGAAGACGCCGAGA
1 A-AGAAGACGCCGAGA
1722069 TATCCGATAG
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
45 29 0.50
46 15 0.26
47 14 0.24
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (46 bp):
AAGAAGACGCCGAGAGCTCCCATAAACATCTTTTGAACGAACATAT
Found at i:1723532 original size:3 final size:3
Alignment explanation
Indices: 1723519--1723569 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
1723509 TATATCACTA
*
1723519 TAT TA- TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAAT T-T TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT
1723562 TAT TAT TA
1 TAT TAT TA
1723570 CAGGATCCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
2 6 0.14
3 34 0.79
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1728668 original size:150 final size:150
Alignment explanation
Indices: 1728397--1728721 Score: 533
Period size: 150 Copynumber: 2.2 Consensus size: 150
1728387 GAGCAACATA
* * * * *
1728397 ATAAGTCCTTCGAGCCATCCATAAGACCTTTGGGCAGGATGTTTTTACATGTCTATCAAAATATG
1 ATAAGTCCTTCGGGCCATCAATAAGACCTTCGGGCAGGATGTTTTCACATGTCTATCAAAATATA
* *
1728462 AGAAAGGTTTCTCATTCAAATCTTAAATTTGAGATTTTTGAAAAGTAAGAAAGGTTTCTTACCTA
66 AGAAAGATTTCTCATTCAAATCTTAAATTTGAGATTTTTGAAAAATAAGAAAGGTTTCTTACCTA
*
1728527 GTAAAATATTTCCAAATTTT
131 GTAAAATATTTCCAAAATTT
* *
1728547 ATAAGTCCTTTGGGCCATCAATAAGACCTTCGGGCAGGATGTTTTCACATGTCTTTCAAAATATA
1 ATAAGTCCTTCGGGCCATCAATAAGACCTTCGGGCAGGATGTTTTCACATGTCTATCAAAATATA
*
1728612 AGAAAGATTTCTCATTTAAATCTTAAATTTGAGATTTTTGAAAAATAAGAAAGGTTTCTTACCTA
66 AGAAAGATTTCTCATTCAAATCTTAAATTTGAGATTTTTGAAAAATAAGAAAGGTTTCTTACCTA
1728677 GTAAAATATTTCCAAAATTT
131 GTAAAATATTTCCAAAATTT
* *
1728697 ATAAGTCCTTCGGGCTATCAGTAAG
1 ATAAGTCCTTCGGGCCATCAATAAG
1728722 TCTTTCGAGC
Statistics
Matches: 161, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
150 161 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (150 bp):
ATAAGTCCTTCGGGCCATCAATAAGACCTTCGGGCAGGATGTTTTCACATGTCTATCAAAATATA
AGAAAGATTTCTCATTCAAATCTTAAATTTGAGATTTTTGAAAAATAAGAAAGGTTTCTTACCTA
GTAAAATATTTCCAAAATTT
Found at i:1728951 original size:229 final size:232
Alignment explanation
Indices: 1728547--1729290 Score: 1075
Period size: 229 Copynumber: 3.2 Consensus size: 232
1728537 TCCAAATTTT
* * * * * *
1728547 ATAAGTCCTTTGGGCCATCAATAAGACCTTCGGGCAGGATGTTTTCACATGTCTTTCAAAATATA
1 ATAAGTCCTTCGGGCCATCCATAAGACCTT-TGGCAGGATGTTTTCACATGTCTATCGAAATATG
* * * *
1728612 AGAAAGATTTCTCATTTAAATCTTAAATTTGAGATTTTTGAAAAATAAGAAAGGTTTCTTACCTA
65 AGAAATATTTCTCATTTAAATCTGAAATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTA
* * *
1728677 GTAAAATATTTCCAAAATTTATAAGTCCTTCGGGCTATCAGTAAGTCTTTCGAGCATGACGCTTA
130 GTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTA
1728742 AATCCTTCGGGTCATCTGTAAGACTTT-GAGC-AGATG
195 AATCCTTCGGGTCATCTGTAAGACTTTCGAGCAAGATG
* *
1728778 ATAAGTCACTT-GGGCCATCCATAAGACCTTTGGTAGGATGTTTTTACATGTCTATCGAAATATG
1 ATAAGTC-CTTCGGGCCATCCATAAGACCTTTGGCAGGATGTTTTCACATGTCTATCGAAATATG
*
1728842 AG-AATATTTCTCATTTAAGTCTGAAATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTA
65 AGAAATATTTCTCATTTAAATCTGAAATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTA
* * *
1728906 GTAAACTATTTCCAAAATTTATAAGTCCTTCGGTCCATTAGTAAGTCTTTCGAGGATGATGCTTA
130 GTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTA
* * *
1728971 AATCGTTCGGGTCATTTGTAAGCCTTTCGAGCAAGATG
195 AATCCTTCGGGTCATCTGTAAGACTTTCGAGCAAGATG
* ** ** *
1729009 ATAAGTCATTCGGGTTATCCATAAGACCTTTGGACATAATGTTTTCACATGTCTATCGAAATAAG
1 ATAAGTCCTTCGGGCCATCCATAAGACCTTTGG-CAGGATGTTTTCACATGTCTATCGAAATATG
* * * *
1729074 AGAAATGTTTCTCATTTAAATCTGAAATTTGAAATTTCTGAAAAGTAAGAAATGTTTTTTTTACC
65 AGAAATATTTCTCATTTAAATCTGAAATTTGAAATTTTTGAAAAGTAAGAAA-G-GTTTCTTACC
* *
1729139 TAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCC
128 TAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCT
*
1729204 TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATG
193 TAAATCCTTCGGGTCATCTGTAAGACTTTCGAGCAAGATG
1729244 ATTAA-TCCTTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCA
1 A-TAAGTCCTTCGGGCCATCCATAAGACCTTT-GGCAGGATGTTTTCA
1729291 AAGGTCCCTC
Statistics
Matches: 456, Mismatches: 47, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
229 140 0.31
230 36 0.08
231 57 0.12
232 31 0.07
233 46 0.10
234 1 0.00
235 140 0.31
236 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (232 bp):
ATAAGTCCTTCGGGCCATCCATAAGACCTTTGGCAGGATGTTTTCACATGTCTATCGAAATATGA
GAAATATTTCTCATTTAAATCTGAAATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTAG
TAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAA
ATCCTTCGGGTCATCTGTAAGACTTTCGAGCAAGATG
Found at i:1729188 original size:235 final size:233
Alignment explanation
Indices: 1728547--1729290 Score: 1063
Period size: 235 Copynumber: 3.2 Consensus size: 233
1728537 TCCAAATTTT
* * * * * *
1728547 ATAAGTCCTTTGGGCCATCAATAAGACCTTCGGGCAGGATGTTTTCACATGTCTTTCAAAATATA
1 ATAAGTCATTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCGAAATA-A
* * *
1728612 -AGAAA-GATTTCTCATTTAAATCTTAAATTTGAGATTTTTGAAAAATAAGAAAGGTTTCTTACC
65 GAGAAATG-TTTCTCATTTAAATCTGAAATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACC
* * *
1728675 TAGTAAAATATTTCCAAAATTTATAAGTCCTTCGGGCTATCAGTAAGTCTTTCGAGCATGACGCT
129 TAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCT
1728740 TAAATCCTTCGGGTCATCTGTAAGACTTT-GAGC-AGATG
194 TAAATCCTTCGGGTCATCTGTAAGACTTTCGAGCAAGATG
* * *
1728778 ATAAGTCACTT-GGGCCATCCATAAGACCTTT-GGTAGGATGTTTTTACATGTCTATCGAAATAT
1 ATAAGTCA-TTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCGAAATAA
* *
1728841 GAG-AATATTTCTCATTTAAGTCTGAAATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCT
65 GAGAAATGTTTCTCATTTAAATCTGAAATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCT
* * *
1728905 AGTAAACTATTTCCAAAATTTATAAGTCCTTCGGTCCATTAGTAAGTCTTTCGAGGATGATGCTT
130 AGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTT
* * *
1728970 AAATCGTTCGGGTCATTTGTAAGCCTTTCGAGCAAGATG
195 AAATCCTTCGGGTCATCTGTAAGACTTTCGAGCAAGATG
** * **
1729009 ATAAGTCATTCGGGTTATCCATAAGACCTTTGGACATAATGTTTTCACATGTCTATCGAAATAAG
1 ATAAGTCATTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCGAAATAAG
* * *
1729074 AGAAATGTTTCTCATTTAAATCTGAAATTTGAAATTTCTGAAAAGTAAGAAATGTTTTTTTTACC
66 AGAAATGTTTCTCATTTAAATCTGAAATTTGAAATTTTTGAAAAGTAAGAAA-G-GTTTCTTACC
* *
1729139 TAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCC
129 TAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCT
*
1729204 TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATG
194 TAAATCCTTCGGGTCATCTGTAAGACTTTCGAGCAAGATG
*
1729244 ATTAA-TCCTTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCA
1 A-TAAGTCATTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCA
1729291 AAGGTCCCTC
Statistics
Matches: 453, Mismatches: 49, Indels: 18
0.87 0.09 0.03
Matches are distributed among these distances:
229 139 0.31
230 35 0.08
231 56 0.12
232 31 0.07
233 46 0.10
234 1 0.00
235 142 0.31
236 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (233 bp):
ATAAGTCATTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCGAAATAAG
AGAAATGTTTCTCATTTAAATCTGAAATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTA
GTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTA
AATCCTTCGGGTCATCTGTAAGACTTTCGAGCAAGATG
Found at i:1729228 original size:42 final size:41
Alignment explanation
Indices: 1729161--1729268 Score: 135
Period size: 42 Copynumber: 2.6 Consensus size: 41
1729151 TCCAAAATTT
* *
1729161 ATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCAATAAGTCTTTCGAGCAAGATG
* * **
1729202 CCTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAATAAGTCTTTCGAGCAAGATG
* *
1729244 ATTAATCCTTCGGGCCATCCATAAG
1 ATAAATCCTTCGGGCCATCAATAAG
1729269 ACCTTTGGGC
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
41 20 0.36
42 35 0.64
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAATAAGTCTTTCGAGCAAGATG
Found at i:1729533 original size:3 final size:3
Alignment explanation
Indices: 1729525--1729555 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
1729515 TAATATTACC
1729525 ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
1729556 GCACGATCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:1730456 original size:6 final size:6
Alignment explanation
Indices: 1730442--1730480 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
1730432 ATTGTGTTTC
*
1730442 AAAGTA AAAGAA AAAGAA AAA-AA AAAGCAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA AAAGAA AAA
1730481 AAACACTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 5 0.17
6 19 0.63
7 6 0.20
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.03
Consensus pattern (6 bp):
AAAGAA
Found at i:1730475 original size:18 final size:17
Alignment explanation
Indices: 1730447--1730483 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
1730437 GTTTCAAAGT
1730447 AAAAGAAAAAGAAAAAA
1 AAAAGAAAAAGAAAAAA
1730464 AAAAGCAAAAAGAAAAAA
1 AAAAG-AAAAAGAAAAAA
1730482 AA
1 AA
1730484 CACTATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAGAAAAAA
Found at i:1739905 original size:3 final size:3
Alignment explanation
Indices: 1739897--1739939 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
1739887 TCCTACAATT
1739897 ATA ATA AT- ATA AT- ATA ATA A-A ATAA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA
1739940 GTGGTAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 6 0.17
3 27 0.75
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1739914 original size:13 final size:13
Alignment explanation
Indices: 1739896--1739936 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
1739886 ATCCTACAAT
1739896 TATAATAATATAA
1 TATAATAATATAA
*
1739909 TATAATAAAATAA
1 TATAATAATATAA
1739922 -ATAATAATAATAA
1 TATAATAAT-ATAA
1739935 TA
1 TA
1739937 ATAGTGGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 16 0.67
14 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TATAATAATATAA
Found at i:1740469 original size:41 final size:41
Alignment explanation
Indices: 1740413--1740519 Score: 96
Period size: 41 Copynumber: 2.6 Consensus size: 41
1740403 AAATATGCCC
* *
1740413 AAAGGTCTTATAGATGGCCTGAAGGACAT-ATCATCGTGCTCG
1 AAAGG-CTTA-AGATGGCCTGAAGGACATAAGCATCATGCTCG
* *
1740455 AAAGGCTTACAGATGAACC-GAAGGA-TTAAGCATCATGCTCG
1 AAAGGCTTA-AGATG-GCCTGAAGGACATAAGCATCATGCTCG
* *
1740496 AAAGACTT-TGATGGCCTGAAGGAC
1 AAAGGCTTAAGATGGCCTGAAGGAC
1740520 TTATAAATTG
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
38 2 0.04
39 10 0.19
40 1 0.02
41 33 0.62
42 7 0.13
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (41 bp):
AAAGGCTTAAGATGGCCTGAAGGACATAAGCATCATGCTCG
Found at i:1740786 original size:221 final size:226
Alignment explanation
Indices: 1740165--1741496 Score: 1592
Period size: 221 Copynumber: 5.9 Consensus size: 226
1740155 GAGGGACCTT
* *
1740165 TGAAAACATCCTGCCCAAAGGTCTTATGGATGGCTCGAAGGACTTATCATCTTGCTAGAAAGACT
1 TGAAAACATCCTGCCC-AAGG-CTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAA-ACT
* * *
1740230 TACAGATGACCAGAAGGATTTAGGCATTATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAT
63 TACAGATGACCCGAAGGA-TTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAT
* * * *
1740295 AAATTTTTGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAAATTTCAGA
127 AAATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTC-AAAATCTCAAATTTAAGA
1740360 TTTAAATGAGAAACCTTTCTCATATTTCGATAGACATG
191 TTTAAATGAGAAACCTTTCTCATATTTC-ATAGA-ATG
* * * * * * *
1740398 TGAAAAAAT-ATGCCCAAAGGTCTTATAGATGGCCTGAAGGACATATCATCGTGCTCGAAAGGCT
1 TGAAAACATCCTGCCC-AAGG-CTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAA-ACT
* *
1740462 TACAGATGAACCGAAGGATTAAGCATCATGCTCGAAAGACTT--TGATGGCCTGAAGGACTTATA
63 TACAGATGACCCGAAGGATTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATA
* * **
1740525 AA--TTGGAAATA-GTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAAT-TCAAATTTCATTT
128 AATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTC-AAAATCTCAAATTTAAGAT
* *
1740586 TTCAATGA-AAATCTTTCTCATATTTCATAG-ATG
192 TTAAATGAGAAACCTTTCTCATATTTCATAGAATG
* * * * *
1740619 TG-AAACATCCTACCCGAGG-TTATGGATGGCTCAAAGGACTTATCATCTTACTC-AAAATCTTA
1 TGAAAACATCCTGCCCAAGGCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAA-CTTA
* * * * * * *
1740681 CAGATAACCCGAATGATTTAATCATCATGCTC-TAAGACTTAATTATGGCCCGAATGACTTATAA
65 CAGATGACCCGAAGGA-TTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
*
1740745 ATTTTAGAAATA-TTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATCTCAAA-TTAAGATT
129 ATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTC-AAAATCTCAAATTTAAGATT
* * *
1740808 TAAATGAGAAATCTTTCTCATATTTAAATAAACATG
193 TAAATGAGAAACCTTTCTCATATTT-CATAGA-ATG
* * *
1740844 TG--AACATCTTGCCCGAAGG--TATGGACGGCCCAAAGGAC-T-T-ATCTTGCTC-AAAAGTCT
1 TGAAAACATCCTGCCC-AAGGCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAA--CT
* *
1740901 TACAGATGACCCGAAGGATTAAGCGTCATGCTCGAAAGACTTACTGATGGCCCGAAGGAATTATA
63 TACAGATGACCCGAAGGATTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATA
*
1740966 AA-TTTGGAAA-ATTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAATATCAAA-TTAAGATT
128 AATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAATCTCAAATTTAAGATT
*
1741028 TAAATGAG-AACCTTTCTCATATTTGATAGACATG
193 TAAATGAGAAACCTTTCTCATATTTCATAGA-ATG
*
1741062 TGAAAATATCCTGCCCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACT
1 TGAAAACATCCTGCCC-AAGG-CTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAA-ACT
*
1741127 TACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTAT
63 TACAGATGACCCGAAGGA-TTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAT
*
1741192 AAATTTT-GAAATA-TTTACTAGGGAAGAAACCTTTCTTACTTTTCAAAATCTCAAATTTAAGAT
127 AAATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAATCTCAAATTTAAGAT
*
1741255 TT-AATGAGAAACCTTTCTCATATTTTGATAGACATG
192 TTAAATGAGAAACCTTTCTCATA-TTTCATAGA-ATG
* * * * *
1741291 TGAAAACATCCTGTCCAAAGGTCTTATGAATAGCCCGAATGACTTATCATCTTGATCGAAAGACT
1 TGAAAACATCCTG-CCCAAGG-CTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAA-ACT
* *
1741356 TAAAGATGACCC-AAGGATT-A--ATCATGCTCGAAAGACTTACTGATGG-CCGAATGACTTAT-
63 TACAGATGACCCGAAGGATTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATA
1741415 AATTTTGGAAATATTTTACTAGGTAAG-AACCTTTCTTAC--TTCAAAATCTCAAATTTAAGATT
128 AATTTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAATCTCAAATTTAAGATT
*
1741477 TCAATGAGAAA-CTTTCTCAT
193 TAAATGAGAAACCTTTCTCAT
1741497 TTCATTTTTA
Statistics
Matches: 976, Mismatches: 87, Indels: 84
0.85 0.08 0.07
Matches are distributed among these distances:
217 27 0.03
218 51 0.05
219 35 0.04
220 49 0.05
221 160 0.16
222 85 0.09
223 55 0.06
224 83 0.09
225 27 0.03
226 66 0.07
227 109 0.11
228 32 0.03
229 102 0.10
230 2 0.00
231 22 0.02
232 63 0.06
233 8 0.01
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.31
Consensus pattern (226 bp):
TGAAAACATCCTGCCCAAGGCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAACTTAC
AGATGACCCGAAGGATTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAAT
TTTGGAAATATTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAATCTCAAATTTAAGATTTAA
ATGAGAAACCTTTCTCATATTTCATAGAATG
Found at i:1741164 original size:42 final size:41
Alignment explanation
Indices: 1741090--1741190 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 41
1741080 AGGTCTTATG
* *
1741090 GATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACA
1 GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
* * *
1741131 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACT
1 GATGGCCCGAAGGACTT-AGCATCATGCTCGAAAGACTTACA
*
1741173 GATGGCCCGAAAGACTTA
1 GATGGCCCGAAGGACTTA
1741191 TAAATTTTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 16 0.31
42 35 0.69
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
Found at i:1741237 original size:448 final size:451
Alignment explanation
Indices: 1740165--1741496 Score: 1766
Period size: 448 Copynumber: 3.0 Consensus size: 451
1740155 GAGGGACCTT
*
1740165 TGAAAACATCCTGCCCAAAGGTCTTATGGATGGCTCGAAGGACTTATCATCTTGCTAGAAAGACT
1 TGAAAACATCCTGCCCAAAGGTCTTATGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACT
* * * *
1740230 TACAGATGACCAGAAGGATTTAGGCATTATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAT
66 TACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTAT
* *
1740295 AAATTTTTGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATTTCAAATTTCAGA
131 AAA-TTTTGAAATA-TTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATCTCAAATTTAAGA
* * ** *
1740360 TTTAAATGAGAAACCTTTCTCATATTTCGATAGACATGTGAAAAAATATGCCCAAAGGTCTTATA
194 TTTAAATGAGAAACCTTTCTCATATTTAGATAGACATGTGAACATCT-TGCCCAAAGG--TTATG
* * * *
1740425 GATGGCCTGAAGGACATATCATCGTGCTCGAAAGGCTTACAGATGAACCGAAGGATTAAGCATCA
256 GATGGCCCGAAGGACATATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTAAGC-TCA
* *
1740490 TGCTCGAAAGACTT--TGATGGCCTGAAGGACTTATAAA-TTGG-AAATAGTTACTAGGTAAGAA
320 TGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTTGGAAAAT-TTTACTAGGTAAGAA
* **
1740551 ACCTTTCTTACTTTTCAAAA-ATTCAAATTTCATTTTTCAATGA-AAATCTTTCTCATATTTCAT
384 ACCTTTCTTACTTTTCAAAATA-TCAAATTTAAGATTTCAATGAGAAA-CTTTCTCATATTTCAT
1740614 AGATG
447 AGATG
* * * *
1740619 TG-AAACATCCTACCC-GAGG--TTATGGATGGCTCAAAGGACTTATCATCTTACTC-AAA-ATC
1 TGAAAACATCCTGCCCAAAGGTCTTATGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGA-C
* * * * * * *
1740678 TTACAGATAACCCGAATGATTTAATCATCATGCTC-TAAGACTTAATTATGGCCCGAATGACTTA
65 TTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTA
1740742 TAAATTTTAGAAATATTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATCTCAAA-TTAAGA
130 TAAATTTT-GAAATATTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATCTCAAATTTAAGA
* * * * *
1740806 TTTAAATGAGAAATCTTTCTCATATTTAAATAAACATGTGAACATCTTGCCCGAAGG-TATGGAC
194 TTTAAATGAGAAACCTTTCTCATATTTAGATAGACATGTGAACATCTTGCCCAAAGGTTATGGAT
* * *
1740870 GGCCCAAAGGAC-T-T-ATCTTGCTCAAAAGTCTTACAGATGACCCGAAGGATTAAGCGTCATGC
259 GGCCCGAAGGACATATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTAAGC-TCATGC
*
1740932 TCGAAAGACTTACTGATGGCCCGAAGGAATTATAAATTTGGAAAATTTTACTAGGTAAGAAACCT
323 TCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTTGGAAAATTTTACTAGGTAAGAAACCT
* * *
1740997 TTCTTACTTTTCAAAATATCAAA-TTAAGATTTAAATGAGAACCTTTCTCATATTTGATAGACAT
388 TTCTTACTTTTCAAAATATCAAATTTAAGATTTCAATGAGAAACTTTCTCATATTTCATAG--AT
1741061 G
451 G
* *
1741062 TGAAAATATCCTGCCCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACT
1 TGAAAACATCCTGCCCAAAGGTCTTATGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACT
1741127 TACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTAT
66 TACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTAT
*
1741192 AAATTTTGAAATATTTACTAGGGAAGAAACCTTTCTTACTTTTC-AAAATCTCAAATTTAAGATT
131 AAATTTTGAAATATTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATCTCAAATTTAAGATT
* * * *
1741256 T-AATGAGAAACCTTTCTCATATTTTGATAGACATGTGAAAACATCCTGTCCAAAGGTCTTATGA
196 TAAATGAGAAACCTTTCTCATATTTAGATAGACATGTG--AACATCTTGCCCAAAGG--TTATGG
* * * * *
1741320 ATAGCCCGAATGACTTATCATCTTGATCGAAAGACTTAAAGATGACCC-AAGGATTAA--TCATG
257 ATGGCCCGAAGGACATATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTAAGCTCATG
* *
1741382 CTCGAAAGACTTACTGATGG-CCGAATGACTTATAATTTTGGAAATATTTTACTAGGTAAG-AAC
322 CTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTTGGAAA-ATTTTACTAGGTAAGAAAC
*
1741445 CTTTCTTAC--TTCAAAATCTCAAATTTAAGATTTCAATGAGAAACTTTCTCAT
386 CTTTCTTACTTTTCAAAATATCAAATTTAAGATTTCAATGAGAAACTTTCTCAT
1741497 TTCATTTTTA
Statistics
Matches: 771, Mismatches: 79, Indels: 61
0.85 0.09 0.07
Matches are distributed among these distances:
439 54 0.07
440 1 0.00
441 50 0.06
442 60 0.08
443 10 0.01
444 11 0.01
445 12 0.02
446 45 0.06
447 120 0.16
448 130 0.17
449 107 0.14
450 64 0.08
451 40 0.05
452 17 0.02
453 13 0.02
454 12 0.02
455 25 0.03
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.31
Consensus pattern (451 bp):
TGAAAACATCCTGCCCAAAGGTCTTATGGATGGCTCGAAGGACTTATCATCTTGCTCGAAAGACT
TACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTAT
AAATTTTGAAATATTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAAATCTCAAATTTAAGATT
TAAATGAGAAACCTTTCTCATATTTAGATAGACATGTGAACATCTTGCCCAAAGGTTATGGATGG
CCCGAAGGACATATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTAAGCTCATGCTCG
AAAGACTTACTGATGGCCCGAAGGACTTATAAATTTGGAAAATTTTACTAGGTAAGAAACCTTTC
TTACTTTTCAAAATATCAAATTTAAGATTTCAATGAGAAACTTTCTCATATTTCATAGATG
Found at i:1746772 original size:8 final size:9
Alignment explanation
Indices: 1746748--1746776 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1746738 TGGACATTTG
1746748 CTCCCTTAT
1 CTCCCTTAT
1746757 CTCCCTTAT
1 CTCCCTTAT
1746766 C-CCCTTAT
1 CTCCCTTAT
1746774 CTC
1 CTC
1746777 ATTTCTCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.10, C:0.48, G:0.00, T:0.41
Consensus pattern (9 bp):
CTCCCTTAT
Found at i:1747491 original size:55 final size:55
Alignment explanation
Indices: 1747419--1747522 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 55
1747409 TTAAAAGAAG
* *
1747419 TCTTCAATCAGGTTCAAATTTCTTGATTCATCAGATGTCCTTCTTCATGGATCGT
1 TCTTCAATCAGGTTCAAATTTCTTGATTCAACAGATATCCTTCTTCATGGATCGT
* * *
1747474 TCTTTAATCAGTTTCAAATTTCTTGATTCAACATATATCCTTCTTCATG
1 TCTTCAATCAGGTTCAAATTTCTTGATTCAACAGATATCCTTCTTCATG
1747523 AATCATTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.44
Consensus pattern (55 bp):
TCTTCAATCAGGTTCAAATTTCTTGATTCAACAGATATCCTTCTTCATGGATCGT
Found at i:1747814 original size:17 final size:17
Alignment explanation
Indices: 1747792--1747832 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
1747782 TTAGTAAATC
1747792 CTACCCAAACAGGATTT
1 CTACCCAAACAGGATTT
*
1747809 CTACCCAAACATGATTT
1 CTACCCAAACAGGATTT
*
1747826 ATACCCA
1 CTACCCA
1747833 TATGCTTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.37, C:0.32, G:0.07, T:0.24
Consensus pattern (17 bp):
CTACCCAAACAGGATTT
Found at i:1751001 original size:3 final size:3
Alignment explanation
Indices: 1750993--1751075 Score: 157
Period size: 3 Copynumber: 27.7 Consensus size: 3
1750983 TTGGATCCTG
*
1750993 TAA TAA TAA TAA CAA 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
1751041 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1751076 GTGGTAATAT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1753888 original size:8 final size:8
Alignment explanation
Indices: 1753877--1753904 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1753867 ATAAATTTTA
1753877 AAATAATT
1 AAATAATT
1753885 AAATAATT
1 AAATAATT
1753893 AAATAATT
1 AAATAATT
1753901 AAAT
1 AAAT
1753905 GACTAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AAATAATT
Found at i:1753911 original size:16 final size:16
Alignment explanation
Indices: 1753877--1753913 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1753867 ATAAATTTTA
*
1753877 AAATAATTAAATAATT
1 AAATAATTAAATAACT
*
1753893 AAATAATTAAATGACT
1 AAATAATTAAATAACT
1753909 AAATA
1 AAATA
1753914 TATGATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (16 bp):
AAATAATTAAATAACT
Found at i:1754908 original size:3 final size:3
Alignment explanation
Indices: 1754894--1754951 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
1754884 CCATTCGTTT
*
1754894 TTA TTA TT- TTA TTA TTA TT- TTAA TTA TAA TTA TTA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TT-A
1754939 TT- TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA
1754952 CAAGCCCAGT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
2 8 0.17
3 34 0.72
4 5 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1756485 original size:13 final size:13
Alignment explanation
Indices: 1756456--1756496 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
1756446 AATAAATATA
1756456 TTTA-TTTATTA-
1 TTTATTTTATTAT
1756467 TTTATTTTATTAT
1 TTTATTTTATTAT
*
1756480 TTTATTTTATTTT
1 TTTATTTTATTAT
1756493 TTTA
1 TTTA
1756497 AATCCTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 4 0.15
12 7 0.26
13 16 0.59
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:1756655 original size:143 final size:142
Alignment explanation
Indices: 1756520--1756786 Score: 356
Period size: 142 Copynumber: 1.8 Consensus size: 142
1756510 AATTTAATTT
*
1756520 TATAAATTATTTTTAAGAAAAATAATTATATTTAGATATATATTTATTTTTTAATATTAAGAAAT
1 TATAAATTA-TTTT-AGAAAAAT-ATTATA-TTA-ATATATATTTA-TTTTTAATATTAAGAAAA
* * * *
1756585 G-GCAGTCTTAAAGCAACTAGATGTCCATTTTCTTATATTTTTAAATAAATAAATATCTTACTTT
60 GAGCAGTCTTAAAGCAACTAGAAGTCC-TTTTATGATATTTCTAAATAAATAAATATCTTACTTT
1756649 TATAAATTATATATATATA
124 TATAAATTATATATATATA
* * * * *
1756668 TATTAATTATTTTAGATAAATATTTTATTAATATTTATTTATTTTTAATATTAAGAAAAGAGCTG
1 TATAAATTATTTTAGAAAAATATTATATTAATATATATTTATTTTTAATATTAAGAAAAGAGCAG
* *
1756733 TTTTAAAGCACCTAGAAGTCCTTTTATGATATTTCTAAATAAATAAATATCTTA
66 TCTTAAAGCAACTAGAAGTCCTTTTATGATATTTCTAAATAAATAAATATCTTA
1756787 TTTATTTATA
Statistics
Matches: 106, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
142 48 0.45
143 31 0.29
144 3 0.03
145 5 0.05
146 7 0.07
147 4 0.04
148 8 0.08
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (142 bp):
TATAAATTATTTTAGAAAAATATTATATTAATATATATTTATTTTTAATATTAAGAAAAGAGCAG
TCTTAAAGCAACTAGAAGTCCTTTTATGATATTTCTAAATAAATAAATATCTTACTTTTATAAAT
TATATATATATA
Found at i:1758647 original size:30 final size:30
Alignment explanation
Indices: 1758613--1758676 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
1758603 AGAGAATGTC
*
1758613 ATGGAAGAAGCTGCAGTCCAGACAAGTAAT
1 ATGGAAGAAGCTGCAGTCCAGACAAGCAAT
*
1758643 ATGGAAGAAGCTGCAGTCCATACAAGCAAT
1 ATGGAAGAAGCTGCAGTCCAGACAAGCAAT
1758673 ATGG
1 ATGG
1758677 CCCATAAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (30 bp):
ATGGAAGAAGCTGCAGTCCAGACAAGCAAT
Found at i:1763977 original size:75 final size:75
Alignment explanation
Indices: 1763827--1763980 Score: 193
Period size: 75 Copynumber: 2.1 Consensus size: 75
1763817 TGGTGGGGCA
* *
1763827 AATGATGGGGCATGCTGAAAGCCCATTTCAATCATAATCAGGAATATTGACACATTTTGAATATT
1 AATGATGGGGCATGCTAAAAGCCCATTTCAATCAGAATCAGGAATATTGACACATTTTGAATATT
** *
1763892 TGTATTAGCC
66 CATATCAGCC
* * *** *
1763902 AATGCTGGGGCATGCTAAAATCTCC-TTTCAATCAGAATCAGGAATATTGATGTATTTTGAATGT
1 AATGATGGGGCATGCTAAAAGC-CCATTTCAATCAGAATCAGGAATATTGACACATTTTGAATAT
1763966 TCATATCAGCC
65 TCATATCAGCC
1763977 AATG
1 AATG
1763981 TTGAGACATG
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
75 65 0.97
76 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (75 bp):
AATGATGGGGCATGCTAAAAGCCCATTTCAATCAGAATCAGGAATATTGACACATTTTGAATATT
CATATCAGCC
Found at i:1766186 original size:76 final size:75
Alignment explanation
Indices: 1766060--1766259 Score: 278
Period size: 76 Copynumber: 2.7 Consensus size: 75
1766050 TTACAATGCA
* ** * *
1766060 TGATGTTTTTAAAGCCTCTGGTTCATCCATAAGCCCTACAGTGCATGATGTTTTCAAGAAGCCTT
1 TGATGTTTTTAAAGCCTC-GGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
1766125 CAGGAGCTTTT
65 CAGGAGCTTTT
1766136 TGATGTTTTTAAAGCCTACGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
1 TGATGTTTTTAAAGCCT-CGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
*
1766201 CGGGAGCTTTT
65 CAGGAGCTTTT
* * *
1766212 TGA--TATTTAAAGCCTCCGGGTCATCTGTAAGACCTATAGTGCAAGATG
1 TGATGTTTTTAAAGCCT-CGGGTCATCTGTAAGACCTACAGTGCATGATG
1766260 ATAAGACCTC
Statistics
Matches: 113, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
74 41 0.36
76 71 0.63
77 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (75 bp):
TGATGTTTTTAAAGCCTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTC
AGGAGCTTTT
Found at i:1766512 original size:111 final size:115
Alignment explanation
Indices: 1766304--1766716 Score: 419
Period size: 122 Copynumber: 3.5 Consensus size: 115
1766294 CAGAATGTTT
* * *
1766304 TCAATATTTTCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA-AAGTTCATAA
1 TCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAA
* * * *
1766368 TGAGAAGAACTTGTTCAAGATTTTGCTTGAATTC-ATCAC-TCGAT-GGA
66 TGAGAAGAACTTGTTCAACATTTTGCTTCAATTCTATCACATAGATAGCA
* * *
1766415 TCAGCATTTCCAGAAGAGTTAATAATGAGAAGAACTCATCTAAAGAAAGAAGAAGAAGTTCATAA
1 TCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAA
*
1766480 TGAGAAGAACTTGTTCAACTTTTTGC-TCAATTCTATCACAGAAGGAGATAGATCAGCA
66 TGAGAAGAACTTGTTCAACATTTTGCTTCAATTCTATCAC--------ATAGAT-AGCA
*
1766538 TCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAG-AAGAAGAAGAAGTTAATAA
1 TCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAA
* * * * * *
1766602 TGAGAAGAACTTGTTCAACCTTTTACAT-GACTCTATCACAGAAGGAGATAGATCAATA
66 TGAGAAGAACTTGTTCAACATTTTGCTTCAATTCTATCAC---A-TAGATAG--C---A
* * *
1766660 TCAATATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAG-AAGGAGAAGAAG
1 TCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAG
1766717 GAGAAAAAGT
Statistics
Matches: 256, Mismatches: 26, Indels: 29
0.82 0.08 0.09
Matches are distributed among these distances:
111 54 0.21
112 39 0.15
117 3 0.01
118 4 0.02
119 1 0.00
121 4 0.02
122 106 0.41
123 45 0.18
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (115 bp):
TCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACATTTTGCTTCAATTCTATCACATAGATAGCA
Found at i:1766641 original size:122 final size:122
Alignment explanation
Indices: 1766414--1766716 Score: 464
Period size: 122 Copynumber: 2.5 Consensus size: 122
1766404 CACTCGATGG
* * * *
1766414 ATCAGCATTTCCAGAAGAGTTAATAATGAGAAGAACTCATCTAAAGAAAGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAG-AAGAAGAAGAAGTTAATA
* * * *
1766479 ATGAGAAGAACTTGTTCAACTTTTTGCTCAATTCTATCACAGAAGGAGATAGATCAGC
65 ATGAGAAGAACTTGTTCAACCTTTTACTCAACTCTATCACAGAAGGAGATAGATCAAC
1766537 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTAATAA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTAATAA
* *
1766602 TGAGAAGAACTTGTTCAACCTTTTACAT-GACTCTATCACAGAAGGAGATAGATCAAT
66 TGAGAAGAACTTGTTCAACCTTTTAC-TCAACTCTATCACAGAAGGAGATAGATCAAC
* * *
1766659 ATCAATATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAG
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAG
1766717 GAGAAAAAGT
Statistics
Matches: 166, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
122 122 0.73
123 44 0.27
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.24
Consensus pattern (122 bp):
ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTAATAA
TGAGAAGAACTTGTTCAACCTTTTACTCAACTCTATCACAGAAGGAGATAGATCAAC
Found at i:1767113 original size:3 final size:3
Alignment explanation
Indices: 1767099--1767173 Score: 93
Period size: 3 Copynumber: 25.3 Consensus size: 3
1767089 CCATTCATTT
*
1767099 TTA TTA TT- TTA TTA TTA TT- TTAA TTA TTA TTA TTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
*
1767143 TTA GTA TTA TTA TTA TTA TTAA TT- TTA TTA T
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA T
1767174 ATGACATGCC
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
2 6 0.10
3 52 0.83
4 5 0.08
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1768979 original size:137 final size:138
Alignment explanation
Indices: 1768727--1768979 Score: 325
Period size: 137 Copynumber: 1.8 Consensus size: 138
1768717 ATTATATTTA
* * * * * *
1768727 AATATATATTTATTTTTCAATATTAAGAAAGGGCAGTCTTAAAGTAGCTGGATGTCCATTTTCTG
1 AATATATATTTATTTTTCAATATTAAAAAAGAGCAGTCTTAAAGCACCTAGAAGTCCATTTTCTG
* ***
1768792 ATATTTTTAAATAAATAAATATCTTTTTATAAATTATATATATTTTTTAATTATTTTAGATAAAT
66 ATATTTCTAAATAAATAAATATCTTTTTATAAATTATATATATAAATTAATTATTTTAGATAAAT
1768857 GTTTTATT
131 GTTTTATT
* * *
1768865 AATATTTATTTATTTTT-AATATTAAAAAAAGAGCTGTCTTAAAGCACCTAGAAG-CTC-TTTTT
1 AATATATATTTATTTTTCAATATT-AAAAAAGAGCAGTCTTAAAGCACCTAGAAGTC-CATTTTC
*
1768927 TGATATTTCTAAATAAATAAATATCTTATTTATATA-TATATATATAAATTAAT
64 TGATATTTCTAAATAAATAAATATCTT-TTTATAAATTATATATATAAATTAAT
1768980 AGATTTTCTT
Statistics
Matches: 98, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
137 51 0.52
138 47 0.48
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.47
Consensus pattern (138 bp):
AATATATATTTATTTTTCAATATTAAAAAAGAGCAGTCTTAAAGCACCTAGAAGTCCATTTTCTG
ATATTTCTAAATAAATAAATATCTTTTTATAAATTATATATATAAATTAATTATTTTAGATAAAT
GTTTTATT
Found at i:1781437 original size:15 final size:15
Alignment explanation
Indices: 1781419--1781449 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1781409 GATCAATACC
1781419 TTTGCATACATGCAT
1 TTTGCATACATGCAT
*
1781434 TTTGCATACATTCAT
1 TTTGCATACATGCAT
1781449 T
1 T
1781450 ATTCATTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (15 bp):
TTTGCATACATGCAT
Found at i:1788788 original size:20 final size:20
Alignment explanation
Indices: 1788765--1788803 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1788755 TATGCTTGAA
1788765 GAAAAAATGAAATGAAAGAT
1 GAAAAAATGAAATGAAAGAT
1788785 GAAAAAATGAAATGAAAGA
1 GAAAAAATGAAATGAAAGA
1788804 AAAAGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.13
Consensus pattern (20 bp):
GAAAAAATGAAATGAAAGAT
Found at i:1788797 original size:25 final size:23
Alignment explanation
Indices: 1788763--1788814 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 23
1788753 ATTATGCTTG
1788763 AAGAAAAAATGAAATGAAAG---
1 AAGAAAAAATGAAATGAAAGAAA
*
1788783 ATGAAAAAATGAAATGAAAGAAA
1 AAGAAAAAATGAAATGAAAGAAA
1788806 AAGAAAAAA
1 AAGAAAAAA
1788815 AAAAGGTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 19 0.70
23 8 0.30
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (23 bp):
AAGAAAAAATGAAATGAAAGAAA
Found at i:1790527 original size:113 final size:113
Alignment explanation
Indices: 1790329--1790759 Score: 652
Period size: 113 Copynumber: 3.8 Consensus size: 113
1790319 TAGCAAAGAT
* *
1790329 TCAAATCCATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1790394 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGTTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGTTTGTTCAACCTTTTGC
*
1790442 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
1790507 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGTTTGTTCAACCTTTTGC
* *
1790555 TC-AATCCATCACTTGATGGATCA-CATTTCAAGAGAAAGTTTATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* * *
1790618 AGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGT
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGTTTGTTCAACCTTTTGC
** * * * * *** *
1790666 TTGAATTCATCATTTGATGGATCAACATTGCCAGA-AGTCTTCATAATGAGAATAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
1790730 AGAAGGAATAGGAAGTTCATAATGAGAAGA
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGA
1790760 ACTCATCTGA
Statistics
Matches: 294, Mismatches: 22, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
111 82 0.28
112 91 0.31
113 121 0.41
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (113 bp):
TCAAATCCATCACTTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAGTTTGTTCAACCTTTTGC
Found at i:1791049 original size:22 final size:23
Alignment explanation
Indices: 1791013--1791057 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
1791003 TTTTTTTTCA
*
1791013 TTTGTTTTATTTATTATTATTAT
1 TTTGTTTTATATATTATTATTAT
1791036 TTTGTTTTA-ATATTATTATTAT
1 TTTGTTTTATATATTATTATTAT
1791058 ATTATATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (23 bp):
TTTGTTTTATATATTATTATTAT
Found at i:1791068 original size:19 final size:19
Alignment explanation
Indices: 1791020--1791094 Score: 64
Period size: 19 Copynumber: 4.0 Consensus size: 19
1791010 TCATTTGTTT
*
1791020 TATT-TATTATTATTATTT
1 TATTATATTATTATTATTA
* * *
1791038 TGTTTTAATATTATTATTA
1 TATTATATTATTATTATTA
*
1791057 TATTATATTATTATTAAATA
1 TATTATATTATTATT-ATTA
* *
1791077 AATAAT-TTATTATTATTA
1 TATTATATTATTATTATTA
1791095 CAGGCCCAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
18 6 0.13
19 32 0.71
20 7 0.16
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (19 bp):
TATTATATTATTATTATTA
Found at i:1791071 original size:22 final size:22
Alignment explanation
Indices: 1791023--1791072 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
1791013 TTTGTTTTAT
* * *
1791023 TTATTATTATTATTTTGTTTTA
1 TTATTATTATTATATTATATTA
*
1791045 ATATTATTATTATATTATATTA
1 TTATTATTATTATATTATATTA
1791067 TTATTA
1 TTATTA
1791073 AATAAATAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
TTATTATTATTATATTATATTA
Found at i:1791092 original size:3 final size:3
Alignment explanation
Indices: 1791023--1791072 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
1791013 TTTGTTTTAT
* *
1791023 TTA TTA TTA TTA TT- TTG TT- TTA ATA TTA TTA TTA -TA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1791067 TTA TTA
1 TTA TTA
1791073 AATAAATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 8 0.20
3 33 0.80
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1810793 original size:10 final size:10
Alignment explanation
Indices: 1810780--1810809 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1810770 TAAAAAAATC
*
1810780 AAAAATTTTG
1 AAAAATCTTG
1810790 AAAAATCTTG
1 AAAAATCTTG
1810800 AAAAATCTTG
1 AAAAATCTTG
1810810 TGTTTTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (10 bp):
AAAAATCTTG
Found at i:1824994 original size:29 final size:27
Alignment explanation
Indices: 1824927--1825050 Score: 97
Period size: 29 Copynumber: 4.3 Consensus size: 27
1824917 TCAAAATTTT
*
1824927 ATTACAATAAGGAATAAA-TCTTTTATAA
1 ATTACAATAAAGAA-AAACT-TTTTATAA
* *
1824955 ATTGCATTAAAGGATAAAACTTTTTATAA
1 ATTACAATAAA-GA-AAAACTTTTTATAA
* * *
1824984 ATTATAATAAATGACAGAACCTTTTATAA
1 ATTACAATAAA-GA-AAAACTTTTTATAA
*
1825013 ATTACAATATAAGACAAACTTTTTTTATAA
1 ATTACAATA-AAGAAAAAC--TTTTTATAA
1825043 ATTACAAT
1 ATTACAAT
1825051 GAACGTCAAA
Statistics
Matches: 76, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
28 11 0.14
29 45 0.59
30 20 0.26
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.37
Consensus pattern (27 bp):
ATTACAATAAAGAAAAACTTTTTATAA
Found at i:1825041 original size:30 final size:29
Alignment explanation
Indices: 1824947--1825050 Score: 104
Period size: 29 Copynumber: 3.6 Consensus size: 29
1824937 GGAATAAATC
* * * * *
1824947 TTTTATAAATTGCATTAAAGGATAAAACT
1 TTTTATAAATTACAATAAATGACAGAACT
* *
1824976 TTTTATAAATTATAATAAATGACAGAACC
1 TTTTATAAATTACAATAAATGACAGAACT
1825005 TTTTATAAATTACAATATAA-GACA-AACTTT
1 TTTTATAAATTACAATA-AATGACAGAAC--T
1825035 TTTTATAAATTACAAT
1 TTTTATAAATTACAAT
1825051 GAACGTCAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.05
29 42 0.67
30 18 0.29
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (29 bp):
TTTTATAAATTACAATAAATGACAGAACT
Found at i:1844582 original size:36 final size:34
Alignment explanation
Indices: 1844498--1844588 Score: 92
Period size: 34 Copynumber: 2.6 Consensus size: 34
1844488 CTCCGTTAAT
** * * *
1844498 TCCAAATCTTTTTCAACATCCACCAGCTCCCAAT
1 TCCAAATCCATTTCAGCCTCCACCAGCTCCCAAC
* * *
1844532 TCCAAACCCCTTTCAGCCTCCACCAGCTCCTCTTAC
1 TCCAAATCCATTTCAGCCTCCACCAGCTCC-C-AAC
1844568 TCCAAATCCATTTCAGCCTCC
1 TCCAAATCCATTTCAGCCTCC
1844589 TCCTGCACCT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
34 25 0.54
35 1 0.02
36 20 0.43
ACGTcount: A:0.24, C:0.44, G:0.04, T:0.27
Consensus pattern (34 bp):
TCCAAATCCATTTCAGCCTCCACCAGCTCCCAAC
Found at i:1845748 original size:13 final size:13
Alignment explanation
Indices: 1845730--1845758 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1845720 ATAGGCATTA
1845730 AAATAAAATAAAT
1 AAATAAAATAAAT
1845743 AAATAAAATAAAT
1 AAATAAAATAAAT
1845756 AAA
1 AAA
1845759 CATATTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:1847398 original size:3 final size:3
Alignment explanation
Indices: 1847385--1847418 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
1847375 CAAATGTAAG
1847385 ATA ATTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1847419 TTTTTTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:1848442 original size:24 final size:25
Alignment explanation
Indices: 1848392--1848446 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
1848382 CTTTCTTCGA
1848392 TATTGAAAAATAAATATTAAATAATT
1 TATT-AAAAATAAATATTAAATAATT
* * *
1848418 TATTAAAAATATATA-TATATTATT
1 TATTAAAAATAAATATTAAATAATT
1848442 TATTA
1 TATTA
1848447 TATATATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 12 0.46
25 10 0.38
26 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
TATTAAAAATAAATATTAAATAATT
Found at i:1849827 original size:3 final size:3
Alignment explanation
Indices: 1849811--1849879 Score: 70
Period size: 3 Copynumber: 23.0 Consensus size: 3
1849801 TTTGGGCTTG
* * *
1849811 TAA TAA TATT TAA TAA TAA T-A TAC TAA TAA TATT TAA TAA TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
*
1849857 TAA TAA TAA T-T TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
1849880 ATTTAAATGA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
2 3 0.06
3 47 0.87
4 4 0.07
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:1849843 original size:24 final size:22
Alignment explanation
Indices: 1849811--1849879 Score: 111
Period size: 24 Copynumber: 3.0 Consensus size: 22
1849801 TTTGGGCTTG
1849811 TAATAATATTTAATAATAATATA
1 TAATAATATTTAATAATAATA-A
1849834 CTAATAATATTTAATAATAATAA
1 -TAATAATATTTAATAATAATAA
1849857 TAATAATAATTTAATAATAATAA
1 TAATAAT-ATTTAATAATAATAA
1849880 ATTTAAATGA
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
22 7 0.16
23 16 0.36
24 21 0.48
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (22 bp):
TAATAATATTTAATAATAATAA
Found at i:1850162 original size:74 final size:76
Alignment explanation
Indices: 1850002--1850856 Score: 1426
Period size: 74 Copynumber: 11.5 Consensus size: 76
1849992 GATGGAAATG
* *
1850002 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTTGAAAACATCAAAAAG
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG--CTTTGAAAACATCAAAAAG
1850067 CT-CCGAAGGC-T
64 CTCCCGAAGGCTT
* *
1850078 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAA-CT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1850142 CCCGAAGGCTT
66 CCCGAAGGCTT
1850153 TTTGG-AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1850217 CCCGAAGGCTT
66 CCCGAAGGCTT
1850228 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCG-AGGCTTTGAAAACATC-AAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1850291 CCCG-AGGCTT
66 CCCGAAGGCTT
1850301 TTTGGAAACATCATGCACTGAAGGGCTTAC-GATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1850365 CCCGAAGGC-T
66 CCCGAAGGCTT
1850375 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1850439 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
1850450 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCTAAGGTTTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAAGC
1850515 T-CCGAAGGC-T
65 TCCCGAAGGCTT
*
1850525 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCC-AAGGTTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1850589 CCCGAAGGCTT
66 CCCGAAGGCTT
*
1850600 TTTGGAAACA-CCTGCACTGAAGGGCTTACAGATGACCC-AAGG-TTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1850662 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
1850673 TTTGG-AACATCATGCACTGAAGGACTTACAGATGACCCTAAGG-TTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1850736 CCCGAAGGC-T
66 CCCGAAGGCTT
*
1850746 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1850811 -CCGAAGGCTTT
66 CCCGAAGGC-TT
*
1850822 TTTGGAAACATCATGCACTGAAGGACTTACAGATG
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATG
1850857 TGGGAAATAG
Statistics
Matches: 747, Mismatches: 13, Indels: 38
0.94 0.02 0.05
Matches are distributed among these distances:
72 13 0.02
73 143 0.19
74 281 0.38
75 172 0.23
76 118 0.16
77 20 0.03
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:1850543 original size:297 final size:299
Alignment explanation
Indices: 1850002--1850856 Score: 1462
Period size: 297 Copynumber: 2.9 Consensus size: 299
1849992 GATGGAAATG
*
1850002 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTTGAAAACATCAAAAAG
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG---TTTGAAAACATCAAAAAG
*
1850067 CT-CCGAAGGCTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAA
63 CTCCCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTGAAAA
1850131 CATCAAAAA-CTCCCGAAGGCTTTTTGG-AACATCATGCACTGAAGGGCTTACAGATGACCCGAA
127 CATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAA
*
1850194 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACA
192 GGTTTTGAAAACATCAAAAAGCT-CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACA
*
1850259 GATGACCCGAGGCTTTGAAAACATC-AAAAGCTCCCG-AGGCTT
256 GATGACCCAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
1850301 TTTGGAAACATCATGCACTGAAGGGCTTAC-GATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCT
*
1850365 CCCGAAGGCTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTGAAAACAT
65 CCCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACAT
*
1850430 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCTAAGGT
130 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-
1850495 TTTTGAAAACATCAAAAAGCTCCGAAGGC-TTTTGGAAACATCATGCACTGAAGGGCTTACAGAT
194 TTTTGAAAACATCAAAAAGCTCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGAT
*
1850559 GACCCAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
259 GACCCAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
*
1850600 TTTGGAAACA-CCTGCACTGAAGGGCTTACAGATGACCC-AAGGTTTGAAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTC
*
1850663 CCGAAGGCTTTTTGG-AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTGAAAACAT
66 CCGAAGGC-TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACAT
1850727 CAAAAAGCTCCCGAAGGC-TTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
130 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
1850791 TTTGAAAACATCAAAAAGCTCCGAAGGCTTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
195 TTTGAAAACATCAAAAAGCTCCGAAGGC-TTTTTGGAAACATCATGCACTGAAGGGCTTACAGAT
1850856 G
259 G
1850857 TGGGAAATAG
Statistics
Matches: 533, Mismatches: 13, Indels: 22
0.94 0.02 0.04
Matches are distributed among these distances:
295 29 0.05
296 81 0.15
297 253 0.47
298 97 0.18
299 73 0.14
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (299 bp):
TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTC
CCGAAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACATC
AAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
TTGAAAACATCAAAAAGCTCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGA
CCCAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
Found at i:1850573 original size:150 final size:151
Alignment explanation
Indices: 1850002--1850856 Score: 1431
Period size: 150 Copynumber: 5.7 Consensus size: 151
1849992 GATGGAAATG
*
1850002 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTTGAAAACATCAAAAAG
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG--TTTTGAAAACATCAAAAAG
*
1850067 CT-CCGAAGGC-TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAA
64 CTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTGAAA
1850130 ACATCAAAAA-CTCCCGAAGGCTT
128 ACATCAAAAAGCTCCCGAAGGCTT
*
1850153 TTTGG-AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCT
*
1850217 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCG-AGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTGAAAAC
1850281 ATC-AAAAGCTCCCG-AGGCTT
130 ATCAAAAAGCTCCCGAAGGCTT
*
1850301 TTTGGAAACATCATGCACTGAAGGGCTTAC-GATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCT
*
1850365 CCCGAAGGC-TTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTGAAAACA
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACA
1850429 TCAAAAAGCTCCCGAAGGCTT
131 TCAAAAAGCTCCCGAAGGCTT
*
1850450 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCTAAGGTTTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTTGAAAACATCAAAAAGC
*
1850515 T-CCGAAGGC-TTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCC-AAGGTTTTGAAAA
65 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTGAAAA
1850577 CATCAAAAAGCTCCCGAAGGCTT
129 CATCAAAAAGCTCCCGAAGGCTT
*
1850600 TTTGGAAACA-CCTGCACTGAAGGGCTTACAGATGACCC-AAGG-TTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCT
*
1850662 CCCGAAGGCTTTTTGG-AACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTGAAAACA
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACA
1850726 TCAAAAAGCTCCCGAAGGC-T
131 TCAAAAAGCTCCCGAAGGCTT
1850746 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCT
1850811 -CCGAAGGCTTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
66 CCCGAAGGC-TTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
1850857 TGGGAAATAG
Statistics
Matches: 677, Mismatches: 9, Indels: 37
0.94 0.01 0.05
Matches are distributed among these distances:
146 31 0.05
147 149 0.22
148 118 0.17
149 148 0.22
150 207 0.31
151 24 0.04
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (151 bp):
TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCT
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACA
TCAAAAAGCTCCCGAAGGCTT
Found at i:1854556 original size:115 final size:114
Alignment explanation
Indices: 1854240--1854582 Score: 578
Period size: 114 Copynumber: 3.0 Consensus size: 114
1854230 ACGATCATGC
* * * *
1854240 AATTCATCTTTTAATTCCAATGATTGGTTTTGTGGTTCCTACCAACCCAGATCAGATAACTCAAA
1 AATTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
* * *
1854305 GAACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCA
66 GAAAACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
*
1854354 AATTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCTGATCAGATAACTCAAA
1 AATTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
1854419 GAAAACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
66 GAAAACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
* *
1854468 AATTCATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATTAGATAACTCAA
1 AATTCATCTTTTAAATCCAATGATTGG-TTTTGGGGTTCATACCAAACCAGATCAGATAACTCAA
*
1854533 AGAATACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
65 AGAAAACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
1854583 CATGGCACTT
Statistics
Matches: 216, Mismatches: 12, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
114 132 0.61
115 84 0.39
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.34
Consensus pattern (114 bp):
AATTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
GAAAACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
Found at i:1856864 original size:15 final size:16
Alignment explanation
Indices: 1856840--1856873 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1856830 CTTGATTCAA
1856840 TTTTCCTTTTTC-TTC
1 TTTTCCTTTTTCTTTC
*
1856855 TTTTCTTTTTTCTTTC
1 TTTTCCTTTTTCTTTC
1856871 TTT
1 TTT
1856874 GTTGGATGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTCCTTTTTCTTTC
Found at i:1863514 original size:3 final size:3
Alignment explanation
Indices: 1863508--1863573 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
1863498 AATAATTATT
* *
1863508 TAA TAA TAA T-A TAC TAA TAA TAA TATT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
*
1863553 TAA -ATT TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA
1863574 ATTTAAATGA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
2 3 0.06
3 47 0.89
4 3 0.06
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1863537 original size:27 final size:25
Alignment explanation
Indices: 1863497--1863573 Score: 120
Period size: 24 Copynumber: 3.0 Consensus size: 25
1863487 TTTGGGCTTG
1863497 TAATAATTATTTAATAATAATATACTAA
1 TAATAA-TATTTAATAATAATA-A-TAA
1863525 TAATAATATTTAATAATAATAATAA
1 TAATAATATTTAATAATAATAATAA
1863550 TAATAA-ATTTAATAATAATAATAA
1 TAATAATATTTAATAATAATAATAA
1863574 ATTTAAATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
24 18 0.37
25 9 0.18
26 1 0.02
27 15 0.31
28 6 0.12
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (25 bp):
TAATAATATTTAATAATAATAATAA
Found at i:1863783 original size:26 final size:28
Alignment explanation
Indices: 1863723--1863817 Score: 97
Period size: 28 Copynumber: 3.4 Consensus size: 28
1863713 AGGGATAATG
* *
1863723 GTTTCAAGAGAAACCGACTCAAAGATTT
1 GTTTCAAAAGAAACAGACTCAAAGATTT
1863751 GTTTCAAAAGAAACAGACTC-AA-ATTT
1 GTTTCAAAAGAAACAGACTCAAAGATTT
* *
1863777 GTTTCAAGAA-AAATAAACTCAAAGATAATGT
1 GTTTCAA-AAGAAACAGACTCAAAGAT--T-T
1863808 GTTTCAAAAG
1 GTTTCAAAAG
1863818 CAACTGTCTC
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
26 19 0.34
27 6 0.11
28 20 0.36
30 3 0.05
31 8 0.14
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (28 bp):
GTTTCAAAAGAAACAGACTCAAAGATTT
Found at i:1864017 original size:35 final size:36
Alignment explanation
Indices: 1863971--1864070 Score: 116
Period size: 35 Copynumber: 2.8 Consensus size: 36
1863961 TGAGACAAAA
***
1863971 TTTGTTTCAAGGGAAACAATCTCAAAGAT-GTTTGT
1 TTTGTTTCAAGGGAAACAATCTCAAAGATGGTAAAT
1864006 TTTGTTTCAAGGGAAAC-ATACTCAAAGATGGTAAAT
1 TTTGTTTCAAGGGAAACAAT-CTCAAAGATGGTAAAT
* *
1864042 TTTGTTTCCAA-AGAAACAAACTCAAAGAT
1 TTTGTTT-CAAGGGAAACAATCTCAAAGAT
1864071 TTTTCTCAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
34 2 0.04
35 26 0.46
36 24 0.43
37 4 0.07
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACAATCTCAAAGATGGTAAAT
Found at i:1864277 original size:30 final size:29
Alignment explanation
Indices: 1864226--1864310 Score: 77
Period size: 28 Copynumber: 2.9 Consensus size: 29
1864216 GAGAGACAAT
* * *
1864226 TTTTTTTAAAGAAATAGACTCACAGATGA
1 TTTTGTTAAAGAAACAGACTCAAAGATGA
*
1864255 TTTTGTTAAGAGAAACATACTCAAAGAT--
1 TTTTGTTAA-AGAAACAGACTCAAAGATGA
*
1864283 TTTT-TTCAAAAGGAACAGACTCAAAGAT
1 TTTTGTT--AAAGAAACAGACTCAAAGAT
1864311 TTGTTTCAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.04
28 20 0.43
29 10 0.21
30 15 0.32
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (29 bp):
TTTTGTTAAAGAAACAGACTCAAAGATGA
Found at i:1864283 original size:27 final size:28
Alignment explanation
Indices: 1864253--1864334 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 28
1864243 ACTCACAGAT
1864253 GATTTTGTT-AAGAGAAACATACTCAAA
1 GATTTTGTTCAAGAGAAACATACTCAAA
* * * *
1864280 GATTTTTTTCAAAAGGAACAGACTCAAA
1 GATTTTGTTCAAGAGAAACATACTCAAA
1864308 GA-TTTGTTTCAAGAGAAAC-TATCTCAA
1 GATTTTG-TTCAAGAGAAACATA-CTCAA
1864335 GAGAGATAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
27 12 0.27
28 32 0.73
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.30
Consensus pattern (28 bp):
GATTTTGTTCAAGAGAAACATACTCAAA
Found at i:1864717 original size:137 final size:136
Alignment explanation
Indices: 1864499--1864759 Score: 359
Period size: 137 Copynumber: 1.9 Consensus size: 136
1864489 TTTGAAAATC
* * * * *
1864499 TCAAGTGAGATTAATTTTGTTTCAAGTACAATAAATTTAAATTTGTATCTTATAAAAAAATGTCT
1 TCAAGTGAGATAAACTTTGTTTCAAGTACAACAAATTGAAATTTGTATCTCATAAAAAAATGTCT
*
1864564 CAAGCGAAACGAAATTTGTTTTGAGAGAAATTGTCTCAAGCGAGAC-AAATGTGTTTTTGAGAAA
66 CAAGCGAAACGAAATTTGTTTTGAAAGAAATTGTCTCAAGCGAGACAAAATGTGTTTTTGAGAAA
1864628 ACGATA
131 ACGATA
1864634 TCAAGTGAGATAAACTTTGTTT-AATGTGA-AACAAATTCGAAATTTGTATCTCA-AAGGAAAAA
1 TCAAGTGAGATAAACTTTGTTTCAA-GT-ACAACAAATT-GAAATTTGTATCTCATAA--AAAAA
* * * *
1864696 TGTCTCAAGTGAGACGAAATTTGTTTTGAAAGAAATTGTCTCAAGCTAGACAAAATTTGTTTTT
61 TGTCTCAAGCGAAACGAAATTTGTTTTGAAAGAAATTGTCTCAAGCGAGACAAAATGTGTTTTT
1864760 CAAAAGAAAC
Statistics
Matches: 110, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
134 2 0.02
135 31 0.28
136 14 0.13
137 52 0.47
138 11 0.10
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (136 bp):
TCAAGTGAGATAAACTTTGTTTCAAGTACAACAAATTGAAATTTGTATCTCATAAAAAAATGTCT
CAAGCGAAACGAAATTTGTTTTGAAAGAAATTGTCTCAAGCGAGACAAAATGTGTTTTTGAGAAA
ACGATA
Found at i:1864775 original size:38 final size:38
Alignment explanation
Indices: 1864673--1864775 Score: 104
Period size: 36 Copynumber: 2.7 Consensus size: 38
1864663 AACAAATTCG
* * * *
1864673 AAATTTGTATCTCAAAGGAAAAATGTCTCAAGTGAGACG
1 AAATTTGTTTTTCAAAAG-AAAATGTCTCAAGTGAGACA
* *
1864712 AAATTTG-TTTT-GAAAGAAATTGTCTCAAGCT-AGACA
1 AAATTTGTTTTTCAAAAGAAAATGTCTCAAG-TGAGACA
*
1864748 AAATTTGTTTTTCAAAAGAAACTGTCTC
1 AAATTTGTTTTTCAAAAGAAAATGTCTC
1864776 TAACGAGACG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
36 23 0.43
37 8 0.15
38 15 0.28
39 7 0.13
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.32
Consensus pattern (38 bp):
AAATTTGTTTTTCAAAAGAAAATGTCTCAAGTGAGACA
Done.