Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001410.1 Hibiscus syriacus cultivar Beakdansim tig00002747_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: 131808
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:7784 original size:12 final size:12
Alignment explanation
Indices: 7764--7803 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
7754 ATAGATGTTC
*
7764 AGGAAGAAGCTG
1 AGGAGGAAGCTG
7776 AGGAGGAAGCTG
1 AGGAGGAAGCTG
* *
7788 AGTAGGAAGTTG
1 AGGAGGAAGCTG
7800 AGGA
1 AGGA
7804 AGAATTTGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.38, C:0.05, G:0.45, T:0.12
Consensus pattern (12 bp):
AGGAGGAAGCTG
Found at i:12397 original size:29 final size:31
Alignment explanation
Indices: 12360--12419 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
12350 AAATTTTGAA
*
12360 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
12389 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
12420 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:18324 original size:18 final size:18
Alignment explanation
Indices: 18279--18348 Score: 78
Period size: 18 Copynumber: 4.2 Consensus size: 18
18269 ACCGGTCACA
*
18279 ACCCGACCCAACCCGTTG
1 ACCCGACCCGACCCGTTG
18297 ACCCGACCCGACCCGTT-
1 ACCCGACCCGACCCGTTG
*
18314 ----TACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
18328 ACCCGACCTGACCCGTTG
1 ACCCGACCCGACCCGTTG
18346 ACC
1 ACC
18349 GTTGACCGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 12 0.28
18 31 0.72
ACGTcount: A:0.19, C:0.49, G:0.19, T:0.14
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:18327 original size:31 final size:31
Alignment explanation
Indices: 18284--18344 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
18274 TCACAACCCG
18284 ACCCAACCCGTTGACCCGACCCGACCCGTTT
1 ACCCAACCCGTTGACCCGACCCGACCCGTTT
* *
18315 ACCCGACCCGTTGACCCGACCTGACCCGTT
1 ACCCAACCCGTTGACCCGACCCGACCCGTT
18345 GACCGTTGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.18, C:0.48, G:0.18, T:0.16
Consensus pattern (31 bp):
ACCCAACCCGTTGACCCGACCCGACCCGTTT
Found at i:18348 original size:13 final size:13
Alignment explanation
Indices: 18301--18335 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
18291 CCGTTGACCC
18301 GACCCGACCCGTT
1 GACCCGACCCGTT
*
18314 TACCCGACCCGTT
1 GACCCGACCCGTT
18327 GACCCGACC
1 GACCCGACC
18336 TGACCCGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.17, C:0.49, G:0.20, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:18364 original size:25 final size:27
Alignment explanation
Indices: 18322--18375 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 27
18312 TTTACCCGAC
18322 CCGTTGACCCGACCTGACC-C-GTTGA
1 CCGTTGACCCGACCTGACCACTGTTGA
* **
18347 CCGTTGACCGGAGTTGACCACTGTTGA
1 CCGTTGACCCGACCTGACCACTGTTGA
18374 CC
1 CC
18376 AAAACTTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 16 0.67
26 1 0.04
27 7 0.29
ACGTcount: A:0.17, C:0.35, G:0.26, T:0.22
Consensus pattern (27 bp):
CCGTTGACCCGACCTGACCACTGTTGA
Found at i:20927 original size:23 final size:24
Alignment explanation
Indices: 20880--20970 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
20870 TCTGACTTGA
* * *
20880 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATCTGATACTTGACCTGG
*
20904 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATCTGATACTTGACCTGG
*
20927 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATCTGATACTTGACCTGG
*
20951 ATTCTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
20971 TTGAATTATG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 21 0.36
24 37 0.64
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACCTGG
Found at i:23181 original size:18 final size:18
Alignment explanation
Indices: 23136--23205 Score: 78
Period size: 18 Copynumber: 4.2 Consensus size: 18
23126 ACCGGTCACA
*
23136 ACCCGACCCAACCCGTTG
1 ACCCGACCCGACCCGTTG
23154 ACCCGACCCGACCCGTT-
1 ACCCGACCCGACCCGTTG
*
23171 ----TACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
23185 ACCCGACCTGACCCGTTG
1 ACCCGACCCGACCCGTTG
23203 ACC
1 ACC
23206 GTTGACCGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 12 0.28
18 31 0.72
ACGTcount: A:0.19, C:0.49, G:0.19, T:0.14
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:23184 original size:31 final size:31
Alignment explanation
Indices: 23141--23201 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
23131 TCACAACCCG
23141 ACCCAACCCGTTGACCCGACCCGACCCGTTT
1 ACCCAACCCGTTGACCCGACCCGACCCGTTT
* *
23172 ACCCGACCCGTTGACCCGACCTGACCCGTT
1 ACCCAACCCGTTGACCCGACCCGACCCGTT
23202 GACCGTTGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.18, C:0.48, G:0.18, T:0.16
Consensus pattern (31 bp):
ACCCAACCCGTTGACCCGACCCGACCCGTTT
Found at i:23205 original size:13 final size:13
Alignment explanation
Indices: 23158--23192 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
23148 CCGTTGACCC
23158 GACCCGACCCGTT
1 GACCCGACCCGTT
*
23171 TACCCGACCCGTT
1 GACCCGACCCGTT
23184 GACCCGACC
1 GACCCGACC
23193 TGACCCGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.17, C:0.49, G:0.20, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:23221 original size:25 final size:27
Alignment explanation
Indices: 23179--23232 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 27
23169 TTTACCCGAC
23179 CCGTTGACCCGACCTGACC-C-GTTGA
1 CCGTTGACCCGACCTGACCACTGTTGA
* **
23204 CCGTTGACCGGAGTTGACCACTGTTGA
1 CCGTTGACCCGACCTGACCACTGTTGA
23231 CC
1 CC
23233 AAAACTTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 16 0.67
26 1 0.04
27 7 0.29
ACGTcount: A:0.17, C:0.35, G:0.26, T:0.22
Consensus pattern (27 bp):
CCGTTGACCCGACCTGACCACTGTTGA
Found at i:25789 original size:23 final size:24
Alignment explanation
Indices: 25742--25832 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
25732 TCCGACTTGA
* * *
25742 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATCTGATACTTGACCTGG
*
25766 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATCTGATACTTGACCTGG
*
25789 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATCTGATACTTGACCTGG
*
25813 ATTCTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
25833 TTGAATTATG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 21 0.36
24 37 0.64
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACCTGG
Found at i:25802 original size:47 final size:48
Alignment explanation
Indices: 25742--25832 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
25732 TCCGACTTGA
* * *
25742 ATTCTGTTATGATACCTGACCTGGATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACATGACCTGGATTCTGATATGATACTTGACATGG
*
25789 ATTCTGATCTGATACATGACCTGGATTCTGATATGATACTTGAC
1 ATTCTGATATGATACATGACCTGGATTCTGATATGATACTTGAC
25833 TTGAATTATG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 34 0.87
48 5 0.13
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (48 bp):
ATTCTGATATGATACATGACCTGGATTCTGATATGATACTTGACATGG
Found at i:29999 original size:29 final size:29
Alignment explanation
Indices: 29967--30067 Score: 75
Period size: 29 Copynumber: 3.5 Consensus size: 29
29957 TGATATTAAT
29967 AGTTTAAAGATTAATATAAAATATTTCAA
1 AGTTTAAAGATTAATATAAAATATTTCAA
* * * *
29996 AGTTTATAA-ATAAATTTAAAATATGATGATA
1 AGTTTA-AAGATTAATATAAAATAT-TTCA-A
* *
30027 A-TTTGAAGACTT-ATATAAAATATTTTAA
1 AGTTTAAAGA-TTAATATAAAATATTTCAA
*
30055 AATTT-AAGATTAA
1 AGTTTAAAGATTAA
30068 ATTTTAATTT
Statistics
Matches: 56, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
27 2 0.04
28 7 0.12
29 26 0.46
30 18 0.32
31 3 0.05
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (29 bp):
AGTTTAAAGATTAATATAAAATATTTCAA
Found at i:30387 original size:15 final size:14
Alignment explanation
Indices: 30344--30397 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 14
30334 AAAATATTTT
*
30344 AAATTTAAAAATAA
1 AAATATAAAAATAA
**
30358 AAATATTCAAA-AA
1 AAATATAAAAATAA
30371 AAATATAAAAATGAA
1 AAATATAAAAAT-AA
*
30386 AAAGATAAAAAT
1 AAATATAAAAAT
30398 TAAGTTACTA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
13 11 0.34
14 8 0.25
15 13 0.41
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (14 bp):
AAATATAAAAATAA
Found at i:30396 original size:27 final size:27
Alignment explanation
Indices: 30344--30396 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
30334 AAAATATTTT
* * *
30344 AAATTTAAAAATAAAAATATTCAAAAA
1 AAATATAAAAATAAAAAGATTAAAAAA
30371 AAATATAAAAATGAAAAAGA-TAAAAA
1 AAATATAAAAAT-AAAAAGATTAAAAA
30397 TTAAGTTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (27 bp):
AAATATAAAAATAAAAAGATTAAAAAA
Found at i:33271 original size:30 final size:29
Alignment explanation
Indices: 33209--33318 Score: 112
Period size: 30 Copynumber: 3.7 Consensus size: 29
33199 AGAACAAAGA
* * *
33209 TATCCTATGCAGATGTCAAAACGGGAAAT
1 TATCCCATGCAGATGTCAAGACGGGAATT
*
33238 TATCCCATGTAGATGTCAAGACAGGGAATT
1 TATCCCATGCAGATGTCAAGAC-GGGAATT
* * *
33268 TATCCCATGCAGATGTTAGGATGGGGAATT
1 TATCCCATGCAGATGTCAAGA-CGGGAATT
* * *
33298 TATCCTATACAAATGTCAAGA
1 TATCCCATGCAGATGTCAAGA
33319 TGGGGACTAA
Statistics
Matches: 66, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
29 19 0.29
30 47 0.71
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (29 bp):
TATCCCATGCAGATGTCAAGACGGGAATT
Found at i:35333 original size:2 final size:2
Alignment explanation
Indices: 35326--35362 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
35316 TCTTAACCTT
35326 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 T
35363 CTTATTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:38728 original size:22 final size:21
Alignment explanation
Indices: 38703--38774 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 21
38693 AGTGTTATGA
*
38703 CACTTTTGTATTAGTGCGAATG
1 CACTTTT-TATTAGTGCGAAGG
* *
38725 CACTTTTATATCAGTGCTAAGG
1 CACTTTT-TATTAGTGCGAAGG
**
38747 CACTTTATTATTAGTGTTAAGG
1 CACTTT-TTATTAGTGCGAAGG
38769 CACTTT
1 CACTTT
38775 CTTGATTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 42 0.98
23 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (21 bp):
CACTTTTTATTAGTGCGAAGG
Found at i:42569 original size:29 final size:29
Alignment explanation
Indices: 42527--42584 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
42517 ATTATGACTG
42527 TGTCATAGACTATCACCCGAGAAAAGCTA
1 TGTCATAGACTATCACCCGAGAAAAGCTA
42556 TGTCATAGACTATCACCCGAGAAAAGCTA
1 TGTCATAGACTATCACCCGAGAAAAGCTA
42585 ATATGGTAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (29 bp):
TGTCATAGACTATCACCCGAGAAAAGCTA
Found at i:45422 original size:21 final size:21
Alignment explanation
Indices: 45372--45433 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
45362 GTACCAATGT
* **
45372 AAGCGTCAGTATCGATACCCAA
1 AAGC-TCAATATCGATACTGAA
*
45394 AGGC-CAATATCGATACTGAA
1 AAGCTCAATATCGATACTGAA
*
45414 AAGCTCAATATCGGTACTGA
1 AAGCTCAATATCGATACTGA
45434 CGTCATGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.48
21 14 0.42
22 3 0.09
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (21 bp):
AAGCTCAATATCGATACTGAA
Found at i:47733 original size:13 final size:13
Alignment explanation
Indices: 47715--47747 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
47705 AGCCAGAACA
47715 AATAGAAAAATAG
1 AATAGAAAAATAG
47728 AATAGAAAAATAG
1 AATAGAAAAATAG
*
47741 AAAAGAA
1 AATAGAA
47748 TAAGAATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (13 bp):
AATAGAAAAATAG
Found at i:47782 original size:16 final size:16
Alignment explanation
Indices: 47733--47815 Score: 82
Period size: 16 Copynumber: 5.1 Consensus size: 16
47723 AATAGAATAG
47733 AAAAAT-AGAAA-AGA
1 AAAAATAAGAAAGAGA
47747 ATAAGAATAAGAAAGA-A
1 A-AA-AATAAGAAAGAGA
47764 AAAAATAAGAAAGAGA
1 AAAAATAAGAAAGAGA
* *
47780 AAAAACAAAAAAGAGA
1 AAAAATAAGAAAGAGA
*
47796 AGCAAAATAAAAAAGAGA
1 A--AAAATAAGAAAGAGA
47814 AA
1 AA
47816 CAAAAAAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
14 1 0.02
15 13 0.22
16 22 0.37
17 7 0.12
18 16 0.27
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.06
Consensus pattern (16 bp):
AAAAATAAGAAAGAGA
Found at i:47793 original size:31 final size:32
Alignment explanation
Indices: 47733--47826 Score: 86
Period size: 34 Copynumber: 2.9 Consensus size: 32
47723 AATAGAATAG
* *
47733 AAAAAT-AGAAA-AGAATAAGAATAAGAAAGA-A
1 AAAAATAAGAAAGAGAA-AA-AAAAAAAAAGAGA
*
47764 AAAAATAAGAAAGAGAAAAAACAAAAAAGAGA
1 AAAAATAAGAAAGAGAAAAAAAAAAAAAGAGA
*
47796 AGCAAAATAAAAAAGAGAAACAAAAAAAAAA
1 A--AAAATAAGAAAGAGAAA-AAAAAAAAAA
47827 CAAATCAAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
31 15 0.28
32 9 0.17
33 4 0.08
34 16 0.30
35 9 0.17
ACGTcount: A:0.78, C:0.03, G:0.14, T:0.05
Consensus pattern (32 bp):
AAAAATAAGAAAGAGAAAAAAAAAAAAAGAGA
Found at i:47802 original size:18 final size:16
Alignment explanation
Indices: 47760--47826 Score: 66
Period size: 18 Copynumber: 3.9 Consensus size: 16
47750 AGAATAAGAA
47760 AGAA-AAAAATAAGAAAG
1 AGAACAAAAA-AA-AAAG
47777 AGAA-AAAACAAAAAAG
1 AGAACAAAA-AAAAAAG
47793 AGAAGCAAAATAAAAAAG
1 AGAA-CAAAA-AAAAAAG
47811 AGAAACAAAAAAAAAA
1 AG-AACAAAAAAAAAA
47827 CAAATCAAGT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
16 8 0.18
17 16 0.36
18 19 0.42
19 2 0.04
ACGTcount: A:0.79, C:0.04, G:0.13, T:0.03
Consensus pattern (16 bp):
AGAACAAAAAAAAAAG
Found at i:47823 original size:16 final size:16
Alignment explanation
Indices: 47758--47825 Score: 68
Period size: 16 Copynumber: 4.2 Consensus size: 16
47748 TAAGAATAAG
* *
47758 AAAGA-AAAAAATAAG
1 AAAGAGAAAAAACAAA
47773 AAAGAGAAAAAACAAA
1 AAAGAGAAAAAACAAA
*
47789 AAAGAGAAGCAAAATAAA
1 AAAGAGAA--AAAACAAA
47807 AAAGAGAAACAAA-AAA
1 AAAGAGAAA-AAACAAA
47823 AAA
1 AAA
47826 ACAAATCAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
15 5 0.11
16 23 0.50
17 3 0.07
18 15 0.33
ACGTcount: A:0.79, C:0.04, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAGAGAAAAAACAAA
Found at i:48782 original size:18 final size:18
Alignment explanation
Indices: 48759--48795 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
48749 TCATCATAAA
48759 TTTCTTTCAT-TAAACATT
1 TTTCTTTCATCT-AACATT
48777 TTTCTTTCATCTAACATT
1 TTTCTTTCATCTAACATT
48795 T
1 T
48796 GTCAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.24, C:0.19, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTCTTTCATCTAACATT
Found at i:48806 original size:22 final size:23
Alignment explanation
Indices: 48781--48828 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
48771 AACATTTTTC
*
48781 TTTCATCTAACA-TTTGTCAAAA
1 TTTCATCCAACATTTTGTCAAAA
* *
48803 TTTCATCCAATATTTTTTCAAAA
1 TTTCATCCAACATTTTGTCAAAA
48826 TTT
1 TTT
48829 TTTCCTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.33, C:0.17, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTCATCCAACATTTTGTCAAAA
Found at i:48881 original size:36 final size:36
Alignment explanation
Indices: 48808--48879 Score: 101
Period size: 35 Copynumber: 2.0 Consensus size: 36
48798 CAAAATTTCA
* * *
48808 TCCAATATTTTTTCAAAATTTTTTCCTCAAAGATTT
1 TCCAACATTTTTTCAAAATTCTTTCATCAAAGATTT
*
48844 TCCAACATTTTTT-AAAATTCTTTCATCAAATATTT
1 TCCAACATTTTTTCAAAATTCTTTCATCAAAGATTT
48879 T
1 T
48880 TCAAAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 20 0.62
36 12 0.38
ACGTcount: A:0.32, C:0.17, G:0.01, T:0.50
Consensus pattern (36 bp):
TCCAACATTTTTTCAAAATTCTTTCATCAAAGATTT
Found at i:50848 original size:122 final size:122
Alignment explanation
Indices: 50623--51971 Score: 1153
Period size: 122 Copynumber: 11.1 Consensus size: 122
50613 GTGACTAAAT
* * * *
50623 CTCTTCAACGTGGATGAGCAATGTCGTCTTCAATACCAAATTATCTCCAGATTGACCAGAATTCC
1 CTCTTCAACGTGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCC
* * * * * * *
50688 TCAATGAGAAA-GAATAGA-TTCATCTTCAACAAATAATTTACCTGAAAGCTGCTAGAA
66 TCAACGA-AAAGGAACA-ACATCATCTTCAGCAAACAATTTACCTGAAAGCGGCCAGAA
* * * * * *
50745 ATCTTCAATGTGGATGAGCAATGTCATCTTCAACACCAAATTATCTCTAAATTGAACTGAATTCC
1 CTCTTCAACGTGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCC
* * *
50810 TCAACGAAAAGGGAA-AACATCATATTCAGCAAACAATTTACATGAAAGCGGCCAAAA
66 TCAACGAAAA-GGAACAACATCATCTTCAGCAAACAATTTACCTGAAAGCGGCCAGAA
** * *
50867 CTCTTTGATGTGGATGAGCAATGTTC-TCTTCAACACCAAATTATCTCCAAATTGA-CTCGACTT
1 CTCTTCAACGTGGATGAGCAATG-TCATCTTCAACACCAAATTATCTCCAGATTGACCT-GACTT
* * * ** * * *
50930 CCTCAACAAAAAAGAATAATGTCATCTTCAACAAACAATTTACCTAAAAGCGGTCAGAA
64 CCTCAACGAAAAGGAACAACATCATCTTCAGCAAACAATTTACCTGAAAGCGGCCAGAA
* * * * *
50989 CTCTTCAACGTGGATGAGTACTGTTATCTTCAACATCAAATTATCTCCAGATTGACCTGACTTCG
1 CTCTTCAACGTGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCC
* * * * * *
51054 TCAATGAGAATGAACATCATCATCTTCAGTAAACAATTTACCTAAAAGCGGCCAGAA
66 TCAACGAAAAGGAACAACATCATCTTCAGCAAACAATTTACCTGAAAGCGGCCAGAA
* * * * * *
51111 TTCTTCAACGTGGATGAG-TAT-TCGTCTTCACCACAAAATTATCTCCAGATTGACCTTACTTCC
1 CTCTTCAACGTGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCC
* * * * ** * *
51174 TCAAAGACAAGGAACAACGTCATATTCAATAGACAATTTTCCTGAAAGCGGCCAGAA
66 TCAACGAAAAGGAACAACATCATCTTCAGCAAACAATTTACCTGAAAGCGGCCAGAA
* * * ** * * *
51231 CTCTTCAACGTGGATGACCAGTGTCGTCTTCAACATTAAATTATCTCCAGATTAACTTGACTTCT
1 CTCTTCAACGTGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCC
* * * * * * *
51296 TCAATGAGAAGGAACAACATCATTTTTAACAAACAATTTACCTAAAAGCGGCTAGAA
66 TCAACGAAAAGGAACAACATCATCTTCAGCAAACAATTTACCTGAAAGCGGCCAGAA
* * * ** *
51353 CTCTTCAACGTGGATTACCAGTGTTTTCTTCAACACCAAATTACCTCCAGATTGA-CTCGACTTC
1 CTCTTCAACGTGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTGACCT-GACTTC
* * * * *
51417 CTTAA-TAAGAAGAAACAACATCATCTTCATCAAACAATTTACCTGAAAGTGGCCAGAA
65 CTCAACGAA-AAGGAACAACATCATCTTCAGCAAACAATTTACCTGAAAGCGGCCAGAA
* * * * *
51475 CTCTTCAACATGGATGAGCATTGTCGTCTTCAATACCAAATTATCTCCAGATTGACCCGACTTCC
1 CTCTTCAACGTGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCC
* ** ** * ** *
51540 TCATC-AAGAAGGAACAATGTCATCTTCAGCAAATGATTTACTTGAAAGTAGCTAGAA
66 TCAACGAA-AAGGAACAACATCATCTTCAGCAAACAATTTACCTGAAAGCGGCCAGAA
* * ** * * * *
51597 CTCTTCAACGTGGATGAGTAGTGT-AGTCTTCAACATTAAATTATATCCAGATTGACCCGACATA
1 CTCTTCAACGTGGATGAGCAATGTCA-TCTTCAACACCAAATTATCTCCAGATTGACCTGACTTC
* * * * * ** * * * *
51661 CTCAA-TAAGAAGGAATATCATAATC-TCTAGCAAATAATTTAGTTGAAAACGACCATAT
65 CTCAACGAA-AAGGAACAACATCATCTTC-AGCAAACAATTTACCTGAAAGCGGCCAGAA
* * * * * *
51719 CTCTTCAACGTGGATGAGCATTGT-AGTTTTCAACACTAAATTATCTCCAAATTGAGCTGACTTA
1 CTCTTCAACGTGGATGAGCAATGTCA-TCTTCAACACCAAATTATCTCCAGATTGACCTGACTTC
* * * ** * * * * *
51783 CTCAACGAGAAGAAAAAATGTCATATTTA-CTAAACTATTTACTTGAAAGCGGCCAGAG
65 CTCAACGAAAAGGAACAACATCATCTTCAGC-AAACAATTTACCTGAAAGCGGCCAGAA
* * * * *
51841 CTCTTCAACGTGGATTAGCAGTGTAATCTTCAACTCCAAATTATCTCTAGATTGACCTGACTTCC
1 CTCTTCAACGTGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCC
* * *** * * * * *
51906 TCAAAGAGAAGGAATTGCATCATCTTCAGTAAACAATTTACTTGAAAACTGCTAGAA
66 TCAACGAAAAGGAACAACATCATCTTCAGCAAACAATTTACCTGAAAGCGGCCAGAA
51963 CTCTTCAAC
1 CTCTTCAAC
51972 ACCAAATTAT
Statistics
Matches: 998, Mismatches: 207, Indels: 44
0.80 0.17 0.04
Matches are distributed among these distances:
120 98 0.10
121 17 0.02
122 872 0.87
123 11 0.01
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.28
Consensus pattern (122 bp):
CTCTTCAACGTGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCC
TCAACGAAAAGGAACAACATCATCTTCAGCAAACAATTTACCTGAAAGCGGCCAGAA
Found at i:51725 original size:366 final size:361
Alignment explanation
Indices: 50623--51971 Score: 1273
Period size: 366 Copynumber: 3.7 Consensus size: 361
50613 GTGACTAAAT
** * *
50623 CTCTTCAACGTGGATGAGCAATGTCGTCTTCAATACCAAATTATCTCCAGATTGACCAGAATTCC
1 CTCTTCAACGTGGATGAGCAATGTTTTCTTCAACACCAAATTATCTCCAGATTGACCAGACTTCC
* * * * * * *
50688 TCAATGAGAAAGAATA-GA-TTCATCTTCAACAAATAATTTACCTGAAAGCTGCTAGAAATCTTC
66 TCAATGAG-AAGAA-ACAACATCATCTTCATCAAACAATTTACCTGAAAGCGGCCAGAACTCTTC
* * * * *
50751 AATGTGGATGAGCAATGTCATCTTCAACACCAAATTATCTCTAAATTGAACTGAATTCCTCAACG
129 AACGTGGATGAGC-ATGTCATCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCCTC-AC-
* * * ** *
50816 AA-AAGGGAAAACATCATATTCAGCAAACAATTTACATGAAAGCGGCCAAAACTCTTTGATGTGG
191 AAGAA-GGAAAACGTCATATTCAGCAAACAATTTACTTGAAAGCGGCCAGAACTCTTCAACGTGG
* ** ** * * * * *
50880 ATGAGCAATGTTCTCTTCAACACCAAATTATCTCCAAATTGACTCGACTTCCTCAACAAAAAAGA
255 ATGAGCAGTGTAGTCTTCAACATTAAATTATCTCCAGATTGACTCGAC-TACTCAATAAGAAGGA
* *
50945 ATAAT-GTCATCTTCAACAAACAATTTACCTAAAAGCGGTCAGAA
319 AT-ATCATCATCTT-AACAAACAATTTACCTAAAAGCGGCCAGAA
* * * * * *
50989 CTCTTCAACGTGGATGAGTACTGTTATCTTCAACATCAAATTATCTCCAGATTGACCTGACTTCG
1 CTCTTCAACGTGGATGAGCAATGTTTTCTTCAACACCAAATTATCTCCAGATTGACCAGACTTCC
* * *
51054 TCAATGAGAATG-AACATCATCATCTTCAGT-AAACAATTTACCTAAAAGCGGCCAGAATTCTTC
66 TCAATGAGAA-GAAACAACATCATCTTCA-TCAAACAATTTACCTGAAAGCGGCCAGAACTCTTC
* * * * *
51117 AACGTGGATGAGTAT-TCGTCTTCACCACAAAATTATCTCCAGATTGACCTTACTTCCTCA-AAG
129 AACGTGGATGAGCATGTCATCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCCTCACAAG
** * * *
51180 ACAAGGAACAACGTCATATTCAATAGACAATTTTCCTGAAAGCGGCCAGAACTCTTCAACGTGGA
194 --AAGGAA-AACGTCATATTCAGCAAACAATTTACTTGAAAGCGGCCAGAACTCTTCAACGTGGA
* * * * * *
51245 TGACCAGTGTCGTCTTCAACATTAAATTATCTCCAGATTAACTTGACTTCTTCAATGAGAAGGAA
256 TGAGCAGTGTAGTCTTCAACATTAAATTATCTCCAGATTGACTCGACTAC-TCAATAAGAAGGAA
* * * *
51310 CAACATCATTTTTAACAAACAATTTACCTAAAAGCGGCTAGAA
320 TATCATCA-TCTTAACAAACAATTTACCTAAAAGCGGCCAGAA
* * * *
51353 CTCTTCAACGTGGATTACCAGTGTTTTCTTCAACACCAAATTACCTCCAGATTGACTC-GACTTC
1 CTCTTCAACGTGGATGAGCAATGTTTTCTTCAACACCAAATTATCTCCAGATTGAC-CAGACTTC
* * *
51417 CTTAATAAGAAGAAACAACATCATCTTCATCAAACAATTTACCTGAAAGTGGCCAGAACTCTTCA
65 CTCAATGAGAAGAAACAACATCATCTTCATCAAACAATTTACCTGAAAGCGGCCAGAACTCTTCA
* * * *
51482 ACATGGATGAGCATTGTCGTCTTCAATACCAAATTATCTCCAGATTGACCCGACTTCCTCATCAA
130 ACGTGGATGAGCA-TGTCATCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCCTCA-CAA
* * ** ** *
51547 GAAGGAACAATGTCATCTTCAGCAAATGATTTACTTGAAAGTAGCTAGAACTCTTCAACGTGGAT
193 GAAGGAA-AACGTCATATTCAGCAAACAATTTACTTGAAAGCGGCCAGAACTCTTCAACGTGGAT
* * *
51612 GAGTAGTGTAGTCTTCAACATTAAATTATATCCAGATTGACCCGACATACTCAATAAGAAGGAAT
257 GAGCAGTGTAGTCTTCAACATTAAATTATCTCCAGATTGACTCGAC-TACTCAATAAGAAGGAAT
* * * ** * * *
51677 ATCATAATCTCTAGCAAATAATTTAGTTGAAAA-CGACCATAT
321 ATCATCATCT-TAACAAACAATTTACCT-AAAAGCGGCCAGAA
* * * * * * *
51719 CTCTTCAACGTGGATGAGCATTGTAGTT-TTCAACACTAAATTATCTCCAAATTGAGCTGACTTA
1 CTCTTCAACGTGGATGAGCAATGT-TTTCTTCAACACCAAATTATCTCCAGATTGACCAGACTTC
* * ** * * * * *
51783 CTCAACGAGAAGAAAAAATGTCATATTTA-CTAAACTATTTACTTGAAAGCGGCCAGAGCTCTTC
65 CTCAATGAGAAGAAACAACATCATCTTCATC-AAACAATTTACCTGAAAGCGGCCAGAACTCTTC
* * * * *
51847 AACGTGGATTAGCAGTGTAATCTTCAACTCCAAATTATCTCTAGATTGACCTGACTTCCTCAAAG
129 AACGTGGATGAGCA-TGTCATCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCCTCACA-
** * * * * * *
51912 AGAAGGAATTGCATCATCTTCAGTAAACAATTTACTTGAAAACTGCTAGAACTCTTCAAC
192 AGAAGGAA-AACGTCATATTCAGCAAACAATTTACTTGAAAGCGGCCAGAACTCTTCAAC
51972 ACCAAATTAT
Statistics
Matches: 804, Mismatches: 154, Indels: 50
0.80 0.15 0.05
Matches are distributed among these distances:
361 2 0.00
363 10 0.01
364 284 0.35
365 15 0.02
366 482 0.60
367 8 0.01
368 3 0.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.28
Consensus pattern (361 bp):
CTCTTCAACGTGGATGAGCAATGTTTTCTTCAACACCAAATTATCTCCAGATTGACCAGACTTCC
TCAATGAGAAGAAACAACATCATCTTCATCAAACAATTTACCTGAAAGCGGCCAGAACTCTTCAA
CGTGGATGAGCATGTCATCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCCTCACAAGAA
GGAAAACGTCATATTCAGCAAACAATTTACTTGAAAGCGGCCAGAACTCTTCAACGTGGATGAGC
AGTGTAGTCTTCAACATTAAATTATCTCCAGATTGACTCGACTACTCAATAAGAAGGAATATCAT
CATCTTAACAAACAATTTACCTAAAAGCGGCCAGAA
Found at i:52041 original size:97 final size:97
Alignment explanation
Indices: 51867--52049 Score: 255
Period size: 97 Copynumber: 1.9 Consensus size: 97
51857 AGCAGTGTAA
* *
51867 TCTTCAACTCCAAATTATCTCTAGATTGACCTGACTTCCTCAAAGAGAAGGAATTGCATCATCTT
1 TCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCCTCAAAGAGAAGGAATTGCATCATCTT
* *
51932 CAGTAAACAATTTACTTGAAAACTGCTAGAAC
66 CAGCAAACAATTTACCTGAAAACTGCTAGAAC
*
51964 TCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCCTCAACA-AGAATGAGCA-T-CATCAT
1 TCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCCTCAA-AGAGAA-G-GAATTGCATCAT
* *
52026 CTTTAGCAAATAATTTACCTGAAA
63 CTTCAGCAAACAATTTACCTGAAA
52050 GCGACCATAA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
97 71 0.93
98 3 0.04
99 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.30
Consensus pattern (97 bp):
TCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCCTCAAAGAGAAGGAATTGCATCATCTT
CAGCAAACAATTTACCTGAAAACTGCTAGAAC
Found at i:52184 original size:121 final size:122
Alignment explanation
Indices: 51964--52552 Score: 420
Period size: 121 Copynumber: 4.8 Consensus size: 122
51954 CTGCTAGAAC
* * * *
51964 TCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCCTCAACAAGAATGAGCATCATCATCTT
1 TCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCCTCAACAACAAGGAGAAGCATCATCTT
* * * * *
52029 TAGCAAATAATTTACCTGAAAGCGACCATAACTCTTTAATGTAGATGAGCAGGGTCG
66 CAACAAACAATTTACCTGAAAGCGACCAGAACTCTTCAATGTAGATGAGCAGGGTCG
* * **
52086 TCTTTAACACCAAATTATCTCCATA-TGACCTGACTTCCTGGACAACAAGGAGAAGCATCATCTT
1 TCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCCTCAACAACAAGGAGAAGCATCATCTT
* * * * * *
52150 CAATAACCAATTTACCTTAAAGCTACCAGAACTCTTCAATGTGGATGAGCAGTGTCG
66 CAACAAACAATTTACCTGAAAGCGACCAGAACTCTTCAATGTAGATGAGCAGGGTCG
* * * * * * *
52207 TCTTCAACACTAAATTATCTCTAAATTGA-CTCGACTTCCTCAACGAGAA-GAAATATCATCATC
1 TCTTCAACACCAAATTATCTCCAGATTGACCT-GACTTCCTCAACAACAAGGAGA-AGCATCATC
* * * * * * ** * ** *
52270 TCCAACAAATAATTTACCTGAAAGTGACCATATCTTTTCAACATGGATGAGCAATGTCA
64 TTCAACAAACAATTTACCTGAAAGCGACCAGAACTCTTCAATGTAGATGAGCAGGGTCG
* * * ** * * **
52329 TCTTCAACACCAAATTATATCTAAATTGA-CTCGACTTCCTCAATGAGAA-GAAACAAAATCATC
1 TCTTCAACACCAAATTATCTCCAGATTGACCT-GACTTCCTCAACAACAAGGAGA-AGCATCATC
** * * ** * * **
52392 TTCAGGACACAATTTACTTGAAAATGACCAG-ACTATTCAATGTGGATGAGCAATGTCG
64 TTCAACAAACAATTTACCTGAAAGCGACCAGAACTCTTCAATGTAGATGAGCAGGGTCG
* * * * * * * * *
52450 TCTTCAACACCAAATTATTTCTAAATTGACCCGAC-TCTCTCAAC-GCGAAAGAGCAGCGTCCTC
1 TCTTCAACACCAAATTATCTCCAGATTGACCTGACTTC-CTCAACAAC-AAGGAGAAGCATCATC
* * * * * *
52513 TTCAACAAGCAAGTTACCTAAAAGCGGCTAGATCTCTTCA
64 TTCAACAAACAATTTACCTGAAAGCGACCAGAACTCTTCA
52553 TCGCGAATGA
Statistics
Matches: 373, Mismatches: 86, Indels: 16
0.79 0.18 0.03
Matches are distributed among these distances:
120 2 0.01
121 190 0.51
122 181 0.49
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.28
Consensus pattern (122 bp):
TCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCCTCAACAACAAGGAGAAGCATCATCTT
CAACAAACAATTTACCTGAAAGCGACCAGAACTCTTCAATGTAGATGAGCAGGGTCG
Found at i:52312 original size:340 final size:341
Alignment explanation
Indices: 51623--52292 Score: 747
Period size: 340 Copynumber: 2.0 Consensus size: 341
51613 AGTAGTGTAG
** * *
51623 TCTTCAACATTAAATTATATCCAGATTGACCCGACATACTCAATAAGAAGGAATATCATAATCTC
1 TCTTCAACACCAAATTATATCCAGATTGACCCGACATACTCAACAAGAAGGAACATCATAATCTC
** * * **
51688 TAGCAAATAATTTAGTTGAAAACGACCATATCTCTTCAACGTGGATGAGCATTGTAGTTTTCAAC
66 TAGCAAATAATTTACCTGAAAACGACCATAACTCTTCAACGTAGATGAGCAGGGTAGTTTTCAAC
* * * * ** * *
51753 ACTAAATTATCTCCAAATTGAGCTGACTTACTCAACGAGAAGAAAAAATGTCATATTTACTAAAC
131 ACCAAATTATCTCCAAATTGACCTGACTTACTCAACAACAAGAAAAAACATCATATTCAATAAAC
* * * * *
51818 TATTTACTTGAAAGCGGCCAGAGCTCTTCAACGTGGATTAGCAGTGTAATCTTCAACTCCAAATT
196 AATTTACTTGAAAGCGACCAGAACTCTTCAACGTGGATGAGCAGTGTAATCTTCAACACCAAATT
* * * ** *
51883 ATCTCTAGATTGACCTGACTTCCTCAAAGAGAAGGAATTGCATCATCTTCAGTAAACAATTTACT
261 ATCTCTAAATTGACCTGACTTCCTCAAAGAGAAGAAATTGCATCATCTCCAACAAACAATTTACC
*
51948 TGAAAACTGCTAGAAC
326 TGAAAACTGCCAGAAC
* * * * * * * *
51964 TCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCCTCAACAAGAATGAGCATCATCATCTT
1 TCTTCAACACCAAATTATATCCAGATTGACCCGACATACTCAACAAGAAGGAACATCATAATCTC
* * * *
52029 TAGCAAATAATTTACCTGAAAGCGACCATAACTCTTTAATGTAGATGAGCAGGGTCGTCTTT-AA
66 TAGCAAATAATTTACCTGAAAACGACCATAACTCTTCAACGTAGATGAGCAGGGTAGT-TTTCAA
* * ** * * * * *
52093 CACCAAATTATCTCCATA-TGACCTGACTTCCTGGACAACAAGGAGAAGCATCATCTTCAATAAC
130 CACCAAATTATCTCCAAATTGACCTGACTTACTCAACAACAAGAAAAAACATCATATTCAATAAA
* * ** *
52157 CAATTTACCTT-AAAGCTACCAGAACTCTTCAATGTGGATGAGCAGTGTCGTCTTCAACACTAAA
195 CAATTTA-CTTGAAAGCGACCAGAACTCTTCAACGTGGATGAGCAGTGTAATCTTCAACACCAAA
* *
52221 TTATCTCTAAATTGA-CTCGACTTCCTCAACGAGAAGAAATAT-CATCATCTCCAACAAATAATT
259 TTATCTCTAAATTGACCT-GACTTCCTCAAAGAGAAGAAAT-TGCATCATCTCCAACAAACAATT
52284 TACCTGAAA
322 TACCTGAAA
52293 GTGACCATAT
Statistics
Matches: 268, Mismatches: 57, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
339 2 0.01
340 140 0.52
341 123 0.46
342 3 0.01
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (341 bp):
TCTTCAACACCAAATTATATCCAGATTGACCCGACATACTCAACAAGAAGGAACATCATAATCTC
TAGCAAATAATTTACCTGAAAACGACCATAACTCTTCAACGTAGATGAGCAGGGTAGTTTTCAAC
ACCAAATTATCTCCAAATTGACCTGACTTACTCAACAACAAGAAAAAACATCATATTCAATAAAC
AATTTACTTGAAAGCGACCAGAACTCTTCAACGTGGATGAGCAGTGTAATCTTCAACACCAAATT
ATCTCTAAATTGACCTGACTTCCTCAAAGAGAAGAAATTGCATCATCTCCAACAAACAATTTACC
TGAAAACTGCCAGAAC
Found at i:52317 original size:122 final size:122
Alignment explanation
Indices: 51964--52494 Score: 504
Period size: 122 Copynumber: 4.4 Consensus size: 122
51954 CTGCTAGAAC
* * * * *
51964 TCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCCTCAACAAGAATG-AGCATCATCATCT
1 TCTTCAACACCAAATTATCTCTAAATTGACC-GACTTCCTCAACGAGAAGGAAACATCATCATCT
* * * * * * **
52028 TTAGCAAATAATTTACCTGAAAGCGACCATAACTCTTT-AATGTAGATGAGCAGGGTCG
65 TCAACAAACAATTTACCTGAAAGTGACCAGAACT-TTTCAATGTGGATGAGCAATGTCG
* * * ** * * * *
52086 TCTTTAACACCAAATTATCTCCATA-TGACCTGACTTCCTGGACAACAAGGAGA-AGCATCATCT
1 TCTTCAACACCAAATTATCTCTAAATTGACC-GACTTCCTCAACGAGAAGGAAACATCATCATCT
* * * * *
52149 TCAATAACCAATTTACCTTAAAGCT-ACCAGAACTCTTCAATGTGGATGAGCAGTGTCG
65 TCAACAAACAATTTACCTGAAAG-TGACCAGAACTTTTCAATGTGGATGAGCAATGTCG
* *
52207 TCTTCAACACTAAATTATCTCTAAATTGACTCGACTTCCTCAACGAGAA-GAAATATCATCATCT
1 TCTTCAACACCAAATTATCTCTAAATTGAC-CGACTTCCTCAACGAGAAGGAAACATCATCATCT
* * * * ** *
52271 CCAACAAATAATTTACCTGAAAGTGACCATATCTTTTCAACATGGATGAGCAATGTCA
65 TCAACAAACAATTTACCTGAAAGTGACCAGAACTTTTCAATGTGGATGAGCAATGTCG
* * **
52329 TCTTCAACACCAAATTATATCTAAATTGACTCGACTTCCTCAATGAGAA-GAAACAAAATCATCT
1 TCTTCAACACCAAATTATCTCTAAATTGAC-CGACTTCCTCAACGAGAAGGAAACATCATCATCT
** * * * *
52393 TCAGGACACAATTTACTTGAAAATGACCAG-ACTATTCAATGTGGATGAGCAATGTCG
65 TCAACAAACAATTTACCTGAAAGTGACCAGAACTTTTCAATGTGGATGAGCAATGTCG
*
52450 TCTTCAACACCAAATTATTTCTAAATTGACCCGAC-TCTCTCAACG
1 TCTTCAACACCAAATTATCTCTAAATTGA-CCGACTTC-CTCAACG
52495 CGAAAGAGCA
Statistics
Matches: 337, Mismatches: 63, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
120 4 0.01
121 158 0.47
122 174 0.52
123 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (122 bp):
TCTTCAACACCAAATTATCTCTAAATTGACCGACTTCCTCAACGAGAAGGAAACATCATCATCTT
CAACAAACAATTTACCTGAAAGTGACCAGAACTTTTCAATGTGGATGAGCAATGTCG
Found at i:52433 original size:243 final size:240
Alignment explanation
Indices: 51964--52494 Score: 576
Period size: 243 Copynumber: 2.2 Consensus size: 240
51954 CTGCTAGAAC
* * * * *
51964 TCTTCAACACCAAATTATCTCCAGATTGACCTGACTTCCTCAACAAGAATGAGCATCATCATCTT
1 TCTTCAACACCAAATTATCTCTAAATTGACC-GACTTCCTCAACGAGAATGAACATCATCATCTC
* * ** * * *
52029 TAGCAAATAATTTACCTGAAAGCGACCATAACTCTTTAATGTAGATGAGCAGGGTCGTCTTTAAC
65 CAACAAATAATTTACCTGAAAGCGACCATAACTCTTTAACATAGATGAGCAAGGTCATCTTCAAC
* * * * *
52094 ACCAAATTATCTCCATATGACCTGACTTCCTGGACAACAAGGAGAAGCATCATCTTCAATAACCA
130 ACCAAATTATATCCAAATGACCTGACTTCCT-G-CAACAAGAAGAAACATCATCTTCAAGAACCA
* * *
52159 ATTTACCTTAAAGCTACCAGAACTCTTCAATGTGGATGAGCAGTGTCG
193 ATTTACCTTAAAGATACCAGAACTATTCAATGTGGATGAGCAATGTCG
* *
52207 TCTTCAACACTAAATTATCTCTAAATTGACTCGACTTCCTCAACGAGAA-GAAATATCATCATCT
1 TCTTCAACACCAAATTATCTCTAAATTGAC-CGACTTCCTCAACGAGAATG-AACATCATCATCT
* * * *
52271 CCAACAAATAATTTACCTGAAAGTGACCATATCT-TTTCAACATGGATGAGCAATGTCATCTTCA
64 CCAACAAATAATTTACCTGAAAGCGACCATAACTCTTT-AACATAGATGAGCAAGGTCATCTTCA
* **
52335 ACACCAAATTATATCTAAATTGA-CTCGACTTCCT-CAATGAGAAGAAACAAAATCATCTTC-AG
128 ACACCAAATTATATCCAAA-TGACCT-GACTTCCTGCAACAAGAAGAAAC---ATCATCTTCAAG
*
52397 GACACAATTTA-CTTGAAA-ATGACCAG-ACTATTCAATGTGGATGAGCAATGTCG
188 AAC-CAATTTACCTT-AAAGAT-ACCAGAACTATTCAATGTGGATGAGCAATGTCG
*
52450 TCTTCAACACCAAATTATTTCTAAATTGACCCGAC-TCTCTCAACG
1 TCTTCAACACCAAATTATCTCTAAATTGA-CCGACTTC-CTCAACG
52495 CGAAAGAGCA
Statistics
Matches: 243, Mismatches: 32, Indels: 26
0.81 0.11 0.09
Matches are distributed among these distances:
241 10 0.04
242 6 0.02
243 190 0.78
244 37 0.15
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (240 bp):
TCTTCAACACCAAATTATCTCTAAATTGACCGACTTCCTCAACGAGAATGAACATCATCATCTCC
AACAAATAATTTACCTGAAAGCGACCATAACTCTTTAACATAGATGAGCAAGGTCATCTTCAACA
CCAAATTATATCCAAATGACCTGACTTCCTGCAACAAGAAGAAACATCATCTTCAAGAACCAATT
TACCTTAAAGATACCAGAACTATTCAATGTGGATGAGCAATGTCG
Found at i:53357 original size:3 final size:3
Alignment explanation
Indices: 53349--53377 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
53339 CATCCAGGTT
53349 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
53378 ATGATATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:58934 original size:3 final size:3
Alignment explanation
Indices: 58926--58953 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
58916 AAATACACCT
58926 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
58954 GTCAAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:68016 original size:19 final size:19
Alignment explanation
Indices: 67970--68017 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
67960 TATTACAAGC
*
67970 ATCAGAAGTTAACTGAGAA
1 ATCAGATGTTAACTGAGAA
*
67989 ATCAGATGTTAATTGAGAA
1 ATCAGATGTTAACTGAGAA
*
68008 ATCATATGTT
1 ATCAGATGTT
68018 TACTCCTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (19 bp):
ATCAGATGTTAACTGAGAA
Found at i:70669 original size:13 final size:12
Alignment explanation
Indices: 70651--70688 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
70641 AAAGTTCTAC
70651 AACAAAAAGAAA
1 AACAAAAAGAAA
*
70663 AAGCAAAAACAAA
1 AA-CAAAAAGAAA
70676 AAC-AAAAGAAA
1 AACAAAAAGAAA
70687 AA
1 AA
70689 ACTCCTACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 9 0.39
12 3 0.13
13 11 0.48
ACGTcount: A:0.82, C:0.11, G:0.08, T:0.00
Consensus pattern (12 bp):
AACAAAAAGAAA
Found at i:73902 original size:19 final size:20
Alignment explanation
Indices: 73878--73928 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
73868 CAGCCAAGAG
*
73878 CATGTATCTTCATT-AAAAT
1 CATGTATTTTCATTAAAAAT
73897 CATGTATTTTCATTAAAAAT
1 CATGTATTTTCATTAAAAAT
73917 CATGTATTTTCA
1 CATGTATTTTCA
73929 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (20 bp):
CATGTATTTTCATTAAAAAT
Found at i:75082 original size:26 final size:26
Alignment explanation
Indices: 75031--75090 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 26
75021 TTTTAATTAC
* *
75031 AATAAAAGAGTTATTAAATCTCTTTT
1 AATAAAAGAGGTATTAAATCTATTTT
75057 AAATAAAAGAGGTA-TAAATCTATTTT
1 -AATAAAAGAGGTATTAAATCTATTTT
75083 AATAAAAG
1 AATAAAAG
75091 GAATAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 8 0.26
26 11 0.35
27 12 0.39
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (26 bp):
AATAAAAGAGGTATTAAATCTATTTT
Found at i:82740 original size:15 final size:17
Alignment explanation
Indices: 82720--82751 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
82710 ATATAGTCAT
82720 ATAAAT-AT-ATTTATA
1 ATAAATAATAATTTATA
82735 ATAAATAATAATTTATA
1 ATAAATAATAATTTATA
82752 TGTTTTTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAATAATAATTTATA
Found at i:83001 original size:23 final size:26
Alignment explanation
Indices: 82969--83018 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 26
82959 CCTTTTCTGA
*
82969 TATTTCTAAATA-A-ATAAA-TATTT
1 TATTTATAAATATATATAAATTATTT
82992 TATTTATAAATATATATAAATTATTT
1 TATTTATAAATATATATAAATTATTT
83018 T
1 T
83019 TTCCTTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 5 0.22
26 6 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTTATAAATATATATAAATTATTT
Found at i:85094 original size:8 final size:7
Alignment explanation
Indices: 85070--85111 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
85060 TTTTCATGCA
85070 TGCA-TT
1 TGCATTT
85076 TGCATTT
1 TGCATTT
85083 TGCATCTT
1 TGCAT-TT
85091 TGCATTT
1 TGCATTT
* *
85098 TTCATTG
1 TGCATTT
85105 TGCATTT
1 TGCATTT
85112 ATACTTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 4 0.13
7 19 0.63
8 7 0.23
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (7 bp):
TGCATTT
Found at i:85094 original size:15 final size:14
Alignment explanation
Indices: 85070--85111 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
85060 TTTTCATGCA
85070 TGCA-TTTGCATTT
1 TGCATTTTGCATTT
85083 TGCATCTTTGCATTT
1 TGCAT-TTTGCATTT
* *
85098 TTCATTGTGCATTT
1 TGCATTTTGCATTT
85112 ATACTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 13 0.52
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (14 bp):
TGCATTTTGCATTT
Found at i:85207 original size:27 final size:27
Alignment explanation
Indices: 85171--85230 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
85161 CATTCACATA
85171 TTTACATTTGCATTTACATTTGCATTT
1 TTTACATTTGCATTTACATTTGCATTT
* * *
85198 TTTACGTTTGTATTTACATTTTCA-TT
1 TTTACATTTGCATTTACATTTGCATTT
85224 TTTACAT
1 TTTACAT
85231 AATTACATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.13, G:0.07, T:0.58
Consensus pattern (27 bp):
TTTACATTTGCATTTACATTTGCATTT
Found at i:85224 original size:12 final size:12
Alignment explanation
Indices: 85170--85197 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
85160 ACATTCACAT
85170 ATTTACATTTGC
1 ATTTACATTTGC
85182 ATTTACATTTGC
1 ATTTACATTTGC
85194 ATTT
1 ATTT
85198 TTTACGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (12 bp):
ATTTACATTTGC
Found at i:86866 original size:2 final size:2
Alignment explanation
Indices: 86859--86914 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
86849 ATCCTTTTAA
86859 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
86901 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
86915 CATTTGTTGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87233 original size:15 final size:15
Alignment explanation
Indices: 87207--87250 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
87197 TACTCATCCA
*
87207 GCAAAGAAAGAAGAAT
1 GCAAA-AAAGAAGAAG
*
87223 GCAAAAAAGAAAAAG
1 GCAAAAAAGAAGAAG
*
87238 GGAAAAAAGAAGA
1 GCAAAAAAGAAGA
87251 TAAAAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.68, C:0.05, G:0.25, T:0.02
Consensus pattern (15 bp):
GCAAAAAAGAAGAAG
Found at i:92260 original size:22 final size:22
Alignment explanation
Indices: 92229--92281 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
92219 ATCTACACTC
*
92229 TTCAAAGATGATAGATTCCC-T
1 TTCAAAGATGACAGATTCCCTT
*
92250 TTCTAAAGATGACAGATTCTCTT
1 TTC-AAAGATGACAGATTCCCTT
92273 TTCAAAGAT
1 TTCAAAGAT
92282 AAAAGCTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 3 0.11
22 21 0.75
23 4 0.14
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:92893 original size:113 final size:113
Alignment explanation
Indices: 92677--93108 Score: 631
Period size: 113 Copynumber: 3.8 Consensus size: 113
92667 TAGCAAAGAT
*
92677 TCAAATCCATCAC--AATGCATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTAATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
92740 AGAATGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTATGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
92788 TCAAATCCATCACTTAATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTAATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
92853 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
* * * * * *
92901 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTAATCTGA
1 TCAAATCCATCACTTAATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
92966 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTT-GC
** * * * * ** *
93014 TTGAATTCATCA-TTCGATGGATCAGCATTACCAG-GTCGAGTTCATAATGAGAAGAATTCATCT
1 TCAAATCCATCACTT-AATGGATCAACATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCT
93077 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
64 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
93109 ACCCATATGA
Statistics
Matches: 296, Mismatches: 20, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
111 13 0.04
112 7 0.02
113 276 0.93
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (113 bp):
TCAAATCCATCACTTAATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
Found at i:93106 original size:24 final size:23
Alignment explanation
Indices: 93063--93107 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
93053 GTTCATAATG
*
93063 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
93086 AGAAGAAGTTCATAATG-AGAAG
1 AGAAGAA-TTCAT-ATGAAGAAG
93108 AACCCATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 10 0.53
25 2 0.11
ACGTcount: A:0.49, C:0.07, G:0.27, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:93107 original size:40 final size:40
Alignment explanation
Indices: 93052--93151 Score: 155
Period size: 40 Copynumber: 2.5 Consensus size: 40
93042 TACCAGGTCG
*
93052 AGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGA
1 AGTTCATAATGAGAAGAATTCATATGAAGAAGGAAGAAGA
** *
93092 AGTTCATAATGAGAAGAACCCATATGAAGAAGGAAGAATA
1 AGTTCATAATGAGAAGAATTCATATGAAGAAGGAAGAAGA
*
93132 AATTCATAATGAGAAGAATT
1 AGTTCATAATGAGAAGAATT
93152 TGTTCAACCT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.49, C:0.08, G:0.22, T:0.21
Consensus pattern (40 bp):
AGTTCATAATGAGAAGAATTCATATGAAGAAGGAAGAAGA
Found at i:93128 original size:153 final size:153
Alignment explanation
Indices: 92933--93262 Score: 455
Period size: 153 Copynumber: 2.2 Consensus size: 153
92923 CAGCTTTTCC
* * *
92933 AGAAAAAGTTCATAATGAGAAGAACTAATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
1 AGAAAAAGTTCATAATGAGAAGAACCAATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAC
** * **** *
92998 TTGTTCAA-CTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAAT
66 TTGTTCAACCTTTT-GCTCAAATCCATCATTCGATGGATCAGCATTACCAGAAAAAGCTCATAAT
* *
93062 GAGAAGAATTCATCTGAAGAAGGA
130 GAGAAGAACTCATCTAAAGAAGGA
* * * *
93086 AGAAGAAGTTCATAATGAGAAGAACCCATATGAAGAAGGAAGAATAAATTCATAATGAGAAGAAT
1 AGAAAAAGTTCATAATGAGAAGAACCAATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAC
* * *
93151 TTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGCTCATAATG
66 TTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAGCATTACCAGAAAAAGCTCATAATG
93216 AGAAGAACTCATCTAAAGAAGGA
131 AGAAGAACTCATCTAAAGAAGGA
*
93239 AGAAAAAATTCATAATGAGAAGAA
1 AGAAAAAGTTCATAATGAGAAGAA
93263 TTTGTTCAAC
Statistics
Matches: 154, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
153 149 0.97
154 5 0.03
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.25
Consensus pattern (153 bp):
AGAAAAAGTTCATAATGAGAAGAACCAATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAC
TTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAGCATTACCAGAAAAAGCTCATAATG
AGAAGAACTCATCTAAAGAAGGA
Found at i:93186 original size:266 final size:266
Alignment explanation
Indices: 92825--93376 Score: 863
Period size: 266 Copynumber: 2.1 Consensus size: 266
92815 TTTCCAGAGA
* * * *
92825 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACCCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTT
*
92890 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAG
66 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGCTCATAATGAGAAG
* * * **
92955 AACTAATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGAA
131 AACTAATCTAAAGAAGGAAGAAAAAATTCATAATGAGAAGAACTTGTTCAACCTTTT-GCTCAAA
* **** * *
93019 TTCATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAATTCATCTGAAGAAG
195 TCCATCATTCGATGGATCAGCATTACCAGAAAAAGTTCATAATGAGAAGAACTAATCTGAAGAAG
93084 GAAGAAG
260 GAAGAAG
* *
93091 AAGTTCATAATGAGAAGAACCCATATGAAGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACCCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTT
93156 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGCTCATAATGAGAAG
66 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGCTCATAATGAGAAG
* *
93221 AACTCATCTAAAGAAGGAAGAAAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAAT
131 AACTAATCTAAAGAAGGAAGAAAAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAAT
* * * *
93286 CCATCATTTGATGGATTAGCATTTCTAGAAAAAGTTCATAATGAGAAGAACTAATCTGAAGAAGG
196 CCATCATTCGATGGATCAGCATTACCAGAAAAAGTTCATAATGAGAAGAACTAATCTGAAGAAGG
93351 AAGAAG
261 AAGAAG
93357 AAGTTCATAATGAGAAGAAC
1 AAGTTCATAATGAGAAGAAC
93377 TTGTTCAACT
Statistics
Matches: 260, Mismatches: 25, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
266 255 0.98
267 5 0.02
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (266 bp):
AAGTTCATAATGAGAAGAACCCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTT
CAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGCTCATAATGAGAAG
AACTAATCTAAAGAAGGAAGAAAAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAAT
CCATCATTCGATGGATCAGCATTACCAGAAAAAGTTCATAATGAGAAGAACTAATCTGAAGAAGG
AAGAAG
Found at i:93212 original size:113 final size:113
Alignment explanation
Indices: 93086--93488 Score: 574
Period size: 113 Copynumber: 3.6 Consensus size: 113
93076 TGAAGAAGGA
* * * *
93086 AGAAGAAGTTCATAATGAGAAGAACCCATATGAAGAAGGAAGAATAAATTCATAATGAGAAGAAT
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
*
93151 TTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCC
66 TTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCATTTCC
* * *
93199 AGAAAAAGCTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAAAAATTCATAATGAGAAGAAT
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
* *
93264 TTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATTAGCATTTCT
66 TTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCATTTCC
* * *
93312 AGAAAAAGTTCATAATGAGAAGAACTAATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
** * * *
93377 TTGTTCAA-CTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACC
66 TTGTTCAACCTTTT-GCTCAAATCCATCATTTGATGGATCAGCATTTCC
**** * *
93425 AGGTCGAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
93489 CTCAAATGAA
Statistics
Matches: 261, Mismatches: 28, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
112 5 0.02
113 256 0.98
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (113 bp):
AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
TTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCATTTCC
Found at i:93411 original size:379 final size:379
Alignment explanation
Indices: 92712--93869 Score: 2010
Period size: 379 Copynumber: 3.1 Consensus size: 379
92702 TTTCCAGAGA
* * * * **
92712 AAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTT
* * * * *
92777 CAACCTTATGCTCAAATCCATCACTTAATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAG
66 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAG
92842 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAAT
131 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAAT
92907 CCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTAATCTGAAGAAGG
196 CCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTAATCTGAAGAAGG
92972 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATC
261 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATC
93037 AGCATTACCAGGTCGAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAG
326 AGCATTACCAGGTCGAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAG
*
93091 AAGTTCATAATGAGAAGAACCCATATGAAGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTT
* *
93156 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGCTCATAATGAGAAG
66 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAG
* * * **
93221 AACTCATCTAAAGAAGGAAGAAAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAAT
131 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAAT
* * *
93286 CCATCATTTGATGGATTAGCATTTCTAGAAAAAGTTCATAATGAGAAGAACTAATCTGAAGAAGG
196 CCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTAATCTGAAGAAGG
93351 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATC
261 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATC
93416 AGCATTACCAGGTCGAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAG
326 AGCATTACCAGGTCGAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAG
* *
93470 AAGTTCATAATGAGAAGAACTCAAATGAAGAAGGAATAATAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTT
* *
93535 CAACATTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAA
66 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAG
93600 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAAT
131 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAAT
93665 CCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTAATCTGAAGAAGG
196 CCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTAATCTGAAGAAGG
* * *
93730 ACGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCGATAGATC
261 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATC
* * * *
93795 AGCATTGCCAGGGCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAG
326 AGCATTACCAGGTCGAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAG
*
93849 AAGTTCATAATAAGAAGAACT
1 AAGTTCATAATGAGAAGAACT
93870 TGTTCAACTT
Statistics
Matches: 734, Mismatches: 45, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
379 734 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (379 bp):
AAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTT
CAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAG
AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAAT
CCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTAATCTGAAGAAGG
AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATC
AGCATTACCAGGTCGAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAG
Found at i:93480 original size:266 final size:266
Alignment explanation
Indices: 93199--93756 Score: 848
Period size: 266 Copynumber: 2.1 Consensus size: 266
93189 CAGCTTTTCC
* * **
93199 AGAAAAAGCTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAAAAATTCATAATGAGAAGAAT
1 AGAAGAAGTTCATAATGAGAAGAACTCAAATAAAGAAGGAAGAAAAAATTCATAATGAGAAGAAT
* * *
93264 TTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATTAGCATTTCTAGAAAAAGTTCATAATG
66 TTGTTCAACATTTTGCTCAAATCCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATG
*
93329 AGAAGAACTAATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGC
131 AGAAAAACTAATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GC
** * **** * *
93393 TTGAATTCATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAATTCATCTGA
195 TCAAATCCATCATTCGATGGATCAGCATTACCAGAAAAAGTTCATAATGAGAAGAACTAATCTGA
93458 AGAAGGA
260 AGAAGGA
* * *
93465 AGAAGAAGTTCATAATGAGAAGAACTCAAATGAAGAAGGAATAATAAATTCATAATGAGAAGAAT
1 AGAAGAAGTTCATAATGAGAAGAACTCAAATAAAGAAGGAAGAAAAAATTCATAATGAGAAGAAT
* *
93530 TTGTTCAACATTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATG
66 TTGTTCAACATTTTGCTCAAATCCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATG
* *
93595 AGAAAAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCT
131 AGAAAAACTAATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
* * *
93660 CAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTAATCTGAA
196 CAAATCCATCATTCGATGGATCAGCATTACCAGAAAAAGTTCATAATGAGAAGAACTAATCTGAA
93725 GAAGGA
261 GAAGGA
*
93731 CGAAGAAGTTCATAATGAGAAGAACT
1 AGAAGAAGTTCATAATGAGAAGAACT
93757 TGTTCAACTT
Statistics
Matches: 263, Mismatches: 28, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
266 258 0.98
267 5 0.02
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.26
Consensus pattern (266 bp):
AGAAGAAGTTCATAATGAGAAGAACTCAAATAAAGAAGGAAGAAAAAATTCATAATGAGAAGAAT
TTGTTCAACATTTTGCTCAAATCCATCATTTGATGGATCAGCATTTCCAGAAAAAGTTCATAATG
AGAAAAACTAATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
CAAATCCATCATTCGATGGATCAGCATTACCAGAAAAAGTTCATAATGAGAAGAACTAATCTGAA
GAAGGA
Found at i:93485 original size:24 final size:23
Alignment explanation
Indices: 93442--93486 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
93432 GTTCATAATG
*
93442 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
93465 AGAAGAAGTTCATAATG-AGAAG
1 AGAAGAA-TTCAT-ATGAAGAAG
93487 AACTCAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 10 0.53
25 2 0.11
ACGTcount: A:0.49, C:0.07, G:0.27, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:93486 original size:40 final size:40
Alignment explanation
Indices: 93431--93530 Score: 146
Period size: 40 Copynumber: 2.5 Consensus size: 40
93421 TACCAGGTCG
**
93431 AGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGA
1 AGTTCATAATGAGAAGAATTCAAATGAAGAAGGAAGAAGA
* * *
93471 AGTTCATAATGAGAAGAACTCAAATGAAGAAGGAATAATA
1 AGTTCATAATGAGAAGAATTCAAATGAAGAAGGAAGAAGA
*
93511 AATTCATAATGAGAAGAATT
1 AGTTCATAATGAGAAGAATT
93531 TGTTCAACAT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.22
Consensus pattern (40 bp):
AGTTCATAATGAGAAGAATTCAAATGAAGAAGGAAGAAGA
Found at i:93517 original size:153 final size:153
Alignment explanation
Indices: 93312--93640 Score: 466
Period size: 153 Copynumber: 2.2 Consensus size: 153
93302 TAGCATTTCT
* * *
93312 AGAAAAAGTTCATAATGAGAAGAACTAATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
1 AGAAGAAGTTCATAATGAGAAGAACTAATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAC
** * **
93377 TTGTTCAAC-TTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAG-GTCGAGTTCATAA
66 TTGTTCAACATTTT-GCTCAAATCCATCATTCGATGGATCAGCATTACCAGAG-AAAGTTCATAA
* *
93440 TGAGAAGAATTCATCTGAAGAAGGA
129 TGAGAAAAACTCATCTGAAGAAGGA
* *
93465 AGAAGAAGTTCATAATGAGAAGAACTCAA-ATGAAGAAGGAATAATAAATTCATAATGAGAAGAA
1 AGAAGAAGTTCATAATGAGAAGAACT-AATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
* * * *
93529 TTTGTTCAACATTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAAT
65 CTTGTTCAACATTTTGCTCAAATCCATCATTCGATGGATCAGCATTACCAGAGAAAGTTCATAAT
93594 GAGAAAAACTCATCTGAAGAAGGA
130 GAGAAAAACTCATCTGAAGAAGGA
93618 AGAAGAAGTTCATAATGAGAAGA
1 AGAAGAAGTTCATAATGAGAAGA
93641 GCTTGTTCAA
Statistics
Matches: 157, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
153 150 0.96
154 7 0.04
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (153 bp):
AGAAGAAGTTCATAATGAGAAGAACTAATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAC
TTGTTCAACATTTTGCTCAAATCCATCATTCGATGGATCAGCATTACCAGAGAAAGTTCATAATG
AGAAAAACTCATCTGAAGAAGGA
Found at i:93587 original size:113 final size:113
Alignment explanation
Indices: 93470--94116 Score: 753
Period size: 113 Copynumber: 5.6 Consensus size: 113
93460 AAGGAAGAAG
** * * * *
93470 AAGTTCATAATGAGAAGAACTCAAATGAAGAAGGAATAATAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* *
93535 CAACATTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGA
66 CAACCTTTTGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGAGA
* *
93583 AAGTTCATAATGAGAAAAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* *
93648 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAA
66 CAACCTTTTGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGAGA
* *
93696 AAGTTCATAATGAGAAGAACTAATCTGAAGAAGGACGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* ** * * * * * *
93761 CAACTTTTTGCTTGAATTCATCATTCGATAGATCAGCATTGCCAGGGC
66 CAACCTTTTGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGAGA
* * *
93809 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * *
93874 CAA-CTTTTCGCTCGAATTCATCATTCGATGGATCAACTTTTCCAGAGA
66 CAACCTTTT-GCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGAGA
* * * *
93922 GAGTTCATAATGAGAAGAACTCATCTGATGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* ** * * ** *
93987 CGACCTTTTGCAT-AATTCTATCACAAAAGGAGATAGATCAACATCAGCATTTT-CAGAGG
66 CAACCTTTTGC-TCAA----ATC-C---ATCA-TTCGAT--GGATCAGC-TTTTCCAGAGA
* *
94046 AAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATAAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
94110 CAACCTT
66 CAACCTT
94117 ACCTTAATTC
Statistics
Matches: 460, Mismatches: 59, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
112 4 0.01
113 363 0.79
114 6 0.01
117 2 0.00
118 1 0.00
121 2 0.00
122 4 0.01
123 36 0.08
124 38 0.08
125 4 0.01
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (113 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTTTGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGAGA
Found at i:93632 original size:492 final size:489
Alignment explanation
Indices: 92702--93984 Score: 1601
Period size: 492 Copynumber: 2.6 Consensus size: 489
92692 TGCATCAACA
* *
92702 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * * * *
92767 AGAGCTTGTTCAACCTTATGCTCAAATCCATCACTTAATGGATCAACATTTCCAGAGAAAGTTCA
66 AGAACTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCATTTCCAGAGAAAGTTCA
*
92832 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTT
131 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTT
* * * * * *
92897 TT-GCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTAA
195 TTCGCTCGAATTCATCATTCGATGGATCAGCTTTTCCAG-GAGAGTTCATAATGAGAAGAACTCA
** *** ** * *
92961 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCA
259 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGAACAACGAATC-AATAAATTCATAA
** * * * * * * *
93026 TTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAG
323 TAAGATGGATCAACATTA-CAGCTCAAATCCATAATGAGAAGAATTCAGCTGAACAAGGAAGAAG
* * *
93091 AAGTTCATAATGAGAAGAACCCATATGAAGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTT
387 AAGTTCATAATGAGAAAAACCCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTT
93156 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCT
452 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCT
* * * *
93194 TTTCCAGAAAAAGCTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAAAAATTCATAATGAGA
1 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * * *
93259 AGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATTAGCATTTCTAGAAAAAGTTCA
66 AGAACTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCATTTCCAGAGAAAGTTCA
*
93324 TAATGAGAAGAACTAATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTT
131 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTT
* * * * *
93389 TCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTCGAGTTCATAATGAGAAGAATTCAT
196 TCGCTCGAATTCATCATTCGATGGATCAGCTTTTCCAGG-AGAGTTCATAATGAGAAGAACTCAT
* *
93454 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTCAAATGAAGAAGGAAT-AATAAATTCAT
260 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT----TGAACAACGAATCAATAAATTCAT
* * ** * ** * * *** *
93518 AATGAGAAGAATTTGTTCAACATT-TTGCTCAAATCCATCATTTGATGGA-TCAGCTTTTCCA-G
321 AAT---AAG-A-TGGATCAACATTACAGCTCAAATCCATAATGAGAAGAATTCAGCTGAACAAGG
* * * *
93580 -AG-A-AAGTTCATAATGAGAAAAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAG
381 AAGAAGAAGTTCATAATGAGAAAAACCCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
93642 CTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCT
446 CTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCT
* *
93686 TTTCCAGAAAAAGTTCATAATGAGAAGAACTAATCTGAAGAAGGACGAAGAAGTTCATAATGAGA
1 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* ** * * * * * **
93751 AGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCGATAGATCAGCATTGCCAGGGCGAGTTCA
66 AGAACTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCATTTCCAGAGAAAGTTCA
* *
93816 TAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTT
131 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTT
*
93881 TCGCTCGAATTCATCATTCGATGGATCAACTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCAT
196 TCGCTCGAATTCATCATTCGATGGATCAGCTTTTCCAG-GAGAGTTCATAATGAGAAGAACTCAT
* * *
93946 CTGATGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTG
260 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
93985 TTCGACCTTT
Statistics
Matches: 679, Mismatches: 100, Indels: 28
0.84 0.12 0.03
Matches are distributed among these distances:
488 2 0.00
491 5 0.01
492 621 0.91
493 2 0.00
494 12 0.02
495 1 0.00
496 11 0.02
497 15 0.02
498 1 0.00
499 9 0.01
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.27
Consensus pattern (489 bp):
TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAACTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCATTTCCAGAGAAAGTTCA
TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTT
TCGCTCGAATTCATCATTCGATGGATCAGCTTTTCCAGGAGAGTTCATAATGAGAAGAACTCATC
TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGAACAACGAATCAATAAATTCATAATAA
GATGGATCAACATTACAGCTCAAATCCATAATGAGAAGAATTCAGCTGAACAAGGAAGAAGAAGT
TCATAATGAGAAAAACCCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAAC
CTTTTGCTCAAATCCATCATTTGATGGATCAGCT
Found at i:96046 original size:23 final size:25
Alignment explanation
Indices: 96014--96062 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
96004 CATTTTCTGA
*
96014 TATTTCTAAATA-A-ATAAATATTT
1 TATTTATAAATATATATAAATATTT
*
96037 TATTTATAAATATATATAAATTTTT
1 TATTTATAAATATATATAAATATTT
96062 T
1 T
96063 TTTCTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.50
24 1 0.05
25 10 0.45
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
TATTTATAAATATATATAAATATTT
Found at i:97707 original size:30 final size:29
Alignment explanation
Indices: 97671--97755 Score: 80
Period size: 30 Copynumber: 2.9 Consensus size: 29
97661 CAAAATTTAT
97671 ACTTTTAAAAATTAAATTTTTGGTCCCTAA
1 ACTTTTAAAAATTAAA-TTTTGGTCCCTAA
* * * * *
97701 ACTTTTACAAATGTATACTTTGCTCACTAA
1 ACTTTTAAAAAT-TAAATTTTGGTCCCTAA
* * *
97731 ACTTTCAAAACTTACATTTTGGTCC
1 ACTTTTAAAAATTAAATTTTGGTCC
97756 TAGCCAAGAT
Statistics
Matches: 42, Mismatches: 12, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
29 9 0.21
30 30 0.71
31 3 0.07
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (29 bp):
ACTTTTAAAAATTAAATTTTGGTCCCTAA
Found at i:98950 original size:12 final size:12
Alignment explanation
Indices: 98935--98959 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
98925 TGTTTTATAA
98935 TATTAAAATATT
1 TATTAAAATATT
98947 TATTAAAATATT
1 TATTAAAATATT
98959 T
1 T
98960 TTGGATTCGC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATTAAAATATT
Found at i:105510 original size:15 final size:14
Alignment explanation
Indices: 105472--105501 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
105462 TGGATACATA
105472 TTTTAAAAT-TATT
1 TTTTAAAATATATT
105485 TTTTAAAATATATT
1 TTTTAAAATATATT
105499 TTT
1 TTT
105502 ATTAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTAAAATATATT
Found at i:108598 original size:19 final size:18
Alignment explanation
Indices: 108557--108598 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
108547 TCCAAATAGG
*
108557 TAAAATCTATATTTAATT
1 TAAAATATATATTTAATT
*
108575 T-AAATATATAATTTTATT
1 TAAAATATAT-ATTTAATT
108593 TAAAAT
1 TAAAAT
108599 CCAATAACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAAATATATATTTAATT
Found at i:111392 original size:15 final size:18
Alignment explanation
Indices: 111362--111398 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
111352 ATTTTAACTC
111362 TATTTTATTGAATAAA-A
1 TATTTTATTGAATAAATA
111379 TATTTT-TT-AATAAATA
1 TATTTTATTGAATAAATA
111395 TATT
1 TATT
111399 ATTTCGGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 7 0.37
17 6 0.32
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TATTTTATTGAATAAATA
Found at i:112549 original size:19 final size:19
Alignment explanation
Indices: 112508--112552 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
112498 CACATTAAGT
* ***
112508 TTTTAAATTATGATTTTTG
1 TTTTAAATTAGGATTTAAA
112527 TTTTAAATTAGGATTTAAA
1 TTTTAAATTAGGATTTAAA
112546 TTTTAAA
1 TTTTAAA
112553 ATATTTTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (19 bp):
TTTTAAATTAGGATTTAAA
Found at i:115955 original size:22 final size:20
Alignment explanation
Indices: 115919--115959 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
115909 ACTTGAAAAT
115919 AAAAGAAAAATGAAAACTTG
1 AAAAGAAAAATGAAAACTTG
115939 AAAAGTAAAAATAGAAAACTT
1 AAAAG-AAAAAT-GAAAACTT
115960 AATAAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 6 0.32
22 8 0.42
ACGTcount: A:0.66, C:0.05, G:0.12, T:0.17
Consensus pattern (20 bp):
AAAAGAAAAATGAAAACTTG
Found at i:123330 original size:270 final size:261
Alignment explanation
Indices: 122817--123420 Score: 899
Period size: 270 Copynumber: 2.3 Consensus size: 261
122807 TATATTCGGG
*
122817 TCGGGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATATT
1 TCGGGTCGGGTCGGGTGAAACTTTATTTTGTTCGGGTCGGGTCGGG-TTTTTTAAGTGTGATATT
*
122882 CGGGTCGGGTCGGGTCGGTTTAGGGTGAAAAAAATTGGACCGACCTAAAAAATATATAATTTTAC
65 CGGGTCGGGTC-GG-CGGTTTAGGGTGAAAAAAATCGGACCGACCTAAAAAATATATAATTTTAC
* *
122947 CTTATATATTTAGGAATAATTACAATAATACCCCTCTCTATATATATTTTTTCAATTAAGTCACT
128 CTTATATATTTACGAATAATTACAATAATACCCCTCTATATATATATTTTTTCAATTAAGTCACT
* *
123012 GTTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTCGGGTTGGATTTCTAATTCAT
193 GTTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGAGTCGGGTCGGATTTCTAATTCAT
123077 ATAT
258 ATAT
* * *
123081 TCGGGTCGAGTCAGGTGAAACTTTATTTTGTTCGGGACGGGTCGGGTTTTTTAAGTGTGATATTC
1 TCGGGTCGGGTCGGGTGAAACTTTATTTTGTTCGGGTCGGGTCGGGTTTTTTAAGTGTGATATTC
* * *
123146 GGGTTGGTTC-G-GGTTTAGGGTGAAAAACATCGGACCGACC-AGAAAATATATATAATTTTACC
66 GGGTCGGGTCGGCGGTTTAGGGTGAAAAAAATCGGACCGACCTA-AAAA-ATATATAATTTTACC
123208 TTATATATTTACGAATAATTACAATAATACCCCTCTATATATATATATATATATATATTTTCAAT
129 TTATATATTTACGAATAATTACAATAATACCCCTC--------TATATATATAT-T-TTTTCAAT
* * *
123273 TAAGTCACTGTTTTTATTAAATAAAAATAGTTTTTTATTATTTTGGGTCTAGTCGGGTCGGATTT
184 TAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGAGTCGGGTCGGATTT
123338 CTAATTCATATAT
249 CTAATTCATATAT
* *
123351 TCGGGTTGGGTCGGGTGAAACTTTATTTTGTTTGGGTCGGGTCGGGTTTTTTAAGTGTGATATTC
1 TCGGGTCGGGTCGGGTGAAACTTTATTTTGTTCGGGTCGGGTCGGGTTTTTTAAGTGTGATATTC
123416 GGGTC
66 GGGTC
123421 AAGTCGGGTC
Statistics
Matches: 307, Mismatches: 21, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
258 1 0.00
259 31 0.10
260 49 0.16
261 1 0.00
263 27 0.09
264 42 0.14
268 10 0.03
269 1 0.00
270 145 0.47
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (261 bp):
TCGGGTCGGGTCGGGTGAAACTTTATTTTGTTCGGGTCGGGTCGGGTTTTTTAAGTGTGATATTC
GGGTCGGGTCGGCGGTTTAGGGTGAAAAAAATCGGACCGACCTAAAAAATATATAATTTTACCTT
ATATATTTACGAATAATTACAATAATACCCCTCTATATATATATTTTTTCAATTAAGTCACTGTT
TTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGAGTCGGGTCGGATTTCTAATTCATATA
T
Found at i:123429 original size:37 final size:37
Alignment explanation
Indices: 123386--123473 Score: 131
Period size: 38 Copynumber: 2.4 Consensus size: 37
123376 TTTTGTTTGG
123386 GTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCAA
1 GTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCAA
* * **
123423 GTCGGGTCCGGTTTTTTTAAGTTTGATATTCGGGTCGG
1 GTCGGGT-CGGGTTTTTTAAGTGTGATATTCGGGTCAA
123461 GTCGGGTCGGGTT
1 GTCGGGTCGGGTT
123474 CGGGTTTAGG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
37 12 0.27
38 33 0.73
ACGTcount: A:0.11, C:0.12, G:0.38, T:0.39
Consensus pattern (37 bp):
GTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCAA
Found at i:124064 original size:16 final size:18
Alignment explanation
Indices: 124043--124088 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
124033 TATAGAATTG
124043 GATTCCAATTCC-T-ACA
1 GATTCCAATTCCTTCACA
124059 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
124077 GATTCCAATTCC
1 GATTCCAATTCC
124089 CTCATAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 12 0.43
17 1 0.04
18 15 0.54
ACGTcount: A:0.28, C:0.33, G:0.07, T:0.33
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Done.