Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4978262
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 24
Found at i:633849 original size:18 final size:18
Alignment explanation
Indices: 633826--633860 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
633816 AGGCGATGGC
*
633826 GGCATCACATATGGCTGT
1 GGCATCACAAATGGCTGT
*
633844 GGCATCATAAATGGCTG
1 GGCATCACAAATGGCTG
633861 CGGTGGCTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.26
Consensus pattern (18 bp):
GGCATCACAAATGGCTGT
Found at i:635564 original size:17 final size:18
Alignment explanation
Indices: 635544--635584 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
635534 GAATTATATT
*
635544 AGTAAAATA-TTAAATAA
1 AGTAAAAAACTTAAATAA
635561 AGTAAAAAACTTAAATAA
1 AGTAAAAAACTTAAATAA
*
635579 ATTAAA
1 AGTAAA
635585 TACATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (18 bp):
AGTAAAAAACTTAAATAA
Found at i:636835 original size:26 final size:26
Alignment explanation
Indices: 636806--636859 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
636796 GGTAATCTGT
*
636806 TTTCGCTTTCTC-TAAAATTTTATAAA
1 TTTC-CTTTCTCTTAAAATATTATAAA
*
636832 TTTCTTTTCTCTTAAAATATTATAAA
1 TTTCCTTTCTCTTAAAATATTATAAA
636858 TT
1 TT
636860 CGACCCTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.31, C:0.13, G:0.02, T:0.54
Consensus pattern (26 bp):
TTTCCTTTCTCTTAAAATATTATAAA
Found at i:641012 original size:39 final size:39
Alignment explanation
Indices: 640919--641201 Score: 192
Period size: 39 Copynumber: 7.0 Consensus size: 39
640909 ACGATTCTCA
* * * *
640919 AAAAAAAATCCAATGATTTATTTCCTTTTATAAAATATG
1 AAAATAAATCCAACGATTTATTTCCTTTTACAAAATAAG
* * * * *
640958 GAAATTAATCTAACGATCTATTTCCTTTTACAAAACAAG
1 AAAATAAATCCAACGATTTATTTCCTTTTACAAAATAAG
* * *
640997 AAAATAAATCAAACGATTTGCTCAATTTATTTGCTTTTTACAATAT-AG
1 AAAATAAATCCAAC-----G----ATTTATTT-CCTTTTACAAAATAAG
* ** *
641045 AAAAATAAATCCAACGATTTTATTTCATTTTTTAAAATATG
1 -AAAATAAATCCAACGA-TTTATTTCCTTTTACAAAATAAG
* * * *
641086 AAAATAAATTCTATGATTTATTTCCTTTTACAAAACAAG
1 AAAATAAATCCAACGATTTATTTCCTTTTACAAAATAAG
* * * * *
641125 AAACTAAATTCAACGATTTGTTTCCTTTTCCAAAATAGG
1 AAAATAAATCCAACGATTTATTTCCTTTTACAAAATAAG
* *
641164 AAAATAAATCCGATGATTTATTTCCTTTTA-AAAGATAA
1 AAAATAAATCCAACGATTTATTTCCTTTTACAAA-ATAA
641202 AATCGTATAA
Statistics
Matches: 186, Mismatches: 44, Indels: 28
0.72 0.17 0.11
Matches are distributed among these distances:
38 3 0.02
39 118 0.63
40 23 0.12
41 8 0.04
44 2 0.01
48 9 0.05
49 23 0.12
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (39 bp):
AAAATAAATCCAACGATTTATTTCCTTTTACAAAATAAG
Found at i:641306 original size:58 final size:58
Alignment explanation
Indices: 641254--641496 Score: 208
Period size: 58 Copynumber: 4.3 Consensus size: 58
641244 AAGATTCATG
* *
641254 AGAAAATAAATTTAACAATTTATTTCCTT-TAACAAA-ATAGAATCATTTAAGATTCTCA
1 AGAAAATAAATTCAACAATTTATTT--TTCTAACAAAGATAAAATCATTTAAGATTCTCA
* *
641312 AGAAAATAAATTCAACAATTTATTTTTCTTACAAAGTTAAAATCATTTAAGATTCTCA
1 AGAAAATAAATTCAACAATTTATTTTTCTAACAAAGATAAAATCATTTAAGATTCTCA
* * *
641370 AGGAAATAAATTCAACAATTTA-TTTTC---C-----T---ATCATTCAAGAATCTCA
1 AGAAAATAAATTCAACAATTTATTTTTCTAACAAAGATAAAATCATTTAAGATTCTCA
* * * * * *
641416 AGGAAATAAATTCAACAATTTATTTTCCTTATAAAGTTAATTAGAATCATTTAAGATCCTCA
1 AGAAAATAAATTCAACAATTTATTTTTCTAACAAAG---A-TAAAATCATTTAAGATTCTCA
*
641478 AGGAAATAAATTCAACAAT
1 AGAAAATAAATTCAACAAT
641497 ATAATTCTCT
Statistics
Matches: 155, Mismatches: 12, Indels: 32
0.78 0.06 0.16
Matches are distributed among these distances:
46 37 0.24
47 4 0.03
49 1 0.01
54 1 0.01
56 2 0.01
57 11 0.07
58 65 0.42
59 1 0.01
62 33 0.21
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (58 bp):
AGAAAATAAATTCAACAATTTATTTTTCTAACAAAGATAAAATCATTTAAGATTCTCA
Found at i:641420 original size:46 final size:46
Alignment explanation
Indices: 641353--641444 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
641343 CAAAGTTAAA
* *
641353 ATCATTTAAGATTCTCAAGGAAATAAATTCAACAATTTATTTTCCT
1 ATCATTCAAGAATCTCAAGGAAATAAATTCAACAATTTATTTTCCT
641399 ATCATTCAAGAATCTCAAGGAAATAAATTCAACAATTTATTTTCCT
1 ATCATTCAAGAATCTCAAGGAAATAAATTCAACAATTTATTTTCCT
641445 TATAAAGTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (46 bp):
ATCATTCAAGAATCTCAAGGAAATAAATTCAACAATTTATTTTCCT
Found at i:641431 original size:104 final size:107
Alignment explanation
Indices: 641295--641496 Score: 320
Period size: 104 Copynumber: 1.9 Consensus size: 107
641285 ACAAAATAGA
* * *
641295 ATCATTTAAGATTCTCAAGAAAATAAATTCAACAATTTATTTTTCTTACAAAGTT-A-A-AATCA
1 ATCATTCAAGAATCTCAAGAAAATAAATTCAACAATTTATTTTCCTTACAAAGTTAATAGAATCA
*
641357 TTTAAGATTCTCAAGGAAATAAATTCAACAATTTATTTTCCT
66 TTTAAGATCCTCAAGGAAATAAATTCAACAATTTATTTTCCT
* *
641399 ATCATTCAAGAATCTCAAGGAAATAAATTCAACAATTTATTTTCCTTATAAAGTTAATTAGAATC
1 ATCATTCAAGAATCTCAAGAAAATAAATTCAACAATTTATTTTCCTTACAAAGTTAA-TAGAATC
641464 ATTTAAGATCCTCAAGGAAATAAATTCAACAAT
65 ATTTAAGATCCTCAAGGAAATAAATTCAACAAT
641497 ATAATTCTCT
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
104 50 0.57
105 1 0.01
107 1 0.01
108 36 0.41
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.36
Consensus pattern (107 bp):
ATCATTCAAGAATCTCAAGAAAATAAATTCAACAATTTATTTTCCTTACAAAGTTAATAGAATCA
TTTAAGATCCTCAAGGAAATAAATTCAACAATTTATTTTCCT
Found at i:641493 original size:166 final size:158
Alignment explanation
Indices: 641214--641522 Score: 415
Period size: 166 Copynumber: 1.9 Consensus size: 158
641204 TCGTATAAGA
* *
641214 AAATAAATTCAACAATTTATTTCTTTATTCAAGATTCATGAGAAAATAAATTTAACAATTTATTT
1 AAATAAATTCAACAATTTATTTCTTCATTCAAGATTCA-GAGAAAATAAATTCAACAATTTATTT
* * * *
641279 CCTTTAACAAAATAGAATCATTTAAGATTCTCAAGAAAATAAATTCAACAATTTATTTTTCTTAC
65 CCTTTAACAAAATAGAATCATTTAAGATCCTCAAGAAAATAAATTCAACAATATAATTCTCTTAC
641344 AAAGTTAAAATCATTTAAGATTCTCAAGG
130 AAAGTTAAAATCATTTAAGATTCTCAAGG
*
641373 AAATAAATTCAACAATTTATTTTCCTATCATTCAAGAATCTCA-AGGAAATAAATTCAACAATTT
1 AAATAAATTCAACAATTTA-TTT-CT-TCATTCAAG-AT-TCAGAGAAAATAAATTCAACAATTT
* *
641437 ATTTTCCTTATAA-AGTTAATTAGAATCATTTAAGATCCTCAAGGAAATAAATTCAACAATATAA
61 A-TTTCCTT-TAACA---AAATAGAATCATTTAAGATCCTCAAGAAAATAAATTCAACAATATAA
*
641501 TTCTCTTACAAAGTTAGAATCA
121 TTCTCTTACAAAGTTAAAATCA
641523 AAGCAAGATT
Statistics
Matches: 130, Mismatches: 10, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
159 19 0.15
160 3 0.02
161 2 0.02
162 28 0.22
163 10 0.08
164 6 0.05
166 62 0.48
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.36
Consensus pattern (158 bp):
AAATAAATTCAACAATTTATTTCTTCATTCAAGATTCAGAGAAAATAAATTCAACAATTTATTTC
CTTTAACAAAATAGAATCATTTAAGATCCTCAAGAAAATAAATTCAACAATATAATTCTCTTACA
AAGTTAAAATCATTTAAGATTCTCAAGG
Found at i:641514 original size:62 final size:62
Alignment explanation
Indices: 641399--641516 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 62
641389 TTATTTTCCT
* * *
641399 ATCATTCAAGAATCTCAAGGAAATAAATTCAACAATTTATTTTCCTTATAAAGTTAATTAGA
1 ATCATTCAAGAATCTCAAGGAAATAAATTCAACAATTAATTCTCCTTACAAAGTTAATTAGA
*
641461 ATCATTTAAG-ATCCTCAAGGAAATAAATTCAACAATATAATTCT-CTTACAAAGTTA
1 ATCATTCAAGAAT-CTCAAGGAAATAAATTCAACAAT-TAATTCTCCTTACAAAGTTA
641517 GAATCAAAGC
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
61 2 0.04
62 43 0.86
63 5 0.10
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (62 bp):
ATCATTCAAGAATCTCAAGGAAATAAATTCAACAATTAATTCTCCTTACAAAGTTAATTAGA
Found at i:641749 original size:45 final size:45
Alignment explanation
Indices: 641698--641786 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
641688 TGGTCACAAT
* *
641698 GAACTAATCTTTTGATTTTACTTTTTG-CAACACAATAAT-AAAAGG
1 GAACTAATCATTTGATTTTA-GTTTTGACAAC-CAATAATCAAAAGG
641743 GAACTAATCATTTGATTTTAGTTTTGACAACCAATAATCAAAAG
1 GAACTAATCATTTGATTTTAGTTTTGACAACCAATAATCAAAAG
641787 CCTTGAATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 12 0.30
45 28 0.70
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.36
Consensus pattern (45 bp):
GAACTAATCATTTGATTTTAGTTTTGACAACCAATAATCAAAAGG
Found at i:645500 original size:39 final size:39
Alignment explanation
Indices: 645440--645516 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
645430 TTTTTTTTAA
* * * *
645440 AAATTTTAATCACTAACGTTATCGTTTTGTTAAGTTTTT
1 AAATGTTAATCACTAAAGTTATCGCTTTGTTAAATTTTT
645479 AAATGTTAATCA-TAAAAGTTATCGCTTTGTTAAATTTT
1 AAATGTTAATCACT-AAAGTTATCGCTTTGTTAAATTTT
645517 GATGGCGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.03
39 32 0.97
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.48
Consensus pattern (39 bp):
AAATGTTAATCACTAAAGTTATCGCTTTGTTAAATTTTT
Found at i:645746 original size:15 final size:15
Alignment explanation
Indices: 645726--645763 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
645716 GTTTAAAACT
*
645726 TATAAATTAAAGAAA
1 TATAAATAAAAGAAA
645741 TATAAATAAAAG-AA
1 TATAAATAAAAGAAA
*
645755 GATAAATAA
1 TATAAATAA
645764 TTTGATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (15 bp):
TATAAATAAAAGAAA
Found at i:661365 original size:16 final size:17
Alignment explanation
Indices: 661344--661376 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
661334 GGTTTAGGTA
661344 AAGGATTTAG-GGTTTT
1 AAGGATTTAGAGGTTTT
661360 AAGGATTTAGAGGTTTT
1 AAGGATTTAGAGGTTTT
661377 TTTCCATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.42
Consensus pattern (17 bp):
AAGGATTTAGAGGTTTT
Found at i:669325 original size:21 final size:21
Alignment explanation
Indices: 669299--669338 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
669289 CAGAACCCCA
*
669299 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
669320 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
669339 TCAAAGGGGG
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:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:669370 original size:21 final size:23
Alignment explanation
Indices: 669319--669370 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
669309 GATTCCCCTG
*
669319 TGGGGGGAATCGGTTCCCCTTCA
1 TGGGGGGAATAGGTTCCCCTTCA
**
669342 AAGGGGGAATAGGTT-CCC-TCA
1 TGGGGGGAATAGGTTCCCCTTCA
669363 TGGGGGGA
1 TGGGGGGA
669371 TCGATTCCCT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 9 0.38
22 3 0.12
23 12 0.50
ACGTcount: A:0.19, C:0.19, G:0.40, T:0.21
Consensus pattern (23 bp):
TGGGGGGAATAGGTTCCCCTTCA
Found at i:672458 original size:184 final size:187
Alignment explanation
Indices: 672144--672514 Score: 689
Period size: 185 Copynumber: 2.0 Consensus size: 187
672134 GGAATTCTCG
672144 GAGCCAAACCATTCAGGGGGAATCGGTTCCCTCTGAGCATCTGAAATTTTTGGCTTTGAAATAGT
1 GAGCCAAACCATTCAGGGGGAATCGGTTCCCTCTGAGCATCTGAAATTTTTGGCTTTGAAATAGT
672209 TCGAAATACTTTGTAAAATTATTTTGAAATTGTTTTAAGTTTAAAACTTAATTTTACACTTGAGT
66 TCGAAATACTTTGTAAAATTATTTTGAAATTGTTTTAAGTTTAAAACTTAATTTTACACTTGAGT
672274 AAGGATT-AAAATGATCTTTGAAAGATTTGGAGTAATGTTTTGATA-TCG-ATAATT
131 AAGGATTAAAAATGATCTTTGAAAGATTTGGAGTAATGTTTTGATATTCGAATAATT
672328 GAGCCAAACCATTCAGGGGGAATCGGTTCCCTCTGAGCAATCTGAAATTTTTGGCTTTGAAATAG
1 GAGCCAAACCATTCAGGGGGAATCGGTTCCCTCTGAGC-ATCTGAAATTTTTGGCTTTGAAATAG
672393 TTCGAAATAC-TTGTAAAATT-TTTTGAAATTGTTTTAAGTTTAAAACTTAATTTTACACTTTGA
65 TTCGAAATACTTTGTAAAATTATTTTGAAATTGTTTTAAGTTTAAAACTTAATTTTACAC-TTGA
672456 GTAAGGATTAAAAATGATCTTTGAAAGATTTGGAGTAATGTTTTGATATTCGAATAATT
129 GTAAGGATTAAAAATGATCTTTGAAAGATTTGGAGTAATGTTTTGATATTCGAATAATT
672515 CTATCGAATA
Statistics
Matches: 182, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
183 38 0.21
184 61 0.34
185 74 0.41
186 3 0.02
187 6 0.03
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (187 bp):
GAGCCAAACCATTCAGGGGGAATCGGTTCCCTCTGAGCATCTGAAATTTTTGGCTTTGAAATAGT
TCGAAATACTTTGTAAAATTATTTTGAAATTGTTTTAAGTTTAAAACTTAATTTTACACTTGAGT
AAGGATTAAAAATGATCTTTGAAAGATTTGGAGTAATGTTTTGATATTCGAATAATT
Found at i:689023 original size:24 final size:24
Alignment explanation
Indices: 688996--689051 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
688986 TAATTCAAAT
*
688996 ATCTTATTCGTCAGTGGAGAAAAA
1 ATCTTATTCGTCAGTCGAGAAAAA
689020 ATCTTATTCGTCAGTCGAGAAAAA
1 ATCTTATTCGTCAGTCGAGAAAAA
*
689044 TTCTTATT
1 ATCTTATT
689052 TGAAAAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (24 bp):
ATCTTATTCGTCAGTCGAGAAAAA
Found at i:689465 original size:3 final size:3
Alignment explanation
Indices: 689457--689491 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
689447 TATTTTTAAA
689457 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT A
689492 CAAGCCCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:690711 original size:16 final size:16
Alignment explanation
Indices: 690692--690747 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 16
690682 TTACTTTTTA
690692 TATTTAATTTTAATTT
1 TATTTAATTTTAATTT
*
690708 TATTTATTTTACTAATTGTT
1 TATTTAATTT--TAA-T-TT
690728 TATTTATATTTTAATTT
1 TATTTA-ATTTTAATTT
690745 TAT
1 TAT
690748 ATGTTTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
16 9 0.27
17 5 0.15
18 4 0.12
19 4 0.12
20 8 0.24
21 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (16 bp):
TATTTAATTTTAATTT
Found at i:690951 original size:32 final size:32
Alignment explanation
Indices: 690911--690973 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
690901 ATAATTAAAC
690911 ATTATAAAA-TTT-ATAATTTAGTTTTATTTAA
1 ATTATAAAATTTTAAT-ATTTAGTTTTATTTAA
*
690942 ATTATTAAAATTTTAATATTTATTTTTATTTA
1 ATTA-TAAAATTTTAATATTTAGTTTTATTTA
690974 TTAATATCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 4 0.14
32 5 0.18
33 17 0.61
34 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (32 bp):
ATTATAAAATTTTAATATTTAGTTTTATTTAA
Found at i:691722 original size:18 final size:20
Alignment explanation
Indices: 691698--691746 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
691688 TTATTTTCAT
*
691698 ATTATTTTATT-A-ATATTT
1 ATTATTTTATTCATATATTA
*
691716 TTTATTTTATTCATATATTA
1 ATTATTTTATTCATATATTA
691736 ATTATTTTATT
1 ATTATTTTATT
691747 TGTCTGTTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 10 0.38
19 1 0.04
20 15 0.58
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTATTTTATTCATATATTA
Found at i:700944 original size:22 final size:22
Alignment explanation
Indices: 700915--700969 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
700905 ATCTACACTC
*
700915 TTCAAAGATGATATATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
700937 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
700959 TTCAAAGATGA
1 TTCAAAGATGA
700970 AAGCTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:701831 original size:183 final size:183
Alignment explanation
Indices: 701519--701882 Score: 617
Period size: 183 Copynumber: 2.0 Consensus size: 183
701509 CCAATCAACA
701519 TGTTATTTTGAAAAATAATGAAAACAATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAA
1 TGTTATTTTGAAAAATAATGAAAACAATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAA
701584 ATTGTTGAAAAGTAAGAAAACGATTTCATTAGTTTTTTTACTTAGTAAACTATTTCTCACATCTG
66 ATTGTTGAAAAGTAAGAAAACGATTTCATTAGTTTTTTTACTTAGTAAACTATTTCTCACATCTG
*
701649 TAAGTCCTACAATGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTGATAT
131 TAAGTCCTACAATGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATAT
* **
701702 TGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTTTATCTTTTCT-AAAATG
1 TGTTATTTTGAAAAATAAT--GAAAACAATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
* *
701766 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAG-TTTTTTACTTATTAAACTATTTC-CTACAT
64 AAATTGTTGAAAAGTAAGAAAACGATTTCATTAGTTTTTTTACTTAGTAAACTATTTCTC-ACAT
*
701829 CTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
128 CTGTAAGTCCTACAATGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
701883 GTTTTCAAAA
Statistics
Matches: 171, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
182 1 0.01
183 97 0.57
184 39 0.23
185 34 0.20
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (183 bp):
TGTTATTTTGAAAAATAATGAAAACAATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAA
ATTGTTGAAAAGTAAGAAAACGATTTCATTAGTTTTTTTACTTAGTAAACTATTTCTCACATCTG
TAAGTCCTACAATGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATAT
Found at i:702074 original size:151 final size:151
Alignment explanation
Indices: 701826--702463 Score: 1141
Period size: 151 Copynumber: 4.2 Consensus size: 151
701816 CTATTTCCTA
701826 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
701891 AACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
701956 GATGTTTTCAAACCTTCGGGT
131 GATGTTTTCAAACCTTCGGGT
701977 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
702042 AACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTT
66 AACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
702107 GATGATTTCAAACCTTCGGGT
131 GATGTTTTCAAACCTTCGGGT
702128 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
702193 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
702258 GATGTTTTCAAAGCCTTAGGGT
131 GATGTTTTCAAA-CCTTCGGGT
702280 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * * *
702345 AGCCTTAGGGTCATTTGTAAGTCCTGCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTT
66 AACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
702410 GATGTTTTCAAAATCTTCGGGT
131 GATGTTTTC-AAACCTTCGGGT
* *
702432 CATCTGTAAGCCCTTCAGTGCATGATGATTTC
1 CATCTGTAAGTCCTACAGTGCATGATG-TTTC
702464 AGTATTTCAT
Statistics
Matches: 471, Mismatches: 13, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
151 287 0.61
152 177 0.38
153 7 0.01
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (151 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAACCTTCGGGT
Found at i:702225 original size:227 final size:226
Alignment explanation
Indices: 701826--702463 Score: 1123
Period size: 227 Copynumber: 2.8 Consensus size: 226
701816 CTATTTCCTA
701826 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
701891 AACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
65 AACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
701956 GATGTTTTCAAACCTTCGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCG
130 GATGTTTTCAAACCTTCGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCG
702021 GGAGCTTTTTGATGTTTTCAAAACCTTAGGGT
195 GGAGCTTTTTGATGTTTTCAAAACCTTAGGGT
* *
702053 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGATTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
702118 ACCTTCGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
66 ACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
* *
702183 ATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCG
131 ATGTTTTCAAA-CCTTCGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCG
*
702248 GGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
195 GGAGCTTTTTGATGTTTTCAAAACCTTAGGGT
702280 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * *
702345 AGCCTTAGGGTCATTTGTAAGTCCTGCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTT
66 A-CCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* * *
702410 GATGTTTTCAAAATCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGATTTC
130 GATGTTTTC-AAACCTTCGGGTCATCTGTAAGTCCTACAGTGCATGATG-TTTC
702464 AGTATTTCAT
Statistics
Matches: 391, Mismatches: 16, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
226 77 0.20
227 207 0.53
228 100 0.26
229 7 0.02
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (226 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
ACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
ATGTTTTCAAACCTTCGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGG
GAGCTTTTTGATGTTTTCAAAACCTTAGGGT
Found at i:702464 original size:76 final size:76
Alignment explanation
Indices: 701826--702463 Score: 1118
Period size: 76 Copynumber: 8.4 Consensus size: 76
701816 CTATTTCCTA
701826 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
701891 AACCTTAGGGT
66 AACCTTAGGGT
701902 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
701966 AACCTTCGGGT
66 AACCTTAGGGT
701977 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
702042 AACCTTAGGGT
66 AACCTTAGGGT
* *
702053 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGATTTC-A
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
702117 AACCTTCGGGT
66 AACCTTAGGGT
702128 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
702193 AGCCTTAGGGT
66 AACCTTAGGGT
*
702204 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
702269 AGCCTTAGGGT
66 AACCTTAGGGT
702280 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
702345 AGCCTTAGGGT
66 AACCTTAGGGT
* * *
702356 CATTTGTAAGTCCTGCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
702421 AATCTTCGGGT
66 AACCTTAGGGT
* *
702432 CATCTGTAAGCCCTTCAGTGCATGATGATTTC
1 CATCTGTAAGTCCTACAGTGCATGATG-TTTC
702464 AGTATTTCAT
Statistics
Matches: 538, Mismatches: 21, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
75 146 0.27
76 389 0.72
77 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTAGGGT
Found at i:703855 original size:16 final size:16
Alignment explanation
Indices: 703836--703891 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 16
703826 TTACTTTTTA
703836 TATTTAATTTTAATTT
1 TATTTAATTTTAATTT
703852 TATTT-ATTTTACTCATTGTT
1 TATTTAATTTTA---A-T-TT
703872 TATTTATATTTTAATTT
1 TATTTA-ATTTTAATTT
703889 TAT
1 TAT
703892 ATGTTTAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
15 6 0.18
16 5 0.15
17 5 0.15
18 2 0.06
19 2 0.06
20 7 0.21
22 6 0.18
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.68
Consensus pattern (16 bp):
TATTTAATTTTAATTT
Found at i:703907 original size:37 final size:36
Alignment explanation
Indices: 703836--703909 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
703826 TTACTTTTTA
* * *
703836 TATTTAATTTTAATTTTATTTATTTTACTCATTGTT
1 TATTTAATTTTAATTTTATATATTTAAATCATTGTT
* *
703872 TATTTATATTTTAATTTTATATGTTTAAATTATTGTT
1 TATTTA-ATTTTAATTTTATATATTTAAATCATTGTT
703909 T
1 T
703910 TCATAATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
36 6 0.19
37 26 0.81
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.66
Consensus pattern (36 bp):
TATTTAATTTTAATTTTATATATTTAAATCATTGTT
Found at i:704090 original size:31 final size:33
Alignment explanation
Indices: 704055--704117 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
704045 ATAATTAAAC
704055 ATTATAAAAATTAT-A-ATTTAGTTTTATTTAA
1 ATTATAAAAATTATAATATTTAGTTTTATTTAA
* * *
704086 ATTATTAAAATTTTAATATTTATTTTTATTTA
1 ATTATAAAAATTATAATATTTAGTTTTATTTA
704118 TTAATATCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 12 0.44
32 1 0.04
33 14 0.52
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (33 bp):
ATTATAAAAATTATAATATTTAGTTTTATTTAA
Found at i:704340 original size:14 final size:14
Alignment explanation
Indices: 704316--704361 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
704306 TTTCTAAATA
704316 AATAAATAT-TTTT
1 AATAAATATATTTT
*
704329 -ATAAATATATTTA
1 AATAAATATATTTT
*
704342 AATTAATATATTTT
1 AATAAATATATTTT
*
704356 CATAAA
1 AATAAA
704362 AATTATAGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
12 8 0.31
13 3 0.12
14 15 0.58
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
AATAAATATATTTT
Found at i:707502 original size:32 final size:32
Alignment explanation
Indices: 707466--707533 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
707456 TTTGAGTTAT
* * *
707466 TTTCGGTTCGGATTAATTTTTA-TTTAGGTTGC
1 TTTCGGGTCGGATTAA-ATTTAGTTCAGGTTGC
*
707498 TTTCGGGTCGGGTTAAATTTAGTTCAGGTTGC
1 TTTCGGGTCGGATTAAATTTAGTTCAGGTTGC
707530 TTTC
1 TTTC
707534 AGATCGGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 4 0.13
32 27 0.87
ACGTcount: A:0.15, C:0.12, G:0.25, T:0.49
Consensus pattern (32 bp):
TTTCGGGTCGGATTAAATTTAGTTCAGGTTGC
Found at i:707541 original size:32 final size:33
Alignment explanation
Indices: 707491--707555 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
707481 ATTTTTATTT
* *
707491 AGGTTGCTTTCGGGTCGGGTT-AAATTTAGTTC
1 AGGTTGCTTTCAGATCGGGTTAAAATTTAGTTC
*
707523 AGGTTGCTTTCAGATCGGGTTAAAATTTGGTTC
1 AGGTTGCTTTCAGATCGGGTTAAAATTTAGTTC
707556 GAGTTAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 19 0.66
33 10 0.34
ACGTcount: A:0.18, C:0.12, G:0.29, T:0.40
Consensus pattern (33 bp):
AGGTTGCTTTCAGATCGGGTTAAAATTTAGTTC
Found at i:709196 original size:22 final size:21
Alignment explanation
Indices: 709161--709204 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
709151 ATTAAAAACT
*
709161 AAAATTATATACATATTTAAA
1 AAAATTATAAACATATTTAAA
*
709182 AAAATATATAAACATTTTTAAA
1 AAAAT-TATAAACATATTTAAA
709204 A
1 A
709205 TAACCCCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATTATAAACATATTTAAA
Found at i:711551 original size:2 final size:2
Alignment explanation
Indices: 711546--711578 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
711536 ATTTAAGTAA
711546 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
711579 AGTAGGATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:712191 original size:2 final size:2
Alignment explanation
Indices: 712184--712213 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
712174 AAAACCTAAG
*
712184 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
712214 GTATTATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:713763 original size:124 final size:123
Alignment explanation
Indices: 713252--713743 Score: 715
Period size: 124 Copynumber: 4.0 Consensus size: 123
713242 AAGGTTGAAC
* * * * *
713252 AATGTTGATGTTGATTTATTTCCCTCTGTGAT-GAGTCGAGCAAAAGGTTGAATAAGTTCTTCAG
1 AATGTTGATGTTGCTCTATCTCCTTCTGCGATAGAGTCGAGCAAAAGGTTGAATAAGTTCTTCAG
* *
713316 ATTATGAACTCCTTCTTCCTCTTAAGATGAGTTCTTCTTATTACGAACTCCTTCTGGA
66 ATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCCTTCTGGA
* * ** *
713374 AATGTTGATGCTGCTCTATCTCTTTCTGTAATAGAGTCGAGCAAAAGGTTGAATAAGTTATTCAG
1 AATGTTGATGTTGCTCTATCTCCTTCTGCGATAGAGTCGAGCAAAAGGTTGAATAAGTTCTTCAG
* * *
713439 ATTATAAACTTCTTC-T--TCTTCAGATGAGTTCTTCTTATTACGAACTTCTTCTAGA
66 ATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCCTTCTGGA
* * *
713494 AATGTTGATGTTGCTCTATCTCCTTCTGCGATAAAGTCGAGTAAAAGGTTGAATAAATTCTTCAG
1 AATGTTGATGTTGCTCTATCTCCTTCTGCGATAGAGTCGAGCAAAAGGTTGAATAAGTTCTTCAG
* * ** *
713559 ATTATGAAATTTTTCTTCCTCTTCAGATGAGTTCTTCAGATTATGAACTCCTGTCTGGA
66 ATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCCT-TCTGGA
713618 AATGTTGATGTTGCTCTATCTCCTTCTGCGATAGAGTCGAGCAAAAGGTTGAATAAGTTCTTCAG
1 AATGTTGATGTTGCTCTATCTCCTTCTGCGATAGAGTCGAGCAAAAGGTTGAATAAGTTCTTCAG
*
713683 ACTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACT-CTATCTGGA
66 ATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCCT-TCTGGA
713741 AAT
1 AAT
713744 TTTTTAAGAA
Statistics
Matches: 326, Mismatches: 39, Indels: 9
0.87 0.10 0.02
Matches are distributed among these distances:
120 105 0.32
121 1 0.00
122 26 0.08
123 84 0.26
124 110 0.34
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (123 bp):
AATGTTGATGTTGCTCTATCTCCTTCTGCGATAGAGTCGAGCAAAAGGTTGAATAAGTTCTTCAG
ATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCCTTCTGGA
Found at i:713801 original size:37 final size:36
Alignment explanation
Indices: 713754--713946 Score: 136
Period size: 37 Copynumber: 5.3 Consensus size: 36
713744 TTTTTAAGAA
* *
713754 AAACAATCTCAAGTGAGATAAATTACTATTTCGAGTG
1 AAACATTCTCAAGTGAGATAAATT-CTATTTCAAGTG
* * * * * **
713791 AAACCTTCTCAAGCGAGAAACAATT-TGTTTAAAGAA
1 AAACATTCTCAAGTGAGATA-AATTCTATTTCAAGTG
* * *
713827 AAACAATCTCAAGTGAGATACATTGCTATTTCGAGTG
1 AAACATTCTCAAGTGAGATAAATT-CTATTTCAAGTG
* * * * * * * **
713864 AAACTTTCTCAAGCGAGAAAAAGTGTGTTTTAAGAA
1 AAACATTCTCAAGTGAGATAAATTCTATTTCAAGTG
*
713900 AAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTG
1 AAACATTCTCAAGTGAGATAAATT-CTATTTCAAGTG
*
713937 AAACTTTCTC
1 AAACATTCTC
713947 CAGCGAGAAA
Statistics
Matches: 109, Mismatches: 43, Indels: 8
0.68 0.27 0.05
Matches are distributed among these distances:
35 3 0.03
36 47 0.43
37 55 0.50
38 4 0.04
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (36 bp):
AAACATTCTCAAGTGAGATAAATTCTATTTCAAGTG
Found at i:713839 original size:36 final size:35
Alignment explanation
Indices: 713740--713998 Score: 117
Period size: 36 Copynumber: 7.2 Consensus size: 35
713730 CTCTATCTGG
* *
713740 AAATTT-TTT-AAGAAAAACAATCTCAAGTGAGAT
1 AAATTTGTTTCAAGAAAAACAATCTCAAGCGAGAA
* * ** **
713773 AAATTACTATTTCGAGTGAAACCTTCTCAAGCGAGAA
1 AAATT--TGTTTCAAGAAAAACAATCTCAAGCGAGAA
* * *
713810 ACAATTTGTTTAAAGAAAAACAATCTCAAGTGAGAT
1 A-AATTTGTTTCAAGAAAAACAATCTCAAGCGAGAA
* * * ** **
713846 ACATTGCTATTTCGAGTGAAACTTTCTCAAGCGAGAA
1 AAATT--TGTTTCAAGAAAAACAATCTCAAGCGAGAA
* * * *
713883 AAAGTGTGTTTTAAGAAAAACAATCTCAAGTGAGAT
1 AAA-TTTGTTTCAAGAAAAACAATCTCAAGCGAGAA
* ** ** *
713919 AAATTGCTATTTCAAGTGAAACTTTCTCCAGCGAGAA
1 AAATT--TGTTTCAAGAAAAACAATCTCAAGCGAGAA
* * * * *
713956 ACAGTTTGTTTTAAGAACAATAATCTCAAGTGAGATA
1 A-AATTTGTTTCAAGAAAAACAATCTCAAGCGAGA-A
713993 AAATTT
1 AAATTT
713999 ATTTGAAAAC
Statistics
Matches: 155, Mismatches: 59, Indels: 21
0.66 0.25 0.09
Matches are distributed among these distances:
33 5 0.03
35 5 0.03
36 72 0.46
37 65 0.42
38 8 0.05
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (35 bp):
AAATTTGTTTCAAGAAAAACAATCTCAAGCGAGAA
Found at i:713873 original size:73 final size:73
Alignment explanation
Indices: 713745--713994 Score: 394
Period size: 73 Copynumber: 3.4 Consensus size: 73
713735 TCTGGAAATT
* *
713745 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTACTATTTCGAGTGAAACCTTCTCAAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCAAGCGAGAA
713810 ACAATTTG
66 ACAATTTG
* *
713818 TTTAAAGAAAAACAATCTCAAGTGAGATACATTGCTATTTCGAGTGAAACTTTCTCAAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCAAGCGAGAA
*
713883 A-AAGTGTG
66 ACAA-TTTG
* *
713891 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCCAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCAAGCGAGAA
*
713956 ACAGTTTG
66 ACAATTTG
* *
713964 TTTTAAGAACAATAATCTCAAGTGAGATAAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAA
713995 ATTTATTTGA
Statistics
Matches: 162, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
72 2 0.01
73 159 0.98
74 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (73 bp):
TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCAAGCGAGAA
ACAATTTG
Found at i:714301 original size:167 final size:166
Alignment explanation
Indices: 714018--714343 Score: 523
Period size: 167 Copynumber: 2.0 Consensus size: 166
714008 CATCATGCAT
* *
714018 TGAAGGTCTTATGGATGGTCCGTTGGACTTACAAATCAAGAAACCCCATAAGGCTTAGTTTTTTA
1 TGAAGGTCTTATGGATGGTCCGTAGGACTTACAAATCAAGAAACCCCATAAGGCTTAGTTTCTTA
*
714083 GTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAGCCCTTTTGAGATAATTAGTAAA
66 GTTGTCAAGGAAACCCTTTGTTAGGCTTAGCTTCCTTTAACAGCCCTTTTGAGATAATTAGTAAA
*
714148 CCCCCAAAGGCTTGGTTTCTAAAATCTCATCCTGTAC
131 -CCCCAAAGGCTTGGTTACTAAAATCTCATCCTGTAC
*
714185 TGAAGGTCTTATGGATGG-CTCGTAGGACTTACAAATCAAGAAA-CCCTTGAAGGCTTAGTTTCT
1 TGAAGGTCTTATGGATGGTC-CGTAGGACTTACAAATCAAGAAACCCCAT-AAGGCTTAGTTTCT
**
714248 TAGTTGTCCAA-GAAACCCTTTGTTAGGCTTAGCTTCCTTTAACAGTTCTTTTGAGATAATTAGT
64 TAGTTGT-CAAGGAAACCCTTTGTTAGGCTTAGCTTCCTTTAACAGCCCTTTTGAGATAATTAGT
*
714312 AAACCCCGAAGGCTTGGTTACTAAAATCTCAT
128 AAACCCCAAAGGCTTGGTTACTAAAATCTCAT
714344 TTGAAAACAT
Statistics
Matches: 148, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
166 32 0.22
167 113 0.76
168 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (166 bp):
TGAAGGTCTTATGGATGGTCCGTAGGACTTACAAATCAAGAAACCCCATAAGGCTTAGTTTCTTA
GTTGTCAAGGAAACCCTTTGTTAGGCTTAGCTTCCTTTAACAGCCCTTTTGAGATAATTAGTAAA
CCCCAAAGGCTTGGTTACTAAAATCTCATCCTGTAC
Found at i:716129 original size:41 final size:39
Alignment explanation
Indices: 716084--716183 Score: 98
Period size: 37 Copynumber: 2.6 Consensus size: 39
716074 TAATTAGGCA
716084 TTCAAAATGCCCCAACATTCTATTTCTGGT-TGAAATGGGCC
1 TTCAAAATGCCCCAACATTCTA--TCT-GTCTGAAATGGGCC
* * ** *
716125 TTCAAGATGTCCC-ACA-TGGATCTGTCTGAATTGGGCC
1 TTCAAAATGCCCCAACATTCTATCTGTCTGAAATGGGCC
*
716162 TTCAAAATGCCCCAATATTCTA
1 TTCAAAATGCCCCAACATTCTA
716184 AATTGTAAGG
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
36 2 0.04
37 24 0.52
38 2 0.04
39 4 0.09
40 3 0.07
41 11 0.24
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (39 bp):
TTCAAAATGCCCCAACATTCTATCTGTCTGAAATGGGCC
Found at i:717242 original size:9 final size:8
Alignment explanation
Indices: 717228--717291 Score: 76
Period size: 8 Copynumber: 7.6 Consensus size: 8
717218 TAAACACTAT
717228 TTTTTTCTC
1 TTTTTT-TC
717237 TTTTTTTC
1 TTTTTTTC
*
717245 CTTTTTTC
1 TTTTTTTC
717253 TTTTTTTC
1 TTTTTTTC
717261 -TTTTTTC
1 TTTTTTTC
717268 TTTCTTTTC
1 TTT-TTTTC
717277 TTTCTTTTTC
1 -TT-TTTTTC
717287 TTTTT
1 TTTTT
717292 GCTATTTGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
7 7 0.14
8 21 0.43
9 13 0.27
10 7 0.14
11 1 0.02
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTTC
Found at i:717258 original size:15 final size:15
Alignment explanation
Indices: 717238--717270 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
717228 TTTTTTCTCT
717238 TTTTTTCCTTTTTTC
1 TTTTTTCCTTTTTTC
*
717253 TTTTTTTCTTTTTTC
1 TTTTTTCCTTTTTTC
717268 TTT
1 TTT
717271 CTTTTCTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTTCCTTTTTTC
Found at i:717286 original size:15 final size:15
Alignment explanation
Indices: 717227--717290 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
717217 ATAAACACTA
717227 TTTT-TTTCTCTTTT-
1 TTTTCTTTCT-TTTTC
* *
717241 TTTCCTTT-TTTCTTT
1 TTTTCTTTCTTT-TTC
*
717256 TTTTCTTTTTTCTTTC
1 TTTTCTTTCTT-TTTC
717272 TTTTCTTTCTTTTTC
1 TTTTCTTTCTTTTTC
717287 TTTT
1 TTTT
717291 TGCTATTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
13 2 0.05
14 6 0.15
15 18 0.44
16 14 0.34
17 1 0.02
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTCTTTCTTTTTC
Found at i:717286 original size:19 final size:19
Alignment explanation
Indices: 717249--717289 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
717239 TTTTTCCTTT
717249 TTTCTTTTTTTCTTTTTTC
1 TTTCTTTTTTTCTTTTTTC
717268 TTTCTTTTCTTTC-TTTTTC
1 TTTCTTTT-TTTCTTTTTTC
717287 TTT
1 TTT
717290 TTGCTATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTCTTTTTTTCTTTTTTC
Found at i:724271 original size:23 final size:23
Alignment explanation
Indices: 724245--724292 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
724235 ATGAAGTACA
* *
724245 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAAGTAGCGCTTAT
**
724268 ATAATGTAATAAGTAGCGCTTAT
1 ATAACATAATAAGTAGCGCTTAT
724291 AT
1 AT
724293 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAAGTAGCGCTTAT
Found at i:724690 original size:20 final size:21
Alignment explanation
Indices: 724652--724691 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
724642 TCCACAGTGA
* *
724652 AAAAAGTATGGACACTTTTAT
1 AAAAAGGATAGACACTTTTAT
724673 AAAAAGGATAGACA-TTTTA
1 AAAAAGGATAGACACTTTTA
724692 CAATATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
AAAAAGGATAGACACTTTTAT
Found at i:724730 original size:23 final size:23
Alignment explanation
Indices: 724704--724765 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
724694 ATATAACCAC
724704 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
724727 TACCTAATACA-TATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
724749 TACCTATTACATCATAT
1 TACCTATTACATTATAT
724766 TTTTACCTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
22 19 0.58
23 14 0.42
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:724922 original size:416 final size:423
Alignment explanation
Indices: 724359--725509 Score: 2044
Period size: 419 Copynumber: 2.8 Consensus size: 423
724349 TATTACATTA
*
724359 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATA---CTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
*
724421 TTATG-TTCAATTTTTTTTAATAGTGTTTCATATTTCCACCTACAATATTAA-TT--TAATTTCA
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTCCACCTACAATATTAATTTAATAATTTCA
*
724482 TTTGAACAAAAATTATTTGATTTTTGATATTTTATAAAATATATTTAGAA-TTTTAATTTAATAA
131 TTTGCACAAAAATTATTTGATTTTTGATATTTTATAAAATATATTTAGAATTTTTAATTTAATAA
*
724546 TATATATCGTAACGTAAAAAATAAATTATTAGACGCCTATAATTACTAAATTAATATCTTAAAAC
196 TATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAC
724611 TCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAA
261 TCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAA
*
724676 AAGGATAGACATTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAATACA-TA
326 AAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAATACATTA
724740 TATAAGCGCTACCTATTACATCATATTTTTACC
391 TATAAGCGCTACCTATTACATCATATTTTTACC
724773 TATTATATTGAAAGTGTCCATAC-TTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
724837 TTATGTTTCAA-TTTTTTT-A-A-TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATG-TTTCCACCTACAATATTAATTTAATAATTTC
724898 ATTTGCACAAAAATT-TTTGATTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAAT
130 ATTTGCACAAAAATTATTTGATTTTTGATATTTTATAAAATA-TATTTAGAATTTTTAATTTAAT
724962 AATATAATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAA
194 AATAT-ATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTT-A
725027 AAACTCACTCAAAAGA-AACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACACTTTTA
257 AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTA
725090 TAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAATAC
322 TAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAATAC
725155 ATTATATAAGCGCTACCTATTACATCATATTTTTACC
387 ATTATATAAGCGCTACCTATTACATCATATTTTTACC
725192 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTT-AAGTT-TGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
725255 TTATGTTTCAATTTTTTTTAATAGTGTTTCA-GTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTCCACCTACAATATTAATTTAATAATTTCA
725319 TTTGCACAAAAATTATTTGATTATTTGATA-TTT-TAAAATATATTTAGAATTTTTAATTTAATA
131 TTTGCACAAAAATTATTTGATT-TTTGATATTTTATAAAATATATTTAGAATTTTTAATTTAATA
725382 ATA-ATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
195 ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
725445 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAA
260 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAA
725510 TCAATTTTTT
Statistics
Matches: 710, Mismatches: 5, Indels: 41
0.94 0.01 0.05
Matches are distributed among these distances:
413 27 0.04
414 43 0.06
415 20 0.03
416 127 0.18
417 70 0.10
418 119 0.17
419 179 0.25
420 99 0.14
421 12 0.02
422 14 0.02
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.40
Consensus pattern (423 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTCCACCTACAATATTAATTTAATAATTTCA
TTTGCACAAAAATTATTTGATTTTTGATATTTTATAAAATATATTTAGAATTTTTAATTTAATAA
TATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAC
TCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAA
AAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAATACATTA
TATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:725148 original size:23 final size:23
Alignment explanation
Indices: 725122--725184 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
725112 ATATAACCAC
725122 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
725145 TACCTAATACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
725168 TACCTATTACATCATAT
1 TACCTATTACATTATAT
725185 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.35
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:725716 original size:256 final size:248
Alignment explanation
Indices: 725262--725765 Score: 895
Period size: 256 Copynumber: 2.0 Consensus size: 248
725252 AATTTATGTT
725262 TCAATTTTTTTTAATAGTGTTTCAGTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
1 TCAATTTTTTTTAATAGTGTTTCAGTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
*
725327 AAAATTATTTGATTATTTGATATTTTAAAATATATTTAGAATTTTTAATTTAATAATAATATCGT
66 AAAATTATTTGATTAGTTGATATTTTAAAATATATTTAGAATTTTTAATTTAATAATAATATCGT
725392 AACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAG
131 AACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAG
725457 ATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAA
196 ATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAA
725510 TCAATTTTTTTTAATAG-GTTTCATGTTTTCCACCTACAATATTAA-TTAATAATTTCATTTGCA
1 TCAATTTTTTTTAATAGTGTTTCA-G-TTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
725573 CAAAAAATTATTTGATTAGTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAT
64 C-AAAAATTATTTGATTAGTTGATA-TTT-TAAAATA-TATTTAGAATTTTTAATTTAAT-A-AT
725638 ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACT
123 A-ATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACT
725703 CACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAA
186 CACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAA
725766 AAAAGATAGA
Statistics
Matches: 245, Mismatches: 1, Indels: 12
0.95 0.00 0.05
Matches are distributed among these distances:
247 6 0.02
248 37 0.15
249 41 0.17
250 3 0.01
251 7 0.03
252 22 0.09
253 1 0.00
254 3 0.01
255 12 0.05
256 113 0.46
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (248 bp):
TCAATTTTTTTTAATAGTGTTTCAGTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
AAAATTATTTGATTAGTTGATATTTTAAAATATATTTAGAATTTTTAATTTAATAATAATATCGT
AACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAG
ATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAA
Found at i:725810 original size:21 final size:20
Alignment explanation
Indices: 725780--725850 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 20
725770 GATAGACACT
*
725780 TTACAATATAACCACTACCTA
1 TTACATTATAA-CACTACCTA
* *
725801 TTACATTATATAAACGATATCTA
1 TTACATTATA-ACAC--TACCTA
*
725824 TTACATTATAAGCGCTACCTA
1 TTACATTATAA-CACTACCTA
725845 TTACAT
1 TTACAT
725851 CATATTTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
21 22 0.55
22 2 0.05
23 16 0.40
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.35
Consensus pattern (20 bp):
TTACATTATAACACTACCTA
Found at i:725858 original size:671 final size:670
Alignment explanation
Indices: 724844--726055 Score: 2176
Period size: 671 Copynumber: 1.8 Consensus size: 670
724834 AATTTATGTT
724844 TCAATTTTTTTAATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAA
1 TCAATTTTTTTAATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAA
*
724909 AATTTTTGATTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATATAATATCG
66 AATTTTTGATTGTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATATAATATCG
724974 TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAACTCACTCAA
131 TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAACTCACTCAA
*
725039 AAGAAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTTATAAAAAGGATAGAC
196 AAGAAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTTATAAAAAAGATAGAC
725104 ACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAATACATTATATAAGCGCT
261 ACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAATACATTATATAAGCGCT
*
725169 ACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGA
326 ACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTAT-AAAAGGATCG-
725234 TACTTCTTTT-AAGTT-TGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCA-G-TTTCCACC
389 TACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACC
725295 TACAATATTAATTTAATAATTTCATTTGCAC-AAAAATTATTTGATTATTTGATATTTT-AAAAT
454 TACAATATTAATTTAATAA-TTCATTTGCACAAAAAATTATTTGATTATTTGATATTTTAAAAAT
725358 A-TATTTAGAATTTTTAATTTAATAATAATATCGTAACGTAAAAATAAATCATTAGACGCCTATA
518 ATTATTTAGAATTTTTAATTTAATAATAATATCGTAACGTAAAAATAAATCATTAGACGCCTATA
725422 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
583 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
725487 AAAAAGTATGGACACTTTTATAA
648 AAAAAGTATGGACACTTTTATAA
725510 TCAATTTTTTTTAATAGGTTTCATGTTTTCCACCTACAATATTAA-TTAATAATTTCATTTGCAC
1 TCAA-TTTTTTTAAT--GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
725574 AAAAAATTATTTGATTAGTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATATA
63 -AAAAATT-TTTGATT-GTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATATA
725639 TATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTT-AAAACT
125 -ATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAACT
725703 CACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAA
189 CACTCAAAAGA-AACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACACTTTTATAAAA
* *
725768 AAGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATATCTATTACA-T-T
252 AAGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAATACATTAT
725831 ATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAA
317 ATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAA
725896 AGGATCGTACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTT
382 AGGATCGTACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTT
*
725961 TTCCACCTACAATATTAATTTAATAATTCATTTGCACAAAAAATTATTTGATTTTTTGATATTTT
447 TTCCACCTACAATATTAATTTAATAATTCATTTGCACAAAAAATTATTTGATTATTTGATATTTT
726026 AAAAAATATTATTTAGAATTTTTAATTTAA
512 -AAAAATATTATTTAGAATTTTTAATTTAA
726056 CAACATTAAC
Statistics
Matches: 523, Mismatches: 6, Indels: 24
0.95 0.01 0.04
Matches are distributed among these distances:
666 4 0.01
667 10 0.02
668 19 0.04
669 45 0.09
670 21 0.04
671 164 0.31
672 97 0.19
673 136 0.26
675 6 0.01
676 21 0.04
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (670 bp):
TCAATTTTTTTAATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAA
AATTTTTGATTGTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATATAATATCG
TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAACTCACTCAA
AAGAAACCTTAAATTAATGTTTTCCACAGTGAAAAAGTATGGACACTTTTATAAAAAAGATAGAC
ACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAATACATTATATAAGCGCT
ACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAGGATCGTA
CTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTA
CAATATTAATTTAATAATTCATTTGCACAAAAAATTATTTGATTATTTGATATTTTAAAAATATT
ATTTAGAATTTTTAATTTAATAATAATATCGTAACGTAAAAATAAATCATTAGACGCCTATAATT
ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAA
AAGTATGGACACTTTTATAA
Found at i:726327 original size:39 final size:39
Alignment explanation
Indices: 726273--726358 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
726263 CAAGTTGTAG
*
726273 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
726312 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
726351 ATTTTGAT
1 ATTTTGAT
726359 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:726638 original size:18 final size:18
Alignment explanation
Indices: 726615--726651 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
726605 CGAAATATAT
726615 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
726633 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
726651 A
1 A
726652 CTCAATTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:727113 original size:23 final size:23
Alignment explanation
Indices: 727087--727149 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
727077 ATATAACCAC
727087 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
727110 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
727133 TACCTATTACATCATAT
1 TACCTATTACATTATAT
727150 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:728443 original size:17 final size:18
Alignment explanation
Indices: 728421--728463 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
728411 ATATATCCAG
728421 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
728438 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
728458 TATCAT
1 TATCAT
728464 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:728481 original size:20 final size:19
Alignment explanation
Indices: 728426--728472 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
728416 TCCAGTATCA
728426 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
728445 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
728466 TTTTACC
1 TTTTACC
728473 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:728966 original size:220 final size:219
Alignment explanation
Indices: 728705--729158 Score: 749
Period size: 223 Copynumber: 2.1 Consensus size: 219
728695 ATACGTATGG
*
728705 ACTTTTATAAAAATGATATATATTTTTTTAAAGTTATGTAA-TTATGTTTCAA-TTTTTTTAATA
1 ACTTTTAT-AAAA--ATATATACTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATA
728768 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGAT
63 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTG-T
728833 TATTTGATA-TTT-TAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
127 TATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAAT-A-
*
728896 AATATGTTTTCCACAGTGAAATAAGTATGGAC
190 AATAT-ATTT-CACAGTGAAATAAGTATGGAC
728928 ACTTTTATAAAAATATATACTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTTAATAGT
1 ACTTTTATAAAAATATATACTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTTAATAGT
* *
728993 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAATTATTTGTTTT
65 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGTTAT
729058 TTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAATAT
130 TTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAATAT
729123 ATTTCACAGTGAAATAAGTATGGAC
195 ATTTCACAGTGAAATAAGTATGGAC
729148 AC--TTATAAAAA
1 ACTTTTATAAAAA
729159 GGATAGATAC
Statistics
Matches: 222, Mismatches: 4, Indels: 15
0.92 0.02 0.06
Matches are distributed among these distances:
218 9 0.04
220 48 0.22
221 14 0.06
222 18 0.08
223 85 0.38
224 48 0.22
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (219 bp):
ACTTTTATAAAAATATATACTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTG
TTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGTTATT
TGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAATATA
TTTCACAGTGAAATAAGTATGGAC
Found at i:729717 original size:23 final size:23
Alignment explanation
Indices: 729691--729742 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
729681 AATAACATAT
729691 TAGGTAGCGCTTACATAATGTAA
1 TAGGTAGCGCTTACATAATGTAA
* *
729714 TAGGTAGCGTTTATATAATGTAA
1 TAGGTAGCGCTTACATAATGTAA
729737 TAGGTA
1 TAGGTA
729743 TTTAACCGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.35
Consensus pattern (23 bp):
TAGGTAGCGCTTACATAATGTAA
Found at i:729801 original size:87 final size:87
Alignment explanation
Indices: 729655--729816 Score: 279
Period size: 87 Copynumber: 1.9 Consensus size: 87
729645 ATGTTATATC
*
729655 ATTTAACAGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTACATAATGTAATAGGTA
1 ATTTAACAGGAAATATTATCAAGTACAATAACATATTAAGTAGCGCTTACATAATGTAATAGGTA
*
729720 GCGTTTATATAATGTAATAGGT
66 GCGCTTATATAATGTAATAGGT
* * *
729742 ATTTAACCGGAAATATTATCAAGTACAATAACATATTAAGTAGCTCTTATATAATGTAATAGGTA
1 ATTTAACAGGAAATATTATCAAGTACAATAACATATTAAGTAGCGCTTACATAATGTAATAGGTA
729807 GCGCTTATAT
66 GCGCTTATAT
729817 TGACCTATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.34
Consensus pattern (87 bp):
ATTTAACAGGAAATATTATCAAGTACAATAACATATTAAGTAGCGCTTACATAATGTAATAGGTA
GCGCTTATATAATGTAATAGGT
Found at i:730075 original size:20 final size:20
Alignment explanation
Indices: 730052--730098 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
730042 TTTATACCGG
730052 TTACATTGAAAATCTACCTA
1 TTACATTGAAAATCTACCTA
*
730072 TTACATTGAAAATTTACCTA
1 TTACATTGAAAATCTACCTA
730092 TTACATT
1 TTACATT
730099 ATACTTATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.40
Consensus pattern (20 bp):
TTACATTGAAAATCTACCTA
Found at i:730273 original size:73 final size:72
Alignment explanation
Indices: 730148--730305 Score: 189
Period size: 73 Copynumber: 2.2 Consensus size: 72
730138 TATAAATGTA
* * *
730148 TCGACACTTTATGGTTGCACCCTTTTTGGTATTCATTCTGGACCAAAAGTATCGACACAAATTTA
1 TCGACACTTTATGGTTGCACCCTTTGTGGCATTCATCCTGGACCAAAAGTATCGACACAAA-TTA
*
730213 -TCAAGTG
65 CACAAGTG
730220 TCGACACTTTATGCG-TGCACCTCGTTTGT-GCATTCATCCTGGA-CAATAAGTATCGACACAAA
1 TCGACACTTTATG-GTTGCACC-C-TTTGTGGCATTCATCCTGGACCAA-AAGTATCGACACAAA
730282 TTACACAAGTG
62 TTACACAAGTG
* *
730293 TCGATACATTATG
1 TCGACACTTTATG
730306 TTGACATGTT
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
72 25 0.33
73 46 0.61
74 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (72 bp):
TCGACACTTTATGGTTGCACCCTTTGTGGCATTCATCCTGGACCAAAAGTATCGACACAAATTAC
ACAAGTG
Found at i:733419 original size:251 final size:251
Alignment explanation
Indices: 733035--733491 Score: 654
Period size: 251 Copynumber: 1.8 Consensus size: 251
733025 GTTTCGATGT
*
733035 TTTTGAGATCGACACATTTTGAAAATGTATTGACACTTTATGCGTTCACCCTTTTTGGCATAAAT
1 TTTTGAGATCGACACATTATGAAAATGTATTGACACTTTATGCGTTCACCCTTTTTGGCATAAAT
* * * *
733100 TATGGACAAAAATTATCGACACAATATTAATAAGTGTCGATACATATTATAGACCTATTCTCTCA
66 TATGGACAAAAAGTATCGACACAATACTAATAAGTGTCGATAAATATTATAGACATATTCTCTCA
* * *
733165 TAAAACTGGTATATGTATATCGGTTATATT-ACAAAGTTACCTATTACATTATAATTATGGGTTT
131 TAAAACCGGTATATGTATATCGGTTATATTGA-AAAATTACCCATTAC-TTATAATTATGGGTTT
*
733229 CTATGTTTTTGGGATTGACACTTTTAATAAATGTATAGACACTTTATGCGTGCAACCC
194 CGATGTTTTTGGGATTGACACTTTTAATAAATGTATAGACACTTTATGCGTGCAACCC
* * *
733287 TTTTG-GATCGACAC-TCTATGAAAATGTATTGACACTTTGTAG-GTTCCCCCCTTTTTGGCATC
1 TTTTGAGATCGACACAT-TATGAAAATGTATTGACACTTTAT-GCGTT-CACCCTTTTTGGCATA
* * * * * *
733349 CATTCTGGACACAAAGTATCGACACAATACTAATAAGTGTCGATAAATGTTGTAGACATATT-TT
63 AATTATGGACAAAAAGTATCGACACAATACTAATAAGTGTCGATAAATATTATAGACATATTCTC
* *
733413 TCATAAAACCGGTATATTTATATCGGTTATATTGAAAAATTACCCATTACTTCTAATTATGGGTT
128 TCATAAAACCGGTATATGTATATCGGTTATATTGAAAAATTACCCATTACTTATAATTATGGGTT
733478 TCGATGTTTTTGGG
193 TCGATGTTTTTGGG
733492 TCGTTACTTT
Statistics
Matches: 181, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
250 28 0.15
251 79 0.44
252 74 0.41
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (251 bp):
TTTTGAGATCGACACATTATGAAAATGTATTGACACTTTATGCGTTCACCCTTTTTGGCATAAAT
TATGGACAAAAAGTATCGACACAATACTAATAAGTGTCGATAAATATTATAGACATATTCTCTCA
TAAAACCGGTATATGTATATCGGTTATATTGAAAAATTACCCATTACTTATAATTATGGGTTTCG
ATGTTTTTGGGATTGACACTTTTAATAAATGTATAGACACTTTATGCGTGCAACCC
Found at i:736584 original size:180 final size:188
Alignment explanation
Indices: 736268--736932 Score: 687
Period size: 200 Copynumber: 3.5 Consensus size: 188
736258 TATTTAAATT
*
736268 AGTATCGACACAAAATTAAAAACGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACTGAT
1 AGTATCGACACAAAATTAAAAACATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACTGAT
* * * * * *
736333 ATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATGAGTTTC-GATGTTTTT
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATG-GATGCATATGTTTCT
* *
736397 GGGATCGACACTTTATG-CGT-TC-ACCCTTTTTG-G-CATCCATTCTGG-A-CC-A-A-A
130 -GGATCGACACTTTATGACGTATCGACACTTTATGCGTCA-CCATTCTGGCATCCTAGACA
736448 AGTATCGACACAAAATTAAAAACATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACTGAT
1 AGTATCGACACAAAATTAAAAACATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACTGAT
736513 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTA
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCT-
* * * * *
736578 GGATCGACAATTTTTGAAAATGTATCGACACTTTATGCGTTCACCTTTTTGGCATCCATTATGGA
130 GGATCGACACTTTATG---ACGTATCGACACTTTATGCG-TCACCATTCTGGCATCC--TA--GA
736643 CCAAA
187 -C--A
* * *
736648 AGTATCGACACAAAATTAAAAA-AGTGTCGATACATGTTTTAGATCTATTCTCTCATAAAACCGA
1 AGTATCGACACAAAATTAAAAACA-TGTCGATACATGTTGTAGACCTATTCTCTCATAAAACTGA
* *
736712 TATATTTATACCGGTTATATTGTAAATTCACCTATTACATTATACTTATGGATGCATATGTTTCT
65 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCT
* * * *
736777 GTGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTATG
130 G-GATCGACACTTTATG---ACGTATCGACACTTTATGCG-TCA-CCATTCTGGCATCC--TA--
736842 GACCAA
185 GA-C-A
* * *
736848 AGGTATCGACACAAAATTAAAAA-A-GT-GTTTATATGTTGTAGACCTATTCTCTCAT-AAACCG
1 A-GTATCGACACAAAATTAAAAACATGTCG-ATACATGTTGTAGACCTATTCTCTCATAAAACTG
* *
736909 GTATATTTATTACCAGTTACATTG
64 ATATATTTA-TACCGGTTACATTG
736933 GATCGTAATT
Statistics
Matches: 429, Mismatches: 28, Indels: 37
0.87 0.06 0.07
Matches are distributed among these distances:
179 3 0.01
180 132 0.31
184 2 0.00
185 2 0.00
186 8 0.02
187 1 0.00
188 7 0.02
189 3 0.01
190 2 0.00
193 1 0.00
196 1 0.00
198 15 0.03
199 39 0.09
200 167 0.39
201 46 0.11
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (188 bp):
AGTATCGACACAAAATTAAAAACATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACTGAT
ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
GATCGACACTTTATGACGTATCGACACTTTATGCGTCACCATTCTGGCATCCTAGACA
Found at i:736698 original size:200 final size:201
Alignment explanation
Indices: 736400--736932 Score: 889
Period size: 200 Copynumber: 2.7 Consensus size: 201
736390 TGTTTTTGGG
*
736400 ATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGGACCAAAAGTATCGACACAAAATT
1 ATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTATGGACCAAAAGTATCGACACAAAATT
*
736465 AAAAACA-TGTCGATACATGTTGTAGACCTATTCTCTCATAAAACTGATATATTTATACCGGTTA
66 AAAAA-AGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTA
*
736529 CATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTAG-GATCGACAATTTTT
130 CATTGTAAATTCACCTATTACATTATACTTATGGATGCATATGTTTCT-GTGATCGACAATTTTT
736593 GAAAATGT
194 GAAAATGT
736601 ATCGACACTTTATGCGTTCA-CCTTTTTGGCATCCATTATGGACCAAAAGTATCGACACAAAATT
1 ATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTATGGACCAAAAGTATCGACACAAAATT
* * *
736665 AAAAAAGTGTCGATACATGTTTTAGATCTATTCTCTCATAAAACCGATATATTTATACCGGTTAT
66 AAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTAC
*
736730 ATTGTAAATTCACCTATTACATTATACTTATGGATGCATATGTTTCTGTGATCGACACTTTTTGA
131 ATTGTAAATTCACCTATTACATTATACTTATGGATGCATATGTTTCTGTGATCGACAATTTTTGA
736795 AAATGT
196 AAATGT
*
736801 ATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTATGGACCAAAGGTATCGACACAAAATT
1 ATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTATGGACCAAAAGTATCGACACAAAATT
* * * *
736866 AAAAAAGTGT--TTATATGTTGTAGACCTATTCTCTCAT-AAACCGGTATATTTATTACCAGTTA
66 AAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGATATATTTA-TACCGGTTA
736928 CATTG
130 CATTG
736933 GATCGTAATT
Statistics
Matches: 313, Mismatches: 15, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
198 14 0.04
199 37 0.12
200 189 0.60
201 73 0.23
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (201 bp):
ATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTATGGACCAAAAGTATCGACACAAAATT
AAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTAC
ATTGTAAATTCACCTATTACATTATACTTATGGATGCATATGTTTCTGTGATCGACAATTTTTGA
AAATGT
Found at i:737654 original size:170 final size:170
Alignment explanation
Indices: 737372--737710 Score: 669
Period size: 170 Copynumber: 2.0 Consensus size: 170
737362 CTATATTCAA
737372 ATTGTCAGAACGTTAAGTATTGTAAACCACAACATTCAATCTACGACTTTTAACAATTTTACCAC
1 ATTGTCAGAACGTTAAGTATTGTAAACCACAACATTCAATCTACGACTTTTAACAATTTTACCAC
737437 AAACGAACTTTTAATTCCTCTTACAAAATCACCAGTTGCCCCTGTAGAACCGATCGATTCCATCC
66 AAACGAACTTTTAATTCCTCTTACAAAATCACCAGTTGCCCCTGTAGAACCGATCGATTCCATCC
*
737502 ACATCCTCACATACATGCTGCAATCATATCTGTTACAAAT
131 ACATCATCACATACATGCTGCAATCATATCTGTTACAAAT
737542 ATTGTCAGAACGTTAAGTATTGTAAACCACAACATTCAATCTACGACTTTTAACAATTTTACCAC
1 ATTGTCAGAACGTTAAGTATTGTAAACCACAACATTCAATCTACGACTTTTAACAATTTTACCAC
737607 AAACGAACTTTTAATTCCTCTTACAAAATCACCAGTTGCCCCTGTAGAACCGATCGATTCCATCC
66 AAACGAACTTTTAATTCCTCTTACAAAATCACCAGTTGCCCCTGTAGAACCGATCGATTCCATCC
737672 ACATCATCACATACATGCTGCAATCATATCTGTTACAAA
131 ACATCATCACATACATGCTGCAATCATATCTGTTACAAA
737711 ATTTGAAAAC
Statistics
Matches: 168, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 168 1.00
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.30
Consensus pattern (170 bp):
ATTGTCAGAACGTTAAGTATTGTAAACCACAACATTCAATCTACGACTTTTAACAATTTTACCAC
AAACGAACTTTTAATTCCTCTTACAAAATCACCAGTTGCCCCTGTAGAACCGATCGATTCCATCC
ACATCATCACATACATGCTGCAATCATATCTGTTACAAAT
Found at i:739194 original size:21 final size:21
Alignment explanation
Indices: 739142--739206 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
739132 CCCCTTATGC
*
739142 CTCTCAAGTGTAC-CTTCGACT
1 CTCTCAAGT-TTCTCTTCGACT
739163 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
739184 CTCTCAAGTTTGTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
739205 CT
1 CT
739207 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
20 2 0.05
21 39 0.95
ACGTcount: A:0.15, C:0.32, G:0.12, T:0.40
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:739309 original size:15 final size:15
Alignment explanation
Indices: 739289--739319 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
739279 ACTCTGTTTT
*
739289 CCCTCACCGTCATCC
1 CCCTCACCATCATCC
739304 CCCTCACCATCATCC
1 CCCTCACCATCATCC
739319 C
1 C
739320 TACATCTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.61, G:0.03, T:0.19
Consensus pattern (15 bp):
CCCTCACCATCATCC
Found at i:752578 original size:13 final size:13
Alignment explanation
Indices: 752560--752595 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
752550 CCATTATCAG
752560 AGAGAGAGAAGAA
1 AGAGAGAGAAGAA
752573 AGAGAGAGAAGAA
1 AGAGAGAGAAGAA
752586 AGAGAGAGAA
1 AGAGAGAGAA
752596 ATCCTGGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (13 bp):
AGAGAGAGAAGAA
Found at i:758306 original size:22 final size:22
Alignment explanation
Indices: 758278--758330 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
758268 TGACTTGTAT
758278 GTTAAGATAGAGAACCATTCGG
1 GTTAAGATAGAGAACCATTCGG
758300 GTTAAGATAGAGAACCATTCGG
1 GTTAAGATAGAGAACCATTCGG
*
758322 GTGAAGATA
1 GTTAAGATA
758331 ACAGAGAACC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.23
Consensus pattern (22 bp):
GTTAAGATAGAGAACCATTCGG
Found at i:765029 original size:20 final size:21
Alignment explanation
Indices: 764996--765040 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
764986 ATTGATATAG
*
764996 TTTACCCTTTATTTTAAATAA
1 TTTACCCTTAATTTTAAATAA
*
765017 TTTA-CCTTAATTTTAACTAA
1 TTTACCCTTAATTTTAAATAA
765037 TTTA
1 TTTA
765041 TAATTATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTACCCTTAATTTTAAATAA
Found at i:773336 original size:12 final size:12
Alignment explanation
Indices: 773319--773344 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
773309 TAAAGCTTGC
773319 TATAAGAATTGA
1 TATAAGAATTGA
773331 TATAAGAATTGA
1 TATAAGAATTGA
773343 TA
1 TA
773345 AGGAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (12 bp):
TATAAGAATTGA
Found at i:773728 original size:48 final size:48
Alignment explanation
Indices: 773674--773769 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
773664 AAGCATGACC
773674 ACTTAACTATTATCTATTTTTACTTTATTAATTTATTTTTCATTTTTG
1 ACTTAACTATTATCTATTTTTACTTTATTAATTTATTTTTCATTTTTG
773722 ACTTAACTATTATCTATTTTTACTTTATTAATTTATTTTTCATTTTTG
1 ACTTAACTATTATCTATTTTTACTTTATTAATTTATTTTTCATTTTTG
773770 TCAATCAGAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.62
Consensus pattern (48 bp):
ACTTAACTATTATCTATTTTTACTTTATTAATTTATTTTTCATTTTTG
Found at i:773854 original size:24 final size:24
Alignment explanation
Indices: 773827--773879 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
773817 TCGTTAACAT
773827 TTAACTAAAGTGATGACGTGACAA
1 TTAACTAAAGTGATGACGTGACAA
773851 TTAACTAAAGTGATGACGTGACAA
1 TTAACTAAAGTGATGACGTGACAA
773875 TTAAC
1 TTAAC
773880 AAAATTGGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (24 bp):
TTAACTAAAGTGATGACGTGACAA
Found at i:778575 original size:23 final size:23
Alignment explanation
Indices: 778541--778595 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
778531 ATTTTTTAGA
** *
778541 AAAAATATTTTAAATTTTAAATTT
1 AAAAATA-TTTAAAAATTAAATAT
778565 AAAAATATTTAAAAATTAAATAT
1 AAAAATATTTAAAAATTAAATAT
*
778588 CAAAATAT
1 AAAAATAT
778596 CAAAAATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 20 0.74
24 7 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAAATATTTAAAAATTAAATAT
Found at i:778601 original size:23 final size:23
Alignment explanation
Indices: 778557--778601 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
778547 ATTTTAAATT
* **
778557 TTAAATTTAAAAATATTTAAAAA
1 TTAAATATAAAAATATCAAAAAA
*
778580 TTAAATATCAAAATATCAAAAA
1 TTAAATATAAAAATATCAAAAA
778602 TAAAAATTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (23 bp):
TTAAATATAAAAATATCAAAAAA
Found at i:783569 original size:10 final size:10
Alignment explanation
Indices: 783554--783578 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
783544 ATTTAAACAT
783554 GATGATTGAG
1 GATGATTGAG
783564 GATGATTGAG
1 GATGATTGAG
783574 GATGA
1 GATGA
783579 GGCTGATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.40, T:0.28
Consensus pattern (10 bp):
GATGATTGAG
Found at i:785738 original size:64 final size:64
Alignment explanation
Indices: 785670--785889 Score: 218
Period size: 64 Copynumber: 3.5 Consensus size: 64
785660 TTGAAGGTGT
* ** * *
785670 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTTGTG
1 ATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAAGAAA-ACATCGAATGCAATTAGTG
785733 C
64 C
* * *
785734 ATCGATGCATAAGTAGTGCATTGATGCATCCCATTAATAAGGAAACATCGAATGCAATTAGTGC
1 ATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAATTAGTGC
* * * * * *
785798 ATCGATTCATAAGGCA-TGCATCGATGCATCCCAGTAATAA-ACAACATCGAATACATTTTA-TG
1 ATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCA-ATTAGTG
785860 C
64 C
*
785861 ACCGATGCATCA-GTAGTGCATCGATGCAT
1 ATCGATGCAT-AGGTAGTGCATCGATGCAT
785890 ACCTTCATTA
Statistics
Matches: 130, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
62 2 0.02
63 37 0.28
64 83 0.64
65 8 0.06
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAATTAGTGC
Found at i:786834 original size:103 final size:103
Alignment explanation
Indices: 786609--786826 Score: 409
Period size: 103 Copynumber: 2.1 Consensus size: 103
786599 GTCGAGGGTC
786609 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
786674 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
786712 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
786777 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
786815 TATGTGGTCCTT
1 TATGTGGTCCTT
786827 ATGGACATTA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 112 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:786909 original size:23 final size:23
Alignment explanation
Indices: 786833--786910 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
786823 CCTTATGGAC
*
786833 ATTATTATATGGCACTACGGTGTA
1 ATTA-TATGTGGCACTACGGTGTA
* * * * *
786857 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGTA
*
786880 ATTATATGTGGCACTTCGGTGTA
1 ATTATATGTGGCACTACGGTGTA
786903 ATTATATG
1 ATTATATG
786911 AACTGTGGTG
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 40 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGTA
Found at i:791746 original size:64 final size:64
Alignment explanation
Indices: 791666--791885 Score: 198
Period size: 64 Copynumber: 3.5 Consensus size: 64
791656 TTGAAGGTGT
** ** * *
791666 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTCGTG
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAAGAAA-ACATCGAATGCAATTAGTG
791729 C
64 C
* * *
791730 ATCGATGCATAAGTAGTTCATCGATACATCCCATTAATAAGGAAACATCGAATGCAATTAGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAATTAGTGC
* * ** * * *
791794 ATCGATGCATAAGGCA-TGCATCGATGCATCCAAGCAATAA-ACAACATCGAATACATTTTA-TG
1 ATCGATGCATAA-GTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCA-ATTAGTG
791856 C
64 C
* * *
791857 ACCGATGCATCAGTAGTGTATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
791886 ACCTTCATTA
Statistics
Matches: 128, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
62 2 0.02
63 37 0.29
64 82 0.64
65 7 0.05
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAATTAGTGC
Found at i:792830 original size:103 final size:103
Alignment explanation
Indices: 792605--792822 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
792595 GTCGAGGGTC
792605 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
792670 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
792708 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
792773 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
792811 TATGTGGTCTTT
1 TATGTGGTCTTT
792823 ATGGACATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:792888 original size:23 final size:23
Alignment explanation
Indices: 792838--792904 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
792828 CATTATTATA
*
792838 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTATACG
* * * *
792861 CGGCACTCCGGTGCAGTTATATG
1 TGGCACTACGGTGCAATTATACG
* * *
792884 TGGCACTTCGATACAATTATA
1 TGGCACTACGGTGCAATTATA
792905 TGAGTTGTGG
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:797750 original size:34 final size:34
Alignment explanation
Indices: 797711--797785 Score: 150
Period size: 34 Copynumber: 2.2 Consensus size: 34
797701 TGAAACTTTC
797711 AAACCTAGTTATTTAAGTCGATTTCCTCTTTAGA
1 AAACCTAGTTATTTAAGTCGATTTCCTCTTTAGA
797745 AAACCTAGTTATTTAAGTCGATTTCCTCTTTAGA
1 AAACCTAGTTATTTAAGTCGATTTCCTCTTTAGA
797779 AAACCTA
1 AAACCTA
797786 AAAATCACCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.39
Consensus pattern (34 bp):
AAACCTAGTTATTTAAGTCGATTTCCTCTTTAGA
Found at i:814915 original size:14 final size:14
Alignment explanation
Indices: 814896--814924 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
814886 TTGGGTTTCC
814896 ACAGTTTCACTCTA
1 ACAGTTTCACTCTA
814910 ACAGTTTCACTCTA
1 ACAGTTTCACTCTA
814924 A
1 A
814925 TTTCTCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (14 bp):
ACAGTTTCACTCTA
Found at i:820955 original size:34 final size:34
Alignment explanation
Indices: 820863--820960 Score: 99
Period size: 34 Copynumber: 2.8 Consensus size: 34
820853 GAAGATAATG
* *
820863 AAATATATAAAGAGGGATCTTATAATAATTATCTCT
1 AAATATATAAAGA--GATATTATAGTAATTATCTCT
* * * *
820899 AAATATAGAGAGAGAAACTATAGTAATTATC-CAT
1 AAATATATAAAGAGATATTATAGTAATTATCTC-T
*
820933 AAATATATAAAGATATATTATAGTAATT
1 AAATATATAAAGAGATATTATAGTAATT
820961 GTTTAGGTCA
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
33 1 0.02
34 38 0.76
36 11 0.22
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (34 bp):
AAATATATAAAGAGATATTATAGTAATTATCTCT
Found at i:825852 original size:23 final size:25
Alignment explanation
Indices: 825837--825903 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 25
825827 ACAAATCAGC
825837 TAACT-AA-CTGATAACAAACTAAC
1 TAACTAAAGCTGATAACAAACTAAC
825860 TAACTACAAGCTGATAACAAACTAAC
1 TAACTA-AAGCTGATAACAAACTAAC
825886 TAACTACAAGCTGATAAC
1 TAACTA-AAGCTGATAAC
825904 TAATCGACTA
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
23 5 0.12
25 2 0.05
26 34 0.83
ACGTcount: A:0.49, C:0.22, G:0.07, T:0.21
Consensus pattern (25 bp):
TAACTAAAGCTGATAACAAACTAAC
Found at i:825913 original size:26 final size:26
Alignment explanation
Indices: 825844--825903 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
825834 AGCTAACTAA
825844 CTGATAACAAACTAACTAACTACAAG
1 CTGATAACAAACTAACTAACTACAAG
825870 CTGATAACAAACTAACTAACTACAAG
1 CTGATAACAAACTAACTAACTACAAG
825896 CTGATAAC
1 CTGATAAC
825904 TAATCGACTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.48, C:0.23, G:0.08, T:0.20
Consensus pattern (26 bp):
CTGATAACAAACTAACTAACTACAAG
Found at i:826136 original size:56 final size:56
Alignment explanation
Indices: 826058--826163 Score: 176
Period size: 56 Copynumber: 1.9 Consensus size: 56
826048 AATAACTTTT
* * *
826058 TTTTTTCTTTTGGGCTCTTTAACTTCCTTTCTCTCTTTCTCATATAAGAATAATCA
1 TTTTTTATTTTGGGCTCTTTAACTTCATTTCTCTCTTTCTCACATAAGAATAATCA
*
826114 TTTTTTATTTTGTGCTCTTTAACTTCATTTCTCTCTTTCTCACATAAGAA
1 TTTTTTATTTTGGGCTCTTTAACTTCATTTCTCTCTTTCTCACATAAGAA
826164 CATTGATTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.20, C:0.21, G:0.07, T:0.53
Consensus pattern (56 bp):
TTTTTTATTTTGGGCTCTTTAACTTCATTTCTCTCTTTCTCACATAAGAATAATCA
Found at i:828174 original size:3 final size:3
Alignment explanation
Indices: 828166--828192 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
828156 TTTTATTTGA
828166 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
828193 TTAATTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:828200 original size:91 final size:85
Alignment explanation
Indices: 828022--828200 Score: 342
Period size: 85 Copynumber: 2.1 Consensus size: 85
828012 TCACGCATAA
828022 TTTAATTTTAAATAAAAAAATGTTTTATGTTTAATAATTAATACTTAATTTTTATTTGAATTATT
1 TTTAATTTTAAATAAAAAAATGTTTTATGTTTAATAATTAATACTTAATTTTTATTTGAATTATT
828087 ATTATTATTATTATTTTAAT
66 ATTATTATTATTATTTTAAT
828107 TTTAATTTTAAATAAAAAAATGTTTTATGTTTAATAATTAATACTTAATTTTTATTTGAATTATT
1 TTTAATTTTAAATAAAAAAATGTTTTATGTTTAATAATTAATACTTAATTTTTATTTGAATTATT
828172 ATTATTATTATTATTATT-AT
66 ATTATTATTATTATT-TTAAT
828192 TTTAATTTT
1 TTTAATTTT
828201 TAAGATTAAA
Statistics
Matches: 93, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
85 91 0.98
86 2 0.02
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (85 bp):
TTTAATTTTAAATAAAAAAATGTTTTATGTTTAATAATTAATACTTAATTTTTATTTGAATTATT
ATTATTATTATTATTTTAAT
Found at i:829014 original size:27 final size:28
Alignment explanation
Indices: 828960--829014 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
828950 AGTACAATTT
* *
828960 TTATATTAAATATTTTTTAAACACATATA
1 TTATAATAAATA-TTTTTAAAAACATATA
*
828989 TTATAATAAATA-TTTTAAAAATATAT
1 TTATAATAAATATTTTTAAAAACATAT
829015 GTATGATACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 12 0.52
29 11 0.48
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (28 bp):
TTATAATAAATATTTTTAAAAACATATA
Found at i:830326 original size:23 final size:23
Alignment explanation
Indices: 830300--830359 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
830290 ATCAAACACA
* *
830300 ATAACATATTAGGTAGCGTTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
830323 ATAATGTAATATGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
830346 ATAATAAAATAGGT
1 ATAACATAATAGGT
830360 TAATTACTAG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.37
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:830340 original size:87 final size:87
Alignment explanation
Indices: 830194--830434 Score: 374
Period size: 87 Copynumber: 2.8 Consensus size: 87
830184 TTATTTAACA
* * * *
830194 GGAAATATTATCAAGTAAAATAACAAATTAGGTAACGCTTATATAATATAATAAGTAGCGCTTAT
1 GGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAAGTAGCGCTTAT
830259 ATAATAAAATAGGTTAATTACT
66 ATAATAAAATAGGTTAATTACT
* ** * *
830281 GGAAACATTATCAAACACAATAACATATTAGGTAGCGTTTATATAATGTAATATGTAGCGCTTAT
1 GGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAAGTAGCGCTTAT
830346 ATAATAAAATAGGTTAATTACT
66 ATAATAAAATAGGTTAATTACT
* * *
830368 AGAAATATTATCAAGTACAATAACATATTAGGTAGTGCTTATATAATGTAATAGGTAGCGCTTAT
1 GGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAAGTAGCGCTTAT
830433 AT
66 AT
830435 TGACCTATTC
Statistics
Matches: 138, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 138 1.00
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (87 bp):
GGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAAGTAGCGCTTAT
ATAATAAAATAGGTTAATTACT
Found at i:830785 original size:198 final size:199
Alignment explanation
Indices: 830447--831108 Score: 869
Period size: 198 Copynumber: 3.3 Consensus size: 199
830437 ACCTATTCTA
** * * *
830447 TCATAAAACCGGTATATTTATACC-TGTAACATTGCAAATTTACCTATTACATTATAATTATCGG
1 TCATAAAACTAGTATATTTCTACCGGGT-ACATTGTAAATTTACCTATTACATTATAATTATCGG
*
830511 TTTCGATGTTTTTGGGATCGATACAATTT--TAAATGTATCGACACTTTATGCGTGCACCTCGTT
65 TTTCGATGTTTTTGGGATCGATAC-ATTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTT
*
830574 GGGCATTCATTCT-GAAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGAAC
129 -GGCATTCATTCTGGAAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTATGTAGAAC
830638 TATTTTC
193 TATTTTC
* * *
830645 TCATAAAACTAGTAAATTTCTACCGGGTACATTGTAAATTTACCTATTACATTGTAATTATCAGT
1 TCATAAAACTAGTATATTTCTACCGGGTACATTGTAAATTTACCTATTACATTATAATTATCGGT
*
830710 TTGGAT-TTTTTGGGATCGATACATTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTGG
66 TTCGATGTTTTTGGGATCGATACATTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTGG
* *
830774 ACATTCATTCTGGAAAAAAA-TATCGACACAAACTTAAAATGTGTCGATACATTATATA-TACTT
131 -CATTCATTCTGGAAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTATGTAGAAC-T
830837 ATTTTC
194 ATTTTC
* * * *
830843 TCATAAAA-TCGATATATTTCTATCGAGTACATTGTAAATTTACCTATTACATTGTAATTATCGG
1 TCATAAAACTAG-TATATTTCTACCGGGTACATTGTAAATTTACCTATTACATTATAATTATCGG
* * * *
830907 TTTCGATGTTTTTGGAATCGATACTTTTAATAAATGTATCAACACTTTATGTGTGTACCTCGTTT
65 TTTCGATGTTTTTGGGATCGATACATTTAATAAATGTATCGACACTTTATGTGTGCACCTCG-TT
* * *** * *
830972 GGCATTCATTCTGGACAAAATGTATCGACAC-TTTTTAAATTTGTGTCGATACATTATGTAGACC
129 GGCATTCATTCTGGAAAAAAAGTATCGACACAAACTTAAA-ATGTGTCGATACATTATGTAGAAC
831036 TATTCTT-
193 TATT-TTC
* ** *
831043 TCATAAAAC-ATGTATATTTATACTTGTTACATTGTAAATTTACCTATTACATTATAATTATCGG
1 TCATAAAACTA-GTATATTTCTACCGGGTACATTGTAAATTTACCTATTACATTATAATTATCGG
831107 TT
65 TT
831109 CCAATGTAAC
Statistics
Matches: 409, Mismatches: 40, Indels: 28
0.86 0.08 0.06
Matches are distributed among these distances:
196 4 0.01
197 22 0.05
198 207 0.51
199 82 0.20
200 90 0.22
201 4 0.01
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (199 bp):
TCATAAAACTAGTATATTTCTACCGGGTACATTGTAAATTTACCTATTACATTATAATTATCGGT
TTCGATGTTTTTGGGATCGATACATTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTGG
CATTCATTCTGGAAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTATGTAGAACTAT
TTTC
Found at i:831255 original size:31 final size:32
Alignment explanation
Indices: 831220--831311 Score: 86
Period size: 30 Copynumber: 3.0 Consensus size: 32
831210 AATAAATACT
831220 AAATATAATTTATAATAATTTTATT-TTAATA
1 AAATATAATTTATAATAATTTTATTATTAATA
* * *
831251 AAATATAA-TAATCATAATTTT-TTATTTATA
1 AAATATAATTTATAATAATTTTATTATTAATA
* * *
831281 AAAT-TATATATATAAT-ATTTTAATAATAATA
1 AAATATA-ATTTATAATAATTTTATTATTAATA
831312 TTGACATAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
29 4 0.08
30 26 0.54
31 18 0.38
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (32 bp):
AAATATAATTTATAATAATTTTATTATTAATA
Found at i:831309 original size:14 final size:14
Alignment explanation
Indices: 831227--831313 Score: 52
Period size: 14 Copynumber: 6.2 Consensus size: 14
831217 ACTAAATATA
**
831227 ATTTATAATAATTTT
1 ATTT-TAATAATAAT
831242 ATTTTAATAA-AAT
1 ATTTTAATAATAAT
** *
831255 ATAATAATCATAAT
1 ATTTTAATAATAAT
* * * *
831269 TTTTTATTTATAAA
1 ATTTTAATAATAAT
*
831283 ATTAT-ATATATAAT
1 ATTTTAATA-ATAAT
831297 ATTTTAATAATAAT
1 ATTTTAATAATAAT
831311 ATT
1 ATT
831314 GACATAAATA
Statistics
Matches: 52, Mismatches: 17, Indels: 7
0.68 0.22 0.09
Matches are distributed among these distances:
13 9 0.17
14 36 0.69
15 7 0.13
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:831309 original size:28 final size:28
Alignment explanation
Indices: 831241--831328 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 28
831231 ATAATAATTT
*
831241 TATTTTAATAA-AATATAATA-ATCATAA
1 TATTTTAATAATAATATTATATAT-ATAA
* * * *
831268 TTTTTTATTTATAAAATTATATATATAA
1 TATTTTAATAATAATATTATATATATAA
* *
831296 TATTTTAATAATAATATTGACATAAATAA
1 TATTTTAATAATAATATT-ATATATATAA
831325 TATT
1 TATT
831329 AAATAAATTA
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
27 8 0.17
28 25 0.53
29 14 0.30
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (28 bp):
TATTTTAATAATAATATTATATATATAA
Found at i:831396 original size:24 final size:24
Alignment explanation
Indices: 831345--831396 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
831335 ATTATTCTAA
831345 TATT-TTAAAAATAATATTATTAT
1 TATTGTTAAAAATAATATTATTAT
*
831368 T-TTGTTAATAAATAATTTTATT-T
1 TATTGTTAA-AAATAATATTATTAT
831391 TATTGT
1 TATTGT
831397 ATTTGATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 2 0.08
23 7 0.28
24 16 0.64
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (24 bp):
TATTGTTAAAAATAATATTATTAT
Found at i:831761 original size:21 final size:21
Alignment explanation
Indices: 831737--831793 Score: 98
Period size: 20 Copynumber: 2.8 Consensus size: 21
831727 AATACCCAAC
831737 AATAACAAAACCGGTAAAAAA
1 AATAACAAAACCGGTAAAAAA
*
831758 AATAACAAAACCGAT-AAAAA
1 AATAACAAAACCGGTAAAAAA
831778 AATAACAAAACCGGTA
1 AATAACAAAACCGGTA
831794 GCGTTTTACC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.65, C:0.16, G:0.09, T:0.11
Consensus pattern (21 bp):
AATAACAAAACCGGTAAAAAA
Found at i:832016 original size:30 final size:31
Alignment explanation
Indices: 831982--832066 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 31
831972 TTATAAAAAA
*
831982 TAAT-AAATATAATTTATAATAA-TTTTATTT
1 TAATAAAATATAA-TAATAATAATTTTTATTT
*
832012 TAATAAAATATAATAATCATAATTTTTA-TT
1 TAATAAAATATAATAATAATAATTTTTATTT
832042 T-ATAAAATTATAGAT-ATAAT-ATTTT
1 TAATAAAA-TATA-ATAATAATAATTTT
832067 AATAATAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
29 11 0.23
30 22 0.46
31 15 0.31
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (31 bp):
TAATAAAATATAATAATAATAATTTTTATTT
Found at i:832074 original size:14 final size:14
Alignment explanation
Indices: 831993--832093 Score: 57
Period size: 14 Copynumber: 7.2 Consensus size: 14
831983 AATAAATATA
**
831993 ATTTATAATAATTTT
1 ATTT-TAATAATAAT
832008 ATTTTAATAA-AAT
1 ATTTTAATAATAAT
** *
832021 ATAATAATCATAAT
1 ATTTTAATAATAAT
* * *
832035 -TTTTATTTATAAA
1 ATTTTAATAATAAT
*
832048 ATTATAGAT-ATAAT
1 ATTTTA-ATAATAAT
832062 ATTTTAATAATAAT
1 ATTTTAATAATAAT
832076 A-TTTACATAAATAAT
1 ATTTTA-AT-AATAAT
832091 ATT
1 ATT
832094 AAATAAATTA
Statistics
Matches: 65, Mismatches: 14, Indels: 13
0.71 0.15 0.14
Matches are distributed among these distances:
13 22 0.34
14 30 0.46
15 12 0.18
16 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:832099 original size:14 final size:15
Alignment explanation
Indices: 832057--832101 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
832047 AATTATAGAT
*
832057 ATAATATTTTAAT-A
1 ATAATATTTAAATAA
*
832071 ATAATATTTACATAA
1 ATAATATTTAAATAA
832086 ATAATA-TTAAATAA
1 ATAATATTTAAATAA
832100 AT
1 AT
832102 TATTCTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 20 0.74
15 7 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATATTTAAATAA
Found at i:832526 original size:23 final size:23
Alignment explanation
Indices: 832491--832575 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 23
832481 TCAGTAATTA
**
832491 ACCTATTTTATTATATAAGCTCT
1 ACCTATTACATTATATAAGCTCT
*
832514 ACTTATTACATTATATAAGCTCT
1 ACCTATTACATTATATAAGCTCT
*
832537 ACCGATTACATTATATAAG-TGCT
1 ACCTATTACATTATATAAGCT-CT
*
832560 ACCTATTACATCATAT
1 ACCTATTACATTATAT
832576 TTTTACCTGT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
22 1 0.02
23 53 0.98
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.41
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCTCT
Found at i:834907 original size:36 final size:37
Alignment explanation
Indices: 834854--834942 Score: 137
Period size: 36 Copynumber: 2.5 Consensus size: 37
834844 TATTAAAAAT
834854 AATTATATATATATATAATATTAATAAATTTAATTTA
1 AATTATATATATATATAATATTAATAAATTTAATTTA
* * *
834891 AATTA-ATATATATATAATGTTTATATATTTAATTTA
1 AATTATATATATATATAATATTAATAAATTTAATTTA
834927 AA-TATATATATATATA
1 AATTATATATATATATA
834943 CCCGGCCCGA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
35 2 0.04
36 41 0.85
37 5 0.10
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (37 bp):
AATTATATATATATATAATATTAATAAATTTAATTTA
Found at i:834917 original size:15 final size:15
Alignment explanation
Indices: 834852--834936 Score: 55
Period size: 15 Copynumber: 6.2 Consensus size: 15
834842 AATATTAAAA
834852 ATAATTATATATATAT
1 ATAATT-TATATATAT
834868 ATAA--TAT-TA-AT
1 ATAATTTATATATAT
834879 A-AATTTA-AT-T-T
1 ATAATTTATATATAT
*
834890 A-AATTAATATATAT
1 ATAATTTATATATAT
834904 ATAATGTT-TATATAT
1 ATAAT-TTATATATAT
* *
834919 TTAATTTAAATATAT
1 ATAATTTATATATAT
834934 ATA
1 ATA
834937 TATATACCCG
Statistics
Matches: 54, Mismatches: 5, Indels: 21
0.68 0.06 0.26
Matches are distributed among these distances:
10 2 0.04
11 10 0.19
12 7 0.13
13 4 0.07
14 4 0.07
15 22 0.41
16 5 0.09
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (15 bp):
ATAATTTATATATAT
Found at i:835902 original size:18 final size:18
Alignment explanation
Indices: 835879--835919 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
835869 GAGAGCCAAA
*
835879 TTAATAGTAAAGTAAAGT
1 TTAATAGTAAACTAAAGT
* *
835897 TTAATATTTAACTAAAGT
1 TTAATAGTAAACTAAAGT
835915 TTAAT
1 TTAAT
835920 GACAAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.41
Consensus pattern (18 bp):
TTAATAGTAAACTAAAGT
Found at i:841632 original size:30 final size:29
Alignment explanation
Indices: 841562--841626 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
841552 CTTTAGAGAA
*
841562 TTTTAAAATTTTCTTTATATTTTAATTTC
1 TTTTAAAATATTCTTTATATTTTAATTTC
841591 TTTTAAAATATTCTTTATATTTTAATTT-
1 TTTTAAAATATTCTTTATATTTTAATTTC
841619 TTTTAAAA
1 TTTTAAAA
841627 AATATTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 8 0.23
29 27 0.77
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (29 bp):
TTTTAAAATATTCTTTATATTTTAATTTC
Found at i:849115 original size:51 final size:51
Alignment explanation
Indices: 849038--849160 Score: 167
Period size: 51 Copynumber: 2.4 Consensus size: 51
849028 CCCTACATGG
* ** * *
849038 CGTATAGCGCGCTGCAGGGGCCGCGCTATA-CCCACGTGTATGCCAGATCAC
1 CGTATAGCGCGGTGCAGGGGGAGCGCTATACCCCACGTG-ACGCCAAATCAC
* *
849089 CGTATAGCGCGGTGCAGGGGGAGCGCTATACCCCACGTGGCGCCAAATCAT
1 CGTATAGCGCGGTGCAGGGGGAGCGCTATACCCCACGTGACGCCAAATCAC
849140 CGTATAGCGCGGTGCAGGGGG
1 CGTATAGCGCGGTGCAGGGGG
849161 CGTGGTTTAC
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
51 56 0.88
52 8 0.12
ACGTcount: A:0.20, C:0.29, G:0.35, T:0.16
Consensus pattern (51 bp):
CGTATAGCGCGGTGCAGGGGGAGCGCTATACCCCACGTGACGCCAAATCAC
Found at i:850716 original size:17 final size:17
Alignment explanation
Indices: 850694--850740 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
850684 GAGTTTAGAA
850694 AAATTTTACTCGAATTG
1 AAATTTTACTCGAATTG
850711 AAATTTTACTCGAATTG
1 AAATTTTACTCGAATTG
*
850728 AAATTTGACTCGA
1 AAATTTTACTCGA
850741 TTTTAAGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (17 bp):
AAATTTTACTCGAATTG
Found at i:853418 original size:28 final size:29
Alignment explanation
Indices: 853367--853428 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 29
853357 TTGTATTGGT
853367 GTTTATGGATTAAATGTTTAAGCATTTAG
1 GTTTATGGATTAAATGTTTAAGCATTTAG
*
853396 GTTTATGGGTT-AATGTTTAAGCATTTAG
1 GTTTATGGATTAAATGTTTAAGCATTTAG
853424 GTTTA
1 GTTTA
853429 CTGCTTTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 22 0.69
29 10 0.31
ACGTcount: A:0.27, C:0.03, G:0.23, T:0.47
Consensus pattern (29 bp):
GTTTATGGATTAAATGTTTAAGCATTTAG
Found at i:856019 original size:3 final size:3
Alignment explanation
Indices: 856013--856094 Score: 130
Period size: 3 Copynumber: 27.7 Consensus size: 3
856003 CAACAAAAAC
856013 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
856061 AAT AAT AAT AAT AAT ATT TA- AAT ATT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
856095 CCTGAAAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
2 1 0.01
3 71 0.99
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:856533 original size:42 final size:41
Alignment explanation
Indices: 856445--856539 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 41
856435 TATAGACGGT
*
856445 CCGAAGGACTTAACATCTTGCTCGAAAGACTGATAGATGAC
1 CCGAAGGACTTAACATCATGCTCGAAAGACTGATAGATGAC
* * *
856486 CCGAAGGATTTAATCATCATGCTCGAAAGACTTACT-GATGGC
1 CCGAAGGACTTAA-CATCATGCTCGAAAGACTGA-TAGATGAC
*
856528 TCGAAGGACTTA
1 CCGAAGGACTTA
856540 TTAAATTTGG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 12 0.26
42 33 0.72
43 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (41 bp):
CCGAAGGACTTAACATCATGCTCGAAAGACTGATAGATGAC
Found at i:856782 original size:42 final size:41
Alignment explanation
Indices: 856698--856803 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 41
856688 AGGTCTTATG
* * *
856698 GATGATCCGAAGGACTTATAATCTTGCTCCAAAGATTGACA
1 GATGACCCGAAGGACTTATAATCATGCTCAAAAGATTGACA
* *
856739 GATGACCCGAAGGATTTAATCATCATGCTCAAAAGACTT-ACA
1 GATGACCCGAAGGACTT-ATAATCATGCTCAAAAGA-TTGACA
* *
856781 GATGGCCCAAAGGACTTACTAAT
1 GATGACCCGAAGGACTTA-TAAT
856804 TTATGAAATA
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
41 16 0.30
42 35 0.66
43 2 0.04
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.25
Consensus pattern (41 bp):
GATGACCCGAAGGACTTATAATCATGCTCAAAAGATTGACA
Found at i:857025 original size:258 final size:257
Alignment explanation
Indices: 856222--857312 Score: 1449
Period size: 258 Copynumber: 4.3 Consensus size: 257
856212 TGAGAACGAT
* * *
856222 AGATAACCCGAATGATTTAATCATCATGCTCGAAAGACTTACTGATGGCGCGAAA-GACTTACTA
1 AGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGC-CCAAAGGACTTACTA
* * *
856286 ATTTTGGAAATAATTTAC-GGGAAAGAAACATTGGAAATCAATTTCTTACTTTTCAAAAATTTCA
65 ATTTTGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCA
* * *
856350 TTTTCTGAAAACA-TTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAAAATCATGTGG
130 TTTTCTGAAAA-ATTTAAATGAGAAACTTTGGAAATCGCTTTCCCATTTTTCGAAAATCATGAGG
* * * * * * *
856414 AAATATCCTGCCCGAATGTCTTATAGACGGTCCGAAGGACTTAACATCTTGCTCGAAAGACTGAT
194 AAACATCCTGCCCGAAGGTCTTACAGATGG-CCGAAGGACTTATCATCTTGCTCGAAAGACTTAC
* * *
856479 AGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCTCGAAGGACTTATTAA
1 AGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCAAAGGACTTACTAA
* *
856544 ATTTGGAAATAATTTACTGGGTAAGAAGCTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCAT
66 TTTTGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCAT
* * *
856609 TTTCAGAAAACATTTAAATGAGAAACTTTGGAAATCGTTTTCTCATTTTTCGAAAATCATGAGGA
131 TTTCTGAAAA-ATTTAAATGAGAAACTTTGGAAATCGCTTTCCCATTTTTCGAAAATCATGAGGA
* ** * * *
856674 AACATCATGCCCGAAGGTCTTATGGATGATCCGAAGGACTTATAATCTTGCTCCAAAGA-TTGAC
195 AACATCCTGCCCGAAGGTCTTACAGATG-GCCGAAGGACTTATCATCTTGCTCGAAAGACTT-AC
* *
856738 AGATGACCCGAAGGATTTAATCATCATGCTCAAAAGACTTACAGATGGCCCAAAGGACTTACTAA
1 AGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCAAAGGACTTACTAA
*
856803 TTTAT-GAAATAATTTA-TCGGGTAAGAAACTTTGGAAATCACTTTCTTATTTTTCAAAAATTTC
66 TTT-TGGAAATAATTTACT-GGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTC
*
856866 ATTTTCTGAAAAGTTTAAATGAGAAACTTTGGAAATCGCTTTCCCATTTTTCGAAAATCATG-GG
129 ATTTTCTGAAAAATTTAAATGAGAAACTTTGGAAATCGCTTTCCCATTTTTCGAAAATCATGAGG
856930 AAAACATCCTGCCCGAAGGTCTTACAGATGGCCTGAAGGACTTATCATCTTGCTCGAAAGACTTA
194 -AAACATCCTGCCCGAAGGTCTTACAGATGGCC-GAAGGACTTATCATCTTGCTCGAAAGACTTA
856995 C
257 C
* ** *
856996 AGATAACCCGAAGGATTTAATCATCATGCTAAAAAGACTTACTGATGGCCCGAAGGACTTACTAA
1 AGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCAAAGGACTTACTAA
* * * *
857061 TTTTGGAAATAATTTACTAGGTAAGAAACTTTGGAAATCATTTTCTTTCTTTTCGAAAATTTCAT
66 TTTTGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCAT
* * * * ** * *
857126 TTTC-AAAAAATATTAAATGATAAACATTGAAAATCATTTTCCCA-TTTTC-CAAA--GTGA--A
131 TTTCTGAAAAAT-TTAAATGAGAAACTTTGGAAATCGCTTTCCCATTTTTCGAAAATCATGAGGA
* *
857184 AACATCCT-ACCGAAAGGTCTTACGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTAC
195 AACATCCTGCCCG-AAGGTCTTACAGATGG-CCGAAGGACTTATCATCTTGCTCGAAAGACTTAC
* * *
857248 AAATGACCTGAATGATTTAATCATCATGCTCGAAAGACTTACTGATGG-CCAGAAGGACTTACTA
1 AGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCA-AAGGACTTACTA
857312 A
65 A
857313 GTAAGAAACT
Statistics
Matches: 746, Mismatches: 71, Indels: 39
0.87 0.08 0.05
Matches are distributed among these distances:
251 5 0.01
252 111 0.15
253 2 0.00
254 2 0.00
256 5 0.01
257 87 0.12
258 304 0.41
259 229 0.31
260 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.31
Consensus pattern (257 bp):
AGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCAAAGGACTTACTAA
TTTTGGAAATAATTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCAT
TTTCTGAAAAATTTAAATGAGAAACTTTGGAAATCGCTTTCCCATTTTTCGAAAATCATGAGGAA
ACATCCTGCCCGAAGGTCTTACAGATGGCCGAAGGACTTATCATCTTGCTCGAAAGACTTAC
Found at i:857032 original size:42 final size:41
Alignment explanation
Indices: 856950--857056 Score: 133
Period size: 42 Copynumber: 2.6 Consensus size: 41
856940 GCCCGAAGGT
* * **
856950 CTTACAGATGGCCTGAAGGACTTATCATCTTGCTCGAAAGA
1 CTTACAGATGGCCCGAAGGACTTATCATCATGCTAAAAAGA
** *
856991 CTTACAGATAACCCGAAGGATTTAATCATCATGCTAAAAAGA
1 CTTACAGATGGCCCGAAGGACTT-ATCATCATGCTAAAAAGA
*
857033 CTTACTGATGGCCCGAAGGACTTA
1 CTTACAGATGGCCCGAAGGACTTA
857057 CTAATTTTGG
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 20 0.37
42 34 0.63
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (41 bp):
CTTACAGATGGCCCGAAGGACTTATCATCATGCTAAAAAGA
Found at i:862970 original size:23 final size:23
Alignment explanation
Indices: 862940--862985 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
862930 GAACAAGAGC
862940 TTGGTTGAGTGGAGTTTTATCAA
1 TTGGTTGAGTGGAGTTTTATCAA
862963 TTGGTTGAGTGGAGTTTTATCAA
1 TTGGTTGAGTGGAGTTTTATCAA
862986 ACTCGATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.04, G:0.30, T:0.43
Consensus pattern (23 bp):
TTGGTTGAGTGGAGTTTTATCAA
Found at i:866691 original size:19 final size:19
Alignment explanation
Indices: 866656--866711 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 19
866646 AGAAACTAGT
* *
866656 TTTTTTTTATT-TCATTTG
1 TTTTATTTATTATTATTTG
866674 TTTTATTTATTATTATTTTG
1 TTTTATTTATTATTA-TTTG
866694 TTTTAATATTATTATTAT
1 TTTT-AT-TTATTATTAT
866712 ATTAAATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 10 0.31
19 2 0.06
20 8 0.25
21 3 0.09
22 9 0.28
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (19 bp):
TTTTATTTATTATTATTTG
Found at i:866720 original size:13 final size:14
Alignment explanation
Indices: 866704--866732 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
866694 TTTTAATATT
866704 ATTATTA-TATTAA
1 ATTATTATTATTAA
866717 ATTATTATTATTAA
1 ATTATTATTATTAA
866731 AT
1 AT
866733 AAATAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTATTATTATTAA
Done.