Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006898.1 Hibiscus syriacus cultivar Beakdansim tig00017617_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: 99580
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:3054 original size:148 final size:149
Alignment explanation
Indices: 2598--3058 Score: 806
Period size: 147 Copynumber: 3.1 Consensus size: 149
2588 TATAATTGCA
*
2598 CCGAAGCG-CCGCGTAGAATTGCACTGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
2662 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
2727 CCACAGAATATATATATATC
130 CCACAGAATATATATATATC
2747 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCAT-AGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
2811 T-CTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
2875 CACAGAATATATATATATC
131 CACAGAATATATATATATC
*
2894 CCGAAGGACCGCGTAGAATTTCACCGTAGTGCCATATATATAATGTCCATAAGGA-C-CATATTA
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATA-ATAATGTCCATAAGGACCACATATTA
2957 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
* * * *
3022 TCAAAGAATATACATATGTC
130 CCACAGAATATATATATATC
*
3042 CCGAAGGTCCGCGTAGA
1 CCGAAGGACCGCGTAGA
3059 CCCTCGACTC
Statistics
Matches: 301, Mismatches: 7, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
147 128 0.43
148 123 0.41
149 50 0.17
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CACAGAATATATATATATC
Found at i:4503 original size:63 final size:63
Alignment explanation
Indices: 4397--4555 Score: 210
Period size: 63 Copynumber: 2.5 Consensus size: 63
4387 TAATGGAGGC
* * * * **
4397 ATGCATCGATGCACTCCTGATGCATCGATGCACTGAGGGCATTCGATGTTCATTTTATTAGAA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTAAAAGAA
** **
4460 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTTGTATTAAAATTA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTAAAAGAA
* *
4523 ATGCATCGATGCACTTCATATGCATCGATGCAC
1 ATGCATCGATGCACTCCTTATGCATCGATGCAC
4556 CTTCAACAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 84 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTAAAAGAA
Found at i:4547 original size:19 final size:20
Alignment explanation
Indices: 4523--4560 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
4513 ATTAAAATTA
4523 ATGCATCGATGCA-CTTCAT
1 ATGCATCGATGCACCTTCAT
4542 ATGCATCGATGCACCTTCA
1 ATGCATCGATGCACCTTCA
4561 ACAAATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGCATCGATGCACCTTCAT
Found at i:7919 original size:149 final size:149
Alignment explanation
Indices: 7669--8132 Score: 856
Period size: 149 Copynumber: 3.1 Consensus size: 149
7659 TATAATTGCA
* *
7669 CCGAAGTACCACGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
7734 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
*
7799 CACATAATATATATATATC
131 CACAGAATATATATATATC
*
7818 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCTATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
7883 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
7948 CACAGAATATATATATATC
131 CACAGAATATATATATATC
7967 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
*
8032 TCCTTAAGAATCATATACATATACTAGGGATCAAGCATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
* * *
8097 CAAAGAATATACATATGTC
131 CACAGAATATATATATATC
8116 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
8133 CCCTCGACTC
Statistics
Matches: 306, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 306 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CACAGAATATATATATATC
Found at i:9597 original size:63 final size:63
Alignment explanation
Indices: 9491--9649 Score: 201
Period size: 63 Copynumber: 2.5 Consensus size: 63
9481 TAATGGAGGC
* * * * **
9491 ATGCATCGATGCACTCCTGATGCATCGATGCACTGAGGGCATTCGATGTTCATTTTATTAGAA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTAAAAGAA
** **
9554 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTTGTATTAAAATTA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTAAAAGAA
* * *
9617 ATGAATCGATGCACTTCATATGCATCGATGCAC
1 ATGCATCGATGCACTCCTTATGCATCGATGCAC
9650 CTTCAACAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 83 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTAAAAGAA
Found at i:25469 original size:10 final size:9
Alignment explanation
Indices: 25454--25532 Score: 68
Period size: 10 Copynumber: 8.3 Consensus size: 9
25444 CCGGTTTTCA
25454 ACCGGTTCTG
1 ACCGGTT-TG
25464 ACCGGTTTG
1 ACCGGTTTG
** *
25473 ACAAGTTTCA
1 ACCGGTTT-G
*
25483 ACCGGTTCG
1 ACCGGTTTG
25492 AACCGGTTTG
1 -ACCGGTTTG
*
25502 ACCGGTCTG
1 ACCGGTTTG
25511 AACCGGTTTG
1 -ACCGGTTTG
*
25521 ACCGGTCTG
1 ACCGGTTTG
25530 ACC
1 ACC
25533 CGACCGGTGA
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
9 27 0.49
10 28 0.51
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.27
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:25505 original size:19 final size:20
Alignment explanation
Indices: 25443--25530 Score: 78
Period size: 19 Copynumber: 4.5 Consensus size: 20
25433 GCTGCTGGAA
* *
25443 ACCGGTTTTCAACCGGTTCTG
1 ACCGGTTCTGAACCGGTT-TG
** *
25464 ACCGGTT-TG-ACAAGTTTCA
1 ACCGGTTCTGAACCGGTTT-G
25483 ACCGGTTC-GAACCGGTTTG
1 ACCGGTTCTGAACCGGTTTG
25502 ACCGG-TCTGAACCGGTTTG
1 ACCGGTTCTGAACCGGTTTG
25521 ACCGG-TCTGA
1 ACCGGTTCTGA
25531 CCCGACCGGT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
18 3 0.05
19 39 0.70
20 7 0.12
21 7 0.12
ACGTcount: A:0.18, C:0.26, G:0.27, T:0.28
Consensus pattern (20 bp):
ACCGGTTCTGAACCGGTTTG
Found at i:25514 original size:29 final size:28
Alignment explanation
Indices: 25451--25532 Score: 92
Period size: 29 Copynumber: 2.9 Consensus size: 28
25441 AAACCGGTTT
* *
25451 TCAACCGGTTCTGACCGGTTTGACAAGTT
1 TCAACCGGTTC-GACCGGTTTGACCAGTC
*
25480 TCAACCGGTTCGAACCGGTTTGACCGGTC
1 TCAACCGGTTCG-ACCGGTTTGACCAGTC
* * *
25509 TGAACCGGTTTGACCGGTCTGACC
1 TCAACCGGTTCGACCGGTTTGACC
25533 CGACCGGTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 12 0.26
29 34 0.74
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (28 bp):
TCAACCGGTTCGACCGGTTTGACCAGTC
Found at i:25539 original size:14 final size:12
Alignment explanation
Indices: 25528--25610 Score: 61
Period size: 12 Copynumber: 7.4 Consensus size: 12
25518 TTGACCGGTC
25528 TGACCCGACCGG
1 TGACCCGACCGG
25540 TGACCCGACC--
1 TGACCCGACCGG
* * *
25550 CGATCCGACCGT
1 TGACCCGACCGG
25562 TGACCCGACC--
1 TGACCCGACCGG
* *
25572 CGACCCGACCGT
1 TGACCCGACCGG
25584 TGACCCGACC--
1 TGACCCGACCGG
* *
25594 CGACCCGACCGT
1 TGACCCGACCGG
25606 TGACC
1 TGACC
25611 GTTGACTTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
10 26 0.46
12 31 0.54
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.11
Consensus pattern (12 bp):
TGACCCGACCGG
Found at i:25549 original size:5 final size:5
Alignment explanation
Indices: 25541--25603 Score: 63
Period size: 5 Copynumber: 11.8 Consensus size: 5
25531 CCCGACCGGT
* * *
25541 GACCC GACCC GATCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC
1 GACCC GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC
25590 GACCC GACCC GACC
1 GACCC GACCC GACC
25604 GTTGACCGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
5 40 0.83
7 8 0.17
ACGTcount: A:0.19, C:0.51, G:0.22, T:0.08
Consensus pattern (5 bp):
GACCC
Found at i:25602 original size:27 final size:22
Alignment explanation
Indices: 25529--25610 Score: 146
Period size: 22 Copynumber: 3.7 Consensus size: 22
25519 TGACCGGTCT
*
25529 GACCCGACCGGTGACCCGACCC
1 GACCCGACCGTTGACCCGACCC
*
25551 GATCCGACCGTTGACCCGACCC
1 GACCCGACCGTTGACCCGACCC
25573 GACCCGACCGTTGACCCGACCC
1 GACCCGACCGTTGACCCGACCC
25595 GACCCGACCGTTGACC
1 GACCCGACCGTTGACC
25611 GTTGACTTTC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.18, C:0.48, G:0.24, T:0.10
Consensus pattern (22 bp):
GACCCGACCGTTGACCCGACCC
Found at i:32799 original size:10 final size:9
Alignment explanation
Indices: 32784--32862 Score: 86
Period size: 10 Copynumber: 8.3 Consensus size: 9
32774 CCGGTTTTCA
32784 ACCGGTTCTG
1 ACCGGTT-TG
32794 ACCGGTTTG
1 ACCGGTTTG
*
32803 ACCGGTTTCA
1 ACCGGTTT-G
*
32813 ACCGGTTCG
1 ACCGGTTTG
32822 AACCGGTTTG
1 -ACCGGTTTG
*
32832 ACCGGTCTG
1 ACCGGTTTG
32841 AACCGGTTTG
1 -ACCGGTTTG
*
32851 ACCGGTCTG
1 ACCGGTTTG
32860 ACC
1 ACC
32863 CGACCGGTGA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
9 29 0.49
10 30 0.51
ACGTcount: A:0.15, C:0.29, G:0.29, T:0.27
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:32808 original size:19 final size:19
Alignment explanation
Indices: 32783--32860 Score: 97
Period size: 19 Copynumber: 4.1 Consensus size: 19
32773 ACCGGTTTTC
*
32783 AACCGGTTCTGACCGGTTTG
1 AACCGGTT-TGACCGGTCTG
*
32803 -ACCGGTTTCAACCGGT-TCG
1 AACCGGTTT-GACCGGTCT-G
32822 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
32841 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
32860 A
1 A
32861 CCCGACCGGT
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.04
19 41 0.79
20 9 0.17
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:32816 original size:29 final size:29
Alignment explanation
Indices: 32773--32862 Score: 121
Period size: 29 Copynumber: 3.1 Consensus size: 29
32763 GCTGCTGGAA
32773 ACCGGTTTTCAACCGGTTCTGACCGGTTTG
1 ACCGG-TTTCAACCGGTTCTGACCGGTTTG
32803 ACCGGTTTCAACCGGTTC-GAACCGGTTTG
1 ACCGGTTTCAACCGGTTCTG-ACCGGTTTG
* * *
32832 ACCGGTCTGAACCGGTT-TGACCGGTCTG
1 ACCGGTTTCAACCGGTTCTGACCGGTTTG
32860 ACC
1 ACC
32863 CGACCGGTGA
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
28 12 0.22
29 38 0.69
30 5 0.09
ACGTcount: A:0.16, C:0.29, G:0.28, T:0.28
Consensus pattern (29 bp):
ACCGGTTTCAACCGGTTCTGACCGGTTTG
Found at i:32879 original size:5 final size:5
Alignment explanation
Indices: 32871--32933 Score: 72
Period size: 5 Copynumber: 11.8 Consensus size: 5
32861 CCCGACCGGT
* *
32871 GACCC GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC
1 GACCC GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC
32920 GACCC GACCC GACC
1 GACCC GACCC GACC
32934 GTTGACCGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
5 42 0.84
7 8 0.16
ACGTcount: A:0.19, C:0.52, G:0.22, T:0.06
Consensus pattern (5 bp):
GACCC
Found at i:32901 original size:27 final size:22
Alignment explanation
Indices: 32859--32940 Score: 155
Period size: 22 Copynumber: 3.7 Consensus size: 22
32849 TGACCGGTCT
*
32859 GACCCGACCGGTGACCCGACCC
1 GACCCGACCGTTGACCCGACCC
32881 GACCCGACCGTTGACCCGACCC
1 GACCCGACCGTTGACCCGACCC
32903 GACCCGACCGTTGACCCGACCC
1 GACCCGACCGTTGACCCGACCC
32925 GACCCGACCGTTGACC
1 GACCCGACCGTTGACC
32941 GTTGACTTTC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 59 1.00
ACGTcount: A:0.18, C:0.49, G:0.24, T:0.09
Consensus pattern (22 bp):
GACCCGACCGTTGACCCGACCC
Found at i:35727 original size:39 final size:41
Alignment explanation
Indices: 35660--35749 Score: 112
Period size: 39 Copynumber: 2.2 Consensus size: 41
35650 TTCTATCTTT
* **
35660 TATGTTATGCTCAGGAAACTAAA-TTTTT-TTCTTTTCAAA
1 TATGTTATGCCCACAAAACTAAACTTTTTCTTCTTTTCAAA
*
35699 TATGTTATGCCCACAAAATTAAACTTTTTTTCTTCTTTTCAAA
1 TATGTTATGCCCACAAAACTAAAC--TTTTTCTTCTTTTCAAA
35742 TATGTTAT
1 TATGTTAT
35750 ACACACGGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 19 0.44
42 5 0.12
43 19 0.44
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (41 bp):
TATGTTATGCCCACAAAACTAAACTTTTTCTTCTTTTCAAA
Found at i:35766 original size:43 final size:42
Alignment explanation
Indices: 35683--35771 Score: 115
Period size: 43 Copynumber: 2.1 Consensus size: 42
35673 GGAAACTAAA
* * * *
35683 TTTTTTTCTTTTCAAATATGTTATGCCCACAAAATTAAACTT
1 TTTTTTTCTTTTCAAATATGTTATACACACAAAATAAAACTC
**
35725 TTTTTCTTCTTTTCAAATATGTTATACACACGGAATAAAACTC
1 TTTTT-TTCTTTTCAAATATGTTATACACACAAAATAAAACTC
35768 TTTT
1 TTTT
35772 CTACTCCTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 5 0.12
43 35 0.88
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.47
Consensus pattern (42 bp):
TTTTTTTCTTTTCAAATATGTTATACACACAAAATAAAACTC
Found at i:40971 original size:12 final size:12
Alignment explanation
Indices: 40938--40972 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
40928 ATCGTGGATC
40938 GAAGAAGAAGAT
1 GAAGAAGAAGAT
* *
40950 GATGATGAAGAT
1 GAAGAAGAAGAT
40962 GAAGAAGAAGA
1 GAAGAAGAAGA
40973 AGAGGGTAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.34, T:0.11
Consensus pattern (12 bp):
GAAGAAGAAGAT
Found at i:44141 original size:31 final size:31
Alignment explanation
Indices: 44103--44191 Score: 169
Period size: 31 Copynumber: 2.9 Consensus size: 31
44093 GAGTCGAGGG
44103 TTACCTATGTTCTTTGGGACATATGGACTGT
1 TTACCTATGTTCTTTGGGACATATGGACTGT
44134 TTACCTATGTTCTTTGGGACATATGGACTGT
1 TTACCTATGTTCTTTGGGACATATGGACTGT
*
44165 TTACCTATGTTCTTTGGAACATATGGA
1 TTACCTATGTTCTTTGGGACATATGGA
44192 TTGGTCCTTC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (31 bp):
TTACCTATGTTCTTTGGGACATATGGACTGT
Found at i:46260 original size:30 final size:29
Alignment explanation
Indices: 46220--46286 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
46210 TCATTTGCAC
* * *
46220 AAAAAATTATTT-GATTTTTTGATATTTTAT
1 AAAATATTATTTAGAATTTTT-A-ATTTAAT
46250 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
46279 AATAATAT
1 AA-AATAT
46287 ATATCGTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:46468 original size:23 final size:23
Alignment explanation
Indices: 46442--46504 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
46432 ATATAACCAC
46442 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
46465 TACCTAGTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
46488 TACCTATTACATCATAT
1 TACCTATTACATTATAT
46505 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:46885 original size:21 final size:20
Alignment explanation
Indices: 46855--46932 Score: 57
Period size: 23 Copynumber: 3.5 Consensus size: 20
46845 GATAGACACT
*
46855 TTACAATATAACCACTACCTA
1 TTACATTATAA-CACTACCTA
*
46876 TTACATTATATAAACGATACCTA
1 TTACATTATA-ACAC--TACCTA
*
46899 TTACATTATATAAGCGCTACCTA
1 TTACA-T-TATAA-CACTACCTA
*
46922 TTACATCATAA
1 TTACATTATAA
46933 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 22 0.48
24 2 0.04
25 5 0.11
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (20 bp):
TTACATTATAACACTACCTA
Found at i:46896 original size:23 final size:23
Alignment explanation
Indices: 46870--46927 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
46860 ATATAACCAC
46870 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
46893 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
46916 TACCTATTACAT
1 TACCTATTACAT
46928 CATAATTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:47118 original size:30 final size:29
Alignment explanation
Indices: 47078--47144 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
47068 TCATTTGCAC
* * *
47078 AAAAAATTATTT-GATTTTTTGATATTTTAT
1 AAAATATTATTTAGAATTTTT-A-ATTTAAT
47108 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
47137 AATAATAT
1 AA-AATAT
47145 ATATCGTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:47231 original size:430 final size:430
Alignment explanation
Indices: 46082--47563 Score: 2864
Period size: 428 Copynumber: 3.5 Consensus size: 430
46072 TATTACATTA
*
46082 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAAGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
46147 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
46212 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
46277 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
* *
46342 TTAAAACTCACTCAAAAGATAACCTTAAATTAATTTTTTCCACAGTGAAAAAAGTATGAACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
*
46407 TTATAAAAATGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAG
326 TTATAAAAATGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
46472 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
46512 TATTATATTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
46576 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
46640 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
46705 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
46770 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
46835 TTATAAAAATGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAATGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
*
46900 TACATTATATAAGCGCTACCTATTACATCATAATTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
46940 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
47005 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
47070 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
*
47135 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGATGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
47200 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
47264 TTATAAAAATGATAGACACTTTACAATATAACCACTACCTATTACATTATAT-AACGATACCTAT
326 TTATAAAAATGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
47328 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
47368 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
47433 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
47498 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
47563 A
196 A
47564 CAACATTAAC
Statistics
Matches: 1039, Mismatches: 11, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
428 617 0.59
429 171 0.16
430 251 0.24
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (430 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
TTATAAAAATGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:47351 original size:23 final size:22
Alignment explanation
Indices: 47289--47360 Score: 99
Period size: 23 Copynumber: 3.2 Consensus size: 22
47279 ACACTTTACA
*
47289 ATATAACCACTACCTATTACATT
1 ATATAA-CGCTACCTATTACATT
*
47312 ATATAACGATACCTATTACATT
1 ATATAACGCTACCTATTACATT
*
47334 ATATAAGCGCTACCTATTACATC
1 ATATAA-CGCTACCTATTACATT
47357 ATAT
1 ATAT
47361 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 20 0.45
23 24 0.55
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATAACGCTACCTATTACATT
Found at i:47837 original size:39 final size:39
Alignment explanation
Indices: 47783--47868 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
47773 CAAGTTGTAG
*
47783 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
47822 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
47861 ATTTTGAT
1 ATTTTGAT
47869 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:48147 original size:18 final size:18
Alignment explanation
Indices: 48124--48160 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
48114 GCCGAAATAT
48124 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
48142 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
48160 A
1 A
48161 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:48624 original size:23 final size:23
Alignment explanation
Indices: 48598--48661 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
48588 ATATAACCAC
48598 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
48621 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
48644 TACCTATTACATCATATA
1 TACCTATTACATTATATA
48662 TTTACCTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:49061 original size:25 final size:25
Alignment explanation
Indices: 49004--49069 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
48994 CACTCAAAAG
*
49004 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
49029 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
49054 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
49070 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:52063 original size:182 final size:183
Alignment explanation
Indices: 51539--52029 Score: 853
Period size: 183 Copynumber: 2.7 Consensus size: 183
51529 TTAAAATTAC
*
51539 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* * *
51604 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCAGTT
* * *
51669 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
131 ATATTACAAATTTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
* *
51722 CGATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
51787 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCAGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCAGTT
51852 ATATTACAAATTTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAATTTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
51905 CGACA-TTTTTTAACAAT-GTATCGACACATTTTT-TTCCAATCTGGACATAAAGTACCGACACA
1 CGACACTTTTTT-A-AATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACA
*
51967 AGATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACC
64 ATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACC
52030 GATAGCATTG
Statistics
Matches: 294, Mismatches: 12, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
182 96 0.33
183 195 0.66
184 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCAGTT
ATATTACAAATTTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:53547 original size:12 final size:12
Alignment explanation
Indices: 53534--53634 Score: 112
Period size: 12 Copynumber: 8.4 Consensus size: 12
53524 GTTTGGATCA
* *
53534 TCATCTTCATCA
1 TCATCGTCATCT
* *
53546 TCATCATCATCA
1 TCATCGTCATCT
* *
53558 TCGTCATCATCT
1 TCATCGTCATCT
* *
53570 TCATCGCCAGCT
1 TCATCGTCATCT
*
53582 TCATCGTCATCA
1 TCATCGTCATCT
53594 TCATCGTCATCT
1 TCATCGTCATCT
53606 TCATCGTCATCT
1 TCATCGTCATCT
*
53618 TCATCGTCAGCT
1 TCATCGTCATCT
53630 TCATC
1 TCATC
53635 TTCTGCGACC
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 77 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:53637 original size:6 final size:6
Alignment explanation
Indices: 53534--53637 Score: 82
Period size: 6 Copynumber: 17.3 Consensus size: 6
53524 GTTTGGATCA
* * * * * * * *
53534 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * * *
53582 TCATCG TCATCA TCATCG TCATCT TCATCG TCATCT TCATCG TCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
53630 TCATCT TC
1 TCATCT TC
53638 TGCGACCGCT
Statistics
Matches: 78, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 78 1.00
ACGTcount: A:0.20, C:0.35, G:0.08, T:0.38
Consensus pattern (6 bp):
TCATCT
Found at i:55459 original size:199 final size:199
Alignment explanation
Indices: 55100--56866 Score: 3301
Period size: 199 Copynumber: 8.9 Consensus size: 199
55090 TTTAAATTAG
*
55100 TATCGACACAAACTAAA--ACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTAAATTA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAA
*
55163 ACTTGTATCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
55228 TCGACACTTTTTATATATGGATCGACACTTTATGAG-TGCACCCTGTTTTCCATTCATTCTGGAA
130 TCGACACTTTTTATATATGGATCGACACTTTATG-GTTGCACCCTGTTTTCCATTCATTCTGGAA
55292 CAAAAA
194 CAAAAA
55298 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
55363 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
55428 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
55493 AAAA
196 AAAA
*
55497 TATCGACACAAACTAAATTATTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
*
55562 CTTGTACTGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
55627 CGATACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
55692 AAAA
196 AAAA
*
55696 TATCGACACAAACTAAATTAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
55761 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
55826 CGACAC-TTTTATATATGAATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
55890 AAAA
196 AAAA
55894 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
55959 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
56024 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
56089 AAAA
196 AAAA
56093 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
* *
56158 CTTGTACTGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
56223 CGATACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
56288 AAAA
196 AAAA
56292 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
*
56357 CTTGTACCGGTTAGATTGAAAACTTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
56422 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC-
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
56486 AAAA
196 AAAA
*
56490 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
* *
56555 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
56620 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
*
56685 AACAA
195 AAAAA
56690 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
* *
56755 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
56820 TTGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
56867 GGCCATATTG
Statistics
Matches: 1537, Mismatches: 26, Indels: 10
0.98 0.02 0.01
Matches are distributed among these distances:
198 328 0.21
199 1030 0.67
200 179 0.12
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (199 bp):
TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
AAAA
Found at i:55636 original size:15 final size:15
Alignment explanation
Indices: 55599--55636 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
55589 ATATTACATT
*
55599 ATACTTTTGGGTTCG
1 ATACTTTTGGGATCG
55614 ATGA-TTTTGGGATCG
1 AT-ACTTTTGGGATCG
55629 ATACTTTT
1 ATACTTTT
55637 TATATATGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 1 0.05
15 18 0.90
16 1 0.05
ACGTcount: A:0.18, C:0.11, G:0.24, T:0.47
Consensus pattern (15 bp):
ATACTTTTGGGATCG
Found at i:56232 original size:15 final size:15
Alignment explanation
Indices: 56195--56232 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
56185 ATATTACATT
*
56195 ATACTTTTGGGTTCG
1 ATACTTTTGGGATCG
56210 ATGA-TTTTGGGATCG
1 AT-ACTTTTGGGATCG
56225 ATACTTTT
1 ATACTTTT
56233 TATATATGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 1 0.05
15 18 0.90
16 1 0.05
ACGTcount: A:0.18, C:0.11, G:0.24, T:0.47
Consensus pattern (15 bp):
ATACTTTTGGGATCG
Found at i:56232 original size:596 final size:597
Alignment explanation
Indices: 55100--56866 Score: 3319
Period size: 596 Copynumber: 3.0 Consensus size: 597
55090 TTTAAATTAG
*
55100 TATCGACACAAACTAAA--ACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTAAATTA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAA
*
55163 ACTTGTATCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
55228 TCGACACTTTTTATATATGGATCGACACTTTATGAG-TGCACCCTGTTTTCCATTCATTCTGGAA
130 TCGACACTTTTTATATATGGATCGACACTTTATG-GTTGCACCCTGTTTTCCATTCATTCTGGAA
55292 CAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
194 CAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
55357 GGTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
259 GGTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
55422 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCT
324 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCT
*
55487 GGAACAAAAATATCGACACAAACTAAATTATTGTCGACACATTATTTAGACATATTCTCTCATAA
389 GGAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAA
55552 AACCGGTAAACTTGTACTGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATG
454 AACCGGTAAACTTGTACTGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATG
55617 ATTTTGGGATCGATACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCA
519 ATTTTGGGATCGATACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCA
55682 TTCTGGAACAAAAA
584 TTCTGGAACAAAAA
*
55696 TATCGACACAAACTAAATTAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
55761 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
55826 CGACAC-TTTTATATATGAATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
55890 AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
55955 TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
56020 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
56085 AACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
391 AACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
*
56150 CCGGTAAACTTGTACTGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGAT
456 CCGGTAAACTTGTACTGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGAT
56215 TTTGGGATCGATACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATT
521 TTTGGGATCGATACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATT
56280 CTGGAACAAAAA
586 CTGGAACAAAAA
56292 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
*
56357 CTTGTACCGGTTAGATTGAAAACTTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
56422 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC-
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
*
56486 AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATCGG
196 AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
* *
56551 TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTT
261 TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTT
56616 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTG
325 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTG
*
56681 GAACAACAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAA
390 GAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAA
* *
56746 ACCGGTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG
455 ACCGGTAAACTTGTACTGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATG
* * *
56811 TTTTTGGGATTGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
519 ATTTTGGGATCGATACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
56867 GGCCATATTG
Statistics
Matches: 1146, Mismatches: 19, Indels: 10
0.98 0.02 0.01
Matches are distributed among these distances:
595 1 0.00
596 721 0.63
597 363 0.32
598 61 0.05
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (597 bp):
TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
AACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
CCGGTAAACTTGTACTGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGAT
TTTGGGATCGATACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATT
CTGGAACAAAAA
Found at i:57031 original size:19 final size:19
Alignment explanation
Indices: 56985--57033 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
56975 TTATATTCAC
*
56985 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
57004 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
57023 ATACAAAATTA
1 ATACAAAATTA
57034 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:58860 original size:33 final size:33
Alignment explanation
Indices: 58823--58888 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
58813 CATCTTAATA
*
58823 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
58856 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
58889 CCATATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:58947 original size:21 final size:21
Alignment explanation
Indices: 58922--58965 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
58912 CCCCTTATGC
58922 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
58943 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
58964 CT
1 CT
58966 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:61203 original size:17 final size:18
Alignment explanation
Indices: 61181--61223 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
61171 ATATATCTGG
61181 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
61198 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
61218 TATCAT
1 TATCAT
61224 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:61241 original size:20 final size:19
Alignment explanation
Indices: 61186--61232 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
61176 TCTGGTATCA
61186 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
61205 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
61226 TTTTACC
1 TTTTACC
61233 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:61412 original size:20 final size:19
Alignment explanation
Indices: 61367--61412 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
61357 TCCGGTAACG
61367 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
61386 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
61407 TTTTAC
1 TTTTAC
61413 ATGGTATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.17, C:0.15, G:0.11, T:0.57
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:61983 original size:228 final size:228
Alignment explanation
Indices: 61462--62171 Score: 1305
Period size: 228 Copynumber: 3.1 Consensus size: 228
61452 ACTTTTATAC
61462 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
61527 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-AAAA-
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAT
61590 -A----ATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
131 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
61650 ATAATAATAAATATATTTTCCACAGTGAAATAA
196 ATAATAATAAATATATTTTCCACAGTGAAATAA
61683 GTATGGACACTTTTAT-AAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
61747 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-AAAAA
61812 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
130 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
*
61877 GATAATAATAAATATGTTTTCCACAGTGAAATAA
195 GATAATAATAAATATATTTTCCACAGTGAAATAA
61911 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
61975 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACA-AAAA
*
62040 TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
130 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
62105 GATAATAATAAATATATTTT-CACAGTGAAATAA
195 GATAATAATAAATATATTTTCCACAGTGAAATAA
*
62138 GTATGGACACTTTTATAAAAAGGATATATACTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTT
62172 ACAATATAAC
Statistics
Matches: 475, Mismatches: 4, Indels: 14
0.96 0.01 0.03
Matches are distributed among these distances:
220 107 0.23
221 16 0.03
222 4 0.01
224 1 0.00
227 47 0.10
228 255 0.54
229 45 0.09
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.45
Consensus pattern (228 bp):
GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAT
TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
ATAATAATAAATATATTTTCCACAGTGAAATAA
Found at i:64175 original size:15 final size:15
Alignment explanation
Indices: 64151--64180 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
64141 TGCATATAAA
64151 ATTTTAAAAAAATAT
1 ATTTTAAAAAAATAT
*
64166 ATTTTTAAAAAATAT
1 ATTTTAAAAAAATAT
64181 TTAATATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTTTAAAAAAATAT
Found at i:67586 original size:19 final size:19
Alignment explanation
Indices: 67564--67606 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
67554 TCCTATTATT
*
67564 TTATTTTTTTTAGTTAAAA
1 TTATTTTTTTTAGATAAAA
* *
67583 TTATATTTTTTAGATAAAC
1 TTATTTTTTTTAGATAAAA
67602 TTATT
1 TTATT
67607 AATTGACTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (19 bp):
TTATTTTTTTTAGATAAAA
Found at i:70162 original size:79 final size:79
Alignment explanation
Indices: 70026--70184 Score: 300
Period size: 79 Copynumber: 2.0 Consensus size: 79
70016 TGAGATCCCA
*
70026 TATTGGCAAGTAAAAGATTTTGTATATCATTTAAAAATCCCAATATTAGACACTTACACTGCCCC
1 TATTGGCAAGTAAAAGATTTTGTATATCATTTAAAAATCCCAATATTAGACAATTACACTGCCCC
70091 TCCAAGTTGAGCAC
66 TCCAAGTTGAGCAC
*
70105 TATTGGCAAGTAAAAGATTTTGTATATCATTTAAAAATCCCAATATTAGACAATTACATTGCCCC
1 TATTGGCAAGTAAAAGATTTTGTATATCATTTAAAAATCCCAATATTAGACAATTACACTGCCCC
70170 TCCAAGTTGAGCAC
66 TCCAAGTTGAGCAC
70184 T
1 T
70185 GGTTGAGAGC
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (79 bp):
TATTGGCAAGTAAAAGATTTTGTATATCATTTAAAAATCCCAATATTAGACAATTACACTGCCCC
TCCAAGTTGAGCAC
Found at i:74539 original size:69 final size:69
Alignment explanation
Indices: 74428--74560 Score: 248
Period size: 69 Copynumber: 1.9 Consensus size: 69
74418 TACTTGCCAC
*
74428 AAACTAAATGGCCGCCATTACTACCCTAAGGTTTGATTCGGTTATAGAGTATAAATGCAAAAACT
1 AAACTAAATGGCCACCATTACTACCCTAAGGTTTGATTCGGTTATAGAGTATAAATGCAAAAACT
74493 AACT
66 AACT
*
74497 AAACTAAATGGCCACCATTACTACCCTAAGGTTTGATTCGGTTATAGTGTATAAATGCAAAAAC
1 AAACTAAATGGCCACCATTACTACCCTAAGGTTTGATTCGGTTATAGAGTATAAATGCAAAAAC
74561 CAACCGTTAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (69 bp):
AAACTAAATGGCCACCATTACTACCCTAAGGTTTGATTCGGTTATAGAGTATAAATGCAAAAACT
AACT
Found at i:77223 original size:153 final size:153
Alignment explanation
Indices: 76949--77224 Score: 401
Period size: 153 Copynumber: 1.8 Consensus size: 153
76939 CAAGATGCTG
* * *
76949 AAGCTTTGAAAGTCGAGTAAGGGACGGATGTATGCTGATGAAATTGTTACCACTAAGATTAAGAT
1 AAGCTTGGAAAGTCGAGTAAGGGACGGAGGTATGCTGATGAAATTGTTACCACTAAGATCAAGAT
* * *
77014 GGGCCAAAGAGGATAGATAAGAAACATCATTAGGAATATCTAATTCACCAATATTGCACATGCCA
66 GGGCCAAAGAGGATAGACAAGAAACATCACTAGGAATATCTAATTCACCAAGATTGCACATGCCA
77079 CAATTTGATAATCTAAGAGATTC
131 CAATTTGATAATCTAAGAGATTC
*
77102 AAGCTTGGAAAGTCGAGTAAGGGACGGAGGTATGCTGATGAAATTGTTACCAGTAAGATCAAG-T
1 AAGCTTGGAAAGTCGAGTAAGGGACGGAGGTATGCTGATGAAATTGTTACCACTAAGATCAAGAT
** ** * ** *
77166 CGTTCCAAAGAGGATAGACGTGAAATATCACTAGGAATATCTTCTTCTCCAAGATTGCA
66 -GGGCCAAAGAGGATAGACAAGAAACATCACTAGGAATATCTAATTCACCAAGATTGCA
77225 GTCCTTTAGT
Statistics
Matches: 107, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
152 1 0.01
153 106 0.99
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.26
Consensus pattern (153 bp):
AAGCTTGGAAAGTCGAGTAAGGGACGGAGGTATGCTGATGAAATTGTTACCACTAAGATCAAGAT
GGGCCAAAGAGGATAGACAAGAAACATCACTAGGAATATCTAATTCACCAAGATTGCACATGCCA
CAATTTGATAATCTAAGAGATTC
Found at i:79215 original size:35 final size:36
Alignment explanation
Indices: 79169--79262 Score: 122
Period size: 35 Copynumber: 2.7 Consensus size: 36
79159 CACAATCATT
* *
79169 AATTACATTCTAAACCCT-ATATTCCAAAATATTTC
1 AATTACATTCTAAACCCTCAAATTCCAAAATACTTC
*
79204 AATTACATTCTAAA-TCTCAAATTCCAAAATACTTC
1 AATTACATTCTAAACCCTCAAATTCCAAAATACTTC
* *
79239 AATTACATGCTCAACCC-CAAATTC
1 AATTACATTCTAAACCCTCAAATTC
79263 ATATACATTC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
34 2 0.04
35 48 0.94
36 1 0.02
ACGTcount: A:0.40, C:0.26, G:0.01, T:0.33
Consensus pattern (36 bp):
AATTACATTCTAAACCCTCAAATTCCAAAATACTTC
Found at i:80130 original size:65 final size:63
Alignment explanation
Indices: 80060--80216 Score: 156
Period size: 65 Copynumber: 2.4 Consensus size: 63
80050 CACACCCATT
* ** *
80060 TCGAATGCAATTTATGCACTGATGCACAAGTCATGCATCAATGCACTCTGAG-TTTTATTAAAAC
1 TCGAATG-AATTTATGCACCGATGCACAAACCATGCATCAATGCACTCTG-GCTATT-TTAAAAC
80124 A
63 A
* * * * *
80125 TCGAATTGATTTTATGCACCAATGAACAAACCATGCATCGATGCACTCTGGCTATTTTGAAACA
1 TCGAA-TGAATTTATGCACCGATGCACAAACCATGCATCAATGCACTCTGGCTATTTTAAAACA
*
80189 TCGAA-GAAAATTAGTGCACCGATGCACA
1 TCGAATG-AATTTA-TGCACCGATGCACA
80217 CCCTAGTGTA
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 4 0.05
64 25 0.33
65 43 0.57
66 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (63 bp):
TCGAATGAATTTATGCACCGATGCACAAACCATGCATCAATGCACTCTGGCTATTTTAAAACA
Found at i:85595 original size:15 final size:15
Alignment explanation
Indices: 85575--85604 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
85565 GCATATTGAA
*
85575 ATTAGACATCATTTC
1 ATTAGAAATCATTTC
85590 ATTAGAAATCATTTC
1 ATTAGAAATCATTTC
85605 GCTAAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.40
Consensus pattern (15 bp):
ATTAGAAATCATTTC
Found at i:86033 original size:23 final size:22
Alignment explanation
Indices: 86003--86081 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 22
85993 CACTAGCTAG
86003 TGCATCGATGCATCCTTTGAATA
1 TGCATCGATGCATCC-TTGAATA
* * *
86026 TGCATCGATACAT-CATGAAGA
1 TGCATCGATGCATCCTTGAATA
* *
86047 TGCACCGATGCATTCCTTGAATG
1 TGCATCGATGCA-TCCTTGAATA
86070 TGCATCGATGCA
1 TGCATCGATGCA
86082 CTCTGCCGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 28 0.62
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (22 bp):
TGCATCGATGCATCCTTGAATA
Found at i:86594 original size:13 final size:13
Alignment explanation
Indices: 86576--86600 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86566 ACACATTGAT
86576 TTTTCAAAATTTG
1 TTTTCAAAATTTG
86589 TTTTCAAAATTT
1 TTTTCAAAATTT
86601 TTCAAAACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (13 bp):
TTTTCAAAATTTG
Found at i:89830 original size:146 final size:147
Alignment explanation
Indices: 89617--89880 Score: 424
Period size: 146 Copynumber: 1.8 Consensus size: 147
89607 TTAACTCAAC
* *
89617 ATATTATAAATATTTATAATTAAATTTAAACAGAAACTCAAAAATTCAATTCAATTCGACTTGAT
1 ATATGATAAATATTTATAATTAAATTTAAACAGAAAATCAAAAATTCAATTCAATTCGACTTGAT
* *
89682 TTAAA-TTTATAAAATCAAATCGAAAAAATTTCGAGTCAACTATTTTATAAACTAAACTTAATTA
66 TTAAATTTTATAAAATCAAAT-AAAAAAAATTCGAGTCAACTATTTTATAAACTAAACTTAATTA
89746 GAATCAAATAATATTATA
130 GAATCAAATAATATTATA
* * *
89764 ATATGATAAATATTTATATTTAAATTTAAAC-GAAAATCAAAAATTTAATTCAATTCGACTTTAT
1 ATATGATAAATATTTATAATTAAATTTAAACAGAAAATCAAAAATTCAATTCAATTCGACTTGAT
* *
89828 TTAAATTTTATAAACTCAAATAAAAAAAATTCGAGTTAACTATTTTATAAACT
66 TTAAATTTTATAAAATCAAATAAAAAAAATTCGAGTCAACTATTTTATAAACT
89881 GAATTGAGTA
Statistics
Matches: 107, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
146 64 0.60
147 43 0.40
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (147 bp):
ATATGATAAATATTTATAATTAAATTTAAACAGAAAATCAAAAATTCAATTCAATTCGACTTGAT
TTAAATTTTATAAAATCAAATAAAAAAAATTCGAGTCAACTATTTTATAAACTAAACTTAATTAG
AATCAAATAATATTATA
Found at i:90038 original size:35 final size:35
Alignment explanation
Indices: 89999--90066 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
89989 TTGCTGCTTC
89999 AAGTATTTTGGAATTTGAGATTTAGAATGTAATCA
1 AAGTATTTTGGAATTTGAGATTTAGAATGTAATCA
*
90034 AAGTATTTTGGAATTTGGGATTTAGAATGTAAT
1 AAGTATTTTGGAATTTGAGATTTAGAATGTAAT
90067 TGATGACTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.35, C:0.01, G:0.22, T:0.41
Consensus pattern (35 bp):
AAGTATTTTGGAATTTGAGATTTAGAATGTAATCA
Found at i:90348 original size:29 final size:29
Alignment explanation
Indices: 90315--90374 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
90305 ATATTATAAA
90315 CTAAATATGAGATTAAACGAAAATCAGGC
1 CTAAATATGAGATTAAACGAAAATCAGGC
90344 CTAAATATGAGATTAAACGAAAATCAGGC
1 CTAAATATGAGATTAAACGAAAATCAGGC
90373 CT
1 CT
90375 GTCCTAATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.22
Consensus pattern (29 bp):
CTAAATATGAGATTAAACGAAAATCAGGC
Found at i:91959 original size:59 final size:61
Alignment explanation
Indices: 91865--91978 Score: 137
Period size: 59 Copynumber: 1.9 Consensus size: 61
91855 AGAACATATG
** *
91865 AATAATCGAGTGACTCAACAAAGCAACATATTATAAT-CAGAGACTATTT-TATAACTTAT
1 AATAATCGAGAAACTCAACAAAGCAACATATTATAATAAAGAGACTATTTGTATAACTTAT
* *
91924 AATAATCGAGAAACTCAACTAAA-CAATATCA-TATAATAAAGAGATTATTTGTATA
1 AATAATCGAGAAACTCAAC-AAAGCAACAT-ATTATAATAAAGAGACTATTTGTATA
91979 CTTTCTCCTA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
59 28 0.61
60 14 0.30
61 4 0.09
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (61 bp):
AATAATCGAGAAACTCAACAAAGCAACATATTATAATAAAGAGACTATTTGTATAACTTAT
Found at i:92474 original size:60 final size:60
Alignment explanation
Indices: 92383--92501 Score: 157
Period size: 60 Copynumber: 2.0 Consensus size: 60
92373 TACAGAAACA
* * * * * *
92383 GTCCCCCGACCATAGGGTGATGTTTTTTTAAGTCTCTCGACTATTAAAAGTTATAAAATG
1 GTCCCCCGACCATAGGGTGATGCTTTGTTAAGTCCCCCAACTATTAAAAGTTACAAAATG
* * *
92443 GTCCCCTGACTATAGGGTGTTGCTTTGTTAAGTCCCCCAACTATTAAAAGTTACAAAAT
1 GTCCCCCGACCATAGGGTGATGCTTTGTTAAGTCCCCCAACTATTAAAAGTTACAAAAT
92502 AGTCACCAAC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (60 bp):
GTCCCCCGACCATAGGGTGATGCTTTGTTAAGTCCCCCAACTATTAAAAGTTACAAAATG
Done.