Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_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: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 31 of 50
Found at i:7630744 original size:13 final size:13
Alignment explanation
Indices: 7630705--7630769 Score: 76
Period size: 13 Copynumber: 5.0 Consensus size: 13
7630695 AATGACGCTC
7630705 AATGTGTGTCATA
1 AATGTGTGTCATA
* * *
7630718 AATGAGCGTTATA
1 AATGTGTGTCATA
7630731 AATGTGTGTCATA
1 AATGTGTGTCATA
* *
7630744 AATGCGTGCCATA
1 AATGTGTGTCATA
*
7630757 AATGTGCGTCATA
1 AATGTGTGTCATA
7630770 GATTTATGAC
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.32
Consensus pattern (13 bp):
AATGTGTGTCATA
Found at i:7630757 original size:26 final size:26
Alignment explanation
Indices: 7630705--7630769 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
7630695 AATGACGCTC
**
7630705 AATGTGTGTCATAAATGAGCGTTATA
1 AATGTGTGTCATAAATGAGCGCCATA
* *
7630731 AATGTGTGTCATAAATGCGTGCCATA
1 AATGTGTGTCATAAATGAGCGCCATA
*
7630757 AATGTGCGTCATA
1 AATGTGTGTCATA
7630770 GATTTATGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.32
Consensus pattern (26 bp):
AATGTGTGTCATAAATGAGCGCCATA
Found at i:7641456 original size:23 final size:22
Alignment explanation
Indices: 7641430--7641478 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7641420 AACGACTGAG
*
7641430 AAAGAAAATAAAAAACGCGTCAC
1 AAAG-AAAGAAAAAACGCGTCAC
* *
7641453 AAAGACAGAAAAAACGTGTCAC
1 AAAGAAAGAAAAAACGCGTCAC
7641475 AAAG
1 AAAG
7641479 GCATAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.59, C:0.16, G:0.16, T:0.08
Consensus pattern (22 bp):
AAAGAAAGAAAAAACGCGTCAC
Found at i:7643172 original size:7 final size:7
Alignment explanation
Indices: 7643160--7643192 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
7643150 AAGATAAAAC
*
7643160 AAAAATG
1 AAAAATA
7643167 AAAAATA
1 AAAAATA
7643174 AAAAATA
1 AAAAATA
7643181 AAAAATA
1 AAAAATA
7643188 AAAAA
1 AAAAA
7643193 CATATTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:7643179 original size:14 final size:14
Alignment explanation
Indices: 7643138--7643192 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
7643128 AAACCAAATT
7643138 AAATAATAAAATAAGA
1 AAATAA-AAAATAA-A
*
7643154 TAAA-ACAAAAATGAA
1 -AAATA-AAAAATAAA
7643169 AAATAAAAAATAAA
1 AAATAAAAAATAAA
7643183 AAATAAAAAA
1 AAATAAAAAA
7643193 CATATTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 21 0.62
15 2 0.06
16 7 0.21
17 4 0.12
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.15
Consensus pattern (14 bp):
AAATAAAAAATAAA
Found at i:7644296 original size:3 final size:3
Alignment explanation
Indices: 7644288--7644319 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
7644278 AATTAAAATA
*
7644288 AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7644320 GCTAAAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7644405 original size:25 final size:25
Alignment explanation
Indices: 7644345--7644477 Score: 82
Period size: 25 Copynumber: 5.4 Consensus size: 25
7644335 ATATATTATA
*
7644345 TTTTCAAAATC-ATA-TA-ATATG-
1 TTTTCAAAAACTATATTACATATGT
*
7644366 TTTTCAATATA-TATATTACATATGT
1 TTTTCAA-AAACTATATTACATATGT
*
7644391 TTTTCAAAAACTATATATATTATATG-
1 TTTTCAAAAACTATAT-TA-CATATGT
* * **
7644417 TTTTC-AAAATTATATAACAATACAT
1 TTTTCAAAAACTATATTAC-ATATGT
** *
7644442 TTTTTTAAAACTATATTATATATGT
1 TTTTCAAAAACTATATTACATATGT
*
7644467 TTTCCAAAAAC
1 TTTTCAAAAAC
7644478 CATTTTTAAA
Statistics
Matches: 83, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
21 7 0.08
22 4 0.05
23 2 0.02
24 11 0.13
25 37 0.45
26 17 0.20
27 5 0.06
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (25 bp):
TTTTCAAAAACTATATTACATATGT
Found at i:7644415 original size:27 final size:27
Alignment explanation
Indices: 7644373--7644477 Score: 87
Period size: 26 Copynumber: 4.0 Consensus size: 27
7644363 ATGTTTTCAA
7644373 TATATATATTACATATGTTTTTCAAAAAC
1 TATATATATT--ATATGTTTTTCAAAAAC
*
7644402 TATATATATTATATG-TTTTC-AAAAT
1 TATATATATTATATGTTTTTCAAAAAC
* * * *
7644427 TATATAACAATACAT-TTTTT-TAAAAC
1 TATAT-ATATTATATGTTTTTCAAAAAC
*
7644453 TATAT-TA-TATATGTTTTCCAAAAAC
1 TATATATATTATATGTTTTTCAAAAAC
7644478 CATTTTTAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
23 4 0.06
24 5 0.08
25 14 0.23
26 24 0.39
27 5 0.08
29 10 0.16
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.46
Consensus pattern (27 bp):
TATATATATTATATGTTTTTCAAAAAC
Found at i:7644445 original size:51 final size:51
Alignment explanation
Indices: 7644356--7644475 Score: 138
Period size: 51 Copynumber: 2.4 Consensus size: 51
7644346 TTTCAAAATC
* * * **
7644356 ATATAATATGTTTTCAATATATATATTACATATGTTTTTCAAAAACTATAT
1 ATATTATATGTTTTCAAAATATATATAACATACATTTTTCAAAAACTATAT
**
7644407 ATATTATATGTTTTCAAAAT-TATATAACAATACATTTTTTTAAAACTATAT
1 ATATTATATGTTTTCAAAATATATATAAC-ATACATTTTTCAAAAACTATAT
7644458 -TA-TATATGTTTTCCAAAA
1 ATATTATATGTTTT-CAAAA
7644476 ACCATTTTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
49 10 0.17
50 14 0.23
51 36 0.60
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (51 bp):
ATATTATATGTTTTCAAAATATATATAACATACATTTTTCAAAAACTATAT
Found at i:7644601 original size:116 final size:114
Alignment explanation
Indices: 7644455--7644667 Score: 270
Period size: 116 Copynumber: 1.9 Consensus size: 114
7644445 TTTAAAACTA
* * *
7644455 TATTATATATGTTTTCCAAAAACCATTTTTAAAAAAATTATAAATTAT-TGTTTTCAAAACCCGT
1 TATTATATATGTTTTCCAAAAACAATTTTTAAAAAAACTATAAATTATACGTTTTCAAAA-CCGT
* * * *
7644519 TTTTTAAAACTA-TATATTATATGTTTTCAAAAATACGTTTTCAAATACTT
65 GTTTTAAAA-AACTATACTATATATTTTCAAAAATACGTTTTCAAATACTT
* * *
7644569 TATTATATATACGTTTT-CAAAAATCAATTTTTAAGAAAACTATATATTATACGTTTTCAAAATC
1 TATTATATAT--GTTTTCCAAAAA-CAATTTTTAAAAAAACTATAAATTATACGTTTTCAAAACC
7644633 GTGTTTTAAAAAACTATACTATATATTTTCAAAAA
63 GTGTTTTAAAAAACTATACTATATATTTTCAAAAA
7644668 CTATATATGT
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
114 10 0.12
115 7 0.08
116 57 0.68
117 10 0.12
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (114 bp):
TATTATATATGTTTTCCAAAAACAATTTTTAAAAAAACTATAAATTATACGTTTTCAAAACCGTG
TTTTAAAAAACTATACTATATATTTTCAAAAATACGTTTTCAAATACTT
Found at i:7644620 original size:40 final size:39
Alignment explanation
Indices: 7644448--7644667 Score: 156
Period size: 40 Copynumber: 5.7 Consensus size: 39
7644438 ACATTTTTTT
*
7644448 AAAACTATAT-TATATATGTTTTCCAAAAA-CCATTTTTAAA
1 AAAACTATATAT-TATATGTTTT-CAAAAATCAATTTTT-AA
* * * ** *
7644488 AAAATTATAAATTAT-TGTTTTC-AAAACCCGTTTTT-T
1 AAAACTATATATTATATGTTTTCAAAAATCAATTTTTAA
** *
7644524 AAAACTATATATTATATGTTTTCAAAAAT-ACGTTTTCA
1 AAAACTATATATTATATGTTTTCAAAAATCAATTTTTAA
* * *
7644562 AATACTTTATTATATATACGTTTTCAAAAATCAATTTTTAA
1 AAAACTATA-TAT-TATATGTTTTCAAAAATCAATTTTTAA
* *
7644603 GAAAACTATATATTATACGTTTTC-AAAATC-GTGTTTTAA
1 -AAAACTATATATTATATGTTTTCAAAAATCAAT-TTTTAA
7644642 AAAACTATACTA-TATA--TTTTCAAAAA
1 AAAACTATA-TATTATATGTTTTCAAAAA
7644668 CTATATATGT
Statistics
Matches: 148, Mismatches: 20, Indels: 27
0.76 0.10 0.14
Matches are distributed among these distances:
36 18 0.12
37 19 0.13
38 33 0.22
39 23 0.16
40 38 0.26
41 10 0.07
42 7 0.05
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (39 bp):
AAAACTATATATTATATGTTTTCAAAAATCAATTTTTAA
Found at i:7647475 original size:104 final size:103
Alignment explanation
Indices: 7647292--7647490 Score: 292
Period size: 104 Copynumber: 1.9 Consensus size: 103
7647282 ACTTCAACTC
* * *
7647292 TTTTTTTAAGCATACTTTAAGGGGAGTCATCCCATCACACTACCATCCCTCACTCTAAGTGAAAA
1 TTTTTTTAAGCATACTTTAAGGGGAGTCAGCCCATCACACTACCATCCCACACTATAAGTGAAAA
7647357 GGAGCATACATTCCACCCCCGAGCTAGTCAAGTAGAGT
66 GGAGCATACATTCCACCCCCGAGCTAGTCAAGTAGAGT
* * * *
7647395 TTTTTTTAA-CACTGCTTTGAGGGGAGTCAGCCCATTACACCTATCATCCCACACTATAAGTGAA
1 TTTTTTTAAGCA-TACTTTAAGGGGAGTCAGCCCATCACA-CTACCATCCCACACTATAAGTGAA
* *
7647459 AGGGAGCATACCTTCCACCCCCGAGCTAGTCA
64 AAGGAGCATACATTCCACCCCCGAGCTAGTCA
7647491 GGTATAGTCA
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
102 2 0.02
103 32 0.38
104 51 0.60
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (103 bp):
TTTTTTTAAGCATACTTTAAGGGGAGTCAGCCCATCACACTACCATCCCACACTATAAGTGAAAA
GGAGCATACATTCCACCCCCGAGCTAGTCAAGTAGAGT
Found at i:7654447 original size:18 final size:18
Alignment explanation
Indices: 7654421--7654457 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
7654411 GTTCTACACA
*
7654421 CTCCTTCATGTATTTCTT
1 CTCCATCATGTATTTCTT
7654439 CTCCATCATGTATTTCTT
1 CTCCATCATGTATTTCTT
7654457 C
1 C
7654458 CAATATCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.30, G:0.05, T:0.51
Consensus pattern (18 bp):
CTCCATCATGTATTTCTT
Found at i:7660772 original size:24 final size:24
Alignment explanation
Indices: 7660709--7660774 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
7660699 AAGCTTCTTT
** *
7660709 TGCTTTTGCAGCAGACAAAATTTG
1 TGCTTTTGCAGCAGATGAAACTTG
*
7660733 TGCCTTTGCAGCAGATGAAACTTG
1 TGCTTTTGCAGCAGATGAAACTTG
*
7660757 TGCTTTTGCAGTAGATGA
1 TGCTTTTGCAGCAGATGA
7660775 GTCCATTTGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (24 bp):
TGCTTTTGCAGCAGATGAAACTTG
Found at i:7662195 original size:48 final size:48
Alignment explanation
Indices: 7662124--7662219 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
7662114 TCTTTCGCAG
*
7662124 CCACAACCTCTGTAAGAAATATCTTTCTCCATGACTCAACTACATCTT
1 CCACAACCTCTGTAAGAAATATCTTGCTCCATGACTCAACTACATCTT
*
7662172 CCACAACCTCTGTAAGAAATATCTTGCTCCATGACTCAGCTACATCTT
1 CCACAACCTCTGTAAGAAATATCTTGCTCCATGACTCAACTACATCTT
7662220 TAACCTTCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.30
Consensus pattern (48 bp):
CCACAACCTCTGTAAGAAATATCTTGCTCCATGACTCAACTACATCTT
Found at i:7665189 original size:6 final size:6
Alignment explanation
Indices: 7665171--7665231 Score: 50
Period size: 6 Copynumber: 10.0 Consensus size: 6
7665161 TGGAAAACCG
* * * * *
7665171 AAATAA AATTAA AAATAA AAGTAA ATAATAA TAATAA TAATAA TAATAA
1 AAATAA AAATAA AAATAA AAATAA A-AATAA AAATAA AAATAA AAATAA
* *
7665220 TAATAA TAATAA
1 AAATAA AAATAA
7665232 GATAAAAACT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
6 45 0.92
7 4 0.08
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (6 bp):
AAATAA
Found at i:7665202 original size:3 final size:3
Alignment explanation
Indices: 7665194--7665231 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
7665184 AATAAAAGTA
7665194 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7665232 GATAAAAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7665403 original size:40 final size:38
Alignment explanation
Indices: 7665359--7665467 Score: 107
Period size: 40 Copynumber: 2.8 Consensus size: 38
7665349 TAACAATACG
7665359 TTTTTTTAAAACCTATATTATATATGTTTTCCAAAAACC
1 TTTTTTTAAAA-CTATATTATATATGTTTTCCAAAAACC
**
7665398 ATTTTTTTAAAAAAAT-TATATATTATTGTTTT-CAAAAACC
1 -TTTTTTTAAAACTATAT-TATA-TA-TGTTTTCCAAAAACC
* *
7665438 GTTTTTAAAAACTATA-TATTATATGTTTTC
1 TTTTTTTAAAACTATATTA-TATATGTTTTC
7665468 AAATACTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
37 6 0.11
38 5 0.09
39 19 0.33
40 21 0.37
41 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.49
Consensus pattern (38 bp):
TTTTTTTAAAACTATATTATATATGTTTTCCAAAAACC
Found at i:7665520 original size:102 final size:104
Alignment explanation
Indices: 7665372--7665599 Score: 279
Period size: 102 Copynumber: 2.2 Consensus size: 104
7665362 TTTTAAAACC
** * * * *
7665372 TATATTATATATGTTTTCCAAAAACCATTTTTTTAAAAAAATTATATATTAT-TGTTTTCAAAAA
1 TATATTATATATGTTTTTAAAAAAACAATTTTTTAAAAAAACTATATATTATACGTTTTC-AAAA
*
7665436 CCGT-TTTT-AAAAACTATA-TATTATATGTTTTCAAATACT-
65 CCGTGTTTTCAAAAACTATACTA-TATA--TTTTCAAAAACTA
* * *
7665475 T-TATTACATATGTTTTTAAAAAAACAATTTTTTAAGAAAACTATATATTATACGTTTTCAAAAT
1 TATATTATATATGTTTTTAAAAAAACAATTTTTTAAAAAAACTATATATTATACGTTTTCAAAAC
7665539 CGTGTTTTCAAAAACTATACTATATATTTTCAAAAACTA
66 CGTGTTTTCAAAAACTATACTATATATTTTCAAAAACTA
*
7665578 TATATGATATATGTTTTTAAAA
1 TATATTATATATGTTTTTAAAA
7665600 TTATTATATA
Statistics
Matches: 107, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
102 61 0.57
103 12 0.11
104 32 0.30
105 2 0.02
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (104 bp):
TATATTATATATGTTTTTAAAAAAACAATTTTTTAAAAAAACTATATATTATACGTTTTCAAAAC
CGTGTTTTCAAAAACTATACTATATATTTTCAAAAACTA
Found at i:7665571 original size:22 final size:22
Alignment explanation
Indices: 7665543--7665587 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
7665533 CAAAATCGTG
7665543 TTTTCAAAAACTATACTAT-ATA
1 TTTTCAAAAACTATA-TATGATA
7665565 TTTTCAAAAACTATATATGATA
1 TTTTCAAAAACTATATATGATA
7665587 T
1 T
7665588 ATGTTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.42
Consensus pattern (22 bp):
TTTTCAAAAACTATATATGATA
Found at i:7666696 original size:30 final size:31
Alignment explanation
Indices: 7666660--7666728 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 31
7666650 AACATTGTTT
*
7666660 ATATATTTTATATATTAT-TTTAA-CTTAAAA
1 ATATATTTTAT-TATTATCTTAAATCTTAAAA
*
7666690 ATATATTTTATTATTATCTTAAATTTTAAAA
1 ATATATTTTATTATTATCTTAAATCTTAAAA
7666721 ATATATTT
1 ATATATTT
7666729 CACTTTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 6 0.17
30 15 0.43
31 14 0.40
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (31 bp):
ATATATTTTATTATTATCTTAAATCTTAAAA
Found at i:7666700 original size:23 final size:24
Alignment explanation
Indices: 7666668--7666712 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
7666658 TTATATATTT
7666668 TATATATTATT-TTAACTTAAAAA
1 TATATATTATTATTAACTTAAAAA
* *
7666691 TATATTTTATTATTATCTTAAA
1 TATATATTATTATTAACTTAAA
7666713 TTTTAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
TATATATTATTATTAACTTAAAAA
Found at i:7666747 original size:29 final size:29
Alignment explanation
Indices: 7666660--7666753 Score: 91
Period size: 31 Copynumber: 3.1 Consensus size: 29
7666650 AACATTGTTT
* *
7666660 ATATATTTTATATATTATTTTAACTTAAAA
1 ATATATTTCAT-TATTATTTTAATTTAAAA
* *
7666690 ATATATTTTATTATTATCTTAAATTTTAAAA
1 ATATATTTCATTATTAT-TTTAA-TTTAAAA
* *
7666721 ATATATTTCACTT-TTATTTTTATTTAAGA
1 ATATATTTCA-TTATTATTTTAATTTAAAA
7666750 ATAT
1 ATAT
7666754 TTAAAATATA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
29 16 0.29
30 18 0.33
31 19 0.35
32 2 0.04
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (29 bp):
ATATATTTCATTATTATTTTAATTTAAAA
Found at i:7666793 original size:30 final size:30
Alignment explanation
Indices: 7666757--7666824 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
7666747 AGAATATTTA
7666757 AAATATATTTTATTCTTA-TATTAACTTAAT
1 AAATATATTTTATTCTTACT-TTAACTTAAT
*
7666787 AAATATATTTTATTCTTACTTTAACTTATT
1 AAATATATTTTATTCTTACTTTAACTTAAT
*
7666817 AGATATAT
1 AAATATAT
7666825 GTTAAAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 34 0.97
31 1 0.03
ACGTcount: A:0.38, C:0.07, G:0.01, T:0.53
Consensus pattern (30 bp):
AAATATATTTTATTCTTACTTTAACTTAAT
Found at i:7666861 original size:21 final size:22
Alignment explanation
Indices: 7666827--7666868 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
7666817 AGATATATGT
*
7666827 TAAAAATATTTTTAAATTAAGA
1 TAAAAATATATTTAAATTAAGA
*
7666849 TAAAAATA-ATTTATATTAAG
1 TAAAAATATATTTAAATTAAG
7666869 TTAAGTTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (22 bp):
TAAAAATATATTTAAATTAAGA
Found at i:7667971 original size:43 final size:43
Alignment explanation
Indices: 7667921--7668019 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 43
7667911 ATAATATATT
*
7667921 TAATAAATTA-ATATAAAATATATACTTTTAAAAGTTAAAATAA
1 TAATAAATTATATATAAAAGATATACTTTTAAAA-TTAAAATAA
* * * ** *
7667964 TTATAAATTATGTTTTTAAGATATACTTTTAAAATTCAAATAA
1 TAATAAATTATATATAAAAGATATACTTTTAAAATTAAAATAA
*
7668007 TAATAAAATATAT
1 TAATAAATTATAT
7668020 TTTTAATTAA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
43 27 0.60
44 18 0.40
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (43 bp):
TAATAAATTATATATAAAAGATATACTTTTAAAATTAAAATAA
Found at i:7668018 original size:30 final size:29
Alignment explanation
Indices: 7667984--7668075 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 29
7667974 TGTTTTTAAG
*
7667984 ATATACTTTTAAAATTCAA-ATAATAATAAA
1 ATATA-TTTTAAAATT-AAGATAAGAATAAA
* *
7668014 ATATATTTT-TAATTAAGTTAAGAATAAA
1 ATATATTTTAAAATTAAGATAAGAATAAA
*
7668042 ATATATTTAATAAATTAAGATAAGAATAAA
1 ATATATTTTA-AAATTAAGATAAGAATAAA
7668072 ATAT
1 ATAT
7668076 TGTTGAAGTT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
27 2 0.04
28 21 0.40
29 4 0.08
30 26 0.49
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (29 bp):
ATATATTTTAAAATTAAGATAAGAATAAA
Found at i:7668023 original size:43 final size:44
Alignment explanation
Indices: 7667940--7668025 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 44
7667930 AATATAAAAT
* * *
7667940 ATATACTTTTAAAAGTTAAAATAATTATAAATTATGTTTTTAAG
1 ATATACTTTTAAAAGTTAAAATAATAATAAAATATATTTTTAAG
*
7667984 ATATACTTTTAAAA-TTCAAATAATAATAAAATATATTTTTAA
1 ATATACTTTTAAAAGTTAAAATAATAATAAAATATATTTTTAA
7668026 TTAAGTTAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
43 24 0.63
44 14 0.37
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (44 bp):
ATATACTTTTAAAAGTTAAAATAATAATAAAATATATTTTTAAG
Found at i:7668040 original size:28 final size:29
Alignment explanation
Indices: 7667991--7668075 Score: 104
Period size: 28 Copynumber: 3.0 Consensus size: 29
7667981 AAGATATACT
*
7667991 TTTA-AAATTCAA-ATAATAATAAAATATA
1 TTTATAAATT-AAGATAAGAATAAAATATA
* *
7668019 TTT-TTAATTAAGTTAAGAATAAAATATA
1 TTTATAAATTAAGATAAGAATAAAATATA
7668047 TTTAATAAATTAAGATAAGAATAAAATAT
1 TTT-ATAAATTAAGATAAGAATAAAATAT
7668076 TGTTGAAGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
27 2 0.04
28 24 0.50
30 22 0.46
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (29 bp):
TTTATAAATTAAGATAAGAATAAAATATA
Found at i:7668069 original size:25 final size:26
Alignment explanation
Indices: 7668008--7668069 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 26
7667998 TTCAAATAAT
*
7668008 AATAAAATATATTTTTAATTAAGTTAAG
1 AATAAAATATA--TTTAATTAAATTAAG
7668036 AATAAAATATATTTAA-TAAATTAAG
1 AATAAAATATATTTAATTAAATTAAG
7668061 -ATAAGAATA
1 AATAA-AATA
7668070 AAATATTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
24 4 0.12
25 12 0.38
26 5 0.16
28 11 0.34
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.37
Consensus pattern (26 bp):
AATAAAATATATTTAATTAAATTAAG
Found at i:7669320 original size:24 final size:23
Alignment explanation
Indices: 7669288--7669338 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
7669278 AAAAATAGTT
7669288 AAATAAATATTTA-TATATTTTATA
1 AAATAAATA-TTAGTATATTTTA-A
* *
7669312 AAATCAATATTAGTTTATTTTAA
1 AAATAAATATTAGTATATTTTAA
7669335 AAAT
1 AAAT
7669339 TATATGTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
AAATAAATATTAGTATATTTTAA
Found at i:7670113 original size:21 final size:21
Alignment explanation
Indices: 7670089--7670129 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
7670079 AGTTTATTTT
7670089 TAAACTTTGTTTCAATTATCA
1 TAAACTTTGTTTCAATTATCA
*
7670110 TAAACTTTTTTTCAATTATC
1 TAAACTTTGTTTCAATTATC
7670130 GAACTTGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.15, G:0.02, T:0.51
Consensus pattern (21 bp):
TAAACTTTGTTTCAATTATCA
Found at i:7671014 original size:14 final size:13
Alignment explanation
Indices: 7670995--7671036 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
7670985 AATTAAATAA
7670995 ATAAATAAATAATT
1 ATAAAT-AATAATT
7671009 ATAAATAATAATT
1 ATAAATAATAATT
*
7671022 -TAATTAATAAATT
1 ATAAATAAT-AATT
7671035 AT
1 AT
7671037 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 7 0.28
13 11 0.44
14 7 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAAATAATAATT
Found at i:7671655 original size:29 final size:29
Alignment explanation
Indices: 7671573--7671655 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 29
7671563 TCCCCAAGCA
* * * * *
7671573 TAGGTCGCCATGCCCTCCGGGAGACCTTG
1 TAGGTCGCCATGCACGCCGGGCGACATGG
* *
7671602 TAGGTCGCCATGCACGCCAGACGACATGG
1 TAGGTCGCCATGCACGCCGGGCGACATGG
*
7671631 TAGGTCGCCATGCACGCTGGGCGAC
1 TAGGTCGCCATGCACGCCGGGCGAC
7671656 CTTGTCCTGC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.18, C:0.33, G:0.33, T:0.17
Consensus pattern (29 bp):
TAGGTCGCCATGCACGCCGGGCGACATGG
Found at i:7672305 original size:30 final size:30
Alignment explanation
Indices: 7672238--7672308 Score: 117
Period size: 29 Copynumber: 2.4 Consensus size: 30
7672228 TTAAAAAACC
* *
7672238 GTTTATTAATTTAAGTTATATTAAAGAATA
1 GTTTATTAGTTGAAGTTATATTAAAGAATA
7672268 G-TTATTAGTTGAAGTTATATTAAAGAATA
1 GTTTATTAGTTGAAGTTATATTAAAGAATA
7672297 GTTTATTAGTTG
1 GTTTATTAGTTG
7672309 TTTAAGGGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 27 0.71
30 11 0.29
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (30 bp):
GTTTATTAGTTGAAGTTATATTAAAGAATA
Found at i:7672390 original size:15 final size:16
Alignment explanation
Indices: 7672362--7672395 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
7672352 GTTTGTTACT
7672362 TTATAAGCTTATTATA
1 TTATAAGCTTATTATA
7672378 TTATAAG-TTATTATA
1 TTATAAGCTTATTATA
7672393 TTA
1 TTA
7672396 ATTTTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
TTATAAGCTTATTATA
Found at i:7674669 original size:59 final size:56
Alignment explanation
Indices: 7674606--7674726 Score: 179
Period size: 59 Copynumber: 2.1 Consensus size: 56
7674596 TATTATAATT
*
7674606 TCATTACTAGTAATAATTAGTAAAGCATTAGTATCAAATAATTAAATATTAATAATAAA
1 TCATTACTAATAATAATTAGTAAAGCATTAGTATCAAATAATTAAATATT--TAA-AAA
* * *
7674665 TCATTATTAATAATAATTAGTAAATCATTAGTATCAAATCATTAAATATTTAAAAA
1 TCATTACTAATAATAATTAGTAAAGCATTAGTATCAAATAATTAAATATTTAAAAA
7674721 TCATTA
1 TCATTA
7674727 ATAAATTCGA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
56 9 0.16
57 3 0.05
59 46 0.79
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (56 bp):
TCATTACTAATAATAATTAGTAAAGCATTAGTATCAAATAATTAAATATTTAAAAA
Found at i:7674832 original size:14 final size:14
Alignment explanation
Indices: 7674811--7675148 Score: 158
Period size: 14 Copynumber: 25.3 Consensus size: 14
7674801 ATTAGTAATA
7674811 ATTATTAAATCATT
1 ATTATTAAATCATT
*
7674825 AGTATTAAATCATT
1 ATTATTAAATCATT
*
7674839 ATTA-TAAA--ATC
1 ATTATTAAATCATT
*
7674850 ATTACTAAATC---
1 ATTATTAAATCATT
7674861 ATTATTAAATCATT
1 ATTATTAAATCATT
*
7674875 ACTATTAAATCATT
1 ATTATTAAATCATT
*
7674889 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
7674901 ATTAATAAATC---
1 ATTATTAAATCATT
7674912 ATTATT--ATCATT
1 ATTATTAAATCATT
7674924 ATTATTAAATCATT
1 ATTATTAAATCATT
* *
7674938 ATTA-T-AATGACT
1 ATTATTAAATCATT
* * *
7674950 ACTAATAAATTATT
1 ATTATTAAATCATT
*
7674964 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
7674976 ATTATCAAATCATT
1 ATTATTAAATCATT
*
7674990 ACTAAATCTTCAAATCATT
1 A-T---TATT-AAATCATT
7675009 AAATT-TTAAA--ATT
1 --ATTATTAAATCATT
7675022 ATTATTAAATCATT
1 ATTATTAAATCATT
*
7675036 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
7675048 ATTATCAAATCATT
1 ATTATTAAATCATT
*
7675062 ACTAAATCATCAAATCATT
1 A-T---T-ATTAAATCATT
* *
7675081 AAATATTAAA--AAT
1 -ATTATTAAATCATT
7675094 ATTATTAAATCATT
1 ATTATTAAATCATT
*
7675108 ATTA-T-AATGATT
1 ATTATTAAATCATT
* *
7675120 ATTACT--AT-ATC
1 ATTATTAAATCATT
7675131 ATTATTAAATCATT
1 ATTATTAAATCATT
7675145 ATTA
1 ATTA
7675149 AGTCATAATA
Statistics
Matches: 251, Mismatches: 32, Indels: 82
0.69 0.09 0.22
Matches are distributed among these distances:
9 3 0.01
11 31 0.12
12 73 0.29
13 19 0.08
14 86 0.34
15 10 0.04
16 3 0.01
17 1 0.00
18 3 0.01
19 19 0.08
20 2 0.01
21 1 0.00
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (14 bp):
ATTATTAAATCATT
Found at i:7674915 original size:23 final size:24
Alignment explanation
Indices: 7674889--7674990 Score: 82
Period size: 26 Copynumber: 4.2 Consensus size: 24
7674879 TTAAATCATT
7674889 ATTATAATGATTATTAAT-AAATC
1 ATTATAATGATTATTAATAAAATC
* * * *
7674912 ATTATTATCATTATTATTAAATCATT
1 ATTATAATGATTATTAATAAA--ATC
* * *
7674938 ATTATAATGACTACTAATAAATTATT
1 ATTATAATGATTATTAATAAA--ATC
*
7674964 ATTATAATGATTATT-ATCAAATC
1 ATTATAATGATTATTAATAAAATC
7674987 ATTA
1 ATTA
7674991 CTAAATCTTC
Statistics
Matches: 62, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
23 21 0.34
24 2 0.03
25 4 0.06
26 35 0.56
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (24 bp):
ATTATAATGATTATTAATAAAATC
Found at i:7675031 original size:35 final size:35
Alignment explanation
Indices: 7674982--7675284 Score: 310
Period size: 35 Copynumber: 8.5 Consensus size: 35
7674972 GATTATTATC
* * *
7674982 AAATCATTACTAAATCTTCAAATCATTAAATTTTA
1 AAATCATTATTAAATCATCAAATCATTAAATATTA
* * * * * *
7675017 AAATTATTATTAAATCATTATTAT-AATGATTATTA
1 AAATCATTATTAAATCATCA-AATCATTAAATATTA
*
7675052 TCAAATCATTACTAAATCATCAAATCATTAAATATTAA
1 --AAATCATTATTAAATCATCAAATCATTAAATATT-A
* * * * *
7675090 AAAT-ATTATTAAATCATTATTAT-AATGATTATTA
1 AAATCATTATTAAATCATCA-AATCATTAAATATTA
* *
7675124 CTATATCATTATTAAATCATTATTAAGTCA-T-AATATTA
1 --AAATCATTATTAAATCATCA--AA-TCATTAAATATTA
*
7675162 AAATCATTACTAAATCATCAAATCATTAAATATTA
1 AAATCATTATTAAATCATCAAATCATTAAATATTA
7675197 AAATCATTATTAAATCATCAAATCATTAAATATTA
1 AAATCATTATTAAATCATCAAATCATTAAATATTA
*
7675232 AAATCATTACTAAATCATCAAATCATTAAATATTA
1 AAATCATTATTAAATCATCAAATCATTAAATATTA
7675267 AAATCATTATTAAATCAT
1 AAATCATTATTAAATCAT
7675285 TTTTATGGTT
Statistics
Matches: 223, Mismatches: 31, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
33 3 0.01
34 4 0.02
35 135 0.61
36 30 0.13
37 39 0.17
38 9 0.04
39 2 0.01
40 1 0.00
ACGTcount: A:0.48, C:0.11, G:0.01, T:0.40
Consensus pattern (35 bp):
AAATCATTATTAAATCATCAAATCATTAAATATTA
Found at i:7675048 original size:12 final size:12
Alignment explanation
Indices: 7675022--7675179 Score: 80
Period size: 11 Copynumber: 13.2 Consensus size: 12
7675012 TTTTAAAATT
7675022 ATTATTA-AATC
1 ATTATTATAATC
*
7675033 ATTATTATAATG
1 ATTATTATAATC
7675045 ATTATTATCAAATC
1 ATTATTAT--AATC
*
7675059 ATTACTA-AATC
1 ATTATTATAATC
* * * *
7675070 ATCA-AATCATTA
1 ATTATTAT-AATC
* *
7675082 AATATTAAAAAT-
1 ATTATT-ATAATC
7675094 ATTATTA-AATC
1 ATTATTATAATC
*
7675105 ATTATTATAATG
1 ATTATTATAATC
7675117 ATTATTACTATATC
1 ATTATTA-TA-ATC
7675131 ATTATTA-AATC
1 ATTATTATAATC
*
7675142 ATTATTA-AGTC
1 ATTATTATAATC
*
7675153 ATAATATTAAAATC
1 AT--TATTATAATC
*
7675167 ATTACTA-AATC
1 ATTATTATAATC
7675178 AT
1 AT
7675180 CAAATCATTA
Statistics
Matches: 115, Mismatches: 18, Indels: 28
0.71 0.11 0.17
Matches are distributed among these distances:
10 4 0.03
11 43 0.37
12 35 0.30
13 9 0.08
14 24 0.21
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.42
Consensus pattern (12 bp):
ATTATTATAATC
Found at i:7675054 original size:72 final size:72
Alignment explanation
Indices: 7674955--7675249 Score: 334
Period size: 72 Copynumber: 4.1 Consensus size: 72
7674945 TGACTACTAA
* * *
7674955 TAAATTATTATTATAATGATTATTATCAAATCATTACTAAATCTTCAAATCATTAAATTTTAAAA
1 TAAATCATTATTATAATGATTATTATCAAATCATTATTAAATCTTCAAATCATTAAATATTAAAA
7675020 TTATTAT
66 TTATTAT
* *
7675027 TAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTAAAA
1 TAAATCATTATTATAATGATTATTATCAAATCATTATTAAATCTTCAAATCATTAAATATTAAAA
*
7675092 ATATTAT
66 TTATTAT
*
7675099 TAAATCATTATTATAATGATTATTA-CTATATCATTATTAAATCATT-ATTAAGTCA-T-AATAT
1 TAAATCATTATTATAATGATTATTATC-AAATCATTATTAAATC-TTCA--AA-TCATTAAATAT
* *
7675160 TAAAATCATTAC
61 TAAAATTATTAT
* * * * * *
7675172 TAAATCATCA-AATCATTAAATATTA--AAATCATTATTAAATCATCAAATCATTAAATATTAAA
1 TAAATCATTATTAT-AATGATTATTATCAAATCATTATTAAATCTTCAAATCATTAAATATTAAA
* *
7675234 ATCATTAC
65 ATTATTAT
7675242 TAAATCAT
1 TAAATCAT
7675250 CAAATCATTA
Statistics
Matches: 197, Mismatches: 17, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
68 3 0.02
69 3 0.02
70 26 0.13
71 17 0.09
72 110 0.56
73 32 0.16
74 3 0.02
75 3 0.02
ACGTcount: A:0.47, C:0.10, G:0.01, T:0.41
Consensus pattern (72 bp):
TAAATCATTATTATAATGATTATTATCAAATCATTATTAAATCTTCAAATCATTAAATATTAAAA
TTATTAT
Found at i:7675231 original size:108 final size:107
Alignment explanation
Indices: 7674982--7675284 Score: 350
Period size: 108 Copynumber: 2.8 Consensus size: 107
7674972 GATTATTATC
* * * * * *
7674982 AAATCATTACTAAATCTTCAAATCATTAAATTTTAAAATTATTATTAAATCATTATT-ATAATGA
1 AAATCATTATTAAATCATCAAATCATTAAATATTAAAATCATTATTAAATCATTATTAATCATAA
*
7675046 TTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTAA
66 ATATTA--AAATCATTACTAAATCATCAAATCATTAAATATTAA
* * * * * *
7675090 AAAT-ATTATTAAATCATTATTAT-AATGATTATTACTATATCATTATTAAATCATTATTAAGTC
1 AAATCATTATTAAATCATCA-AATCATTAAATATTA--AAATCATTATTAAATCATTATTAA-TC
7675153 AT-AATATTAAAATCATTACTAAATCATCAAATCATTAAATATT-A
62 ATAAATATTAAAATCATTACTAAATCATCAAATCATTAAATATTAA
* *
7675197 AAATCATTATTAAATCATCAAATCATTAAATATTAAAATCATTACTAAATCATCA--AATCATTA
1 AAATCATTATTAAATCATCAAATCATTAAATATTAAAATCATTATTAAATCATTATTAATCA-TA
*
7675260 AATATTAAAATCATTATTAAATCAT
65 AATATTAAAATCATTACTAAATCAT
7675285 TTTTATGGTT
Statistics
Matches: 165, Mismatches: 21, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
103 3 0.02
104 3 0.02
105 24 0.15
106 17 0.10
107 26 0.16
108 62 0.38
109 20 0.12
110 7 0.04
111 3 0.02
ACGTcount: A:0.48, C:0.11, G:0.01, T:0.40
Consensus pattern (107 bp):
AAATCATTATTAAATCATCAAATCATTAAATATTAAAATCATTATTAAATCATTATTAATCATAA
ATATTAAAATCATTACTAAATCATCAAATCATTAAATATTAA
Found at i:7675270 original size:8 final size:9
Alignment explanation
Indices: 7675158--7675285 Score: 94
Period size: 8 Copynumber: 14.3 Consensus size: 9
7675148 AAGTCATAAT
7675158 ATTAAAATC
1 ATTAAAATC
7675167 ATTACTAAATC
1 ATTA--AAATC
*
7675178 A-TCAAATC
1 ATTAAAATC
7675186 ATT-AAAT-
1 ATTAAAATC
7675193 ATTAAAATC
1 ATTAAAATC
7675202 ATTATTAAATC
1 ATTA--AAATC
*
7675213 A-TCAAATC
1 ATTAAAATC
7675221 ATT-AAAT-
1 ATTAAAATC
7675228 ATTAAAATC
1 ATTAAAATC
7675237 ATTACTAAATC
1 ATTA--AAATC
*
7675248 A-TCAAATC
1 ATTAAAATC
7675256 ATT-AAAT-
1 ATTAAAATC
7675263 ATTAAAATC
1 ATTAAAATC
7675272 ATTATTAAATC
1 ATTA--AAATC
7675283 ATT
1 ATT
7675286 TTTATGGTTA
Statistics
Matches: 99, Mismatches: 3, Indels: 32
0.74 0.02 0.24
Matches are distributed among these distances:
7 9 0.09
8 42 0.42
9 19 0.19
10 3 0.03
11 26 0.26
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (9 bp):
ATTAAAATC
Found at i:7675555 original size:49 final size:49
Alignment explanation
Indices: 7675487--7675705 Score: 357
Period size: 49 Copynumber: 4.4 Consensus size: 49
7675477 TCATTATTAC
* * *
7675487 TAATAATTACTAAATCATTACTATCAAATCATTAAATATTAACAATAATT
1 TAATTATTACT-AATCATTACTACCAAATCATTAAATATTAATAATAATT
*
7675537 TAATTATTACTAATCATTACTACCAAATCATTGAATATTAATAATAATT
1 TAATTATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATT
7675586 TAATTATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATT
1 TAATTATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATT
* * *
7675635 TCATTATTCCTAATCATTACTATCAAATCATTAAATATTAATAATAATT
1 TAATTATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATT
*
7675684 TCATTATTACTAATCATTACTA
1 TAATTATTACTAATCATTACTA
7675706 AATATTATTA
Statistics
Matches: 160, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
49 150 0.94
50 10 0.06
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.41
Consensus pattern (49 bp):
TAATTATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATT
Found at i:7675638 original size:22 final size:22
Alignment explanation
Indices: 7675613--7675689 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
7675603 TACTACCAAA
7675613 TCATTAAATATTAATAATAATT
1 TCATTAAATATTAATAATAATT
* *
7675635 TCATTATTCCTAATCATTACT-ATCAA-A
1 TCATTA-----AAT-ATTAATAAT-AATT
7675662 TCATTAAATATTAATAATAATT
1 TCATTAAATATTAATAATAATT
7675684 TCATTA
1 TCATTA
7675690 TTACTAATCA
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
21 7 0.17
22 17 0.40
27 11 0.26
28 7 0.17
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (22 bp):
TCATTAAATATTAATAATAATT
Found at i:7675736 original size:49 final size:48
Alignment explanation
Indices: 7675492--7675741 Score: 342
Period size: 49 Copynumber: 5.1 Consensus size: 48
7675482 ATTACTAATA
* *
7675492 ATTACTAAATCATTACTATCAAATCATTAAATATTAACAATAATTTAATT
1 ATTACT-AATCATTACTA-CAAATCATTAAATATTAATAATAATTTCATT
* *
7675542 ATTACTAATCATTACTACCAAATCATTGAATATTAATAATAATTTAATT
1 ATTACTAATCATTACTA-CAAATCATTAAATATTAATAATAATTTCATT
7675591 ATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACTA-CAAATCATTAAATATTAATAATAATTTCATT
*
7675640 ATTCCTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACTA-CAAATCATTAAATATTAATAATAATTTCATT
* * *
7675689 ATTACTAATCATTACTA-AATATTATTATAATTTTAA-ATATAAATTCATT
1 ATTACTAATCATTACTACAA-ATCATTA-AATATTAATA-ATAATTTCATT
7675738 ATTA
1 ATTA
7675742 AATCCTGATT
Statistics
Matches: 186, Mismatches: 11, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
47 2 0.01
48 7 0.04
49 171 0.92
50 6 0.03
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (48 bp):
ATTACTAATCATTACTACAAATCATTAAATATTAATAATAATTTCATT
Found at i:7679512 original size:43 final size:47
Alignment explanation
Indices: 7679459--7679566 Score: 127
Period size: 50 Copynumber: 2.3 Consensus size: 47
7679449 AAAGACACTA
* *
7679459 AAAAATTAATTAATTATTTTTT-TAT-AT-T-TA-ATAACTTAAACT
1 AAAAACTAATTAATAATTTTTTATATAATATATATATAACTTAAACT
7679501 AAGAAACTAATTAACTAATTTTTTATATAATATAATATATAACTTAAACT
1 AA-AAACTAATTAA-TAATTTTTTATATAATAT-ATATATAACTTAAACT
7679551 AAAAACTAATATAATA
1 AAAAACTAAT-TAATA
7679567 TAACTTAAAC
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
42 2 0.04
43 10 0.18
44 8 0.15
45 3 0.05
46 2 0.04
47 1 0.02
49 12 0.22
50 17 0.31
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (47 bp):
AAAAACTAATTAATAATTTTTTATATAATATATATATAACTTAAACT
Found at i:7679575 original size:27 final size:30
Alignment explanation
Indices: 7679528--7679589 Score: 103
Period size: 27 Copynumber: 2.2 Consensus size: 30
7679518 ATTTTTTATA
7679528 TAATATAATATATAACTTAAACTAA-AAAC
1 TAATATAATATATAACTTAAACTAACAAAC
7679557 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
7679585 TAATA
1 TAATA
7679590 ATTTATACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
27 16 0.50
28 10 0.31
29 6 0.19
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:7679590 original size:21 final size:21
Alignment explanation
Indices: 7679566--7679614 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
7679556 CTAATATAAT
7679566 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* * *
7679587 ATAATTTATACTAATAAACTA
1 ATAACTTAAACTAACAAACTA
7679608 ATTAACT
1 A-TAACT
7679615 AAATTTTAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:7689411 original size:25 final size:25
Alignment explanation
Indices: 7689373--7689422 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
7689363 CCTTAGTTTC
*
7689373 CTTTATTCCGTATAGTCTGAAGTAA
1 CTTTATTCCATATAGTCTGAAGTAA
7689398 CTTTATTCCATATAGTCTGAAGTAA
1 CTTTATTCCATATAGTCTGAAGTAA
7689423 GCATGTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (25 bp):
CTTTATTCCATATAGTCTGAAGTAA
Found at i:7692578 original size:21 final size:21
Alignment explanation
Indices: 7692528--7692579 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
7692518 CTAAAACTAT
*
7692528 AAAA-TATATATTATATTTCA
1 AAAACTATATAATATATTTCA
*
7692548 AAAACAATATAATATATTTCA
1 AAAACTATATAATATATTTCA
* *
7692569 AAGATTATATA
1 AAAACTATATA
7692580 TATTATATAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (21 bp):
AAAACTATATAATATATTTCA
Found at i:7692619 original size:39 final size:38
Alignment explanation
Indices: 7692576--7692674 Score: 107
Period size: 38 Copynumber: 2.6 Consensus size: 38
7692566 TCAAAGATTA
7692576 TATATATTATATACGTTTTTAAAAAT-CGTTTTAAAAAAC
1 TATATATTATAT--GTTTTTAAAAATACGTTTTAAAAAAC
* * *
7692615 TATATA-TATATGTTTTCAAAATAATATGTTTTCAAAAAC
1 TATATATTATATGTTTT-TAAA-AATACGTTTTAAAAAAC
7692654 --TATATTATATGTTTTTAAAAA
1 TATATATTATATGTTTTTAAAAA
7692675 CTATATTATA
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
36 7 0.13
37 10 0.19
38 18 0.35
39 17 0.33
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.45
Consensus pattern (38 bp):
TATATATTATATGTTTTTAAAAATACGTTTTAAAAAAC
Found at i:7692658 original size:17 final size:15
Alignment explanation
Indices: 7692620--7692651 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
7692610 AAAACTATAT
7692620 ATATATGTTTTCAAA
1 ATATATGTTTTCAAA
7692635 ATAATATGTTTTCAAA
1 AT-ATATGTTTTCAAA
7692651 A
1 A
7692652 ACTATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (15 bp):
ATATATGTTTTCAAA
Found at i:7692692 original size:24 final size:22
Alignment explanation
Indices: 7692603--7692690 Score: 98
Period size: 22 Copynumber: 4.2 Consensus size: 22
7692593 TTTAAAAATC
*
7692603 GTTTTAAAAAACTATATATATAT
1 GTTTTCAAAAACTATAT-TATAT
7692626 GTTTTC--AAA--ATA--ATAT
1 GTTTTCAAAAACTATATTATAT
7692642 GTTTTCAAAAACTATATTATAT
1 GTTTTCAAAAACTATATTATAT
*
7692664 GTTTTTAAAAACTATATTATAT
1 GTTTTCAAAAACTATATTATAT
*
7692686 ATTTT
1 GTTTT
7692691 TTCCAAAAAC
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
16 10 0.18
18 3 0.05
19 3 0.05
20 3 0.05
21 3 0.05
22 29 0.52
23 5 0.09
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.48
Consensus pattern (22 bp):
GTTTTCAAAAACTATATTATAT
Found at i:7692698 original size:24 final size:24
Alignment explanation
Indices: 7692638--7692700 Score: 85
Period size: 22 Copynumber: 2.7 Consensus size: 24
7692628 TTTCAAAATA
*
7692638 ATATGTTTTCAAAAACTATATTAT
1 ATATTTTTTCAAAAACTATATTAT
*
7692662 AT-GTTTTT-AAAAACTATATTAT
1 ATATTTTTTCAAAAACTATATTAT
7692684 ATATTTTTTCCAAAAAC
1 ATATTTTTT-CAAAAAC
7692701 CATTTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 16 0.48
23 9 0.27
24 2 0.06
25 6 0.18
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (24 bp):
ATATTTTTTCAAAAACTATATTAT
Found at i:7692754 original size:98 final size:96
Alignment explanation
Indices: 7692578--7692787 Score: 278
Period size: 98 Copynumber: 2.1 Consensus size: 96
7692568 AAAGATTATA
* * * *
7692578 TATATTATATACGTTTTTAAAAATCGTTTTAAAAAACTATATATATATGTTTTCAAAATAATATG
1 TATATTATATA-TTTTTTAAAAACCATTTTAAAAAACTATATATATATGTTTTCAAAAT-ATAAG
* * *
7692643 TTTTCAAAAACTATATTATATGTTTTTAAAAAC
64 TTTTCAAAAACTATACTATATATTTTCAAAAAC
* *
7692676 TATATTATATATTTTTTCCAAAAACCATTTTAAAAAATTGTATACTATATGTTTTCAAAAT-TAA
1 TATATTATATATTTTTT--AAAAACCATTTTAAAAAACTATATA-TATATGTTTTCAAAATATAA
7692740 GTTTTCAAAAACTATACTATATATTTTCAAAAAC
63 GTTTTCAAAAACTATACTATATATTTTCAAAAAC
7692774 TATATATATATATT
1 TATAT-TATATATT
7692788 ATATATTTTT
Statistics
Matches: 99, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
97 5 0.05
98 49 0.49
99 29 0.29
100 16 0.16
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.45
Consensus pattern (96 bp):
TATATTATATATTTTTTAAAAACCATTTTAAAAAACTATATATATATGTTTTCAAAATATAAGTT
TTCAAAAACTATACTATATATTTTCAAAAAC
Found at i:7692781 original size:21 final size:22
Alignment explanation
Indices: 7692741--7692784 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
7692731 CAAAATTAAG
7692741 TTTTCAAAAACTATACTATATA
1 TTTTCAAAAACTATACTATATA
7692763 TTTTCAAAAACTATA-TATATA
1 TTTTCAAAAACTATACTATATA
7692784 T
1 T
7692785 ATTATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTCAAAAACTATACTATATA
Found at i:7692834 original size:23 final size:24
Alignment explanation
Indices: 7692777--7692836 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 24
7692767 CAAAAACTAT
*
7692777 ATATATATATTATATATTTTTGTA
1 ATATATATATTATATATTATTGTA
*
7692801 AT-TAT-TA-TATATA-TATTGTC
1 ATATATATATTATATATTATTGTA
7692821 ATATATATATTATATA
1 ATATATATATTATATA
7692837 ATGTAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 7 0.23
21 9 0.29
22 4 0.13
23 9 0.29
24 2 0.06
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (24 bp):
ATATATATATTATATATTATTGTA
Found at i:7693825 original size:21 final size:21
Alignment explanation
Indices: 7693801--7693840 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7693791 ATCCAGAACC
7693801 TACTCTGACGTATCAGACTTT
1 TACTCTGACGTATCAGACTTT
*
7693822 TACTCTGACTTATCAGACT
1 TACTCTGACGTATCAGACT
7693841 CTTGCTCATT
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:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (21 bp):
TACTCTGACGTATCAGACTTT
Found at i:7698328 original size:28 final size:28
Alignment explanation
Indices: 7698288--7698380 Score: 105
Period size: 28 Copynumber: 3.2 Consensus size: 28
7698278 TTCCTGTTTT
**
7698288 TGTATGGGATTTATTCCCTTATCTATTA
1 TGTATGGGATTTATTCCCCAATCTATTA
* *
7698316 TGTATGGGATTTATTCCCCCCAATCTTTTC
1 TGTATGGGATTTATT--CCCCAATCTATTA
* * *
7698346 TGTATGGGATTTATTCCCCGATTTATTC
1 TGTATGGGATTTATTCCCCAATCTATTA
7698374 TGTATGG
1 TGTATGG
7698381 AATTATATCC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
28 32 0.57
30 24 0.43
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.46
Consensus pattern (28 bp):
TGTATGGGATTTATTCCCCAATCTATTA
Found at i:7698352 original size:30 final size:29
Alignment explanation
Indices: 7698284--7698364 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 29
7698274 TACATTCCTG
**
7698284 TTTTTGTATGGGATTTATT--CCCTTATC
1 TTTTTGTATGGGATTTATTCCCCCCAATC
*
7698311 TATTATGTATGGGATTTATTCCCCCCAATC
1 T-TTTTGTATGGGATTTATTCCCCCCAATC
7698341 TTTTCTGTATGGGATTTATTCCCC
1 TTTT-TGTATGGGATTTATTCCCC
7698365 GATTTATTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.02
28 17 0.37
29 2 0.04
30 26 0.57
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.48
Consensus pattern (29 bp):
TTTTTGTATGGGATTTATTCCCCCCAATC
Found at i:7698766 original size:21 final size:23
Alignment explanation
Indices: 7698740--7698781 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
7698730 TGTTATTTAT
*
7698740 TTTTTATTGG-TTTT-GTTTACA
1 TTTTTATGGGATTTTGGTTTACA
7698761 TTTTTATGGGATTTTGGTTTA
1 TTTTTATGGGATTTTGGTTTA
7698782 TAGGTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 4 0.22
23 5 0.28
ACGTcount: A:0.14, C:0.02, G:0.19, T:0.64
Consensus pattern (23 bp):
TTTTTATGGGATTTTGGTTTACA
Found at i:7699759 original size:21 final size:21
Alignment explanation
Indices: 7699720--7699761 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
7699710 CTTGAACCGT
7699720 CATGTCGGCAACGTGAACTAC
1 CATGTCGGCAACGTGAACTAC
7699741 CATGTCGGCAACGTGAACTAC
1 CATGTCGGCAACGTGAACTAC
7699762 TAACGATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.19
Consensus pattern (21 bp):
CATGTCGGCAACGTGAACTAC
Found at i:7701650 original size:60 final size:59
Alignment explanation
Indices: 7701544--7701665 Score: 145
Period size: 60 Copynumber: 2.1 Consensus size: 59
7701534 CACCTGTCAT
* * * * *
7701544 AATGATCCACAACTATAAGATTTTATTTTATTGAATCCTTCGATTATTAAAAATTATAA
1 AATGATCCACAACTATAAAATATTATTTTATTGAATCCTCCAATTATTAAAAATTACAA
* * * * *
7701603 AATGATCCACCAATTATAAAATATTCTTTTCTTGAGTCCTCCAATTATTAAAAGTTACAA
1 AATGATCCA-CAACTATAAAATATTATTTTATTGAATCCTCCAATTATTAAAAATTACAA
7701663 AAT
1 AAT
7701666 AGTCACCCAA
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
59 9 0.17
60 43 0.83
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.39
Consensus pattern (59 bp):
AATGATCCACAACTATAAAATATTATTTTATTGAATCCTCCAATTATTAAAAATTACAA
Found at i:7705521 original size:39 final size:39
Alignment explanation
Indices: 7705477--7705601 Score: 191
Period size: 39 Copynumber: 3.2 Consensus size: 39
7705467 TAATTCGGAT
*
7705477 AAACTTTCACTTAGTGTCCTTACACACTAGTGCTAATAG
1 AAACTTGCACTTAGTGTCCTTACACACTAGTGCTAATAG
*
7705516 AAACTTGGACTTAGTGTCCTTACACACTAGTGCTAAT-G
1 AAACTTGCACTTAGTGTCCTTACACACTAGTGCTAATAG
*
7705554 TAAAC-TGCACTTAGTGTCCTTACACACTAGTGCTAATAT
1 -AAACTTGCACTTAGTGTCCTTACACACTAGTGCTAATAG
*
7705593 AAACCTGCA
1 AAACTTGCA
7705602 GTTGCTATAC
Statistics
Matches: 79, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
38 36 0.46
39 43 0.54
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (39 bp):
AAACTTGCACTTAGTGTCCTTACACACTAGTGCTAATAG
Found at i:7707021 original size:20 final size:19
Alignment explanation
Indices: 7706984--7707028 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
7706974 CAAAATAATC
*
7706984 AAATTTCACACCCTAACAT
1 AAATTTCACACCCAAACAT
*
7707003 AAATTTCAACACTCAAACAT
1 AAATTTC-ACACCCAAACAT
*
7707023 CAATTT
1 AAATTT
7707029 ATAGCATATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (19 bp):
AAATTTCACACCCAAACAT
Found at i:7708235 original size:10 final size:10
Alignment explanation
Indices: 7708220--7708249 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
7708210 CATTTTGGTC
7708220 TCTAAACTTT
1 TCTAAACTTT
7708230 TCTAAACTTT
1 TCTAAACTTT
7708240 TCTAAACTTT
1 TCTAAACTTT
7708250 ATACTTTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (10 bp):
TCTAAACTTT
Found at i:7709841 original size:20 final size:22
Alignment explanation
Indices: 7709806--7709846 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
7709796 GAACTCACTC
*
7709806 ACTTTGGGTATTGATA-TCAAG
1 ACTTTGGGTATGGATACTCAAG
7709827 ACTTT-GGTATGGATACTCAA
1 ACTTTGGGTATGGATACTCAA
7709847 TCTTATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (22 bp):
ACTTTGGGTATGGATACTCAAG
Found at i:7712577 original size:16 final size:16
Alignment explanation
Indices: 7712553--7712584 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7712543 TTCATTCAAG
7712553 CTTTCCATGACATTTA
1 CTTTCCATGACATTTA
*
7712569 CTTTTCATGACATTTA
1 CTTTCCATGACATTTA
7712585 GATAGATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (16 bp):
CTTTCCATGACATTTA
Found at i:7714023 original size:12 final size:12
Alignment explanation
Indices: 7714008--7714032 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7713998 TGTTCGGTTA
7714008 AATGTTTGAATG
1 AATGTTTGAATG
7714020 AATGTTTGAATG
1 AATGTTTGAATG
7714032 A
1 A
7714033 TGATTTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
AATGTTTGAATG
Found at i:7720280 original size:10 final size:9
Alignment explanation
Indices: 7720245--7720293 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
7720235 AGTTGGTGGC
*
7720245 TTTTCATCT
1 TTTTCTTCT
*
7720254 TTGTCTTCT
1 TTTTCTTCT
*
7720263 CTTTCTTCT
1 TTTTCTTCT
7720272 TTCTTCTTCT
1 TT-TTCTTCT
*
7720282 TTATCTTCT
1 TTTTCTTCT
7720291 TTT
1 TTT
7720294 CTTGCCCTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
9 23 0.72
10 9 0.28
ACGTcount: A:0.04, C:0.24, G:0.02, T:0.69
Consensus pattern (9 bp):
TTTTCTTCT
Found at i:7729178 original size:20 final size:20
Alignment explanation
Indices: 7729149--7729187 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7729139 AGAGCTCATA
*
7729149 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
7729169 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
7729188 GTGGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:7737740 original size:20 final size:20
Alignment explanation
Indices: 7737711--7737749 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7737701 AGAGCTCATA
*
7737711 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
7737731 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
7737750 GTGGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:7742060 original size:32 final size:32
Alignment explanation
Indices: 7742015--7742101 Score: 165
Period size: 32 Copynumber: 2.7 Consensus size: 32
7742005 TTCATATTCT
7742015 CCTAGTTTCTCTCGAACACTAAGGATCCTTAA
1 CCTAGTTTCTCTCGAACACTAAGGATCCTTAA
*
7742047 CCTAGTTTTTCTCGAACACTAAGGATCCTTAA
1 CCTAGTTTCTCTCGAACACTAAGGATCCTTAA
7742079 CCTAGTTTCTCTCGAACACTAAG
1 CCTAGTTTCTCTCGAACACTAAG
7742102 TATTATACTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.32
Consensus pattern (32 bp):
CCTAGTTTCTCTCGAACACTAAGGATCCTTAA
Found at i:7743817 original size:2 final size:2
Alignment explanation
Indices: 7743812--7744145 Score: 279
Period size: 2 Copynumber: 175.0 Consensus size: 2
7743802 ATATAACATC
* *
7743812 AT AT AT -T AT AT AT AT AT A- AT AT AT -T TT AT AT -T AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
7743850 AT AT -T AT AT GAT AT AGT AT GT GT -T AT AT -T AT AT A- AT AT -T
1 AT AT AT AT AT -AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
*
7743889 AT -T AT AT A- AT AT -T AT AT -T AT AT GT AT AT -T AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
7743925 AT AGT AT -T AT -T AC AC AT -T AT AT AGT AT AT CAT -T AT AT -T
1 AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT -AT AT AT AT AT
* * *
7743963 TT AT AGT AT TT AT AT AGT AT TT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
7744006 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
*
7744048 AT AT AT AT AT -T AT AT AGT AT AT AT AT ACT -T AT AC AT -T AT -T
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT
*
7744088 AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AGT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
*
7744130 AT AT TT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
7744146 CATTTTATTA
Statistics
Matches: 277, Mismatches: 19, Indels: 72
0.75 0.05 0.20
Matches are distributed among these distances:
1 26 0.09
2 232 0.84
3 19 0.07
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:7744784 original size:19 final size:20
Alignment explanation
Indices: 7744760--7744800 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
7744750 AAAGAAAAGG
*
7744760 AAAAGAAA-AAGAAAATAAC
1 AAAAGAAAGAAAAAAATAAC
7744779 AAAAGAAAGTAAAAAAATAAC
1 AAAAGAAAG-AAAAAAATAAC
7744800 A
1 A
7744801 TAAATCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
21 11 0.58
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (20 bp):
AAAAGAAAGAAAAAAATAAC
Found at i:7751050 original size:16 final size:16
Alignment explanation
Indices: 7751029--7751060 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7751019 AACTTTTAGT
7751029 CAATGGTCAAAGTCAA
1 CAATGGTCAAAGTCAA
7751045 CAATGGTCAAAGTCAA
1 CAATGGTCAAAGTCAA
7751061 AGTCAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (16 bp):
CAATGGTCAAAGTCAA
Found at i:7751826 original size:90 final size:89
Alignment explanation
Indices: 7751688--7751862 Score: 251
Period size: 90 Copynumber: 2.0 Consensus size: 89
7751678 CCTAACACAC
* * * * * *
7751688 CCTTTTATAGCCAAGTTACCTTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATTTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAAGGATTTTATTATTTCAAATTAATTAAATCTAT
*
7751753 ATTTAATTAATTAGAATTTAATAAT
66 ATTTAATTAATT-GAAATTAATAAT
**
7751778 CCTTTTATATTCAAGTTACCCTAATCATATCAAGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAAGGATTTTATTATTTCAAATTAATTAAATCTAT
*
7751843 ATTTATTTAATTGAAATTAA
66 ATTTAATTAATTGAAATTAA
7751863 ATATTCGGGA
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
89 7 0.09
90 68 0.91
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAAGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAATAAT
Found at i:7758585 original size:88 final size:89
Alignment explanation
Indices: 7758424--7758588 Score: 269
Period size: 89 Copynumber: 1.9 Consensus size: 89
7758414 CCTAACACAC
* * *
7758424 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
7758489 ATTTAATTAATTAGAATGAATAAT
66 ATTTAATTAATTAGAATGAATAAT
* * *
7758513 CCTTTTATATCCGAGTTACCCTAATCATATCAGGGATTTTA-TATTTCAAATTAATTAAATTTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
7758577 ATTTAATTAATT
66 ATTTAATTAATT
7758589 GAAATTAAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 34 0.49
89 36 0.51
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTAGAATGAATAAT
Found at i:7758586 original size:20 final size:22
Alignment explanation
Indices: 7758550--7758594 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
7758540 TATCAGGGAT
7758550 TTTATATTTCAAATTAATT-AAA
1 TTTATATTT-AAATTAATTGAAA
7758572 TTTATATTT-AATTAATTGAAA
1 TTTATATTTAAATTAATTGAAA
7758593 TT
1 TT
7758595 AAATATTCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 5 0.23
22 9 0.41
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTATATTTAAATTAATTGAAA
Found at i:7765049 original size:20 final size:20
Alignment explanation
Indices: 7765024--7765071 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
7765014 TGTTTATGGG
* *
7765024 TATCGATATTGACCCTTCAA
1 TATCGATATAGAACCTTCAA
* *
7765044 TATCGATATAGAACCTTGAG
1 TATCGATATAGAACCTTCAA
7765064 TATCGATA
1 TATCGATA
7765072 CTCACATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (20 bp):
TATCGATATAGAACCTTCAA
Found at i:7773091 original size:20 final size:20
Alignment explanation
Indices: 7773046--7773094 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
7773036 TTTTATGTGG
* *
7773046 GTATCAATATTGACCCTTGA
1 GTATCGATATTGAACCTTGA
7773066 GTATCGATATTGAACCTTGA
1 GTATCGATATTGAACCTTGA
7773086 GTATCGATA
1 GTATCGATA
7773095 CTCACCAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (20 bp):
GTATCGATATTGAACCTTGA
Found at i:7774060 original size:16 final size:15
Alignment explanation
Indices: 7774018--7774063 Score: 83
Period size: 15 Copynumber: 3.0 Consensus size: 15
7774008 GGGAAAAGAC
7774018 AAAAGAGAATGAGGA
1 AAAAGAGAATGAGGA
7774033 AAAAGAGAATGAGGA
1 AAAAGAGAATGAGGA
7774048 AAAAGAGAGATGAGGA
1 AAAAGAGA-ATGAGGA
7774064 CAACGTGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 23 0.77
16 7 0.23
ACGTcount: A:0.59, C:0.00, G:0.35, T:0.07
Consensus pattern (15 bp):
AAAAGAGAATGAGGA
Found at i:7779830 original size:16 final size:16
Alignment explanation
Indices: 7779809--7779850 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
7779799 CGTTCTAGAT
7779809 ATAAAAGAATAGAG-AA
1 ATAAAA-AATAGAGAAA
*
7779825 ATAAAAAAGAGAGAAA
1 ATAAAAAATAGAGAAA
7779841 ATAAAAAATA
1 ATAAAAAATA
7779851 AAAGAATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (16 bp):
ATAAAAAATAGAGAAA
Found at i:7781595 original size:23 final size:22
Alignment explanation
Indices: 7781545--7781602 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
7781535 TATTTTATAA
7781545 ATATAGTATTTATAATACCTAT
1 ATATAGTATTTATAATACCTAT
*
7781567 ATTATAGTATATATATAATATC-AT
1 A-TATAGTAT-T-TATAATACCTAT
7781591 ATATA-T-TTTATA
1 ATATAGTATTTATA
7781603 TTACATACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
19 4 0.12
20 1 0.03
21 1 0.03
22 2 0.06
23 12 0.38
24 4 0.12
25 8 0.25
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.48
Consensus pattern (22 bp):
ATATAGTATTTATAATACCTAT
Found at i:7781682 original size:22 final size:22
Alignment explanation
Indices: 7781646--7781801 Score: 85
Period size: 22 Copynumber: 7.0 Consensus size: 22
7781636 TACTATATTT
7781646 ATATTATA-TTATATTATTATA
1 ATATTATATTTATATTATTATA
7781667 ATATTATATTTATATTATT-TA
1 ATATTATATTTATATTATTATA
** * *
7781688 TATAGGATA-TAATATT-TTATTT
1 -ATATTATATTTATATTATTA-TA
*
7781710 ATACTTATATAGTAT-TATATATATA
1 ATA-TTATAT-TTATAT-TAT-TATA
*
7781735 ATATTTATATTTATAGTA-TATA
1 ATA-TTATATTTATATTATTATA
*
7781757 ATATTTGTATGTTATA-TATTTATA
1 ATA-TTATAT-TTATATTA-TTATA
*
7781781 TTAATTATATTT-TATTATTAT
1 AT-ATTATATTTATATTATTAT
7781802 TTAAATTATT
Statistics
Matches: 104, Mismatches: 15, Indels: 31
0.69 0.10 0.21
Matches are distributed among these distances:
20 2 0.02
21 19 0.18
22 41 0.39
23 10 0.10
24 18 0.17
25 12 0.12
26 2 0.02
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (22 bp):
ATATTATATTTATATTATTATA
Found at i:7781743 original size:31 final size:27
Alignment explanation
Indices: 7781688--7781760 Score: 83
Period size: 29 Copynumber: 2.6 Consensus size: 27
7781678 ATATTATTTA
* **
7781688 TATAGGATATAATATTTTATTTATACTT
1 TATAGTATATAATATAATATTTATA-TT
7781716 ATATAGTATTATATATATAATATTTATATT
1 -TATAGTAT-ATA-ATATAATATTTATATT
7781746 TATAGTATATAATAT
1 TATAGTATATAATAT
7781761 TTGTATGTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
27 4 0.10
28 3 0.08
29 15 0.38
30 5 0.13
31 12 0.31
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.52
Consensus pattern (27 bp):
TATAGTATATAATATAATATTTATATT
Found at i:7781775 original size:2 final size:2
Alignment explanation
Indices: 7781564--7781760 Score: 56
Period size: 2 Copynumber: 104.5 Consensus size: 2
7781554 TTATAATACC
*
7781564 TA TA T- TA TA GTA TA TA TA TA -A TA TCA TA TA TA T- TT TA TA T-
1 TA TA TA TA TA -TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
* * * * * *
7781604 TA CA TA CA TA T- TA TA TA T- TA TA GTG TG T- TA TG TA CTA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA
*
7781645 TA TA T- TA TA T- TA TA T- TA T- TA TA -A TA T- TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
7781681 T- TA TT TA TA TA GGA TA TA -A TA T- TT TA TT TA TA CT- TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* *
7781721 GTA T- TA TA TA TA TA -A TA TT TA TA TT TA TA GTA TA TA -A TA T
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA T
7781761 TTGTATGTTA
Statistics
Matches: 144, Mismatches: 23, Indels: 56
0.65 0.10 0.25
Matches are distributed among these distances:
1 20 0.14
2 111 0.77
3 13 0.09
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (2 bp):
TA
Found at i:7795828 original size:101 final size:101
Alignment explanation
Indices: 7795648--7795840 Score: 325
Period size: 101 Copynumber: 1.9 Consensus size: 101
7795638 TGGTGTTCAT
* * *
7795648 TTGGATCTTAATTTTGCTGCTTCTCCTGTTGCTATCGAGAATGTCTCGATGAATGCCATTTGCCA
1 TTGGATCTTAATTTTGCTGCTTCTCCTGTTGCTATCGAGAATGACTCAATGAATGCCATTCGCCA
7795713 ACTCGAGGATCATGGCCATGATTTATCCGTGCTGGG
66 ACTCGAGGATCATGGCCATGATTTATCCGTGCTGGG
* *
7795749 TTGGCTCTTAATTTTGCTGCTTCTCCTGTTGCTATCGAGAATGACTCAATGAATGTCATTCGCCA
1 TTGGATCTTAATTTTGCTGCTTCTCCTGTTGCTATCGAGAATGACTCAATGAATGCCATTCGCCA
7795814 ACTC-AGGGATCATGGCCATGATTTATC
66 ACTCGA-GGATCATGGCCATGATTTATC
7795841 TGTGATGAGT
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
100 1 0.01
101 85 0.99
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (101 bp):
TTGGATCTTAATTTTGCTGCTTCTCCTGTTGCTATCGAGAATGACTCAATGAATGCCATTCGCCA
ACTCGAGGATCATGGCCATGATTTATCCGTGCTGGG
Found at i:7797573 original size:2 final size:2
Alignment explanation
Indices: 7797566--7797611 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
7797556 ACTTATAATG
7797566 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7797608 TA TA
1 TA TA
7797612 CACACACACA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7799526 original size:2 final size:2
Alignment explanation
Indices: 7799519--7799565 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
7799509 CGTAAAGTTA
7799519 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
7799561 AT AT A
1 AT AT A
7799566 ATCTGCAAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7800303 original size:12 final size:12
Alignment explanation
Indices: 7800284--7800339 Score: 66
Period size: 12 Copynumber: 5.0 Consensus size: 12
7800274 TATTATACGG
7800284 TATGAACAGTAC
1 TATGAACAGTAC
*
7800296 TGTGAACAGTA-
1 TATGAACAGTAC
*
7800307 -ATGAACAATAC
1 TATGAACAGTAC
7800318 TATGAACAGTA-
1 TATGAACAGTAC
7800329 -ATGAACAGTAC
1 TATGAACAGTAC
7800340 CGAATGCTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
10 18 0.49
12 19 0.51
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.23
Consensus pattern (12 bp):
TATGAACAGTAC
Found at i:7800310 original size:22 final size:22
Alignment explanation
Indices: 7800285--7800339 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
7800275 ATTATACGGT
*
7800285 ATGAACAGTACTGTGAACAGTA
1 ATGAACAGTACTATGAACAGTA
*
7800307 ATGAACAATACTATGAACAGTA
1 ATGAACAGTACTATGAACAGTA
7800329 ATGAACAGTAC
1 ATGAACAGTAC
7800340 CGAATGCTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.22
Consensus pattern (22 bp):
ATGAACAGTACTATGAACAGTA
Found at i:7800313 original size:10 final size:10
Alignment explanation
Indices: 7800298--7800338 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
7800288 AACAGTACTG
7800298 TGAACAGTAA
1 TGAACAGTAA
*
7800308 TGAACAATACTA
1 TGAACAGTA--A
7800320 TGAACAGTAA
1 TGAACAGTAA
7800330 TGAACAGTA
1 TGAACAGTA
7800339 CCGAATGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 18 0.67
12 9 0.33
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (10 bp):
TGAACAGTAA
Found at i:7800398 original size:21 final size:22
Alignment explanation
Indices: 7800362--7800405 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
7800352 TTTTCCAGAA
7800362 TGCTACAGGGGTATTGATACCC
1 TGCTACAGGGGTATTGATACCC
*
7800384 TGCTACA-GTGTATTGATACCC
1 TGCTACAGGGGTATTGATACCC
7800405 T
1 T
7800406 TCCTACAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (22 bp):
TGCTACAGGGGTATTGATACCC
Found at i:7800411 original size:22 final size:21
Alignment explanation
Indices: 7800372--7800412 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
7800362 TGCTACAGGG
*
7800372 GTATTGATACCCTGCTACAGT
1 GTATTGATACCCTCCTACAGT
7800393 GTATTGATACCCTTCCTACA
1 GTATTGATACCC-TCCTACA
7800413 ATAATTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (21 bp):
GTATTGATACCCTCCTACAGT
Found at i:7800979 original size:30 final size:30
Alignment explanation
Indices: 7800906--7800996 Score: 103
Period size: 30 Copynumber: 3.1 Consensus size: 30
7800896 AATGGATTTA
* * *
7800906 TTTAGTGACCAAATTATAAATTTGGTAAAG
1 TTTAGTGACCAAAATATAAATTTTGAAAAG
*
7800936 TTTGGTGACCAAAATATAAATTTTGAAAAG
1 TTTAGTGACCAAAATATAAATTTTGAAAAG
* * * *
7800966 TTTAGAGATCAAAATGT-AATTTTAAAAAG
1 TTTAGTGACCAAAATATAAATTTTGAAAAG
7800995 TT
1 TT
7800997 ACAAATGGGT
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
29 13 0.25
30 39 0.75
ACGTcount: A:0.43, C:0.05, G:0.15, T:0.36
Consensus pattern (30 bp):
TTTAGTGACCAAAATATAAATTTTGAAAAG
Found at i:7802897 original size:40 final size:40
Alignment explanation
Indices: 7802841--7802922 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
7802831 TGCAGGTTTA
7802841 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
*
7802881 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
7802921 TA
1 TA
7802923 GCACTACGGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (40 bp):
TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
Found at i:7803115 original size:45 final size:45
Alignment explanation
Indices: 7803026--7803205 Score: 292
Period size: 44 Copynumber: 4.0 Consensus size: 45
7803016 GTAACCATGC
7803026 AAATAAGCTTACGAGCTTATGGAAT-AATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* *
7803070 AAATAAGCTTACGATCTTATGGAATAAATGGTAAGTGTATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
7803115 AAATAAGCTTACGAGCTTAT-GAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
7803159 AAATAAGCTTACGAGCTTATGTGATTAAATGGTTAGTATATTCGTA
1 AAATAAGCTTACGAGCTTATG-GAATAAATGGTAAGTATATTGGTA
7803205 A
1 A
7803206 GAAATGTTAT
Statistics
Matches: 126, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
44 67 0.53
45 37 0.29
46 22 0.17
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.33
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:7803178 original size:89 final size:90
Alignment explanation
Indices: 7803026--7803205 Score: 292
Period size: 89 Copynumber: 2.0 Consensus size: 90
7803016 GTAACCATGC
*
7803026 AAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGATCTTATG
1 AAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* *
7803091 -GAATAAATGGTAAGTGTATTGGTA
66 TGAATAAATGGTAAGTATATTCGTA
7803115 AAATAAGCTTACGAGCTTAT-GAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
1 AAATAAGCTTACGAGCTTATGGAAT-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
* *
7803179 GTGATTAAATGGTTAGTATATTCGTA
65 GTGAATAAATGGTAAGTATATTCGTA
7803205 A
1 A
7803206 GAAATGTTAT
Statistics
Matches: 84, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
88 4 0.05
89 59 0.70
90 21 0.25
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.33
Consensus pattern (90 bp):
AAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
TGAATAAATGGTAAGTATATTCGTA
Found at i:7803655 original size:21 final size:21
Alignment explanation
Indices: 7803614--7803655 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7803604 TAGCAGTTAT
*
7803614 TGTAGCAGTGCACCGGCACAC
1 TGTAGCAGTGCACCGACACAC
* *
7803635 TGTAGCAGTGCATCGATACAC
1 TGTAGCAGTGCACCGACACAC
7803656 ATTTTAAGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.19
Consensus pattern (21 bp):
TGTAGCAGTGCACCGACACAC
Found at i:7804152 original size:22 final size:22
Alignment explanation
Indices: 7804121--7804162 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7804111 TATGAAATTT
* *
7804121 TGTCCTGAAGGACCTGTGAATA
1 TGTCCCGAAGGACCTATGAATA
7804143 TGTCCCGAAGGACCTATGAA
1 TGTCCCGAAGGACCTATGAA
7804163 ACCCTCGACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (22 bp):
TGTCCCGAAGGACCTATGAATA
Found at i:7807055 original size:47 final size:45
Alignment explanation
Indices: 7806961--7807086 Score: 191
Period size: 47 Copynumber: 2.8 Consensus size: 45
7806951 GTAAGCATAT
* *
7806961 AAATAAGCTTACGAGCTTTTGGAAT-AATGGCAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
* *
7807005 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATGGGTA
7807052 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
7807087 GGATTTTATA
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
44 23 0.31
45 11 0.15
46 1 0.01
47 40 0.53
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
Found at i:7810471 original size:21 final size:21
Alignment explanation
Indices: 7810447--7810498 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
7810437 AAAGAGCGAC
*
7810447 AATGGTTGACCTAAAAATCTA
1 AATGGTTGACCCAAAAATCTA
7810468 AAT-GTTGACCCAAAAATCTA
1 AATGGTTGACCCAAAAATCTA
*
7810488 AA-GGTTAACCC
1 AATGGTTGACCC
7810499 TAATTGAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.25
Consensus pattern (21 bp):
AATGGTTGACCCAAAAATCTA
Found at i:7812323 original size:65 final size:63
Alignment explanation
Indices: 7812251--7812436 Score: 196
Period size: 65 Copynumber: 2.9 Consensus size: 63
7812241 AATTAAATTG
* * * *
7812251 AACATCGAATGCATTTCATGAATCGATGCACATACCATGCACCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACAT-CAATGCACCGATGCACTAAGGATATTT-TG-
7812315 A
63 A
* ** * **
7812316 AACATCGAATGCATTTGATGCATCGATGCACCAGCAATGCATTGATACACTCTGGATATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CATCAATGCACCGATGCACTAAGGATATTTTGA
* *
7812380 AACATCGAATGCACTTGATGCATCGATGCAC-TCTTAGTGCACCGATGCACTAAGGAT
1 AACATCGAATGCATTTGATGCATCGATGCACATC--AATGCACCGATGCACTAAGGAT
7812437 CCAACGGTCA
Statistics
Matches: 100, Mismatches: 17, Indels: 9
0.79 0.13 0.07
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 46 0.46
65 47 0.47
66 5 0.05
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACATCAATGCACCGATGCACTAAGGATATTTTGA
Found at i:7812410 original size:17 final size:19
Alignment explanation
Indices: 7812382--7812430 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
7812372 TATTTTGAAA
7812382 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
7812400 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
7812419 CACCGATGCACT
1 CATCGATGCACT
7812431 AAGGATCCAA
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:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:7820944 original size:65 final size:63
Alignment explanation
Indices: 7820864--7821049 Score: 205
Period size: 65 Copynumber: 2.9 Consensus size: 63
7820854 GAATTAATTG
* * *
7820864 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCACCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACAT-CAATGCACCGATGCACTAAGGATATTT-TG-
7820928 A
63 A
* * * ** *
7820929 AACATTGAATGCATTTGATGCATCGATGCACCAGCAATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CATCAATGCACCGATGCACTAAGGATATTTTGA
* *
7820993 AACATCGAATGCACTTGATGCATCGATGCAC-TCTTAGTGCACCGATGCACTAAGGAT
1 AACATCGAATGCATTTGATGCATCGATGCACATC--AATGCACCGATGCACTAAGGAT
7821050 CCAACGGTCA
Statistics
Matches: 101, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 46 0.46
65 48 0.48
66 5 0.05
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACATCAATGCACCGATGCACTAAGGATATTTTGA
Found at i:7821023 original size:17 final size:19
Alignment explanation
Indices: 7820995--7821043 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
7820985 TATTTTGAAA
7820995 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
7821013 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
7821032 CACCGATGCACT
1 CATCGATGCACT
7821044 AAGGATCCAA
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:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:7841434 original size:24 final size:24
Alignment explanation
Indices: 7841407--7841485 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 24
7841397 ACCATGTTCG
*
7841407 GTATCAATACTACTTTACATAGTA
1 GTATCGATACTACTTTACATAGTA
* **
7841431 GTATCGATACT-CATTGGA-AG-A
1 GTATCGATACTACTTTACATAGTA
*
7841452 -TATCGATACTACTGTACATAGTA
1 GTATCGATACTACTTTACATAGTA
7841475 GTATCGATACT
1 GTATCGATACT
7841486 CCCTGGACAG
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
20 10 0.23
21 4 0.09
22 4 0.09
23 5 0.12
24 20 0.47
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (24 bp):
GTATCGATACTACTTTACATAGTA
Found at i:7841463 original size:44 final size:44
Alignment explanation
Indices: 7841407--7841505 Score: 146
Period size: 44 Copynumber: 2.2 Consensus size: 44
7841397 ACCATGTTCG
* * *
7841407 GTATCAATACTACTTTACATAGTAGTATCGATACTCATTGGA-A
1 GTATCGATACTACTGTACATAGTAGTATCGATACTCACTGGACA
*
7841450 GATATCGATACTACTGTACATAGTAGTATCGATACTCCCTGGACA
1 G-TATCGATACTACTGTACATAGTAGTATCGATACTCACTGGACA
7841495 GTATCGATACT
1 GTATCGATACT
7841506 GTTGGTTTGC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
43 1 0.02
44 47 0.94
45 2 0.04
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (44 bp):
GTATCGATACTACTGTACATAGTAGTATCGATACTCACTGGACA
Found at i:7847908 original size:12 final size:13
Alignment explanation
Indices: 7847881--7847913 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
7847871 ATATTATAAT
*
7847881 TTTTCAAACTTAG
1 TTTTCAAACATAG
7847894 TTTTCAAA-ATAG
1 TTTTCAAACATAG
7847906 TTTTCAAA
1 TTTTCAAA
7847914 TTTGCCCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (13 bp):
TTTTCAAACATAG
Found at i:7849528 original size:21 final size:21
Alignment explanation
Indices: 7849500--7849582 Score: 93
Period size: 21 Copynumber: 4.1 Consensus size: 21
7849490 CTGTTAGACA
7849500 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
* * *
7849521 GGAGGGAATCTGT----TCTG
1 GGGGGGAATCGGTACCCCCTG
7849538 GGGGGGCAATCGGTACCCCCTG
1 GGGGGG-AATCGGTACCCCCTG
*
7849560 GGGGGGAATCTGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
7849581 GG
1 GG
7849583 CAATCTGATT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
17 8 0.16
18 6 0.12
21 27 0.54
22 9 0.18
ACGTcount: A:0.14, C:0.25, G:0.42, T:0.18
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCCCTG
Found at i:7849584 original size:39 final size:39
Alignment explanation
Indices: 7849501--7849587 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 39
7849491 TGTTAGACAG
* * ****
7849501 GGGGGAATCGGTACCCCCTGGGAGGGAATCTGTTCTGGG
1 GGGGCAATCGGTACCCCCTGGGAGGGAATCTGTACCCCC
*
7849540 GGGGCAATCGGTACCCCCTGGGGGGGAATCTGTACCCCC
1 GGGGCAATCGGTACCCCCTGGGAGGGAATCTGTACCCCC
*
7849579 TGGGCAATC
1 GGGGCAATC
7849588 TGATTTTTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.16, C:0.26, G:0.39, T:0.18
Consensus pattern (39 bp):
GGGGCAATCGGTACCCCCTGGGAGGGAATCTGTACCCCC
Found at i:7849589 original size:18 final size:19
Alignment explanation
Indices: 7849540--7849589 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 19
7849530 CTGTTCTGGG
*
7849540 GGGGCAATCGGTACCCCCT
1 GGGGCAATCTGTACCCCCT
*
7849559 GGGGGGGAATCTGTACCCCCT
1 --GGGGCAATCTGTACCCCCT
7849580 -GGGCAATCTG
1 GGGGCAATCTG
7849590 ATTTTTCTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 9 0.35
21 17 0.65
ACGTcount: A:0.16, C:0.30, G:0.36, T:0.18
Consensus pattern (19 bp):
GGGGCAATCTGTACCCCCT
Found at i:7854464 original size:15 final size:15
Alignment explanation
Indices: 7854440--7854471 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7854430 CCGTTACATT
7854440 AAACCCATTAAACCA
1 AAACCCATTAAACCA
*
7854455 AAACCTATTAAACCA
1 AAACCCATTAAACCA
7854470 AA
1 AA
7854472 TTTAAAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (15 bp):
AAACCCATTAAACCA
Found at i:7855191 original size:95 final size:94
Alignment explanation
Indices: 7855020--7855389 Score: 436
Period size: 95 Copynumber: 3.9 Consensus size: 94
7855010 GTACCATTAC
* * * *
7855020 TCAAAGTATCGATATTATTAATCTAAGTAGTATCGATATCATATATGGTATCGATACCATTATAA
1 TCAAAGTATCGATACTACTACTCTAAGTAGTATCGATATCATATATGGTATCGATACCATTTTAA
7855085 CATTCTATTTTGACAGTATCAGTACTGTA
66 CATTCTATTTTGACAGTATCAGTACTGTA
* * * *
7855114 TCATCAGTATCGGTACTATTACTCTAAGTAGTATCGATATTATATATGGTATCGATACCATTTTA
1 TCA-AAGTATCGATACTACTACTCTAAGTAGTATCGATATCATATATGGTATCGATACCATTTTA
* * * **
7855179 ACATTCTGTTTTGACAGTATCAATATTGCC
65 ACATTCTATTTTGACAGTATCAGTACTGTA
* * * *
7855209 TCAAAAGTATCGGTACTACAACTCTAAGTAGTATCGATATCATATATGGTATCGGTACCAATTTA
1 TC-AAAGTATCGATACTACTACTCTAAGTAGTATCGATATCATATATGGTATCGATACCATTTTA
* * * **
7855274 GCATTCTGTTTTGACAGTATCGGTACCATAA
65 ACATTCTATTTTGACAGTATCAGTACTGT-A
* * * * *
7855305 CTCAGAGTATCGATATTACTACTCTAAGTGGTATCGATATCATATATGATATC-AGACCATTTTA
1 -TCAAAGTATCGATACTACTACTCTAAGTAGTATCGATATCATATATGGTATCGATACCATTTTA
* *
7855369 GCATTCTACTTTGACAGTATC
65 ACATTCTATTTTGACAGTATC
7855390 GATACTACAC
Statistics
Matches: 236, Mismatches: 36, Indels: 7
0.85 0.13 0.03
Matches are distributed among these distances:
94 3 0.01
95 186 0.79
96 45 0.19
97 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (94 bp):
TCAAAGTATCGATACTACTACTCTAAGTAGTATCGATATCATATATGGTATCGATACCATTTTAA
CATTCTATTTTGACAGTATCAGTACTGTA
Found at i:7855366 original size:190 final size:190
Alignment explanation
Indices: 7855041--7855389 Score: 497
Period size: 190 Copynumber: 1.8 Consensus size: 190
7855031 ATATTATTAA
7855041 TCTAAGTAGTATCGATATCATATATGGTATCGATACCATTATAACATTCTATTTTGACAGTATCA
1 TCTAAGTAGTATCGATATCATATATGGTATCGATACCATTATAACATTCTATTTTGACAGTATCA
** * * * * *
7855106 GTACTGTATCATCAGTATCGGTACTATTACTCTAAGTAGTATCGATATTATATATGGTATCGATA
66 GTACCATATCATCAGTATCGATACTACTACTCTAAGTAGTATCGATATCATATATGATATCGAGA
**
7855171 CCATTTTAACATTCTGTTTTGACAGTATCAATATTGCCTCAAAAGTATCGGTACTACAAC
131 CCATTTTAACATTCTACTTTGACAGTATCAATATTGCCTCAAAAGTATCGGTACTACAAC
* * *
7855231 TCTAAGTAGTATCGATATCATATATGGTATCGGTACCAATT-TAGCATTCTGTTTTGACAGTATC
1 TCTAAGTAGTATCGATATCATATATGGTATCGATACC-ATTATAACATTCTATTTTGACAGTATC
* * * *
7855295 GGTACCATAACTCA-GAGTATCGATATTACTACTCTAAGTGGTATCGATATCATATATGATATC-
65 AGTACCAT-A-TCATCAGTATCGATACTACTACTCTAAGTAGTATCGATATCATATATGATATCG
*
7855358 AGACCATTTTAGCATTCTACTTTGACAGTATC
128 AGACCATTTTAACATTCTACTTTGACAGTATC
7855390 GATACTACAC
Statistics
Matches: 139, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
190 90 0.65
191 46 0.33
192 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (190 bp):
TCTAAGTAGTATCGATATCATATATGGTATCGATACCATTATAACATTCTATTTTGACAGTATCA
GTACCATATCATCAGTATCGATACTACTACTCTAAGTAGTATCGATATCATATATGATATCGAGA
CCATTTTAACATTCTACTTTGACAGTATCAATATTGCCTCAAAAGTATCGGTACTACAAC
Found at i:7860393 original size:20 final size:20
Alignment explanation
Indices: 7860361--7860398 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7860351 AAATTTTATG
*
7860361 TTAAATATTTTTATAATTGA
1 TTAAATATTTTTAAAATTGA
7860381 TTAAAT-TTATTTAAAATT
1 TTAAATATT-TTTAAAATT
7860399 TTTAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TTAAATATTTTTAAAATTGA
Found at i:7860415 original size:30 final size:32
Alignment explanation
Indices: 7860346--7860411 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 32
7860336 CTATTTTAAT
*
7860346 ATAA-TAAATTTTATGTTAAATATTTTTATAA
1 ATAATTAAATTTTATGTTAAATATTTTTAAAA
* *
7860377 TTGATTAAA-TTTAT-TTAAA-ATTTTTAAAA
1 ATAATTAAATTTTATGTTAAATATTTTTAAAA
7860406 ATAATT
1 ATAATT
7860412 TAAAATCAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
29 13 0.45
30 5 0.17
31 7 0.24
32 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (32 bp):
ATAATTAAATTTTATGTTAAATATTTTTAAAA
Done.