Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 15 of 117
Found at i:1549099 original size:11 final size:11
Alignment explanation
Indices: 1549086--1549115 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1549076 ATCATTTAAA
1549086 AAAAT-AAAAT
1 AAAATAAAAAT
1549096 AAAATAAAAAT
1 AAAATAAAAAT
1549107 AAAATAAAA
1 AAAATAAAA
1549116 TAAGGAATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:1549106 original size:16 final size:16
Alignment explanation
Indices: 1549085--1549118 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1549075 AATCATTTAA
1549085 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAT
1549101 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAT
1549117 AA
1 AA
1549119 GGAATACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAATAAAATAAAAT
Found at i:1549158 original size:3 final size:3
Alignment explanation
Indices: 1549150--1549177 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1549140 CTAATCAATA
1549150 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1549178 GTAAATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1549856 original size:26 final size:27
Alignment explanation
Indices: 1549808--1549858 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
1549798 CTTTTTCTTT
*
1549808 TGTTTTTGCTCTCTCTTTGTTTGTGTG
1 TGTTTTTGCTCTCTCTTTCTTTGTGTG
1549835 TGTTTTTG-TCT-TCTGTTCTTTGTG
1 TGTTTTTGCTCTCTCT-TTCTTTGTG
1549859 ATTTATGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 3 0.14
26 11 0.50
27 8 0.36
ACGTcount: A:0.00, C:0.14, G:0.22, T:0.65
Consensus pattern (27 bp):
TGTTTTTGCTCTCTCTTTCTTTGTGTG
Found at i:1550082 original size:22 final size:22
Alignment explanation
Indices: 1550057--1550324 Score: 181
Period size: 22 Copynumber: 11.8 Consensus size: 22
1550047 ATATATATAC
1550057 ATATTAATAGATAAATAATAAT
1 ATATTAATAGATAAATAATAAT
*
1550079 ATATGAATAGATAAATAAAAAATATAT
1 ATATTAATAGATAAAT----AATA-AT
1550106 ATATTAATAGATAAATAATAAT
1 ATATTAATAGATAAATAATAAT
*
1550128 ATATGAATAGATAAATAATAAT
1 ATATTAATAGATAAATAATAAT
* ** *
1550150 AAAAAAATATATATTAATAGATAA-
1 ATATTAATAGATA--AATA-ATAAT
* * * * *
1550174 ATAATAAAATATGAACAGATAA-
1 ATATTAATAGATAAATA-ATAAT
*
1550196 ATAATAATA-ATAAA-AAT-AT
1 ATATTAATAGATAAATAATAAT
1550215 ATATTAATAGATAAATAATAAAAT
1 ATATTAATAGATAAATAAT--AAT
*
1550239 ATGTTAATAGATAAATAATAAAAT
1 ATATTAATAGATAAATAAT--AAT
* *
1550263 ATGTTAATAGATAAATAA-CAT
1 ATATTAATAGATAAATAATAAT
* *
1550284 TTATATATTA-ATAAATAATAAT
1 ATAT-TAATAGATAAATAATAAT
* *
1550306 AGTAGTAATAAATAAATAA
1 A-TATTAATAGATAAATAA
1550325 ATAAAATAAA
Statistics
Matches: 204, Mismatches: 24, Indels: 35
0.78 0.09 0.13
Matches are distributed among these distances:
18 1 0.00
19 10 0.05
20 6 0.03
21 19 0.09
22 73 0.36
23 14 0.07
24 56 0.27
25 4 0.02
26 4 0.02
27 17 0.08
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (22 bp):
ATATTAATAGATAAATAATAAT
Found at i:1550101 original size:55 final size:54
Alignment explanation
Indices: 1550036--1550263 Score: 274
Period size: 54 Copynumber: 4.2 Consensus size: 54
1550026 AAAAGATAAA
* * * *
1550036 AAATATAAAATATATATATACATATTAATAGATAAATAATAATATATGAATAGAT
1 AAATAAAAAATA-ATAAATATATATTAATAGATAAATAATAAAATATGAATAGAT
*
1550091 AAAT--AAAA-AAT--ATATATATTAATAGATAAATAATAATATATGAATAGAT
1 AAATAAAAAATAATAAATATATATTAATAGATAAATAATAAAATATGAATAGAT
*
1550140 AAATAATAATAA-AA-AAATATATATTAATAGATAAATAATAAAATATGAACAGAT
1 AAATAA-AA-AATAATAAATATATATTAATAGATAAATAATAAAATATGAATAGAT
1550194 AAATAATAATAATAA-AAATATATATTAATAGATAAATAATAAAATATGTTAATAGAT
1 AAATAA-AA-AATAATAAATATATATTAATAGATAAATAATAAAATATG--AATAGAT
1550251 AAATAATAAAATA
1 AAATAA-AAAATA
1550264 TGTTAATAGA
Statistics
Matches: 160, Mismatches: 4, Indels: 17
0.88 0.02 0.09
Matches are distributed among these distances:
49 41 0.26
51 2 0.01
52 3 0.02
53 8 0.05
54 48 0.30
55 39 0.24
56 4 0.03
57 15 0.09
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (54 bp):
AAATAAAAAATAATAAATATATATTAATAGATAAATAATAAAATATGAATAGAT
Found at i:1550178 original size:54 final size:54
Alignment explanation
Indices: 1550092--1550259 Score: 282
Period size: 54 Copynumber: 3.0 Consensus size: 54
1550082 TGAATAGATA
*
1550092 AATAAAAAATATATATATTAATAGATAAATAATAATATATGAATAGATAAATAAT
1 AATAAAAAA-ATATATATTAATAGATAAATAATAAAATATGAATAGATAAATAAT
*
1550147 AATAAAAAAATATATATTAATAGATAAATAATAAAATATGAACAGATAAATAAT
1 AATAAAAAAATATATATTAATAGATAAATAATAAAATATGAATAGATAAATAAT
1550201 AATAATAAAAATATATATTAATAGATAAATAATAAAATATGTTAATAGATAAATAAT
1 AATAA-AAAAATATATATTAATAGATAAATAATAAAATATG--AATAGATAAATAAT
1550258 AA
1 AA
1550260 AATATGTTAA
Statistics
Matches: 107, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
54 48 0.45
55 44 0.41
57 15 0.14
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (54 bp):
AATAAAAAAATATATATTAATAGATAAATAATAAAATATGAATAGATAAATAAT
Found at i:1550185 original size:24 final size:24
Alignment explanation
Indices: 1550143--1550306 Score: 138
Period size: 24 Copynumber: 6.7 Consensus size: 24
1550133 AATAGATAAA
*
1550143 TAATA-ATAAA-AA-AATATATAT
1 TAATAGATAAATAATAAAATATAT
*
1550164 TAATAGATAAATAATAAAATATGAA
1 TAATAGATAAATAATAAAATAT-AT
* *
1550189 CAGATAAATAATAATAATAAAAATATATAT
1 TA-ATAGAT-A-AATAAT--AAA-ATATAT
*
1550219 TAATAGATAAATAATAAAATATGT
1 TAATAGATAAATAATAAAATATAT
*
1550243 TAATAGATAAATAATAAAATATGT
1 TAATAGATAAATAATAAAATATAT
* **
1550267 TAATAGATAAATAACATTTATATAT
1 TAATAGATAAATAATA-AAATATAT
*
1550292 TAATAAAT-AATAATA
1 TAATAGATAAATAATA
1550307 GTAGTAATAA
Statistics
Matches: 118, Mismatches: 14, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
21 5 0.04
22 5 0.04
23 2 0.02
24 56 0.47
25 17 0.14
26 5 0.04
27 7 0.06
28 7 0.06
29 5 0.04
30 5 0.04
31 4 0.03
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (24 bp):
TAATAGATAAATAATAAAATATAT
Found at i:1550198 original size:103 final size:107
Alignment explanation
Indices: 1550057--1550259 Score: 315
Period size: 103 Copynumber: 1.9 Consensus size: 107
1550047 ATATATATAC
* *
1550057 ATATTAATAGATAAATAATAATATATGAATAGATAAATAA-AA-AAT-ATATATATTAATAGATA
1 ATATTAATAGATAAATAATAAAATATGAACAGATAAATAATAATAATAATATATATTAATAGATA
*
1550119 AATAATAATATATG-AATAGATAAATAATAATAAAAAAATAT
66 AATAATAAAATATGTAATAGATAAATAATAATAAAAAAATAT
1550160 ATATTAATAGATAAATAATAAAATATGAACAGATAAATAATAATAATAAAAATATATATTAATAG
1 ATATTAATAGATAAATAATAAAATATGAACAGATAAATAATAATAAT---AATATATATTAATAG
1550225 ATAAATAATAAAATATGTTAATAGATAAATAATAA
63 ATAAATAATAAAATATG-TAATAGATAAATAATAA
1550260 AATATGTTAA
Statistics
Matches: 89, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
103 38 0.43
104 2 0.02
105 3 0.03
109 30 0.34
111 16 0.18
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (107 bp):
ATATTAATAGATAAATAATAAAATATGAACAGATAAATAATAATAATAATATATATTAATAGATA
AATAATAAAATATGTAATAGATAAATAATAATAAAAAAATAT
Found at i:1550660 original size:20 final size:22
Alignment explanation
Indices: 1550622--1550662 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
1550612 GAGTTGGCAC
1550622 TAATTTATTTAATTTTAATAAT
1 TAATTTATTTAATTTTAATAAT
1550644 TAATTT-TTTAA-TTTAATAA
1 TAATTTATTTAATTTTAATAA
1550663 ATATATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 5 0.26
22 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TAATTTATTTAATTTTAATAAT
Found at i:1550671 original size:20 final size:21
Alignment explanation
Indices: 1550622--1550671 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 21
1550612 GAGTTGGCAC
*
1550622 TAATTTATTTAATTTTAATAAT
1 TAATTT-TTTAATTTTAATAAA
1550644 TAATTTTTTAA-TTTAATAAA
1 TAATTTTTTAATTTTAATAAA
1550664 TATATTTT
1 TA-ATTTT
1550672 AGTGGAATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 10 0.38
21 10 0.38
22 6 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TAATTTTTTAATTTTAATAAA
Found at i:1550775 original size:22 final size:22
Alignment explanation
Indices: 1550750--1550794 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1550740 ATTAATGTAC
1550750 AAAATTTAA-AAAATTTTTAAAT
1 AAAA-TTAATAAAATTTTTAAAT
* *
1550772 AAAATTAATATATTTTTTAAAT
1 AAAATTAATAAAATTTTTAAAT
1550794 A
1 A
1550795 GGTATTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAATTAATAAAATTTTTAAAT
Found at i:1554449 original size:22 final size:22
Alignment explanation
Indices: 1554421--1554479 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
1554411 ATGTTAAACA
*
1554421 AATTTTAATTATTTAAAATTATT
1 AATTTT-ATTATTTAAAATAATT
1554444 -ATTTTATT-TTTAAAATAATT
1 AATTTTATTATTTAAAATAATT
1554464 AATTTTTATTATTTAA
1 AA-TTTTATTATTTAA
1554480 TTCATTTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 11 0.34
21 4 0.12
22 12 0.38
23 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
AATTTTATTATTTAAAATAATT
Found at i:1554626 original size:19 final size:19
Alignment explanation
Indices: 1554604--1554640 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1554594 TTTATATATA
*
1554604 ATAGTTTAGTATGAAAAAT
1 ATAGTTTAATATGAAAAAT
*
1554623 ATAGTTTAATATTAAAAA
1 ATAGTTTAATATGAAAAA
1554641 GAATACAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (19 bp):
ATAGTTTAATATGAAAAAT
Found at i:1555028 original size:11 final size:11
Alignment explanation
Indices: 1555014--1555038 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1555004 TATTTAAAAA
1555014 ATTATTAAATT
1 ATTATTAAATT
1555025 ATTATTAAATT
1 ATTATTAAATT
1555036 ATT
1 ATT
1555039 TTATGTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTATTAAATT
Found at i:1555119 original size:25 final size:26
Alignment explanation
Indices: 1555091--1555147 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
1555081 TTTATTAATT
*
1555091 TATTATATTATA-AAATTTATTTT-TA
1 TATTATATT-TACAAAATTATTTTCTA
*
1555116 TATTAAATTTACAAAATTATTTTCTA
1 TATTATATTTACAAAATTATTTTCTA
1555142 -ATTATA
1 TATTATA
1555148 AGTTAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 2 0.07
25 23 0.85
26 2 0.07
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (26 bp):
TATTATATTTACAAAATTATTTTCTA
Found at i:1555123 original size:17 final size:19
Alignment explanation
Indices: 1555078--1555126 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 19
1555068 TAATTAAAAA
1555078 ATATT-TATT-AATTTATT
1 ATATTATATTAAATTTATT
1555095 ATATTATA--AAATTTATT
1 ATATTATATTAAATTTATT
1555112 -T-TTATATTAAATTTA
1 ATATTATATTAAATTTA
1555127 CAAAATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 5 0.18
16 1 0.04
17 20 0.71
18 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATATTATATTAAATTTATT
Found at i:1555157 original size:26 final size:25
Alignment explanation
Indices: 1555102--1555158 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
1555092 ATTATATTAT
* *
1555102 AAAATTTATTTTTATATTAAATTTA
1 AAAAATTATTTTTATATTAAAGTTA
*
1555127 CAAAATTATTTTCTA-ATTATAAGTTA
1 AAAAATTATTTT-TATATTA-AAGTTA
1555153 AAAAAT
1 AAAAAT
1555159 AAGAAAGAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (25 bp):
AAAAATTATTTTTATATTAAAGTTA
Found at i:1555415 original size:59 final size:59
Alignment explanation
Indices: 1555343--1555461 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
1555333 TCAATTATGG
1555343 AGGTTTGATGGGAGTTTATGTATGTTTATTAAGGACACCCATATGTTCAAAGTTCATTT
1 AGGTTTGATGGGAGTTTATGTATGTTTATTAAGGACACCCATATGTTCAAAGTTCATTT
1555402 AGGTTTGATGGGAGTTTATGTATGTTTATTAAGGACACCCATATGTTCAAAGTTCATTT
1 AGGTTTGATGGGAGTTTATGTATGTTTATTAAGGACACCCATATGTTCAAAGTTCATTT
1555461 A
1 A
1555462 CTTACTTTGG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (59 bp):
AGGTTTGATGGGAGTTTATGTATGTTTATTAAGGACACCCATATGTTCAAAGTTCATTT
Found at i:1556262 original size:24 final size:24
Alignment explanation
Indices: 1556235--1556286 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1556225 CATCTTATGT
* *
1556235 TTATCTAAATGAAATCATATAATA
1 TTATCTAAATGAAATCAGAAAATA
* **
1556259 TTATTTTTATGAAATCAGAAAATA
1 TTATCTAAATGAAATCAGAAAATA
1556283 TTAT
1 TTAT
1556287 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (24 bp):
TTATCTAAATGAAATCAGAAAATA
Found at i:1556287 original size:24 final size:24
Alignment explanation
Indices: 1556243--1556290 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
1556233 GTTTATCTAA
* *
1556243 ATGAAATCATATAATATTATTTTT
1 ATGAAATCAGAAAATATTATTTTT
1556267 ATGAAATCAGAAAATATTATTTTT
1 ATGAAATCAGAAAATATTATTTTT
1556291 TATTTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (24 bp):
ATGAAATCAGAAAATATTATTTTT
Found at i:1560478 original size:18 final size:17
Alignment explanation
Indices: 1560447--1560482 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
1560437 TACAAAAAAC
1560447 ACAAAAAAAAAAACAAA
1 ACAAAAAAAAAAACAAA
*
1560464 ACAAAGAAAAGAAACAAA
1 ACAAA-AAAAAAAACAAA
1560482 A
1 A
1560483 GAATACATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.83, C:0.11, G:0.06, T:0.00
Consensus pattern (17 bp):
ACAAAAAAAAAAACAAA
Found at i:1566974 original size:13 final size:13
Alignment explanation
Indices: 1566953--1566983 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1566943 TTTCAAACAA
1566953 AAAAAGAAAAAAT
1 AAAAAGAAAAAAT
*
1566966 AAAAGGAAAAAAT
1 AAAAAGAAAAAAT
1566979 AAAAA
1 AAAAA
1566984 TTTTGGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (13 bp):
AAAAAGAAAAAAT
Found at i:1567146 original size:200 final size:193
Alignment explanation
Indices: 1566627--1567134 Score: 600
Period size: 199 Copynumber: 2.5 Consensus size: 193
1566617 GATGGAAATT
*
1566627 TTAGAAATTTCAAATAGTAAATTTCTATAAAATTCCTAGGTGAGAAATTTTATCT-AAATTTGTC
1 TTAGAAATTTCAAAT-GTAAATTTCTATAAAATT-TTAGGTGAGAAATTTT-T-TAAAATTTGTC
*
1566691 CCAAATGGTGGAATAATTTAGAT-AAAGGTTCAATAACAATAATTAATATTTATTTTCAAACATA
62 CCAAATGGTGGAATAATTTAGATGAAA-TTTCAATAACAATAATTAATATTTATTTTCAAACATA
* *
1566755 GATAAATAAATAAATAAATAAAAATTTTAATAAAATTTTGGAAAAATACAAATTACCCAAGGATG
126 GAAAAAGAAATAAATAAATAAAAA---TAATAAAATTTTGGAAAAATACAAATTACCCAAGGATG
1566820 AGATTC
188 AGATTC
* *
1566826 TTAGAAATTTCAAATGATAAATTCCTATAAAATTTCTAGGTGAGAAATTTTGTATAAATTTGTCC
1 TTAGAAATTTCAAATG-TAAATTTCTATAAAATTT-TAGGTGAGAAATTTTTTA-AAATTTGTCC
*
1566891 TAAATGGTGGAATAATTTAGATGAAATTTCAATAACAATAATTAATATTTATTTTCAAACA-A-A
63 CAAATGGTGGAATAATTTAGATGAAATTTCAATAACAATAATTAATATTTATTTTCAAACATAGA
* * *
1566954 AAAAGAAA-AAATAAA-AGGAAAA-AATAAAAATTTTGGTTGAAAATATTCGACAATTATCCGAG
128 AAAAGAAATAAATAAATA--AAAATAAT-AAAATTTT-G--GAAAA-ATAC-A-AATTACCCAAG
1567016 GATGAGATTC
184 GATGAGATTC
*
1567026 TTAGAAATTTCAAATCGTAAATTTCT-TAAGAGATCTTTAGGTGAGGAATTTTTTAAAATTTGTC
1 TTAGAAATTTCAAAT-GTAAATTTCTATAA-A-AT-TTTAGGTGAGAAATTTTTTAAAATTTGTC
* * * *
1567090 CCAAATGGTGAAAGAATTTAAATGAAATTTCAATAAAAAATAATT
62 CCAAATGGTGGAATAATTTAGATGAAATTTCAAT-AACAATAATT
1567135 GTCATTATTT
Statistics
Matches: 272, Mismatches: 18, Indels: 36
0.83 0.06 0.11
Matches are distributed among these distances:
193 3 0.01
194 8 0.03
195 2 0.01
196 7 0.03
197 17 0.06
198 5 0.02
199 115 0.42
200 85 0.31
201 28 0.10
202 2 0.01
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (193 bp):
TTAGAAATTTCAAATGTAAATTTCTATAAAATTTTAGGTGAGAAATTTTTTAAAATTTGTCCCAA
ATGGTGGAATAATTTAGATGAAATTTCAATAACAATAATTAATATTTATTTTCAAACATAGAAAA
AGAAATAAATAAATAAAAATAATAAAATTTTGGAAAAATACAAATTACCCAAGGATGAGATTC
Found at i:1570949 original size:20 final size:23
Alignment explanation
Indices: 1570924--1570967 Score: 67
Period size: 20 Copynumber: 2.0 Consensus size: 23
1570914 TCTCAAAGAT
1570924 AGGAGAAAAA-A-AG-AAAGAAA
1 AGGAGAAAAAGAGAGAAAAGAAA
1570944 AGGAGAAAAAGAGAGAAAAGAAA
1 AGGAGAAAAAGAGAGAAAAGAAA
1570967 A
1 A
1570968 ATGAATGCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.48
21 1 0.05
22 2 0.10
23 8 0.38
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (23 bp):
AGGAGAAAAAGAGAGAAAAGAAA
Found at i:1571363 original size:1 final size:1
Alignment explanation
Indices: 1571359--1571401 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
1571349 AAAAAGAGAG
* * * *
1571359 AAAAAAAAAGAAGAAAAAATAAAAAAATAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1571402 GAGAAAAGGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.91, C:0.00, G:0.05, T:0.05
Consensus pattern (1 bp):
A
Found at i:1571368 original size:14 final size:13
Alignment explanation
Indices: 1571344--1571406 Score: 53
Period size: 11 Copynumber: 4.9 Consensus size: 13
1571334 AGAAAGCGAA
1571344 AAAAGAAAAAGAGAG
1 AAAA-AAAAAGA-AG
1571359 AAAAAAAAAGAAG
1 AAAAAAAAAGAAG
1571372 AAAAAATAAA-AA-
1 AAAAAA-AAAGAAG
*
1571384 AATAAAAAA-AA-
1 AAAAAAAAAGAAG
*
1571395 AAAAAAAGAGAA
1 AAAAAAAAAGAA
1571407 AAGGAAGACT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
11 12 0.28
12 7 0.16
13 10 0.23
14 10 0.23
15 4 0.09
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAGAAG
Found at i:1571370 original size:10 final size:10
Alignment explanation
Indices: 1571342--1571401 Score: 61
Period size: 10 Copynumber: 6.1 Consensus size: 10
1571332 AAAGAAAGCG
1571342 AAAAAAGAAA
1 AAAAAAGAAA
* *
1571352 AAGAGAGAAA
1 AAAAAAGAAA
*
1571362 AAAAAAGAAG
1 AAAAAAGAAA
*
1571372 AAAAAATAAA
1 AAAAAAGAAA
1571382 AAAATAA-AAA
1 AAAA-AAGAAA
1571392 AAAAAA-AAA
1 AAAAAAGAAA
1571401 A
1 A
1571402 GAGAAAAGGA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
9 6 0.14
10 34 0.81
11 2 0.05
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:1571377 original size:15 final size:16
Alignment explanation
Indices: 1571341--1571409 Score: 63
Period size: 15 Copynumber: 4.5 Consensus size: 16
1571331 AAAAGAAAGC
1571341 GAAAAAAGAAAAAG-A
1 GAAAAAAGAAAAAGAA
*
1571356 GAGAAAA-AAAAAGAA
1 GAAAAAAGAAAAAGAA
*
1571371 GAAAAAATAAAAA-AA
1 GAAAAAAGAAAAAGAA
* * *
1571386 TAAAAAAAAAAAAAAA
1 GAAAAAAGAAAAAGAA
*
1571402 GAGAAAAG
1 GAAAAAAG
1571410 GAAGACTCAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
14 6 0.14
15 26 0.59
16 12 0.27
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (16 bp):
GAAAAAAGAAAAAGAA
Found at i:1573093 original size:21 final size:19
Alignment explanation
Indices: 1573069--1573111 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1573059 ATTTAAACAA
1573069 TTTTTTAT--TTTATTTATC
1 TTTTTTATAATTTA-TTATC
1573087 ATTTTTTATAATTTATTATC
1 -TTTTTTATAATTTATTATC
1573107 TTTTT
1 TTTTT
1573112 AGCAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 13 0.59
20 5 0.23
21 4 0.18
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTATAATTTATTATC
Found at i:1573378 original size:19 final size:19
Alignment explanation
Indices: 1573367--1573403 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1573357 AAAATTAACA
1573367 CAAAATCAAAAAATCAAAAT
1 CAAAAT-AAAAAATCAAAAT
1573387 CAAAATAAAAAAT-AAAA
1 CAAAATAAAAAATCAAAA
1573404 AGAAAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.76, C:0.11, G:0.00, T:0.14
Consensus pattern (19 bp):
CAAAATAAAAAATCAAAAT
Found at i:1573410 original size:19 final size:19
Alignment explanation
Indices: 1573368--1573417 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
1573358 AAATTAACAC
* **
1573368 AAAATCAAAAAATCAAAATC
1 AAAAT-AAAAAATAAAAAGA
1573388 AAAATAAAAAATAAAAAGA
1 AAAATAAAAAATAAAAAGA
*
1573407 AAAAGAAAAAA
1 AAAATAAAAAA
1573418 AGGAAAAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.80, C:0.06, G:0.04, T:0.10
Consensus pattern (19 bp):
AAAATAAAAAATAAAAAGA
Found at i:1573739 original size:20 final size:20
Alignment explanation
Indices: 1573711--1573748 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1573701 CATATTTCAA
*
1573711 TCATTAAAAAATTCAAATAG
1 TCATAAAAAAATTCAAATAG
1573731 TCATAAAAAAATTCAAAT
1 TCATAAAAAAATTCAAAT
1573749 TTTCCTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.29
Consensus pattern (20 bp):
TCATAAAAAAATTCAAATAG
Found at i:1574233 original size:3 final size:3
Alignment explanation
Indices: 1574225--1574253 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1574215 TTTTAAAGGT
1574225 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1574254 TAAACCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1574571 original size:40 final size:40
Alignment explanation
Indices: 1574436--1574697 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
1574426 TAGAGGCTAT
* * * ** *
1574436 AAACTTTAAAT-TCAAAAAGCTCATTTGACCAGCGGCAAT
1 AAACTTTAAATGTTAAAAAGCTCCTTTAACCAAAGGCAAC
* * *
1574475 GAACTTTAAAT-TCAAAAGGCTCCTCTT-ACCAAAGGCAAC
1 AAACTTTAAATGTTAAAAAGCTCCT-TTAACCAAAGGCAAC
* ** *
1574514 AAACTTTAAAT-TCAAAAAGCTATTTTAACCAATGGCAAC
1 AAACTTTAAATGTTAAAAAGCTCCTTTAACCAAAGGCAAC
* * *
1574553 AAACATTAAATTTTAAAAAGCTCCTTTAACCAAAGGCAAT
1 AAACTTTAAATGTTAAAAAGCTCCTTTAACCAAAGGCAAC
* *
1574593 AACCTTTAAATGTTAAAAAACTCCTTTAACCAAAGGCAAC
1 AAACTTTAAATGTTAAAAAGCTCCTTTAACCAAAGGCAAC
*
1574633 AAACTTTAAATGTTAAAAAGCTCCTTTAACTAAAGGCAAC
1 AAACTTTAAATGTTAAAAAGCTCCTTTAACCAAAGGCAAC
*
1574673 AAACTTTAAATGTTAAAAGGCTCCT
1 AAACTTTAAATGTTAAAAAGCTCCT
1574698 CCGACTAGAA
Statistics
Matches: 194, Mismatches: 26, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
38 2 0.01
39 71 0.37
40 121 0.62
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.27
Consensus pattern (40 bp):
AAACTTTAAATGTTAAAAAGCTCCTTTAACCAAAGGCAAC
Found at i:1574718 original size:40 final size:40
Alignment explanation
Indices: 1574476--1574724 Score: 162
Period size: 40 Copynumber: 6.3 Consensus size: 40
1574466 AGCGGCAATG
* * ** * *
1574476 AACTTTAAAT-TCAAAAGGCTCCTCTTACCAAAGGCAACA
1 AACTTTAAATGTTAAAAAGCTCCTCCAACTAAAGACAACA
* ** ** * * *
1574515 AACTTTAAAT-TCAAAAAGCTATTTTAACCAATGGCAACA
1 AACTTTAAATGTTAAAAAGCTCCTCCAACTAAAGACAACA
* * ** * * *
1574554 AACATTAAATTTTAAAAAGCTCCTTTAACCAAAGGCAATA
1 AACTTTAAATGTTAAAAAGCTCCTCCAACTAAAGACAACA
* * ** * *
1574594 ACCTTTAAATGTTAAAAAACTCCTTTAACCAAAGGCAACA
1 AACTTTAAATGTTAAAAAGCTCCTCCAACTAAAGACAACA
** *
1574634 AACTTTAAATGTTAAAAAGCTCCTTTAACTAAAGGCAACA
1 AACTTTAAATGTTAAAAAGCTCCTCCAACTAAAGACAACA
* * **
1574674 AACTTTAAATGTTAAAAGGCTCCTCCGACTAGAA-ACAATG
1 AACTTTAAATGTTAAAAAGCTCCTCCAACTA-AAGACAACA
1574714 AACTTTAAATG
1 AACTTTAAATG
1574725 GCTCCTTTAA
Statistics
Matches: 181, Mismatches: 27, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
39 42 0.23
40 137 0.76
41 2 0.01
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.27
Consensus pattern (40 bp):
AACTTTAAATGTTAAAAAGCTCCTCCAACTAAAGACAACA
Found at i:1574718 original size:80 final size:80
Alignment explanation
Indices: 1574476--1574756 Score: 242
Period size: 80 Copynumber: 3.6 Consensus size: 80
1574466 AGCGGCAATG
* * * * **
1574476 AACTTTAAAT-TCAAAAGGCTCCTCTT-ACCAAAGGCAACAAACTTTAAAT-TCAAAAAGCTATT
1 AACTTTAAATGTTAAAAAGCTCCT-TTAACCAAAGGCAACAAACTTTAAATGTTAAAAAACTCCT
** * *
1574538 TTAACCAATGGCAACA
65 CCAACCAAAGACAACA
* * * * *
1574554 AACATTAAATTTTAAAAAGCTCCTTTAACCAAAGGCAATAACCTTTAAATGTTAAAAAACTCCTT
1 AACTTTAAATGTTAAAAAGCTCCTTTAACCAAAGGCAACAAACTTTAAATGTTAAAAAACTCCTC
* *
1574619 TAACCAAAGGCAACA
66 CAACCAAAGACAACA
* **
1574634 AACTTTAAATGTTAAAAAGCTCCTTTAACTAAAGGCAACAAACTTTAAATGTTAAAAGGCTCCTC
1 AACTTTAAATGTTAAAAAGCTCCTTTAACCAAAGGCAACAAACTTTAAATGTTAAAAAACTCCTC
* * **
1574699 CGACTAGAA-ACAATG
66 CAACCA-AAGACAACA
*
1574714 AACTTTAAATG-------GCTCCTTTAACCAAAGGCAACAAATTTTAAAT
1 AACTTTAAATGTTAAAAAGCTCCTTTAACCAAAGGCAACAAACTTTAAAT
1574757 TAAAAATCTA
Statistics
Matches: 173, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
73 30 0.17
78 11 0.06
79 32 0.18
80 98 0.57
81 2 0.01
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.27
Consensus pattern (80 bp):
AACTTTAAATGTTAAAAAGCTCCTTTAACCAAAGGCAACAAACTTTAAATGTTAAAAAACTCCTC
CAACCAAAGACAACA
Found at i:1574920 original size:39 final size:39
Alignment explanation
Indices: 1574845--1574972 Score: 168
Period size: 40 Copynumber: 3.3 Consensus size: 39
1574835 GAGGGTCTTA
**
1574845 AAATT-AAAAAGCTCCTCTAACCAGAGGCTATGAAACTTT
1 AAATTCAAAAAGCTCCTCTAACCAGAGGC-AACAAACTTT
* *
1574884 AAATTCAAAAAGCTCCTTTGACCAGAGGCAACAAACTTT
1 AAATTCAAAAAGCTCCTCTAACCAGAGGCAACAAACTTT
* * *
1574923 AAATGTTAAAAAGCTCCTCCAATCAGAGGCAACAAACTTT
1 AAAT-TCAAAAAGCTCCTCTAACCAGAGGCAACAAACTTT
1574963 AAATTCAAAA
1 AAATTCAAAA
1574973 GGCTGAGAGG
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 22 0.29
40 55 0.71
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (39 bp):
AAATTCAAAAAGCTCCTCTAACCAGAGGCAACAAACTTT
Found at i:1589028 original size:21 final size:21
Alignment explanation
Indices: 1589004--1589288 Score: 210
Period size: 21 Copynumber: 12.8 Consensus size: 21
1588994 CTAAATCCTC
1589004 AAATGAGAATCTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
* * *
1589025 AAATGAGAATTTTTAAGACATTTT
1 AAATGAGAATCTTT--GA-GTCTT
* * * *
1589049 CAAGTGACAATCTTTAAATCTT
1 -AAATGAGAATCTTTGAGTCTT
* *
1589071 AAATGAGAATCTTTAATATGTATT
1 AAATGAGAATCTTT--GA-GTCTT
*
1589095 CAAATGAGAATCTTTGAGTTTT
1 -AAATGAGAATCTTTGAGTCTT
* * * *
1589117 AAATGAAAATTTTTAAGACATTTT
1 AAATGAGAATCTTT--GA-GTCTT
* *
1589141 CAAATGAGAATCTTAGAGTCAT
1 -AAATGAGAATCTTTGAGTCTT
*
1589163 GAATGAGAATCTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
*
1589184 ACATGAGAATCTTTAAGACGTCTT
1 AAATGAGAATCTTT--GA-GTCTT
*
1589208 CAAATGAGAACCTTTGAGTCTT
1 -AAATGAGAATCTTTGAGTCTT
1589230 AAATGAGAATCTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
* * *
1589251 AAATGAGAATTTTTTAGTTTT
1 AAATGAGAATCTTTGAGTCTT
* *
1589272 AAATGAAAATATTTGAG
1 AAATGAGAATCTTTGAG
1589289 AATCTATGAG
Statistics
Matches: 210, Mismatches: 38, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
21 119 0.57
22 15 0.07
23 13 0.06
24 15 0.07
25 48 0.23
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (21 bp):
AAATGAGAATCTTTGAGTCTT
Found at i:1589078 original size:46 final size:46
Alignment explanation
Indices: 1589002--1589264 Score: 236
Period size: 46 Copynumber: 5.8 Consensus size: 46
1588992 TCCTAAATCC
1589002 TCAAATGAGAATCTTTGAGTCTTAAATGAGAATTTTTAAGACATTT
1 TCAAATGAGAATCTTTGAGTCTTAAATGAGAATTTTTAAGACATTT
* * * * * * ** *
1589048 TCAAGTGACAATCTTTAAATCTTAAATGAGAATCTTTAATATGTAT
1 TCAAATGAGAATCTTTGAGTCTTAAATGAGAATTTTTAAGACATTT
* *
1589094 TCAAATGAGAATCTTTGAGTTTTAAATGAAAATTTTTAAGACATTT
1 TCAAATGAGAATCTTTGAGTCTTAAATGAGAATTTTTAAGACATTT
* * * * * *
1589140 TCAAATGAGAATCTTAGAGTCATGAATGAGAATCTTT--GA-GTCT
1 TCAAATGAGAATCTTTGAGTCTTAAATGAGAATTTTTAAGACATTT
* ** * *
1589183 T-ACATGAGAATCTTTAAGACGTCTTCAAATGAGAACCTTT--GA-GTCT
1 TCAAATGAGAATCTTT--GA-GTCTT-AAATGAGAATTTTTAAGACATTT
1589229 T-AAATGAGAATCTTTGAGTCTTAAATGAGAATTTTT
1 TCAAATGAGAATCTTTGAGTCTTAAATGAGAATTTTT
1589265 TAGTTTTAAA
Statistics
Matches: 177, Mismatches: 36, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
42 24 0.14
43 8 0.05
44 6 0.03
45 4 0.02
46 135 0.76
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (46 bp):
TCAAATGAGAATCTTTGAGTCTTAAATGAGAATTTTTAAGACATTT
Found at i:1589132 original size:67 final size:66
Alignment explanation
Indices: 1589002--1589264 Score: 223
Period size: 67 Copynumber: 3.9 Consensus size: 66
1588992 TCCTAAATCC
* * * * * * *
1589002 TCAAATGAGAATCTTT-GAGTCTTAAATGAGAATTTTTAAGACATTTTCAAGTGACAATCTTTAA
1 TCAAATGAGAATCTTTAGAGTATTAAATGAGAATCTTT--GA-GTCTT-AAATGAGAATTTTTAA
1589066 -ATCT
62 CATCT
* * *
1589070 T-AAATGAGAATCTTTAATATGTATTCAAATGAGAATCTTTGAGTTTTAAATGAAAATTTTTAAG
1 TCAAATGAGAATCTTT-AGA-GTATT-AAATGAGAATCTTTGAGTCTTAAATGAGAATTTTT-A-
*
1589134 ACATTT
61 ACATCT
* * *
1589140 TCAAATGAGAATC-TTAGAGTCA-TGAATGAGAATCTTTGAGTCTTACATGAGAATCTTTAAGAC
1 TCAAATGAGAATCTTTAGAGT-ATTAAATGAGAATCTTTGAGTCTTAAATGAGAAT-TTTTA-AC
*
1589203 GTCT
63 ATCT
* *
1589207 TCAAATGAGAACCTTT-GAGTCTTAAATGAGAATCTTTGAGTCTTAAATGAGAATTTTT
1 TCAAATGAGAATCTTTAGAGTATTAAATGAGAATCTTTGAGTCTTAAATGAGAATTTTT
1589265 TAGTTTTAAA
Statistics
Matches: 162, Mismatches: 21, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
66 3 0.02
67 104 0.64
68 14 0.09
69 7 0.04
70 10 0.06
71 24 0.15
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (66 bp):
TCAAATGAGAATCTTTAGAGTATTAAATGAGAATCTTTGAGTCTTAAATGAGAATTTTTAACATC
T
Found at i:1589168 original size:92 final size:92
Alignment explanation
Indices: 1589002--1589176 Score: 271
Period size: 92 Copynumber: 1.9 Consensus size: 92
1588992 TCCTAAATCC
* *
1589002 TCAAATGAGAATCTTTGAGTCTTAAATGAGAATTTTTAAGACATTTTCAAGTGACAATCTTTAAA
1 TCAAATGAGAATCTTTGAGTCTTAAATGAAAATTTTTAAGACATTTTCAAATGACAATCTTTAAA
*
1589067 TCTTAAATGAGAATCTTTAATATGTAT
66 TCATAAATGAGAATCTTTAATATGTAT
* *
1589094 TCAAATGAGAATCTTTGAGTTTTAAATGAAAATTTTTAAGACATTTTCAAATGAGAATC-TTAGA
1 TCAAATGAGAATCTTTGAGTCTTAAATGAAAATTTTTAAGACATTTTCAAATGACAATCTTTA-A
* *
1589158 GTCATGAATGAGAATCTTT
65 ATCATAAATGAGAATCTTT
1589177 GAGTCTTACA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
91 3 0.04
92 72 0.96
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.38
Consensus pattern (92 bp):
TCAAATGAGAATCTTTGAGTCTTAAATGAAAATTTTTAAGACATTTTCAAATGACAATCTTTAAA
TCATAAATGAGAATCTTTAATATGTAT
Found at i:1589586 original size:16 final size:16
Alignment explanation
Indices: 1589565--1589616 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
1589555 CTTGCAATTA
1589565 TCTTGCAAATCTAAAT
1 TCTTGCAAATCTAAAT
*
1589581 TCTTGCATATCTGAAAT
1 TCTTGCAAATCT-AAAT
**
1589598 T-TTGTGAAT-TAAAT
1 TCTTGCAAATCTAAAT
1589612 TCTTG
1 TCTTG
1589617 TGAAACTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 5 0.17
15 4 0.13
16 16 0.53
17 5 0.17
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (16 bp):
TCTTGCAAATCTAAAT
Found at i:1589613 original size:31 final size:31
Alignment explanation
Indices: 1589576--1589643 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
1589566 CTTGCAAATC
* *
1589576 TAAATTCTTG-CATATCTGAAATTTTGTGAAT
1 TAAATTCTTGTCA-AACTGAAATTTTGAGAAT
*
1589607 TAAATTCTTGTGAAACTGAAATTTTGAGAAT
1 TAAATTCTTGTCAAACTGAAATTTTGAGAAT
*
1589638 CAAATT
1 TAAATT
1589644 TCAATAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (31 bp):
TAAATTCTTGTCAAACTGAAATTTTGAGAAT
Found at i:1589840 original size:40 final size:41
Alignment explanation
Indices: 1589791--1589894 Score: 138
Period size: 40 Copynumber: 2.5 Consensus size: 41
1589781 TGAGTTTTTA
* *
1589791 TTTTCCAAAGCTGTTATGCCTCTATTTAGATGAGCC-TTCAC
1 TTTT-CAAAGTTGTTATGCCTCTATTTAGAGGAGCCTTTCAC
* * *
1589832 TTTTCAAAGTTGTTATGCCTCTGTTTAGAGGAGCCTTTTAT
1 TTTTCAAAGTTGTTATGCCTCTATTTAGAGGAGCCTTTCAC
*
1589873 TTTTCAAAGTTGTTGTGCCTCT
1 TTTTCAAAGTTGTTATGCCTCT
1589895 GATTAAATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 28 0.50
41 28 0.50
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.44
Consensus pattern (41 bp):
TTTTCAAAGTTGTTATGCCTCTATTTAGAGGAGCCTTTCAC
Found at i:1589892 original size:41 final size:41
Alignment explanation
Indices: 1589786--1590142 Score: 214
Period size: 41 Copynumber: 8.7 Consensus size: 41
1589776 GAAGATGAGT
* * * ** *
1589786 TTTTATTTTCCAAAGCTGTTATGCCTCTATTTAGATGAGCC
1 TTTTATTTTTCAAAGTTGTTGTGCCTCTGCTTAGAGGAGCC
* * * *
1589827 -TTCACTTTTCAAAGTTGTTATGCCTCTGTTTAGAGGAGCC
1 TTTTATTTTTCAAAGTTGTTGTGCCTCTGCTTAGAGGAGCC
* * ** *
1589867 TTTTATTTTTCAAAGTTGTTGTGCCTCTGATTAAATAAGTC
1 TTTTATTTTTCAAAGTTGTTGTGCCTCTGCTTAGAGGAGCC
** **
1589908 TTTT-TTTTTCCAAAGTTGTCCTG-CTCTATTTAGA-GAGCC
1 TTTTATTTTT-CAAAGTTGTTGTGCCTCTGCTTAGAGGAGCC
* *
1589947 -TTTAGGCTTTTTTC-AA-TTGTATGT--CTTTG-TTAGA-AAGCC
1 TTTTA----TTTTTCAAAGTTGT-TGTGCCTCTGCTTAGAGGAGCC
* ** ** * *
1589986 TTTTATTTTTTAAAGTCATTAAGCTTCTGCTTAGAGGTGCC
1 TTTTATTTTTCAAAGTTGTTGTGCCTCTGCTTAGAGGAGCC
* *
1590027 TTTTATTTTTCAAAGTTGTTGAGCCTCTACTTAGAGGAGCC
1 TTTTATTTTTCAAAGTTGTTGTGCCTCTGCTTAGAGGAGCC
* * *
1590068 TTATTTATTTTTTCAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTT
1 -T-TTTA-TTTTTCAAAGTTGTTGTGCCTCTGCTTAGAGGAGC-C
* * *
1590113 TATTTATTTTTCAAAATTATTGAGCCTCTG
1 T-TTTATTTTTCAAAGTTGTTGTGCCTCTG
1590143 ATCTTAATTT
Statistics
Matches: 249, Mismatches: 48, Indels: 36
0.75 0.14 0.11
Matches are distributed among these distances:
36 5 0.02
37 3 0.01
38 5 0.02
39 15 0.06
40 63 0.25
41 87 0.35
42 2 0.01
43 30 0.12
44 39 0.16
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.46
Consensus pattern (41 bp):
TTTTATTTTTCAAAGTTGTTGTGCCTCTGCTTAGAGGAGCC
Found at i:1590090 original size:44 final size:43
Alignment explanation
Indices: 1589987--1590142 Score: 190
Period size: 44 Copynumber: 3.7 Consensus size: 43
1589977 TAGAAAGCCT
* * * * *
1589987 TTTATTTTTTAAAGTCATTAAGCTTCTGCTTAGAGGTGCC-T-
1 TTTATTTTTCAAAGTTATTGAGCCTCTGCTTAGAGGAGCCTTA
* *
1590028 TTTATTTTTCAAAGTTGTTGAGCCTCTACTTAGAGGAGCCTTA
1 TTTATTTTTCAAAGTTATTGAGCCTCTGCTTAGAGGAGCCTTA
* * *
1590071 TTTATTTTTTCAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTA
1 TTTA-TTTTTCAAAGTTATTGAGCCTCTGCTTAGAGGAGCCTTA
*
1590115 TTTATTTTTCAAAATTATTGAGCCTCTG
1 TTTATTTTTCAAAGTTATTGAGCCTCTG
1590143 ATCTTAATTT
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
41 33 0.33
42 1 0.01
43 25 0.25
44 40 0.40
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.46
Consensus pattern (43 bp):
TTTATTTTTCAAAGTTATTGAGCCTCTGCTTAGAGGAGCCTTA
Found at i:1595631 original size:12 final size:11
Alignment explanation
Indices: 1595614--1595652 Score: 60
Period size: 12 Copynumber: 3.4 Consensus size: 11
1595604 ATTTTGCTTG
1595614 AAAAAAGAACAA
1 AAAAAAGAA-AA
1595626 AAAAAAGAAAA
1 AAAAAAGAAAA
1595637 AAAAAAGAGAAA
1 AAAAAAGA-AAA
1595649 AAAA
1 AAAA
1595653 TGATATATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:1595640 original size:13 final size:13
Alignment explanation
Indices: 1595614--1595652 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
1595604 ATTTTGCTTG
*
1595614 AAAAAAG-AACAA
1 AAAAAAGAAAAAA
1595626 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
*
1595639 AAAAGAGAAAAAA
1 AAAAAAGAAAAAA
1595652 A
1 A
1595653 TGATATATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 7 0.29
13 17 0.71
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAA
Found at i:1598703 original size:71 final size:72
Alignment explanation
Indices: 1598593--1598754 Score: 256
Period size: 71 Copynumber: 2.3 Consensus size: 72
1598583 GTTTCCAACT
* *
1598593 GAAGCAGGGATTGAACCAGAGAACATATTTTCACCAAGGTAGAGAGCAGAT-AGCTGGTCAAGTT
1 GAAGCAGGGATTGAACCAGAAAACATATTTTCACAAAGGTAGAGAGCAGATAAGCTGGTCAAGTT
1598657 TCCTATG
66 TCCTATG
* * *
1598664 GAAGCAGGGATTGAACCAGAAAACATATTTTTATAAAGGTAGAGAGTAGATAAGCTGGTCAAGTT
1 GAAGCAGGGATTGAACCAGAAAACATATTTTCACAAAGGTAGAGAGCAGATAAGCTGGTCAAGTT
1598729 TCCTATG
66 TCCTATG
1598736 GAAGCAGGGA-TGACACCAG
1 GAAGCAGGGATTGA-ACCAG
1598755 TGAGATTATT
Statistics
Matches: 84, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
71 49 0.58
72 35 0.42
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (72 bp):
GAAGCAGGGATTGAACCAGAAAACATATTTTCACAAAGGTAGAGAGCAGATAAGCTGGTCAAGTT
TCCTATG
Found at i:1601335 original size:22 final size:21
Alignment explanation
Indices: 1601295--1601337 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1601285 AGCATGGATT
*
1601295 TTTTTTTTTTGGGTAATAATA
1 TTTTTTTTTAGGGTAATAATA
*
1601316 TTTTTTTTTAGGAGTGATAATA
1 TTTTTTTTTAGG-GTAATAATA
1601338 ATTTAAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (21 bp):
TTTTTTTTTAGGGTAATAATA
Found at i:1601537 original size:25 final size:26
Alignment explanation
Indices: 1601488--1601538 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
1601478 TTGGTTTTTA
* * *
1601488 ATTTTAAATTTAATTTTTTATATATT
1 ATTTTAAATCTAATTTTTAACATATT
1601514 ATTTT-AATCTAATTTTTAACATATT
1 ATTTTAAATCTAATTTTTAACATATT
1601539 TAAAGAGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (26 bp):
ATTTTAAATCTAATTTTTAACATATT
Found at i:1602669 original size:22 final size:21
Alignment explanation
Indices: 1602595--1602669 Score: 53
Period size: 22 Copynumber: 3.3 Consensus size: 21
1602585 TTAAAAAAAT
*
1602595 AATTTATAAATTAATTAAATTA
1 AATTTA-AAAATAATTAAATTA
*
1602617 AATTTTGAATTAAAT-ATTAAAAATA
1 AA-TTT-AA--AAATAATT-AAATTA
*
1602642 ATTTTACAAAATAATTAAATTA
1 AATTTA-AAAATAATTAAATTA
1602664 AATTTA
1 AATTTA
1602670 GAATTACTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
AATTTAAAAATAATTAAATTA
Found at i:1607100 original size:15 final size:16
Alignment explanation
Indices: 1607080--1607112 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1607070 AGGTTAAAAA
*
1607080 ATTTT-AATGATAATT
1 ATTTTAAATGAAAATT
1607095 ATTTTAAATGAAAATT
1 ATTTTAAATGAAAATT
1607111 AT
1 AT
1607113 CTAATACATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
ATTTTAAATGAAAATT
Found at i:1609453 original size:25 final size:25
Alignment explanation
Indices: 1609417--1609470 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
1609407 AGTTATTAAT
* *
1609417 TTTTTATATAATGATAAAATAATAA
1 TTTTTATATAATAAGAAAATAATAA
*
1609442 TTTTTAGT-TAATAAGATAATAATAA
1 TTTTTA-TATAATAAGAAAATAATAA
1609467 TTTT
1 TTTT
1609471 ATTTATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (25 bp):
TTTTTATATAATAAGAAAATAATAA
Found at i:1610484 original size:17 final size:18
Alignment explanation
Indices: 1610462--1610495 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1610452 CGTATGATAT
*
1610462 CAATAAA-ACAACAATAG
1 CAATAAATACAAAAATAG
1610479 CAATAAATACAAAAATA
1 CAATAAATACAAAAATA
1610496 TATAGTATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.68, C:0.15, G:0.03, T:0.15
Consensus pattern (18 bp):
CAATAAATACAAAAATAG
Found at i:1611394 original size:18 final size:18
Alignment explanation
Indices: 1611371--1611407 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1611361 GAAGAGTTAA
*
1611371 AATTCTATAAGGATTTAC
1 AATTCTACAAGGATTTAC
1611389 AATTCTACAAGGATTTAC
1 AATTCTACAAGGATTTAC
1611407 A
1 A
1611408 TAAAAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.35
Consensus pattern (18 bp):
AATTCTACAAGGATTTAC
Found at i:1613399 original size:19 final size:20
Alignment explanation
Indices: 1613370--1613411 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
1613360 TATTTAACAT
1613370 TTTATAAAATTAATAAATTA
1 TTTATAAAATTAATAAATTA
1613390 TTTA-AAAATTAATAAATTA
1 TTTATAAAATTAATAAATTA
1613409 TTT
1 TTT
1613412 TTATGTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTATAAAATTAATAAATTA
Found at i:1613439 original size:19 final size:20
Alignment explanation
Indices: 1613369--1613440 Score: 76
Period size: 19 Copynumber: 3.5 Consensus size: 20
1613359 TTATTTAACA
*
1613369 TTTTATAAAATTAATAAATT
1 TTTTATAAAATTAATAATTT
*
1613389 ATTTA-AAAATTAATAAATTAT
1 TTTTATAAAATTAAT-AATT-T
1613410 TTTTATGTAAAA-TAATAATTT
1 TTTTA--TAAAATTAATAATTT
1613431 TTTTATAAAA
1 TTTTATAAAA
1613441 AATTAAAAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
19 14 0.32
20 7 0.16
21 11 0.25
22 4 0.09
23 4 0.09
24 4 0.09
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (20 bp):
TTTTATAAAATTAATAATTT
Found at i:1617255 original size:24 final size:24
Alignment explanation
Indices: 1617228--1617279 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
1617218 CATCTTATGT
1617228 TTATCTAAATGAAATCATAAAATA
1 TTATCTAAATGAAATCATAAAATA
* **
1617252 TTATTTTTATGAAATCATAAAATA
1 TTATCTAAATGAAATCATAAAATA
1617276 TTAT
1 TTAT
1617280 TATTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (24 bp):
TTATCTAAATGAAATCATAAAATA
Found at i:1621573 original size:32 final size:33
Alignment explanation
Indices: 1621537--1621598 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
1621527 AACCAAAAAA
* *
1621537 AAAACCAAAAAT-AAGAAAATAAAATAAAATAG
1 AAAACCAAAAATAAAAAAAATAAAAAAAAATAG
1621569 AAAACCAAAAATAAAAAAAATAAAAAAAAA
1 AAAACCAAAAATAAAAAAAATAAAAAAAAA
1621599 CTAAAATCGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.81, C:0.06, G:0.03, T:0.10
Consensus pattern (33 bp):
AAAACCAAAAATAAAAAAAATAAAAAAAAATAG
Found at i:1621578 original size:18 final size:19
Alignment explanation
Indices: 1621544--1621584 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
1621534 AAAAAAACCA
*
1621544 AAAATAAGAAAA-TAAAAT
1 AAAATAAGAAAACAAAAAT
1621562 AAAAT-AGAAAACCAAAAAT
1 AAAATAAGAAAA-CAAAAAT
1621581 AAAA
1 AAAA
1621585 AAAATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 6 0.30
18 5 0.25
19 9 0.45
ACGTcount: A:0.78, C:0.05, G:0.05, T:0.12
Consensus pattern (19 bp):
AAAATAAGAAAACAAAAAT
Found at i:1621937 original size:41 final size:41
Alignment explanation
Indices: 1621859--1622082 Score: 277
Period size: 41 Copynumber: 5.2 Consensus size: 41
1621849 CATCTTTGGA
* *
1621859 AAAATAAATTGCTCCTCTGAATAGAGGCAACTGAACTTTGAA
1 AAAATAAATGGCTCCTCTGAATAGAGGCAAC-GAACTTTGAG
*
1621901 AAAATAAATGGCTCCTCTGAATAGAGGCAACAAACTTTGAG
1 AAAATAAATGGCTCCTCTGAATAGAGGCAACGAACTTTGAG
* * *
1621942 AAAATAAATTGCTCTTCTAAATAGAGGCAAAAAGGCAACGAACTTTGAG
1 AAAATAAATGGCTCCTCTGAAT--A-G-----AGGCAACGAACTTTGAG
* *
1621991 AAAATAAATGGCTCCTCTGAATAGAGGCAATGAACTTTGAC
1 AAAATAAATGGCTCCTCTGAATAGAGGCAACGAACTTTGAG
* *
1622032 AAAATAAATGGCTCCTCTGAATAAAGGCAACGAACTTTGGG
1 AAAATAAATGGCTCCTCTGAATAGAGGCAACGAACTTTGAG
1622073 AAAATAAATG
1 AAAATAAATG
1622083 ACTCATTGAC
Statistics
Matches: 158, Mismatches: 16, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
41 89 0.56
42 30 0.19
43 1 0.01
44 1 0.01
46 1 0.01
47 1 0.01
49 35 0.22
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (41 bp):
AAAATAAATGGCTCCTCTGAATAGAGGCAACGAACTTTGAG
Found at i:1621986 original size:49 final size:49
Alignment explanation
Indices: 1621925--1622020 Score: 156
Period size: 49 Copynumber: 2.0 Consensus size: 49
1621915 CTCTGAATAG
* *
1621925 AGGCAACAAACTTTGAGAAAATAAATTGCTCTTCTAAATAGAGGCAAAA
1 AGGCAACAAACTTTGAGAAAATAAATGGCTCCTCTAAATAGAGGCAAAA
* *
1621974 AGGCAACGAACTTTGAGAAAATAAATGGCTCCTCTGAATAGAGGCAA
1 AGGCAACAAACTTTGAGAAAATAAATGGCTCCTCTAAATAGAGGCAA
1622021 TGAACTTTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.21
Consensus pattern (49 bp):
AGGCAACAAACTTTGAGAAAATAAATGGCTCCTCTAAATAGAGGCAAAA
Found at i:1622005 original size:90 final size:91
Alignment explanation
Indices: 1621883--1622061 Score: 279
Period size: 90 Copynumber: 2.0 Consensus size: 91
1621873 CTCTGAATAG
*
1621883 AGGCAACTGAACTTTGAAAAAATAAATGGCTCCTCTGAATAGAGGCAACAAACTTTGAGAAAATA
1 AGGCAACTGAACTTTGAAAAAATAAATGGCTCCTCTGAATAGAGGCAACAAACTTTGACAAAATA
* * *
1621948 AATTGCTCTTCTAAATAGAGGCAAAA
66 AATGGCTCCTCTAAATAAAGGCAAAA
* **
1621974 AGGCAAC-GAACTTTGAGAAAATAAATGGCTCCTCTGAATAGAGGCAATGAACTTTGACAAAATA
1 AGGCAACTGAACTTTGAAAAAATAAATGGCTCCTCTGAATAGAGGCAACAAACTTTGACAAAATA
*
1622038 AATGGCTCCTCTGAATAAAGGCAA
66 AATGGCTCCTCTAAATAAAGGCAA
1622062 CGAACTTTGG
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
90 73 0.91
91 7 0.09
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.22
Consensus pattern (91 bp):
AGGCAACTGAACTTTGAAAAAATAAATGGCTCCTCTGAATAGAGGCAACAAACTTTGACAAAATA
AATGGCTCCTCTAAATAAAGGCAAAA
Found at i:1622282 original size:22 final size:22
Alignment explanation
Indices: 1622252--1622301 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
1622242 TTCAATTTCA
*
1622252 CAAGAATTTG-ATTTGCAAGATTT
1 CAAG-ATTTGTATTTGCAA-ATTG
1622275 CAAGATTTGTATTTGCAAATTG
1 CAAGATTTGTATTTGCAAATTG
1622297 CAAGA
1 CAAGA
1622302 CTTGCATCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (22 bp):
CAAGATTTGTATTTGCAAATTG
Found at i:1623800 original size:14 final size:14
Alignment explanation
Indices: 1623781--1623837 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
1623771 TTTCCTTCTC
1623781 TTTTTTCTTTTTCA
1 TTTTTTCTTTTTCA
*
1623795 TTTTTTCATTTTCA
1 TTTTTTCTTTTTCA
* *
1623809 TTTTTTTTATTTTTCC
1 --TTTTTTCTTTTTCA
1623825 TTTTTTCCTTTTT
1 TTTTTT-CTTTTT
1623838 TTTTCCTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
14 19 0.54
15 5 0.14
16 11 0.31
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTCTTTTTCA
Found at i:1623841 original size:11 final size:11
Alignment explanation
Indices: 1623825--1623850 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1623815 TTATTTTTCC
1623825 TTTTTTCCTTT
1 TTTTTTCCTTT
1623836 TTTTTTCCTTT
1 TTTTTTCCTTT
1623847 TTTT
1 TTTT
1623851 GCTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTCCTTT
Found at i:1623842 original size:19 final size:20
Alignment explanation
Indices: 1623813--1623861 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1623803 TTTTCATTTT
1623813 TTTTATTTTTCC-TTTTTTCC
1 TTTT-TTTTTCCTTTTTTTCC
*
1623833 TTTTTTTTTCCTTTTTTTGC
1 TTTTTTTTTCCTTTTTTTCC
1623853 TTTTTTTTT
1 TTTTTTTTT
1623862 GAAACATAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (20 bp):
TTTTTTTTTCCTTTTTTTCC
Found at i:1635758 original size:8 final size:7
Alignment explanation
Indices: 1635728--1635808 Score: 51
Period size: 7 Copynumber: 11.6 Consensus size: 7
1635718 AGAAACCAAA
1635728 AAAAAAT
1 AAAAAAT
*
1635735 AAAAAAC
1 AAAAAAT
*
1635742 CAAAAAT
1 AAAAAAT
1635749 AAAAAGAT
1 AAAAA-AT
1635757 --AAAAT
1 AAAAAAT
1635762 -AAAAAT
1 AAAAAAT
* *
1635768 AGAAAAC
1 AAAAAAT
*
1635775 CAAAAAT
1 AAAAAAT
*
1635782 AAATAAT
1 AAAAAAT
1635789 AATAATAAT
1 AA-AA-AAT
*
1635798 AAAAACT
1 AAAAAAT
1635805 AAAA
1 AAAA
1635809 TTGGGCCATT
Statistics
Matches: 56, Mismatches: 13, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
5 2 0.04
6 8 0.14
7 36 0.64
8 5 0.09
9 5 0.09
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.15
Consensus pattern (7 bp):
AAAAAAT
Found at i:1635766 original size:33 final size:35
Alignment explanation
Indices: 1635725--1635808 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 35
1635715 CCAAGAAACC
*
1635725 AAAA-AAAAATAAAAAACCAAAAATAAA-AA-GAT
1 AAAATAAAAATAAAAAACCAAAAATAAATAATAAT
*
1635757 AAAATAAAAATAGAAAACCAAAAATAAATAATAAT
1 AAAATAAAAATAAAAAACCAAAAATAAATAATAAT
1635792 AATAATAAAAACTAAAA
1 AA-AATAAAAA-TAAAA
1635809 TTGGGCCATT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
32 4 0.09
33 22 0.50
34 2 0.05
35 4 0.09
36 8 0.18
37 4 0.09
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.14
Consensus pattern (35 bp):
AAAATAAAAATAAAAAACCAAAAATAAATAATAAT
Found at i:1638054 original size:14 final size:13
Alignment explanation
Indices: 1638033--1638082 Score: 54
Period size: 12 Copynumber: 4.0 Consensus size: 13
1638023 TTCTTCTAGA
1638033 TTTC-TTTCTTCT
1 TTTCTTTTCTTCT
1638045 TTTCTCTTTC-TC-
1 TTTCT-TTTCTTCT
1638057 TTTCTTTCTCTTCT
1 TTTCTTT-TCTTCT
1638071 TTT-TTTTCTTCT
1 TTTCTTTTCTTCT
1638083 GCGATCTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
11 2 0.06
12 17 0.52
13 7 0.21
14 7 0.21
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTCTTTTCTTCT
Found at i:1638282 original size:24 final size:22
Alignment explanation
Indices: 1638247--1638290 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 22
1638237 GTAGCAGATC
1638247 GATGCAACGATGCAGAACAAATTT
1 GATGCAACGATG--GAACAAATTT
1638271 GATGTCAA-GATGGAACAAAT
1 GATG-CAACGATGGAACAAAT
1638291 GTTTGGAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (22 bp):
GATGCAACGATGGAACAAATTT
Found at i:1643198 original size:144 final size:143
Alignment explanation
Indices: 1642935--1643536 Score: 859
Period size: 144 Copynumber: 4.2 Consensus size: 143
1642925 TTCGATATGC
* *
1642935 TTCCTATGGAAGCAGGGATTGAAACAGAGAAATTATTTTGACTCAACCCAAAGTCAGTGAGAGAT
1 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACTCAAAGTCAGTGAGAGAT
* * *
1643000 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATCGAGGTAAAGAGTGGA
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATAGAGGTAAAGAATAGA
1643065 TAGACTGGTCAAGT
131 TA-ACTGGTCAAGT
*
1643079 TTCCTATGGAAGCAGGGATTGAACCAAAGAAATTATTTTGACTCAACTCAATA-TCAGTGAGAGA
1 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACTCAA-AGTCAGTGAGAGA
* * * * *
1643143 TTTAAGCATGCCTATCTCTTGAGGCATCGATCCAGAAAACATATTTTGGTAGAGGTAGAA-AAAA
65 TTTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATAGAGGTA-AAGAATA
*
1643207 GATAAGTTGGTCAAGT
129 GATAA-CTGGTCAAGT
*
1643223 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGATTCAACTCAAAGTCAGTGAGAGAT
1 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACTCAAAGTCAGTGAGAGAT
* * * *
1643288 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTATGAT-GAAGGTAGAGACTGG
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATAG-AGGTAAAGAATAG
1643352 ATAAACTGGTCAAGT
130 AT-AACTGGTCAAGT
* * *
1643367 TTCTTATGGAAGCAGGGATTGAGCCAGAGAAATTATTTTGACTCAACTCAAAGTCATTGAGAGAT
1 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACTCAAAGTCAGTGAGAGAT
* * * * ** *
1643432 TTAAGCATCCCTATTTCTTGAGGTATCGATCCACAAAACATATTTTGATAAAGGTGGAGAACAGA
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATAGAGGTAAAGAATAGA
*
1643497 TAAGTAGGTCAAGT
131 TAACT-GGTCAAGT
*
1643511 TTCCTATGGAAGCAGGGATAGAACCA
1 TTCCTATGGAAGCAGGGATTGAACCA
1643537 CGTAGATAGT
Statistics
Matches: 408, Mismatches: 41, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
143 7 0.02
144 396 0.97
145 5 0.01
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (143 bp):
TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACTCAAAGTCAGTGAGAGAT
TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATAGAGGTAAAGAATAGA
TAACTGGTCAAGT
Found at i:1643453 original size:288 final size:288
Alignment explanation
Indices: 1642935--1643536 Score: 974
Period size: 288 Copynumber: 2.1 Consensus size: 288
1642925 TTCGATATGC
*
1642935 TTCCTATGGAAGCAGGGATTGAAACAGAGAAATTATTTTGACTCAACCCAAAGTCAGTGAGAGAT
1 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACCCAAAGTCAGTGAGAGAT
* *
1643000 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATCGAGGTAAAGAGTGGA
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTATGATCGAGGTAAAGACTGGA
*
1643065 TAGACTGGTCAAGTTTCCTATGGAAGCAGGGATTGAACCAAAGAAATTATTTTGACTCAACTCAA
131 TAAACTGGTCAAGTTTCCTATGGAAGCAGGGATTGAACCAAAGAAATTATTTTGACTCAACTCAA
* * * *
1643130 TATCAGTGAGAGATTTAAGCATGCCTATCTCTTGAGGCATCGATCCAGAAAACATATTTTGGTAG
196 TATCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGCATCGATCCACAAAACATATTTTGATAA
*
1643195 AGGTAGAAAAAAGATAAGTTGGTCAAGT
261 AGGTAGAAAAAAGATAAGTAGGTCAAGT
* *
1643223 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGATTCAACTCAAAGTCAGTGAGAGAT
1 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACCCAAAGTCAGTGAGAGAT
*
1643288 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTATGAT-GAAGGTAGAGACTGG
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTATGATCG-AGGTAAAGACTGG
* * *
1643352 ATAAACTGGTCAAGTTTCTTATGGAAGCAGGGATTGAGCCAGAGAAATTATTTTGACTCAACTCA
130 ATAAACTGGTCAAGTTTCCTATGGAAGCAGGGATTGAACCAAAGAAATTATTTTGACTCAACTCA
* * *
1643417 A-AGTCATTGAGAGATTTAAGCATCCCTATTTCTTGAGGTATCGATCCACAAAACATATTTTGAT
195 ATA-TCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGCATCGATCCACAAAACATATTTTGAT
* * *
1643481 AAAGGTGGAGAACAGATAAGTAGGTCAAGT
259 AAAGGTAGAAAAAAGATAAGTAGGTCAAGT
*
1643511 TTCCTATGGAAGCAGGGATAGAACCA
1 TTCCTATGGAAGCAGGGATTGAACCA
1643537 CGTAGATAGT
Statistics
Matches: 290, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
287 2 0.01
288 288 0.99
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (288 bp):
TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACCCAAAGTCAGTGAGAGAT
TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTATGATCGAGGTAAAGACTGGA
TAAACTGGTCAAGTTTCCTATGGAAGCAGGGATTGAACCAAAGAAATTATTTTGACTCAACTCAA
TATCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGCATCGATCCACAAAACATATTTTGATAA
AGGTAGAAAAAAGATAAGTAGGTCAAGT
Found at i:1657508 original size:8 final size:7
Alignment explanation
Indices: 1657462--1657543 Score: 51
Period size: 7 Copynumber: 11.6 Consensus size: 7
1657452 AAGAAACCAA
1657462 AAAAAAT
1 AAAAAAT
*
1657469 AAAAAAC
1 AAAAAAT
*
1657476 CAAAAAT
1 AAAAAAT
*
1657483 AAGAAGAT
1 AA-AAAAT
1657491 --AAAAT
1 AAAAAAT
1657496 AAAAAAT
1 AAAAAAT
* *
1657503 AGAAAAC
1 AAAAAAT
*
1657510 CAAAAAT
1 AAAAAAT
*
1657517 AAATAAT
1 AAAAAAT
1657524 AATAATAAT
1 AA-AA-AAT
*
1657533 AAAAACT
1 AAAAAAT
1657540 AAAA
1 AAAA
1657544 TCGGGCCATT
Statistics
Matches: 55, Mismatches: 15, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
5 4 0.07
7 39 0.71
8 7 0.13
9 5 0.09
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.15
Consensus pattern (7 bp):
AAAAAAT
Found at i:1664952 original size:144 final size:143
Alignment explanation
Indices: 1664689--1665289 Score: 798
Period size: 144 Copynumber: 4.2 Consensus size: 143
1664679 TTCGGTATGC
* *
1664689 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTTACTCAACCCAAAGTCAGTGAGAGAT
1 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACTCAAAGTCAGTGAGAGAT
* * *
1664754 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATCGAGGTAAAGAGCGGA
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATAGAGGTAAAGAACAGA
1664819 TAGACTGGTCAAGT
131 TA-ACTGGTCAAGT
* *
1664833 TTCCTATGCAAGCAGGGATTGAACCAAAGAAATTATTTTGACTCAACTCAATA-TCAGTGAGAGA
1 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACTCAA-AGTCAGTGAGAGA
* * * * *
1664897 TTTAAGCATGCCTATCTCTTGAGGCATCGATCCAGAAAACATATTTTGGTAGAGGTAGAA-AAAA
65 TTTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATAGAGGTA-AAGAACA
*
1664961 GATAAGTTGGTCAAGT
129 GATAA-CTGGTCAAGT
* * *
1664977 TTCCTATGGAAGCAGGGATTGAACCAGATAAATTATTTTGATTCAACTCATAGTCAGTGAGAGAT
1 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACTCAAAGTCAGTGAGAGAT
* * * *
1665042 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTAT-AT-GAAGGTAGAG-GCTG
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATAG-AGGTAAAGAAC-A
1665104 GATAAACTGGTCAAGT
129 GAT-AACTGGTCAAGT
* * * ** *
1665120 TTCTTATGGAGGCAGGGACTGAACCAGAGAAATTATAATGACTAAACTCAAAGTCAGTGAGAGAT
1 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACTCAAAGTCAGTGAGAGAT
* * * **
1665185 TTAAGCATCCCTATTTCTTGAGGTATCGATCCACAAAACATATTTTGATAGAGGTGGAGAACAGA
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATAGAGGTAAAGAACAGA
*
1665250 TAAGTAGGTCAAGT
131 TAACT-GGTCAAGT
*
1665264 TTCCTATGGAAGCAGGGATAGAACCA
1 TTCCTATGGAAGCAGGGATTGAACCA
1665290 CGTAGATAGT
Statistics
Matches: 396, Mismatches: 49, Indels: 24
0.84 0.10 0.05
Matches are distributed among these distances:
142 2 0.01
143 121 0.31
144 268 0.68
145 5 0.01
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (143 bp):
TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACTCAAAGTCAGTGAGAGAT
TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATAGAGGTAAAGAACAGA
TAACTGGTCAAGT
Found at i:1665239 original size:287 final size:288
Alignment explanation
Indices: 1664689--1665289 Score: 913
Period size: 287 Copynumber: 2.1 Consensus size: 288
1664679 TTCGGTATGC
*
1664689 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTTACTCAACCCAAAGTCAGTGAGAGAT
1 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACCCAAAGTCAGTGAGAGAT
*
1664754 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATCGAGGTAAAGAGCGGA
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTATGATCGAGGTAAAGAGCGGA
* * ** *
1664819 TAGACTGGTCAAGTTTCCTATGCAAGCAGGGATTGAACCAAAGAAATTATTTTGACTCAACTCAA
131 TAAACTGGTCAAGTTTCCTATGCAAGCAGGGACTGAACCAAAGAAATTATAATGACTAAACTCAA
* * *
1664884 TATCAGTGAGAGATTTAAGCATGCCTATCTCTTGAGGCATCGATCCAGAAAACATATTTTGGTAG
196 TATCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGCATCGATCCACAAAACATATTTTGATAG
*
1664949 AGGTAGAAAAAAGATAAGTTGGTCAAGT
261 AGGTAGAAAAAAGATAAGTAGGTCAAGT
* * * *
1664977 TTCCTATGGAAGCAGGGATTGAACCAGATAAATTATTTTGATTCAACTCATAGTCAGTGAGAGAT
1 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACCCAAAGTCAGTGAGAGAT
*
1665042 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTAT-AT-GAAGGTAGAG-GCTG
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTATGATCG-AGGTAAAGAGC-G
* * * *
1665104 GATAAACTGGTCAAGTTTCTTATGGAGGCAGGGACTGAACCAGAGAAATTATAATGACTAAACTC
129 GATAAACTGGTCAAGTTTCCTATGCAAGCAGGGACTGAACCAAAGAAATTATAATGACTAAACTC
* *
1665169 AA-AGTCAGTGAGAGATTTAAGCATCCCTATTTCTTGAGGTATCGATCCACAAAACATATTTTGA
194 AATA-TCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGCATCGATCCACAAAACATATTTTGA
* * *
1665233 TAGAGGTGGAGAACAGATAAGTAGGTCAAGT
258 TAGAGGTAGAAAAAAGATAAGTAGGTCAAGT
*
1665264 TTCCTATGGAAGCAGGGATAGAACCA
1 TTCCTATGGAAGCAGGGATTGAACCA
1665290 CGTAGATAGT
Statistics
Matches: 284, Mismatches: 26, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
286 4 0.01
287 175 0.62
288 105 0.37
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (288 bp):
TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACCCAAAGTCAGTGAGAGAT
TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTATGATCGAGGTAAAGAGCGGA
TAAACTGGTCAAGTTTCCTATGCAAGCAGGGACTGAACCAAAGAAATTATAATGACTAAACTCAA
TATCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGCATCGATCCACAAAACATATTTTGATAG
AGGTAGAAAAAAGATAAGTAGGTCAAGT
Found at i:1668019 original size:16 final size:15
Alignment explanation
Indices: 1667980--1668019 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
1667970 TAATTCATAA
1667980 TATAATAATTTTATT
1 TATAATAATTTTATT
*
1667995 TATTTATAATTTTATT
1 TA-TAATAATTTTATT
1668011 CTATAATAA
1 -TATAATAA
1668020 AATTTTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 2 0.10
16 17 0.81
17 2 0.10
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
TATAATAATTTTATT
Found at i:1670492 original size:16 final size:16
Alignment explanation
Indices: 1670473--1670505 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1670463 TTTTTTGTAT
1670473 TTTATGTATT-TTATTA
1 TTTAT-TATTATTATTA
1670489 TTTATTATTATTATTA
1 TTTATTATTATTATTA
1670505 T
1 T
1670506 CATGTATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:1670581 original size:20 final size:18
Alignment explanation
Indices: 1670547--1670590 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
1670537 TATTTATATG
1670547 TAATTTATTTATATAGTTA
1 TAATTTATTTATATA-TTA
1670566 TATATTTA-TTATTATATTA
1 TA-ATTTATTTA-TATATTA
1670585 TAATTT
1 TAATTT
1670591 TTTTTTCTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.17
19 10 0.43
20 9 0.39
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TAATTTATTTATATATTA
Found at i:1670676 original size:26 final size:25
Alignment explanation
Indices: 1670622--1670681 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
1670612 GATTTATTTT
1670622 ATTTTATTTTTTAATTATCTG-TTA
1 ATTTTATTTTTTAATTATCTGTTTA
*
1670646 ATTTTATTTTATTCATTTATCTGATTT-
1 ATTTTATTTT-TT-AATTATCTG-TTTA
*
1670673 TTTTTATTT
1 ATTTTATTT
1670682 ATCCGATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 10 0.33
25 2 0.07
26 8 0.27
27 8 0.27
28 2 0.07
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (25 bp):
ATTTTATTTTTTAATTATCTGTTTA
Found at i:1670697 original size:18 final size:18
Alignment explanation
Indices: 1670654--1670698 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
1670644 TAATTTTATT
* *
1670654 TTATTCATTTATCTGATTT
1 TTATT-ATTTATCCGATTA
*
1670673 TTTTTATTTATCCGATTA
1 TTATTATTTATCCGATTA
1670691 TTATTATT
1 TTATTATT
1670699 ATTATTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.22, C:0.09, G:0.04, T:0.64
Consensus pattern (18 bp):
TTATTATTTATCCGATTA
Found at i:1671151 original size:11 final size:11
Alignment explanation
Indices: 1671135--1671170 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
1671125 ATCCCAGAAA
*
1671135 TCGGTGATCTT
1 TCGGTGAACTT
1671146 TCGGTGAACTT
1 TCGGTGAACTT
*
1671157 CCGGTGAACTT
1 TCGGTGAACTT
1671168 TCG
1 TCG
1671171 ACGAAAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.14, C:0.22, G:0.28, T:0.36
Consensus pattern (11 bp):
TCGGTGAACTT
Found at i:1671567 original size:15 final size:16
Alignment explanation
Indices: 1671532--1671562 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1671522 GCCGCTCCAA
*
1671532 AATTTTTTTTTTTTTG
1 AATTTTTTTTATTTTG
1671548 AATTTTTTTTATTTT
1 AATTTTTTTTATTTT
1671563 CATTTCTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (16 bp):
AATTTTTTTTATTTTG
Found at i:1671632 original size:11 final size:10
Alignment explanation
Indices: 1671616--1671682 Score: 64
Period size: 11 Copynumber: 6.5 Consensus size: 10
1671606 TTAATATTCT
1671616 TTTTATCTTTA
1 TTTT-TCTTTA
*
1671627 TTTTATTTTTA
1 TTTT-TCTTTA
*
1671638 TTTTTGTTTTA
1 TTTTT-CTTTA
*
1671649 CTTTTCTTTA
1 TTTTTCTTTA
1671659 TTTTT-TTTA
1 TTTTTCTTTA
*
1671668 TTTTTATTTA
1 TTTTTCTTTA
1671678 TTTTT
1 TTTTT
1671683 TTATTATTCT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
9 9 0.18
10 18 0.36
11 23 0.46
ACGTcount: A:0.13, C:0.04, G:0.01, T:0.81
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:1671633 original size:5 final size:5
Alignment explanation
Indices: 1671616--1671697 Score: 53
Period size: 5 Copynumber: 15.8 Consensus size: 5
1671606 TTAATATTCT
* *
1671616 TTTTA TCTTTA TTTTA TTTTTA TTTTTG TTTTA CTTTT- CTTTA TTTT-
1 TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA -TTTTA TTTTA TTTTA
* *
1671663 TTTTA TTTT- TATTTA TTTTT TTATTA TTCTA TTTT
1 TTTTA TTTTA T-TTTA TTTTA TT-TTA TTTTA TTTT
1671698 CTTTAAATGA
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
4 8 0.13
5 29 0.48
6 24 0.39
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:1671636 original size:6 final size:6
Alignment explanation
Indices: 1671615--1671697 Score: 64
Period size: 6 Copynumber: 13.7 Consensus size: 6
1671605 TTTAATATTC
* * * * *
1671615 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTTC TTTATTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA
1671662 TTTTTA TTTTTA TTTATT- TTTTTA TTATTCTA TTTT
1 TTTTTA TTTTTA TTT-TTA TTTTTA TT-TT-TA TTTT
1671698 CTTTAAATGA
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
5 10 0.16
6 37 0.60
7 11 0.18
8 4 0.06
ACGTcount: A:0.14, C:0.05, G:0.01, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:1671681 original size:18 final size:18
Alignment explanation
Indices: 1671627--1671687 Score: 79
Period size: 19 Copynumber: 3.4 Consensus size: 18
1671617 TTTATCTTTA
*
1671627 TTTTATTTTTATTT-TTG
1 TTTTATTTTTATTTATTT
* *
1671644 TTTTACTTTTCTTTATTTT
1 TTTTATTTTTATTTA-TTT
1671663 TTTTATTTTTATTTATTT
1 TTTTATTTTTATTTATTT
1671681 TTTTATT
1 TTTTATT
1671688 ATTCTATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
17 12 0.32
18 10 0.27
19 15 0.41
ACGTcount: A:0.13, C:0.03, G:0.02, T:0.82
Consensus pattern (18 bp):
TTTTATTTTTATTTATTT
Found at i:1671689 original size:11 final size:10
Alignment explanation
Indices: 1671623--1671690 Score: 75
Period size: 11 Copynumber: 6.6 Consensus size: 10
1671613 TCTTTTTATC
1671623 TTTATTTTATT
1 TTTATTTT-TT
1671634 TTTATTTTTGT
1 TTTATTTTT-T
* *
1671645 TTTACTTTTC
1 TTTATTTTTT
1671655 TTTA-TTTTT
1 TTTATTTTTT
*
1671664 TTTATTTTTA
1 TTTATTTTTT
1671674 TTTATTTTTT
1 TTTATTTTTT
1671684 TATTATT
1 T-TTATT
1671691 CTATTTTCTT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
9 8 0.16
10 19 0.39
11 22 0.45
ACGTcount: A:0.15, C:0.03, G:0.01, T:0.81
Consensus pattern (10 bp):
TTTATTTTTT
Found at i:1671689 original size:15 final size:15
Alignment explanation
Indices: 1671656--1671702 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
1671646 TTACTTTTCT
*
1671656 TTATTT-TTTTTATTT
1 TTATTTATTTTT-TTA
1671671 TTATTTATTTTTTTA
1 TTATTTATTTTTTTA
1671686 TTATTCTATTTTCTTTA
1 TTATT-TATTTT-TTTA
1671703 AATGAAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 13 0.46
16 11 0.39
17 4 0.14
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (15 bp):
TTATTTATTTTTTTA
Found at i:1671790 original size:59 final size:56
Alignment explanation
Indices: 1671728--1672062 Score: 427
Period size: 59 Copynumber: 5.7 Consensus size: 56
1671718 TTTCAAAAAA
1671728 AAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAA-ATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
*
1671786 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTC
1 --AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAATTTTC
* * * *
1671847 GAAAAATATTTTTAAGTAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
** ** *
1671904 AAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATCAAAGTTTC
1 AAAAA-ATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC
* *
1671963 AAAAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAATTTTC
1 --AAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1672022 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCC
1672063 CTACATAAGA
Statistics
Matches: 243, Mismatches: 24, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
57 49 0.20
58 39 0.16
59 99 0.41
60 43 0.18
61 13 0.05
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (56 bp):
AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:1671969 original size:117 final size:118
Alignment explanation
Indices: 1671726--1672062 Score: 509
Period size: 118 Copynumber: 2.8 Consensus size: 118
1671716 ATTTTCAAAA
*
1671726 AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAA
1 AAAAAAA-ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC--AAA
*
1671791 AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTC
63 AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAAGTTTC
* * *
1671847 --GAAAAATATTTTTAAGTAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAG
1 AAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAA-
** * *
1671910 GGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATC-AAAGTTTC
65 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAAGTTTC
* * *
1671963 AAAAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAATTTTCAAAAAA
1 AAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
1672028 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
66 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1672063 CTACATAAGA
Statistics
Matches: 195, Mismatches: 18, Indels: 10
0.87 0.08 0.04
Matches are distributed among these distances:
116 12 0.06
117 74 0.38
118 105 0.54
119 4 0.02
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (118 bp):
AAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAAGTTTC
Found at i:1672004 original size:28 final size:28
Alignment explanation
Indices: 1671913--1672004 Score: 64
Period size: 28 Copynumber: 3.1 Consensus size: 28
1671903 CAAAAAGGGA
*
1671913 TTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTTTGAGGAAAAGTTGAAAATATCAAT
* * *
1671941 TTTCCTTG-GAAATCAAAGTTTCAAAA-A-AAAT
1 TTT--TTGAG-GA--AAAG-TTGAAAATATCAAT
1671972 ATTTTTGAGGAAAAGTTGAAAATATCAAT
1 -TTTTTGAGGAAAAGTTGAAAATATCAAT
1672001 TTTT
1 TTTT
1672005 CTTAAAAATA
Statistics
Matches: 47, Mismatches: 7, Indels: 20
0.64 0.09 0.27
Matches are distributed among these distances:
27 6 0.13
28 12 0.26
29 4 0.09
30 8 0.17
31 4 0.09
32 8 0.17
33 5 0.11
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (28 bp):
TTTTTGAGGAAAAGTTGAAAATATCAAT
Found at i:1672109 original size:12 final size:12
Alignment explanation
Indices: 1672092--1672120 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1672082 CTTTCCTTCC
1672092 TTTTTATTTTGA
1 TTTTTATTTTGA
1672104 TTTTTATTTTGA
1 TTTTTATTTTGA
1672116 TTTTT
1 TTTTT
1672121 CTTTAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (12 bp):
TTTTTATTTTGA
Found at i:1674414 original size:6 final size:6
Alignment explanation
Indices: 1674403--1674437 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
1674393 AAAGAAACTG
*
1674403 AAGCTC AAGCTC AAGCTC AAGCTG AAGCTC AAGCT
1 AAGCTC AAGCTC AAGCTC AAGCTC AAGCTC AAGCT
1674438 GTGAGCTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.17
Consensus pattern (6 bp):
AAGCTC
Found at i:1674438 original size:12 final size:12
Alignment explanation
Indices: 1674400--1674438 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
1674390 AAGAAAGAAA
1674400 CTGAAGCTCAAG
1 CTGAAGCTCAAG
*
1674412 CTCAAGCTCAAG
1 CTGAAGCTCAAG
1674424 CTGAAGCTCAAG
1 CTGAAGCTCAAG
1674436 CTG
1 CTG
1674439 TGAGCTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.18
Consensus pattern (12 bp):
CTGAAGCTCAAG
Found at i:1677360 original size:42 final size:41
Alignment explanation
Indices: 1677313--1677609 Score: 409
Period size: 42 Copynumber: 7.1 Consensus size: 41
1677303 GATTGTCAAA
*
1677313 GAGCAATTTACTTTCCCAAAGTTCCGT-TGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCCAAAG-T-CGTGTGCCTCTGTTTAGAG
*
1677355 GAGCAATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCCAAAGTCGT-GTGCCTCTGTTTAGAG
*
1677397 GAGCAGTTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCCAAAGTCGT-GTGCCTCTGTTTAGAG
*
1677439 GAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAA
1 GAGCAATTTACTTTTCCAAAGTCGT-GTGCCTCTGTTTAGAG
* * *
1677481 GAGCAATTTA-TTTTTCAAAGTCGTGGTGCATCTATTTAGAG
1 GAGCAATTTACTTTTCCAAAGTCGT-GTGCCTCTGTTTAGAG
* *
1677522 GAGCAATGTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCCAAAGTCGT-GTGCCTCTGTTTAGAG
* *
1677564 GAGCAATTTACTTTTCCAAAGTAGTTGAGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCCAAAGTCG-TGTGCCTCTGTTTAGAG
1677606 GAGC
1 GAGC
1677610 TTTGGTAAAA
Statistics
Matches: 236, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
40 3 0.01
41 37 0.16
42 195 0.83
43 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (41 bp):
GAGCAATTTACTTTTCCAAAGTCGTGTGCCTCTGTTTAGAG
Found at i:1677554 original size:125 final size:125
Alignment explanation
Indices: 1677313--1677609 Score: 445
Period size: 125 Copynumber: 2.4 Consensus size: 125
1677303 GATTGTCAAA
*
1677313 GAGCAATTTACTTTCCCAAAGTTCCGT-TGCCTCTGTTTAGAGGAGCAATTTACTTTCCCAAAGT
1 GAGCAATTTACTTTTCCAAAG-T-CGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCCAAAGT
* * * *
1677377 CGTGGTGCCTCTGTTTAGAGGAGCAGTTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
64 CGTGGTGCATCTATTTAGAGGAGCAATGTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
* **
1677439 GAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAAGAGCAATTTA-TTTTTCAAAGTC
1 GAGCAATTTACTTTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTACTTTCCCAAAGTC
*
1677503 GTGGTGCATCTATTTAGAGGAGCAATGTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
65 GTGGTGCATCTATTTAGAGGAGCAATGTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
* *
1677564 GAGCAATTTACTTTTCCAAAGTAGTTGAGCCTCTGTTTAGAGGAGC
1 GAGCAATTTACTTTTCCAAAGTCG-TGTGCCTCTGTTTAGAGGAGC
1677610 TTTGGTAAAA
Statistics
Matches: 156, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
124 3 0.02
125 108 0.69
126 45 0.29
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (125 bp):
GAGCAATTTACTTTTCCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCCAAAGTCG
TGGTGCATCTATTTAGAGGAGCAATGTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
Found at i:1677856 original size:17 final size:17
Alignment explanation
Indices: 1677814--1677856 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1677804 ATTTTTTACC
**
1677814 TTGTATTTTTTTTTCTT
1 TTGTATTTTTCCTTCTT
* *
1677831 TTTTCTTTTTCCTTCTT
1 TTGTATTTTTCCTTCTT
1677848 TTGTATTTT
1 TTGTATTTT
1677857 ATGTATTTTA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.05, C:0.12, G:0.05, T:0.79
Consensus pattern (17 bp):
TTGTATTTTTCCTTCTT
Found at i:1677873 original size:16 final size:16
Alignment explanation
Indices: 1677854--1677886 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1677844 TCTTTTGTAT
1677854 TTTATGTATT-TTATTA
1 TTTAT-TATTATTATTA
1677870 TTTATTATTATTATTA
1 TTTATTATTATTATTA
1677886 T
1 T
1677887 CATGTATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:1677962 original size:20 final size:18
Alignment explanation
Indices: 1677928--1677971 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
1677918 TATTTATATG
1677928 TAATTTATTTATATAGTTA
1 TAATTTATTTATATA-TTA
1677947 TATATTTA-TTATTATATTA
1 TA-ATTTATTTA-TATATTA
1677966 TAATTT
1 TAATTT
1677972 TTTTGGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.17
19 10 0.43
20 9 0.39
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TAATTTATTTATATATTA
Found at i:1678525 original size:11 final size:11
Alignment explanation
Indices: 1678509--1678541 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
1678499 AACCGATGAT
1678509 CTTCCGGTGAA
1 CTTCCGGTGAA
1678520 CTTCCGGTGAA
1 CTTCCGGTGAA
*
1678531 CTTCCGATGAA
1 CTTCCGGTGAA
1678542 AAACCCAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.27
Consensus pattern (11 bp):
CTTCCGGTGAA
Found at i:1678966 original size:15 final size:15
Alignment explanation
Indices: 1678946--1678975 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1678936 CATTTCTTTG
1678946 TTTATTTGTTTATTT
1 TTTATTTGTTTATTT
*
1678961 TTTATTTTTTTATTT
1 TTTATTTGTTTATTT
1678976 ATTAGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTATTTGTTTATTT
Found at i:1678985 original size:27 final size:26
Alignment explanation
Indices: 1678929--1678993 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 26
1678919 TGAATTTTTT
* * * *
1678929 TTATTTTCATTTCTTTGTTTATTTGT
1 TTATTTTTATTTCTTTATTTATTAGA
*
1678955 TTATTTTTTATTTTTTTATTTATTAGA
1 TTA-TTTTTATTTCTTTATTTATTAGA
*
1678982 TTATGTTTATTT
1 TTATTTTTATTT
1678994 AATATTCTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 11 0.34
27 21 0.66
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.74
Consensus pattern (26 bp):
TTATTTTTATTTCTTTATTTATTAGA
Found at i:1679018 original size:11 final size:10
Alignment explanation
Indices: 1679002--1679078 Score: 70
Period size: 11 Copynumber: 7.7 Consensus size: 10
1678992 TTAATATTCT
1679002 TTTTATCTTTA
1 TTTT-TCTTTA
*
1679013 TTTTATTTTTA
1 TTTT-TCTTTA
*
1679024 TTTTTGTTTTA
1 TTTTT-CTTTA
*
1679035 CTTTTCTTTA
1 TTTTTCTTTA
1679045 -TTTT-TTTA
1 TTTTTCTTTA
1679053 TTTTTCTTTA
1 TTTTTCTTTA
1679063 TTTTT-TTTA
1 TTTTTCTTTA
*
1679072 TTATTCT
1 TTTTTCT
1679079 ATTTTCTTTA
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
8 4 0.07
9 16 0.28
10 15 0.26
11 23 0.40
ACGTcount: A:0.13, C:0.06, G:0.01, T:0.79
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:1679023 original size:17 final size:17
Alignment explanation
Indices: 1679001--1679070 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
1678991 TTTAATATTC
1679001 TTTTTATCTTTATTTTA
1 TTTTTATCTTTATTTTA
* *
1679018 TTTTTATTTTTGTTTTA
1 TTTTTATCTTTATTTTA
* *
1679035 -CTTT-TCTTTATTTTT
1 TTTTTATCTTTATTTTA
*
1679050 TTATTTTTCTTTATTTT-
1 TT-TTTATCTTTATTTTA
1679067 TTTT
1 TTTT
1679071 ATTATTCTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
15 8 0.19
16 5 0.12
17 20 0.47
18 10 0.23
ACGTcount: A:0.11, C:0.06, G:0.01, T:0.81
Consensus pattern (17 bp):
TTTTTATCTTTATTTTA
Found at i:1679038 original size:27 final size:25
Alignment explanation
Indices: 1679001--1679083 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 25
1678991 TTTAATATTC
1679001 TTTTTATCTTTATTTTATTTTTATTTT
1 TTTTTA-CTTT-TTTTATTTTTATTTT
1679028 TGTTTTACTTTTCTTTATTTTTTTATTTT
1 T-TTTTACTTTT-TTTA--TTTTTATTTT
* *
1679057 TCTTTATTTTTTTTATTATTCTATTTT
1 TTTTTACTTTTTTTATT-TT-TATTTT
1679084 CTTTAAATGA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
25 2 0.04
26 3 0.06
27 19 0.40
28 13 0.27
29 11 0.23
ACGTcount: A:0.13, C:0.06, G:0.01, T:0.80
Consensus pattern (25 bp):
TTTTTACTTTTTTTATTTTTATTTT
Found at i:1679081 original size:17 final size:18
Alignment explanation
Indices: 1679015--1679088 Score: 55
Period size: 19 Copynumber: 4.0 Consensus size: 18
1679005 TATCTTTATT
*
1679015 TTATTTTTATTTTTGTTTTA
1 TTATTCTTA-TTTT-TTTTA
1679035 CTT-TTCTT-TATTTTTTTA
1 -TTATTCTTAT-TTTTTTTA
*
1679053 TTTTTCTTTATTTTTTTTA
1 TTATTC-TTATTTTTTTTA
*
1679072 TTATTC-TATTTTCTTTA
1 TTATTCTTATTTTTTTTA
1679089 AATGAAAATC
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
17 12 0.26
18 9 0.20
19 18 0.39
20 5 0.11
21 2 0.04
ACGTcount: A:0.14, C:0.07, G:0.01, T:0.78
Consensus pattern (18 bp):
TTATTCTTATTTTTTTTA
Found at i:1679450 original size:28 final size:28
Alignment explanation
Indices: 1679359--1679450 Score: 71
Period size: 28 Copynumber: 3.1 Consensus size: 28
1679349 CAAAAAGGGA
*
1679359 TTTTTGAGGAAAAGTTGAAAATATCAAT
1 TTTTTGGGGAAAAGTTGAAAATATCAAT
** * *
1679387 TTTCCTTGGAAATCAAAGTTTCAAAA-A-AAAT
1 TTT--TTGGGGA--AAAG-TTGAAAATATCAAT
1679418 ATTTTTGGGGAAAAGTTGAAAATATCAAT
1 -TTTTTGGGGAAAAGTTGAAAATATCAAT
1679447 TTTT
1 TTTT
1679451 CTTAAAAATA
Statistics
Matches: 47, Mismatches: 9, Indels: 16
0.65 0.12 0.22
Matches are distributed among these distances:
27 6 0.13
28 12 0.26
29 3 0.06
30 9 0.19
31 3 0.06
32 8 0.17
33 6 0.13
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (28 bp):
TTTTTGGGGAAAAGTTGAAAATATCAAT
Found at i:1679468 original size:59 final size:58
Alignment explanation
Indices: 1679100--1679565 Score: 569
Period size: 60 Copynumber: 7.9 Consensus size: 58
1679090 ATGAAAATCA
* * *
1679100 AAATTTTCAAAAAAATATATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAATTTTC--AAAAA-A-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
** * *
1679162 CAAGGTTTCAAAAAAATATATTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTTAAAAAT
1 -AAATTTTC-AAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*
1679223 AAATTTTCAAAAAAAATATTTTTGGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAATTTTC-AAAAAAATATTTTT-GGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* * *
1679283 CAAAATTTTC-GAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 --AAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*** * * **
1679342 AAATTTTCAAAAAGGGATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTGGAAAT
1 AAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* * *
1679400 CAAAGTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTTCTTAAAAAT
1 -AAATTTTC-AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*
1679460 AAATTTTC-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
1 AAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* * *
1679517 AAA-TTTCCAAAGAATACTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1679566 CTACACAAGA
Statistics
Matches: 359, Mismatches: 37, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
56 4 0.01
57 97 0.27
58 41 0.11
59 55 0.15
60 101 0.28
61 41 0.11
62 14 0.04
63 6 0.02
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (58 bp):
AAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
Found at i:1681485 original size:17 final size:17
Alignment explanation
Indices: 1681455--1681510 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
1681445 TTTTCTTTTT
*
1681455 TTTTTTA-ATCTAATAA
1 TTTTTTATATTTAATAA
1681471 TTTTTTATATTTAATAAA
1 TTTTTTATATTTAAT-AA
*
1681489 TATTTT-TATTTAAT--
1 TTTTTTATATTTAATAA
1681503 TTTTTTAT
1 TTTTTTAT
1681511 GTGTGGACCC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 5 0.15
15 1 0.03
16 7 0.21
17 14 0.41
18 7 0.21
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTTATATTTAATAA
Found at i:1682812 original size:19 final size:20
Alignment explanation
Indices: 1682784--1682826 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
1682774 ATTATTTAAC
*
1682784 ATTTATAAAATTAATAAATT
1 ATTTATAAAATCAATAAATT
*
1682804 ATTTA-AAAATCAGTAAATT
1 ATTTATAAAATCAATAAATT
1682823 ATTT
1 ATTT
1682827 TTATGTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
ATTTATAAAATCAATAAATT
Found at i:1683039 original size:17 final size:17
Alignment explanation
Indices: 1682993--1683042 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
1682983 TTAATTAATT
1682993 TTTTTATATAATAATAA
1 TTTTTATATAATAATAA
** *
1683010 AATTTATAAAATAATAA
1 TTTTTATATAATAATAA
1683027 TTTTTAGT-TAATAATA
1 TTTTTA-TATAATAATA
1683043 TAATTATGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 25 0.96
18 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
TTTTTATATAATAATAA
Found at i:1685250 original size:21 final size:21
Alignment explanation
Indices: 1685226--1685266 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1685216 TTTCAAATAA
* *
1685226 ATTTAAAATGTATAATTATTC
1 ATTTAAAATGAATAAATATTC
*
1685247 ATTTGAAATGAATAAATATT
1 ATTTAAAATGAATAAATATT
1685267 AAAAAAGATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (21 bp):
ATTTAAAATGAATAAATATTC
Found at i:1686766 original size:238 final size:235
Alignment explanation
Indices: 1686167--1686767 Score: 706
Period size: 236 Copynumber: 2.6 Consensus size: 235
1686157 TTTTTGTGAC
*
1686167 TTTTTTATTTTATGTAACATTATAATTTTGTCACCAATTT-AAATTTT-TTTGTGATGAA-TTTT
1 TTTTTTATTTTAGGTAACATTATAATTTTGTCACCAATTTAAAATTTTATTTGTGATGAATTTTT
* * * *
1686229 TTGATAGATTTTAGGTGACATTAGTAATGTTTATCACAAATTGAGCAGTTTAATTAACTATTAAT
66 TTGATAGATTTTAGGTGACATTATTAATTTTTATCACAAATTGAACACTTTAATTAACTATTAAT
* * *
1686294 GATATTACAATTTTGTCACATCAATGTATGGTGTTATATGATAAAAACGTAAATGTCACAAACCT
131 GATATTACAATTTCGTCACATCAATATATGGTGTTATATGATAAAAACATAAATGTCACAAACCT
* **
1686359 TTACCGCCAAATTTATTTGATGAAAAATTTTTGGAGATGT
196 TTACAGCCAAATTTATTTGAAAAAAAATTTTTGGAGATGT
* * * * ***
1686399 TTTCTTATTTTAGATGACATTATAATTTTGTTACCAATTTAAAATTTTATTTGTGGCAAATTTTT
1 TTTTTTATTTTAGGTAACATTATAATTTTGTCACCAATTTAAAATTTTATTTGTGATGAATTTTT
* * *
1686464 TTGGATAAATTTTAGGTGACATTATTAATTTTTATTACAAATTGAATACTTTAATTAACTATTAA
66 TT-GATAGATTTTAGGTGACATTATTAATTTTTATCACAAATTGAACACTTTAATTAACTATTAA
** * ** * * *
1686529 TGATATTGTAATTTCGTTATGTTAATATATGGTGTTATATGATGAAAACATAAATGTCACAAACT
130 TGATATTACAATTTCGTCACATCAATATATGGTGTTATATGATAAAAACATAAATGTCACAAACC
* * *
1686594 TTTACAGCTAAGTTTATTTGGTAAAAAAAATTTTT-GTGATGT
195 TTTACAGCCAAATTTATTT-G-AAAAAAAATTTTTGGAGATGT
** * * * * *
1686636 TTTATTTATTTTAGGTAACGCTACAACTTTGTCATCAATTTAAAATTTTATCTATGATGAATTTT
1 TTT-TTTATTTTAGGTAACATTATAATTTTGTCACCAATTTAAAATTTTATTTGTGATGAATTTT
* * ** * * * *
1686701 TTCTAATGGATTTTAGGTGATGTTATTAATTTTTGTCACACATTGAACACTTTAGTTAGCTATTA
65 TT-TGATAGATTTTAGGTGACATTATTAATTTTTATCACAAATTGAACACTTTAATTAACTATTA
1686766 AT
129 AT
1686768 TTTGTCATGT
Statistics
Matches: 304, Mismatches: 57, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
232 35 0.12
233 7 0.02
234 8 0.03
235 6 0.02
236 125 0.41
237 10 0.03
238 112 0.37
239 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.46
Consensus pattern (235 bp):
TTTTTTATTTTAGGTAACATTATAATTTTGTCACCAATTTAAAATTTTATTTGTGATGAATTTTT
TTGATAGATTTTAGGTGACATTATTAATTTTTATCACAAATTGAACACTTTAATTAACTATTAAT
GATATTACAATTTCGTCACATCAATATATGGTGTTATATGATAAAAACATAAATGTCACAAACCT
TTACAGCCAAATTTATTTGAAAAAAAATTTTTGGAGATGT
Found at i:1687225 original size:61 final size:61
Alignment explanation
Indices: 1687154--1687276 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
1687144 TAAGTATCTT
*
1687154 TATAAGTATGAATTTTGATTGGTAAAAATTAAATTTATTTTTATCAATTAAACTAACGTTG
1 TATAAATATGAATTTTGATTGGTAAAAATTAAATTTATTTTTATCAATTAAACTAACGTTG
1687215 TATAAATATGAATTTTGATTGGTAAAAATTAAATTTATTTTTATCAATTAAACTAACGTTG
1 TATAAATATGAATTTTGATTGGTAAAAATTAAATTTATTTTTATCAATTAAACTAACGTTG
1687276 T
1 T
1687277 GGATAAAACA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.45
Consensus pattern (61 bp):
TATAAATATGAATTTTGATTGGTAAAAATTAAATTTATTTTTATCAATTAAACTAACGTTG
Found at i:1690442 original size:205 final size:201
Alignment explanation
Indices: 1690053--1690628 Score: 545
Period size: 205 Copynumber: 2.8 Consensus size: 201
1690043 TTAATGATGC
* * * * * * * * * *
1690053 TAATTGTGTCACCAATGCTATAATAATTTACCTTTCACCACTAATATATCAGATTTTAGCATTTA
1 TAATTATGTCACAAATACTATAAAAATTTATCATTCATCACTAATATATCAAATTTTATCATTCA
* * * * *** * **
1690118 TTTTGTGACGATTATAGCTTTTAATAACGTTTATTTT-CATATATCGTTGACGAAATCTAATGTC
66 TTTTGTGACGATTATAGCCTTTAATGA--TTTTTTTTCCATAAATAACTAACGAAATCTAACATC
* * *** *
1690182 ACAAAAAAAAG-TATAAGATGATGCTTGATTTTATTGTCACATTTGACGTTATCTTACAATCATT
129 ACAAAAAAAAGCCATAAGGTGACATTTGATTTTATTGTCACATTTGACATTATCTTACAATCATT
*
1690246 TGT-GACA
194 AGTGGACA
* * *
1690253 TTAATTATGTCACAAATACTGTAAAAATTTA-CCTTCTATCACTAATATAT-AGGATTTTATCAT
1 -TAATTATGTCACAAATACTATAAAAATTTATCATTC-ATCACTAATATATCA-AATTTTATCAT
* * * * *
1690316 TCATTTTGTGATGATTATTG-CTTTCAATGGCCTTTTTTTTTTCATAAATAACTAATGAAAAT-T
63 TCATTTTGTGACGATTATAGCCTTT-AAT-G--ATTTTTTTTCCATAAATAACTAACG-AAATCT
*
1690379 AACATCACAAAAAAAAAGCCATAAGGTGACATTTGATTTTATTGTCATATTTGACATTATCTTAC
123 AACATCAC-AAAAAAAAGCCATAAGGTGACATTTGATTTTATTGTCACATTTGACATTATCTTAC
**
1690444 AATCATTAGTGGTGA
187 AATCATTAGTGGACA
* * ** * *
1690459 TAATTATGTCACCAATACTATGATGATTTATCATTCATTACTAATATATCAAATTTTATCATTTA
1 TAATTATGTCACAAATACTATAAAAATTTATCATTCATCACTAATATATCAAATTTTATCATTCA
* ** * **
1690524 TTTTGTGACGATTATAGCCTTTAGTGATTTTTTTTCCATAAATAGTTGACGAAATCTAATGTCAC
66 TTTTGTGACGATTATAGCCTTTAATGATTTTTTTTCCATAAATAACTAACGAAATCTAACATCAC
*
1690589 AAAAAAAAGGCATAAGGTGACATTTGATTTTATTGTCACA
131 AAAAAAAAGCCATAAGGTGACATTTGATTTTATTGTCACA
1690629 GTAGATTCAC
Statistics
Matches: 305, Mismatches: 55, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
200 8 0.03
201 109 0.36
202 33 0.11
203 16 0.05
204 14 0.05
205 114 0.37
206 11 0.04
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (201 bp):
TAATTATGTCACAAATACTATAAAAATTTATCATTCATCACTAATATATCAAATTTTATCATTCA
TTTTGTGACGATTATAGCCTTTAATGATTTTTTTTCCATAAATAACTAACGAAATCTAACATCAC
AAAAAAAAGCCATAAGGTGACATTTGATTTTATTGTCACATTTGACATTATCTTACAATCATTAG
TGGACA
Found at i:1691520 original size:12 final size:12
Alignment explanation
Indices: 1691500--1691589 Score: 55
Period size: 12 Copynumber: 7.4 Consensus size: 12
1691490 CTTTTGTATT
*
1691500 TTATGTATTGTA
1 TTATTTATTGTA
*
1691512 TTATTTATTATTA
1 TTATTTATT-GTA
1691525 TTA-TTA-TGTA
1 TTATTTATTGTA
*
1691535 TTA-ATATATGTA
1 TTATTTAT-TGTA
1691547 TATATTTATT-TA
1 T-TATTTATTGTA
1691559 TTTATTTATTTGTTA
1 -TTATTTA-TTG-TA
*
1691574 ATATTTA-TGTA
1 TTATTTATTGTA
1691585 TTATT
1 TTATT
1691590 ACTAATATGT
Statistics
Matches: 62, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
10 7 0.11
11 7 0.11
12 26 0.42
13 11 0.18
14 9 0.15
15 2 0.03
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (12 bp):
TTATTTATTGTA
Found at i:1691529 original size:16 final size:19
Alignment explanation
Indices: 1691508--1691589 Score: 61
Period size: 16 Copynumber: 4.5 Consensus size: 19
1691498 TTTTATGTAT
1691508 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
1691525 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
1691543 TGTATATATTTATT--TAT-
1 TGTAT-TATTTATTAATATA
*
1691560 T-TATTTATTTGTTAATATTTA
1 TGTA-TTATTTATTAATA--TA
1691581 TGTATTATT
1 TGTATTATT
1691590 ACTAATATGT
Statistics
Matches: 51, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
16 19 0.37
17 5 0.10
18 8 0.16
19 3 0.06
20 8 0.16
21 6 0.12
22 2 0.04
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.63
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Done.