Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004237.1 Hibiscus syriacus cultivar Beakdansim tig00009282_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: 99510
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:6152 original size:21 final size:21
Alignment explanation
Indices: 6128--6168 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6118 GGGTTCTATG
* *
6128 TGGTTCTTCGGGATAATTATA
1 TGGTCCTTCGGGACAATTATA
6149 TGGTCCTTCGGGACAATTAT
1 TGGTCCTTCGGGACAATTAT
6169 GTGGCACTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (21 bp):
TGGTCCTTCGGGACAATTATA
Found at i:6178 original size:21 final size:20
Alignment explanation
Indices: 6133--6180 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
6123 CTATGTGGTT
* *
6133 CTTCGGGATAATTATATGGTC
1 CTTCGGGACAATTATGTGG-C
6154 CTTCGGGACAATTATGTGGC
1 CTTCGGGACAATTATGTGGC
6174 ACTTCGG
1 -CTTCGG
6181 TGCAAACCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (20 bp):
CTTCGGGACAATTATGTGGC
Found at i:10457 original size:20 final size:20
Alignment explanation
Indices: 10418--10458 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
10408 CATTGCAGAA
*
10418 ATTTATGGCCTCGACGAAAG
1 ATTTATGGCCTCCACGAAAG
10438 ATTTCATGGCCTCCAC-AAAG
1 ATTT-ATGGCCTCCACGAAAG
10458 A
1 A
10459 CCTTGATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (20 bp):
ATTTATGGCCTCCACGAAAG
Found at i:23937 original size:18 final size:17
Alignment explanation
Indices: 23910--23971 Score: 51
Period size: 18 Copynumber: 3.7 Consensus size: 17
23900 ACCCTTTTTA
*
23910 TTTTATGTTGCAACGTAT
1 TTTTAAGTTGCAAC-TAT
23928 TTTTAAGTTGC-AC-AT
1 TTTTAAGTTGCAACTAT
*
23943 TTTGAA-TTGCAACCTAT
1 TTTTAAGTTGCAA-CTAT
23960 TTTCT-AGTTGCA
1 TTT-TAAGTTGCA
23972 CCCCATCTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
14 4 0.11
15 8 0.22
16 1 0.03
17 8 0.22
18 15 0.42
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47
Consensus pattern (17 bp):
TTTTAAGTTGCAACTAT
Found at i:25864 original size:22 final size:22
Alignment explanation
Indices: 25836--25878 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
25826 CCCAAAACAT
*
25836 ACATACATACATAAAGACACAG
1 ACATACATACACAAAGACACAG
*
25858 ACATACATACACACAGACACA
1 ACATACATACACAAAGACACA
25879 CACAGACACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.28, G:0.07, T:0.12
Consensus pattern (22 bp):
ACATACATACACAAAGACACAG
Found at i:26862 original size:20 final size:21
Alignment explanation
Indices: 26837--26888 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
26827 TTTTCCCAAT
*
26837 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
26857 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
26878 TCGCAATGCGA
1 TCGCAATGCGA
26889 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:26902 original size:20 final size:20
Alignment explanation
Indices: 26877--27011 Score: 112
Period size: 20 Copynumber: 6.7 Consensus size: 20
26867 AATTGGGAAA
26877 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
26897 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* * *
26917 ATTGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
26938 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
26958 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
26978 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
26998 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
27012 TTTCAAAGCG
Statistics
Matches: 94, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
19 4 0.04
20 65 0.69
21 23 0.24
22 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:26943 original size:61 final size:61
Alignment explanation
Indices: 26874--27011 Score: 188
Period size: 61 Copynumber: 2.3 Consensus size: 61
26864 GCGAATTGGG
* * *
26874 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATT-GCAATGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATACTGACT-TTCGCAACGCGATAATAC
* * * *
26935 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
*
26996 ATAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
27012 TTTCAAAGCG
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
60 2 0.03
61 64 0.97
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (61 bp):
AAAATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:27183 original size:19 final size:19
Alignment explanation
Indices: 27148--27186 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
27138 AAAATCACAA
*
27148 CTCAGTCTCATCTCCATCT
1 CTCAGTCTCATCCCCATCT
27167 CTCAGTCTC-TCACCCATCT
1 CTCAGTCTCATC-CCCATCT
27186 C
1 C
27187 CGACAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.15, C:0.46, G:0.05, T:0.33
Consensus pattern (19 bp):
CTCAGTCTCATCCCCATCT
Found at i:27207 original size:22 final size:22
Alignment explanation
Indices: 27179--27222 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
27169 CAGTCTCTCA
27179 CCCATCTCCGACAAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
* *
27201 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
27223 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACAAAATCCGTC
Found at i:27540 original size:20 final size:20
Alignment explanation
Indices: 27486--27544 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
27476 GCGATTCTCT
**
27486 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
27506 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
27526 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
27545 AAAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:27735 original size:25 final size:24
Alignment explanation
Indices: 27681--27735 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
27671 TGTTTATTAT
* *
27681 TGTTTTTGGTATATCTTCATAGTG
1 TGTTTTTGGTATATCTACATAGTA
*
27705 TAGTTTTTGGTATATCTAACTTAGTA
1 T-GTTTTTGGTATATCT-ACATAGTA
27731 TGTTT
1 TGTTT
27736 ATTTTTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 19 0.73
26 6 0.23
ACGTcount: A:0.20, C:0.07, G:0.18, T:0.55
Consensus pattern (24 bp):
TGTTTTTGGTATATCTACATAGTA
Found at i:28884 original size:18 final size:18
Alignment explanation
Indices: 28863--28907 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
28853 TCCACTTCGG
*
28863 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
28881 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
28899 GAGCCATCA
1 GAGCCATCA
28908 TCTGATTGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:29445 original size:19 final size:19
Alignment explanation
Indices: 29391--29465 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
29381 TAGTTTACTT
*
29391 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGACTA
*
29411 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGACTA
* **
29431 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGACTA
29450 TCGCAACGCGAAATGA
1 TCGCAACGCGAAATGA
29466 AAATCGTAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
19 22 0.47
20 24 0.51
21 1 0.02
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.15
Consensus pattern (19 bp):
TCGCAACGCGAAATGACTA
Found at i:29466 original size:19 final size:19
Alignment explanation
Indices: 29391--29471 Score: 81
Period size: 19 Copynumber: 4.2 Consensus size: 19
29381 TAGTTTACTT
* **
29391 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
29411 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
29431 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
29450 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
29469 TCG
1 TCG
29472 TAATGCGATT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
19 28 0.53
20 24 0.45
21 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.15
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:29479 original size:19 final size:19
Alignment explanation
Indices: 29430--29479 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
29420 GGAAATGGCT
29430 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
29449 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
29468 ATCGTAATGCGA
1 ATCGCAATGCGA
29480 TTTGTGTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:29510 original size:14 final size:14
Alignment explanation
Indices: 29491--29580 Score: 72
Period size: 14 Copynumber: 5.8 Consensus size: 14
29481 TTGTGTTTCG
29491 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
29505 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
29521 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
29537 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
29554 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
29570 CATTGCGATTT
1 CGTTGCGATTT
29581 ACATTTCGCA
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
14 26 0.42
15 3 0.05
16 11 0.18
17 4 0.06
18 12 0.19
19 6 0.10
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:29555 original size:33 final size:33
Alignment explanation
Indices: 29486--29597 Score: 190
Period size: 33 Copynumber: 3.4 Consensus size: 33
29476 GCGATTTGTG
*
29486 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
29518 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
* *
29551 TTTCGCATTGCGATTTTGTCATTGCGATTTACA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
29584 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
29598 AGCCATTTCC
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 26 0.34
33 50 0.66
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.46
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:29616 original size:20 final size:19
Alignment explanation
Indices: 29582--29637 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
29572 TTGCGATTTA
*
29582 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
29601 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
29621 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
29638 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:31531 original size:14 final size:14
Alignment explanation
Indices: 31497--31535 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
31487 TTGATTGTTT
31497 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
31511 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
31525 TGTTGATTTGT
1 AATTGATTTGT
31536 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:31681 original size:14 final size:14
Alignment explanation
Indices: 31662--31715 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
31652 GAAACTGACT
31662 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
*
31676 ATCGCAATGCAAAATGAAA
1 ATCGCAA--C--GA-GAAA
31695 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
31709 ATCGCAA
1 ATCGCAA
31716 TGCGATTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 18 0.55
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.33
ACGTcount: A:0.50, C:0.20, G:0.19, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:31764 original size:20 final size:20
Alignment explanation
Indices: 31747--31834 Score: 106
Period size: 20 Copynumber: 4.4 Consensus size: 20
31737 CGATTTTCTA
31747 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
*** *
31767 GTTGCGATTTTTCA-TTTCGA
1 GTTGCGA-TAGCCATTTTCGC
* *
31787 ATTACGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
31807 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
31827 GTTGCGAT
1 GTTGCGAT
31835 TTCCCCGTTG
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
19 3 0.06
20 48 0.89
21 3 0.06
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.39
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:32073 original size:20 final size:20
Alignment explanation
Indices: 32048--32097 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
32038 TTGAAGATGA
32048 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
32068 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
*
32088 TTACGATTTT
1 TTGCGATTTT
32098 GTATTATCTC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:32391 original size:12 final size:12
Alignment explanation
Indices: 32372--32405 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
32362 CTCTCCGGCG
32372 ACATCCGTTCCT
1 ACATCCGTTCCT
*
32384 ATATCCGTTCCT
1 ACATCCGTTCCT
32396 ACATCC-TTCC
1 ACATCCGTTCC
32406 CCATCTGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:32988 original size:24 final size:24
Alignment explanation
Indices: 32961--33014 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
32951 GTATTCGAAA
*
32961 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
32985 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
33009 TTTGAT
1 TTTGAT
33015 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:35532 original size:33 final size:33
Alignment explanation
Indices: 35491--35598 Score: 148
Period size: 33 Copynumber: 3.3 Consensus size: 33
35481 GGAAATTACT
*
35491 ATCGCAACGAGAGAATCGCAATACGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
* *
35524 ATCACAACGCA-A-ATTTCGCAATGCGAAATGAAA
1 ATCGCAACG-AGAGA-ATCGCAATGCGAAATGAAA
*
35557 ATCGCAACGAGGGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
35590 ATCGCAACG
1 ATCGCAACG
35599 CGAATTTAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
32 2 0.03
33 61 0.94
34 2 0.03
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.14
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
Found at i:35563 original size:19 final size:19
Alignment explanation
Indices: 35539--35602 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
35529 AACGCAAATT
35539 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
**
35558 TCGCAA--CG--A-GGGAA
1 TCGCAATGCGAAATGAAAA
35572 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
35591 TCGCAACGCGAA
1 TCGCAATGCGAA
35603 TTTAATTTCG
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
14 9 0.26
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 20 0.57
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.12
Consensus pattern (19 bp):
TCGCAATGCGAAATGAAAA
Found at i:35662 original size:19 final size:19
Alignment explanation
Indices: 35624--35663 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
35614 GTTGCGATTC
*
35624 TCTCGTTGCGATTTTAATT
1 TCTCGTTGCGATCTTAATT
*
35643 TCTCGTTGCGATCTTCATT
1 TCTCGTTGCGATCTTAATT
35662 TC
1 TC
35664 GCATTGTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.12, C:0.23, G:0.15, T:0.50
Consensus pattern (19 bp):
TCTCGTTGCGATCTTAATT
Found at i:35795 original size:14 final size:14
Alignment explanation
Indices: 35776--35812 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
35766 CATCAATTAA
35776 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
35790 ACAAATCACCTTTT
1 ACAAATCAACTTTT
35804 ACAAATCAA
1 ACAAATCAA
35813 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:37228 original size:21 final size:21
Alignment explanation
Indices: 37162--37228 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
37152 GTGAATCGGG
*
37162 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
37182 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
37204 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
37225 CTCT
1 CTCT
37229 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:37247 original size:42 final size:41
Alignment explanation
Indices: 37162--37284 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
37152 GTGAATCGGG
* * * *
37162 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
37204 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
37246 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
37285 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:37678 original size:91 final size:90
Alignment explanation
Indices: 37502--37686 Score: 275
Period size: 91 Copynumber: 2.0 Consensus size: 90
37492 ATTTCAAACT
*
37502 TTCAACCAAAAGACAAAACAAAGACAAATAACAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATAACAACTTCACAGTGTT--A-AATAAACAGTTTAGC
37567 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
37595 TTCAACCAAAAGACAAAACAAAAAGACAAAT-ACTAACTTCACAGTGTT-AATAAACAGTTTAGC
1 TTCAACCAAAAGACAAAAC--AAAGACAAATAAC-AACTTCACAGTGTTAAATAAACAGTTTAGC
* *
37658 AGTATTGGCAGCAACTGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
37686 T
1 T
37687 AAGCAATCTA
Statistics
Matches: 86, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
91 41 0.48
93 19 0.22
94 2 0.02
95 24 0.28
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATAACAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:39447 original size:33 final size:33
Alignment explanation
Indices: 39396--39458 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
39386 ATGAGATAAT
* **
39396 GAGAATCGCAAGCGGAAATGACTATCGCAACGA
1 GAGAATCACAAGCGGAAATGAAAATCGCAACGA
39429 GAGAATCACAA-CGCGAAATGAAAATCGCAA
1 GAGAATCACAAGCG-GAAATGAAAATCGCAA
39459 TGCGATTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 2 0.08
33 24 0.92
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.11
Consensus pattern (33 bp):
GAGAATCACAAGCGGAAATGAAAATCGCAACGA
Found at i:39463 original size:19 final size:18
Alignment explanation
Indices: 39371--39463 Score: 59
Period size: 19 Copynumber: 5.1 Consensus size: 18
39361 TCTTTTGGTT
*
39371 GAAATGAAAATCGCAATGA
1 GAAATGAAAATCGCAA-GC
*
39390 GATAATGAGAATCGCAAGC
1 GA-AATGAAAATCGCAAGC
**
39409 GGAAATGACTATCGCAA-C
1 -GAAATGAAAATCGCAAGC
* *
39427 G--A-GAGAATCACAACGC
1 GAAATGAAAATCGCAA-GC
39443 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAA-GC
39462 GA
1 GA
39464 TTTTGGTTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
14 8 0.14
15 1 0.02
16 2 0.04
17 1 0.02
18 2 0.04
19 28 0.49
20 15 0.26
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.14
Consensus pattern (18 bp):
GAAATGAAAATCGCAAGC
Found at i:39492 original size:19 final size:19
Alignment explanation
Indices: 39459--39503 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
39449 AAAATCGCAA
*
39459 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
39478 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
39497 TGCGATT
1 TGCGATT
39504 CTCTCATTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:40070 original size:20 final size:20
Alignment explanation
Indices: 40045--40156 Score: 77
Period size: 20 Copynumber: 5.5 Consensus size: 20
40035 GCTATGTAAA
40045 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-GTAAGTAT
* *
40065 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
* ***
40085 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATGTAAGT-AT
* *
40106 TCGCATTGCGAT-TTACTAAT
1 TCGCATTGCGATGTAAGT-AT
* *
40126 TCGCGTTGCGATTTACA-TAT
1 TCGCATTGCGATGTA-AGTAT
40146 TCGCATTGCGA
1 TCGCATTGCGA
40157 ATTATGAAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.04
20 60 0.75
21 16 0.20
22 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATGTAAGTAT
Found at i:40115 original size:41 final size:40
Alignment explanation
Indices: 40045--40156 Score: 138
Period size: 41 Copynumber: 2.8 Consensus size: 40
40035 GCTATGTAAA
* *
40045 TCGCATTGCGATAGTA-AGATTCGCATTGCGATTTACGT-AT
1 TCGCATTGCGAT-TTACATATTCGCATTGCGATTTAC-TAAT
* *
40085 TCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACTAAT
1 TCGCATTGCGATTTACAT-ATTCGCATTGCGATTTACTAAT
*
40126 TCGCGTTGCGATTTACATATTCGCATTGCGA
1 TCGCATTGCGATTTACATATTCGCATTGCGA
40157 ATTATGAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
39 1 0.02
40 26 0.42
41 35 0.56
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.38
Consensus pattern (40 bp):
TCGCATTGCGATTTACATATTCGCATTGCGATTTACTAAT
Found at i:40278 original size:21 final size:22
Alignment explanation
Indices: 40226--40278 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
40216 ATTTACTTAT
40226 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
40247 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
40268 TCGCATTGCGA
1 TCGCATTGCGA
40279 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:40511 original size:19 final size:19
Alignment explanation
Indices: 40475--40521 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
40465 ATTTAAAAAA
*
40475 AATAAAATATTTTGAATTGC
1 AATAAAA-ATTTTGAATTAC
*
40495 AATAAAAATTTAT-AATTAT
1 AATAAAAATTT-TGAATTAC
40514 AATAAAAA
1 AATAAAAA
40522 AAATTAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (19 bp):
AATAAAAATTTTGAATTAC
Found at i:43765 original size:13 final size:13
Alignment explanation
Indices: 43747--43794 Score: 62
Period size: 13 Copynumber: 3.6 Consensus size: 13
43737 ATATTATTAG
43747 TAATAATACTAAA
1 TAATAATACTAAA
43760 TAATAATACTAAA
1 TAATAATACTAAA
*
43773 -AATAATAAATAAA
1 TAATAAT-ACTAAA
43786 TAAATAATA
1 T-AATAATA
43795 TTTTTTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
12 6 0.19
13 18 0.58
14 1 0.03
15 6 0.19
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (13 bp):
TAATAATACTAAA
Found at i:44178 original size:84 final size:83
Alignment explanation
Indices: 44027--44852 Score: 779
Period size: 84 Copynumber: 9.9 Consensus size: 83
44017 ATTTTGTTGA
* * * * * * * *
44027 CAGATAACTCTTCTAGCCTTGAGTTATGCTGCAAATGTTGGTGCCTTTGAGCTGAGTGTAGTCGA
1 CAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGAT-GTGCCTTGGAGCTGAGCGTAGTCGA
** *
44092 ACTAAAAGGTCTTCGGCTGG
65 ACTCGAAGGTCTTTGG-TGG
* * *
44112 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAAGATGTGCCTTGGAGCTGAGCGTAATCGAA
1 CAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* **
44177 CTCAAAGGTCTTTTGGTCA
66 CTCGAAGGTC-TTTGGTGG
* * * * * * * * * * *
44196 CATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGAAATCGA
1 CAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGA
* *
44261 ACTAGAGGGTC-TT--TGG
65 ACTCGAAGGTCTTTGGTGG
* * * * *
44277 CAGATAGCCCTTCTCAACTTAAGCTATGCTG-AAATGATGTGCCTTGGAGTTGAGTGTAGTTGAA
1 CAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
44341 CTCGAAGGTCTTTAGTTGG
66 CTCGAAGGTCTTT-GGTGG
* * * * *
44360 CAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATATGCCTTGGAGCTGAGTGTAATCGAA
1 CAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* *
44425 CTCGAGGGTC-TT--TCG
66 CTCGAAGGTCTTTGGTGG
* * * * * * *
44440 CAGATAGCCCTTCTCAACTTAA-ATAATGTTGCAAATGATGTGCCTTGGAGTTGAGCATAATCGA
1 CAGATAACCCTTCTCGACTTAAGCT-ATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
* * *
44504 ACCCGAAGATCTTTAGTTGG
65 ACTCGAAGGTCTTT-GGTGG
* * ** ** * *
44524 CAGATAACCCTTATCGACTTAAGTTATAATGCAAATGATGTGCCTTGGAGCCAAGCATAGTCAAA
1 CAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* *
44589 CTCGAAGGTATTTGGATGA
66 CTCGAAGGTCTTTGG-TGG
* * * *
44608 CAGATAGA-ACTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGTTGAGCGTGGTCGA
1 CAGATA-ACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
*
44672 ACTCGAAGGTCTTTTGTTGG
65 ACTCGAAGGTC-TTTGGTGG
* * * *
44692 TAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAA
1 CAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* *
44757 CTCGAAGGACTTTTGGTGA
66 CTCGAAGGTC-TTTGGTGG
* * * * *
44776 CAGATAACCCTTATAGCCTTTAGCTATGCTGCAAATGATGTGCCTTGGAGCTTAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
44841 CTCGAAGGTCTT
66 CTCGAAGGTCTT
44853 GGCTAACAGA
Statistics
Matches: 604, Mismatches: 120, Indels: 36
0.79 0.16 0.05
Matches are distributed among these distances:
79 26 0.04
80 75 0.12
81 27 0.04
83 38 0.06
84 371 0.61
85 67 0.11
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (83 bp):
CAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
CTCGAAGGTCTTTGGTGG
Found at i:44562 original size:248 final size:248
Alignment explanation
Indices: 44003--44852 Score: 831
Period size: 248 Copynumber: 3.4 Consensus size: 248
43993 AGCTAAATGG
* * * * * * * *
44003 AATCGAACTCGATA-AT-TTTGTTGACAGATAACTCTTCTAGCCTTGAGTTATGCTGCAAATGTT
1 AATCGAACTCGA-AGATCTTTGTTGGCAGATAACCCTTATCGACTTAAGCTATGCTGCAAATGAT
* * ** * * *
44066 GGTGCCTTTGAGCTGAGTGTAGTCGAACTAAAAGGTCTTCGGCTGGCAGATAGCCCTTCTCGACT
65 -GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGATGGCAGATAACCCTTCTCGACT
* * * *
44131 TAAGCTATGCTGCAAAAGATGTGCCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTTTGGTCA
129 TAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTC-TTT--TCG
* * * * * * *
44196 CATATAACCCTTCT-AGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGA-
191 CAGATAACCCTTCTCA-ACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAG-CAT
* * * * * *
44255 AATCGAACTAGAGGGTC--T-TTGGCAGATAGCCCTTCTCAACTTAAGCTATGCTG-AAATGATG
1 AATCGAACTCGAAGATCTTTGTTGGCAGATAACCCTTATCGACTTAAGCTATGCTGCAAATGATG
* * * * *
44316 TGCCTTGGAGTTGAGTGTAGTTGAACTCGAAGGTCTTTAGTTGGCAGATAACCCTTCTCGACTTA
66 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGATGGCAGATAACCCTTCTCGACTTA
* * * *
44381 AGTTATGCTACAAATGATATGCCTTGGAGCTGAGTGTAATCGAACTCGAGGGTC-TTTCGCAGAT
131 AGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTTCGCAGAT
* * * * *
44445 AGCCCTTCTCAACTTAAATAATGTTGCAAATGATGTGCCTTGGAGTTGAGCAT
196 AACCCTTCTCAACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCAT
* * **
44498 AATCGAACCCGAAGATCTTTAGTTGGCAGATAACCCTTATCGACTTAAGTTATAATGCAAATGAT
1 AATCGAACTCGAAGATCTTT-GTTGGCAGATAACCCTTATCGACTTAAGCTATGCTGCAAATGAT
** * * * * *
44563 GTGCCTTGGAGCCAAGCATAGTCAAACTCGAAGGTATTTGGATGACAGATAGA-ACTTCTCGACT
65 GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGATGGCAGATA-ACCCTTCTCGACT
* ** *
44627 TAAGCTATGCTGCAAATGATATGCCTTGGAGTTGAGCGTGGTCGAACTCGAAGGTCTTTTGTTGG
129 TAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTC--TT-TTCG
* * * *
44692 TAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGT
191 CAGATAACCCTTCTCAACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCAT
* * * * * * *
44750 AGTCAAACTCGAAGGA-CTTTTGGTGACAGATAACCCTTATAGCCTTTAGCTATGCTGCAAATGA
1 AATCGAACTCGAA-GATC-TTTGTTGGCAGATAACCCTTATCGACTTAAGCTATGCTGCAAATGA
*
44814 TGTGCCTTGGAGCTTAGCGTAGTCGAACTCGAAGGTCTT
64 TGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
44853 GGCTAACAGA
Statistics
Matches: 486, Mismatches: 96, Indels: 32
0.79 0.16 0.05
Matches are distributed among these distances:
242 1 0.00
243 23 0.05
244 34 0.07
245 2 0.00
246 2 0.00
247 29 0.06
248 210 0.43
249 7 0.01
250 27 0.06
251 2 0.00
252 144 0.30
253 5 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (248 bp):
AATCGAACTCGAAGATCTTTGTTGGCAGATAACCCTTATCGACTTAAGCTATGCTGCAAATGATG
TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGATGGCAGATAACCCTTCTCGACTTA
AGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTTCGCAGAT
AACCCTTCTCAACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCAT
Found at i:48724 original size:6 final size:6
Alignment explanation
Indices: 48713--48747 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
48703 CTTAATCGTG
*
48713 AAAATT AAAATT AAAATT AAAATT GAAATTT AAAA
1 AAAATT AAAATT AAAATT AAAATT -AAAATT AAAA
48748 ATTCGATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:48730 original size:12 final size:13
Alignment explanation
Indices: 48711--48747 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
48701 ATCTTAATCG
48711 TGAAAATTAAAAT
1 TGAAAATTAAAAT
48724 T-AAAATTAAAAT
1 TGAAAATTAAAAT
*
48736 TGAAATTTAAAA
1 TGAAAATTAAAA
48748 ATTCGATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (13 bp):
TGAAAATTAAAAT
Found at i:50319 original size:21 final size:21
Alignment explanation
Indices: 50268--50320 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
50258 ATTATGACTA
50268 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
50289 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
50310 TCGCAATGCGA
1 TCGCAATGCGA
50321 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:50353 original size:21 final size:20
Alignment explanation
Indices: 50310--50361 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
50300 TTTTCCCAAT
*
50310 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
**
50330 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TAAGAAAA
*
50351 TCGTAATGCGA
1 TCGCAATGCGA
50362 TTCTGACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATAAGAAAA
Found at i:50382 original size:20 final size:20
Alignment explanation
Indices: 50359--50397 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
50349 AATCGTAATG
50359 CGATTCTGACTATCGCAATA
1 CGATTCTGACTATCGCAATA
50379 CGATTCTGACTATCGCAAT
1 CGATTCTGACTATCGCAAT
50398 GCAATTTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (20 bp):
CGATTCTGACTATCGCAATA
Found at i:50416 original size:41 final size:41
Alignment explanation
Indices: 50371--50459 Score: 92
Period size: 41 Copynumber: 2.2 Consensus size: 41
50361 ATTCTGACTA
*
50371 TCGCAATACGATTCTGAC-TA-TCGCAATGCAATTTTCCTAAT
1 TCGCAATACGATT-T-ACGTATTCGCAATGCAATTTTCATAAT
* * ** *
50412 TCGCATTGCGATTTACGTATTCGCTTTGCGATTTTCATAAT
1 TCGCAATACGATTTACGTATTCGCAATGCAATTTTCATAAT
50453 TCGCAAT
1 TCGCAAT
50460 GCGAATACGT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
39 2 0.05
40 3 0.08
41 34 0.87
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (41 bp):
TCGCAATACGATTTACGTATTCGCAATGCAATTTTCATAAT
Found at i:50425 original size:21 final size:21
Alignment explanation
Indices: 50391--50463 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
50381 ATTCTGACTA
* *
50391 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
50412 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
**
50432 TCGCTTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
50453 TCGCAATGCGA
1 TCGCAATGCGA
50464 ATACGTAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.38
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:50478 original size:20 final size:20
Alignment explanation
Indices: 50453--50564 Score: 136
Period size: 20 Copynumber: 5.5 Consensus size: 20
50443 TTTTCATAAT
50453 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
50473 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* *
50493 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
50514 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
50534 TCGCAATGCGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
50554 TCGCAATGCGA
1 TCGCAATGCGA
50565 TTTACATAGC
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
19 3 0.04
20 58 0.73
21 18 0.23
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:50484 original size:41 final size:41
Alignment explanation
Indices: 50390--50572 Score: 124
Period size: 41 Copynumber: 4.5 Consensus size: 41
50380 GATTCTGACT
* * * * *
50390 ATCGCAATGCAATTTTCCTAATTCGCATTGCGATTTACGT-A
1 ATCGCAATGCGATTTTCATAAATCGCAATGCGA-ATACGTAA
* ** *
50431 TTCGCTTTGCGATTTTCATAATTCGCAATGCGAATACGTAA
1 ATCGCAATGCGATTTTCATAAATCGCAATGCGAATACGTAA
* * * *
50472 ATCGCAACGCGA--TTAAGTAAATCGCAATGCGAATTAGGAAA
1 ATCGCAATGCGATTTTCA-TAAATCGCAATGCGAA-TACGTAA
* * * * *
50513 ATCGCAATGCGA-ATACGTAAATCGCAATGCGAAT-CTTACT
1 ATCGCAATGCGATTTTCATAAATCGCAATGCGAATACGTA-A
*
50553 ATCGCAATGCGATTTACATA
1 ATCGCAATGCGATTTTCATA
50573 GCGCCATTCG
Statistics
Matches: 111, Mismatches: 25, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
39 4 0.04
40 33 0.30
41 73 0.66
42 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (41 bp):
ATCGCAATGCGATTTTCATAAATCGCAATGCGAATACGTAA
Found at i:51143 original size:20 final size:20
Alignment explanation
Indices: 51088--51136 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
51078 GAGAATGAAA
51088 ATCGCAACGCGGAAATAACT
1 ATCGCAACGCGGAAATAACT
51108 ATCGCAACGCGGAAATAACT
1 ATCGCAACGCGGAAATAACT
51128 ATCGCAACG
1 ATCGCAACG
51137 AGAAAATCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.27, G:0.20, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGGAAATAACT
Found at i:51213 original size:20 final size:19
Alignment explanation
Indices: 51179--51235 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
51169 GCGATTCTCT
**
51179 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTT-CG
*
51199 CGTTGCGATTCTCATTATCT
1 CGTTGCGATTCTCATT-TCG
*
51219 CGTTGCGATTTTCATTT
1 CGTTGCGATTCTCATTT
51236 GAACCAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTCTCATTTCG
Found at i:53087 original size:95 final size:89
Alignment explanation
Indices: 52922--53106 Score: 289
Period size: 91 Copynumber: 2.0 Consensus size: 89
52912 TAGATTGCTT
52922 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAATTGTTTATTAACACTGTGAAGTTAGTATTT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAATTGTTTATTAACACTGTGAAGTTAGTATTT
52987 GTCTTTTTGTTTTGTCTTTTGGTTGA
66 GTC--TTTGTTTTGTCTTTTGGTTGA
* * *
53013 AGTAAATTTATTCGGTTGCTGTCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAA-T-TGT-TT-ATTAACACTGTGAAGTTAGT
53078 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
62 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
53106 A
1 A
53107 AGTTTGAAAT
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
91 33 0.38
92 1 0.01
93 25 0.29
94 2 0.02
95 26 0.30
ACGTcount: A:0.22, C:0.11, G:0.19, T:0.48
Consensus pattern (89 bp):
AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAATTGTTTATTAACACTGTGAAGTTAGTATTT
GTCTTTGTTTTGTCTTTTGGTTGA
Found at i:53404 original size:21 final size:21
Alignment explanation
Indices: 53380--53446 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
53370 TCATTCCTCG
53380 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
53401 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
53422 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
53443 AGAG
1 AGAG
53447 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:53404 original size:42 final size:42
Alignment explanation
Indices: 53328--53446 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
53318 GACTCGCCTG
* * * * * * *
53328 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
53370 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
53412 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
53447 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:54817 original size:14 final size:14
Alignment explanation
Indices: 54798--54833 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
54788 ATTGTTTAAT
54798 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
54812 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
54826 TGATTTGT
1 TGATTTGT
54834 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:54977 original size:14 final size:14
Alignment explanation
Indices: 54958--55014 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
54948 GCGAAATGAA
54958 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
54972 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
54991 AATCGCAACGAGAG
1 AATCGCAACGAGAG
55005 AATCGCAACG
1 AATCGCAACG
55015 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:54982 original size:33 final size:33
Alignment explanation
Indices: 54940--55066 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
54930 AAAAAGTACT
*
54940 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
54973 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* * *
55006 ATCGCAACGCGAAATGAAAATCGCAACCACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
55039 ATCGCAACGCGAAACT-AAAATCCCAACG
1 ATCGCAACGCGAAA-TGAAAATCGCAACG
55067 CGAAACTAAA
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
33 86 0.99
34 1 0.01
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:55032 original size:19 final size:19
Alignment explanation
Indices: 54940--55071 Score: 89
Period size: 19 Copynumber: 7.7 Consensus size: 19
54930 AAAAAGTACT
*
54940 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
54959 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
*
54973 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
54992 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
55006 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
55025 ATCGCAAC-C---A-CAAA
1 ATCGCAACGCGAAATGAAA
55039 ATCGCAACGCGAAACT-AAA
1 ATCGCAACGCGAAA-TGAAA
*
55058 ATCCCAACGCGAAA
1 ATCGCAACGCGAAA
55072 CTAAATTCGC
Statistics
Matches: 91, Mismatches: 6, Indels: 32
0.71 0.05 0.25
Matches are distributed among these distances:
14 31 0.34
15 4 0.04
16 4 0.04
17 4 0.04
18 4 0.04
19 44 0.48
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:55072 original size:19 final size:19
Alignment explanation
Indices: 55036--55076 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
55026 TCGCAACCAC
*
55036 AAAATCGCAACGCGAAACT
1 AAAATCCCAACGCGAAACT
55055 AAAATCCCAACGCGAAACT
1 AAAATCCCAACGCGAAACT
55074 AAA
1 AAA
55077 TTCGCGTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.51, C:0.27, G:0.12, T:0.10
Consensus pattern (19 bp):
AAAATCCCAACGCGAAACT
Found at i:55099 original size:19 final size:19
Alignment explanation
Indices: 55077--55228 Score: 73
Period size: 19 Copynumber: 8.7 Consensus size: 19
55067 CGAAACTAAA
55077 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
55096 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
55111 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
55129 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
**
55143 TTCTAGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
55162 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
55177 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
55195 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
55214 TTCTGCGTTGCGATT
1 TTC-GCGTTGCGATT
55229 GACATAAAGA
Statistics
Matches: 93, Mismatches: 24, Indels: 31
0.63 0.16 0.21
Matches are distributed among these distances:
14 27 0.29
16 6 0.06
17 6 0.06
19 45 0.48
20 9 0.10
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:55123 original size:33 final size:32
Alignment explanation
Indices: 55081--55207 Score: 202
Period size: 33 Copynumber: 3.9 Consensus size: 32
55071 ACTAAATTCG
55081 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
55114 CGTTGCGATTTTCATTTCGCATTGCGAAATT-CT
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
55147 AGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
55180 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
55208 AGTAATTTCT
Statistics
Matches: 88, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
31 3 0.03
33 82 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:55152 original size:66 final size:66
Alignment explanation
Indices: 55082--55206 Score: 241
Period size: 66 Copynumber: 1.9 Consensus size: 66
55072 CTAAATTCGC
55082 GTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTCT
1 GTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTCT
55147 A
66 A
*
55148 GTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGA
1 GTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGA
55207 TAGTAATTTC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.43
Consensus pattern (66 bp):
GTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTCT
A
Found at i:57516 original size:12 final size:12
Alignment explanation
Indices: 57499--57535 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
57489 TCTTCGGGGA
57499 CTTTTTCTTCTT
1 CTTTTTCTTCTT
57511 CTTTTTCTTCTT
1 CTTTTTCTTCTT
57523 CTTTTTCTTCTT
1 CTTTTTCTTCTT
57535 C
1 C
57536 AGGATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:57744 original size:24 final size:24
Alignment explanation
Indices: 57710--57763 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
57700 CTGAAACATC
*
57710 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
57734 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
57758 ATCAAA
1 ATCAAA
57764 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:58573 original size:20 final size:21
Alignment explanation
Indices: 58548--58599 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
58538 TTTTCCTAAT
*
58548 TCGCAATGCGAATAAGTAA-A
1 TCGCAATGCGAATAAGGAATA
**
58568 TCGCAATGCGAATTTGGAATA
1 TCGCAATGCGAATAAGGAATA
58589 TCGCAATGCGA
1 TCGCAATGCGA
58600 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATAAGGAATA
Found at i:58621 original size:20 final size:20
Alignment explanation
Indices: 58587--58666 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
58577 GAATTTGGAA
* *
58587 TATCGCAATGCGATACTGAC
1 TATCGCAACGAGATACTGAC
*
58607 TATCGCAACGAGATAAT-AC
1 TATCGCAACGAGATACTGAC
* *
58626 AAAATCGCAACGAGATTCTGAC
1 --TATCGCAACGAGATACTGAC
* *
58648 TTTCGCAACGAGATTCTGA
1 TATCGCAACGAGATACTGA
58667 AAATCGCAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
19 2 0.04
20 31 0.63
21 14 0.29
22 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (20 bp):
TATCGCAACGAGATACTGAC
Found at i:58673 original size:20 final size:20
Alignment explanation
Indices: 58626--58675 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
58616 GAGATAATAC
58626 AAAATCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
***
58646 ACTTTCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
58666 AAAATCGCAA
1 AAAATCGCAA
58676 TCATCTTCAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGAGATTCTG
Found at i:58914 original size:20 final size:20
Alignment explanation
Indices: 58889--58976 Score: 106
Period size: 20 Copynumber: 4.4 Consensus size: 20
58879 CAACGGGGAA
58889 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
58909 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
58929 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
*
58949 ATCGCAATGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
58969 ATCGCAAC
1 ATCGCAAC
58977 TAGAAAATCG
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
19 5 0.09
20 46 0.82
21 5 0.09
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:58988 original size:34 final size:38
Alignment explanation
Indices: 58909--58996 Score: 112
Period size: 40 Copynumber: 2.4 Consensus size: 38
58899 GAAAATGGCT
*
58909 ATCGCAACGCGAAAATGGCTATCGCAATTCGAAATGAAAA
1 ATCGCAATGCGAAAATGGCTATCGCAA-TC-AAATGAAAA
*
58949 ATCGCAATGCGAAAATGGCTATCGCAA-C-TA-G-AAA
1 ATCGCAATGCGAAAATGGCTATCGCAATCAAATGAAAA
58983 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
58997 TGAAAATCGC
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
34 17 0.37
35 1 0.02
36 1 0.02
38 1 0.02
40 26 0.57
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.17
Consensus pattern (38 bp):
ATCGCAATGCGAAAATGGCTATCGCAATCAAATGAAAA
Found at i:59025 original size:14 final size:14
Alignment explanation
Indices: 59006--59032 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58996 ATGAAAATCG
59006 CGTTGCGATTTTCT
1 CGTTGCGATTTTCT
59020 CGTTGCGATTTTC
1 CGTTGCGATTTTC
59033 ATTTCGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.22, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTCT
Found at i:59044 original size:19 final size:19
Alignment explanation
Indices: 59022--59108 Score: 174
Period size: 19 Copynumber: 4.6 Consensus size: 19
59012 GATTTTCTCG
59022 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
59041 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
59060 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
59079 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
59098 TTGCGATTTTC
1 TTGCGATTTTC
59109 TCGTTACGAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 68 1.00
ACGTcount: A:0.15, C:0.21, G:0.16, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:61186 original size:19 final size:19
Alignment explanation
Indices: 61142--61222 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 19
61132 ACGAAACTTA
*
61142 AAATCGCAACGCGAAAATGGC
1 AAATCGCAATGCG-AAAT-GC
*
61163 -TATCGCAATGCGAAATGC
1 AAATCGCAATGCGAAATGC
*
61181 AAATCGCAA--CGACA---
1 AAATCGCAATGCGAAATGC
*
61195 AAATCGCAATGCGAAATGA
1 AAATCGCAATGCGAAATGC
61214 AAATCGCAA
1 AAATCGCAA
61223 CGACAAAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
14 9 0.18
16 4 0.08
17 4 0.08
18 2 0.04
19 20 0.41
20 10 0.20
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.14
Consensus pattern (19 bp):
AAATCGCAATGCGAAATGC
Found at i:61200 original size:14 final size:14
Alignment explanation
Indices: 61181--61238 Score: 62
Period size: 14 Copynumber: 3.8 Consensus size: 14
61171 TGCGAAATGC
61181 AAATCGCAACGACA
1 AAATCGCAACGACA
*
61195 AAATCGCAATGCGAAATGA
1 AAATCGCAA--CG--A-CA
61214 AAATCGCAACGACA
1 AAATCGCAACGACA
61228 AAATCGCAACG
1 AAATCGCAACG
61239 TGAAACACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 21 0.57
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.27
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAATCGCAACGACA
Found at i:61206 original size:33 final size:33
Alignment explanation
Indices: 61164--61254 Score: 137
Period size: 33 Copynumber: 2.8 Consensus size: 33
61154 GAAAATGGCT
61164 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
*
61197 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
* * **
61230 ATCGCAACGTGAAACACAAATCGCA
1 ATCGCAATGCGAAATGCAAATCGCA
61255 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.46, C:0.24, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGCAAATCGCAACGACAAA
Found at i:61272 original size:19 final size:19
Alignment explanation
Indices: 61250--61346 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
61240 GAAACACAAA
61250 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
61269 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
61285 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
61302 TTGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
61318 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
61335 TCGCATTGCGAT
1 TCGCATTGCGAT
61347 AGCCATTTCT
Statistics
Matches: 61, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
14 12 0.20
15 6 0.10
16 7 0.11
17 7 0.11
18 6 0.10
19 23 0.38
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:61291 original size:14 final size:14
Alignment explanation
Indices: 61272--61330 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
61262 TTTCATTTCG
61272 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
61286 CGTTGCGATTTTCATTTT
1 CGTTGCGA--TT--TTGT
*
61304 GCATTGCGATTTTGT
1 -CGTTGCGATTTTGT
61319 CGTTGCGATTTT
1 CGTTGCGATTTT
61331 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 19 0.53
15 3 0.08
16 2 0.06
17 2 0.06
18 3 0.08
19 7 0.19
ACGTcount: A:0.10, C:0.15, G:0.24, T:0.51
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:61297 original size:33 final size:33
Alignment explanation
Indices: 61255--61346 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
61245 ACAAATCGCA
*
61255 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
61288 TTGCGATTTTCATTTTGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
61321 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
61347 AGCCATTTCT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:61353 original size:19 final size:20
Alignment explanation
Indices: 61331--61374 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
61321 TTGCGATTTT
61331 CATTTC-GCATTGCGATAGC
1 CATTTCTGCATTGCGATAGC
** *
61350 CATTTCTGTGTTGCGATAGT
1 CATTTCTGCATTGCGATAGC
61370 CATTT
1 CATTT
61375 TCGTGTTGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.41
Consensus pattern (20 bp):
CATTTCTGCATTGCGATAGC
Found at i:61365 original size:20 final size:20
Alignment explanation
Indices: 61340--61385 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
61330 TCATTTCGCA
61340 TTGCGATAGCCA-TTTCTGTG
1 TTGCGATAGCCATTTTC-GTG
*
61360 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTTCGTG
61380 TTGCGA
1 TTGCGA
61386 AAGTAAACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.15, C:0.17, G:0.26, T:0.41
Consensus pattern (20 bp):
TTGCGATAGCCATTTTCGTG
Found at i:61880 original size:40 final size:42
Alignment explanation
Indices: 61836--61926 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
61826 CCTCTTCAAC
*
61836 GATGACAGTGGCCTCTTGAACG-GTGG-GGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
61876 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
*
61918 AATGACAGG
1 GATGACAGG
61927 TGAGTCGGGC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 20 0.45
41 3 0.07
42 21 0.48
ACGTcount: A:0.22, C:0.15, G:0.41, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:62313 original size:20 final size:20
Alignment explanation
Indices: 62270--62376 Score: 108
Period size: 20 Copynumber: 5.4 Consensus size: 20
62260 TAGTTTACTT
* * * *
62270 TCGCAACACGAAACTTACTT
1 TCGCAACGCGAAAATGACTA
*
62290 TCGCAAAGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
*
62310 TCGCAACGCGGAAATGACTA
1 TCGCAACGCGAAAATGACTA
* *
62330 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
62350 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
62369 TCGCAACG
1 TCGCAACG
62377 ACAAAATCGC
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
19 13 0.18
20 61 0.82
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:62424 original size:19 final size:19
Alignment explanation
Indices: 62402--62484 Score: 104
Period size: 19 Copynumber: 4.6 Consensus size: 19
62392 GAAACACAAA
62402 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
62421 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
62440 TCGCATTGTGA-TTT--TG
1 TCGCATTGCGATTTTCATT
62456 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
62473 TCGCATTGCGAT
1 TCGCATTGCGAT
62485 AGCCATTTCC
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
14 5 0.09
15 3 0.06
16 4 0.08
17 4 0.08
18 3 0.06
19 34 0.64
ACGTcount: A:0.13, C:0.19, G:0.20, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:62511 original size:20 final size:19
Alignment explanation
Indices: 62402--62512 Score: 63
Period size: 19 Copynumber: 6.1 Consensus size: 19
62392 GAAACACAAA
**
62402 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATAGTCATT
* **
62421 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATAGTCATT
*
62440 TCGCATTGTGAT--T--TT
1 TCGCATTGCGATAGTCATT
**
62455 GTCG--TTGCGATTTTCATT
1 -TCGCATTGCGATAGTCATT
*
62473 TCGCATTGCGATAGCCATT
1 TCGCATTGCGATAGTCATT
* *
62492 TCCGCGTTGTGATAGTCATT
1 T-CGCATTGCGATAGTCATT
62512 T
1 T
62513 TCGTGTTGCG
Statistics
Matches: 74, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
14 6 0.08
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 40 0.54
20 16 0.22
ACGTcount: A:0.14, C:0.20, G:0.21, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATAGTCATT
Found at i:62520 original size:20 final size:20
Alignment explanation
Indices: 62469--62512 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
62459 TTGCGATTTT
* *
62469 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGTGATAGC
*
62488 CATTTCCGCGTTGTGATAGT
1 CATTTCCGCGTTGTGATAGC
62508 CATTT
1 CATTT
62513 TCGTGTTGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (20 bp):
CATTTCCGCGTTGTGATAGC
Found at i:62883 original size:93 final size:90
Alignment explanation
Indices: 62724--62910 Score: 261
Period size: 93 Copynumber: 2.0 Consensus size: 90
62714 ATTTCAAACT
*
62724 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCATAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATACACAGTTTAGC
*
62789 AGAATTGGTAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
62817 TTCAACCAAAAGACAAAACAAAAAGAGACAAATACTAACTTCACAGTGTT-AATA-AGCAGTTTA
1 TTCAACCAAAAGACAAAAC---AA-AGACAAATACTAACTTCACAGTGTTAAATACA-CAGTTTA
*
62880 GCAGTATTGGCAGCAACCGAATAAATTTAC
61 GCAGAATTGGCAGCAACCGAATAAATTTAC
62910 T
1 T
62911 AAGCAATCTA
Statistics
Matches: 86, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
92 1 0.01
93 59 0.69
96 2 0.02
97 24 0.28
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATACACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:64683 original size:20 final size:20
Alignment explanation
Indices: 64658--64700 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
64648 AATAGTTTCT
64658 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
*
64678 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAATCGCAACAC
64698 GAA
1 GAA
64701 TTTGACTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.09
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:65003 original size:22 final size:22
Alignment explanation
Indices: 64976--65019 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
64966 GATGGAGATA
64976 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
64998 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
65020 TGAGAGATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:65297 original size:41 final size:41
Alignment explanation
Indices: 65178--65356 Score: 175
Period size: 41 Copynumber: 4.4 Consensus size: 41
65168 CGCTTTGAAA
* *
65178 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
* ** * * *
65219 ATTG-AGTTGCGAAATT-AAGTATCGAGTTGCGAAAGTCAGT
1 ATCGCA-TTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
* *
65259 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
* ** * * *
65300 ACCGCATTGCGATTTTCCA-AATTCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTA-TCGCGTTGCGAAAGTCAGT
65341 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
65357 CCAAATTCGC
Statistics
Matches: 111, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
40 33 0.30
41 78 0.70
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.35
Consensus pattern (41 bp):
ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
Found at i:65311 original size:20 final size:20
Alignment explanation
Indices: 65178--65415 Score: 112
Period size: 20 Copynumber: 11.7 Consensus size: 20
65168 CGCTTTGAAA
*
65178 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
65199 ATCTCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
65219 ATTG-AGTTGCGAAATTAAGT
1 ATCGCA-TTGCGATAGTCAGT
*
65239 ATCG-AGTTGCGAAAGTCAGT
1 ATCGCA-TTGCGATAGTCAGT
* * *
65259 ATCGCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
65280 ATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* ** *
65300 ACCGCATTGCGATTTTCCA-A
1 ATCGCATTGCGATAGT-CAGT
65320 ATTCGCATTGCGATAGTCAGT
1 A-TCGCATTGCGATAGTCAGT
** *
65341 ATCGCATTGCGATTTTCCA-A
1 ATCGCATTGCGATAGT-CAGT
** *
65361 ATTCGCATTGCGATTTTCCA-A
1 A-TCGCATTGCGATAGT-CAGT
65382 ATTCGCATTGCGATAGTCAGT
1 A-TCGCATTGCGATAGTCAGT
65403 ATCGCATTGCGAT
1 ATCGCATTGCGAT
65416 TTTCCAAATT
Statistics
Matches: 172, Mismatches: 33, Indels: 25
0.75 0.14 0.11
Matches are distributed among these distances:
19 5 0.03
20 89 0.52
21 76 0.44
22 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.34
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:65328 original size:21 final size:21
Alignment explanation
Indices: 65302--65455 Score: 174
Period size: 21 Copynumber: 7.5 Consensus size: 21
65292 TAGTCAGTAC
65302 CGCATTGCGATTTTCCAAATT
1 CGCATTGCGATTTTCCAAATT
** *
65323 CGCATTGCGATAGT-C-AGTAT
1 CGCATTGCGATTTTCCAAAT-T
65343 CGCATTGCGATTTTCCAAATT
1 CGCATTGCGATTTTCCAAATT
65364 CGCATTGCGATTTTCCAAATT
1 CGCATTGCGATTTTCCAAATT
** *
65385 CGCATTGCGATAGT-C-AGTAT
1 CGCATTGCGATTTTCCAAAT-T
65405 CGCATTGCGATTTTCCAAATT
1 CGCATTGCGATTTTCCAAATT
* **
65426 CGCATTGCGA-TTTACTTATT
1 CGCATTGCGATTTTCCAAATT
65446 CGCATTGCGA
1 CGCATTGCGA
65456 ATTGGGAAAA
Statistics
Matches: 112, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.04
20 45 0.40
21 59 0.53
22 4 0.04
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (21 bp):
CGCATTGCGATTTTCCAAATT
Found at i:65357 original size:41 final size:41
Alignment explanation
Indices: 65245--65374 Score: 181
Period size: 41 Copynumber: 3.2 Consensus size: 41
65235 AAGTATCGAG
* * ** * *
65245 TTGCGAAAGTCAGTATCGCGTTGCGATTTT-GTATTATCGCG
1 TTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT-TCGCA
*
65286 TTGCGATAGTCAGTACCGCATTGCGATTTTCCAAATTCGCA
1 TTGCGATAGTCAGTATCGCATTGCGATTTTCCAAATTCGCA
65327 TTGCGATAGTCAGTATCGCATTGCGATTTTCCAAATTCGCA
1 TTGCGATAGTCAGTATCGCATTGCGATTTTCCAAATTCGCA
65368 TTGCGAT
1 TTGCGAT
65375 TTTCCAAATT
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 78 0.98
42 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (41 bp):
TTGCGATAGTCAGTATCGCATTGCGATTTTCCAAATTCGCA
Found at i:65372 original size:62 final size:62
Alignment explanation
Indices: 65302--65455 Score: 274
Period size: 62 Copynumber: 2.5 Consensus size: 62
65292 TAGTCAGTAC
65302 CGCATTGCGATTTTCCAAATTCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCAAATT
1 CGCATTGCGATTTTCCAAATTCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCAAATT
65364 CGCATTGCGATTTTCCAAATTCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCAAATT
1 CGCATTGCGATTTTCCAAATTCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCAAATT
* **
65426 CGCATTGCGA-TTTACTTATTCGCATTGCGA
1 CGCATTGCGATTTTCCAAATTCGCATTGCGA
65456 ATTGGGAAAA
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
61 17 0.19
62 72 0.81
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (62 bp):
CGCATTGCGATTTTCCAAATTCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCAAATT
Found at i:65449 original size:41 final size:41
Alignment explanation
Indices: 65302--65455 Score: 145
Period size: 41 Copynumber: 3.7 Consensus size: 41
65292 TAGTCAGTAC
* * ** *
65302 CGCATTGCGATTTTCCAAATTCGCATTGCGATAGT-C-AGTAT
1 CGCATTGCGA-TTTACTAATTCGCATTGCGATTTTCCAAAT-T
* *
65343 CGCATTGCGATTTTCCAAATTCGCATTGCGATTTTCCAAATT
1 CGCATTGCGA-TTTACTAATTCGCATTGCGATTTTCCAAATT
* *
65385 CGCATTGCGA--TAGTCAGTATCGCATTGCGATTTTCCAAATT
1 CGCATTGCGATTTACT-AAT-TCGCATTGCGATTTTCCAAATT
*
65426 CGCATTGCGATTTACTTATTCGCATTGCGA
1 CGCATTGCGATTTACTAATTCGCATTGCGA
65456 ATTGGGAAAA
Statistics
Matches: 97, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
39 1 0.01
40 2 0.02
41 76 0.78
42 13 0.13
43 5 0.05
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (41 bp):
CGCATTGCGATTTACTAATTCGCATTGCGATTTTCCAAATT
Found at i:65470 original size:103 final size:103
Alignment explanation
Indices: 65280--65517 Score: 275
Period size: 103 Copynumber: 2.3 Consensus size: 103
65270 ATTTTGTATT
* * *
65280 ATCGCGTTGCGATAGTCAGTACCGCATTGCGATTTTCCAAATTCGCATTGCGATAGTCAGTATCG
1 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCAAATTCGCATTGCGATACTCAGTATCG
* * * ** **
65345 CATTGCGATTTTCCAAATTCGCATTGCGATTTTCCAAA
66 CATTGCGAATTGCCAAAATCGCAACGCGAAATTCCAAA
* *
65383 TTCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACTTA-T-T
1 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCAAATTCGCATTGCGA--TACTCAGTAT
** **
65446 CGCATTGCGAATTGGGAAAATCGCAACGCGAAATTGGAAA
64 CGCATTGCGAATTGCCAAAATCGCAACGCGAAATTCCAAA
*
65486 ATCGCATTGCGATAGTCA-TAATCGCGTTGCGA
1 ATCGCATTGCGATAGTCAGT-ATCGCATTGCGA
65518 ATCTGGAAAC
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
102 1 0.01
103 108 0.95
104 1 0.01
105 4 0.04
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (103 bp):
ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCAAATTCGCATTGCGATACTCAGTATCG
CATTGCGAATTGCCAAAATCGCAACGCGAAATTCCAAA
Found at i:65497 original size:21 final size:22
Alignment explanation
Indices: 65445--65497 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
65435 ATTTACTTAT
65445 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
65466 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
65487 TCGCATTGCGA
1 TCGCATTGCGA
65498 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:69591 original size:16 final size:16
Alignment explanation
Indices: 69570--69601 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
69560 CTCGGTTTTC
69570 GAAAGATAAATACCAG
1 GAAAGATAAATACCAG
69586 GAAAGATAAATACCAG
1 GAAAGATAAATACCAG
69602 ATCTGGGGAA
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:0.56, C:0.12, G:0.19, T:0.12
Consensus pattern (16 bp):
GAAAGATAAATACCAG
Found at i:70122 original size:8 final size:8
Alignment explanation
Indices: 70100--70151 Score: 56
Period size: 8 Copynumber: 6.8 Consensus size: 8
70090 TTTAGTCCTT
70100 TTTATTAA
1 TTTATTAA
70108 TTTTATTAA
1 -TTTATTAA
*
70117 TTTATTAT
1 TTTATTAA
*
70125 TTTATTAT
1 TTTATTAA
70133 TTTATT-A
1 TTTATTAA
70140 TTT-TT-A
1 TTTATTAA
70146 TTTATT
1 TTTATT
70152 TCTTATTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 6 0.15
7 5 0.12
8 21 0.52
9 8 0.20
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTATTAA
Found at i:70132 original size:3 final size:3
Alignment explanation
Indices: 70101--70354 Score: 137
Period size: 3 Copynumber: 85.7 Consensus size: 3
70091 TTAGTCCTTT
* *
70101 TTA TTAA TT- TTA TTA AT- TTA TTA TT- TTA TTA TT- TTA TTA TTT
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
70143 TTA TTTA TTTC TTA TTA TT- TT- TTA TCTA ATA TT- TTGT TTA TATA
1 TTA -TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA TT-A TTA T-TA
*
70187 ATA TTA TATA TATA TATA TT- TCT- TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA T-TA T-TA T-TA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
70234 TTA TTA TTA TTA TTA TTA TT- TTC TTA TGA TTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
70281 CTA TTA -TA TATA TATA TTA TTTA TT- TTA TTTA TTT TTA -TA TT- TT-
1 TTA TTA TTA T-TA T-TA TTA -TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * *
70325 TTA CTA TTT TTC TT- TT- TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
70355 TTTTTCCTAA
Statistics
Matches: 204, Mismatches: 24, Indels: 46
0.74 0.09 0.17
Matches are distributed among these distances:
2 31 0.15
3 134 0.66
4 39 0.19
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:70333 original size:31 final size:32
Alignment explanation
Indices: 70209--70358 Score: 94
Period size: 31 Copynumber: 4.6 Consensus size: 32
70199 TATATATTTC
* * * *
70209 TTTATTATTATTA-TTATTATTATTATTATTA
1 TTTATTATTATTATTTTTTACTATTTTTCTTA
* *
70240 -TTATTATTATTATTTTCTTA-TGATTATTGTTA
1 TTTATTATTATTATTTT-TTACT-ATTTTTCTTA
* * *
70272 TTATTATTACTATTATATATATATATTATTTATT-TTA
1 -T-TTATTATTATTAT-T-T-TTTACTATTT-TTCTTA
* *
70309 TTTATTTTTA-TATTTTTTACTATTTTTCTTT
1 TTTATTATTATTATTTTTTACTATTTTTCTTA
70340 TTTATTATTATTATTTTTT
1 TTTATTATTATTATTTTTT
70359 TCCTAACGTT
Statistics
Matches: 95, Mismatches: 11, Indels: 25
0.73 0.08 0.19
Matches are distributed among these distances:
30 14 0.15
31 22 0.23
32 21 0.22
33 1 0.01
34 3 0.03
35 19 0.20
36 2 0.02
37 9 0.09
38 4 0.04
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (32 bp):
TTTATTATTATTATTTTTTACTATTTTTCTTA
Found at i:70414 original size:12 final size:13
Alignment explanation
Indices: 70386--70418 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
70376 CATATATATG
70386 TATTTTATTTCATT
1 TATTTT-TTTCATT
70400 TATTTTTTT-ATT
1 TATTTTTTTCATT
70412 TATTTTT
1 TATTTTT
70419 ATATAACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 3 0.16
14 6 0.32
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (13 bp):
TATTTTTTTCATT
Found at i:70577 original size:16 final size:15
Alignment explanation
Indices: 70552--70589 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
70542 CTATGTTTTG
70552 TCTT-TTTTTCATTAT
1 TCTTATTTTTCATT-T
70567 TCTTATTTTTCATTT
1 TCTTATTTTTCATTT
*
70582 TTTTATTT
1 TCTTATTT
70590 CTTTAATAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (15 bp):
TCTTATTTTTCATTT
Found at i:70670 original size:22 final size:22
Alignment explanation
Indices: 70639--70681 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
70629 TTTTTTGTGT
*
70639 TCTTTGATTTATTTTTATTTCTA
1 TCTTTGATTTA-TTATATTTCTA
70662 TCTTT-ATTTATTATATTTCT
1 TCTTTGATTTATTATATTTCT
70682 TTGACTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 5 0.26
23 5 0.26
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (22 bp):
TCTTTGATTTATTATATTTCTA
Found at i:70734 original size:13 final size:13
Alignment explanation
Indices: 70718--70748 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
70708 TTATTTTTCC
70718 AATTTGTTTGTTT
1 AATTTGTTTGTTT
70731 AATTTGTTTGTTT
1 AATTTGTTTGTTT
70744 AATTT
1 AATTT
70749 TTTTATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.13, T:0.68
Consensus pattern (13 bp):
AATTTGTTTGTTT
Found at i:70791 original size:23 final size:22
Alignment explanation
Indices: 70741--70797 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
70731 AATTTGTTTG
70741 TTTA-ATT-TTTTTATTATTTC
1 TTTATATTATTTTTATTATTTC
*
70761 TTTATATTATTTTTATT-TTATT
1 TTTATATTATTTTTATTATT-TC
70783 TTTATTATTATTTTT
1 TTTA-TATTATTTTT
70798 TCCTTTTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 4 0.12
21 5 0.16
22 13 0.41
23 10 0.31
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTATATTATTTTTATTATTTC
Found at i:70818 original size:8 final size:8
Alignment explanation
Indices: 70807--70858 Score: 54
Period size: 8 Copynumber: 6.4 Consensus size: 8
70797 TTCCTTTTGA
70807 TTTATTAT
1 TTTATTAT
70815 TTTATTAT
1 TTTATTAT
*
70823 TCTATTAT
1 TTTATTAT
70831 TTT-TTAT
1 TTTATTAT
70838 TTAATAGTTA-
1 TT--TA-TTAT
70848 TTTATTAT
1 TTTATTAT
70856 TTT
1 TTT
70859 TCTATTTAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
7 9 0.24
8 22 0.59
9 1 0.03
10 2 0.05
11 3 0.08
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (8 bp):
TTTATTAT
Found at i:73547 original size:99 final size:100
Alignment explanation
Indices: 73361--73611 Score: 352
Period size: 99 Copynumber: 2.5 Consensus size: 100
73351 TTATAATATT
* *
73361 ATATATATACAATAAAGCTTGAGCTGTCCCTCTAGAGCAATTGGTT-AAACGCCCGGCTTTATGG
1 ATATCTATACAATAAAGCTTGAGCTGTCCCTCTAGAGCAATTGGTTAAAACGCCCGACTTTATGG
*
73425 ATAAGATTCAGCTAAGCCAGATAAAGGTGATTTTA
66 ATAAGATTCAGCTAAGCCAGATAAAGGTGATTATA
*
73460 ATATCTATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATAC-CCCGACTTTATG
1 ATATCTATACAATAAAGCTTGAGCTGTCCCTCTAGAGCAATTGGTTAAA-ACGCCCGACTTTATG
* **
73524 GATAATATTCAGCT-AGCTTGATAAAGGTGATTATA
65 GATAAGATTCAGCTAAGCCAGATAAAGGTGATTATA
* * *
73559 ATATCTATAAAATGATA--TTGAGCTGTCCCTCTAGAGTAATTGGTT-AAACGCCC
1 ATATCTATACAAT-AAAGCTTGAGCTGTCCCTCTAGAGCAATTGGTTAAAACGCCC
73612 CAGCTTTGTG
Statistics
Matches: 137, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
96 2 0.01
97 5 0.04
98 26 0.19
99 74 0.54
100 28 0.20
101 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (100 bp):
ATATCTATACAATAAAGCTTGAGCTGTCCCTCTAGAGCAATTGGTTAAAACGCCCGACTTTATGG
ATAAGATTCAGCTAAGCCAGATAAAGGTGATTATA
Found at i:76528 original size:30 final size:31
Alignment explanation
Indices: 76457--76529 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 31
76447 AAATTTTGGG
* *
76457 TAGT-AACCAAAATATAAATTTTGAAAAGTT
1 TAGTGAACCAAAATATAAAATTTAAAAAGTT
**
76487 TAGTG-GTCAAAATATAAAATTTAAAAAGTT
1 TAGTGAACCAAAATATAAAATTTAAAAAGTT
76517 TAG-GAACCAAAAT
1 TAGTGAACCAAAAT
76530 TAAGGTTGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 1 0.03
30 34 0.97
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (31 bp):
TAGTGAACCAAAATATAAAATTTAAAAAGTT
Found at i:86482 original size:23 final size:23
Alignment explanation
Indices: 86456--86511 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
86446 AATTATCTAC
*
86456 AAAATAAAATAA-GAATAAAAATA
1 AAAATAAAATAAGGAA-AAAAAGA
* *
86479 AAAATAAAAAAAGGAAAAAAGGA
1 AAAATAAAATAAGGAAAAAAAGA
86502 AAAATAAAAT
1 AAAATAAAAT
86512 TATTATTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 25 0.89
24 3 0.11
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (23 bp):
AAAATAAAATAAGGAAAAAAAGA
Found at i:86489 original size:7 final size:6
Alignment explanation
Indices: 86456--86488 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
86446 AATTATCTAC
*
86456 AAAAT- AAAATA AGAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
86489 AAGGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:96942 original size:81 final size:81
Alignment explanation
Indices: 96801--97444 Score: 921
Period size: 81 Copynumber: 8.0 Consensus size: 81
96791 TGTTTTAAAA
* * * * *
96801 TAAAAGATTAATTGCCTAGCTGTGCATTTGACATAAATGTGTCAATCATACCAGTAAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCAAGTTAGATGAAAG
96866 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
96882 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAATGGTGTCAATCATGCTAGTTAGATGAAAA
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCAAGTTAGATGAAAG
*
96947 GTTAAAGACCTTTGAG
66 GTTAAATACCTTTGAG
* *
96963 TAAAAGATTTATTGCCTAACTGTGCATTTGACAGAAAGGTGTCAATCATG-ACAGTTAGATGAAA
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCA-AGTTAGATGAAA
**
97027 GGTTGCATACCTTTGAG
65 GGTTAAATACCTTTGAG
* *
97044 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGCGTCAATCATGCAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCAAGTTAGATGAAAG
97109 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
97125 TAAAAGATTAATTGTCTATCTGTGCATTTGACAGAAAGGTGTCAATCATGCTAGTTTGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCAAGTTAGATGAAAG
*
97190 GTTAAATAACTTTGAG
66 GTTAAATACCTTTGAG
** *
97206 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAATATGTCAATCATGCAAGTTAGTTGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCAAGTTAGATGAAAG
*
97271 GTTAAATACCTTTTAG
66 GTTAAATACCTTTGAG
* * * * *
97287 TAAAAGATTAATTGCCTAACTATGCATTTGACAGAAAGGTATCAATCATGCCAGTTAGATGAAAT
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCAAGTTAGATGAAAG
*
97352 GTTAAATATCTTTGAG
66 GTTAAATACCTTTGAG
* * * ** * *
97368 TAAAAGATTAATTGCTTAACTGTGCATTTGGCAGAAATATGCCAATAATGCAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCAAGTTAGATGAAAG
*
97433 GTTAAATGCCTT
66 GTTAAATACCTT
97445 AGGCATGGAA
Statistics
Matches: 499, Mismatches: 62, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
81 498 1.00
82 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (81 bp):
TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATGCAAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:97515 original size:46 final size:46
Alignment explanation
Indices: 97444--97755 Score: 394
Period size: 46 Copynumber: 6.8 Consensus size: 46
97434 TTAAATGCCT
* * *
97444 TAGGCATGGAAGGATGCCATAAATGAAAATGCATAATGGTGCATTA
1 TAGGCATGAAATGATGCCATAAATGAAAATGCATAACGGTGCATTA
* * * *
97490 TCGGCATGAAAGGATGCCATGAATGAAAATGCATAATGGTGCATTA
1 TAGGCATGAAATGATGCCATAAATGAAAATGCATAACGGTGCATTA
* *
97536 TAGGCATGAAATGATGCCATAAATGAAAATGCATAACAGTTCATTA
1 TAGGCATGAAATGATGCCATAAATGAAAATGCATAACGGTGCATTA
* **
97582 TAGGCATGAAAGGATGCCATAAATGAAAATGCATAACAATGCATTA
1 TAGGCATGAAATGATGCCATAAATGAAAATGCATAACGGTGCATTA
* * * *
97628 TCGGCATGAAATGATGCCACAAATGAAAATGCATAAAGGTACATTA
1 TAGGCATGAAATGATGCCATAAATGAAAATGCATAACGGTGCATTA
* * *
97674 TAGGCATGAAATGATGCCATAAATGAAAATGCTTAACGGTAAACAGT-
1 TAGGCATGAAATGATGCCATAAATGAAAATGCATAACGGT--GCATTA
** *
97721 T-GGCATGAAATGATGCCACCAATGAAAATACATAA
1 TAGGCATGAAATGATGCCATAAATGAAAATGCATAA
97756 TGGTATATTA
Statistics
Matches: 236, Mismatches: 28, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
46 231 0.98
47 1 0.00
48 4 0.02
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.23
Consensus pattern (46 bp):
TAGGCATGAAATGATGCCATAAATGAAAATGCATAACGGTGCATTA
Found at i:97692 original size:138 final size:138
Alignment explanation
Indices: 97444--97710 Score: 444
Period size: 138 Copynumber: 1.9 Consensus size: 138
97434 TTAAATGCCT
* ***
97444 TAGGCATGGAAGGATGCCATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCCA
1 TAGGCATGAAAGGATGCCATAAATGAAAATGCATAACAATGCATTATCGGCATGAAAGGATGCCA
** * *
97509 TGAATGAAAATGCATAATGGTGCATTATAGGCATGAAATGATGCCATAAATGAAAATGCATAACA
66 CAAATGAAAATGCATAAAGGTACATTATAGGCATGAAATGATGCCATAAATGAAAATGCATAACA
97574 GTTCATTA
131 GTTCATTA
*
97582 TAGGCATGAAAGGATGCCATAAATGAAAATGCATAACAATGCATTATCGGCATGAAATGATGCCA
1 TAGGCATGAAAGGATGCCATAAATGAAAATGCATAACAATGCATTATCGGCATGAAAGGATGCCA
*
97647 CAAATGAAAATGCATAAAGGTACATTATAGGCATGAAATGATGCCATAAATGAAAATGCTTAAC
66 CAAATGAAAATGCATAAAGGTACATTATAGGCATGAAATGATGCCATAAATGAAAATGCATAAC
97711 GGTAAACAGT
Statistics
Matches: 119, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
138 119 1.00
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (138 bp):
TAGGCATGAAAGGATGCCATAAATGAAAATGCATAACAATGCATTATCGGCATGAAAGGATGCCA
CAAATGAAAATGCATAAAGGTACATTATAGGCATGAAATGATGCCATAAATGAAAATGCATAACA
GTTCATTA
Found at i:97726 original size:138 final size:138
Alignment explanation
Indices: 97444--97755 Score: 439
Period size: 138 Copynumber: 2.3 Consensus size: 138
97434 TTAAATGCCT
* ***
97444 TAGGCATGGAAGGATGCCATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCCA
1 TAGGCATGAAAGGATGCCATAAATGAAAATGCATAACAATGCATTATCGGCATGAAAGGATGCCA
** * *
97509 TGAATGAAAATGCATAATGGTGCATTATAGGCATGAAATGATGCCATAAATGAAAATGCATAACA
66 CAAATGAAAATGCATAAAGGTACATTATAGGCATGAAATGATGCCATAAATGAAAATGCATAACA
* *
97574 GTTCATTA
131 GTACAGTA
*
97582 TAGGCATGAAAGGATGCCATAAATGAAAATGCATAACAATGCATTATCGGCATGAAATGATGCCA
1 TAGGCATGAAAGGATGCCATAAATGAAAATGCATAACAATGCATTATCGGCATGAAAGGATGCCA
* *
97647 CAAATGAAAATGCATAAAGGTACATTATAGGCATGAAATGATGCCATAAATGAAAATGCTTAACG
66 CAAATGAAAATGCATAAAGGTACATTATAGGCATGAAATGATGCCATAAATGAAAATGCATAACA
97712 GTAAACAGT-
131 GT--ACAGTA
* ** *
97721 T-GGCATGAAATGATGCCACCAATGAAAATACATAA
1 TAGGCATGAAAGGATGCCATAAATGAAAATGCATAA
97756 TGGTATATTA
Statistics
Matches: 155, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
138 151 0.97
139 1 0.01
140 3 0.02
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.23
Consensus pattern (138 bp):
TAGGCATGAAAGGATGCCATAAATGAAAATGCATAACAATGCATTATCGGCATGAAAGGATGCCA
CAAATGAAAATGCATAAAGGTACATTATAGGCATGAAATGATGCCATAAATGAAAATGCATAACA
GTACAGTA
Done.