Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 122 of 163
Found at i:33688659 original size:16 final size:17
Alignment explanation
Indices: 33688638--33688681 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
33688628 CCTTAAACAC
33688638 ATATAATTA-AATAAAA
1 ATATAATTATAATAAAA
*
33688654 ATATAATTATCATAAAA
1 ATATAATTATAATAAAA
33688671 ATA-AA-TATAAT
1 ATATAATTATAAT
33688682 TAAATGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.20
16 11 0.44
17 9 0.36
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
ATATAATTATAATAAAA
Found at i:33699723 original size:31 final size:31
Alignment explanation
Indices: 33699663--33699725 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
33699653 GGATTTTGAA
* *
33699663 TTGTTATTGGGGCTTCATGAAGTTCATAAAT
1 TTGTTATTGGGGCTTAATCAAGTTCATAAAT
*
33699694 TTGTTATTGGGGTTTAATCAAGCTT-ATAAAT
1 TTGTTATTGGGGCTTAATCAAG-TTCATAAAT
33699725 T
1 T
33699726 GCGGAGCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (31 bp):
TTGTTATTGGGGCTTAATCAAGTTCATAAAT
Found at i:33705662 original size:14 final size:14
Alignment explanation
Indices: 33705640--33705669 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33705630 ATATCATAGG
33705640 AAGAAAGAGAGAGA
1 AAGAAAGAGAGAGA
*
33705654 AAGAGAGAGAGAGA
1 AAGAAAGAGAGAGA
33705668 AA
1 AA
33705670 CTCGAACCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (14 bp):
AAGAAAGAGAGAGA
Found at i:33706428 original size:6 final size:6
Alignment explanation
Indices: 33706405--33706438 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
33706395 AGCGAGTTAG
* *
33706405 AGAGGA ATAGGT AGAGGA AGAGGA AGAGGA AGAG
1 AGAGGA AGAGGA AGAGGA AGAGGA AGAGGA AGAG
33706439 AAAATGAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.47, T:0.06
Consensus pattern (6 bp):
AGAGGA
Found at i:33707372 original size:30 final size:29
Alignment explanation
Indices: 33707309--33707376 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 29
33707299 TCATTATCTT
*
33707309 TTTAATAATATATAATTAAAATTGATCCA
1 TTTAATAATATATAATTAAAAATGATCCA
33707338 TTTAATAATAGTATAATAATAAAAATGAT-C-
1 TTTAATAATA-TATAAT--TAAAAATGATCCA
33707368 TTTAATAAT
1 TTTAATAAT
33707377 TGGGTAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
29 10 0.29
30 15 0.43
31 1 0.03
32 9 0.26
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (29 bp):
TTTAATAATATATAATTAAAAATGATCCA
Found at i:33713361 original size:34 final size:34
Alignment explanation
Indices: 33713314--33713378 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
33713304 AATTTTTATT
*
33713314 TTGATATTGA-TTTTCATTTTTGATTTAGGGTATA
1 TTGATATTCATTTTTCA-TTTTGATTTAGGGTATA
* *
33713348 TTGATTTTCATTTTTGATTTTGATTTAGGGT
1 TTGATATTCATTTTTCATTTTGATTTAGGGT
33713379 TATCTAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 22 0.81
35 5 0.19
ACGTcount: A:0.20, C:0.03, G:0.18, T:0.58
Consensus pattern (34 bp):
TTGATATTCATTTTTCATTTTGATTTAGGGTATA
Found at i:33714844 original size:20 final size:20
Alignment explanation
Indices: 33714819--33714860 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
33714809 GCAAATAATG
33714819 GCATCTATCCTATTGCATAT
1 GCATCTATCCTATTGCATAT
33714839 GCATCTATCCTATTGCATAT
1 GCATCTATCCTATTGCATAT
33714859 GC
1 GC
33714861 TGTTGTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (20 bp):
GCATCTATCCTATTGCATAT
Found at i:33717125 original size:3 final size:3
Alignment explanation
Indices: 33717117--33717159 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
33717107 AATCCCCATT
*
33717117 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
33717160 CTTTTTAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:33734303 original size:30 final size:29
Alignment explanation
Indices: 33734260--33734540 Score: 103
Period size: 30 Copynumber: 9.5 Consensus size: 29
33734250 CCCGCGAGGC
* *
33734260 AAAATGGTGATTTTCGATGAAATCGGGGTCA
1 AAAATGGTAATTTT-GATGAAATCGGGGT-T
*
33734291 AAAATGG-AATTTTG--GAAAGTTCGGGGGGT
1 AAAATGGTAATTTTGATGAAA--TC-GGGGTT
*
33734320 AAAATGGTAATTTTTAATGAAATCGGGGTT
1 AAAATGGTAA-TTTTGATGAAATCGGGGTT
*
33734350 AAAATGG-AATTTTG--GAAAGTTTGAGGG-T
1 AAAATGGTAATTTTGATGAAA--TCG-GGGTT
* *
33734378 AAAATGGTAATTTTTTTG-TGCAATCGAGGTT
1 AAAATGGTAA---TTTTGATGAAATCGGGGTT
*
33734409 AAAAATGG-AA-TTTG--GAAAGTTTGGGGGTT
1 -AAAATGGTAATTTTGATGAAA---TCGGGGTT
* * *
33734438 AAAATAGTAATTTTTGGTGAATTCGGGGTT
1 AAAATGGTAA-TTTTGATGAAATCGGGGTT
*
33734468 AAAAATGG--ATTTTGA--AAAGTTTGAGGG-T
1 -AAAATGGTAATTTTGATGAAA--TCG-GGGTT
* *
33734496 AAAATGGTAAATTTTGGTGAAATCGAGGTT
1 AAAATGGT-AATTTTGATGAAATCGGGGTT
33734526 AAAAATGG-AATTTTG
1 -AAAATGGTAATTTTG
33734541 GAAAGTTCGG
Statistics
Matches: 191, Mismatches: 23, Indels: 74
0.66 0.08 0.26
Matches are distributed among these distances:
26 9 0.05
27 15 0.08
28 28 0.15
29 38 0.20
30 41 0.21
31 35 0.18
32 15 0.08
33 10 0.05
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (29 bp):
AAAATGGTAATTTTGATGAAATCGGGGTT
Found at i:33734527 original size:58 final size:59
Alignment explanation
Indices: 33734260--33734569 Score: 394
Period size: 59 Copynumber: 5.3 Consensus size: 59
33734250 CCCGCGAGGC
* * * * *
33734260 AAAATGGTGATTTTCGATGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT-TGGGGGT
** *
33734320 AAAATGGTAATTTTTAATGAAATCGGGGTT-AAAATGGAATTTTGGAAAGTTTGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGT
* * *
33734378 AAAATGGTAATTTTTTTGTGCAATCGAGGTTAAAAATGGAA-TTTGGAAAGTTTGGGGGTT
1 AAAATGGTAA-TTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGG-T
* * * *
33734438 AAAATAGTAATTTTTGGTGAATTCGGGGTTAAAAATGG-ATTTTGAAAAGTTTGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGT
* * *
33734496 AAAATGGTAAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGT
33734555 CAAAAT-GTAATTTTT
1 -AAAATGGTAATTTTT
33734570 TGGAAATTTT
Statistics
Matches: 218, Mismatches: 26, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
58 51 0.23
59 117 0.54
60 50 0.23
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGT
Found at i:33734574 original size:31 final size:32
Alignment explanation
Indices: 33734536--33734601 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
33734526 AAAAATGGAA
33734536 TTTTGGAAA-GTTCGGGGGTCAAAATGTAATT
1 TTTTGGAAATGTTCGGGGGTCAAAATGTAATT
* *
33734567 TTTTGGAAATTTTTGGGGGTCAAAATGTAATT
1 TTTTGGAAATGTTCGGGGGTCAAAATGTAATT
33734599 TTT
1 TTT
33734602 GAAAGCTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.27, C:0.05, G:0.26, T:0.42
Consensus pattern (32 bp):
TTTTGGAAATGTTCGGGGGTCAAAATGTAATT
Found at i:33734602 original size:31 final size:30
Alignment explanation
Indices: 33734284--33734606 Score: 126
Period size: 31 Copynumber: 10.9 Consensus size: 30
33734274 CGATGAAATC
*
33734284 GGGGTCAAAAATGGAA-TTTTGGAAAGTTCGG
1 GGGGTC-AAAATGTAATTTTTGGAAAGTTC-G
*
33734315 GGGGT-AAAATGGTAATTTTTAATGAAA--TC-
1 GGGGTCAAAAT-GTAATTTTT--GGAAAGTTCG
* * *
33734344 GGGGTTAAAATGGAA-TTTTGGAAAGTTTG
1 GGGGTCAAAATGTAATTTTTGGAAAGTTCG
* *
33734373 AGGGT-AAAATGGTAATTTTTTTGTGCAA--TCG
1 GGGGTCAAAAT-GTAA--TTTTTG-GAAAGTTCG
* * * * *
33734404 AGGTTAAAAATGGAA--TTTGGAAAGTTTG
1 GGGGTCAAAATGTAATTTTTGGAAAGTTCG
* *
33734432 GGGGTTAAAATAGTAATTTTTGGTGAA-TTCG
1 GGGGTCAAAAT-GTAATTTTTGG-AAAGTTCG
* * * * *
33734463 GGGTTAAAAATG-GA-TTTTGAAAAGTTTG
1 GGGGTCAAAATGTAATTTTTGGAAAGTTCG
* *
33734491 AGGGT-AAAATGGTAAATTTTGGTGAAA--TCG
1 GGGGTCAAAAT-GT-AATTTTTG-GAAAGTTCG
* * * *
33734521 AGGTTAAAAATGGAA-TTTTGGAAAGTTCG
1 GGGGTCAAAATGTAATTTTTGGAAAGTTCG
* *
33734550 GGGGTCAAAATGTAATTTTTTGGAAATTTTTG
1 GGGGTCAAAATGTAA-TTTTTGGAAA-GTTCG
33734582 GGGGTCAAAATGTAATTTTT-GAAAG
1 GGGGTCAAAATGTAATTTTTGGAAAG
33734607 CTTGAGGATC
Statistics
Matches: 219, Mismatches: 41, Indels: 66
0.67 0.13 0.20
Matches are distributed among these distances:
26 7 0.03
27 15 0.07
28 36 0.16
29 40 0.18
30 21 0.10
31 60 0.27
32 33 0.15
33 7 0.03
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTTTGGAAAGTTCG
Found at i:33736526 original size:7 final size:6
Alignment explanation
Indices: 33736507--33736595 Score: 62
Period size: 6 Copynumber: 15.0 Consensus size: 6
33736497 TTAATATTAT
*
33736507 TTTAAA TTTAAA TTTAAA -ATAAA TTTGAATA TTTAAA TTTAAGA --TAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AA-A TTTAAA TTTAA-A TTTAAA
* * * *
33736555 TTTAAA TTCAAA -ATAAA TTTAAA ATT-AA TTTGAAC TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA
33736596 AAAAAAAAGA
Statistics
Matches: 64, Mismatches: 10, Indels: 18
0.70 0.11 0.20
Matches are distributed among these distances:
4 1 0.02
5 14 0.22
6 36 0.56
7 9 0.14
8 4 0.06
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:33736529 original size:17 final size:17
Alignment explanation
Indices: 33736509--33736596 Score: 61
Period size: 17 Copynumber: 5.0 Consensus size: 17
33736499 AATATTATTT
33736509 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
33736526 TAAATTTGAATATTTAAAT
1 TAAATTT-AA-ATTTAAAA
* ** *
33736545 TTAAGATAAATTTAAAT
1 TAAATTTAAATTTAAAA
*
33736562 TCAAA-ATAAATTTAAAA
1 T-AAATTTAAATTTAAAA
* *
33736579 TTAATTTGAACTTTAAAA
1 TAAATTT-AAATTTAAAA
33736597 AAAAAAAGAA
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
16 2 0.04
17 29 0.51
18 15 0.26
19 11 0.19
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:33737949 original size:26 final size:27
Alignment explanation
Indices: 33737920--33737985 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
33737910 TAAAAAATAC
*
33737920 TAAAATAATCATATATAAAAT-TTTAA-
1 TAAAATAAT-ATATATAAAATATTAAAT
* *
33737946 TAAATAAAATATATATAAAGTATTAAAT
1 TAAA-ATAATATATATAAAATATTAAAT
33737974 TAAAATAATATA
1 TAAAATAATATA
33737986 AATATATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
26 14 0.42
27 15 0.45
28 4 0.12
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
TAAAATAATATATATAAAATATTAAAT
Found at i:33743053 original size:85 final size:85
Alignment explanation
Indices: 33742880--33743035 Score: 215
Period size: 85 Copynumber: 1.8 Consensus size: 85
33742870 TTGTGATGTA
* * * * * *
33742880 TTAGTAGGACATGCTATTGCAAAGGTGCAGTGATACAAAGTCTCAAAAGATGGAGGAATCATAGG
1 TTAGGAGGAAATGCTAATGCAAAGGTGAAGTGACACAAAGTCTCAAAAGATGGAGAAATCATAGG
*
33742945 ATGATACAAAGAGAATTGAG
66 ATAATACAAAGAGAATTGAG
* *
33742965 TTAGGAGGAAATGCTAATGGAAAGGTGAAGTGACGCAACA-TCTCAAAAGATGGAGAAATCATAG
1 TTAGGAGGAAATGCTAATGCAAAGGTGAAGTGACACAA-AGTCTCAAAAGATGGAGAAATCATAG
33743029 GATAATA
65 GATAATA
33743036 ACGGAAGTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
85 60 0.98
86 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.21
Consensus pattern (85 bp):
TTAGGAGGAAATGCTAATGCAAAGGTGAAGTGACACAAAGTCTCAAAAGATGGAGAAATCATAGG
ATAATACAAAGAGAATTGAG
Found at i:33745672 original size:2 final size:2
Alignment explanation
Indices: 33745667--33745693 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33745657 AAAGGATATA
33745667 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
33745694 TGGGGGGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:33756680 original size:24 final size:24
Alignment explanation
Indices: 33756637--33756685 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
33756627 AATTATGAAC
*
33756637 AGAAATAACAAAAATTTTATACTA
1 AGAAATAACAAAAATATTATACTA
* * *
33756661 AGAAATATCAAATATATTATGCTA
1 AGAAATAACAAAAATATTATACTA
33756685 A
1 A
33756686 TAACTACTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (24 bp):
AGAAATAACAAAAATATTATACTA
Found at i:33758209 original size:27 final size:26
Alignment explanation
Indices: 33758166--33758218 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
33758156 TTAGTTGCTG
* *
33758166 AATAAATAATGAATAAATCTTTTATAT
1 AATAAATAATCAATAAAT-TATTATAT
33758193 AATAAAT-ATCAATTAAATTATTATAT
1 AATAAATAATCAA-TAAATTATTATAT
33758219 TTGCTTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (26 bp):
AATAAATAATCAATAAATTATTATAT
Found at i:33760212 original size:105 final size:105
Alignment explanation
Indices: 33760024--33760353 Score: 401
Period size: 105 Copynumber: 3.1 Consensus size: 105
33760014 ATCAATGCGT
* * * *
33760024 TATACGTAACAACATCAGGCTCAATGCCTTGATTTCTCATTGTGTCAACAATATCTTCAGCTTCA
1 TATACGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTATCAACAATATCTTCAGCTTCA
* *
33760089 AAAACCATCCCCTTCTTGCAAAGTGCATCGACCAATATAC
66 AAAACCATCCCCTTCTTGCAAAGCGCATCAACCAATATAC
* * * *
33760129 TATACGTGACAACATTAGGCTCAATGCCTTGCTTTATCATTGTCTCAACAATATGTTTAGCTTCA
1 TATACGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTATCAACAATATCTTCAGCTTCA
** *
33760194 GGAACCAT-CCCTTCCTTGCAATGCGCATCAACCAATATAC
66 AAAACCATCCCCTT-CTTGCAAAGCGCATCAACCAATATAC
* *
33760234 TATACGTGACAACATTAGGCTCAATCCCTTGCTTTCTCATTGTATCAACAATATCTACAGCTTCA
1 TATACGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTATCAACAATATCTTCAGCTTCA
* *** * * * * * *
33760299 GAAATTGTCCCCTGCTTGCAATGTGCATCAATCAACATAT
66 AAAACCATCCCCTTCTTGCAAAGCGCATCAACCAATATAC
* *
33760339 TATACATGAAAACAT
1 TATACGTGACAACAT
33760354 CAAGTGAAAT
Statistics
Matches: 194, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
104 5 0.03
105 185 0.95
106 4 0.02
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (105 bp):
TATACGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTATCAACAATATCTTCAGCTTCA
AAAACCATCCCCTTCTTGCAAAGCGCATCAACCAATATAC
Found at i:33762793 original size:17 final size:17
Alignment explanation
Indices: 33762759--33762791 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
33762749 AATTTAGATT
*
33762759 TTTTATAATTTATAAAA
1 TTTTATAATTAATAAAA
33762776 TTTTA-AATTAATAAAA
1 TTTTATAATTAATAAAA
33762792 ATAATATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTATAATTAATAAAA
Found at i:33765101 original size:22 final size:21
Alignment explanation
Indices: 33765063--33765106 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
33765053 CCAGCCAATT
33765063 GCTTCAGCTTTTAGCAAGTGAA
1 GCTTCAGCTTTTAGCAA-TGAA
33765085 GCTTCGAGCTTTT-GCAATGAA
1 GCTTC-AGCTTTTAGCAATGAA
33765106 G
1 G
33765107 TGCTGAGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 9 0.43
23 7 0.33
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (21 bp):
GCTTCAGCTTTTAGCAATGAA
Found at i:33766145 original size:105 final size:103
Alignment explanation
Indices: 33766036--33766481 Score: 378
Period size: 105 Copynumber: 4.3 Consensus size: 103
33766026 TGCATCGATA
* *
33766036 AATATATTATATGTGACAACATCAGGCTTCACA-CCTTGCTTTCTCATTCTGGAAATGGTATCTA
1 AATATATTATACGTGACAACATCAGGC-TCA-AGCCTTGCTTTCTCATTCTGGAAAT-ATATCTA
*
33766100 CAGCTTTAGAAATACTCCTCTCCTTGCAATACGCATCAACC
63 CAGCTTCAGAAATACTCCTCTCCTTGCAATACGCATCAACC
* * ** *
33766141 AATATATTATACATCACAACATCAGGCTCAATGCCTTGCTTTCTCATTCTATCAACA-ATATCTT
1 AATATATTATACGTGACAACATCAGGCTCAA-GCCTTGCTTTCTCATTCT-GGAA-ATATATCTA
* ** * *
33766205 CGGCTTCAGAAACCCTCCCCTCCTTGCAATGCGCATCAACC
63 CAGCTTCAGAAATACTCCTCTCCTTGCAATACGCATCAACC
* * * * * *
33766246 AATGTACTATACGTGACAACATCAGGCTCAATGCCTTGCTTTCTCATTGTGTGAACTATATCCAA
1 AATATATTATACGTGACAACATCAGGCTCAA-GCCTTGCTTTCTCATTCTG-GAAATATATCTAC
* * * * *
33766311 AGATTCAGAAATTA-GCCTCTCCTTACAATATGAATCAACC
64 AGCTTCAGAAA-TACTCCTCTCCTTGCAATACGCATCAACC
* * * * * *
33766351 AATATATTATAGGTGACAACATCAGGCTTGACGCCTTGCTTTCTCATTGCAT-TAAAGATATTTA
1 AATATATTATACGTGACAACATCAGGC-TCAAGCCTTGCTTTCTCATT-C-TGGAAATATATCTA
* * ** * ** *
33766415 CAGCATCCGAAATTGTCCCCTCCTTGCAATGTGCATCAATC
63 CAGCTTCAGAAATACTCCTCTCCTTGCAATACGCATCAACC
* * * *
33766456 AATATGTTGTACGTGAAAATATCAGG
1 AATATATTATACGTGACAACATCAGG
33766482 AGAAACATTG
Statistics
Matches: 269, Mismatches: 61, Indels: 22
0.76 0.17 0.06
Matches are distributed among these distances:
103 1 0.00
104 4 0.01
105 258 0.96
106 4 0.01
107 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.31
Consensus pattern (103 bp):
AATATATTATACGTGACAACATCAGGCTCAAGCCTTGCTTTCTCATTCTGGAAATATATCTACAG
CTTCAGAAATACTCCTCTCCTTGCAATACGCATCAACC
Found at i:33766471 original size:210 final size:210
Alignment explanation
Indices: 33765970--33766481 Score: 493
Period size: 210 Copynumber: 2.4 Consensus size: 210
33765960 AATGCATTCT
* * * * * * * * *
33765970 TTTCTCATTGTGTCGACAATA-CATTCAGCTTCAGAAACCATCCCATTCC-TACAAAGTGCATCG
1 TTTCTCATTCTATCAACAATATC-TTCAGCATCAGAAACCCTCCC-CTCCTTGCAATGTGCATCA
* * *
33766033 ATAAATATATTATATGTGACAACATCAGGCTTCACACCTTGCTTTCTCATTCTGGAAATGGTATC
64 ATCAATATATTATACGTGACAACATCAGGCTTCACACCTTGCTTTCTCATTCTGGAAATGATATC
* * * * * * *
33766098 TACAGCTTTAGAAATACTCCTCTCCTTGCAATACGCATCAACCAATATATTATACATCACAACAT
129 CAAAGATTCAGAAATACGCCTCTCCTTACAATACGAATCAACCAATATATTATACATCACAACAT
*
33766163 CAGGCTCAATGCCTTGC
194 CAGGCTCAACGCCTTGC
* * * *
33766180 TTTCTCATTCTATCAACAATATCTTCGGCTTCAGAAACCCTCCCCTCCTTGCAATGCGCATCAAC
1 TTTCTCATTCTATCAACAATATCTTCAGCATCAGAAACCCTCCCCTCCTTGCAATGTGCATCAAT
* * * *
33766245 CAATGTACTATACGTGACAACATCAGGC-TCA-ATGCCTTGCTTTCTCATTGTGTGAACT-ATAT
66 CAATATATTATACGTGACAACATCAGGCTTCACA--CCTTGCTTTCTCATTCTG-GAAATGATAT
* ** *
33766307 CCAAAGATTCAGAAATTA-GCCTCTCCTTACAATATGAATCAACCAATATATTATAGGTGACAAC
128 CCAAAGATTCAGAAA-TACGCCTCTCCTTACAATACGAATCAACCAATATATTATACATCACAAC
**
33766371 ATCAGGCTTGACGCCTTGC
192 ATCAGGCTCAACGCCTTGC
* * ***
33766390 TTTCTCATTGC-ATTAA-AGATAT-TTACAGCATCCGAAATTGTCCCCTCCTTGCAATGTGCATC
1 TTTCTCATT-CTATCAACA-ATATCTT-CAGCATCAGAAACCCTCCCCTCCTTGCAATGTGCATC
* * * *
33766452 AATCAATATGTTGTACGTGAAAATATCAGG
63 AATCAATATATTATACGTGACAACATCAGG
33766482 AGAAACATTG
Statistics
Matches: 246, Mismatches: 47, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
208 1 0.00
209 9 0.04
210 228 0.93
211 8 0.03
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (210 bp):
TTTCTCATTCTATCAACAATATCTTCAGCATCAGAAACCCTCCCCTCCTTGCAATGTGCATCAAT
CAATATATTATACGTGACAACATCAGGCTTCACACCTTGCTTTCTCATTCTGGAAATGATATCCA
AAGATTCAGAAATACGCCTCTCCTTACAATACGAATCAACCAATATATTATACATCACAACATCA
GGCTCAACGCCTTGC
Found at i:33767219 original size:314 final size:315
Alignment explanation
Indices: 33766727--33767354 Score: 1010
Period size: 314 Copynumber: 2.0 Consensus size: 315
33766717 CTTAGAAATC
* * *
33766727 TAACAGCTCGACCAGTGTTCCCAACCTTACACAAACCATTAAGTACTGTATTGTAAGCAACTAAA
1 TAACAGCTCGACCAGTGTTCCCAACCTTACACAAACCATTAAGTACTCTATTGCAAGCAAATAAA
* * **
33766792 TCAGGTTGATACCCTTTTTCGATCATTTCATCAAACAAAATTGCAGCCTGAGAAACCTTGCTTTG
66 TCAGGTCGATACCCTTTTTCGATCATTTCATAAAACAAAATCACAGCCTGAGAAACCTTGCTTTG
* * *
33766857 ATTACAAAGTCCATTAATCAAAGTGGACAAAGTTACAACATCAGGTTCAAATCCTAACTTGAGCA
131 ATTACAAAGTCCATCAATCAAAGTGGACAAAGTCACAACATCAGGTTCAAAACCTAACTTGAGCA
* *
33766922 TTTTCCCCAAAACAGAAAACCC-AAATCAACTTTATCTAACTTACAAAAGCAATTAATCAAGAT-
196 TTTTCCCCAAAACAGAAAACCCAAAATCAACTTTACCTAACTGACAAAAGCAATTAATCAAGATA
*
33766985 GTTGAAAGAATAAGCATCATGTGAAACTCCCCATAGTTCCATCTGGCTACCCAGAA
261 G-TGAAAGAATAAGCATCATGTGAAACTCCCCATAATTCCATCTGGCTACCCAGAA
** * *
33767041 TAACAGCTCGACCAGTGTTCCCAGTCTTACACAACCCATTAAGTACTCTATTGCAAGCAAATGAA
1 TAACAGCTCGACCAGTGTTCCCAACCTTACACAAACCATTAAGTACTCTATTGCAAGCAAATAAA
* *
33767106 TCTGGTCGATACCCTTTTTCGATCATTTCATAAAACAAACTCACAGCCTGAGAAA-CTCTGCTTT
66 TCAGGTCGATACCCTTTTTCGATCATTTCATAAAACAAAATCACAGCCTGAGAAACCT-TGCTTT
* *
33767170 GATTACAAAGTCCATCAATCAAAGTGGACAAAGTCACGACATTAGGTTCAAAACCTAACTTGAGC
130 GATTACAAAGTCCATCAATCAAAGTGGACAAAGTCACAACATCAGGTTCAAAACCTAACTTGAGC
33767235 ATTTTCCCCAAAACAGAAAACCCAAAATCAACTTTACCTAACTGACAAAAGCAATTAATCAAGAT
195 ATTTTCCCCAAAACAGAAAACCCAAAATCAACTTTACCTAACTGACAAAAGCAATTAATCAAGAT
* *
33767300 AGTGAAAGAATAAGCATTATGTGAAACTCCCCGTAATTCCATCTGGCTACCCAGA
260 AGTGAAAGAATAAGCATCATGTGAAACTCCCCATAATTCCATCTGGCTACCCAGA
33767355 GAAACAACAA
Statistics
Matches: 288, Mismatches: 23, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
313 2 0.01
314 196 0.68
315 89 0.31
316 1 0.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (315 bp):
TAACAGCTCGACCAGTGTTCCCAACCTTACACAAACCATTAAGTACTCTATTGCAAGCAAATAAA
TCAGGTCGATACCCTTTTTCGATCATTTCATAAAACAAAATCACAGCCTGAGAAACCTTGCTTTG
ATTACAAAGTCCATCAATCAAAGTGGACAAAGTCACAACATCAGGTTCAAAACCTAACTTGAGCA
TTTTCCCCAAAACAGAAAACCCAAAATCAACTTTACCTAACTGACAAAAGCAATTAATCAAGATA
GTGAAAGAATAAGCATCATGTGAAACTCCCCATAATTCCATCTGGCTACCCAGAA
Found at i:33774683 original size:3 final size:3
Alignment explanation
Indices: 33774677--33774749 Score: 101
Period size: 3 Copynumber: 24.0 Consensus size: 3
33774667 TTATTATCAC
*
33774677 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** *
33774725 ATT AAC ATT ATT ATA ATTT ATT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT
33774750 TTAAATATTG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
3 59 0.97
4 2 0.03
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:33776568 original size:165 final size:165
Alignment explanation
Indices: 33776296--33776628 Score: 630
Period size: 165 Copynumber: 2.0 Consensus size: 165
33776286 GACCTAGTGC
* * *
33776296 CTCATCGGATAAATCGAACTAACAATCGTGCCCAGCGTTATAATAAAGGTGACACCCAGTGTCTC
1 CTCATCGGATAAATCAAACTAACAATCATGCCCAGCGTTATAATAAAGGTGACACCCAATGTCTC
33776361 ATCGGTTAAACCGAAGTAACTTGGCACCCAGTGCCTCATCGACTCATGATCAAAGTAACCCTGAA
66 ATCGGTTAAACCGAAGTAACTTGGCACCCAGTGCCTCATCGACTCATGATCAAAGTAACCCTGAA
33776426 CTCTTCCTATCCTATGACATGTCATCTATATCCGA
131 CTCTTCCTATCCTATGACATGTCATCTATATCCGA
33776461 CTCATCGGATAAATCAAACTAACAATCATGCCCAGCGTTATAATAAAGGTGACACCCAATGTCTC
1 CTCATCGGATAAATCAAACTAACAATCATGCCCAGCGTTATAATAAAGGTGACACCCAATGTCTC
*
33776526 ATCGGTTAAACCGAAGTAACTTGGCACCCAGTGCCTCATCGACTCATGGTCAAAGTAACCCTGAA
66 ATCGGTTAAACCGAAGTAACTTGGCACCCAGTGCCTCATCGACTCATGATCAAAGTAACCCTGAA
33776591 CTCTTCCTATCCTATGACATGTCATCTATATCCGA
131 CTCTTCCTATCCTATGACATGTCATCTATATCCGA
33776626 CTC
1 CTC
33776629 GGCCCGAACA
Statistics
Matches: 164, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
165 164 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (165 bp):
CTCATCGGATAAATCAAACTAACAATCATGCCCAGCGTTATAATAAAGGTGACACCCAATGTCTC
ATCGGTTAAACCGAAGTAACTTGGCACCCAGTGCCTCATCGACTCATGATCAAAGTAACCCTGAA
CTCTTCCTATCCTATGACATGTCATCTATATCCGA
Found at i:33785490 original size:58 final size:58
Alignment explanation
Indices: 33785428--33785678 Score: 353
Period size: 58 Copynumber: 4.3 Consensus size: 58
33785418 GGATACCCGA
* *
33785428 GGGTAAAATGGTAATTTTGGTATAATCGGGGTTGAAAATGGAATCTTAAAAGATTCGG
1 GGGTAAAATGGTAATTTTGGTATAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGG
* * *
33785486 GGGTAAAATGGTAATTTTTGGTGA-AATCGGGGTTAAAAACGGAATTTTAGAAGCTTCGG
1 GGGTAAAATGGTAA-TTTTGGT-ATAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGG
* * **
33785545 GGGTAAAATGGTAATTTTCGGTGTAATCGGGATT-AAAATGGAATTTTAAAAGATTCAA
1 GGGTAAAATGGTAATTTT-GGTATAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGG
* * *
33785603 GGGTAAAATGGCAATTTTAGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGG
1 GGGTAAAATGGTAATTTTGGTATAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGG
33785661 GGGTAAAATGGTAATTTT
1 GGGTAAAATGGTAATTTT
33785679 TGAAAGTTTT
Statistics
Matches: 170, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
57 13 0.08
58 93 0.55
59 63 0.37
60 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (58 bp):
GGGTAAAATGGTAATTTTGGTATAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGG
Found at i:33785560 original size:29 final size:28
Alignment explanation
Indices: 33785428--33785678 Score: 153
Period size: 29 Copynumber: 8.6 Consensus size: 28
33785418 GGATACCCGA
* * * *
33785428 GGGTAAAATGGTAATTTTGGTATAATCGG
1 GGGTAAAATGG-AATTTTAGAAGATTCGG
* * *
33785457 GGTTGAAAATGGAATCTTAAAAGATTCGG
1 GGGT-AAAATGGAATTTTAGAAGATTCGG
* ** *
33785486 GGGTAAAATGGTAATTTTTGGTGAAATCGG
1 GGGTAAAATGG-AATTTTAGAAG-ATTCGG
* * *
33785516 GGTTAAAAACGGAATTTTAGAAGCTTCGG
1 GGGT-AAAATGGAATTTTAGAAGATTCGG
* ** *
33785545 GGGTAAAATGGTAATTTTCGGTGTAATCGG
1 GGGTAAAATGG-AATTTTAGAAG-ATTCGG
** * **
33785575 GATTAAAATGGAATTTTAAAAGATTCAA
1 GGGTAAAATGGAATTTTAGAAGATTCGG
* *
33785603 GGGTAAAATGGCAATTTTAG-TGTAATCGG
1 GGGTAAAATGG-AATTTTAGAAG-ATTCGG
* *
33785632 GGTTAAAAATGGAATTTTAAAAGATTCGG
1 GGGT-AAAATGGAATTTTAGAAGATTCGG
33785661 GGGTAAAATGGTAATTTT
1 GGGTAAAATGG-AATTTT
33785679 TGAAAGTTTT
Statistics
Matches: 162, Mismatches: 49, Indels: 22
0.70 0.21 0.09
Matches are distributed among these distances:
28 33 0.20
29 79 0.49
30 44 0.27
31 6 0.04
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (28 bp):
GGGTAAAATGGAATTTTAGAAGATTCGG
Found at i:33785692 original size:29 final size:30
Alignment explanation
Indices: 33785660--33785771 Score: 165
Period size: 30 Copynumber: 3.7 Consensus size: 30
33785650 AAAAGATTCG
*
33785660 GGGGT-AAAATGGTAATTTTTG-AAAGTTTT
1 GGGGTCAAAAT-GTAATTTTGGAAAAGTTTT
33785689 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
33785719 GGGGTCAAAATATAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
33785749 GGGGTCAAAATATAATTTCTGGA
1 GGGGTCAAAATGTAATTT-TGGA
33785772 TTGTTTGGGG
Statistics
Matches: 78, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
29 14 0.18
30 60 0.77
31 4 0.05
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.37
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTTGGAAAAGTTTT
Found at i:33785699 original size:58 final size:57
Alignment explanation
Indices: 33785428--33785707 Score: 234
Period size: 58 Copynumber: 4.8 Consensus size: 57
33785418 GGATACCCGA
* * *
33785428 GGGTAAAATGGTAATTTTGGTATAA--TCGGGGTTGAAAATGGAATCTTAAAAGATTCGG
1 GGGTAAAATGGTAATTTTTG-A-AAGTTCGGGG-TAAAAATGGAATTTTAAAAGATTCGG
* * *
33785486 GGGTAAAATGGTAATTTTTGGTGAAA--TCGGGGTTAAAAACGGAATTTTAGAAGCTTCGG
1 GGGTAAAATGGTAA-TTTT--TGAAAGTTCGGGG-TAAAAATGGAATTTTAAAAGATTCGG
* * * **
33785545 GGGTAAAATGGTAATTTTCGGTGTAA--TCGGGATTAAAATGGAATTTTAAAAGATTCAA
1 GGGTAAAATGGTAATTTT---TGAAAGTTCGGGGTAAAAATGGAATTTTAAAAGATTCGG
* *
33785603 GGGTAAAATGGCAATTTTAGTGTAA--TCGGGGTTAAAAATGGAATTTTAAAAGATTCGG
1 GGGTAAAATGGTAATTTT--TGAAAGTTCGGGG-TAAAAATGGAATTTTAAAAGATTCGG
* * *
33785661 GGGTAAAATGGTAATTTTTGAAAGTTTTGGGGTCAAAATGTAATTTT
1 GGGTAAAATGGTAATTTTTGAAAG-TTCGGGGTAAAAATGGAATTTT
33785708 GGAAAAGTTT
Statistics
Matches: 189, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
56 4 0.02
57 11 0.06
58 108 0.57
59 64 0.34
60 1 0.01
61 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.33
Consensus pattern (57 bp):
GGGTAAAATGGTAATTTTTGAAAGTTCGGGGTAAAAATGGAATTTTAAAAGATTCGG
Found at i:33785715 original size:30 final size:30
Alignment explanation
Indices: 33785672--33785771 Score: 166
Period size: 30 Copynumber: 3.3 Consensus size: 30
33785662 GGTAAAATGG
* *
33785672 TAATTTTTG-AAAGTTTTGGGGTCAAAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
33785701 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
33785731 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
33785761 TAATTTCTGGA
1 TAATTT-TGGA
33785772 TTGTTTGGGG
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
29 8 0.12
30 55 0.82
31 4 0.06
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.39
Consensus pattern (30 bp):
TAATTTTGGAAAAGTTTTGGGGTCAAAATA
Found at i:33786110 original size:161 final size:161
Alignment explanation
Indices: 33785838--33786186 Score: 474
Period size: 161 Copynumber: 2.2 Consensus size: 161
33785828 ACAGGCATCC
* * * *
33785838 AACAGTCAAGGGACCAATTTGA-AAACCTTAAAAAATTTTAGGACCAATTTTGTAATCAAATAAA
1 AACAGTCAAAGGACTAATTT-ATAAACCTTAAAAAATTTTAGGACCAATTTCGTAATAAAATAAA
* * * *
33785902 AGTTGATTTGGGATTAAATTAAAATAAATTAAAAATAGAAGGGACTAAATGC-TGAAATAAGCCA
65 AGTTGATTTGGGATTAAATTAAAACAAAGTAAAAATAAAAAGGACTAAATGCAT-AAATAAGCCA
**
33785966 A-AAATTGACACGTGGCAACCTCTGGTGCAGTCA
129 ATAAA-TGACACGTGGCAACCTCTGGCACAGTCA
* * *
33785999 AACAGTCAAAGGACTAGTTTATAAACCTTGAAAAATTATT-GGGCCAATTTCGTAATTAAAAT-A
1 AACAGTCAAAGGACTAATTTATAAACCTTAAAAAATT-TTAGGACCAATTTCGTAA-TAAAATAA
*
33786062 AAGTTGATTTGGGATTAAATTAAAACAAAGTAAAAATAAAAAGGACTAAATGCATAAATAATCCA
64 AAGTTGATTTGGGATTAAATTAAAACAAAGTAAAAATAAAAAGGACTAAATGCATAAATAAGCCA
*
33786127 ATACATGACACGTGGCAACCTCTGGCACAGTCA
129 ATAAATGACACGTGGCAACCTCTGGCACAGTCA
*
33786160 AACAGTCAAAGGACTAAATTATAAACC
1 AACAGTCAAAGGACTAATTTATAAACC
33786187 AATTAAAATT
Statistics
Matches: 166, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
160 1 0.01
161 155 0.93
162 10 0.06
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (161 bp):
AACAGTCAAAGGACTAATTTATAAACCTTAAAAAATTTTAGGACCAATTTCGTAATAAAATAAAA
GTTGATTTGGGATTAAATTAAAACAAAGTAAAAATAAAAAGGACTAAATGCATAAATAAGCCAAT
AAATGACACGTGGCAACCTCTGGCACAGTCA
Found at i:33786767 original size:6 final size:6
Alignment explanation
Indices: 33786756--33786790 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
33786746 TTCATTGCTC
*
33786756 ATTAAT ATTAAT ATTAAT ATTAAT ATTATT ATTAA
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAA
33786791 AAGTATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
ATTAAT
Found at i:33787298 original size:18 final size:15
Alignment explanation
Indices: 33787265--33787295 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
33787255 GGGCATGGTG
33787265 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
33787280 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
33787295 G
1 G
33787296 CAGCATAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.55, T:0.19
Consensus pattern (15 bp):
GAGCTGGTGGTGGCA
Found at i:33787510 original size:17 final size:16
Alignment explanation
Indices: 33787467--33787559 Score: 73
Period size: 17 Copynumber: 5.5 Consensus size: 16
33787457 ACTTTTCTTT
33787467 TTAAATTTATAA-TAATA
1 TTAAATTTA-AATTAA-A
33787484 TTAAATTTTAAATTAAA
1 TTAAA-TTTAAATTAAA
33787501 TTCAAATTTAAACTTAAA
1 TT-AAATTTAAA-TTAAA
* *
33787519 TTGAATTTAAAGTAAA
1 TTAAATTTAAATTAAA
*
33787535 TTTAAGA-TTAAAATAAA
1 -TTAA-ATTTAAATTAAA
*
33787552 TTTAATTT
1 TTAAATTT
33787560 TCAAATGGTT
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
15 1 0.02
16 9 0.14
17 36 0.56
18 18 0.28
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:33787536 original size:11 final size:11
Alignment explanation
Indices: 33787483--33787559 Score: 66
Period size: 11 Copynumber: 6.8 Consensus size: 11
33787473 TTATAATAAT
33787483 ATTAAATTTTAA
1 ATTAAA-TTTAA
*
33787495 ATTAAATTCAA
1 ATTAAATTTAA
*
33787506 ATTTAAACTTAA
1 A-TTAAATTTAA
*
33787518 ATTGAATTTAA
1 ATTAAATTTAA
*
33787529 AGTAAATTTAA
1 ATTAAATTTAA
*
33787540 GATTAAA-ATAA
1 -ATTAAATTTAA
*
33787551 ATTTAATTT
1 ATTAAATTT
33787560 TCAAATGGTT
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
10 5 0.10
11 26 0.51
12 20 0.39
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.43
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:33788497 original size:68 final size:68
Alignment explanation
Indices: 33787849--33788489 Score: 1104
Period size: 68 Copynumber: 9.4 Consensus size: 68
33787839 AAGACTTTGC
* * * *
33787849 TATCCAACTTTACTTCAATTTTAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGACT-AAGG
1 TATCC-ACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGA-TGAAGA
33787913 CGTGT
64 CGTGT
* * * *
33787918 TATCCACTCTACTTCAATTTCAAGGGGATGACGCTGCTCTTACTCCAATTTCAGAGATCAAGACT
1 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACG
33787983 TGT
66 TGT
*
33787986 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATTAAGACG
1 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACG
33788051 TGT
66 TGT
* *
33788054 TATCCACTCTACTTCAATTTCAAGGGGATGATGTTGCTCTTACTTCAATTTCAGAGATGAAGACA
1 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACG
33788119 TGT
66 TGT
33788122 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACG
1 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACG
33788187 TGT
66 TGT
* *
33788190 TATCCACTCTACTTCAATTTCAAGGGGATGATGTTGCTCTTACTTCAATTTCAGAGATGAAGACA
1 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACG
33788255 TGT
66 TGT
* *
33788258 TATCCACTCTACTTCAATTTCAAGGGGACGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACC
1 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACG
33788323 TGT
66 TGT
33788326 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACG
1 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACG
33788391 TGT
66 TGT
* *
33788394 TATCCACTCTACTTCAATTTCAAGGGGATGATGTTGCTCTTACTTCAATTTCAGAGATGAAGACA
1 TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACG
33788459 TGT
66 TGT
33788462 TATCCACTCTACTTCAATTTCAAGGGGA
1 TATCCACTCTACTTCAATTTCAAGGGGA
33788490 CGATGTTGAG
Statistics
Matches: 546, Mismatches: 25, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
67 1 0.00
68 540 0.99
69 5 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (68 bp):
TATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACG
TGT
Found at i:33800506 original size:58 final size:58
Alignment explanation
Indices: 33800444--33800640 Score: 270
Period size: 59 Copynumber: 3.4 Consensus size: 58
33800434 TTATGGATAC
* * * *
33800444 CGGGGGCAAAATGGTAATTTTGGTGTAATCGGGGTTGAAAATGGAATCTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTAGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATT
** * *
33800502 CGGGGGTAAAATGGTAATTTTTAGTAAAATC-GGGTTCAAAAACGAAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAA-TTTTAGTGTAATCGGGGTT-AAAAATGGAATTTTAAAAGATT
**
33800561 TAGGGGTAAAATGGTAATTTTAGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTAGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATT
33800619 CGGGGGGTAAAATGGTAATTTT
1 C-GGGGGTAAAATGGTAATTTT
33800641 TCAAAATTTT
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
58 52 0.44
59 67 0.56
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.31
Consensus pattern (58 bp):
CGGGGGTAAAATGGTAATTTTAGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATT
Found at i:33800579 original size:29 final size:29
Alignment explanation
Indices: 33800547--33800759 Score: 118
Period size: 30 Copynumber: 7.2 Consensus size: 29
33800537 TCAAAAACGA
33800547 AATTTTAAAAGATTTAGGGGT-AAAATGGT
1 AATTTTAAAAGATTTAGGGGTCAAAAT-GT
** * * * *
33800576 AATTTT-AGTG-TAATCGGGGTTAAAAATGG
1 AATTTTAAAAGAT-TTAGGGG-TCAAAATGT
**
33800605 AATTTTAAAAGATTCGGGGGGT-AAAATGGT
1 AATTTTAAAAGATT-TAGGGGTCAAAAT-GT
* *
33800635 AATTTTTCAAA-ATTTTGGGGTCAAAATGT
1 AA-TTTTAAAAGATTTAGGGGTCAAAATGT
* *
33800664 AATTTTGGAAAAGTTTTA-GGGTCAAAATAT
1 AATTTT--AAAAGATTTAGGGGTCAAAATGT
* *
33800694 AATTTTGGAAAAG-TTTTGGGGTCAAAATAT
1 AATTTT--AAAAGATTTAGGGGTCAAAATGT
* *
33800724 AATTTTGGAAAAGTTTTA-GGGTCAAAATAT
1 AATTTT--AAAAGATTTAGGGGTCAAAATGT
33800754 AATTTT
1 AATTTT
33800760 TGGATTGTTT
Statistics
Matches: 150, Mismatches: 20, Indels: 27
0.76 0.10 0.14
Matches are distributed among these distances:
27 1 0.01
28 11 0.07
29 31 0.21
30 89 0.59
31 18 0.12
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.37
Consensus pattern (29 bp):
AATTTTAAAAGATTTAGGGGTCAAAATGT
Found at i:33800661 original size:59 final size:55
Alignment explanation
Indices: 33800444--33800669 Score: 191
Period size: 59 Copynumber: 3.9 Consensus size: 55
33800434 TTATGGATAC
* ** * *
33800444 CGGGGGCAAAATGGTAATTTTGGTGTAATCGGGGTTGAAAATGGAATCTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTT--TAAAATCGGGG-TCAAAATGGAATTTTAAAAGATT
* * *
33800502 CGGGGGTAAAATGGTAATTTTTAGTAAAATCGGGTTCAAAAACGAAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAA-TTTT--TAAAATCGGGGTC-AAAATGGAATTTTAAAAGATT
** ** *
33800561 TAGGGGTAAAATGGTAATTTTAGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTT--TAAAATCGGGG-TCAAAATGGAATTTTAAAAGATT
* *
33800619 CGGGGGGTAAAATGGTAATTTTTCAAAATTTTGGGGTCAAAATGTAATTTT
1 C-GGGGGTAAAATGGTAATTTTT-AAAA--TCGGGGTCAAAATGGAATTTT
33800670 GGAAAAGTTT
Statistics
Matches: 137, Mismatches: 24, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
57 1 0.01
58 52 0.38
59 79 0.58
60 5 0.04
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (55 bp):
CGGGGGTAAAATGGTAATTTTTAAAATCGGGGTCAAAATGGAATTTTAAAAGATT
Found at i:33800668 original size:117 final size:117
Alignment explanation
Indices: 33800446--33800699 Score: 327
Period size: 117 Copynumber: 2.2 Consensus size: 117
33800436 ATGGATACCG
* *
33800446 GGGGCAAAATGGTAATTTTGGTGTAATCGGGGTTGAAAATGGAATCTTAAAAGATTCGGGGGTAA
1 GGGGCAAAATGGTAATTTTAGTGTAATCGGGGTTAAAAATGGAATCTTAAAAGATTCGGGGGTAA
*
33800511 AATGGTAATTTTTAGTAAAATCGGGTTCAAAAACGAAATTTT-AAAAGATTTA
66 AATGGTAATTTTTAG-AAAATCGGGGTCAAAAACGAAATTTTGAAAAGATTTA
* *
33800563 GGGGTAAAATGGTAATTTTAGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGGTA
1 GGGGCAAAATGGTAATTTTAGTGTAATCGGGGTTAAAAATGGAATCTTAAAAGATTC-GGGGGTA
* * * * *
33800628 AAATGGTAATTTTTCA-AAATTTTGGGGTC-AAAATGTAATTTTGGAAAAGTTTTA
65 AAATGGTAATTTTT-AGAAA-ATCGGGGTCAAAAACGAAATTTT-GAAAAGATTTA
* *
33800682 GGGTCAAAAT-ATAATTTT
1 GGGGCAAAATGGTAATTTT
33800700 GGAAAAGTTT
Statistics
Matches: 119, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
117 67 0.56
118 34 0.29
119 18 0.15
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (117 bp):
GGGGCAAAATGGTAATTTTAGTGTAATCGGGGTTAAAAATGGAATCTTAAAAGATTCGGGGGTAA
AATGGTAATTTTTAGAAAATCGGGGTCAAAAACGAAATTTTGAAAAGATTTA
Found at i:33800720 original size:60 final size:59
Alignment explanation
Indices: 33800634--33800759 Score: 216
Period size: 60 Copynumber: 2.1 Consensus size: 59
33800624 GGTAAAATGG
* *
33800634 TAATTTTTCAAAATTTTGGGGTCAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATA
1 TAATTTTGCAAAATTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTCAAAATA
*
33800693 TAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTCAAAATA
1 TAATTTTGCAAAA-TTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTCAAAATA
33800753 TAATTTT
1 TAATTTT
33800760 TGGATTGTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
59 11 0.17
60 52 0.83
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (59 bp):
TAATTTTGCAAAATTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTCAAAATA
Found at i:33801019 original size:161 final size:161
Alignment explanation
Indices: 33800852--33801178 Score: 473
Period size: 161 Copynumber: 2.0 Consensus size: 161
33800842 ACCAATTTGA
33800852 AAACCTTGAAAAATT-TTAGGACCAATTTTGTAATT-AAATAAAAGTTGATTTGGGATTAAATTA
1 AAACCTTGAAAAATTATT-GGACCAATTTTGTAATTAAAAT-AAAGTTGATTTGGGATTAAATTA
* * * *
33800915 AATCAAATTAAAAATAGAAGGGACTAAATGC-TGAAATAAGCCAA-AAATTGACACGTGGCAACC
64 AAACAAATCAAAAATAAAAAGGACTAAATGCAT-AAATAAGCCAATAAA-TGACACGTGGCAACC
** **
33800978 TCTGGTGCAGTCAAACAGTCAAAGGACTAGTTTAT
127 TCTGGCACAGTCAAACAGTCAAAGGACTAAATTAT
*
33801013 AAACCTTGAAAAATTATTGGGCCAATTTTGTAATTAAAATAAAGTTGATTTGGGATTAAATTAAA
1 AAACCTTGAAAAATTATTGGACCAATTTTGTAATTAAAATAAAGTTGATTTGGGATTAAATTAAA
* * *
33801078 ACAAATCAAAAATAAAAAGGTCTAAATGCATAAATAATCCAATACATGACACGTGGCAACCTCTG
66 ACAAATCAAAAATAAAAAGGACTAAATGCATAAATAAGCCAATAAATGACACGTGGCAACCTCTG
*
33801143 GCACAGTGAAACAGTCAAAGGACTAAATTAT
131 GCACAGTCAAACAGTCAAAGGACTAAATTAT
33801174 AAACC
1 AAACC
33801179 AATTAAAATT
Statistics
Matches: 149, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
161 140 0.94
162 9 0.06
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.26
Consensus pattern (161 bp):
AAACCTTGAAAAATTATTGGACCAATTTTGTAATTAAAATAAAGTTGATTTGGGATTAAATTAAA
ACAAATCAAAAATAAAAAGGACTAAATGCATAAATAAGCCAATAAATGACACGTGGCAACCTCTG
GCACAGTCAAACAGTCAAAGGACTAAATTAT
Found at i:33802520 original size:16 final size:16
Alignment explanation
Indices: 33802501--33802531 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
33802491 CAGGGCATGG
33802501 TGGAGCTGGTGGTGGA
1 TGGAGCTGGTGGTGGA
33802517 TGGAGCTGGTGGTGG
1 TGGAGCTGGTGGTGG
33802532 CAGCAGCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.10, C:0.06, G:0.58, T:0.26
Consensus pattern (16 bp):
TGGAGCTGGTGGTGGA
Found at i:33802749 original size:17 final size:16
Alignment explanation
Indices: 33802706--33802798 Score: 73
Period size: 17 Copynumber: 5.5 Consensus size: 16
33802696 ACTTTTCTTT
33802706 TTAAATTTATAA-TAATA
1 TTAAATTTA-AATTAA-A
33802723 TTAAATTTTAAATTAAA
1 TTAAA-TTTAAATTAAA
33802740 TTCAAATTTAAACTTAAA
1 TT-AAATTTAAA-TTAAA
* *
33802758 TTGAATTTAAAGTAAA
1 TTAAATTTAAATTAAA
*
33802774 TTTAAGA-TTAAAATAAA
1 -TTAA-ATTTAAATTAAA
*
33802791 TTTAATTT
1 TTAAATTT
33802799 TCAAATGGTT
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
15 1 0.02
16 9 0.14
17 36 0.56
18 18 0.28
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:33802775 original size:11 final size:11
Alignment explanation
Indices: 33802722--33802798 Score: 66
Period size: 11 Copynumber: 6.8 Consensus size: 11
33802712 TTATAATAAT
33802722 ATTAAATTTTAA
1 ATTAAA-TTTAA
*
33802734 ATTAAATTCAA
1 ATTAAATTTAA
*
33802745 ATTTAAACTTAA
1 A-TTAAATTTAA
*
33802757 ATTGAATTTAA
1 ATTAAATTTAA
*
33802768 AGTAAATTTAA
1 ATTAAATTTAA
*
33802779 GATTAAA-ATAA
1 -ATTAAATTTAA
*
33802790 ATTTAATTT
1 ATTAAATTT
33802799 TCAAATGGTT
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
10 5 0.10
11 26 0.51
12 20 0.39
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.43
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:33804432 original size:79 final size:79
Alignment explanation
Indices: 33804339--33804494 Score: 222
Period size: 79 Copynumber: 2.0 Consensus size: 79
33804329 AAACATTTAT
* * * * *
33804339 TATGTTAGTGTATATGAAACATTGTAAAATAATCTTCAAGACAATGGTATTTCAATCAATTATAT
1 TATGTTAGTATATATGAAACATTATAAAATAACCTTCAAGACAATAGCATTTCAATCAATTATAT
*
33804404 TTCAAAGAATCAGA
66 TTCAAACAATCAGA
* * *
33804418 TATGTTGGTATATATGAAACATTATAAAATAACCTTCGAGGCAATAGCATTTCAATCAATTATAT
1 TATGTTAGTATATATGAAACATTATAAAATAACCTTCAAGACAATAGCATTTCAATCAATTATAT
*
33804483 TTTAAACAATCA
66 TTCAAACAATCA
33804495 AATTCTATTA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (79 bp):
TATGTTAGTATATATGAAACATTATAAAATAACCTTCAAGACAATAGCATTTCAATCAATTATAT
TTCAAACAATCAGA
Found at i:33805440 original size:33 final size:33
Alignment explanation
Indices: 33805368--33805635 Score: 347
Period size: 33 Copynumber: 8.4 Consensus size: 33
33805358 CCCATTCCCA
*
33805368 TGTTCATCCCCATGCCTGGGTTCATGCCC--A-
1 TGTTCATCCCCATGCCTGGATTCATGCCCATAT
* * * * *
33805398 TGTTCATCCCCGTTCCTCGAATCATGCCCATGT
1 TGTTCATCCCCATGCCTGGATTCATGCCCATAT
* * *
33805431 TGTTCATCCCCGTTCCTGGATTAATGCCCATAT
1 TGTTCATCCCCATGCCTGGATTCATGCCCATAT
*
33805464 TGGTCATCCCCATGCCTGGATTCATGCCCATAT
1 TGTTCATCCCCATGCCTGGATTCATGCCCATAT
* *
33805497 TGTTCATGCCCATGCCTGGATTCATTCCC--A-
1 TGTTCATCCCCATGCCTGGATTCATGCCCATAT
33805527 TGTTCATCCCCATGCCTGGATTCATGCCCATAT
1 TGTTCATCCCCATGCCTGGATTCATGCCCATAT
* *
33805560 TGCTCATCCCCATGCCTGGATTCATGCCCATGT
1 TGTTCATCCCCATGCCTGGATTCATGCCCATAT
33805593 TGTTCATCCCCATGCCTGGATTCATGCCC--A-
1 TGTTCATCCCCATGCCTGGATTCATGCCCATAT
33805623 TGTTCATCCCCAT
1 TGTTCATCCCCAT
33805636 TCCCATGCCC
Statistics
Matches: 209, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
30 64 0.31
31 1 0.00
32 1 0.00
33 143 0.68
ACGTcount: A:0.16, C:0.35, G:0.16, T:0.32
Consensus pattern (33 bp):
TGTTCATCCCCATGCCTGGATTCATGCCCATAT
Found at i:33805527 original size:129 final size:129
Alignment explanation
Indices: 33805368--33805635 Score: 389
Period size: 129 Copynumber: 2.1 Consensus size: 129
33805358 CCCATTCCCA
* * * *
33805368 TGTTCATCCCCATGCCTGGGTTCATGCCCATGTTCATCCCCGTTCCTCGAATCATGCCCATGTTG
1 TGTTCATCCCCATGCCTGGATTCATGCCCATGTTCATCCCCATGCCTCGAATCATGCCCATATTG
* * *
33805433 TTCATCCCCGTTCCTGGATTAATGCCCATATTGGTCATCCCCATGCCTGGATTCATGCCCATAT
66 CTCATCCCCATGCCTGGATTAATGCCCATATTGGTCATCCCCATGCCTGGATTCATGCCCATAT
* * * *
33805497 TGTTCATGCCCATGCCTGGATTCATTCCCATGTTCATCCCCATGCCTGGATTCATGCCCATATTG
1 TGTTCATCCCCATGCCTGGATTCATGCCCATGTTCATCCCCATGCCTCGAATCATGCCCATATTG
* * *
33805562 CTCATCCCCATGCCTGGATTCATGCCCATGTTGTTCATCCCCATGCCTGGATTCATGCCC--A-
66 CTCATCCCCATGCCTGGATTAATGCCCATATTGGTCATCCCCATGCCTGGATTCATGCCCATAT
33805623 TGTTCATCCCCAT
1 TGTTCATCCCCAT
33805636 TCCCATGCCC
Statistics
Matches: 124, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
126 12 0.10
127 1 0.01
129 111 0.90
ACGTcount: A:0.16, C:0.35, G:0.16, T:0.32
Consensus pattern (129 bp):
TGTTCATCCCCATGCCTGGATTCATGCCCATGTTCATCCCCATGCCTCGAATCATGCCCATATTG
CTCATCCCCATGCCTGGATTAATGCCCATATTGGTCATCCCCATGCCTGGATTCATGCCCATAT
Found at i:33805604 original size:15 final size:16
Alignment explanation
Indices: 33805527--33805607 Score: 58
Period size: 15 Copynumber: 4.9 Consensus size: 16
33805517 TTCATTCCCA
33805527 TGTTCATCCCCATGCCT
1 TGTTCATCCCCATG-CT
* * *
33805544 GGATTCATGCCCAT-AT
1 TG-TTCATCCCCATGCT
*
33805560 TGCTCATCCCCATGCCT
1 TGTTCATCCCCATG-CT
* *
33805577 GGATTCATGCCCATG-T
1 TG-TTCATCCCCATGCT
33805593 TGTTCATCCCCATGC
1 TGTTCATCCCCATGC
33805608 CTGGATTCAT
Statistics
Matches: 47, Mismatches: 12, Indels: 11
0.67 0.17 0.16
Matches are distributed among these distances:
15 20 0.43
16 4 0.09
17 3 0.06
18 20 0.43
ACGTcount: A:0.16, C:0.36, G:0.16, T:0.32
Consensus pattern (16 bp):
TGTTCATCCCCATGCT
Found at i:33805627 original size:96 final size:95
Alignment explanation
Indices: 33805371--33805635 Score: 372
Period size: 96 Copynumber: 2.8 Consensus size: 95
33805361 ATTCCCATGT
* * * * *
33805371 TCATCCCCATGCCTGGGTTCATGCCCA--TGTTCATCCCCGTTCCTCGAATCATGCCCATGTTGT
1 TCATCCCCATGCCTGGATTCATGCCCATTTGTTCATCCCCATGCCTGGATTCATGCCCA---TGT
* * *
33805434 TCATCCCCGTTCCTGGATTAATGCCCATATTGG
63 TCATCCCCATGCCTGGATTAATGCCCATATTGC
* *
33805467 TCATCCCCATGCCTGGATTCATGCCCATATTGTTCATGCCCATGCCTGGATTCATTCCCATGTTC
1 TCATCCCCATGCCTGGATTCATGCCCAT-TTGTTCATCCCCATGCCTGGATTCATGCCCATGTTC
*
33805532 ATCCCCATGCCTGGATTCATGCCCATATTGC
65 ATCCCCATGCCTGGATTAATGCCCATATTGC
33805563 TCATCCCCATGCCTGGATTCATGCCCATGTTGTTCATCCCCATGCCTGGATTCATGCCCATGTTC
1 TCATCCCCATGCCTGGATTCATGCCCAT-TTGTTCATCCCCATGCCTGGATTCATGCCCATGTTC
33805628 ATCCCCAT
65 ATCCCCAT
33805636 TCCCATGCCC
Statistics
Matches: 152, Mismatches: 14, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
96 128 0.84
99 24 0.16
ACGTcount: A:0.17, C:0.35, G:0.16, T:0.32
Consensus pattern (95 bp):
TCATCCCCATGCCTGGATTCATGCCCATTTGTTCATCCCCATGCCTGGATTCATGCCCATGTTCA
TCCCCATGCCTGGATTAATGCCCATATTGC
Found at i:33806464 original size:33 final size:33
Alignment explanation
Indices: 33806427--33807082 Score: 298
Period size: 33 Copynumber: 19.9 Consensus size: 33
33806417 AGGCTGTGTG
*
33806427 GGTTGGACATATGGATTAGCACTTGGCTGTACA
1 GGTTGGCCATATGGATTAGCACTTGGCTGTACA
*
33806460 GGTTGGCCATATGGATTAGCA-TTCGGTTGTACA
1 GGTTGGCCATATGGATTAGCACTT-GGCTGTACA
* ** * **
33806493 GGCTGGCTGTATGGATTAGCA-TTCGGTTGTGTA
1 GGTTGGCCATATGGATTAGCACTT-GGCTGTACA
* ** **
33806526 GGCTGGCTGTATGGATTAGCA-TTCGGCTGTGTA
1 GGTTGGCCATATGGATTAGCACTT-GGCTGTACA
* ** **
33806559 GGCTGGCTGTATGGATTAGCA-TTCGGCTGTGTA
1 GGTTGGCCATATGGATTAGCACTT-GGCTGTACA
* ** *
33806592 GGCTGGCTGTATGGATTAGCA-TTCGGCTG-AGCG
1 GGTTGGCCATATGGATTAGCACTT-GGCTGTA-CA
*** *
33806625 GGTTGGTTGTATGGATTAGCATTTGGCTG-AGCA
1 GGTTGGCCATATGGATTAGCACTTGGCTGTA-CA
**
33806658 GGTTGGCCATATGGATTAGCA-TGTACCTGTACA
1 GGTTGGCCATATGGATTAGCACT-TGGCTGTACA
** * * *
33806691 GGTTGGCTGTATGGATTAGCATTTGGTTGTGCA
1 GGTTGGCCATATGGATTAGCACTTGGCTGTACA
* * * *
33806724 GGTTGACCATATGGATTAGCATTTGGTTGTGCA
1 GGTTGGCCATATGGATTAGCACTTGGCTGTACA
* * * * * * ***
33806757 GATTGACCATAAGGAATAGCATTTGGTTGTGTT
1 GGTTGGCCATATGGATTAGCACTTGGCTGTACA
** * *
33806790 GGCCGGCCATAGGGATTAGCACTTGACTGCT-C-
1 GGTTGGCCATATGGATTAGCACTTGGCTG-TACA
* * *
33806822 GTTTTGGCCATATGGGTTAGCACTCGG-TG-ACGCA
1 G-GTTGGCCATATGGATTAGCACTTGGCTGTA--CA
** * * *
33806856 GGCAGGCCATAGGGATTAGCACTTGGCTG-CCC
1 GGTTGGCCATATGGATTAGCACTTGGCTGTACA
* * * * * *
33806888 GTTTTGCCCGTATGGGTTAGCACTGGGCTGCACA
1 G-GTTGGCCATATGGATTAGCACTTGGCTGTACA
* * **
33806922 GGCTGGCCATAGGGATTAGCACTTGAG-TGCCCA
1 GGTTGGCCATATGGATTAGCACTTG-GCTGTACA
** * * **
33806955 TTTTGGCCATATGGGTTAGCACTGGGCTGCGCA
1 GGTTGGCCATATGGATTAGCACTTGGCTGTACA
* * * **
33806988 GGCTGGCCATAGGGATTAGCACTTGGTTGCCCA
1 GGTTGGCCATATGGATTAGCACTTGGCTGTACA
** * *
33807021 TTTTGGCCATATGGGTTAGCACTGGGCTG-AGCA
1 GGTTGGCCATATGGATTAGCACTTGGCTGTA-CA
* * *
33807054 AGCTGACCATATGGATTAGCACTTGGCTG
1 GGTTGGCCATATGGATTAGCACTTGGCTG
33807083 CGTGGGTTGG
Statistics
Matches: 500, Mismatches: 105, Indels: 36
0.78 0.16 0.06
Matches are distributed among these distances:
32 9 0.02
33 480 0.96
34 11 0.02
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (33 bp):
GGTTGGCCATATGGATTAGCACTTGGCTGTACA
Found at i:33806544 original size:66 final size:66
Alignment explanation
Indices: 33806436--33806746 Score: 351
Period size: 66 Copynumber: 4.7 Consensus size: 66
33806426 GGGTTGGACA
* * *
33806436 TATGGATTAGCACTT-GGCTGTACAGGTTGGCCATATGGATTAGCATTCGGTTGTACAGGCTGGC
1 TATGGATTAGCA-TTCGGCTGTGCAGGCTGGCCATATGGATTAGCATTCGGCTGTACAGGCTGGC
33806500 TG
65 TG
* * ** **
33806502 TATGGATTAGCATTCGGTTGTGTAGGCTGGCTGTATGGATTAGCATTCGGCTGTGTAGGCTGGCT
1 TATGGATTAGCATTCGGCTGTGCAGGCTGGCCATATGGATTAGCATTCGGCTGTACAGGCTGGCT
33806567 G
66 G
* ** * * *
33806568 TATGGATTAGCATTCGGCTGTGTAGGCTGGCTGTATGGATTAGCATTCGGCTG-AGCGGGTTGGT
1 TATGGATTAGCATTCGGCTGTGCAGGCTGGCCATATGGATTAGCATTCGGCTGTA-CAGGCTGGC
33806632 TG
65 TG
* * * *
33806634 TATGGATTAGCATTTGGCTGAGCAGGTTGGCCATATGGATTAGCATGTAC--CTGTACAGGTTGG
1 TATGGATTAGCATTCGGCTGTGCAGGCTGGCCATATGGATTAGCAT-T-CGGCTGTACAGGCTGG
33806697 CTG
64 CTG
* * * *
33806700 TATGGATTAGCATTTGGTTGTGCAGGTTGACCATATGGATTAGCATT
1 TATGGATTAGCATTCGGCTGTGCAGGCTGGCCATATGGATTAGCATT
33806747 TGGTTGTGCA
Statistics
Matches: 214, Mismatches: 26, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
65 3 0.01
66 208 0.97
67 2 0.01
68 1 0.00
ACGTcount: A:0.19, C:0.14, G:0.33, T:0.34
Consensus pattern (66 bp):
TATGGATTAGCATTCGGCTGTGCAGGCTGGCCATATGGATTAGCATTCGGCTGTACAGGCTGGCT
G
Found at i:33806555 original size:20 final size:20
Alignment explanation
Indices: 33806530--33806588 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
33806520 TGTGTAGGCT
33806530 GGCTGTATGGATTAGCATTC
1 GGCTGTATGGATTAGCATTC
33806550 GGCTG--T-G--TAGGC--T-
1 GGCTGTATGGATTA-GCATTC
33806563 GGCTGTATGGATTAGCATTC
1 GGCTGTATGGATTAGCATTC
33806583 GGCTGT
1 GGCTGT
33806589 GTAGGCTGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 18
0.62 0.00 0.38
Matches are distributed among these distances:
13 5 0.17
14 1 0.03
15 3 0.10
16 3 0.10
17 3 0.10
18 3 0.10
19 1 0.03
20 11 0.37
ACGTcount: A:0.15, C:0.15, G:0.36, T:0.34
Consensus pattern (20 bp):
GGCTGTATGGATTAGCATTC
Found at i:33806595 original size:99 final size:98
Alignment explanation
Indices: 33806436--33806779 Score: 395
Period size: 99 Copynumber: 3.5 Consensus size: 98
33806426 GGGTTGGACA
* *
33806436 TATGGATTAGCACTTGGCTGTACAGGTTGGCCATATGGATTAGCATTCGGTTGTACAGGCTGGCT
1 TATGGATTAGCA-TTGGCTGTGCAGGTTGGCCATATGGATTAGCATTCGGCTGTACAGGCTGGCT
* *
33806501 GTATGGATTAGCATTCGGTTGTGTAGGCTGGCTG
65 GTATGGATTAGCATTCGGTTGTGCAGGTTGGCTG
* * ** **
33806535 TATGGATTAGCATTCGGCTGTGTAGGCTGGCTGTATGGATTAGCATTCGGCTGTGTAGGCTGGCT
1 TATGGATTAGCATT-GGCTGTGCAGGTTGGCCATATGGATTAGCATTCGGCTGTACAGGCTGGCT
* * * *
33806600 GTATGGATTAGCATTCGGCTGAGCGGGTTGGTTG
65 GTATGGATTAGCATTCGGTTGTGCAGGTTGGCTG
* *
33806634 TATGGATTAGCATTTGGCTGAGCAGGTTGGCCATATGGATTAGCATGTAC--CTGTACAGGTTGG
1 TATGGATTAGCA-TTGGCTGTGCAGGTTGGCCATATGGATTAGCAT-T-CGGCTGTACAGGCTGG
* * **
33806697 CTGTATGGATTAGCATTTGGTTGTGCAGGTTGACCA
63 CTGTATGGATTAGCATTCGGTTGTGCAGGTTGGCTG
* * * * *
33806733 TATGGATTAGCATTTGGTTGTGCAGATTGACCATAAGGAATAGCATT
1 TATGGATTAGCA-TTGGCTGTGCAGGTTGGCCATATGGATTAGCATT
33806780 TGGTTGTGTT
Statistics
Matches: 205, Mismatches: 36, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
98 3 0.01
99 198 0.97
100 3 0.01
101 1 0.00
ACGTcount: A:0.20, C:0.14, G:0.33, T:0.33
Consensus pattern (98 bp):
TATGGATTAGCATTGGCTGTGCAGGTTGGCCATATGGATTAGCATTCGGCTGTACAGGCTGGCTG
TATGGATTAGCATTCGGTTGTGCAGGTTGGCTG
Found at i:33806833 original size:66 final size:66
Alignment explanation
Indices: 33806794--33807083 Score: 411
Period size: 66 Copynumber: 4.4 Consensus size: 66
33806784 TGTGTTGGCC
* * *
33806794 GGCCATAGGGATTAGCACTTGACTGCTCGTTTTGGCCATATGGGTTAGCACTCGG-TGACGCAGG
1 GGCCATAGGGATTAGCACTTGACTGCCCATTTTGGCCATATGGGTTAGCACTGGGCTG-CGCAGG
*
33806858 CA
65 CT
* * * * *
33806860 GGCCATAGGGATTAGCACTTGGCTGCCCGTTTTGCCCGTATGGGTTAGCACTGGGCTGCACAGGC
1 GGCCATAGGGATTAGCACTTGACTGCCCATTTTGGCCATATGGGTTAGCACTGGGCTGCGCAGGC
33806925 T
66 T
*
33806926 GGCCATAGGGATTAGCACTTGAGTGCCCATTTTGGCCATATGGGTTAGCACTGGGCTGCGCAGGC
1 GGCCATAGGGATTAGCACTTGACTGCCCATTTTGGCCATATGGGTTAGCACTGGGCTGCGCAGGC
33806991 T
66 T
** * *
33806992 GGCCATAGGGATTAGCACTTGGTTGCCCATTTTGGCCATATGGGTTAGCACTGGGCTGAGCAAGC
1 GGCCATAGGGATTAGCACTTGACTGCCCATTTTGGCCATATGGGTTAGCACTGGGCTGCGCAGGC
33807057 T
66 T
* * *
33807058 GACCATATGGATTAGCACTTGGCTGC
1 GGCCATAGGGATTAGCACTTGACTGC
33807084 GTGGGTTGGT
Statistics
Matches: 203, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
66 201 0.99
67 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.32, T:0.26
Consensus pattern (66 bp):
GGCCATAGGGATTAGCACTTGACTGCCCATTTTGGCCATATGGGTTAGCACTGGGCTGCGCAGGC
T
Found at i:33806857 original size:132 final size:132
Alignment explanation
Indices: 33806721--33807083 Score: 338
Period size: 132 Copynumber: 2.8 Consensus size: 132
33806711 ATTTGGTTGT
* * * * * * * *
33806721 GCAGGTTGACCATATGGATTAGCATTTGGTTGTGCAG-ATTGACCATAAGGAATAGCATTTGGTT
1 GCAGGCTGGCCATAGGGATTAGCACTTGGTTG-CCAGTATTGACCATAAGGAATAGCACTGGGCT
**** * *
33806785 GTGTTGGCCGGCCATAGGGATTAGCACTTGACTGCTCGTTTTGGCCATATGGGTTAGCACTCGG-
65 GCACAGGCCGGCCATAGGGATTAGCACTTGACTGCCCATTTTGGCCATATGGGTTAGCACTCGGC
33806849 TGAC
130 TG-C
* * * * * * * **
33806853 GCAGGCAGGCCATAGGGATTAGCACTTGGCTGCCCGTTTTGCCCGTATGGGTTAGCACTGGGCTG
1 GCAGGCTGGCCATAGGGATTAGCACTTGGTTGCCAGTATTGACCATAAGGAATAGCACTGGGCTG
* * *
33806918 CACAGGCTGGCCATAGGGATTAGCACTTGAGTGCCCATTTTGGCCATATGGGTTAGCACTGGGCT
66 CACAGGCCGGCCATAGGGATTAGCACTTGACTGCCCATTTTGGCCATATGGGTTAGCACTCGGCT
33806983 GC
131 GC
* * * **
33806985 GCAGGCTGGCCATAGGGATTAGCACTTGGTTGCCCA-TTTTGGCCATATGGGTTAGCACTGGGCT
1 GCAGGCTGGCCATAGGGATTAGCACTTGGTTG-CCAGTATTGACCATAAGGAATAGCACTGGGCT
* * * * *
33807049 G-AGCAAGCTGACCATATGGATTAGCACTTGGCTGC
65 GCA-CAGGCCGGCCATAGGGATTAGCACTTGACTGC
33807084 GTGGGTTGGT
Statistics
Matches: 191, Mismatches: 36, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
131 3 0.02
132 184 0.96
133 4 0.02
ACGTcount: A:0.20, C:0.21, G:0.32, T:0.28
Consensus pattern (132 bp):
GCAGGCTGGCCATAGGGATTAGCACTTGGTTGCCAGTATTGACCATAAGGAATAGCACTGGGCTG
CACAGGCCGGCCATAGGGATTAGCACTTGACTGCCCATTTTGGCCATATGGGTTAGCACTCGGCT
GC
Found at i:33813348 original size:2 final size:2
Alignment explanation
Indices: 33813341--33813386 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
33813331 AAAGGAAAAC
33813341 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
33813383 AG AG
1 AG AG
33813387 GGAGGGGTGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33818714 original size:28 final size:28
Alignment explanation
Indices: 33818683--33818809 Score: 148
Period size: 28 Copynumber: 4.5 Consensus size: 28
33818673 TATTCGTAAA
*
33818683 GATATTATTGAAAATGAATATCCGCAAG
1 GATATCATTGAAAATGAATATCCGCAAG
**
33818711 GATATCAATT-AAAATGAATATCCATAAG
1 GATATC-ATTGAAAATGAATATCCGCAAG
* * *
33818739 GATATTATTGAAAAGGGATATCCGCAAG
1 GATATCATTGAAAATGAATATCCGCAAG
* ** *
33818767 GATATCAATGAAAAAAAATATTCGCAAG
1 GATATCATTGAAAATGAATATCCGCAAG
33818795 GATATCATTGAAAAT
1 GATATCATTGAAAAT
33818810 ATTATATCCG
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
27 3 0.04
28 75 0.93
29 3 0.04
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (28 bp):
GATATCATTGAAAATGAATATCCGCAAG
Found at i:33818750 original size:56 final size:56
Alignment explanation
Indices: 33818683--33818809 Score: 173
Period size: 56 Copynumber: 2.3 Consensus size: 56
33818673 TATTCGTAAA
* ** *
33818683 GATATTATTGAAAATGAATATCCGCAAGGATATCAATTAAAATGAATATCCATAAG
1 GATATTATTGAAAATGAATATCCGCAAGGATATCAATGAAAAAAAATATCCACAAG
* * * *
33818739 GATATTATTGAAAAGGGATATCCGCAAGGATATCAATGAAAAAAAATATTCGCAAG
1 GATATTATTGAAAATGAATATCCGCAAGGATATCAATGAAAAAAAATATCCACAAG
*
33818795 GATATCATTGAAAAT
1 GATATTATTGAAAAT
33818810 ATTATATCCG
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (56 bp):
GATATTATTGAAAATGAATATCCGCAAGGATATCAATGAAAAAAAATATCCACAAG
Found at i:33818828 original size:29 final size:27
Alignment explanation
Indices: 33818775--33818883 Score: 87
Period size: 29 Copynumber: 3.9 Consensus size: 27
33818765 AGGATATCAA
** * *
33818775 TGAAAAAAAATATTCGCAAGGATATCAT
1 TGAAAAATTATATTCGAAAAGATAT-AT
*
33818803 TGAAAATATTATATCCGAAAAGATAT-T
1 TGAAAA-ATTATATTCGAAAAGATATAT
**
33818830 TGAAAAAGTTATATTCGAATGGATATATT
1 TGAAAAA-TTATATTCGAAAAGATATA-T
33818859 TGAAAAGGA-TATATTCGAAAAGATA
1 TGAAAA--ATTATATTCGAAAAGATA
33818884 ATAAATGAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
26 1 0.02
27 22 0.34
28 6 0.09
29 35 0.54
31 1 0.02
ACGTcount: A:0.48, C:0.06, G:0.16, T:0.30
Consensus pattern (27 bp):
TGAAAAATTATATTCGAAAAGATATAT
Found at i:33818858 original size:14 final size:14
Alignment explanation
Indices: 33818839--33818883 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
33818829 TTGAAAAAGT
*
33818839 TATATTCGAATGGA
1 TATATTCGAAAGGA
*
33818853 TATATTTGAAAAGGA
1 TATATTCG-AAAGGA
*
33818868 TATATTCGAAAAGA
1 TATATTCGAAAGGA
33818882 TA
1 TA
33818884 ATAAATGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.33
Consensus pattern (14 bp):
TATATTCGAAAGGA
Found at i:33818870 original size:15 final size:15
Alignment explanation
Indices: 33818812--33818880 Score: 65
Period size: 15 Copynumber: 4.9 Consensus size: 15
33818802 TTGAAAATAT
*
33818812 TATATCCGAAAA-GA
1 TATATTCGAAAAGGA
* *
33818826 TAT-TT-GAAAAAGT
1 TATATTCGAAAAGGA
*
33818839 TATATTCG-AATGGA
1 TATATTCGAAAAGGA
*
33818853 TATATTTGAAAAGGA
1 TATATTCGAAAAGGA
33818868 TATATTCGAAAAG
1 TATATTCGAAAAG
33818881 ATAATAAATG
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
12 5 0.12
13 5 0.12
14 15 0.35
15 18 0.42
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.32
Consensus pattern (15 bp):
TATATTCGAAAAGGA
Found at i:33820215 original size:31 final size:31
Alignment explanation
Indices: 33820177--33820237 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
33820167 GAAACCTTGA
33820177 CATAGATTAGATTGGCCAAAATGGAAAGATT
1 CATAGATTAGATTGGCCAAAATGGAAAGATT
33820208 CATAGATTAGATTGGCCAAAATGGAAAGAT
1 CATAGATTAGATTGGCCAAAATGGAAAGAT
33820238 GCAATCCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.10, G:0.23, T:0.25
Consensus pattern (31 bp):
CATAGATTAGATTGGCCAAAATGGAAAGATT
Found at i:33821579 original size:11 final size:11
Alignment explanation
Indices: 33821560--33821612 Score: 70
Period size: 11 Copynumber: 4.8 Consensus size: 11
33821550 ACCTAAGTCA
*
33821560 GACCGTTGATC
1 GACCGTTGAAC
* *
33821571 GATCGTTGATC
1 GACCGTTGAAC
33821582 GACCGTTGAAC
1 GACCGTTGAAC
33821593 GACCGTTGAAC
1 GACCGTTGAAC
*
33821604 GATCGTTGA
1 GACCGTTGA
33821613 CCGCTGATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (11 bp):
GACCGTTGAAC
Found at i:33822696 original size:5 final size:5
Alignment explanation
Indices: 33822686--33822728 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
33822676 AAAATTTGCA
*
33822686 TTATT TTATT TTATT TTATTT TTATT TT-TA TTATT TTGATT TT
1 TTATT TTATT TTATT TTA-TT TTATT TTATT TTATT TT-ATT TT
33822729 GGGTTATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
4 3 0.09
5 20 0.61
6 10 0.30
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:33822853 original size:28 final size:26
Alignment explanation
Indices: 33822800--33822861 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
33822790 AGACTTTTGA
*
33822800 TATTTTATTTTTGAAAGTTTAATTAAC
1 TATTTTA-TTTTGAAAGTATAATTAAC
33822827 TTATTTTATTTT-AAAGTATAGATTTAAC
1 -TATTTTATTTTGAAAGTATA-A-TTAAC
33822855 -ATTTTAT
1 TATTTTAT
33822862 ATAAGTATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
26 14 0.45
27 5 0.16
28 12 0.39
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (26 bp):
TATTTTATTTTGAAAGTATAATTAAC
Found at i:33825452 original size:29 final size:28
Alignment explanation
Indices: 33825389--33825598 Score: 170
Period size: 30 Copynumber: 7.1 Consensus size: 28
33825379 ATTTTACTCA
* *
33825389 AAAATCACATTTTAACCCCAAATTTTCCT
1 AAAATCACATTTTAACCCTAAACTTT-CT
* * *
33825418 -AAATCATATTTTGATCCTTAAACTTTCT
1 AAAATCACATTTT-AACCCTAAACTTTCT
33825446 AAAATCACATTTTAACACCTAAACTTTCCT
1 AAAATCACATTTTAAC-CCTAAACTTT-CT
* * * *
33825476 AAAATTATATTTTGACCCTTAAACTTTTCA
1 AAAATCACATTTTAACCC-TAAAC-TTTCT
*
33825506 AAAATCACATTTTAACCCTAAACTTCCT
1 AAAATCACATTTTAACCCTAAACTTTCT
* * *
33825534 AAAATTACATTTTAACCCCCAAACCTTTCCA
1 AAAATCACATTTTAA-CCCTAAA-CTTT-CT
* * *
33825565 AAAATTACATTTTGACCCTCAAAATTCTCT
1 AAAATCACATTTTAACCCT-AAACTT-TCT
33825595 AAAA
1 AAAA
33825599 CTTCATTTTT
Statistics
Matches: 145, Mismatches: 25, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
28 32 0.22
29 42 0.29
30 49 0.34
31 22 0.15
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (28 bp):
AAAATCACATTTTAACCCTAAACTTTCT
Found at i:33825498 original size:59 final size:59
Alignment explanation
Indices: 33825386--33825613 Score: 250
Period size: 59 Copynumber: 3.8 Consensus size: 59
33825376 CTTATTTTAC
* * * *
33825386 TCAAAAATCACATTTTAACCCCAAATTTTCCT-AAATCATATTTTGATCCTTAAAC-TT
1 TCAAAAATCACATTTTAACCCTAAACTTTCCTAAAATTATATTTTGACCCTTAAACTTT
*
33825443 TCTAAAATCACATTTTAACACCTAAACTTTCCTAAAATTATATTTTGACCCTTAAACTTT
1 TCAAAAATCACATTTTAAC-CCTAAACTTTCCTAAAATTATATTTTGACCCTTAAACTTT
* * **
33825503 TCAAAAATCACATTTTAACCCTAAAC-TTCCTAAAATTACATTTTAACCCCCAAACCTTT
1 TCAAAAATCACATTTTAACCCTAAACTTTCCTAAAATTATATTTTGACCCTTAAA-CTTT
* * * *
33825562 CCAAAAATTACATTTTGACCCTCAAA-ATTCTCTAAAACTTCAT-TTTTGACCC
1 TCAAAAATCACATTTTAACCCT-AAACTTTC-CTAAAA-TT-ATATTTTGACCC
33825614 CATATTTTTC
Statistics
Matches: 147, Mismatches: 15, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
57 18 0.12
58 35 0.24
59 51 0.35
60 26 0.18
61 6 0.04
62 10 0.07
63 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.36
Consensus pattern (59 bp):
TCAAAAATCACATTTTAACCCTAAACTTTCCTAAAATTATATTTTGACCCTTAAACTTT
Found at i:33825693 original size:27 final size:27
Alignment explanation
Indices: 33825639--33825696 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
33825629 CTTTTTTTGA
*
33825639 TTCTTTGTACATAAAATTAATTTATTT
1 TTCTTTGTACATAAAATTAATCTATTT
* * *
33825666 TTCTTTGTATATTAAATTAATCCTTTTT
1 TTCTTTGTACATAAAATTAAT-CTATTT
33825694 TTC
1 TTC
33825697 CCGATGATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 19 0.73
28 7 0.27
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (27 bp):
TTCTTTGTACATAAAATTAATCTATTT
Found at i:33826536 original size:12 final size:12
Alignment explanation
Indices: 33826521--33826555 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
33826511 TTTTTACTGT
33826521 TATTTTTGTTAC
1 TATTTTTGTTAC
*
33826533 TATTTTTGTTGC
1 TATTTTTGTTAC
33826545 TATTTTTGTTA
1 TATTTTTGTTA
33826556 TTTTGCTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69
Consensus pattern (12 bp):
TATTTTTGTTAC
Found at i:33826571 original size:12 final size:12
Alignment explanation
Indices: 33826511--33826594 Score: 59
Period size: 12 Copynumber: 7.3 Consensus size: 12
33826501 TTTGTTGCCT
*
33826511 TTTTTACTGTTA
1 TTTTTGCTGTTA
* **
33826523 TTTTTGTTACTA
1 TTTTTGCTGTTA
* *
33826535 TTTTTGTTGCTA
1 TTTTTGCTGTTA
33826547 -TTTT--TGTTA
1 TTTTTGCTGTTA
33826556 -TTTTGCTGTTA
1 TTTTTGCTGTTA
*
33826567 TTTTTGCTGCTA
1 TTTTTGCTGTTA
* *
33826579 TTTTGGTTGTTA
1 TTTTTGCTGTTA
33826591 TTTT
1 TTTT
33826595 GGTTGCTTGG
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
9 8 0.14
11 9 0.15
12 42 0.71
ACGTcount: A:0.11, C:0.07, G:0.14, T:0.68
Consensus pattern (12 bp):
TTTTTGCTGTTA
Found at i:33826612 original size:44 final size:44
Alignment explanation
Indices: 33826520--33826615 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 44
33826510 TTTTTTACTG
* * * * * *
33826520 TTATTTTTGTTACTATTTTTGTTGCTATTTTTGTTATTTTGCTG
1 TTATTTTTGCTACTATTTTGGTTGCTATTTTGGTTACTTGGCTA
* * *
33826564 TTATTTTTGCTGCTATTTTGGTTGTTATTTTGGTTGCTTGGCTA
1 TTATTTTTGCTACTATTTTGGTTGCTATTTTGGTTACTTGGCTA
33826608 TTATTTTT
1 TTATTTTT
33826616 ATGCGTTTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.10, C:0.07, G:0.17, T:0.66
Consensus pattern (44 bp):
TTATTTTTGCTACTATTTTGGTTGCTATTTTGGTTACTTGGCTA
Found at i:33829532 original size:10 final size:10
Alignment explanation
Indices: 33829489--33829535 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
33829479 CATTTAACCG
33829489 AATTAACCAA
1 AATTAACCAA
33829499 AA-TAACCAA
1 AATTAACCAA
* ***
33829508 AACTAATTGA
1 AATTAACCAA
33829518 AATTAACCAA
1 AATTAACCAA
33829528 AATTAACC
1 AATTAACC
33829536 GAATTGGTAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
9 9 0.31
10 20 0.69
ACGTcount: A:0.57, C:0.19, G:0.02, T:0.21
Consensus pattern (10 bp):
AATTAACCAA
Found at i:33833676 original size:18 final size:19
Alignment explanation
Indices: 33833653--33833702 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
33833643 CACCTCTTTA
*
33833653 TTTATTTATTTATTT-TTC
1 TTTATTTATTTATTTATGC
*
33833671 TTTATTAATTT-TTTATGC
1 TTTATTTATTTATTTATGC
*
33833689 -TTACTTATTTATTT
1 TTTATTTATTTATTT
33833703 GTATCCCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTATTTATTTATTTATGC
Found at i:33833933 original size:23 final size:24
Alignment explanation
Indices: 33833900--33833960 Score: 88
Period size: 23 Copynumber: 2.6 Consensus size: 24
33833890 ACCATTACTA
*
33833900 TTATTATTTTTATTTTGTTTA-TG
1 TTATTAATTTTATTTTGTTTAGTG
*
33833923 TTATTAATTTTATTTTTTTTAGTG
1 TTATTAATTTTATTTTGTTTAGTG
*
33833947 TTATTTATTTTATT
1 TTATTAATTTTATT
33833961 CTATTATTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 19 0.56
24 15 0.44
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.74
Consensus pattern (24 bp):
TTATTAATTTTATTTTGTTTAGTG
Found at i:33834313 original size:21 final size:23
Alignment explanation
Indices: 33834266--33834313 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
33834256 AACGTTTTTT
* *
33834266 ATTTTCGAAGATTCGAGATGTTG
1 ATTTTCGAAGATTCAAGATGATG
33834289 -TTTT-GAAGATTCAAGAT-ATG
1 ATTTTCGAAGATTCAAGATGATG
33834309 ATTTT
1 ATTTT
33834314 TTCTTTGACG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.09
21 16 0.73
22 4 0.18
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (23 bp):
ATTTTCGAAGATTCAAGATGATG
Found at i:33835718 original size:21 final size:19
Alignment explanation
Indices: 33835694--33835741 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
33835684 TACAGTATTG
33835694 TTATATTATTTAATTTTATCA
1 TTATATTA-TTAATTTTA-CA
*
33835715 TTATTATTATTATTTTTACA
1 TTA-TATTATTAATTTTACA
33835735 TTA-ATTA
1 TTATATTA
33835742 CAAGTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 4 0.16
20 5 0.20
21 11 0.44
22 5 0.20
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATATTATTAATTTTACA
Found at i:33837148 original size:12 final size:12
Alignment explanation
Indices: 33837131--33837160 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33837121 AACATAATGA
33837131 TTAATAAAAAAT
1 TTAATAAAAAAT
33837143 TTAATAAAAAAT
1 TTAATAAAAAAT
*
33837155 ATAATA
1 TTAATA
33837161 TTATTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TTAATAAAAAAT
Found at i:33838423 original size:118 final size:118
Alignment explanation
Indices: 33838185--33838424 Score: 473
Period size: 117 Copynumber: 2.0 Consensus size: 118
33838175 AATTTTTTTT
33838185 AAAAAATTAATCATTATGAATTATAAAATAAGTATAAAAAATGTATTAACTTTAAAAAATTAATC
1 AAAAAATTAATCATTATGAATTATAAAATAAGTATAAAAAATGTATTAACTTTAAAAAATTAATC
33838250 ATTATGAATTAATTAAAGCTATATACGCCCGTAACTTTATCAATTATCATTAA
66 ATTATGAATTAATTAAAGCTATATACGCCCGTAACTTTATCAATTATCATTAA
33838303 AAAAAATTAATCATTATGAATTATAAAATAAGTATAAAAAATGTATTAA-TTTAAAAAATTAATC
1 AAAAAATTAATCATTATGAATTATAAAATAAGTATAAAAAATGTATTAACTTTAAAAAATTAATC
33838367 ATTATGAATTAATTAAAGCTATATACGCCCGTAACTTTATCAATTATCATTAA
66 ATTATGAATTAATTAAAGCTATATACGCCCGTAACTTTATCAATTATCATTAA
33838420 AAAAA
1 AAAAA
33838425 CTCATAAACA
Statistics
Matches: 122, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
117 73 0.60
118 49 0.40
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (118 bp):
AAAAAATTAATCATTATGAATTATAAAATAAGTATAAAAAATGTATTAACTTTAAAAAATTAATC
ATTATGAATTAATTAAAGCTATATACGCCCGTAACTTTATCAATTATCATTAA
Found at i:33847762 original size:4 final size:4
Alignment explanation
Indices: 33847755--33847802 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
33847745 ATTAATTATT
* * * * *
33847755 TTTA TTTA TTTA TTTA TTTA TATA CTAA CTTA CTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
33847803 CATCCTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (4 bp):
TTTA
Found at i:33850922 original size:42 final size:42
Alignment explanation
Indices: 33850875--33850958 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
33850865 GAAAGGAGTT
*
33850875 GTTTATGAGTGTTATTT-AGGAATAAAATTATATTTGGGTTTA
1 GTTTATGAGTGTT-TTTGAAGAATAAAATTATATTTGGGTTTA
*
33850917 GTTTATGAGTGTTTTTGAAGAATGAAATTATATTTGGGTTTA
1 GTTTATGAGTGTTTTTGAAGAATAAAATTATATTTGGGTTTA
33850959 AAAATATTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
41 3 0.08
42 36 0.92
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.48
Consensus pattern (42 bp):
GTTTATGAGTGTTTTTGAAGAATAAAATTATATTTGGGTTTA
Found at i:33852045 original size:28 final size:27
Alignment explanation
Indices: 33852000--33852139 Score: 129
Period size: 28 Copynumber: 5.0 Consensus size: 27
33851990 AGATTTAGAT
33852000 AATATTTTGAACTCTGGCTCAAAAGAGC
1 AATATTTTGAACT-TGGCTCAAAAGAGC
* * *
33852028 AATATTCTGAATCTTGGCTCGAAAGAGT
1 AATATTTTGAA-CTTGGCTCAAAAGAGC
* *
33852056 AATATTTTGTA-TCTGGCTCAATAGAGC
1 AATATTTTGAACT-TGGCTCAAAAGAGC
* * * *
33852083 ATTACTTTGAACTTTGGCTCGAAAGAGT
1 AATATTTTGAAC-TTGGCTCAAAAGAGC
* *
33852111 AGTATTTTGAACTTTGGCTCAATAGAGC
1 AATATTTTGAAC-TTGGCTCAAAAGAGC
33852139 A
1 A
33852140 TTACTCTGTA
Statistics
Matches: 89, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
26 1 0.01
27 19 0.21
28 66 0.74
29 3 0.03
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (27 bp):
AATATTTTGAACTTGGCTCAAAAGAGC
Found at i:33852100 original size:55 final size:55
Alignment explanation
Indices: 33851999--33852163 Score: 226
Period size: 55 Copynumber: 3.0 Consensus size: 55
33851989 AAGATTTAGA
* *
33851999 TAATATTTTGAACTCTGGCTCAAAAGAGCAATA-TTCTGAATCTTGGCTCGAAAGAG
1 TAATATTTTGAACTCTGGCTCAATAGAGCATTACTT-TGAAT-TTGGCTCGAAAGAG
*
33852055 TAATATTTTGTA-TCTGGCTCAATAGAGCATTACTTTGAACTTTGGCTCGAAAGAG
1 TAATATTTTGAACTCTGGCTCAATAGAGCATTACTTTGAA-TTTGGCTCGAAAGAG
* * * *
33852110 TAGTATTTTGAACTTTGGCTCAATAGAGCATTACTCTGTATTTGGCTCGAAAGA
1 TAATATTTTGAACTCTGGCTCAATAGAGCATTACTTTGAATTTGGCTCGAAAGA
33852164 ACATTATTAT
Statistics
Matches: 98, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
55 60 0.61
56 38 0.39
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (55 bp):
TAATATTTTGAACTCTGGCTCAATAGAGCATTACTTTGAATTTGGCTCGAAAGAG
Found at i:33852150 original size:83 final size:83
Alignment explanation
Indices: 33852005--33852157 Score: 184
Period size: 83 Copynumber: 1.8 Consensus size: 83
33851995 TAGATAATAT
* * *
33852005 TTTGAACTCTGGCTCAAAAGAGCAATATTCTGAATCTTGGCTCGAAAGAGTAATATTTTGTATCT
1 TTTGAACTCTGGCTCAAAAGAGCAATATTCTGAATCTTGGCTCGAAAGAGCAATACTCTGTATCT
33852070 GGCTCAATAGAGCATTAC
66 GGCTCAATAGAGCATTAC
* * * * * *
33852088 TTTGAACTTTGGCTCGAAAGAGTAGTATTTTGAA-CTTTGGCTC-AATAGAGCATTACTCTGTAT
1 TTTGAACTCTGGCTCAAAAGAGCAATATTCTGAATC-TTGGCTCGAA-AGAGCAATACTCTGTAT
*
33852151 TTGGCTC
64 CTGGCTC
33852158 GAAAGAACAT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
82 3 0.05
83 55 0.95
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (83 bp):
TTTGAACTCTGGCTCAAAAGAGCAATATTCTGAATCTTGGCTCGAAAGAGCAATACTCTGTATCT
GGCTCAATAGAGCATTAC
Found at i:33852168 original size:27 final size:28
Alignment explanation
Indices: 33852123--33852189 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 28
33852113 TATTTTGAAC
* *
33852123 TTTGGCTC-AATAGAGCATTACTCTGTA
1 TTTGGCTCGAATAGAACATTACTATGTA
* *
33852150 TTTGGCTCGAA-AGAACATTATTATGTG
1 TTTGGCTCGAATAGAACATTACTATGTA
33852177 TTTGGCTCGAATA
1 TTTGGCTCGAATA
33852190 AGCCATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 31 0.91
28 3 0.09
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (28 bp):
TTTGGCTCGAATAGAACATTACTATGTA
Found at i:33853743 original size:15 final size:16
Alignment explanation
Indices: 33853698--33853753 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 16
33853688 TGTTTACAAA
* *
33853698 AAAATATTAAAATTAAT
1 AAAAT-TTAAATTTAAC
*
33853715 AAAA-ATAAATTTAAC
1 AAAATTTAAATTTAAC
*
33853730 AATATTTAAA-TTAAC
1 AAAATTTAAATTTAAC
33853745 AAAATTTAA
1 AAAATTTAA
33853754 TTTTCGTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
15 24 0.75
16 4 0.12
17 4 0.12
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATTTAAATTTAAC
Found at i:33865182 original size:158 final size:157
Alignment explanation
Indices: 33864793--33865185 Score: 491
Period size: 157 Copynumber: 2.5 Consensus size: 157
33864783 TGTAATGCTT
* * * ** *
33864793 ACACGAGCTATGAAATGAGCCTGTTCACACGAGCTGTGGGTCGGGATGTTAAGCTACACGATGCT
1 ACACGATCTGTGAAATGGGCCTAATCACACGAGCTGTGGGTCGAGATGTTAAGCTACACGATGCT
* * ** *
33864858 GCTCACACGAGTTGTGGAGAATATGCAACATTTGCAAAATCTCAACTGTCGGTAGGACATTCAAG
66 GCTCACACGAGCTGTGGAGAATATGCAACAATTGCAAAATCTCAACCATCGGTAGGACATCCAAG
*
33864923 CTAGCACCCTTATATCCTGTATGGCTC
131 CCAGCACCCTTATATCCTGTATGGCTC
* * * * * * * * ** *
33864950 AGATGATCAGTAAAATCGGCTTACTCACACGAGCTATGGGTTAAGATGTTAAGCTACACGATACT
1 ACACGATCTGTGAAATGGGCCTAATCACACGAGCTGTGGGTCGAGATGTTAAGCTACACGATGCT
* *
33865015 AG-TCACACGAGCTGTGGAGAATATGCAACAATTGCAAGATCTCAGCCATCGGTAGGACATCCAA
66 -GCTCACACGAGCTGTGGAGAATATGCAACAATTGCAAAATCTCAACCATCGGTAGGACATCCAA
*
33865079 GACCAGCATCCTTATATCCTGTATGGCTC
130 G-CCAGCACCCTTATATCCTGTATGGCTC
* * * *
33865108 ACACGATCTGTGAAATGGGCCTAATCACTCGAGTTGTGAGTCGAGATGTTAAGCTACATGATGCT
1 ACACGATCTGTGAAATGGGCCTAATCACACGAGCTGTGGGTCGAGATGTTAAGCTACACGATGCT
33865173 GCTCACACGAGCT
66 GCTCACACGAGCT
33865186 TTGTAACACC
Statistics
Matches: 193, Mismatches: 40, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
157 106 0.55
158 87 0.45
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (157 bp):
ACACGATCTGTGAAATGGGCCTAATCACACGAGCTGTGGGTCGAGATGTTAAGCTACACGATGCT
GCTCACACGAGCTGTGGAGAATATGCAACAATTGCAAAATCTCAACCATCGGTAGGACATCCAAG
CCAGCACCCTTATATCCTGTATGGCTC
Found at i:33884407 original size:52 final size:52
Alignment explanation
Indices: 33884268--33884408 Score: 194
Period size: 52 Copynumber: 2.7 Consensus size: 52
33884258 ATTTTACTTC
* *
33884268 ATTCATATACTCACGATGACACATAGCCACCGGACCTTATAATCCGCAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTTATAATCCGCAAAGG
* * * *
33884320 ATTCATATTCTCACGATGACCCATAATCATCGGACCGTT-TAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACC-TTATAATCCGCAAAGG
* *
33884372 ATTCATATACTCACGATGACACTTAGTCATTGGACCT
1 ATTCATATACTCACGATGACACATAGTCATCGGACCT
33884409 CTTCGTTTAT
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
51 1 0.01
52 74 0.96
53 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACATAGTCATCGGACCTTATAATCCGCAAAGG
Found at i:33885719 original size:39 final size:38
Alignment explanation
Indices: 33885662--33885797 Score: 146
Period size: 39 Copynumber: 3.5 Consensus size: 38
33885652 TAGTTCTCAA
*
33885662 ATTACTGAACTGGCAGTGACATTGGAAAAGCTGTAATAC
1 ATTACTGAACTGGCAGTGACATTGGAAAA-CTGCAATAC
* * * *
33885701 ATTACTGAACTGGTAGTGACACTAGAAACACTGCGATAC
1 ATTACTGAACTGGCAGTGACATTGGAAA-ACTGCAATAC
* * * *
33885740 ATTACTGAACTGACAATGACACTGGGAAAACTGCAGTAC
1 ATTACTGAACTGGCAGTGACA-TTGGAAAACTGCAATAC
* *
33885779 ATTATTGAACTGGTAGTGA
1 ATTACTGAACTGGCAGTGA
33885798 AACTATAAAC
Statistics
Matches: 78, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 73 0.94
40 5 0.06
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (38 bp):
ATTACTGAACTGGCAGTGACATTGGAAAACTGCAATAC
Found at i:33885824 original size:78 final size:79
Alignment explanation
Indices: 33885662--33885840 Score: 220
Period size: 78 Copynumber: 2.3 Consensus size: 79
33885652 TAGTTCTCAA
* * * *
33885662 ATTACTGAACTGGCAGTGACA-TTGGAAAAGCTGTAATACATTACTGAACTGGTAGTGACACTAG
1 ATTACTGAACTGACAGTGACACTGGGAAAAGCTGCAATACATTACTGAACTGGTAGTGAAACTAG
*
33885726 AAACACTGCGATAC
66 AAACACTGCAATAC
* * * *
33885740 ATTACTGAACTGACAATGACACTGGGAAAA-CTGCAGTACATTATTGAACTGGTAGTGAAACTAT
1 ATTACTGAACTGACAGTGACACTGGGAAAAGCTGCAATACATTACTGAACTGGTAGTGAAACTAG
*
33885804 AAACACTGTAATA-
66 AAACACTGCAATAC
* *
33885817 TTATACTGAACTGACGGTGACACT
1 AT-TACTGAACTGACAGTGACACT
33885841 ATAAATACCG
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
77 1 0.01
78 78 0.91
79 7 0.08
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (79 bp):
ATTACTGAACTGACAGTGACACTGGGAAAAGCTGCAATACATTACTGAACTGGTAGTGAAACTAG
AAACACTGCAATAC
Found at i:33894017 original size:91 final size:91
Alignment explanation
Indices: 33893862--33894041 Score: 342
Period size: 91 Copynumber: 2.0 Consensus size: 91
33893852 TTAAGGTAAA
*
33893862 GCTATGGTTTTACTTTGACGGACTGGAATTGTGGATGATTAGTTGTATGTAAATTGATGCGAGAA
1 GCTATGGTTTTACTTTGACGGACTGGAATTGTGGATGATTAGTTGTATGTAAATTCATGCGAGAA
33893927 TGGGATTGATCATATAGATGGTTAAT
66 TGGGATTGATCATATAGATGGTTAAT
*
33893953 GCTATGGTTTTACTTTGACGGACTTGAATTGTGGATGATTAGTTGTATGTAAATTCATGCGAGAA
1 GCTATGGTTTTACTTTGACGGACTGGAATTGTGGATGATTAGTTGTATGTAAATTCATGCGAGAA
33894018 TGGGATTGATCATATAGATGGTTA
66 TGGGATTGATCATATAGATGGTTA
33894042 TTTCATGTCA
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 87 1.00
ACGTcount: A:0.27, C:0.07, G:0.28, T:0.38
Consensus pattern (91 bp):
GCTATGGTTTTACTTTGACGGACTGGAATTGTGGATGATTAGTTGTATGTAAATTCATGCGAGAA
TGGGATTGATCATATAGATGGTTAAT
Found at i:33898645 original size:50 final size:50
Alignment explanation
Indices: 33898577--33898677 Score: 150
Period size: 50 Copynumber: 2.0 Consensus size: 50
33898567 AGATCTGTAC
*
33898577 AAAATAATATAAACAAATATTTATATTTATGTAAAAACACCATATCTAAAT
1 AAAAAAATATAAACAAATATTTATATTTAT-TAAAAACACCATATCTAAAT
* * *
33898628 AAAAAAAT-TAAATAAATATTTATATTTATTTAAAACATCATATCTAAAT
1 AAAAAAATATAAACAAATATTTATATTTATTAAAAACACCATATCTAAAT
33898677 A
1 A
33898678 TAATTTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 19 0.41
50 20 0.43
51 7 0.15
ACGTcount: A:0.55, C:0.08, G:0.01, T:0.36
Consensus pattern (50 bp):
AAAAAAATATAAACAAATATTTATATTTATTAAAAACACCATATCTAAAT
Found at i:33906326 original size:17 final size:18
Alignment explanation
Indices: 33906289--33906327 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33906279 CTAAAATGAA
**
33906289 AAAAAAAATTTAAATTTT
1 AAAAAAAATTTAAATAAT
33906307 AAAAAAAATTTAAA-AAT
1 AAAAAAAATTTAAATAAT
33906324 AAAA
1 AAAA
33906328 TTACACTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAAAAATTTAAATAAT
Found at i:33906381 original size:22 final size:22
Alignment explanation
Indices: 33906356--33906416 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
33906346 TAAAAATAAT
* **
33906356 AAAATTTTAATTTAATATTTTA
1 AAAATTATAATTTAATATCATA
* *
33906378 AAAATTACATATTTACTATCATA
1 AAAATTATA-ATTTAATATCATA
33906401 AAAATTATAATTTAAT
1 AAAATTATAATTTAAT
33906417 TTTAAACTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
22 13 0.42
23 18 0.58
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (22 bp):
AAAATTATAATTTAATATCATA
Found at i:33915698 original size:21 final size:21
Alignment explanation
Indices: 33915672--33915711 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
33915662 TTTTCTAAAA
*
33915672 TTAAAAGTCAAAACCATTAAG
1 TTAAAAGGCAAAACCATTAAG
*
33915693 TTAAAAGGCAAAATCATTA
1 TTAAAAGGCAAAACCATTA
33915712 TATTGTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.25
Consensus pattern (21 bp):
TTAAAAGGCAAAACCATTAAG
Found at i:33917230 original size:14 final size:14
Alignment explanation
Indices: 33917211--33917251 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
33917201 AGGTGATCTG
33917211 TATATATAGACATA
1 TATATATAGACATA
*
33917225 TATATATATG-TATA
1 TATATATA-GACATA
33917239 TATATATAGACAT
1 TATATATAGACAT
33917252 GAGCACGGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 1 0.04
14 21 0.91
15 1 0.04
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (14 bp):
TATATATAGACATA
Found at i:33920114 original size:24 final size:24
Alignment explanation
Indices: 33920074--33920154 Score: 117
Period size: 24 Copynumber: 3.4 Consensus size: 24
33920064 ATCTAGACTA
* *
33920074 AGAGTTTGACTGAAACAAATAAAC
1 AGAGTTTAATTGAAACAAATAAAC
*
33920098 AGAGTTTAATTGTAACAAATAAAC
1 AGAGTTTAATTGAAACAAATAAAC
* *
33920122 AAAGTTTAATTGAAACAAATTAAC
1 AGAGTTTAATTGAAACAAATAAAC
33920146 AGAGTTTAA
1 AGAGTTTAA
33920155 CTGGAAGATT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.27
Consensus pattern (24 bp):
AGAGTTTAATTGAAACAAATAAAC
Found at i:33923973 original size:129 final size:129
Alignment explanation
Indices: 33923821--33924078 Score: 437
Period size: 129 Copynumber: 2.0 Consensus size: 129
33923811 TATAAATCTG
*
33923821 TCTCAAACCTTGAATCTTTAAAACCCATTAACCCAAATATTCAAGATTTTTTATTCTAATATCTT
1 TCTCAAACCTTGAATCTTTAAAACCCATTAACCCAAATATTCAAGATTTTTTATTCCAATATCTT
*
33923886 CTTCCCTTTAAGTTTCTTTGGGTTAATGGGTTTCAAAGATTCAAG-TTTTGAGACAGATTTGTAA
66 CTTCCATTTAAGTTTCTTTGGGTTAATGGGTTTCAAAGATTCAAGCTTTT-AGACAGATTTGTAA
* * **
33923950 TCTCAAAGCTTGAATCTTTAAAACTCATTAACCCAAATATTCAATCTTTTTTATTCCAATATCTT
1 TCTCAAACCTTGAATCTTTAAAACCCATTAACCCAAATATTCAAGATTTTTTATTCCAATATCTT
*
33924015 CTTCCATTTAAGTTTCTTTGGGTTAATTGGTTTCAAAGATTCAAGCTTTTAGACAGATTTGTAA
66 CTTCCATTTAAGTTTCTTTGGGTTAATGGGTTTCAAAGATTCAAGCTTTTAGACAGATTTGTAA
33924079 CTAAAGATAT
Statistics
Matches: 121, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
129 117 0.97
130 4 0.03
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (129 bp):
TCTCAAACCTTGAATCTTTAAAACCCATTAACCCAAATATTCAAGATTTTTTATTCCAATATCTT
CTTCCATTTAAGTTTCTTTGGGTTAATGGGTTTCAAAGATTCAAGCTTTTAGACAGATTTGTAA
Found at i:33930110 original size:10 final size:10
Alignment explanation
Indices: 33930074--33930104 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
33930064 CTCTGAGTTT
33930074 TGTATGAATG
1 TGTATGAATG
33930084 TGTATGAATG
1 TGTATGAATG
33930094 TGTATGAATG
1 TGTATGAATG
33930104 T
1 T
33930105 TGATGATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (10 bp):
TGTATGAATG
Found at i:33934966 original size:18 final size:20
Alignment explanation
Indices: 33934932--33934972 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
33934922 AAAAAAAATA
33934932 TTTTCATCTTCTATTTA-CT
1 TTTTCATCTTCTATTTAGCT
33934951 TTTTCAT-TT-TATTTTAGCT
1 TTTTCATCTTCTA-TTTAGCT
33934970 TTT
1 TTT
33934973 GAACTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 2 0.10
18 6 0.30
19 12 0.60
ACGTcount: A:0.15, C:0.15, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTCATCTTCTATTTAGCT
Found at i:33935124 original size:18 final size:18
Alignment explanation
Indices: 33935101--33935140 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33935091 AATTTCAAAA
**
33935101 AAAATTATAAAATTTATT
1 AAAATTATAAAAGATATT
*
33935119 AAAATTTTAAAAGATATT
1 AAAATTATAAAAGATATT
33935137 AAAA
1 AAAA
33935141 AGTAGAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
AAAATTATAAAAGATATT
Found at i:33935794 original size:3 final size:3
Alignment explanation
Indices: 33935786--33935839 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
33935776 CTGTCTCAAA
*
33935786 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
33935834 TAT TAT
1 TAT TAT
33935840 GTATAACAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:33936127 original size:30 final size:30
Alignment explanation
Indices: 33936056--33936131 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 30
33936046 TTAAAAGCAT
* * *
33936056 ACATTAACTTTGATTTATTGTGTAATTTGAT
1 ACATAAACTTTGA-TTATGGTGTAATTTGAC
33936087 ACATAAACTTTGATT-TGGTGTAATTAT-AC
1 ACATAAACTTTGATTATGGTGTAATT-TGAC
33936116 ACATGAAACTTTGATT
1 ACAT-AAACTTTGATT
33936132 GTGATTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
29 14 0.35
30 14 0.35
31 12 0.30
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (30 bp):
ACATAAACTTTGATTATGGTGTAATTTGAC
Found at i:33936168 original size:31 final size:31
Alignment explanation
Indices: 33936111--33936171 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
33936101 TTGGTGTAAT
* *
33936111 TATACACATGAAACTTTGATTGTGATTCAAA
1 TATACACATAAAACTTTAATTGTGATTCAAA
* *
33936142 TATATACATAAAACTTTAATTTTGATTCAA
1 TATACACATAAAACTTTAATTGTGATTCAA
33936172 CTGTAATCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.39
Consensus pattern (31 bp):
TATACACATAAAACTTTAATTGTGATTCAAA
Found at i:33936797 original size:29 final size:30
Alignment explanation
Indices: 33936742--33936820 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 30
33936732 ATATTAAAAT
* * *
33936742 TATACATGAACTTTGATTTAATATGCAATTG
1 TATACATGAACTTTAATTT-AGATGCAATTA
33936773 TATACATGAACTTTAATTT-GATGCAATTA
1 TATACATGAACTTTAATTTAGATGCAATTA
*
33936802 TACACATGAAACTTTAATT
1 TATACATG-AACTTTAATT
33936821 GTGGTTCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 15 0.35
30 10 0.23
31 18 0.42
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (30 bp):
TATACATGAACTTTAATTTAGATGCAATTA
Found at i:33936817 original size:30 final size:29
Alignment explanation
Indices: 33936745--33936820 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 29
33936735 TTAAAATTAT
* * * *
33936745 ACATGAACTTTGATTTAATATGCAATTGTAT
1 ACATGAACTTTAATTT--GATGCAATTATAC
33936776 ACATGAACTTTAATTTGATGCAATTATAC
1 ACATGAACTTTAATTTGATGCAATTATAC
33936805 ACATGAAACTTTAATT
1 ACATG-AACTTTAATT
33936821 GTGGTTCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 15 0.38
30 10 0.25
31 15 0.38
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (29 bp):
ACATGAACTTTAATTTGATGCAATTATAC
Found at i:33937048 original size:29 final size:30
Alignment explanation
Indices: 33936995--33937053 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
33936985 AAATTGGATT
*
33936995 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAATTTCATGTACAAAATTACACA
*
33937025 AAATCAAAA-TTCATGTACACAATTACACA
1 AAATCAAAATTTCATGTACAAAATTACACA
33937054 TTAAACCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.53, C:0.17, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATCAAAATTTCATGTACAAAATTACACA
Found at i:33941887 original size:3 final size:3
Alignment explanation
Indices: 33941879--33941916 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
33941869 TGTAAGAACT
33941879 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
33941917 ATTCAATCCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:33942501 original size:24 final size:24
Alignment explanation
Indices: 33942464--33942510 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
33942454 AAGTATACCC
*
33942464 TTTTTTTCATTTTGGCACTTAAAT
1 TTTTTTTCAATTTGGCACTTAAAT
* *
33942488 TTTTTTTTAATTTGGTACTTAAA
1 TTTTTTTCAATTTGGCACTTAAA
33942511 GTATACTTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.60
Consensus pattern (24 bp):
TTTTTTTCAATTTGGCACTTAAAT
Found at i:33942817 original size:18 final size:19
Alignment explanation
Indices: 33942785--33942824 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
33942775 TTACTTGAAA
33942785 TTTAAATACATTTTT-AAT
1 TTTAAATACATTTTTCAAT
33942803 TTTAAA-ACATTTTTTCAAT
1 TTTAAATACA-TTTTTCAAT
33942822 TTT
1 TTT
33942825 TACATATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 3 0.15
18 11 0.55
19 6 0.30
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTAAATACATTTTTCAAT
Found at i:33944830 original size:16 final size:17
Alignment explanation
Indices: 33944780--33944830 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
33944770 TAAATTTTTT
33944780 ATTTAT-AAGTATGATAAA
1 ATTTATAAAGTA--ATAAA
33944798 ATTTATAAATGTAATAAA
1 ATTTATAAA-GTAATAAA
*
33944816 TTTTATAAA-TAATAA
1 ATTTATAAAGTAATAA
33944831 GTAATATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
16 6 0.20
18 19 0.63
19 2 0.07
20 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
ATTTATAAAGTAATAAA
Found at i:33952342 original size:43 final size:43
Alignment explanation
Indices: 33952281--33952593 Score: 420
Period size: 43 Copynumber: 7.3 Consensus size: 43
33952271 TTATTAGAAA
* * *
33952281 AAACACCGCTATAA-AACATGGTTTTTAGCGGCGCTTTTCACAA
1 AAACGCCGCTA-AAGAACATGGTCTTTAGCGGCGCTTTTCACAC
*
33952324 AAACGCCGCTAAAGAACATGGTCTTCAGCGGCGCTTTTCACAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCACAC
* * * *
33952367 AAACGCCACTAAAGAACATTG-CTTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGAACATGGTC-TTTAGCGGCGCTTTTCACAC
33952410 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTTC-CAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGC-TTTTCACAC
*
33952453 AAACGCCGCTAAAGAACATGGTCTTCAGCGGCGCTTTTCACAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCACAC
* * * *
33952496 AAACGCCACTAAAGAACATTG-CTTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGAACATGGTC-TTTAGCGGCGCTTTTCACAC
*
33952539 AAACGCCGCTAAAGAACGTGGTCTTTAGCGGCGCTTTTTC-CAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGC-TTTTCACAC
33952582 AAACGCCGCTAA
1 AAACGCCGCTAA
33952594 CATTAATAAA
Statistics
Matches: 240, Mismatches: 22, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
42 9 0.04
43 221 0.92
44 10 0.04
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCACAC
Found at i:33952445 original size:129 final size:129
Alignment explanation
Indices: 33952281--33952593 Score: 558
Period size: 129 Copynumber: 2.4 Consensus size: 129
33952271 TTATTAGAAA
* * *
33952281 AAACACCGCTATAA-AACATGGTTTTTAGCGGCGC-TTTTCACAAAAACGCCGCTAAAGAACATG
1 AAACGCCGCTA-AAGAACATGGTCTTTAGCGGCGCTTTTTC-CACAAACGCCGCTAAAGAACATG
33952344 GTCTTCAGCGGCGCTTTTCACACAAACGCCACTAAAGAACATTGCTTTTAGCGGCGCTTTCCCCA
64 GTCTTCAGCGGCGCTTTTCACACAAACGCCACTAAAGAACATTGCTTTTAGCGGCGCTTTCCCCA
33952409 C
129 C
33952410 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACATGGT
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACATGGT
33952475 CTTCAGCGGCGCTTTTCACACAAACGCCACTAAAGAACATTGCTTTTAGCGGCGCTTTCCCCAC
66 CTTCAGCGGCGCTTTTCACACAAACGCCACTAAAGAACATTGCTTTTAGCGGCGCTTTCCCCAC
*
33952539 AAACGCCGCTAAAGAACGTGGTCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAA
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAA
33952594 CATTAATAAA
Statistics
Matches: 178, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
128 2 0.01
129 171 0.96
130 5 0.03
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.23
Consensus pattern (129 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACATGGT
CTTCAGCGGCGCTTTTCACACAAACGCCACTAAAGAACATTGCTTTTAGCGGCGCTTTCCCCAC
Found at i:33955716 original size:41 final size:41
Alignment explanation
Indices: 33955671--33955931 Score: 332
Period size: 41 Copynumber: 6.4 Consensus size: 41
33955661 TTCTGCTTTA
33955671 ACCTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCTCTG
1 ACCTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCTCTG
* **
33955712 ACCTTTAGCGGCACTTGACCATAAGCGCCGCTATTGCTCTG
1 ACCTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCTCTG
* *
33955753 ACCTTTAGCGGCACTTGAT-CATAAGCGCCGCTATTGCTCTG
1 ACCTTTAGCGGCGCTT-TTCCATAAGCGCCGCTATTGCTCTG
* *
33955794 ACCTTTAGCGGCGC-TTGCTCATAAGCGTCGCTATTGCTCTG
1 ACCTTTAGCGGCGCTTTTC-CATAAGCGCCGCTATTGCTCTG
* * *
33955835 ACCTTTAGCGGCGCTTTTCTATAAGCGCCGCTAATGATC-G
1 ACCTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCTCTG
* * * * *
33955875 ACCTTTAGCGGCGGTTTTCTATAAGCGCCGCGAATGCT-TT
1 ACCTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCTCTG
*
33955915 ACCTTTTGCGGCGCTTT
1 ACCTTTAGCGGCGCTTT
33955932 GTTTCCAAAC
Statistics
Matches: 195, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
40 52 0.27
41 140 0.72
42 3 0.02
ACGTcount: A:0.17, C:0.29, G:0.23, T:0.31
Consensus pattern (41 bp):
ACCTTTAGCGGCGCTTTTCCATAAGCGCCGCTATTGCTCTG
Found at i:33955762 original size:24 final size:24
Alignment explanation
Indices: 33955735--33955849 Score: 69
Period size: 24 Copynumber: 5.4 Consensus size: 24
33955725 CTTGACCATA
33955735 AGCGCCGCTATTGCTCTGACCTTT
1 AGCGCCGCTATTGCTCTGACCTTT
* * *
33955759 AGCG--GC-A---CT-TGATCATA
1 AGCGCCGCTATTGCTCTGACCTTT
33955776 AGCGCCGCTATTGCTCTGACCTTT
1 AGCGCCGCTATTGCTCTGACCTTT
* *
33955800 AGCGGCGC--TTGCTC--A---TA
1 AGCGCCGCTATTGCTCTGACCTTT
*
33955817 AGCGTCGCTATTGCTCTGACCTTT
1 AGCGCCGCTATTGCTCTGACCTTT
*
33955841 AGCGGCGCT
1 AGCGCCGCT
33955850 TTTCTATAAG
Statistics
Matches: 66, Mismatches: 11, Indels: 28
0.63 0.10 0.27
Matches are distributed among these distances:
17 17 0.26
18 2 0.03
19 8 0.12
20 2 0.03
21 2 0.03
22 8 0.12
23 2 0.03
24 25 0.38
ACGTcount: A:0.16, C:0.30, G:0.24, T:0.30
Consensus pattern (24 bp):
AGCGCCGCTATTGCTCTGACCTTT
Found at i:33956358 original size:53 final size:53
Alignment explanation
Indices: 33956278--33956387 Score: 220
Period size: 53 Copynumber: 2.1 Consensus size: 53
33956268 CAATGGAATG
33956278 ATTATTACTTCTCTATTACTTACCCTTCATGCAATTTTGAATAACAAAATAAA
1 ATTATTACTTCTCTATTACTTACCCTTCATGCAATTTTGAATAACAAAATAAA
33956331 ATTATTACTTCTCTATTACTTACCCTTCATGCAATTTTGAATAACAAAATAAA
1 ATTATTACTTCTCTATTACTTACCCTTCATGCAATTTTGAATAACAAAATAAA
33956384 ATTA
1 ATTA
33956388 ATTTCATTAG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.40
Consensus pattern (53 bp):
ATTATTACTTCTCTATTACTTACCCTTCATGCAATTTTGAATAACAAAATAAA
Found at i:33956490 original size:16 final size:18
Alignment explanation
Indices: 33956452--33956494 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
33956442 GAAATACTTT
33956452 AATATAATT-TAATATAA
1 AATATAATTATAATATAA
33956469 AA-ATAATTAT-AT-TAA
1 AATATAATTATAATATAA
33956484 AATATAATTAT
1 AATATAATTAT
33956495 TTATTATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 5 0.21
16 16 0.67
17 3 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AATATAATTATAATATAA
Found at i:33957889 original size:12 final size:12
Alignment explanation
Indices: 33957874--33957900 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33957864 AGTATTGTAA
33957874 GAGGTATTAATG
1 GAGGTATTAATG
33957886 GAGGTATTAATG
1 GAGGTATTAATG
33957898 GAG
1 GAG
33957901 AAGACCTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.37, T:0.30
Consensus pattern (12 bp):
GAGGTATTAATG
Done.