Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008430.1 Hibiscus syriacus cultivar Beakdansim tig00111220_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: 1186098
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:1717 original size:12 final size:12
Alignment explanation
Indices: 1700--1724 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1690 TCTTCGGGGA
1700 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1712 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1724 C
1 C
1725 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1933 original size:24 final size:24
Alignment explanation
Indices: 1899--1945 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1889 CTGAAACATC
1899 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1923 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1946 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:2646 original size:20 final size:20
Alignment explanation
Indices: 2618--3006 Score: 473
Period size: 20 Copynumber: 19.4 Consensus size: 20
2608 AAATTTCAGT
* * * *
2618 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
2638 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
2658 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
2678 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
2698 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2718 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
*
2738 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
2758 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
2778 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2798 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2818 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
2838 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
2858 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2878 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
2898 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
2918 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
2938 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
2958 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
2978 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
2998 GTTGCGATT
1 GTTGCGATT
3007 ATGGAAAATC
Statistics
Matches: 329, Mismatches: 32, Indels: 16
0.87 0.08 0.04
Matches are distributed among these distances:
19 5 0.02
20 319 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:5626 original size:158 final size:158
Alignment explanation
Indices: 5333--5650 Score: 435
Period size: 158 Copynumber: 2.0 Consensus size: 158
5323 ACTCGCAACC
* * * *
5333 CACCTGCAACAATCAAATTCCGAATTCATTCGAACCGAAAAAGGCTCGAAAAAAGTTATGAACTT
1 CACCTGCAACAACCAAATTCCGAATTCATTCCAACCGAAAAAAGCTCGAAAAAAGTTATAAACTT
*
5398 TCAAGCTTGTAGATTTACGATTCATTCCAAGATTATAGCTTTGATGATTAACAAGTACTCAAAAG
66 TCAAGCTTGTAGATTTACAATTCATTCCAAGATTATAGCTTTGATGATTAACAAGTACTCAAAAG
*
5463 CAATGGACA-CATGAGAGTAAAGCGAATA
131 AAATGGA-ATCATGAGAGTAAAGCGAATA
* * *
5491 CACCTGCAACAGCCAAATTCCGAATT-ATTCCAATCGAAAAAAGTTCGAAAAAAAGTTATAAACT
1 CACCTGCAACAACCAAATTCCGAATTCATTCCAACCGAAAAAAGCTCG-AAAAAAGTTATAAACT
* * * ** *
5555 TTCAAGTTTGTAGATTTACAATTCCTTCCAAGTTTATAG-TTGTGATGATTAATTAGTTCTCAAA
65 TTCAAGCTTGTAGATTTACAATTCATTCCAAGATTATAGCTT-TGATGATTAACAAGTACTCAAA
* *
5619 AGAAATGGAATCATGATAGTAAAGCTAATA
129 AGAAATGGAATCATGAGAGTAAAGCGAATA
5649 CA
1 CA
5651 GTTTTTTTTC
Statistics
Matches: 140, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
157 20 0.14
158 120 0.86
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (158 bp):
CACCTGCAACAACCAAATTCCGAATTCATTCCAACCGAAAAAAGCTCGAAAAAAGTTATAAACTT
TCAAGCTTGTAGATTTACAATTCATTCCAAGATTATAGCTTTGATGATTAACAAGTACTCAAAAG
AAATGGAATCATGAGAGTAAAGCGAATA
Found at i:10141 original size:14 final size:14
Alignment explanation
Indices: 10122--10161 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
10112 TATATGTTCG
10122 TTTATGTTCATTCA
1 TTTATGTTCATTCA
*
10136 TTTATGTTCATTTA
1 TTTATGTTCATTCA
10150 TTT-TCGTTCATT
1 TTTAT-GTTCATT
10162 TATGTTCGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 1 0.04
14 23 0.96
ACGTcount: A:0.17, C:0.12, G:0.07, T:0.62
Consensus pattern (14 bp):
TTTATGTTCATTCA
Found at i:10149 original size:24 final size:24
Alignment explanation
Indices: 10114--10168 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
10104 CGTTCGATTA
*
10114 TATGTTCGTTTATGTTCATTCATT
1 TATGTTCATTTATGTTCATTCATT
* *
10138 TATGTTCATTTATTTTCGTTCATT
1 TATGTTCATTTATGTTCATTCATT
10162 TATGTTC
1 TATGTTC
10169 GAACAGAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.16, C:0.13, G:0.11, T:0.60
Consensus pattern (24 bp):
TATGTTCATTTATGTTCATTCATT
Found at i:10162 original size:14 final size:14
Alignment explanation
Indices: 10127--10169 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
10117 GTTCGTTTAT
*
10127 GTTCATTCATTTAT-
1 GTTCATTTATTT-TC
10141 GTTCATTTATTTTC
1 GTTCATTTATTTTC
*
10155 GTTCATTTATGTTC
1 GTTCATTTATTTTC
10169 G
1 G
10170 AACAGAGGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 1 0.04
14 25 0.96
ACGTcount: A:0.16, C:0.14, G:0.12, T:0.58
Consensus pattern (14 bp):
GTTCATTTATTTTC
Found at i:10454 original size:14 final size:13
Alignment explanation
Indices: 10426--10461 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
10416 TGTTTTTTGT
10426 GTTTGTGTTGTTC
1 GTTTGTGTTGTTC
*
10439 GTTTATGTTCGTTC
1 GTTTGTGTT-GTTC
10453 GTTTGTGTT
1 GTTTGTGTT
10462 TGTTTACGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.03, C:0.08, G:0.28, T:0.61
Consensus pattern (13 bp):
GTTTGTGTTGTTC
Found at i:10471 original size:20 final size:20
Alignment explanation
Indices: 10448--10487 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10438 CGTTTATGTT
* * *
10448 CGTTCGTTTGTGTTTGTTTA
1 CGTTCATTTATGTTCGTTTA
10468 CGTTCATTTATGTTCGTTTA
1 CGTTCATTTATGTTCGTTTA
10488 TATTTAAATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.12, G:0.20, T:0.57
Consensus pattern (20 bp):
CGTTCATTTATGTTCGTTTA
Found at i:10483 original size:34 final size:33
Alignment explanation
Indices: 10421--10485 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 33
10411 AAGTTTGTTT
*
10421 TTTGTGTTTGTGTTGTTCGTTTATGTTCGTTCG
1 TTTGTGTTTGTGTTGTTCATTTATGTTCGTTCG
10454 TTTGTGTTTGT-TTACGTTCATTTATGTTCGTT
1 TTTGTGTTTGTGTT--GTTCATTTATGTTCGTT
10486 TATATTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 2 0.07
33 11 0.38
34 16 0.55
ACGTcount: A:0.06, C:0.09, G:0.23, T:0.62
Consensus pattern (33 bp):
TTTGTGTTTGTGTTGTTCATTTATGTTCGTTCG
Found at i:10622 original size:2 final size:2
Alignment explanation
Indices: 10615--10654 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
10605 AAAATGATAA
10615 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10655 CAATGCCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20746 original size:2 final size:2
Alignment explanation
Indices: 20739--20780 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
20729 CTTCTCATAG
20739 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20781 TATTTATAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21663 original size:64 final size:64
Alignment explanation
Indices: 21593--21773 Score: 172
Period size: 65 Copynumber: 2.8 Consensus size: 64
21583 TTGGACCCTT
* * *
21593 AGTGCATAGGTGCACTAAG-AGTGCATCGATGCATGAAGTGCATTCGATG-TTTCA-AAATAGCC
1 AGTGCATAGATGCA-T-AGCAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-AGCC
21655 TG
63 TG
* * * *
21657 AGTGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAGGCCTG
1 AGTGCATAGATGCATAGC-AGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAGCCTG
* * * * *
21722 AGTGCATCGATGCATGGTATGCGCATCGATGCATAAAATGCA-TCTGATGTTT
1 AGTGCATAGATGCATAGCA-GTGCATCGATGCATCAAATGCATTC-GATGTTT
21774 AATTTATTCC
Statistics
Matches: 100, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 41 0.41
65 54 0.54
66 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (64 bp):
AGTGCATAGATGCATAGCAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAGCCTG
Found at i:21748 original size:65 final size:65
Alignment explanation
Indices: 21615--21773 Score: 218
Period size: 65 Copynumber: 2.5 Consensus size: 65
21605 CACTAAGAGT
* * *
21615 GCATCGATGCATGAAGTGCATTCGATG-TTTCAAAATAGCCTGAGTGCATCGATGCATGGCTTGT
1 GCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGCATCGATGCATGGCTTGC
* *
21679 GCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-GGCCTGAGTGCATCGATGCATGG-TAT
1 GCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATAGCCTGAGTGCATCGATGCATGGCT-T
21742 GC
64 GC
21744 GCATCGATGCATAAAATGCA-TCTGATGTTT
1 GCATCGATGCATAAAATGCATTC-GATGTTT
21774 AATTTATTCC
Statistics
Matches: 86, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
64 28 0.33
65 55 0.64
66 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (65 bp):
GCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGCATCGATGCATGGCTTGC
Found at i:21813 original size:65 final size:64
Alignment explanation
Indices: 21613--21813 Score: 214
Period size: 64 Copynumber: 3.1 Consensus size: 64
21603 TGCACTAAGA
* * *
21613 GTGCATCGATGCATGAAGTGCATTCGATGTTTCAA-AATA-GCCTGAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTAATAA-AGGCCTGAGTGCATCGATGCATGG-T
21676 T
64 T
* *
21677 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAGGCCTGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTAATAAAGGCCTGAGTGCATCGATGCATGGT-T
* ** **
21742 GCGCATCGATGCATAAAATGCA-TCTGATG-TTTAATTTATTCCATG-GTGCATCGATGCATGGA
1 GTGCATCGATGCATAAAATGCATTC-GATGTTTTAATAAAGGCC-TGAGTGCATCGATGCATGG-
21804 TT
63 TT
21806 GGTGCATC
1 -GTGCATC
21814 ACTTTGAAAA
Statistics
Matches: 118, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
64 60 0.51
65 58 0.49
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTAATAAAGGCCTGAGTGCATCGATGCATGGTT
Found at i:24208 original size:166 final size:163
Alignment explanation
Indices: 23904--24216 Score: 547
Period size: 164 Copynumber: 1.9 Consensus size: 163
23894 GTATGTATAG
*
23904 CTTTCATGCAAACAATACAATTAAGTCAAAAACATTAATAAAATTTCGAAAATAAAAAAAAATTT
1 CTTTCATGCAAACAATACAATTAAGTCAAAAACATTAATAAAATTTCGAAAATAAAAAAAAATAT
*
23969 TTTTTGAAAATTCAAAAATCTTGAAAAATTGTTGTTTTTGATGAAATTGATTATAAAATCTAGTT
66 TTTTCGAAAATTCAAAAATCTTGAAAAATTGTTGTTTTTGATGAAATTGATTATAAAATCTAGTT
24034 TAGAATCATAATATATCAGCGATCGATATAATGT
131 TAGAATCATAATA-ATCAGCGATCGATATAATGT
24068 CTTTCATGCAAACAATACAATTAAGTCAAAAACATTAAT-AAATTTCGAAAATAACAAAAAAATA
1 CTTTCATGCAAACAATACAATTAAGTCAAAAACATTAATAAAATTTCGAAAATAA-AAAAAAAT-
* *
24132 ATTTTTCGAAAATTCAAAATTCTTGAAAAATTATTTGTTTTTGATGAAATTGATTATAAAATCTA
64 ATTTTTCGAAAATTCAAAAATCTTGAAAAATT-GTTGTTTTTGATGAAATTGATTATAAAATCTA
24197 GTTTAGAATCATAATAATCA
128 GTTTAGAATCATAATAATCA
24217 AAGCTCGATC
Statistics
Matches: 142, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
163 15 0.11
164 47 0.33
165 33 0.23
166 47 0.33
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.35
Consensus pattern (163 bp):
CTTTCATGCAAACAATACAATTAAGTCAAAAACATTAATAAAATTTCGAAAATAAAAAAAAATAT
TTTTCGAAAATTCAAAAATCTTGAAAAATTGTTGTTTTTGATGAAATTGATTATAAAATCTAGTT
TAGAATCATAATAATCAGCGATCGATATAATGT
Found at i:24522 original size:22 final size:22
Alignment explanation
Indices: 24494--24571 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
24484 TCACGTCCTT
24494 GTGCATCGATGC-CATTCAAGGA
1 GTGCATCGATGCACATTCAA-GA
* *
24516 GTGCATC-AGTGCACCTTCATG-
1 GTGCATCGA-TGCACATTCAAGA
*
24537 GTGTATCGATGCACATTCAAGA
1 GTGCATCGATGCACATTCAAGA
*
24559 ATGCATCGATGCA
1 GTGCATCGATGCA
24572 TTGTAAGTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
21 17 0.38
22 23 0.51
23 5 0.11
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGA
Found at i:30432 original size:64 final size:63
Alignment explanation
Indices: 30347--30546 Score: 221
Period size: 65 Copynumber: 3.1 Consensus size: 63
30337 TGCACTAAGA
* *
30347 GTGCA-CGATGCATGAAGTGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGCTT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGG-TT
* *
30410 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-GGCCTGAGTGCATCGATGCATGGTA
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AAATAGCCTGAGTGCATCGATGCATGGT-
30474 T
63 T
** *
30475 GTGCATCGATGCATAAAATGCA-TCTGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGGA
1 GTGCATCGATGCATAAAATGCATTC-GATGTTTCAAAATA-GCC-TGAGTGCATCGATGCATGG-
30537 TT
62 TT
30539 GGTGCATC
1 -GTGCATC
30547 ACTTTGAAAA
Statistics
Matches: 119, Mismatches: 8, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
62 1 0.01
63 9 0.08
64 43 0.36
65 63 0.53
66 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGTT
Found at i:31362 original size:20 final size:20
Alignment explanation
Indices: 31322--31362 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
31312 TTTGATCATG
*
31322 ATATTTCAATATGCATGTAT
1 ATATTTCAATATGCATATAT
31342 ATATTTC-ATATGACATATAT
1 ATATTTCAATATG-CATATAT
31362 A
1 A
31363 ACCAAGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (20 bp):
ATATTTCAATATGCATATAT
Found at i:41156 original size:25 final size:25
Alignment explanation
Indices: 41112--41165 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
41102 ATATATAATA
41112 AAAAATAAACAGAAATAATAAAAAT
1 AAAAATAAACAGAAATAATAAAAAT
* *
41137 AAAAATAATCAGTAAA-AATAAAATT
1 AAAAATAAACAG-AAATAATAAAAAT
41162 AAAA
1 AAAA
41166 GAATAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 23 0.88
26 3 0.12
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.19
Consensus pattern (25 bp):
AAAAATAAACAGAAATAATAAAAAT
Found at i:43081 original size:42 final size:43
Alignment explanation
Indices: 42994--43097 Score: 165
Period size: 42 Copynumber: 2.4 Consensus size: 43
42984 ACCAGCCGTC
**
42994 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAACAT
1 CCTTCGTTGTGAAGTTGAACTTACGTTGTCTCGAGTCCAACAT
* *
43037 CCTTCGTTGTGAAGTTGAAC-TACGTTGTCTGGAGTCCAATAT
1 CCTTCGTTGTGAAGTTGAACTTACGTTGTCTCGAGTCCAACAT
43079 CCTTCGTTGTGAAGTTGAA
1 CCTTCGTTGTGAAGTTGAA
43098 ATTGGCTCTG
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 37 0.65
43 20 0.35
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (43 bp):
CCTTCGTTGTGAAGTTGAACTTACGTTGTCTCGAGTCCAACAT
Found at i:43123 original size:148 final size:148
Alignment explanation
Indices: 42921--43203 Score: 440
Period size: 148 Copynumber: 1.9 Consensus size: 148
42911 CATTGTTCTA
* * *
42921 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGGTTGTTGACAAC
1 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGAAACCGAGAAATTGGTTATTGACAAC
* *
42986 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAACATCCTTCGTTGTGAAG
66 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAACATCCTTCGTTGTGAAG
43051 TTGAACTACGTTGTCTGG
131 TTGAACTACGTTGTCTGG
* * ** *
43069 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAAC
1 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGAAACCGAGAAATTGGTTATTGACAAC
* * * *
43134 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTTTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAACATCCTTCGTTGTGAAG
43199 TTGAA
131 TTGAA
43204 ATTGGCTCTG
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
148 121 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (148 bp):
AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGAAACCGAGAAATTGGTTATTGACAAC
CAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAACATCCTTCGTTGTGAAG
TTGAACTACGTTGTCTGG
Found at i:43221 original size:106 final size:106
Alignment explanation
Indices: 43037--43827 Score: 1440
Period size: 106 Copynumber: 7.5 Consensus size: 106
43027 AGTCCAACAT
* *
43037 CCTTCGTTGTGAAGTTGAAC-TACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
* *
43101 GGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTC
*
43142 CCTTCGTCGTGAAGTTGAACTTGCGTTGTTTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
43207 GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTC
*
43248 CCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
* *
43313 GGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTC
43354 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
43419 GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTC
43460 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
43525 GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTC
* *
43566 CCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
43631 GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTC
* *
43672 CCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
43737 GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTC
* * *
43778 CCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATTTTCTTCGT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
43828 GCTCATGGTT
Statistics
Matches: 668, Mismatches: 17, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
105 19 0.03
106 649 0.97
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (106 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
GGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTC
Found at i:47746 original size:25 final size:26
Alignment explanation
Indices: 47714--47768 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
47704 TATATAATAA
*
47714 AAAAATAAACAG-AAATAATAAAAAT
1 AAAAATAAACAGTAAAAAATAAAAAT
* *
47739 AAAAATAATCAGTAAAAAATAAAATT
1 AAAAATAAACAGTAAAAAATAAAAAT
47765 AAAA
1 AAAA
47769 GAATAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (26 bp):
AAAAATAAACAGTAAAAAATAAAAAT
Found at i:47823 original size:16 final size:16
Alignment explanation
Indices: 47804--47836 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
47794 AATATAACAC
47804 AAAAATAATATTAATAA
1 AAAAATAA-ATTAATAA
47821 AAAAATAAATTAATAA
1 AAAAATAAATTAATAA
47837 TATTAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAAATAAATTAATAA
Found at i:49708 original size:16 final size:17
Alignment explanation
Indices: 49687--49738 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
49677 TTTTTAATTT
49687 AATTACT-TAACTTTCA
1 AATTACTCTAACTTTCA
49703 AATTACTCCTAA-TTT--
1 AATTACT-CTAACTTTCA
*
49718 AATCACTCTAACTTTCA
1 AATTACTCTAACTTTCA
49735 AATT
1 AATT
49739 TATTTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.14
15 9 0.31
16 7 0.24
17 6 0.21
18 3 0.10
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTACTCTAACTTTCA
Found at i:51700 original size:16 final size:17
Alignment explanation
Indices: 51679--51730 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
51669 TTTTTAATTT
51679 AATTACT-TAACTTTCA
1 AATTACTCTAACTTTCA
51695 AATTACTCCTAA-TTT--
1 AATTACT-CTAACTTTCA
*
51710 AATCACTCTAACTTTCA
1 AATTACTCTAACTTTCA
51727 AATT
1 AATT
51731 TATTTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.14
15 9 0.31
16 7 0.24
17 6 0.21
18 3 0.10
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTACTCTAACTTTCA
Found at i:55525 original size:146 final size:146
Alignment explanation
Indices: 55362--55654 Score: 586
Period size: 146 Copynumber: 2.0 Consensus size: 146
55352 AGCTGGCTGC
55362 TTGTGGCTTAAGTAAATGAATAGTATCGCAAAAGGACCAAAGTGGGAATTTTACAATAGTCGAGA
1 TTGTGGCTTAAGTAAATGAATAGTATCGCAAAAGGACCAAAGTGGGAATTTTACAATAGTCGAGA
55427 GGCCAAAATAGGTAATAAACCCAAAAATAATGTTGTAGAGATGATCACTACAGATAATAAGGTTT
66 GGCCAAAATAGGTAATAAACCCAAAAATAATGTTGTAGAGATGATCACTACAGATAATAAGGTTT
55492 TCCTAACATGAAACAA
131 TCCTAACATGAAACAA
55508 TTGTGGCTTAAGTAAATGAATAGTATCGCAAAAGGACCAAAGTGGGAATTTTACAATAGTCGAGA
1 TTGTGGCTTAAGTAAATGAATAGTATCGCAAAAGGACCAAAGTGGGAATTTTACAATAGTCGAGA
55573 GGCCAAAATAGGTAATAAACCCAAAAATAATGTTGTAGAGATGATCACTACAGATAATAAGGTTT
66 GGCCAAAATAGGTAATAAACCCAAAAATAATGTTGTAGAGATGATCACTACAGATAATAAGGTTT
55638 TCCTAACATGAAACAA
131 TCCTAACATGAAACAA
55654 T
1 T
55655 CAATACTAAA
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
146 147 1.00
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (146 bp):
TTGTGGCTTAAGTAAATGAATAGTATCGCAAAAGGACCAAAGTGGGAATTTTACAATAGTCGAGA
GGCCAAAATAGGTAATAAACCCAAAAATAATGTTGTAGAGATGATCACTACAGATAATAAGGTTT
TCCTAACATGAAACAA
Found at i:58682 original size:22 final size:24
Alignment explanation
Indices: 58638--58684 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
58628 GGGCTAGTTT
*
58638 GAGAAGAAACCAACGAAGCAAACAA
1 GAGAAGAAACCAAC-AAGAAAACAA
58663 GAGAAG-AACCAA-AAGAAAACAA
1 GAGAAGAAACCAACAAGAAAACAA
58685 CCCAAGAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
24 6 0.29
25 6 0.29
ACGTcount: A:0.64, C:0.17, G:0.19, T:0.00
Consensus pattern (24 bp):
GAGAAGAAACCAACAAGAAAACAA
Found at i:59174 original size:3 final size:3
Alignment explanation
Indices: 59168--59223 Score: 67
Period size: 3 Copynumber: 17.0 Consensus size: 3
59158 AACCCCCAGG
59168 TCT TCT TCT TCT TCT TCT TCTT TCTT TCTT TCT TCTT TCT TCT TCCT
1 TCT TCT TCT TCT TCT TCT TC-T TC-T TC-T TCT TC-T TCT TCT T-CT
59215 TCT TCT TCT
1 TCT TCT TCT
59224 GAACTTTTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
3 33 0.66
4 17 0.34
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:59203 original size:7 final size:7
Alignment explanation
Indices: 59170--59223 Score: 69
Period size: 7 Copynumber: 8.0 Consensus size: 7
59160 CCCCCAGGTC
59170 TTCTTC-
1 TTCTTCT
59176 TTCTTC-
1 TTCTTCT
59182 TTCTTCT
1 TTCTTCT
59189 TTCTTTCT
1 TTC-TTCT
59197 TTCTTCT
1 TTCTTCT
59204 TTCTTCT
1 TTCTTCT
*
59211 TCCTTC-
1 TTCTTCT
59217 TTCTTCT
1 TTCTTCT
59224 GAACTTTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
6 17 0.40
7 19 0.44
8 7 0.16
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (7 bp):
TTCTTCT
Found at i:59287 original size:21 final size:22
Alignment explanation
Indices: 59228--59292 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 22
59218 TCTTCTGAAC
*
59228 TTTTAAAATTATATTTGTATAAT
1 TTTTAAAATTATATATGTAT-AT
*
59251 TTTGTATAATGTTATATATGTAT-T
1 TTT-TA-AA-ATTATATATGTATAT
59275 TTTTAAAATTATATATGT
1 TTTTAAAATTATATATGT
59293 CCAAGCAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
21 10 0.28
22 2 0.06
23 5 0.14
24 6 0.17
25 2 0.06
26 11 0.31
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (22 bp):
TTTTAAAATTATATATGTATAT
Found at i:62731 original size:17 final size:17
Alignment explanation
Indices: 62711--62755 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
62701 TAAAATATAA
62711 AAATATTCAAAAATT-TT
1 AAATA-TCAAAAATTATT
*
62728 AAATATCTAAAATTATT
1 AAATATCAAAAATTATT
62745 AAA-AT-AAAAAT
1 AAATATCAAAAAT
62756 ACTATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 5 0.20
16 10 0.40
17 10 0.40
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATCAAAAATTATT
Found at i:62773 original size:44 final size:44
Alignment explanation
Indices: 62691--62774 Score: 111
Period size: 44 Copynumber: 1.9 Consensus size: 44
62681 TTAAAAATAA
62691 TAAAATAATATAAAATATAAAAATATTCAAAAATTTTAAATATC
1 TAAAATAATATAAAATATAAAAATATTCAAAAATTTTAAATATC
*
62735 TAAAATTAT-TAAAATA-AAAATACTATT-AAAAACTTTTAAA
1 TAAAATAATATAAAATATAAAA-A-TATTCAAAAA-TTTTAAA
62775 AAAATAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
42 4 0.11
43 13 0.36
44 19 0.53
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.35
Consensus pattern (44 bp):
TAAAATAATATAAAATATAAAAATATTCAAAAATTTTAAATATC
Found at i:67475 original size:50 final size:50
Alignment explanation
Indices: 67417--67517 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
67407 CCTCGCGTCC
67417 TCCAATCTGGTGAAGCGAACAAAGCCAAACCTACTTCCTCCCTTGCTTCT
1 TCCAATCTGGTGAAGCGAACAAAGCCAAACCTACTTCCTCCCTTGCTTCT
67467 TCCAATCTGGTGAAGCGAACAAAGCCAAACCTACTTCCTCCCTTGCTTCT
1 TCCAATCTGGTGAAGCGAACAAAGCCAAACCTACTTCCTCCCTTGCTTCT
67517 T
1 T
67518 TTGTTAGGGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.26, C:0.34, G:0.14, T:0.27
Consensus pattern (50 bp):
TCCAATCTGGTGAAGCGAACAAAGCCAAACCTACTTCCTCCCTTGCTTCT
Found at i:67836 original size:44 final size:44
Alignment explanation
Indices: 67770--67870 Score: 105
Period size: 44 Copynumber: 2.3 Consensus size: 44
67760 GGGAAGATCG
* * * * *
67770 ATGAGTGTAAGTGTGGATATCCAA-TTTTGAAATGGATTGAAGCT
1 ATGAGAGTGAGTGTGGACATCCAACTTTT-AAATGAATTGAAGCA
* * *
67814 ATGAGCGTGAGTGTGTACATCCAACTTTTACATGAATTGAAGCA
1 ATGAGAGTGAGTGTGGACATCCAACTTTTAAATGAATTGAAGCA
*
67858 ACGAGAGTGAGTG
1 ATGAGAGTGAGTG
67871 CAGATACCAA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 43 0.91
45 4 0.09
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.30
Consensus pattern (44 bp):
ATGAGAGTGAGTGTGGACATCCAACTTTTAAATGAATTGAAGCA
Found at i:75413 original size:20 final size:20
Alignment explanation
Indices: 75377--75422 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
75367 TGATTGTTCT
75377 TAAA-ATATTATAATTTTTA
1 TAAATATATTATAATTTTTA
75396 TAAATATATT-TAATTTTT-
1 TAAATATATTATAATTTTTA
*
75414 TAAAAATAT
1 TAAATATAT
75423 CGTTAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 8 0.32
19 12 0.48
20 5 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TAAATATATTATAATTTTTA
Found at i:75428 original size:20 final size:19
Alignment explanation
Indices: 75378--75422 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
75368 GATTGTTCTT
75378 AAAATATTATAATTTTTATA
1 AAAATATT-TAATTTTTATA
*
75398 AATATATTTAATTTTT-TA
1 AAAATATTTAATTTTTATA
75416 AAAATAT
1 AAAATAT
75423 CGTTAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
19 8 0.35
20 7 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAAATATTTAATTTTTATA
Found at i:76620 original size:21 final size:21
Alignment explanation
Indices: 76596--76635 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
76586 ATATTTAAAT
76596 GACTTTAAA-CTTTAAATTTTG
1 GACTTTAAATC-TTAAATTTTG
76617 GACTTTAAATCTTAAATTT
1 GACTTTAAATCTTAAATTT
76636 AGACCCTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (21 bp):
GACTTTAAATCTTAAATTTTG
Found at i:78032 original size:3 final size:3
Alignment explanation
Indices: 78024--78051 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
78014 AAAACATCAT
78024 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
78052 TTATTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:80222 original size:18 final size:18
Alignment explanation
Indices: 80201--80247 Score: 62
Period size: 16 Copynumber: 2.7 Consensus size: 18
80191 GAGAATATAT
80201 AAAAAATTAAAAGTGTTA
1 AAAAAATTAAAAGTGTTA
*
80219 AAAAAA-T-AATGTGTTA
1 AAAAAATTAAAAGTGTTA
80235 AAAAAACTTAAAA
1 AAAAAA-TTAAAA
80248 AATTGAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 14 0.58
17 1 0.04
18 7 0.29
19 2 0.08
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.26
Consensus pattern (18 bp):
AAAAAATTAAAAGTGTTA
Found at i:98085 original size:22 final size:20
Alignment explanation
Indices: 98050--98101 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
98040 AAACGCGTTG
*
98050 AATATTGAACGATTCAATATTC
1 AATATTAAACGATT--ATATTC
*
98072 AATATTAAATGATTATATTC
1 AATATTAAACGATTATATTC
*
98092 AAAATTAAAC
1 AATATTAAAC
98102 AAACAGCCCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 14 0.54
22 12 0.46
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.37
Consensus pattern (20 bp):
AATATTAAACGATTATATTC
Found at i:98638 original size:38 final size:35
Alignment explanation
Indices: 98565--98638 Score: 85
Period size: 38 Copynumber: 2.0 Consensus size: 35
98555 TACTATAATT
**
98565 AATTTATATATTTTCTTTAAAAATTAAATTCATAA
1 AATTTATATATTTTCTTTAAAAATTAAAAACATAA
* *
98600 AATTTATATAATTTTTTTTTACAAAATTAAAAAGATAA
1 AATTTATAT-A-TTTTCTTTA-AAAATTAAAAACATAA
98638 A
1 A
98639 TAGGTTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
35 9 0.28
36 1 0.03
37 8 0.25
38 14 0.44
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (35 bp):
AATTTATATATTTTCTTTAAAAATTAAAAACATAA
Found at i:99411 original size:14 final size:14
Alignment explanation
Indices: 99394--99431 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
99384 TAAATATTAT
99394 AAAATAATTTAATA
1 AAAATAATTTAATA
99408 AAAATAATTTAATA
1 AAAATAATTTAATA
99422 AAAATAATTT
1 AAAATAATTT
99432 TTAATTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATAATTTAATA
Found at i:100054 original size:35 final size:35
Alignment explanation
Indices: 100004--100080 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 35
99994 CAAAAAGTTT
* *
100004 ATTACTAAACTTTATATAACTGTATAATAACTTAA
1 ATTATTAAACTTTATATAACTATATAATAACTTAA
*
100039 ATTATTAAAGTTTATATAACTATATAATAACTTAA
1 ATTATTAAACTTTATATAACTATATAATAACTTAA
100074 ATTATTA
1 ATTATTA
100081 TATGATAACT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.43
Consensus pattern (35 bp):
ATTATTAAACTTTATATAACTATATAATAACTTAA
Found at i:100088 original size:20 final size:20
Alignment explanation
Indices: 100059--100099 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
100049 TTTATATAAC
100059 TATATAATAACTTAAATTAT
1 TATATAATAACTTAAATTAT
* *
100079 TATATGATAACTTATATTAT
1 TATATAATAACTTAAATTAT
100099 T
1 T
100100 GTTTATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (20 bp):
TATATAATAACTTAAATTAT
Found at i:103237 original size:30 final size:31
Alignment explanation
Indices: 103202--103263 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
103192 TTTTATATAT
* *
103202 TATTCAACGAGTTTAAAGTTCAAATT-TCAA
1 TATTCAACAAGGTTAAAGTTCAAATTATCAA
**
103232 TATTCAACAAGGTTGCAGTTCAAATTATCAA
1 TATTCAACAAGGTTAAAGTTCAAATTATCAA
103263 T
1 T
103264 TTTATTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (31 bp):
TATTCAACAAGGTTAAAGTTCAAATTATCAA
Found at i:105181 original size:2 final size:2
Alignment explanation
Indices: 105174--105252 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
105164 ATGTCAATGT
105174 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
105216 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
105253 TTAAGATCAT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:105431 original size:2 final size:2
Alignment explanation
Indices: 105419--105454 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
105409 CGGTCCTATC
*
105419 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
105455 CATTTGAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:110512 original size:11 final size:11
Alignment explanation
Indices: 110496--110525 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
110486 AGATTTATTA
110496 TTTAAATTTAT
1 TTTAAATTTAT
110507 TTTAAATTTAT
1 TTTAAATTTAT
110518 TTATAAAT
1 TT-TAAAT
110526 AAAAATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:111678 original size:20 final size:21
Alignment explanation
Indices: 111653--111745 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
111643 TTTTCCCAAT
*
111653 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
111673 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
111694 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
111714 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
111735 TCGCAATGCGA
1 TCGCAATGCGA
111746 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:111698 original size:41 final size:41
Alignment explanation
Indices: 111653--111745 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
111643 TTTTCCCAAT
111653 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
111694 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
111735 TCGCAATGCGA
1 TCGCAATGCGA
111746 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:111758 original size:41 final size:41
Alignment explanation
Indices: 111672--111806 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
111662 GAATAAGTAA
* *
111672 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
111713 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
111754 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
111795 TTCGCAACGCGA
1 ATCGCAACGCGA
111807 TACTGTCTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:111759 original size:20 final size:20
Alignment explanation
Indices: 111734--111828 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
111724 AATTGGGAAA
*
111734 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
111754 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
111775 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
111795 TTCGCAACGCGATACTGTCT
1 ATCGCAACGCGATACTGACT
*
111815 TTCGCAACGCGATA
1 ATCGCAACGCGATA
111829 ATACATAATC
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
20 46 0.77
21 14 0.23
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:112043 original size:22 final size:22
Alignment explanation
Indices: 112015--112058 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
112005 CACTCTCTCA
112015 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
112037 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
112059 TATCTAAATC
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:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:112347 original size:20 final size:20
Alignment explanation
Indices: 112322--112359 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
112312 CGATTCTCTC
112322 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
112342 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
112360 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:113698 original size:18 final size:18
Alignment explanation
Indices: 113677--113721 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
113667 TCCACTTCGG
*
113677 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
113695 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
113713 GAGCCATCA
1 GAGCCATCA
113722 TCTGATCGAC
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:114251 original size:19 final size:20
Alignment explanation
Indices: 114208--114252 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
114198 CGCAACACGA
114208 AAATGACTATCACAACGCGG
1 AAATGACTATCACAACGCGG
* * *
114228 AAATGGCTATCGCAATGC-G
1 AAATGACTATCACAACGCGG
114247 AAATGA
1 AAATGA
114253 AAATCGCAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (20 bp):
AAATGACTATCACAACGCGG
Found at i:114271 original size:14 final size:14
Alignment explanation
Indices: 114252--114309 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
114242 ATGCGAAATG
114252 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
114266 AAAATCGCAATACGAA
1 AAAATCGC-A-ACGAC
114282 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
114298 AAAATCGCAACG
1 AAAATCGCAACG
114310 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 19 0.50
15 1 0.03
16 10 0.26
17 1 0.03
18 7 0.18
ACGTcount: A:0.50, C:0.24, G:0.16, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:114294 original size:32 final size:33
Alignment explanation
Indices: 114236--114326 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
114226 GGAAATGGCT
114236 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
114269 ATCGCAATACGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
114301 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
114327 TGCGATTTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:114383 original size:19 final size:19
Alignment explanation
Indices: 114357--114423 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
114347 GCGATTTTGT
**
114357 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
114376 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
114396 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
114415 CGTTGCGAT
1 CGTTGCGAT
114424 TTTAAGTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:114403 original size:20 final size:19
Alignment explanation
Indices: 114369--114423 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
114359 TTGCGATTTT
*
114369 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
114388 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
114408 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
114424 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:117009 original size:24 final size:24
Alignment explanation
Indices: 116982--117035 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
116972 GTATTCGAAA
* *
116982 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
117006 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
117030 TTTGAT
1 TTTGAT
117036 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:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:117227 original size:12 final size:12
Alignment explanation
Indices: 117210--117234 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
117200 ATATAATCCT
117210 GAAGAAGAAAAA
1 GAAGAAGAAAAA
117222 GAAGAAGAAAAA
1 GAAGAAGAAAAA
117234 G
1 G
117235 TCCCCAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:119546 original size:19 final size:19
Alignment explanation
Indices: 119524--119621 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
119514 GGAAATTACT
119524 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
119543 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
119557 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
119576 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
119590 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
119609 ATCGCAACGCGAA
1 ATCGCAATGCGAA
119622 TTTAATTTCG
Statistics
Matches: 60, Mismatches: 9, Indels: 20
0.67 0.10 0.22
Matches are distributed among these distances:
14 18 0.30
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 30 0.50
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:119624 original size:33 final size:33
Alignment explanation
Indices: 119525--119624 Score: 157
Period size: 33 Copynumber: 3.0 Consensus size: 33
119515 GAAATTACTA
* *
119525 TCGCAATGCGAAATGAAAATCGCAACGAGAGA-A
1 TCGCAATGCGAAATGAAAATCGCAACGCGA-ATT
*
119558 TCGCAATGCGAAATGAAAATCGCAACGCTAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
119591 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
119624 T
1 T
119625 AATTTCGCGT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
32 1 0.02
33 61 0.98
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGCGAATT
Found at i:119819 original size:14 final size:14
Alignment explanation
Indices: 119800--119836 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
119790 CATCAATTAA
119800 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
119814 ACAAATCACCTTTT
1 ACAAATCAACTTTT
119828 ACAAATCAA
1 ACAAATCAA
119837 TTAAACAATC
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:121260 original size:21 final size:21
Alignment explanation
Indices: 121194--121260 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
121184 GTGAATCGGG
*
121194 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
121214 CCTCTTTAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
121236 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
121257 CTCT
1 CTCT
121261 CAAGGAATGA
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:0.19, G:0.36, T:0.25
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:121279 original size:42 final size:41
Alignment explanation
Indices: 121194--121316 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
121184 GTGAATCGGG
* * * *
121194 CTCTTGAATGGTGGGA-GGGACCTCTTTAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TTAAGGATGATAGGGGC
*
121236 CTCTTGAACGGTGGGAGGGGACTCTCAAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTTAAGG-ATGATAGGGGC
* * * * *
121278 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTT-AAGGATGATAGG
121317 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 56 0.84
43 7 0.10
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.24
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTTAAGGATGATAGGGGC
Found at i:123379 original size:33 final size:33
Alignment explanation
Indices: 123322--123407 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 33
123312 ACGAGATAAT
**
123322 GAGAATCGCAACGCGGAAATGACTATCGCAATGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
123356 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
*
123389 GATAATCGCAACGCGAAAT
1 GAGAATCGCAACGCGAAAT
123408 AAAAATCACA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
33 34 0.71
34 14 0.29
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.14
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:123414 original size:19 final size:19
Alignment explanation
Indices: 123392--123461 Score: 113
Period size: 19 Copynumber: 3.7 Consensus size: 19
123382 GCGACCAGAT
*
123392 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAA
*
123411 AATCACAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
123430 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
123449 AATCGCAATGCGA
1 AATCGCAACGCGA
123462 TTTTGGTTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.49, C:0.21, G:0.19, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:124113 original size:21 final size:21
Alignment explanation
Indices: 124084--124179 Score: 106
Period size: 20 Copynumber: 4.7 Consensus size: 21
124074 ATAGTCAGTA
124084 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
124105 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
124125 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
124146 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
124166 TCGCATTGCGATTT
1 TCGCATTGCGATTT
124180 GAGAAAATCG
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
20 32 0.53
21 28 0.47
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.42
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:124114 original size:41 final size:41
Alignment explanation
Indices: 124084--124179 Score: 156
Period size: 41 Copynumber: 2.3 Consensus size: 41
124074 ATAGTCAGTA
* *
124084 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
* *
124125 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
124166 TCGCATTGCGATTT
1 TCGCATTGCGATTT
124180 GAGAAAATCG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.42
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:130635 original size:19 final size:19
Alignment explanation
Indices: 130595--130641 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
130585 ATGAATTGTT
* *
130595 TTTAATAATTTTATTTTAA
1 TTTAATAATCTAATTTTAA
130614 TTTAATAATCTAATATTT-A
1 TTTAATAATCTAAT-TTTAA
*
130633 TTTATTAAT
1 TTTAATAAT
130642 ATCTATTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 21 0.88
20 3 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTAATAATCTAATTTTAA
Found at i:133424 original size:15 final size:17
Alignment explanation
Indices: 133406--133444 Score: 64
Period size: 15 Copynumber: 2.4 Consensus size: 17
133396 ATAGAAAATA
133406 TTAAAATATAT-AT-AT
1 TTAAAATATATAATAAT
133421 TTAAAATATATAATAAT
1 TTAAAATATATAATAAT
133438 TTAAAAT
1 TTAAAAT
133445 TTTATAAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 11 0.50
16 2 0.09
17 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAAATATATAATAAT
Found at i:136425 original size:2 final size:2
Alignment explanation
Indices: 136418--136459 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
136408 AAATAATTGA
136418 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
136460 TTCTTAGGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:138381 original size:25 final size:24
Alignment explanation
Indices: 138353--138416 Score: 82
Period size: 25 Copynumber: 2.8 Consensus size: 24
138343 GTTTAATACT
138353 TTATAATTTAATGATGTTTTATAA
1 TTATAATTTAATGATGTTTTATAA
138377 GTTATAATTTAAT-A--TTTTATAA
1 -TTATAATTTAATGATGTTTTATAA
*
138399 AT-TAATTTAATGATGTTT
1 TTATAATTTAATGATGTTT
138417 CTGGTTAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
20 9 0.26
21 2 0.06
22 8 0.23
23 3 0.09
24 1 0.03
25 12 0.34
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.55
Consensus pattern (24 bp):
TTATAATTTAATGATGTTTTATAA
Found at i:143631 original size:198 final size:201
Alignment explanation
Indices: 143330--143720 Score: 594
Period size: 197 Copynumber: 1.9 Consensus size: 201
143320 TCTTTGGTTC
143330 GATCCTGCTGATGATTTCCATCAGTACACCATTCTCTGGACTGATTCTCACATCATGTAAGCATC
1 GATCCTGCTGATGATTTCCATCAGTACACCATTCTCTGGACTGA---T-ACATCATGTAAGCATC
* *
143395 GAAAATCTATGCCCAAGTAACTCGTATTCAATGAACATGGATACCGGAATATTACGCTTTAAAGA
62 GAAAATCTATGCCCAAGTAACTCGTATTCAACGAACATGGATACCGGAATATTAC-CCTTAAAGA
** * **
143460 TCCTCCGAATACATGTGTTGAGACTCGCATCTCGAGTCCGAATATCATAGGCTCTCACCATCTCA
126 TCCTCCGAATACATGTGTCCAGACTCGCATCCCGAGTCCGAATATCATACACTCTCACCATCTCA
143525 TTCTGTCCTAT
191 TTCTGTCCTAT
* *
143536 GATCCTGCTGATGATTTCCATCAGCT-CGCCATTCTCTGGACT-A-A-A-CATGTAAGCGTCGAA
1 GATCCTGCTGATGATTTCCATCAG-TACACCATTCTCTGGACTGATACATCATGTAAGCATCGAA
*
143596 AATCTATGCCCAAGTAACTCGTATTCAACGAACATGGATACGGGAATATTACCCTTAAAGATCCT
65 AATCTATGCCCAAGTAACTCGTATTCAACGAACATGGATACCGGAATATTACCCTTAAAGATCCT
*
143661 CCGAATACATGTGTCCAGACTCGCATCCCGAGTCCGAATATCATACACTCTCACTATCTC
130 CCGAATACATGTGTCCAGACTCGCATCCCGAGTCCGAATATCATACACTCTCACCATCTC
143721 TCCTATAATT
Statistics
Matches: 173, Mismatches: 11, Indels: 11
0.89 0.06 0.06
Matches are distributed among these distances:
197 66 0.38
198 64 0.37
199 1 0.01
200 1 0.01
205 1 0.01
206 39 0.23
207 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (201 bp):
GATCCTGCTGATGATTTCCATCAGTACACCATTCTCTGGACTGATACATCATGTAAGCATCGAAA
ATCTATGCCCAAGTAACTCGTATTCAACGAACATGGATACCGGAATATTACCCTTAAAGATCCTC
CGAATACATGTGTCCAGACTCGCATCCCGAGTCCGAATATCATACACTCTCACCATCTCATTCTG
TCCTAT
Found at i:150710 original size:43 final size:43
Alignment explanation
Indices: 150649--150735 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
150639 TATTCCCTGG
150649 AATTATACCTTTGAAAGACGTAACTGACAACTGGAAATACTGC
1 AATTATACCTTTGAAAGACGTAACTGACAACTGGAAATACTGC
150692 AATTATACCTTTGAAAGACGTAACTGACAACTGGAAATACTGC
1 AATTATACCTTTGAAAGACGTAACTGACAACTGGAAATACTGC
150735 A
1 A
150736 GACATTCAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.25
Consensus pattern (43 bp):
AATTATACCTTTGAAAGACGTAACTGACAACTGGAAATACTGC
Found at i:150728 original size:21 final size:21
Alignment explanation
Indices: 150661--150728 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
150651 TTATACCTTT
150661 GAAAGACGTAACTGACAACTG
1 GAAAGACGTAACTGACAACTG
* * * * * *
150682 GAAATACTGCAA-TTATACCTTT
1 GAAAGAC-GTAACTGACAAC-TG
150704 GAAAGACGTAACTGACAACTG
1 GAAAGACGTAACTGACAACTG
150725 GAAA
1 GAAA
150729 TACTGCAGAC
Statistics
Matches: 32, Mismatches: 12, Indels: 6
0.64 0.24 0.12
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.21
Consensus pattern (21 bp):
GAAAGACGTAACTGACAACTG
Found at i:160016 original size:95 final size:95
Alignment explanation
Indices: 159853--160043 Score: 382
Period size: 95 Copynumber: 2.0 Consensus size: 95
159843 TCTGGAGAAA
159853 CAACCGGTAACATGTTGAAAAGTTCTTCCCTCTGGCCAATCCATCTATTCTTAACATAATTCATG
1 CAACCGGTAACATGTTGAAAAGTTCTTCCCTCTGGCCAATCCATCTATTCTTAACATAATTCATG
159918 GGGATAGAAGCCTCTGAAACAACACGGTCC
66 GGGATAGAAGCCTCTGAAACAACACGGTCC
159948 CAACCGGTAACATGTTGAAAAGTTCTTCCCTCTGGCCAATCCATCTATTCTTAACATAATTCATG
1 CAACCGGTAACATGTTGAAAAGTTCTTCCCTCTGGCCAATCCATCTATTCTTAACATAATTCATG
160013 GGGATAGAAGCCTCTGAAACAACACGGTCC
66 GGGATAGAAGCCTCTGAAACAACACGGTCC
160043 C
1 C
160044 GTGATTGAAA
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (95 bp):
CAACCGGTAACATGTTGAAAAGTTCTTCCCTCTGGCCAATCCATCTATTCTTAACATAATTCATG
GGGATAGAAGCCTCTGAAACAACACGGTCC
Found at i:162309 original size:17 final size:16
Alignment explanation
Indices: 162271--162306 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
162261 AAAACTGTTA
162271 GAAAGAGAAAGCAAAAG
1 GAAAGAGAAA-CAAAAG
162288 GAAAGAGAAA-AAAAG
1 GAAAGAGAAACAAAAG
162303 GAAA
1 GAAA
162307 AAGGATGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.47
17 10 0.53
ACGTcount: A:0.69, C:0.03, G:0.28, T:0.00
Consensus pattern (16 bp):
GAAAGAGAAACAAAAG
Found at i:162749 original size:20 final size:20
Alignment explanation
Indices: 162644--162751 Score: 87
Period size: 20 Copynumber: 5.3 Consensus size: 20
162634 GTTTCTGCAA
*
162644 TCGCAACGCGAATTTCT-TT
1 TCGCAACGCGAATTTCTAAT
*
162663 CTCGCAACGCG-ATTTCCAAAT
1 -TCGCAACGCGAATTT-CTAAT
* *
162684 TCGCAACACAGAATTTCAAAT
1 TCGCAACGC-GAATTTCTAAT
*
162705 TCGCAACTCG-ATTTCTGAAT
1 TCGCAACGCGAATTTCT-AAT
* **
162725 ACGCAACGCGAATTTCTTTT
1 TCGCAACGCGAATTTCTAAT
162745 TCGCAAC
1 TCGCAAC
162752 ATAAGTTTCT
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
19 9 0.12
20 38 0.53
21 21 0.29
22 4 0.06
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.30
Consensus pattern (20 bp):
TCGCAACGCGAATTTCTAAT
Found at i:162761 original size:41 final size:38
Alignment explanation
Indices: 162623--162761 Score: 107
Period size: 41 Copynumber: 3.4 Consensus size: 38
162613 AGTTTCTAAA
162623 TTCGCAACTTAGTTTCTGCAATCGCAACGCGAATTTCTTT
1 TTCGCAAC-TAGTTTCTG-AATCGCAACGCGAATTTCTTT
* ** ** * ***
162663 CTCGCAACGCGATTTCCAAATTCGCAACACAGAATTTCAAA
1 TTCGCAACTAG-TTTCTGAA-TCGCAACGC-GAATTTCTTT
*
162704 TTCGCAACTCGATTTCTGAATACGCAACGCGAATTTCTTT
1 TTCGCAACTAG-TTTCTGAAT-CGCAACGCGAATTTCTTT
162744 TTCGCAACATAAGTTTCT
1 TTCGCAAC-T-AGTTTCT
162762 TTTTCGCAAC
Statistics
Matches: 75, Mismatches: 18, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
39 3 0.04
40 35 0.47
41 36 0.48
42 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (38 bp):
TTCGCAACTAGTTTCTGAATCGCAACGCGAATTTCTTT
Found at i:162768 original size:81 final size:81
Alignment explanation
Indices: 162607--162791 Score: 204
Period size: 81 Copynumber: 2.3 Consensus size: 81
162597 TCTAATTTTA
*
162607 CAACACAG-TTTCTAAATTCGCAACTTAGTTTCTGCAATCGCAACGCGAATTTCTTTCTCGCAAC
1 CAACACAGATTTCTAAATTCGCAACTGAGTTTCTGCAATCGCAACGCGAATTTCTTTCTCGCAAC
* *
162671 GCGATTTCCAAATTCG
66 ACAATTTCCAAATTCG
*
162687 CAACACAGAATTTC-AAATTCGCAACTCGA-TTTCTG-AATACGCAACGCGAATTTCTTTTTCGC
1 CAACACAG-ATTTCTAAATTCGCAACT-GAGTTTCTGCAAT-CGCAACGCGAATTTCTTTCTCGC
* ***
162749 AACATAAGTTT-CTTTTTCG
63 AACACAA-TTTCCAAATTCG
162768 CAACA-AGATTTTCTAAA-TCGCAAC
1 CAACACAGA-TTTCTAAATTCGCAAC
162792 ACGAATTTTG
Statistics
Matches: 90, Mismatches: 8, Indels: 14
0.80 0.07 0.12
Matches are distributed among these distances:
79 1 0.01
80 24 0.27
81 57 0.63
82 8 0.09
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (81 bp):
CAACACAGATTTCTAAATTCGCAACTGAGTTTCTGCAATCGCAACGCGAATTTCTTTCTCGCAAC
ACAATTTCCAAATTCG
Found at i:162806 original size:40 final size:40
Alignment explanation
Indices: 162762--162852 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 40
162752 ATAAGTTTCT
* *
162762 TTTTCGCAACAAGATTTTCTAAATCGCAACACGAATTTTG
1 TTTTCGCAACAAGATTTTCGAAATCGCAACACGAATTTTA
* ** * *
162802 TTTTCCCAACTCGATTTTCGAATTCGCAATACGAATTTTA
1 TTTTCGCAACAAGATTTTCGAAATCGCAACACGAATTTTA
*
162842 ATTTCGCAACA
1 TTTTCGCAACA
162853 GCTTTTATTT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (40 bp):
TTTTCGCAACAAGATTTTCGAAATCGCAACACGAATTTTA
Found at i:163026 original size:14 final size:15
Alignment explanation
Indices: 163007--163044 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
162997 TCCCCATCTC
163007 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
163021 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
163037 TAATTTTT
1 TAATTTTT
163045 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:166111 original size:12 final size:12
Alignment explanation
Indices: 166094--166128 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
166084 AAGCAAAAGG
166094 AAATCGAAATCA
1 AAATCGAAATCA
*
166106 AAATCGTAATCA
1 AAATCGAAATCA
*
166118 AAATCAAAATC
1 AAATCGAAATC
166129 CCAATCACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.57, C:0.17, G:0.06, T:0.20
Consensus pattern (12 bp):
AAATCGAAATCA
Found at i:166134 original size:18 final size:18
Alignment explanation
Indices: 166095--166135 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
166085 AGCAAAAGGA
* **
166095 AATCGAAATCAAAATCGT
1 AATCAAAATCAAAATCCC
166113 AATCAAAATCAAAATCCC
1 AATCAAAATCAAAATCCC
166131 AATCA
1 AATCA
166136 CAACCGGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.22, G:0.05, T:0.20
Consensus pattern (18 bp):
AATCAAAATCAAAATCCC
Found at i:166404 original size:20 final size:20
Alignment explanation
Indices: 166378--166520 Score: 180
Period size: 20 Copynumber: 7.1 Consensus size: 20
166368 CGATTGTTGC
*
166378 AAAAGTCAAATTCGAAACGCG
1 AAAA-TCAAATTCGCAACGCG
* *
166399 AAAGTCAAATTCGAAACGCG
1 AAAATCAAATTCGCAACGCG
* *
166419 AAAGTCAAATTCGCAATGCG
1 AAAATCAAATTCGCAACGCG
*
166439 AAAATCAAATTCGCAACACG
1 AAAATCAAATTCGCAACGCG
*
166459 AAAATCAAATTCGCAACACG
1 AAAATCAAATTCGCAACGCG
166479 AAAATCAAATTCG-ACACGCG
1 AAAATCAAATTCGCA-ACGCG
* *
166499 AAAATAAAAATCGCAACGCG
1 AAAATCAAATTCGCAACGCG
166519 AA
1 AA
166521 TTTGACTTTC
Statistics
Matches: 111, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
19 1 0.01
20 106 0.95
21 4 0.04
ACGTcount: A:0.48, C:0.22, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAATCAAATTCGCAACGCG
Found at i:170246 original size:20 final size:20
Alignment explanation
Indices: 170210--170248 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
170200 TCGCATTGCG
**
170210 ATTTTCGTGTTTTGAATTTC
1 ATTTTCGTGTTGAGAATTTC
170230 ATTTTCGTGTTGAGAATTT
1 ATTTTCGTGTTGAGAATTT
170249 AAGTTTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.08, G:0.18, T:0.56
Consensus pattern (20 bp):
ATTTTCGTGTTGAGAATTTC
Found at i:170255 original size:20 final size:20
Alignment explanation
Indices: 170212--170255 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
170202 GCATTGCGAT
** * *
170212 TTTCGTGTTTTGAATTTCAT
1 TTTCGTGTTGAGAATTTAAG
170232 TTTCGTGTTGAGAATTTAAG
1 TTTCGTGTTGAGAATTTAAG
170252 TTTC
1 TTTC
170256 AAAAACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.18, C:0.09, G:0.18, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGAGAATTTAAG
Found at i:170904 original size:22 final size:20
Alignment explanation
Indices: 170878--170927 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 20
170868 CAGAAACTGA
170878 GTTGCGAATTTAGGAAATTCT
1 GTTGCGAATTT-GGAAATTCT
*
170899 CGTTGCGAATTTGGAAATTGT
1 -GTTGCGAATTTGGAAATTCT
170920 GTTGCGAA
1 GTTGCGAA
170928 ATTGAAGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 8 0.30
21 8 0.30
22 11 0.41
ACGTcount: A:0.26, C:0.10, G:0.28, T:0.36
Consensus pattern (20 bp):
GTTGCGAATTTGGAAATTCT
Found at i:171823 original size:23 final size:23
Alignment explanation
Indices: 171774--171823 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
171764 TCATACATAG
* * *
171774 AATATCAATATATATATATATAT
1 AATATCAATACATATATAAATAA
171797 AATATCAATTACATATA-AAATAA
1 AATATCAA-TACATATATAAATAA
171820 AATA
1 AATA
171824 AAATATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (23 bp):
AATATCAATACATATATAAATAA
Found at i:177506 original size:36 final size:36
Alignment explanation
Indices: 177459--177529 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
177449 ATCGATGTAA
*
177459 CAGAAACCTGTGTAATACCAGATTGAAGCTAAAAAC
1 CAGAAACCTGTGTAATACCAGATTGAAGCAAAAAAC
177495 CAGAAACCTGTGTAATACCAGATTGAAGCAAAAAA
1 CAGAAACCTGTGTAATACCAGATTGAAGCAAAAAA
177530 AAAAAACCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.18, G:0.17, T:0.18
Consensus pattern (36 bp):
CAGAAACCTGTGTAATACCAGATTGAAGCAAAAAAC
Found at i:179820 original size:30 final size:30
Alignment explanation
Indices: 179802--179863 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
179792 ATCAATTTAG
179802 TCATACTTCTAAATAATTCAATAAACTTAA
1 TCATACTTCTAAATAATTCAATAAACTTAA
179832 TCATACTTCTAAATAATTCAATAAACTTAA
1 TCATACTTCTAAATAATTCAATAAACTTAA
179862 TC
1 TC
179864 CTACATATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (30 bp):
TCATACTTCTAAATAATTCAATAAACTTAA
Found at i:183553 original size:21 final size:21
Alignment explanation
Indices: 183528--183571 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
183518 AACATATTTA
* *
183528 TAATT-TTATATATACTCGATT
1 TAATTATTACATAT-CTCAATT
183549 TAATTATTACATATCTCAATT
1 TAATTATTACATATCTCAATT
183570 TA
1 TA
183572 TAGAACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.50
Consensus pattern (21 bp):
TAATTATTACATATCTCAATT
Found at i:202779 original size:22 final size:22
Alignment explanation
Indices: 202738--202780 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
202728 TCATTGCATA
202738 AAAATTAAACAGTTATAACTCCT
1 AAAATTAAACAG-TATAACTCCT
202761 AAAATTAAATCA-TATAACTC
1 AAAATTAAA-CAGTATAACTC
202781 ATGTAACTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.42
23 9 0.47
24 2 0.11
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAATTAAACAGTATAACTCCT
Found at i:206810 original size:22 final size:22
Alignment explanation
Indices: 206785--206838 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
206775 AGTGACAAGA
206785 TCCTTATCTTTAGGATTTGGAT
1 TCCTTATCTTTAGGATTTGGAT
*
206807 TCCTTATCTTTAGGATTTGGGT
1 TCCTTATCTTTAGGATTTGGAT
206829 TCCTTATCTT
1 TCCTTATCTT
206839 CAAGAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.52
Consensus pattern (22 bp):
TCCTTATCTTTAGGATTTGGAT
Found at i:215025 original size:14 final size:14
Alignment explanation
Indices: 214989--215032 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
214979 TTTATAAAGA
* *
214989 AATACAATTAACAT
1 AATACAATTCATAT
* *
215003 CATATAATTCATAT
1 AATACAATTCATAT
215017 AATACAATTCATAT
1 AATACAATTCATAT
215031 AA
1 AA
215033 CTAAAAACAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
AATACAATTCATAT
Found at i:215244 original size:31 final size:31
Alignment explanation
Indices: 215229--215299 Score: 142
Period size: 31 Copynumber: 2.3 Consensus size: 31
215219 CTGAATAACC
215229 TAGGTAAACAGTCCATATGTCCCGAAGAACA
1 TAGGTAAACAGTCCATATGTCCCGAAGAACA
215260 TAGGTAAACAGTCCATATGTCCCGAAGAACA
1 TAGGTAAACAGTCCATATGTCCCGAAGAACA
215291 TAGGTAAAC
1 TAGGTAAAC
215300 CCTCGACCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (31 bp):
TAGGTAAACAGTCCATATGTCCCGAAGAACA
Found at i:217392 original size:23 final size:23
Alignment explanation
Indices: 217374--217426 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
217364 AATGCACCAA
217374 AGTGCCACGTAGAATTGCACCGT
1 AGTGCCACGTAGAATTGCACCGT
* *
217397 AGTGCCGCGTAGAATTACACCGT
1 AGTGCCACGTAGAATTGCACCGT
217420 AGTGCCA
1 AGTGCCA
217427 TATAAGATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (23 bp):
AGTGCCACGTAGAATTGCACCGT
Found at i:217677 original size:30 final size:31
Alignment explanation
Indices: 217643--217708 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
217633 ATTTATATTG
217643 TATAGACATATAAT-TTCCAT-ACCTTTATCA
1 TATAGACATATAATGTTCCATCA-CTTTATCA
*
217673 TATAGACATATCATGTTCCATCACTTTATCA
1 TATAGACATATAATGTTCCATCACTTTATCA
217704 TATAG
1 TATAG
217709 CTTATATAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 13 0.39
31 19 0.58
32 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (31 bp):
TATAGACATATAATGTTCCATCACTTTATCA
Found at i:224986 original size:23 final size:23
Alignment explanation
Indices: 224968--225028 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
224958 CTCGTATAAA
*
224968 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
*
224991 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
225014 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
225029 TATAAGATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACGTAGAAT
Found at i:225281 original size:30 final size:31
Alignment explanation
Indices: 225247--225310 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
225237 TTTATATTGT
*
225247 ATAGACATATAAT-TTCCAT-ACCTTTATCAC
1 ATAGACATATAATGTTCCATCA-CTTTATAAC
*
225277 ATAGACATATCATGTTCCATCACTTTATAAC
1 ATAGACATATAATGTTCCATCACTTTATAAC
225308 ATA
1 ATA
225311 ACTTATATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 12 0.40
31 17 0.57
32 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.36
Consensus pattern (31 bp):
ATAGACATATAATGTTCCATCACTTTATAAC
Found at i:225748 original size:63 final size:64
Alignment explanation
Indices: 225672--225795 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 64
225662 GCACCACACC
* * ** *
225672 ATGCATCGATGCATAAATCCTATTCGATGTTTATA-TTTAAGGGGGTGCATCGATGCACTTATT
1 ATGCATCAATGCATAAATCCAATTCGATGTTTATATTTTAAAAGAGTGCATCGATGCACTTATT
** ** *
225735 ATGCATCAATGCATTGATGGAATTCGATGTTTGTATTTTAAAAGAGTGCATCGATGCACTT
1 ATGCATCAATGCATAAATCCAATTCGATGTTTATATTTTAAAAGAGTGCATCGATGCACTT
225796 CATGTGCATC
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
63 28 0.56
64 22 0.44
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (64 bp):
ATGCATCAATGCATAAATCCAATTCGATGTTTATATTTTAAAAGAGTGCATCGATGCACTTATT
Found at i:229596 original size:23 final size:23
Alignment explanation
Indices: 229560--229620 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
229550 CTCGTATAAA
* *
229560 TGCACCGAAATGCCACGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
*
229583 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
*
229606 TGCATCGTAGTGCCA
1 TGCACCGTAGTGCCA
229621 TATAAGATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (23 bp):
TGCACCGTAGTGCCACGTAGAAT
Found at i:229895 original size:31 final size:30
Alignment explanation
Indices: 229836--229900 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
229826 TTTATATTGT
*
229836 ATAGACATATAATTTTCATATCTTTATCAC
1 ATAGACATATAATTTCCATATCTTTATCAC
* *
229866 ATAGACATATCATGTTCCATCA-CTTTATCAG
1 ATAGACATATAAT-TTCCAT-ATCTTTATCAC
229897 ATAG
1 ATAG
229901 CTTATATAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 12 0.40
31 17 0.57
32 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.38
Consensus pattern (30 bp):
ATAGACATATAATTTCCATATCTTTATCAC
Found at i:230333 original size:63 final size:64
Alignment explanation
Indices: 230261--230400 Score: 158
Period size: 64 Copynumber: 2.2 Consensus size: 64
230251 GCACCACACC
* * ** * *
230261 ATGCATCGATGCATAAAT-TCTATTCGATGTTTATA-TTTAAGGGGGTGAATCGATGCACTTCTT
1 ATGCATCGATACATAAATGGC-ATTCGATGTTTATATTTTAAAAGAGTGAATCGATGCACTTCAT
** * *
230324 ATGCATCGATACATTGATGGCATTCGATGTTTGTATTTTAAAAGAGTGCATCGATGCACTTCAT
1 ATGCATCGATACATAAATGGCATTCGATGTTTATATTTTAAAAGAGTGAATCGATGCACTTCAT
*
230388 GTGCATCGATACA
1 ATGCATCGATACA
230401 CCTTGAACAA
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
63 28 0.44
64 36 0.56
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.36
Consensus pattern (64 bp):
ATGCATCGATACATAAATGGCATTCGATGTTTATATTTTAAAAGAGTGAATCGATGCACTTCAT
Found at i:230378 original size:64 final size:63
Alignment explanation
Indices: 230282--230400 Score: 166
Period size: 64 Copynumber: 1.9 Consensus size: 63
230272 CATAAATTCT
** * *
230282 ATTCGATGTTTATATTTAAGGGGGTGAATCGATGCACTTCTTATGCATCGATACATTGATGGC
1 ATTCGATGTTTATATTTAAAAGAGTGAATCGATGCACTTCATATGCATCGATACATTGATGGC
* * *
230345 ATTCGATGTTTGTATTTTAAAAGAGTGCATCGATGCACTTCATGTGCATCGATACA
1 ATTCGATGTTTATA-TTTAAAAGAGTGAATCGATGCACTTCATATGCATCGATACA
230401 CCTTGAACAA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
63 13 0.27
64 35 0.73
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (63 bp):
ATTCGATGTTTATATTTAAAAGAGTGAATCGATGCACTTCATATGCATCGATACATTGATGGC
Found at i:234986 original size:25 final size:25
Alignment explanation
Indices: 234952--235009 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
234942 AGATAACATA
*
234952 AAGGCACCTTAGGGAAGCCTTGATT
1 AAGGCACCTTAGGGAAGCCCTGATT
234977 AAGGCACCTTAGGGAAGCCCTGATT
1 AAGGCACCTTAGGGAAGCCCTGATT
235002 AAGGCACC
1 AAGGCACC
235010 AATCCTTGCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.29, C:0.24, G:0.28, T:0.19
Consensus pattern (25 bp):
AAGGCACCTTAGGGAAGCCCTGATT
Found at i:238364 original size:19 final size:19
Alignment explanation
Indices: 238322--238364 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
238312 TATTTATATA
*
238322 AAATTTGAACGATGATGAT
1 AAATTTGAACGATAATGAT
*
238341 TAATTTG-ACGATAATAGAT
1 AAATTTGAACGATAAT-GAT
238360 AAATT
1 AAATT
238365 GTGTAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.35
Consensus pattern (19 bp):
AAATTTGAACGATAATGAT
Found at i:241255 original size:4 final size:4
Alignment explanation
Indices: 241237--241269 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
241227 ATATTTTCTT
*
241237 TAAA TATA T-AA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
241270 TAAAATTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 2 0.08
4 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (4 bp):
TAAA
Found at i:243317 original size:29 final size:29
Alignment explanation
Indices: 243285--243366 Score: 89
Period size: 31 Copynumber: 2.8 Consensus size: 29
243275 ATACTTAAAT
243285 TAAAATTAAAATTTATATGTATAATTGA-A
1 TAAAATTAAAATTTATATGTATAATT-ACA
*
243314 TAAAAATTAAAATTTTAAATGTATAATTACA
1 T-AAAATTAAAA-TTTATATGTATAATTACA
* *
243345 -CAAAGTAAAATTT-TATGTATAA
1 TAAAATTAAAATTTATATGTATAA
243367 AATTGCATGA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
27 8 0.17
28 3 0.07
29 9 0.20
30 11 0.24
31 15 0.33
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.39
Consensus pattern (29 bp):
TAAAATTAAAATTTATATGTATAATTACA
Found at i:243339 original size:31 final size:30
Alignment explanation
Indices: 243267--243342 Score: 98
Period size: 30 Copynumber: 2.4 Consensus size: 30
243257 GTTTTTAAAA
*
243267 AAATGTATATACTTAAATTAAAATTAAAATTT
1 AAATGTATA-A-TTAAATAAAAATTAAAATTT
* *
243299 ATATGTATAATTGAATAAAAATTAAAATTTT
1 AAATGTATAATTAAATAAAAATTAAAA-TTT
243330 AAATGTATAATTA
1 AAATGTATAATTA
243343 CACAAAGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 15 0.39
31 15 0.39
32 8 0.21
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (30 bp):
AAATGTATAATTAAATAAAAATTAAAATTT
Found at i:243691 original size:25 final size:25
Alignment explanation
Indices: 243642--243699 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
243632 AAGAATAATG
*
243642 GTATTTTTAATTTATGTATTTTTTT
1 GTATTTTTAATTAATGTATTTTTTT
243667 GTATTTTT-ATTAATG-ATTTAGTTTT
1 GTATTTTTAATTAATGTATTT--TTTT
*
243692 GAATTTTT
1 GTATTTTT
243700 TAATCGATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 4 0.14
24 6 0.21
25 19 0.66
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.67
Consensus pattern (25 bp):
GTATTTTTAATTAATGTATTTTTTT
Found at i:245819 original size:54 final size:54
Alignment explanation
Indices: 245745--245851 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
245735 ATATTAATAA
*
245745 TGCGGTACCTTGTACATCCCAACACGTATCTCTATAGGGTAAGTGAAATAAAAC
1 TGCGGTACCTTGTACATCCCAACACATATCTCTATAGGGTAAGTGAAATAAAAC
*
245799 TGCGGTACCTTGTACATCCCAACACATATCTCTATTGGGTAAGTGAAATAAAA
1 TGCGGTACCTTGTACATCCCAACACATATCTCTATAGGGTAAGTGAAATAAAA
245852 GCCCTTAGCC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (54 bp):
TGCGGTACCTTGTACATCCCAACACATATCTCTATAGGGTAAGTGAAATAAAAC
Found at i:252571 original size:11 final size:11
Alignment explanation
Indices: 252555--252584 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
252545 TAATTTAAAC
*
252555 CTTTTATTATT
1 CTTTTAGTATT
252566 CTTTTAGTATT
1 CTTTTAGTATT
252577 CTTTTAGT
1 CTTTTAGT
252585 GATCAACCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (11 bp):
CTTTTAGTATT
Found at i:253143 original size:23 final size:23
Alignment explanation
Indices: 253117--253185 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 23
253107 GCACCGAAGT
253117 ACCACATAGATTTGTCCCGAAAG
1 ACCACATAGATTTGTCCCGAAAG
* * *
253140 ACCACATAGA-ATGTCTCGAAGG
1 ACCACATAGATTTGTCCCGAAAG
*
253162 ACCACGTAGAAATTTGTCCC-AAAG
1 ACCACATAG--ATTTGTCCCGAAAG
253186 GATCGCGTAG
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
22 17 0.47
23 10 0.28
24 4 0.11
25 5 0.14
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (23 bp):
ACCACATAGATTTGTCCCGAAAG
Found at i:253186 original size:25 final size:25
Alignment explanation
Indices: 253126--253197 Score: 62
Period size: 25 Copynumber: 3.0 Consensus size: 25
253116 TACCACATAG
*
253126 ATTTGTCCCGAAA-GACCACATAG-A
1 ATTTGTCCC-AAAGGACCACGTAGAA
* *
253150 A--TGTCTCGAAGGACCACGTAGAA
1 ATTTGTCCCAAAGGACCACGTAGAA
* *
253173 ATTTGTCCCAAAGGATCGCGTAGAA
1 ATTTGTCCCAAAGGACCACGTAGAA
253198 CCATCGACTC
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
21 2 0.05
22 14 0.38
23 2 0.05
24 1 0.03
25 18 0.49
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (25 bp):
ATTTGTCCCAAAGGACCACGTAGAA
Done.