Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 25 of 325
Found at i:7572965 original size:24 final size:26
Alignment explanation
Indices: 7572946--7572995 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
7572936 AAATAATATT
7572946 AAAAAA-TAAAAAATATATAAACTTG
1 AAAAAATTAAAAAATATATAAACTTG
* *
7572971 AAAAAATTATAAAATATAAAAACTT
1 AAAAAATTAAAAAATATATAAACTT
7572996 ATCAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (26 bp):
AAAAAATTAAAAAATATATAAACTTG
Found at i:7572991 original size:17 final size:17
Alignment explanation
Indices: 7572915--7572997 Score: 57
Period size: 17 Copynumber: 4.8 Consensus size: 17
7572905 TAATATTTTT
7572915 TATAAAAATATTA-AAAA
1 TATAAAAA-ATTATAAAA
7572932 -ATCAAAATAA-TATTAAAA
1 TAT-AAAA-AATTA-TAAAA
* *
7572950 AATAAAAAATATATAAAC
1 TATAAAAAAT-TATAAAA
7572968 T-TGAAAAAATTATAAAA
1 TAT-AAAAAATTATAAAA
*
7572985 TATAAAAACTTAT
1 TATAAAAAATTAT
7572998 CAATATTATT
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
16 4 0.08
17 24 0.45
18 21 0.40
19 4 0.08
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (17 bp):
TATAAAAAATTATAAAA
Found at i:7573103 original size:27 final size:26
Alignment explanation
Indices: 7573045--7573141 Score: 113
Period size: 27 Copynumber: 3.5 Consensus size: 26
7573035 AAAGTATTTT
7573045 TAAAATATTTAAAATTTTATTAAAACGTA
1 TAAAATA-TTAAAATTTTA-TAAAAC-TA
** *
7573074 TAAAATATTAAAAAATTATAAAAACCA
1 TAAAATATTAAAATTTTAT-AAAACTA
*
7573101 TAAAATATTAAAATTTTATAAAAGTA
1 TAAAATATTAAAATTTTATAAAACTA
7573127 TAAAAATATTAAAAT
1 T-AAAATATTAAAAT
7573142 CATAAAAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.10
27 32 0.54
28 14 0.24
29 7 0.12
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (26 bp):
TAAAATATTAAAATTTTATAAAACTA
Found at i:7573186 original size:8 final size:8
Alignment explanation
Indices: 7573117--7573189 Score: 51
Period size: 8 Copynumber: 8.8 Consensus size: 8
7573107 ATTAAAATTT
*
7573117 TATAAAAG
1 TATAAAAA
7573125 TATAAAAA
1 TATAAAAA
*
7573133 TATTAAAA
1 TATAAAAA
7573141 TCATAAAAA
1 T-ATAAAAA
**
7573150 -ATAATTA
1 TATAAAAA
7573157 T-TAAAAA
1 TATAAAAA
7573164 TATTAAAATTGA
1 TA-TAAAA---A
7573176 TATAAAAA
1 TATAAAAA
7573184 TATAAA
1 TATAAA
7573190 TAAAAAAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
7 10 0.20
8 22 0.43
9 11 0.22
11 5 0.10
12 3 0.06
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (8 bp):
TATAAAAA
Found at i:7573363 original size:34 final size:34
Alignment explanation
Indices: 7573278--7573471 Score: 158
Period size: 34 Copynumber: 5.5 Consensus size: 34
7573268 AATTCACATA
* * *
7573278 CTATATAACATGGGTGTTCGCGTATTATGTCATT
1 CTATATAACATGGGGGTTCGCATACTATGTCATT
** * * *
7573312 GAATAGAACATGAGGGTTTGCATACTATGTCATT
1 CTATATAACATGGGGGTTCGCATACTATGTCATT
* *
7573346 CTATATAACGTGGGGGTTCGCATTCTATGTCATAT
1 CTATATAACATGGGGGTTCGCATACTATGTCAT-T
* *
7573381 -TATATAACA-CGGGGTTCACACATACTATGTCATT
1 CTATATAACATGGGGGTT--CGCATACTATGTCATT
* *
7573415 CTATATAACATGAGGGTTGGGTTCGCATACTATATCATA
1 CTATATAACAT---GG--GGGTTCGCATACTATGTCATT
* *
7573454 CTACATAACATGAGGGTT
1 CTATATAACATGGGGGTT
7573472 TGCCTAACAG
Statistics
Matches: 125, Mismatches: 25, Indels: 20
0.74 0.15 0.12
Matches are distributed among these distances:
33 6 0.05
34 66 0.53
35 23 0.18
36 1 0.01
39 24 0.19
41 5 0.04
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (34 bp):
CTATATAACATGGGGGTTCGCATACTATGTCATT
Found at i:7574074 original size:22 final size:22
Alignment explanation
Indices: 7574049--7574092 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7574039 TAGTCAGATA
7574049 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
7574071 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
7574093 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:7574137 original size:16 final size:16
Alignment explanation
Indices: 7574115--7574151 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
7574105 CAATTTTATT
7574115 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
7574132 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
7574147 TAATA
1 TAATA
7574152 TTATTCACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:7575549 original size:16 final size:16
Alignment explanation
Indices: 7575528--7575568 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
7575518 TATTATTTTC
7575528 AATATATAAAATATAA
1 AATATATAAAATATAA
* *
7575544 AATATA-GAATTATAA
1 AATATATAAAATATAA
7575559 AA-ATATAAAA
1 AATATATAAAA
7575569 ATACATACAA
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
14 3 0.15
15 11 0.55
16 6 0.30
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (16 bp):
AATATATAAAATATAA
Found at i:7575643 original size:10 final size:10
Alignment explanation
Indices: 7575628--7575678 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
7575618 TATATAAATT
7575628 AAAAAAGTTA
1 AAAAAAGTTA
*
7575638 AAAAAAATT-
1 AAAAAAGTTA
7575647 -AAAAAGTT-
1 AAAAAAGTTA
*
7575655 ATAAAAGTTA
1 AAAAAAGTTA
*
7575665 AAAAAAATTA
1 AAAAAAGTTA
7575675 AAAA
1 AAAA
7575679 CTTATAAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
8 7 0.21
9 7 0.21
10 20 0.59
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.22
Consensus pattern (10 bp):
AAAAAAGTTA
Found at i:7575668 original size:18 final size:19
Alignment explanation
Indices: 7575623--7575669 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
7575613 TATAATATAT
7575623 AAATTAAAAAAGTTAAAAA
1 AAATTAAAAAAGTTAAAAA
*
7575642 AAATT-AAAAAGTT-ATAA
1 AAATTAAAAAAGTTAAAAA
*
7575659 AAGTTAAAAAA
1 AAATTAAAAAA
7575670 AATTAAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 13 0.52
19 5 0.20
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.23
Consensus pattern (19 bp):
AAATTAAAAAAGTTAAAAA
Found at i:7575699 original size:27 final size:27
Alignment explanation
Indices: 7575630--7575689 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
7575620 TATAAATTAA
*
7575630 AAAAGTTAAAAAAAATTAAAAAGTTAT
1 AAAAGTTAAAAAAAATTAAAAACTTAT
7575657 AAAAGTTAAAAAAAATTAAAAACTTAT
1 AAAAGTTAAAAAAAATTAAAAACTTAT
7575684 AAAAGT
1 AAAAGT
7575690 ATATACAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.25
Consensus pattern (27 bp):
AAAAGTTAAAAAAAATTAAAAACTTAT
Found at i:7579336 original size:24 final size:24
Alignment explanation
Indices: 7579309--7579365 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
7579299 TATAAAAACT
* *
7579309 TTTTATATTTTTTATTAATTTATA
1 TTTTATATTTTTAATTAATATATA
* *
7579333 TTTTTTATTTTTAATTTATATATA
1 TTTTATATTTTTAATTAATATATA
7579357 TTTTA-ATTT
1 TTTTATATTT
7579366 CAAAATAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTATATTTTTAATTAATATATA
Found at i:7582241 original size:18 final size:18
Alignment explanation
Indices: 7582218--7582252 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
7582208 TTAATATAAA
7582218 TTAAATGAATTTAGATTT
1 TTAAATGAATTTAGATTT
7582236 TTAAATGAATTTAGATT
1 TTAAATGAATTTAGATT
7582253 GCTAACTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (18 bp):
TTAAATGAATTTAGATTT
Found at i:7588288 original size:37 final size:37
Alignment explanation
Indices: 7588238--7588315 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
7588228 TTGGTACTTA
*
7588238 AATAATTTTTTGCAATAATTTGTTACTTAAAATTTTC
1 AATAATTTTTTGCAATAATTTGGTACTTAAAATTTTC
*
7588275 AATAATTTTTTGCAATAGTTTGGTACTTAAAATTTTC
1 AATAATTTTTTGCAATAATTTGGTACTTAAAATTTTC
7588312 AATA
1 AATA
7588316 GTATATCACT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (37 bp):
AATAATTTTTTGCAATAATTTGGTACTTAAAATTTTC
Found at i:7590057 original size:2 final size:2
Alignment explanation
Indices: 7590052--7590081 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7590042 AAATTTGAGA
7590052 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7590082 TTCAAACCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7590234 original size:19 final size:19
Alignment explanation
Indices: 7590210--7590254 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
7590200 AATTTAACAT
*
7590210 TTTTATATAATATTTAGAG
1 TTTTATATAATATTTAAAG
* *
7590229 TTTTATATAATTTTTAAAT
1 TTTTATATAATATTTAAAG
7590248 TTTTATA
1 TTTTATA
7590255 GATATTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTTATATAATATTTAAAG
Found at i:7590267 original size:20 final size:19
Alignment explanation
Indices: 7590190--7590270 Score: 60
Period size: 19 Copynumber: 4.3 Consensus size: 19
7590180 GGAAAAAAAT
*
7590190 AATTTTT-TATAA-TTTAA
1 AATTTTTATAGAATTTTAA
* *
7590207 CATTTTTATATAATATTT-A
1 AATTTTTATAGAAT-TTTAA
* * * *
7590226 GAGTTTTATATAATTTTTA
1 AATTTTTATAGAATTTTAA
7590245 AATTTTTATAGATATTTTAA
1 AATTTTTATAGA-ATTTTAA
7590265 AATTTT
1 AATTTT
7590271 GAAGATTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
17 6 0.12
18 8 0.15
19 23 0.44
20 15 0.29
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (19 bp):
AATTTTTATAGAATTTTAA
Found at i:7590276 original size:19 final size:20
Alignment explanation
Indices: 7590238--7590276 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
7590228 GTTTTATATA
* *
7590238 ATTTTTAAATTTTTATAGAT
1 ATTTTAAAATTTTGATAGAT
7590258 ATTTTAAAATTTTGA-AGAT
1 ATTTTAAAATTTTGATAGAT
7590277 TAAATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (20 bp):
ATTTTAAAATTTTGATAGAT
Found at i:7593337 original size:24 final size:23
Alignment explanation
Indices: 7593310--7593365 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
7593300 AAAACGAATA
7593310 AATAATAAAAATCCTCAA-GTAAAT
1 AATAATAAAAA--CTCAAGGTAAAT
* *
7593334 AATATATATAAACTTAAGGTAAAT
1 AATA-ATAAAAACTCAAGGTAAAT
7593358 AATAATAA
1 AATAATAA
7593366 TACGATTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
23 7 0.26
24 14 0.52
25 6 0.22
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (23 bp):
AATAATAAAAACTCAAGGTAAAT
Found at i:7593937 original size:26 final size:25
Alignment explanation
Indices: 7593908--7593957 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
7593898 GAATTAATCA
7593908 TAAACCTTCAAATAC-TAGTTAACTCC
1 TAAACCTT-AAA-ACATAGTTAACTCC
*
7593934 TAAACCTTAAACCATAGTTAACTC
1 TAAACCTTAAAACATAGTTAACTC
7593958 ATAATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 13 0.59
26 8 0.36
ACGTcount: A:0.40, C:0.26, G:0.04, T:0.30
Consensus pattern (25 bp):
TAAACCTTAAAACATAGTTAACTCC
Found at i:7593992 original size:14 final size:14
Alignment explanation
Indices: 7593975--7594014 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7593965 ATTAAACATG
* *
7593975 CTTAAACCATATAT
1 CTTAAACCATAAAC
7593989 CTTAAACCATAAAC
1 CTTAAACCATAAAC
*
7594003 CTTAAACTATAA
1 CTTAAACCATAA
7594015 TGATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (14 bp):
CTTAAACCATAAAC
Found at i:7594230 original size:41 final size:41
Alignment explanation
Indices: 7594171--7594554 Score: 565
Period size: 41 Copynumber: 9.4 Consensus size: 41
7594161 GGTTATGAGA
* *
7594171 TTTTTAGCGGCGTTTTACGAAAAGTGCCGCTGATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
*
7594212 TGTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* * * * *
7594253 TTTTTTGAGGTGTTTTAGGAAAAGCGCCGCTAATGCTTTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
*
7594294 TTTTTAGCGGCGTTTTA-GGAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* * *
7594334 TTTTTTGCGGCGTTTTACGAGAAGCGTCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
7594375 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* *
7594416 TTTTTTGCGGCGTTTTACGAAAAGCGCCACTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
** *
7594457 TTTTTAGTTGCGTTTTACGAAAAGCGCCGCTAATGCTCTAGT
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCT-GG
* *
7594499 TTTTTTGCGGCGTTTTAGGAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
*
7594540 -TTTTAGCAGCGTTTT
1 TTTTTAGCGGCGTTTT
7594555 TTCTAGAACG
Statistics
Matches: 306, Mismatches: 35, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
40 50 0.16
41 220 0.72
42 36 0.12
ACGTcount: A:0.18, C:0.19, G:0.27, T:0.35
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
Found at i:7594451 original size:163 final size:165
Alignment explanation
Indices: 7594171--7594554 Score: 594
Period size: 163 Copynumber: 2.3 Consensus size: 165
7594161 GGTTATGAGA
* * * *
7594171 TTTTTAGCGGCGTTTTACGAAAAGTGCCGCTGATGCTCTGGTGTTTAGCGGCGTTTTACGAAAAG
1 TTTTTTGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACGAAAAG
* * * *
7594236 CGCCGCTAATGCTCTGGTTTTTTGAGGTGTTTTAGGAAAAGCGCCGCTAATGCTTTGGTTTTTAG
66 CGCCGCTAATGCTCTGGTTTTTTGAGGCGTTTTACGAAAAGCGCCACTAATGCTCTGGTTTTTAG
*
7594301 CGGCGTTTTA-GGAAAGCGCCGCTAATGCTCT-GG
131 CGGCGTTTTACGAAAAGCGCCGCTAATGCTCTAGG
* *
7594334 TTTTTTGCGGCGTTTTACGAGAAGCGTCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACGAAAAG
1 TTTTTTGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACGAAAAG
*
7594399 CGCCGCTAATGCTCTGGTTTTTTGCGGCGTTTTACGAAAAGCGCCACTAATGCTCTGGTTTTTAG
66 CGCCGCTAATGCTCTGGTTTTTTGAGGCGTTTTACGAAAAGCGCCACTAATGCTCTGGTTTTTAG
** *
7594464 TTGCGTTTTACGAAAAGCGCCGCTAATGCTCTAGT
131 CGGCGTTTTACGAAAAGCGCCGCTAATGCTCTAGG
* *
7594499 TTTTTTGCGGCGTTTTAGGAAAAGCGCCGCTAATGCTCTGG-TTTTAGCAGCGTTTT
1 TTTTTTGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTT
7594555 TTCTAGAACG
Statistics
Matches: 200, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
163 127 0.63
164 34 0.17
165 39 0.19
ACGTcount: A:0.18, C:0.19, G:0.27, T:0.35
Consensus pattern (165 bp):
TTTTTTGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACGAAAAG
CGCCGCTAATGCTCTGGTTTTTTGAGGCGTTTTACGAAAAGCGCCACTAATGCTCTGGTTTTTAG
CGGCGTTTTACGAAAAGCGCCGCTAATGCTCTAGG
Found at i:7600110 original size:21 final size:20
Alignment explanation
Indices: 7600084--7600168 Score: 70
Period size: 21 Copynumber: 4.3 Consensus size: 20
7600074 TAACTAAATT
7600084 CATTTTAATAATTATATTTTA
1 CATTTTAATAATTAT-TTTTA
* **
7600105 CATTTT-CT-ATT-TTGATA
1 CATTTTAATAATTATTTTTA
*
7600122 -TTTTTAATAATTATTTTTCA
1 CATTTTAATAATTATTTTT-A
*
7600142 AATTTTAATAATTATATTTTA
1 CATTTTAATAATTAT-TTTTA
7600163 CATTTT
1 CATTTT
7600169 CTATTTTGAT
Statistics
Matches: 49, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
16 4 0.08
17 4 0.08
18 4 0.08
19 6 0.12
20 2 0.04
21 25 0.51
22 4 0.08
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (20 bp):
CATTTTAATAATTATTTTTA
Found at i:7600152 original size:58 final size:58
Alignment explanation
Indices: 7600085--7600203 Score: 238
Period size: 58 Copynumber: 2.1 Consensus size: 58
7600075 AACTAAATTC
7600085 ATTTTAATAATTATATTTTACATTTTCTATTTTGATATTTTTAATAATTATTTTTCAA
1 ATTTTAATAATTATATTTTACATTTTCTATTTTGATATTTTTAATAATTATTTTTCAA
7600143 ATTTTAATAATTATATTTTACATTTTCTATTTTGATATTTTTAATAATTATTTTTCAA
1 ATTTTAATAATTATATTTTACATTTTCTATTTTGATATTTTTAATAATTATTTTTCAA
7600201 ATT
1 ATT
7600204 AAAAATTTTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (58 bp):
ATTTTAATAATTATATTTTACATTTTCTATTTTGATATTTTTAATAATTATTTTTCAA
Found at i:7604980 original size:3 final size:3
Alignment explanation
Indices: 7604972--7605017 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
7604962 AAACTTTGAG
7604972 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7605018 ATGGACGTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:7606323 original size:18 final size:19
Alignment explanation
Indices: 7606284--7606324 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7606274 TATAATTTGG
* *
7606284 TAAATTAAAAATTTATGAC
1 TAAAATAAAAATTGATGAC
7606303 TAAAATAAAAATTGATG-C
1 TAAAATAAAAATTGATGAC
7606321 TAAA
1 TAAA
7606325 TTAAGTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (19 bp):
TAAAATAAAAATTGATGAC
Found at i:7610881 original size:17 final size:17
Alignment explanation
Indices: 7610859--7610893 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
7610849 TAAATAATTT
7610859 AATATAATTATAAATAA
1 AATATAATTATAAATAA
*
7610876 AATATAATTTTAAATAA
1 AATATAATTATAAATAA
7610893 A
1 A
7610894 TGTAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AATATAATTATAAATAA
Found at i:7614154 original size:63 final size:61
Alignment explanation
Indices: 7613965--7614147 Score: 298
Period size: 64 Copynumber: 3.0 Consensus size: 61
7613955 CCAAACTAGT
7613965 TTTTCCATTTCAGAACAAAAAATCC-AACAACAGACATAAAACTGACAAAAAAGAAATGAA
1 TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAAGAAATGAA
*
7614025 TTTTCCATTTTCAGAACAAAAAATCCAAACAACACAAACATAAAACTGACAAAAAAGAAATGAA
1 TTTTCCA-TTTCAGAACAAAAAATCCAAAC-A-ACAGACATAAAACTGACAAAAAAGAAATGAA
7614089 TTTTCTCATTTCAGAACAAAAATATCCAAACAACAGACATAAAACTGAC-AAAAAGAAAT
1 TTTTC-CATTTCAGAACAAAAA-ATCCAAACAACAGACATAAAACTGACAAAAAAGAAAT
7614148 CAAATTTGGA
Statistics
Matches: 115, Mismatches: 2, Indels: 10
0.91 0.02 0.08
Matches are distributed among these distances:
60 7 0.06
61 18 0.16
62 13 0.11
63 17 0.15
64 50 0.43
65 10 0.09
ACGTcount: A:0.55, C:0.19, G:0.07, T:0.20
Consensus pattern (61 bp):
TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAAGAAATGAA
Found at i:7616513 original size:26 final size:25
Alignment explanation
Indices: 7616484--7616532 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
7616474 AATTAATCAC
7616484 AAACCTTCAAATAC-TAGTTAACTCCT
1 AAACCTT-AAA-ACATAGTTAACTCCT
*
7616510 AAACCTTAAACCATAGTTAACTC
1 AAACCTTAAAACATAGTTAACTC
7616533 ATAATTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 13 0.62
26 7 0.33
ACGTcount: A:0.41, C:0.27, G:0.04, T:0.29
Consensus pattern (25 bp):
AAACCTTAAAACATAGTTAACTCCT
Found at i:7616567 original size:14 final size:14
Alignment explanation
Indices: 7616550--7616589 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7616540 ATTAAACATG
* *
7616550 CTTAAACCATATAT
1 CTTAAACCATAAAC
7616564 CTTAAACCATAAAC
1 CTTAAACCATAAAC
*
7616578 CTTAAACTATAA
1 CTTAAACCATAA
7616590 TGATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (14 bp):
CTTAAACCATAAAC
Found at i:7616804 original size:41 final size:41
Alignment explanation
Indices: 7616745--7617127 Score: 572
Period size: 41 Copynumber: 9.4 Consensus size: 41
7616735 GGTTATGAGA
* *
7616745 TTTTTAGCGGCGTTTTACGAAAAGTGCCGCTGATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
*
7616786 TGTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* * * * *
7616827 TTTTTTGAGGTGTTTTAGGAAAAGCGCCGCTAATGCTTTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
*
7616868 TTTTTAGCGGCGTTTTA-GGAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* * *
7616908 TTTTTTGCGGCGTTTTACGAGAAGCGTCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
7616949 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* *
7616990 TTTTTTGCGGCGTTTTACGAAAAGCGCCACTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
** *
7617031 TTTTTAGTTGCGTTTTACGAAAAGCGCCGCTAATGCTCTAG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* *
7617072 TTTTTTGCGGCGTTTTAGGAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
*
7617113 -TTTTAGCAGCGTTTT
1 TTTTTAGCGGCGTTTT
7617128 TTCTAGAACG
Statistics
Matches: 306, Mismatches: 35, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
40 50 0.16
41 256 0.84
ACGTcount: A:0.18, C:0.19, G:0.27, T:0.35
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
Found at i:7617025 original size:163 final size:164
Alignment explanation
Indices: 7616745--7617127 Score: 599
Period size: 163 Copynumber: 2.3 Consensus size: 164
7616735 GGTTATGAGA
* * * *
7616745 TTTTTAGCGGCGTTTTACGAAAAGTGCCGCTGATGCTCTGGTGTTTAGCGGCGTTTTACGAAAAG
1 TTTTTTGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACGAAAAG
* * * *
7616810 CGCCGCTAATGCTCTGGTTTTTTGAGGTGTTTTAGGAAAAGCGCCGCTAATGCTTTGGTTTTTAG
66 CGCCGCTAATGCTCTGGTTTTTTGAGGCGTTTTACGAAAAGCGCCACTAATGCTCTGGTTTTTAG
* *
7616875 CGGCGTTTTA-GGAAAGCGCCGCTAATGCTCTGG
131 CGGCGTTTTACGAAAAGCGCCGCTAATGCTCTAG
* *
7616908 TTTTTTGCGGCGTTTTACGAGAAGCGTCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACGAAAAG
1 TTTTTTGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACGAAAAG
*
7616973 CGCCGCTAATGCTCTGGTTTTTTGCGGCGTTTTACGAAAAGCGCCACTAATGCTCTGGTTTTTAG
66 CGCCGCTAATGCTCTGGTTTTTTGAGGCGTTTTACGAAAAGCGCCACTAATGCTCTGGTTTTTAG
**
7617038 TTGCGTTTTACGAAAAGCGCCGCTAATGCTCTAG
131 CGGCGTTTTACGAAAAGCGCCGCTAATGCTCTAG
* *
7617072 TTTTTTGCGGCGTTTTAGGAAAAGCGCCGCTAATGCTCTGG-TTTTAGCAGCGTTTT
1 TTTTTTGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTT
7617128 TTCTAGAACG
Statistics
Matches: 200, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
163 141 0.70
164 59 0.29
ACGTcount: A:0.18, C:0.19, G:0.27, T:0.35
Consensus pattern (164 bp):
TTTTTTGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACGAAAAG
CGCCGCTAATGCTCTGGTTTTTTGAGGCGTTTTACGAAAAGCGCCACTAATGCTCTGGTTTTTAG
CGGCGTTTTACGAAAAGCGCCGCTAATGCTCTAG
Found at i:7622670 original size:21 final size:21
Alignment explanation
Indices: 7622644--7622727 Score: 72
Period size: 21 Copynumber: 4.3 Consensus size: 21
7622634 TAACTAAATT
7622644 CATTTTAATAATTATATTTTA
1 CATTTTAATAATTATATTTTA
* *
7622665 CA-TTT--T--CTAT-TTTGA
1 CATTTTAATAATTATATTTTA
* * *
7622680 TATTTTAATAATTATTTTTCA
1 CATTTTAATAATTATATTTTA
*
7622701 AATTTTAATAATTATATTTTA
1 CATTTTAATAATTATATTTTA
7622722 CATTTT
1 CATTTT
7622728 CTATTTTGAT
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
15 5 0.10
16 6 0.12
18 2 0.04
20 6 0.12
21 29 0.60
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (21 bp):
CATTTTAATAATTATATTTTA
Found at i:7622706 original size:57 final size:58
Alignment explanation
Indices: 7622645--7622762 Score: 229
Period size: 57 Copynumber: 2.1 Consensus size: 58
7622635 AACTAAATTC
7622645 ATTTTAATAATTATATTTTACATTTTCTATTTTGATA-TTTTAATAATTATTTTTCAA
1 ATTTTAATAATTATATTTTACATTTTCTATTTTGATATTTTTAATAATTATTTTTCAA
7622702 ATTTTAATAATTATATTTTACATTTTCTATTTTGATATTTTTAATAATTATTTTTCAA
1 ATTTTAATAATTATATTTTACATTTTCTATTTTGATATTTTTAATAATTATTTTTCAA
7622760 ATT
1 ATT
7622763 AAAAATTTTA
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 37 0.62
58 23 0.38
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (58 bp):
ATTTTAATAATTATATTTTACATTTTCTATTTTGATATTTTTAATAATTATTTTTCAA
Found at i:7627533 original size:3 final size:3
Alignment explanation
Indices: 7627525--7627570 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
7627515 AAACTTTGAG
7627525 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7627571 ATGGACGTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:7628877 original size:18 final size:19
Alignment explanation
Indices: 7628838--7628878 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7628828 TATAATTTGG
* *
7628838 TAAATTAAAAATTTATGAC
1 TAAAATAAAAATTGATGAC
7628857 TAAAATAAAAATTGATG-C
1 TAAAATAAAAATTGATGAC
7628875 TAAA
1 TAAA
7628879 TTAAGTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (19 bp):
TAAAATAAAAATTGATGAC
Found at i:7633439 original size:17 final size:18
Alignment explanation
Indices: 7633417--7633452 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7633407 TAAATAATTT
7633417 AATATAA-TTATAAATAA
1 AATATAATTTATAAATAA
*
7633434 AATATAATTTTTAAATAA
1 AATATAATTTATAAATAA
7633452 A
1 A
7633453 TGTAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AATATAATTTATAAATAA
Found at i:7638528 original size:41 final size:41
Alignment explanation
Indices: 7638396--7638802 Score: 568
Period size: 41 Copynumber: 10.0 Consensus size: 41
7638386 TTTTAAAATT
* * * * *
7638396 CAGAGCAATAGCGGCG-TTCTAGAAAAACGCTGCT-AAAAC
1 CAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAAAAC
* *
7638435 CAGAGCATTAGCGGCGCTTTTCCTAAAACGCCGCAAAAAAAC
1 CAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGC-TAAAAAC
* **
7638477 TAGAGCATTAGCGGCGCTTTTCGTAAAACGCAACTAAAAAC
1 CAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAAAAC
* *
7638518 CAGAGCATTAGTGGCGCTTTTCGTAAAACGCCGCAAAAAAC
1 CAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAAAAC
7638559 CAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAAAAC
* * *
7638600 CAGAGCATTAGCGACGCTTCTCGTAAAACGCCGCAAAAAAC
1 CAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAAAAC
*
7638641 CAGAGCATTAGCGGCGC-TTTCCTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAAAAC
* * * * *
7638681 CAAAGCATTAGCGGCGCTTTTCCTAAAACACCTCAAAAAAC
1 CAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAAAAC
*
7638722 CAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAACAC
1 CAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAAAAC
* *
7638763 CAGAGCATCAGCGGCACTTTTCGTAAAACGCCGCTAAAAA
1 CAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAAAA
7638803 TCTCATAACC
Statistics
Matches: 325, Mismatches: 39, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
39 15 0.05
40 48 0.15
41 227 0.70
42 35 0.11
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAAAAC
Found at i:7638690 original size:163 final size:164
Alignment explanation
Indices: 7638396--7638802 Score: 595
Period size: 163 Copynumber: 2.5 Consensus size: 164
7638386 TTTTAAAATT
* * * * * *
7638396 CAGAGCAATAGCGGCG-TTCTAGAAAAACGCTGCT-AAAACCAGAGCATTAGCGGCGCTTTTCCT
1 CAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
* * *
7638459 AAAACGCCGCAAAAAAACTAGAGCATTAGCGGCGCTTTTCGTAAAACGCAACTAAAAACCAGAGC
66 AAAACGCCGC-AAAAAACCAGAGCATTAGCGGCGCTTTTCCTAAAACGCAACTAAAAACCAAAGC
* * *
7638524 ATTAGTGGCGCTTTTCGTAAAACGCCGCAAAAAAC
130 ATTAGCGGCGCTTTTCCTAAAACACCGCAAAAAAC
* *
7638559 CAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAAAACCAGAGCATTAGCGACGCTTCTCGT
1 CAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
**
7638624 AAAACGCCGCAAAAAACCAGAGCATTAGCGGCGC-TTTCCTAAAACGCCGCTAAAAACCAAAGCA
66 AAAACGCCGCAAAAAACCAGAGCATTAGCGGCGCTTTTCCTAAAACGCAACTAAAAACCAAAGCA
*
7638688 TTAGCGGCGCTTTTCCTAAAACACCTCAAAAAAC
131 TTAGCGGCGCTTTTCCTAAAACACCGCAAAAAAC
* * *
7638722 CAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAACACCAGAGCATCAGCGGCACTTTTCGT
1 CAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
*
7638787 AAAACGCCGCTAAAAA
66 AAAACGCCGCAAAAAA
7638803 TCTCATAACC
Statistics
Matches: 219, Mismatches: 23, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
163 146 0.67
164 37 0.17
165 36 0.16
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (164 bp):
CAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
AAAACGCCGCAAAAAACCAGAGCATTAGCGGCGCTTTTCCTAAAACGCAACTAAAAACCAAAGCA
TTAGCGGCGCTTTTCCTAAAACACCGCAAAAAAC
Found at i:7638980 original size:14 final size:14
Alignment explanation
Indices: 7638958--7638997 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7638948 TTAATTATCA
* *
7638958 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
7638972 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
7638986 ATATGGTTTAAG
1 TTATGGTTTAAG
7638998 CATGTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:7639428 original size:2 final size:2
Alignment explanation
Indices: 7639423--7639454 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7639413 AAATTTGAGA
7639423 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7639455 TTCAAACCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7639636 original size:20 final size:19
Alignment explanation
Indices: 7639563--7639644 Score: 66
Period size: 19 Copynumber: 4.3 Consensus size: 19
7639553 GGAAAAAAAT
7639563 AATTTTTTAT-A-A-TTTA
1 AATTTTTTATAATATTTTA
7639579 ACATTTTTATATAATA-TTTA
1 A-ATTTTT-TATAATATTTTA
* *
7639599 GAGTTTTATATAAT-TTTTA
1 -AATTTTTTATAATATTTTA
7639618 AATTTTTTATAGATATTTTAA
1 AATTTTTTATA-ATATTTT-A
7639639 AATTTT
1 AATTTT
7639645 GAAGATTAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
16 1 0.02
17 6 0.11
18 12 0.23
19 13 0.25
20 13 0.25
21 8 0.15
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.59
Consensus pattern (19 bp):
AATTTTTTATAATATTTTA
Found at i:7639641 original size:21 final size:20
Alignment explanation
Indices: 7639602--7639644 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
7639592 ATATTTAGAG
* *
7639602 TTTTATATAATTTTTAAATT
1 TTTTATAGAATTTTAAAATT
7639622 TTTTATAGATATTTTAAAATT
1 TTTTATAGA-ATTTTAAAATT
7639643 TT
1 TT
7639645 GAAGATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATAGAATTTTAAAATT
Found at i:7639650 original size:19 final size:20
Alignment explanation
Indices: 7639613--7639650 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7639603 TTTATATAAT
* *
7639613 TTTTAAATTTTTTATAGATA
1 TTTTAAAATTTTGATAGATA
7639633 TTTTAAAATTTTGA-AGAT
1 TTTTAAAATTTTGATAGAT
7639651 TAAATTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (20 bp):
TTTTAAAATTTTGATAGATA
Found at i:7642712 original size:24 final size:23
Alignment explanation
Indices: 7642685--7642740 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
7642675 AAAACGAATA
7642685 AATAATAAAAATCCTCAA-GTAAAT
1 AATAATAAAAA--CTCAAGGTAAAT
* *
7642709 AATATATATAAACTTAAGGTAAAT
1 AATA-ATAAAAACTCAAGGTAAAT
7642733 AATAATAA
1 AATAATAA
7642741 TACGATTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
23 7 0.26
24 14 0.52
25 6 0.22
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (23 bp):
AATAATAAAAACTCAAGGTAAAT
Found at i:7643104 original size:17 final size:17
Alignment explanation
Indices: 7643083--7643116 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
7643073 AAAATAGTTT
7643083 AAAAAGTAAAATAAAAAC
1 AAAAAG-AAAATAAAAAC
7643101 AAAAAGAAAATAAAAA
1 AAAAAGAAAATAAAAA
7643117 ATAAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.82, C:0.03, G:0.06, T:0.09
Consensus pattern (17 bp):
AAAAAGAAAATAAAAAC
Found at i:7644111 original size:13 final size:13
Alignment explanation
Indices: 7644084--7644126 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
7644074 TCTCTGGTTG
*
7644084 TTTCTTCTTTGTTT
1 TTTCTGCTTT-TTT
7644098 TTT-TGCTTTTTT
1 TTTCTGCTTTTTT
7644110 TTTCTGCTTCTTTT
1 TTTCTGCTT-TTTT
7644124 TTT
1 TTT
7644127 GTTTTTTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 6 0.23
13 10 0.38
14 10 0.38
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (13 bp):
TTTCTGCTTTTTT
Found at i:7644123 original size:22 final size:19
Alignment explanation
Indices: 7644098--7644149 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 19
7644088 TTCTTTGTTT
7644098 TTTTGCTTTTTTTTTCTGCTTC
1 TTTTG-TTTTTTTTTC--CTTC
7644120 TTTT-TTTGTTTTTTCCTTC
1 TTTTGTTT-TTTTTTCCTTC
7644139 -TTTGTTTTTTT
1 TTTTGTTTTTTT
7644150 GTATTTTGCG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 7 0.25
19 7 0.25
20 3 0.11
21 7 0.25
22 4 0.14
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (19 bp):
TTTTGTTTTTTTTTCCTTC
Found at i:7644131 original size:19 final size:18
Alignment explanation
Indices: 7644104--7644149 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
7644094 GTTTTTTTGC
*
7644104 TTTTTTTTTCTGCTTCTT
1 TTTTTTTTTCTCCTTCTT
*
7644122 TTTTTGTTTTTTCCTTCTT
1 TTTTT-TTTTCTCCTTCTT
7644141 TGTTTTTTT
1 T-TTTTTTT
7644150 GTATTTTGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.21
19 15 0.62
20 4 0.17
ACGTcount: A:0.00, C:0.13, G:0.07, T:0.80
Consensus pattern (18 bp):
TTTTTTTTTCTCCTTCTT
Found at i:7644146 original size:23 final size:22
Alignment explanation
Indices: 7644084--7644156 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 22
7644074 TCTCTGGTTG
7644084 TTTCTTCTTTGTTTTTTTGCTTT
1 TTTCTTCTTTGTTTTTTTG-TTT
* *
7644107 TTTTTTCTGCTTCTTTTTTTGTTT
1 TTTCTTCT--TTGTTTTTTTGTTT
*
7644131 TTTCCTTCTTTGTTTTTTTGTAT
1 TTT-CTTCTTTGTTTTTTTGTTT
7644154 TTT
1 TTT
7644157 GCGTGTCTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
23 22 0.52
24 6 0.14
25 14 0.33
ACGTcount: A:0.01, C:0.12, G:0.08, T:0.78
Consensus pattern (22 bp):
TTTCTTCTTTGTTTTTTTGTTT
Found at i:7644428 original size:11 final size:11
Alignment explanation
Indices: 7644412--7644450 Score: 51
Period size: 11 Copynumber: 3.3 Consensus size: 11
7644402 TATTTTGGAT
7644412 TTTATTTTTGG
1 TTTATTTTTGG
7644423 TTTATTAGTTTGGG
1 TTTATT--TTT-GG
7644437 TTTATTTTTGG
1 TTTATTTTTGG
7644448 TTT
1 TTT
7644451 GTTGGTCTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.44
12 3 0.12
13 3 0.12
14 8 0.32
ACGTcount: A:0.10, C:0.00, G:0.21, T:0.69
Consensus pattern (11 bp):
TTTATTTTTGG
Found at i:7645410 original size:26 final size:25
Alignment explanation
Indices: 7645385--7645435 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
7645375 GTTTACATTA
7645385 ATTT-ATTAATCAAGTTGTTAAAATT
1 ATTTAATTAATCAAGTT-TTAAAATT
*
7645410 ATTTAAATTATTCAAGTTTTAAAATT
1 ATTT-AATTAATCAAGTTTTAAAATT
7645436 CAACTCGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 4 0.17
26 8 0.35
27 11 0.48
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (25 bp):
ATTTAATTAATCAAGTTTTAAAATT
Found at i:7653596 original size:21 final size:19
Alignment explanation
Indices: 7653540--7653600 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
7653530 TAATTATTTA
7653540 TTAAATT-TAATTAGAATAT
1 TTAAATTATAATTA-AATAT
* *
7653559 ATAAATTATATTTAAATAT
1 TTAAATTATAATTAAATAT
7653578 TTAAATATAATAATTAAATAT
1 TTAAAT-T-ATAATTAAATAT
7653599 TT
1 TT
7653601 GTAATTAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 6 0.17
21 13 0.37
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTAAATTATAATTAAATAT
Found at i:7657898 original size:42 final size:42
Alignment explanation
Indices: 7657850--7657934 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
7657840 TAAAATAAAG
* * *
7657850 ATTTTGTTGCGTTATCGCAACTCTTTTCTTAAATAAATCTTA
1 ATTTTGTTGCATTATAGCAACTCTTTCCTTAAATAAATCTTA
*** *
7657892 ATTTTGTTGCATTATAGCTGTTCTTTCCTTGAATAAATCTTA
1 ATTTTGTTGCATTATAGCAACTCTTTCCTTAAATAAATCTTA
7657934 A
1 A
7657935 GCTCTTTATT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (42 bp):
ATTTTGTTGCATTATAGCAACTCTTTCCTTAAATAAATCTTA
Found at i:7660081 original size:11 final size:11
Alignment explanation
Indices: 7660067--7660118 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
7660057 TGTTTTCTCC
7660067 CTATTTTACTA
1 CTATTTTACTA
7660078 CTATTTTACTA
1 CTATTTTACTA
* *
7660089 TTATGTTACTA
1 CTATTTTACTA
* * *
7660100 TTGTGTTACTA
1 CTATTTTACTA
7660111 CTATTTTA
1 CTATTTTA
7660119 TTGTTATTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.25, C:0.13, G:0.06, T:0.56
Consensus pattern (11 bp):
CTATTTTACTA
Found at i:7660337 original size:12 final size:12
Alignment explanation
Indices: 7660307--7660339 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
7660297 ATATATTTTT
7660307 AAAATT-ATATA
1 AAAATTAATATA
7660318 AAAA-TAATATA
1 AAAATTAATATA
7660329 AAAATTAATAT
1 AAAATTAATAT
7660340 GGATGGGTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:7660511 original size:13 final size:13
Alignment explanation
Indices: 7660493--7660521 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
7660483 ACACCTCTAG
7660493 TTGTGGATCATCT
1 TTGTGGATCATCT
7660506 TTGTGGATCATCT
1 TTGTGGATCATCT
7660519 TTG
1 TTG
7660522 GGCAATATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.24, T:0.48
Consensus pattern (13 bp):
TTGTGGATCATCT
Found at i:7660670 original size:16 final size:16
Alignment explanation
Indices: 7660649--7660716 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
7660639 TTTGGTTCGC
7660649 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
7660665 TGTATTGGATTAGAGT
1 TGTATTGGATTAGAGG
7660681 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
7660697 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
7660713 TGTA
1 TGTA
7660717 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.25, C:0.00, G:0.35, T:0.40
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:7661100 original size:14 final size:15
Alignment explanation
Indices: 7661051--7661102 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
7661041 ATAAAATATA
7661051 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
7661066 TATTAAATATATTAT
1 AATTAAATATATTAT
7661081 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
7661094 AATTTAATA
1 AATTAAATA
7661103 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:7661104 original size:59 final size:58
Alignment explanation
Indices: 7660935--7661231 Score: 164
Period size: 59 Copynumber: 5.0 Consensus size: 58
7660925 ATCATATTTA
* * *
7660935 AACATAATTATTATTAGATATATTATAATTAAAATATA-GAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATG-ATTTAATAAAA-TATAAAT
* * * * *
7660994 AATCA-ATATTCTTATATGAATTTACTCA-AA-TAATAATATATGATACT-ATAAAATATAAATT
1 AA-CATA-ATTATTAT-TAAATATA-TTATAATTAA-AATATATGAT-TTAATAAAATATAAA-T
* * *
7661055 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TATAAAT
* * * * * * * *
7661114 AA-TTAA-TATTCTTATATGA-ATTTACTCAAATCATAATATATGATACT-ATAAAAGATAATTT
1 AACATAATTATTATTAAAT-ATA-TTA-T--AATTAAAATATATGAT-TTAATAAAATATAA-AT
* * *
7661175 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTAAA
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAA
7661232 ATAATTATAA
Statistics
Matches: 176, Mismatches: 38, Indels: 49
0.67 0.14 0.19
Matches are distributed among these distances:
57 10 0.06
58 11 0.06
59 53 0.30
60 34 0.19
61 46 0.26
62 13 0.07
63 9 0.05
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.42
Consensus pattern (58 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAAT
Found at i:7661150 original size:120 final size:121
Alignment explanation
Indices: 7660935--7661227 Score: 491
Period size: 120 Copynumber: 2.4 Consensus size: 121
7660925 ATCATATTTA
* *
7660935 AACATAATTATTATTAGATATATTATAATTAAAATATAGAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
7661000 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGATAAATTG
*
7661055 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* *
7661120 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGATAAATTG
* * *
7661176 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
7661228 TAAAATAATT
Statistics
Matches: 163, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
120 161 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGATAAATTG
Found at i:7662105 original size:16 final size:16
Alignment explanation
Indices: 7662084--7662115 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7662074 AGTAAACCGA
7662084 GACCTTAATAGCAGTT
1 GACCTTAATAGCAGTT
7662100 GACCTTAATAGCAGTT
1 GACCTTAATAGCAGTT
7662116 AAAAATTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (16 bp):
GACCTTAATAGCAGTT
Found at i:7664068 original size:15 final size:15
Alignment explanation
Indices: 7664048--7664077 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7664038 GGAGGGTAAA
7664048 ACAGAGAGCAAATCG
1 ACAGAGAGCAAATCG
7664063 ACAGAGAGCAAATCG
1 ACAGAGAGCAAATCG
7664078 GCCGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.27, T:0.07
Consensus pattern (15 bp):
ACAGAGAGCAAATCG
Found at i:7666684 original size:125 final size:127
Alignment explanation
Indices: 7666555--7666839 Score: 315
Period size: 129 Copynumber: 2.2 Consensus size: 127
7666545 CCCAAACGGT
* * ** * *
7666555 AAATCGAAACCCAGCACGATTGGGCACGATTTATCAAAT-TTCAAAATACGAAACATTGCCTCAT
1 AAATCGAAACCCAGCACGATAGGGCACGATTT-CCAAATCCCCAAAACACAAAACATTGCCTCAT
* * * * *
7666619 TTTAA-TTT-GAGAAAACATGGATGAAATTTCAAAAGGATATTCTGTATTTTAGTAGAATGAA
65 TTTAATTTTAAAAAAAACATGGATGAAATTTCAAAAGGATATTCCGCATTTTAGTAGAACGAA
* * * ** * * * *
7666680 AAATCGAAGCCAAGCACGATGGGGCACGACCTCCCAATCCCCCAAACACAAAATATTGCCTCGTT
1 AAATCGAAACCCAGCACGATAGGGCACGATTTCCAAATCCCCAAAACACAAAACATTGCCTCATT
*
7666745 TTAATTTTTAAAAAAAAACATGGATGAAATTTCAAAAGGATATTCCGCATTTTAGTTGAACGAA
66 TTAA-TTTT-AAAAAAAACATGGATGAAATTTCAAAAGGATATTCCGCATTTTAGTAGAACGAA
* *
7666809 AAACCGAAATCCAGCACGATAGGGCACGATT
1 AAATCGAAACCCAGCACGATAGGGCACGATT
7666840 CCTCGAACTC
Statistics
Matches: 128, Mismatches: 27, Indels: 6
0.80 0.17 0.04
Matches are distributed among these distances:
124 4 0.03
125 50 0.39
127 3 0.02
129 71 0.55
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.25
Consensus pattern (127 bp):
AAATCGAAACCCAGCACGATAGGGCACGATTTCCAAATCCCCAAAACACAAAACATTGCCTCATT
TTAATTTTAAAAAAAACATGGATGAAATTTCAAAAGGATATTCCGCATTTTAGTAGAACGAA
Found at i:7667013 original size:21 final size:22
Alignment explanation
Indices: 7666966--7667019 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
7666956 CATTCAAGAT
**
7666966 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAAC-AATTA
*
7666989 AAAATAATATATAAAA-AATTC
1 AAAATAATATATAAAACAATTA
7667010 AAAAT-ATATA
1 AAAATAATATA
7667020 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
23 16 0.57
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATAATATATAAAACAATTA
Found at i:7667057 original size:27 final size:25
Alignment explanation
Indices: 7666992--7667057 Score: 60
Period size: 27 Copynumber: 2.6 Consensus size: 25
7666982 CTCTTTAAAA
*
7666992 ATAATATATAAAAAATTCAAAATAT
1 ATAATATATAAAAAATTCAAAATAC
* * **
7667017 ATAATGTGTAAAAAAAGTTTGAAATAC
1 ATAATATAT-AAAAAA-TTCAAAATAC
*
7667044 ATAATATATGAAAA
1 ATAATATATAAAAA
7667058 TATTAAAGTA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
25 7 0.23
26 10 0.32
27 14 0.45
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (25 bp):
ATAATATATAAAAAATTCAAAATAC
Found at i:7667129 original size:24 final size:26
Alignment explanation
Indices: 7667100--7667153 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
7667090 TGAGCGTTGT
* *
7667100 ATAAAAAGT-TAAAATAGAT-AAT-A
1 ATAAAAAATGTAAAATAAATAAATAA
7667123 ATAAAAAATGTAAAATAAATAAATAA
1 ATAAAAAATGTAAAATAAATAAATAA
7667149 ATAAA
1 ATAAA
7667154 TAGAATGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 8 0.31
24 9 0.35
25 3 0.12
26 6 0.23
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (26 bp):
ATAAAAAATGTAAAATAAATAAATAA
Found at i:7667241 original size:18 final size:17
Alignment explanation
Indices: 7667218--7667343 Score: 68
Period size: 18 Copynumber: 7.4 Consensus size: 17
7667208 TAATATTAGT
7667218 ATATAAATAGAAATAAAA
1 ATATAAATA-AAATAAAA
*
7667236 ATAT-AAT-AAATAGAA
1 ATATAAATAAAATAAAA
* *
7667251 ATAT-AATAATAGTAGAA
1 ATATAAATAA-AATAAAA
7667268 ATATAAATAGATAA-ATAAA
1 ATATAAATA-A-AATA-AAA
* *
7667287 AT-TAGAT-AAATAATA
1 ATATAAATAAAATAAAA
* *
7667302 ATAGT-ATTAGAATAAAA
1 ATA-TAAATAAAATAAAA
*
7667319 AAATAAATATAAATAAAA
1 ATATAAATA-AAATAAAA
7667337 ATATAAA
1 ATATAAA
7667344 AATAATAGCA
Statistics
Matches: 83, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
15 20 0.24
16 5 0.06
17 25 0.30
18 26 0.31
19 7 0.08
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (17 bp):
ATATAAATAAAATAAAA
Found at i:7667252 original size:15 final size:15
Alignment explanation
Indices: 7667228--7667273 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
7667218 ATATAAATAG
*
7667228 AAATAAAAATATAAT
1 AAATAGAAATATAAT
7667243 AAATAGAAATATAAT
1 AAATAGAAATATAAT
7667258 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
7667274 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:7667283 original size:14 final size:13
Alignment explanation
Indices: 7667243--7667333 Score: 60
Period size: 14 Copynumber: 6.4 Consensus size: 13
7667233 AAAATATAAT
7667243 AAATAGA-AATATA
1 AAATAGATAA-ATA
*
7667256 ATAATAGTAGAAATA
1 A-AATAG-ATAAATA
7667271 TAAATAGATAAATA
1 -AAATAGATAAATA
7667285 AAATTAGATAAATA
1 AAA-TAGATAAATA
7667299 ATAATAGTATTAGAATA
1 A-AATAG-A-TA-AATA
*
7667316 AAA-AAATAAATA
1 AAATAGATAAATA
7667328 TAAATA
1 -AAATA
7667334 AAAATATAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 21
0.74 0.02 0.24
Matches are distributed among these distances:
12 4 0.06
13 9 0.14
14 27 0.42
15 13 0.20
16 7 0.11
17 5 0.08
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (13 bp):
AAATAGATAAATA
Found at i:7667302 original size:29 final size:30
Alignment explanation
Indices: 7667238--7667359 Score: 76
Period size: 29 Copynumber: 4.2 Consensus size: 30
7667228 AAATAAAAAT
7667238 ATAATAAATAGAAATATAATAATAGTAGAA
1 ATAATAAATAGAAATATAATAATAGTAGAA
*
7667268 AT-ATAAATAGATAA-ATAA-AATTAG-ATAA
1 ATAATAAATAGA-AATATAATAA-TAGTAGAA
* * * * ** *
7667296 ATAAT-AATAGTATTAGAATAAAAAAATAA
1 ATAATAAATAGAAATATAATAATAGTAGAA
* * * *
7667325 AT-ATAAATAAAAATATAAAAATAATAGCA
1 ATAATAAATAGAAATATAATAATAGTAGAA
7667354 ATAATA
1 ATAATA
7667360 TATTAAATTA
Statistics
Matches: 69, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
27 1 0.01
28 18 0.26
29 43 0.62
30 7 0.10
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.27
Consensus pattern (30 bp):
ATAATAAATAGAAATATAATAATAGTAGAA
Found at i:7667346 original size:14 final size:15
Alignment explanation
Indices: 7667228--7667350 Score: 50
Period size: 14 Copynumber: 8.5 Consensus size: 15
7667218 ATATAAATAG
7667228 AAATAA-AAATATAA
1 AAATAATAAATATAA
*
7667242 TAAAT-AGAAATATAA
1 -AAATAATAAATATAA
* * *
7667257 TAATAGTAGAA-ATAT
1 AAATAATA-AATATAA
7667272 AAATAGAT-AA-ATAA
1 AAATA-ATAAATATAA
*
7667286 AATTAGATAAATAATAA
1 AAATA-ATAAAT-ATAA
* * * *
7667303 TAGTATTAGA-ATAA
1 AAATAATAAATATAA
7667317 AAA-AATAAATAT--
1 AAATAATAAATATAA
7667329 AAATAA-AAATATAA
1 AAATAATAAATATAA
7667343 AAATAATA
1 AAATAATA
7667351 GCAATAATAT
Statistics
Matches: 80, Mismatches: 16, Indels: 24
0.67 0.13 0.20
Matches are distributed among these distances:
12 9 0.11
13 6 0.08
14 29 0.36
15 23 0.29
16 6 0.08
17 7 0.09
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (15 bp):
AAATAATAAATATAA
Found at i:7668622 original size:178 final size:177
Alignment explanation
Indices: 7668323--7668945 Score: 899
Period size: 178 Copynumber: 3.5 Consensus size: 177
7668313 GTTAAGGCTC
* * *
7668323 GTATCTTCAACTTACTCTCCTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATA
1 GTATCTTCAA-TTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCATA
* *
7668388 GCAGATACACGGAGATAAGACTCGCCATTTCTGATCTACTCCATAGCCGATACATGGAGATAAGA
65 GCCGATACATGGAGATAAGACTCGCCATTTCTGATCTACTCCATAGCCGATACATGGAGATAAGA
*
7668453 TCTATAATTTGTAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTT
130 TCTATAATTTGTAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTT
* *
7668501 GTATCTTCAATATGCTATCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATA
1 GTATCTTCAAT-TGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCATA
* * * *
7668566 GCCGATACATGGAGATAGGACTCGCCATTTCTGATCTGCTCTATAGCCGATACATGGATATAAGA
65 GCCGATACATGGAGATAAGACTCGCCATTTCTGATCTACTCCATAGCCGATACATGGAGATAAGA
* *
7668631 TCTATAATTTGCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTT
130 TCTATAATTTGTAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTT
* * *
7668679 GTATCTTCAATTTGCTCTCTTGCTACCTCAGAAAGATAAGGCTGATGGTTAAAATCTACTCCATA
1 GTATCTTCAA-TTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCATA
* * * * * *
7668744 GCCGATACATGGAGATAAGACTCACCATCTTC-AACCTACTCCATAGTCGATATATAGAGATAAG
65 GCCGATACATGGAGATAAGACTCGCCAT-TTCTGATCTACTCCATAGCCGATACATGGAGATAAG
* *
7668808 ATCTGTAATTT-TCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTT
129 ATCTATAATTTGT-AGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTT
* * * *
7668857 GTATCTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTCGTGGGTAAAATTTACTTCATA
1 GTATCTTCAA-TTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCATA
* *
7668922 GCCGATATATGAAGATAAGACTCG
65 GCCGATACATGGAGATAAGACTCG
7668946 TATCTTCAAC
Statistics
Matches: 400, Mismatches: 41, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
177 1 0.00
178 395 0.99
179 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (177 bp):
GTATCTTCAATTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCATAG
CCGATACATGGAGATAAGACTCGCCATTTCTGATCTACTCCATAGCCGATACATGGAGATAAGAT
CTATAATTTGTAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTT
Found at i:7668761 original size:88 final size:88
Alignment explanation
Indices: 7668666--7669019 Score: 283
Period size: 88 Copynumber: 4.0 Consensus size: 88
7668656 GCTACCTCAG
* *
7668666 GAAGATAAGACTTGTATCTTCAATTTGCTCTCTTGCTACCTCAGAAAGATAAGGCTGATGGTTAA
1 GAAGATAAGACTTGTATCTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGTTAA
7668731 AATCTACTCCATAGCCGATACAT
66 AATCTACTCCATAGCCGATACAT
* *** * * * * ** * *
7668754 GGAGATAAGACTCACCATCTTCAACCTACTC-CATAGTCGATAT-ATAGAGATAAGATCTGTAAT
1 GAAGATAAGACT-TGTATCTTCAACTTGCTCTC-TTG-CTACCTCAGAGAGATAAG-GCTG--AT
** * * * * *
7668817 --TTTCAGTCTGCTTCC-TTGCTAC-CT-CAA
60 GGTTAAAATCTAC-TCCATAGC--CGATACAT
*
7668844 GAAGATAAGACTTGTATCTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTCG-TGGGTA
1 GAAGATAAGACTTGTATCTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCT-GATGGTTA
* * *
7668908 AAATTTACTTCATAGCCGATATAT
65 AAATCTACTCCATAGCCGATACAT
* * * * *
7668932 GAAGATAAGACTCGTATCTTCAACTTGCTTTCTTGCTATCTCAGAGAGATAAGGCTGGTGGCTAA
1 GAAGATAAGACTTGTATCTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGTTAA
*
7668997 AATCTGCTCCATAGCCGATACAT
66 AATCTACTCCATAGCCGATACAT
7669020 AGATATAAGA
Statistics
Matches: 196, Mismatches: 52, Indels: 36
0.69 0.18 0.13
Matches are distributed among these distances:
86 2 0.01
87 4 0.02
88 104 0.53
89 49 0.25
90 30 0.15
91 4 0.02
92 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (88 bp):
GAAGATAAGACTTGTATCTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGTTAA
AATCTACTCCATAGCCGATACAT
Found at i:7668982 original size:44 final size:44
Alignment explanation
Indices: 7668825--7668984 Score: 112
Period size: 44 Copynumber: 3.6 Consensus size: 44
7668815 ATTTTCAGTC
* *
7668825 TGCTTCCTTGCTACCTCA-AGAAGATAAGACTTGTATCTTCAACT
1 TGCTTTCTTGCTACCTCAGAG-AGATAAGACTCGTATCTTCAACT
* * *** ** *
7668869 TGCTCTCTTGCTACCTCAGAGAGATAAGGCTCGTGGGTAAAATT
1 TGCTTTCTTGCTACCTCAGAGAGATAAGACTCGTATCTTCAACT
* * * **
7668913 TAC-TTCATAGCCGATAT-ATGA-AGATAAGACTCGTATCTTCAACT
1 TGCTTTC-TTG-CTACCTCA-GAGAGATAAGACTCGTATCTTCAACT
*
7668957 TGCTTTCTTGCTATCTCAGAGAGATAAG
1 TGCTTTCTTGCTACCTCAGAGAGATAAG
7668985 GCTGGTGGCT
Statistics
Matches: 82, Mismatches: 27, Indels: 14
0.67 0.22 0.11
Matches are distributed among these distances:
43 8 0.10
44 64 0.78
45 10 0.12
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (44 bp):
TGCTTTCTTGCTACCTCAGAGAGATAAGACTCGTATCTTCAACT
Found at i:7669121 original size:177 final size:176
Alignment explanation
Indices: 7668932--7669438 Score: 633
Period size: 177 Copynumber: 2.9 Consensus size: 176
7668922 GCCGATATAT
* * * *
7668932 GAAGATAAGACTCGTATCTTCAACTTGCTTTCTTGCTATCTCAGAGAGATAAGGCTGGTGGCTAA
1 GAAGATAAGACTCGTATCTTCAACCTGCTCTCTTGCTATCTCAGAGAGATAAGGCCGGTGGCTTA
* * *
7668997 AATCTGCTCCATAGCCGATACATAGATATAAGACTCGCCATTTCTGATCTGCTCCATAGCC-ATA
66 AATCTGCTCCATAGCCGATACAT-GAGATAAGACTCGCCATTTTTTATCTGCTCCATAGCCGATA
* * * * *
7669061 CATGGAGATAAGATCTATAATTTGCAGTCTGCTT-CCTTGCTACCTTAG
130 CATAGAGATAAGATCTGTAATTTGCAGCCTG-TTACCCTACT-CCTTAG
* * * *
7669109 GAAGACAAGACTCGTATCTTCAACCTGCTCTCCTACTA-CTTCAGAGAGATAAGACCGGTGGCTT
1 GAAGATAAGACTCGTATCTTCAACCTGCTCTCTTGCTATC-TCAGAGAGATAAGGCCGGTGGCTT
* * * *
7669173 AAATCTACTCCATAGTCGATACATGAAGATAAGACTCGTCATTTTTTATTTGCTCCATAGCCGAT
65 AAATCTGCTCCATAGCCGATACATG-AGATAAGACTCGCCATTTTTTATCTGCTCCATAGCCGAT
* ** *
7669238 ACATAGAGATAAAATCTGTAATTTTTAGCCTGTTACCCTACTGCTTAG
129 ACATAGAGATAAGATCTGTAATTTGCAGCCTGTTACCCTACTCCTTAG
** * * * * *
7669286 GGGGTTAAGGCGCGTATCTTCAACCTACTCTCTTGTTATCTCAGAGAGATAAGGCCGGTGGCTTA
1 GAAGATAAGACTCGTATCTTCAACCTGCTCTCTTGCTATCTCAGAGAGATAAGGCCGGTGGCTTA
* * *
7669351 AATCTGCTCCATAACCGATACATGGAGATAAGACTTGCCATTTTTTATCTGCTTCATAGCCGATA
66 AATCTGCTCCATAGCCGATACAT-GAGATAAGACTCGCCATTTTTTATCTGCTCCATAGCCGATA
7669416 CATAGAGATAAGATCTGTAATTT
130 CATAGAGATAAGATCTGTAATTT
7669439 TCATCGATGT
Statistics
Matches: 281, Mismatches: 43, Indels: 12
0.84 0.13 0.04
Matches are distributed among these distances:
176 2 0.01
177 244 0.87
178 35 0.12
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (176 bp):
GAAGATAAGACTCGTATCTTCAACCTGCTCTCTTGCTATCTCAGAGAGATAAGGCCGGTGGCTTA
AATCTGCTCCATAGCCGATACATGAGATAAGACTCGCCATTTTTTATCTGCTCCATAGCCGATAC
ATAGAGATAAGATCTGTAATTTGCAGCCTGTTACCCTACTCCTTAG
Found at i:7669209 original size:265 final size:266
Alignment explanation
Indices: 7668666--7669211 Score: 747
Period size: 265 Copynumber: 2.1 Consensus size: 266
7668656 GCTACCTCAG
* * *
7668666 GAAGATAAGACTTGTATCTTCAATTTGCTCTCTTGCTACCTCAGAAAGATAAGGCTGATGGTTAA
1 GAAGATAAGACTCGTATCTTCAACTTGCTCTCTTGCTACCTCAGAAAGATAAGGCTGATGGCTAA
* *
7668731 AATCTACTCCATAGCCGATACATGGAGATAAGACTCACCATCTTCAACCTACTCCATAGTCGATA
66 AATCTACTCCATAGCCGATACATAGAGATAAGACTCACCATCTTCAACCTACTCCATAGTCCATA
* * * * *
7668796 TATAGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTTGTAT
131 CATAGAGATAAGATCTATAATTTGCAGTCTGCTTCCTTGCTACCTCAAGAAGACAAGACTCGTAT
* * * * * * *
7668861 CTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTCGTGGGTAAAATTTACTTCATAGCCG
196 CTTCAACCTGCTCTCCTACTACCTCAGAGAGATAAGACTCGTGGCTAAAATCTACTCCATAGCCG
*
7668926 ATATAT
261 ATACAT
* * * *
7668932 GAAGATAAGACTCGTATCTTCAACTTGCTTTCTTGCTATCTCAGAGAGATAAGGCTGGTGGCTAA
1 GAAGATAAGACTCGTATCTTCAACTTGCTCTCTTGCTACCTCAGAAAGATAAGGCTGATGGCTAA
* * * * * *
7668997 AATCTGCTCCATAGCCGATACATAGATATAAGACTCGCCAT-TTCTGATCTGCTCCATAG-CCAT
66 AATCTACTCCATAGCCGATACATAGAGATAAGACTCACCATCTTC-AACCTACTCCATAGTCCAT
* * *
7669060 ACATGGAGATAAGATCTATAATTTGCAGTCTGCTTCCTTGCTACCTTAGGAAGACAAGACTCGTA
130 ACATAGAGATAAGATCTATAATTTGCAGTCTGCTTCCTTGCTACCTCAAGAAGACAAGACTCGTA
* * *
7669125 TCTTCAACCTGCTCTCCTACTACTTCAGAGAGATAAGAC-CGGTGGCTTAAATCTACTCCATAGT
195 TCTTCAACCTGCTCTCCTACTACCTCAGAGAGATAAGACTC-GTGGCTAAAATCTACTCCATAGC
7669189 CGATACAT
259 CGATACAT
7669197 GAAGATAAGACTCGT
1 GAAGATAAGACTCGT
7669212 CATTTTTTAT
Statistics
Matches: 244, Mismatches: 34, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
264 1 0.00
265 137 0.56
266 106 0.43
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (266 bp):
GAAGATAAGACTCGTATCTTCAACTTGCTCTCTTGCTACCTCAGAAAGATAAGGCTGATGGCTAA
AATCTACTCCATAGCCGATACATAGAGATAAGACTCACCATCTTCAACCTACTCCATAGTCCATA
CATAGAGATAAGATCTATAATTTGCAGTCTGCTTCCTTGCTACCTCAAGAAGACAAGACTCGTAT
CTTCAACCTGCTCTCCTACTACCTCAGAGAGATAAGACTCGTGGCTAAAATCTACTCCATAGCCG
ATACAT
Found at i:7675485 original size:125 final size:126
Alignment explanation
Indices: 7675350--7675638 Score: 319
Period size: 127 Copynumber: 2.3 Consensus size: 126
7675340 ATTCGGCCCA
* * * * * *** * *
7675350 AACGATAAATCGAAACCTAGCACGATTGGGTACGATTTATCGAATTTCCAAATACGAAACATTGC
1 AACGAAAAATCGAAACCCAGCACGATTGGGCACGATTTACCAAACCCCCAAACACAAAACATTGC
* * * * * *
7675415 CTCATTTTAATTT-GAGAAAACATGGATGAAATTTTAAAAGGATATTCTGTATTTTAGTCG
66 CTCACTTTAATTTAAAAAAAACATGGATGAAATTTCAAAAGGATATTCCGCATTTTAGTCG
* * * ** * *
7675475 AATGGAAAATCGAAGCCCAGCACGATTGGGCACGACCTCCCAAACCCCCAAACACAAAATATTGC
1 AACGAAAAATCGAAACCCAGCACGATTGGGCACGATTTACCAAACCCCCAAACACAAAACATTGC
** *
7675540 CTTGCTTTAATTTAAAAAAAAACATGGATGAAATTTCAAAAGGATATTCCGCATTTTAGTTG
66 CTCACTTTAATTT-AAAAAAAACATGGATGAAATTTCAAAAGGATATTCCGCATTTTAGTCG
*
7675602 AACGAAAAATCGAAACCCAGCACGATAGGGCACGATT
1 AACGAAAAATCGAAACCCAGCACGATTGGGCACGATT
7675639 CCTCGAACTC
Statistics
Matches: 130, Mismatches: 32, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
125 58 0.45
127 72 0.55
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (126 bp):
AACGAAAAATCGAAACCCAGCACGATTGGGCACGATTTACCAAACCCCCAAACACAAAACATTGC
CTCACTTTAATTTAAAAAAAACATGGATGAAATTTCAAAAGGATATTCCGCATTTTAGTCG
Found at i:7675611 original size:127 final size:127
Alignment explanation
Indices: 7675431--7675669 Score: 345
Period size: 127 Copynumber: 1.9 Consensus size: 127
7675421 TTAATTTGAG
* * * * * *
7675431 AAAACATGGATGAAATTTTAAAAGGATATTCTGTATTTTAGTCGAATGGAAAATCGAAGCCCAGC
1 AAAACATGGATGAAATTTCAAAAGGATATTCCGCATTTTAGTCGAACGAAAAATCGAAACCCAGC
*
7675496 ACGATTGGGCACGACCTCC-CAAACCCCCAAACACAAAATATTGCCTTGCTTTAATTTAAAAA
66 ACGATAGGGCACGA-CTCCTCAAACCCCCAAACACAAAATATTGCCTTGCTTTAATTTAAAAA
*
7675558 AAAACATGGATGAAATTTCAAAAGGATATTCCGCATTTTAGTTGAACGAAAAATCGAAACCCAGC
1 AAAACATGGATGAAATTTCAAAAGGATATTCCGCATTTTAGTCGAACGAAAAATCGAAACCCAGC
* * * * *
7675623 ACGATAGGGCACGATTCCTCGAACTCCCAAACACGAAATATTTCCTT
66 ACGATAGGGCACGACTCCTCAAACCCCCAAACACAAAATATTGCCTT
7675670 ATGTTGAGAG
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
126 3 0.03
127 95 0.97
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.24
Consensus pattern (127 bp):
AAAACATGGATGAAATTTCAAAAGGATATTCCGCATTTTAGTCGAACGAAAAATCGAAACCCAGC
ACGATAGGGCACGACTCCTCAAACCCCCAAACACAAAATATTGCCTTGCTTTAATTTAAAAA
Found at i:7675811 original size:21 final size:23
Alignment explanation
Indices: 7675764--7675817 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
7675754 CATTCAAGAT
**
7675764 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
7675787 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
7675808 AAAAT-ATATA
1 AAAATAATATA
7675818 ATGTGCAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:7676059 original size:23 final size:23
Alignment explanation
Indices: 7675993--7676059 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
7675983 TATAAGAAAA
*
7675993 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
7676013 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
7676036 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
7676059 A
1 A
7676060 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:7676066 original size:17 final size:15
Alignment explanation
Indices: 7676026--7676071 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
7676016 ATATAAATAG
*
7676026 AAATAAAAATATAAT
1 AAATAGAAATATAAT
7676041 AAATAGAAATATAAT
1 AAATAGAAATATAAT
7676056 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
7676072 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:7676081 original size:14 final size:14
Alignment explanation
Indices: 7676064--7676097 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
7676054 ATAATAGTAG
7676064 AAATATAAA-TAGAT
1 AAATA-AAATTAGAT
7676078 AAATAAAATTAGAT
1 AAATAAAATTAGAT
7676092 AAATAA
1 AAATAA
7676098 TAATAGTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.16
14 16 0.84
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (14 bp):
AAATAAAATTAGAT
Found at i:7676100 original size:29 final size:30
Alignment explanation
Indices: 7676036--7676100 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
7676026 AAATAAAAAT
7676036 ATAATAAATAGAAATATAATAATAGTAGAA
1 ATAATAAATAGAAATATAATAATAGTAGAA
*
7676066 AT-ATAAATAGATAA-ATAA-AATTAG-ATAA
1 ATAATAAATAGA-AATATAATAA-TAGTAGAA
7676094 ATAATAA
1 ATAATAA
7676101 TAGTATCAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
28 7 0.23
29 20 0.65
30 4 0.13
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.28
Consensus pattern (30 bp):
ATAATAAATAGAAATATAATAATAGTAGAA
Found at i:7685086 original size:16 final size:16
Alignment explanation
Indices: 7685065--7685136 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
7685055 TTTTGTATTA
7685065 TTTTAATATTAAATAT
1 TTTTAATATTAAATAT
* *
7685081 TTTTAAAATTAAATAA
1 TTTTAATATTAAATAT
* * *
7685097 TATTGATA-TAATCTAT
1 TTTTAATATTAA-ATAT
*
7685113 TTTAAATTAATTAAATAT
1 TTTTAA-T-ATTAAATAT
7685131 TTTTAA
1 TTTTAA
7685137 AAATATTTTT
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
15 3 0.08
16 24 0.60
17 1 0.03
18 9 0.22
19 3 0.08
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (16 bp):
TTTTAATATTAAATAT
Found at i:7692390 original size:2 final size:2
Alignment explanation
Indices: 7692383--7692442 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
7692373 TCATTAAAAC
7692383 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7692425 GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA
7692443 ATAAAACGTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7693723 original size:24 final size:26
Alignment explanation
Indices: 7693672--7693723 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 26
7693662 CGACAAATTC
* * *
7693672 CCTCTCCTTATCCTTCCTCTCTTTCT
1 CCTCTCCTTATCCCTCCTCTCCTCCT
7693698 CCTC-CCTT-TCCCTCCTCTCCTCCT
1 CCTCTCCTTATCCCTCCTCTCCTCCT
7693722 CC
1 CC
7693724 ACCACATCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 15 0.65
25 4 0.17
26 4 0.17
ACGTcount: A:0.02, C:0.56, G:0.00, T:0.42
Consensus pattern (26 bp):
CCTCTCCTTATCCCTCCTCTCCTCCT
Found at i:7696030 original size:9 final size:9
Alignment explanation
Indices: 7696016--7696062 Score: 76
Period size: 9 Copynumber: 5.2 Consensus size: 9
7696006 TATAGTTTGA
7696016 TATTCGAAT
1 TATTCGAAT
7696025 TATTCGAAT
1 TATTCGAAT
*
7696034 TATTTGAAT
1 TATTCGAAT
*
7696043 TATTCGAGT
1 TATTCGAAT
7696052 TATTCGAAT
1 TATTCGAAT
7696061 TA
1 TA
7696063 AAAAACTCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.47
Consensus pattern (9 bp):
TATTCGAAT
Found at i:7696482 original size:80 final size:80
Alignment explanation
Indices: 7696390--7696548 Score: 300
Period size: 80 Copynumber: 2.0 Consensus size: 80
7696380 GAGAGCTACA
*
7696390 AGTCCCTCTACTAAAAATGTAGCAATTAAATCCCTGGATTTTTAAAATGTAAGCAAATTGGTAAA
1 AGTCCCTCTACTAAAAACGTAGCAATTAAATCCCTGGATTTTTAAAATGTAAGCAAATTGGTAAA
7696455 ATCTTTAATATTTTG
66 ATCTTTAATATTTTG
*
7696470 AGTCCCTCTACTAAAAACGTAGCAATTAAATCCTTGGATTTTTAAAATGTAAGCAAATTGGTAAA
1 AGTCCCTCTACTAAAAACGTAGCAATTAAATCCCTGGATTTTTAAAATGTAAGCAAATTGGTAAA
7696535 ATCTTTAATATTTT
66 ATCTTTAATATTTT
7696549 AAACAGAAAT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (80 bp):
AGTCCCTCTACTAAAAACGTAGCAATTAAATCCCTGGATTTTTAAAATGTAAGCAAATTGGTAAA
ATCTTTAATATTTTG
Found at i:7699070 original size:15 final size:15
Alignment explanation
Indices: 7699050--7699083 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7699040 GTTAAAATGA
7699050 ATTTTCTTTCAATTT
1 ATTTTCTTTCAATTT
* *
7699065 ATTTTCTTTTACTTT
1 ATTTTCTTTCAATTT
7699080 ATTT
1 ATTT
7699084 CAATTTATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTTTCTTTCAATTT
Found at i:7712357 original size:28 final size:28
Alignment explanation
Indices: 7712255--7712363 Score: 103
Period size: 28 Copynumber: 3.9 Consensus size: 28
7712245 ACTATAATAC
* *
7712255 TCAAGCGGCAGGGCCGACCATATATTAT
1 TCAAGCGGCAGAGCCGACCATATATCAT
* * * * *
7712283 TCAGGTGGAAGAACTGACCATATATCAT
1 TCAAGCGGCAGAGCCGACCATATATCAT
* * * *
7712311 TCAAGTGTCAAAGCTGACCATATATCACT
1 TCAAGCGGCAGAGCCGACCATATATCA-T
7712340 T-AAGCGGCAGAGCCGACCATATAT
1 TCAAGCGGCAGAGCCGACCATATAT
7712364 AAAGCTAAAC
Statistics
Matches: 64, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
28 62 0.97
29 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (28 bp):
TCAAGCGGCAGAGCCGACCATATATCAT
Found at i:7714564 original size:14 final size:12
Alignment explanation
Indices: 7714537--7714561 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7714527 GAAATGGGTG
7714537 TAATAAAATATT
1 TAATAAAATATT
7714549 TAATAAAATATT
1 TAATAAAATATT
7714561 T
1 T
7714562 TTAAGTTAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAATAAAATATT
Found at i:7715815 original size:23 final size:23
Alignment explanation
Indices: 7715785--7715831 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
7715775 ATTGAGTTTG
7715785 TCTAGCTATGGGCATGACACTTA
1 TCTAGCTATGGGCATGACACTTA
7715808 TCTAGCTATGGGCATGACACTTA
1 TCTAGCTATGGGCATGACACTTA
7715831 T
1 T
7715832 GTGCATGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (23 bp):
TCTAGCTATGGGCATGACACTTA
Found at i:7718672 original size:21 final size:20
Alignment explanation
Indices: 7718648--7718699 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
7718638 TTATGCCACA
7718648 TCAGTATTCTTATACTGAATT
1 TCAGTATT-TTATACTGAATT
* *
7718669 TCAGGATTTTATCCTGAATT
1 TCAGTATTTTATACTGAATT
*
7718689 TTAGTATTTTA
1 TCAGTATTTTA
7718700 ATTTGGATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.50
Consensus pattern (20 bp):
TCAGTATTTTATACTGAATT
Found at i:7719402 original size:24 final size:24
Alignment explanation
Indices: 7719375--7719427 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
7719365 TCAAATACAA
*
7719375 AAAACCATACTGAGTTTAAACCCC
1 AAAACCATACTGAGTTCAAACCCC
* *
7719399 AAAACCATATTGAGTTCAGACCCC
1 AAAACCATACTGAGTTCAAACCCC
7719423 AAAAC
1 AAAAC
7719428 ATGTATTCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.43, C:0.28, G:0.09, T:0.19
Consensus pattern (24 bp):
AAAACCATACTGAGTTCAAACCCC
Found at i:7726009 original size:16 final size:16
Alignment explanation
Indices: 7725988--7726019 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7725978 ACAAAAGAGA
*
7725988 AATTCATGCACGTAAG
1 AATTCATGCACATAAG
7726004 AATTCATGCACATAAG
1 AATTCATGCACATAAG
7726020 TCTTGTGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.25
Consensus pattern (16 bp):
AATTCATGCACATAAG
Found at i:7740615 original size:22 final size:23
Alignment explanation
Indices: 7740589--7740634 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
7740579 CAACCAAACC
7740589 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
7740611 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
7740634 A
1 A
7740635 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:7740640 original size:23 final size:23
Alignment explanation
Indices: 7740596--7740640 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7740586 ACCAATTCAA
*
7740596 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
7740619 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
7740641 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:7742618 original size:239 final size:239
Alignment explanation
Indices: 7742199--7742676 Score: 866
Period size: 239 Copynumber: 2.0 Consensus size: 239
7742189 ACCCGAATTC
*
7742199 ATTCTGACCTTGTCTCACAAAATTCATTATATCTCAAAATTTACAAATTCATTACTTACACCATT
1 ATTCTGACCTTGTCTCACAAAATTCATTATATCTCAAAATTTACAAATCCATTACTTACACCATT
* *
7742264 TCTTCTATGAGAAACTAGACTCAATAAAATTTAATTCCATATTTTTTTCATCCCCTAATTCGAAT
66 TCTTCTATAAGAAACTAGACTAAATAAAATTTAATTCCATATTTTTTTCATCCCCTAATTCGAAT
7742329 TATAAAATTTATAGTGATTTTTCAAAGTTAGTCTACTGCTGCTGTCCAATATTGTTTTAGTGCAA
131 TATAAAATTTATAGTGATTTTTCAAAGTTAGTCTACTGCTGCTGTCCAATATTGTTTTAGTGCAA
*
7742394 GCTATTTATTACCATTTTTCCCCTAAATTTTTAATAAATAACAA
196 GCTATTTATTACCATTTTTCCCCTAAACTTTTAATAAATAACAA
*
7742438 ATTCTGACCTTGTCTCACAAAATTCATTATATCTCAAAATTTACAAATCCATTGCTTACACCATT
1 ATTCTGACCTTGTCTCACAAAATTCATTATATCTCAAAATTTACAAATCCATTACTTACACCATT
* **
7742503 TCTTCTATAAGAAATTAGACTAAATAAAATTTAATTCCATATTTTTTTCATCTTCTAATTCGAAT
66 TCTTCTATAAGAAACTAGACTAAATAAAATTTAATTCCATATTTTTTTCATCCCCTAATTCGAAT
*
7742568 TATAAAATTTATGGTGATTTTTCAAAGTTAGTCTACTGCTGCTGTCCAATATTGTTTTAGTGCAA
131 TATAAAATTTATAGTGATTTTTCAAAGTTAGTCTACTGCTGCTGTCCAATATTGTTTTAGTGCAA
*
7742633 GCTATTTATTACCATTTTTCCCCTAAGCTTTTAATAAATAACAA
196 GCTATTTATTACCATTTTTCCCCTAAACTTTTAATAAATAACAA
7742677 TTTCATCCCT
Statistics
Matches: 229, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
239 229 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (239 bp):
ATTCTGACCTTGTCTCACAAAATTCATTATATCTCAAAATTTACAAATCCATTACTTACACCATT
TCTTCTATAAGAAACTAGACTAAATAAAATTTAATTCCATATTTTTTTCATCCCCTAATTCGAAT
TATAAAATTTATAGTGATTTTTCAAAGTTAGTCTACTGCTGCTGTCCAATATTGTTTTAGTGCAA
GCTATTTATTACCATTTTTCCCCTAAACTTTTAATAAATAACAA
Found at i:7749721 original size:26 final size:26
Alignment explanation
Indices: 7749692--7749753 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 26
7749682 TTTCATCTTC
7749692 TTTCTTCTTATTAAGAACAGAACTGA
1 TTTCTTCTTATTAAGAACAGAACTGA
7749718 --T-TTCTTATTAAGAACAGAACTGA
1 TTTCTTCTTATTAAGAACAGAACTGA
*
7749741 TTCCTTC-TATTAA
1 TTTCTTCTTATTAA
7749754 TCCCTGAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
23 22 0.69
24 1 0.03
25 6 0.19
26 3 0.09
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (26 bp):
TTTCTTCTTATTAAGAACAGAACTGA
Found at i:7749725 original size:23 final size:23
Alignment explanation
Indices: 7749696--7749742 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
7749686 ATCTTCTTTC
7749696 TTCTTATTAAGAACAGAACTGAT
1 TTCTTATTAAGAACAGAACTGAT
7749719 TTCTTATTAAGAACAGAACTGAT
1 TTCTTATTAAGAACAGAACTGAT
7749742 T
1 T
7749743 CCTTCTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (23 bp):
TTCTTATTAAGAACAGAACTGAT
Found at i:7750497 original size:19 final size:19
Alignment explanation
Indices: 7750475--7750523 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
7750465 AAATATTAAT
7750475 ATAATAAATTTTGAAA-AA
1 ATAATAAATTTTGAAACAA
*
7750493 CATAA-AAA-TTAGAAACCAA
1 -ATAATAAATTTTGAAA-CAA
7750512 ATAATAAATTTT
1 ATAATAAATTTT
7750524 CAAATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
17 6 0.25
18 7 0.29
19 9 0.38
20 2 0.08
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (19 bp):
ATAATAAATTTTGAAACAA
Found at i:7750872 original size:21 final size:21
Alignment explanation
Indices: 7750840--7750881 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
7750830 TATAAGCAAC
*
7750840 ATAATGAAAAATAATTGATAG
1 ATAATGAAAAATAATTAATAG
*
7750861 ATAAT-AATAAATGATTAATAG
1 ATAATGAA-AAATAATTAATAG
7750882 TAACTAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.31
Consensus pattern (21 bp):
ATAATGAAAAATAATTAATAG
Found at i:7751557 original size:22 final size:22
Alignment explanation
Indices: 7751529--7751572 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
7751519 TTCTCATCAC
7751529 ACTAACTTGAAAAAAGTTTTAG
1 ACTAACTTGAAAAAAGTTTTAG
7751551 ACTAACTTGAAAAAAGTTTTAG
1 ACTAACTTGAAAAAAGTTTTAG
7751573 TGTGAGAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (22 bp):
ACTAACTTGAAAAAAGTTTTAG
Found at i:7752776 original size:31 final size:29
Alignment explanation
Indices: 7752708--7752787 Score: 88
Period size: 31 Copynumber: 2.7 Consensus size: 29
7752698 AAATCAAATC
* *
7752708 AAATCAAAATTTCATGTATAAAATTGTATA
1 AAATC-AAAGTTCATGTATAAAATTATATA
*
7752738 AAATCAAAGTTCATGTATAAAATTACATATT
1 AAATCAAAGTTCATGTATAAAATT--ATATA
* *
7752769 AAATCAAAGTCCATATATA
1 AAATCAAAGTTCATGTATA
7752788 GTTTTGAGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 18 0.42
30 5 0.12
31 20 0.47
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.34
Consensus pattern (29 bp):
AAATCAAAGTTCATGTATAAAATTATATA
Found at i:7753863 original size:26 final size:26
Alignment explanation
Indices: 7753820--7753870 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
7753810 AGCAGAACAT
* *
7753820 AACAACCCAACAAGAAAACATATGAG
1 AACAACCCAACAAAAAAACAGATGAG
*
7753846 AACAACCCAATAAAAAAACAGATGA
1 AACAACCCAACAAAAAAACAGATGA
7753871 TTAACTGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.61, C:0.22, G:0.10, T:0.08
Consensus pattern (26 bp):
AACAACCCAACAAAAAAACAGATGAG
Found at i:7758032 original size:26 final size:25
Alignment explanation
Indices: 7757978--7758028 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
7757968 CTTCGAGTTG
7757978 AATTTTAAAACTTGAATAATTTAAAT
1 AATTTTAAAACTTGAATAA-TTAAAT
*
7758004 AATTTTAACAACTTGATTAA-TAAAT
1 AATTTTAA-AACTTGAATAATTAAAT
7758029 TAATGTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.22
26 8 0.35
27 10 0.43
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (25 bp):
AATTTTAAAACTTGAATAATTAAAT
Found at i:7759000 original size:11 final size:11
Alignment explanation
Indices: 7758962--7759000 Score: 51
Period size: 11 Copynumber: 3.3 Consensus size: 11
7758952 TCAGACCAAC
7758962 AAACCAAAAAT
1 AAACCAAAAAT
7758973 AAACCCAAACTAAT
1 AAA-CCAAA--AAT
7758987 AAACCAAAAAT
1 AAACCAAAAAT
7758998 AAA
1 AAA
7759001 ATCCAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 9 0.36
12 5 0.20
13 5 0.20
14 6 0.24
ACGTcount: A:0.69, C:0.21, G:0.00, T:0.10
Consensus pattern (11 bp):
AAACCAAAAAT
Found at i:7759013 original size:25 final size:25
Alignment explanation
Indices: 7758962--7759010 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
7758952 TCAGACCAAC
*
7758962 AAACCAAAAATAAACCCAAACTAAT
1 AAACCAAAAATAAACCCAAAATAAT
*
7758987 AAACCAAAAATAAAATCCAAAATA
1 AAACCAAAAAT-AAACCCAAAATA
7759011 TAATAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.67, C:0.20, G:0.00, T:0.12
Consensus pattern (25 bp):
AAACCAAAAATAAACCCAAAATAAT
Found at i:7759303 original size:19 final size:18
Alignment explanation
Indices: 7759263--7759308 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
7759253 CGCAAAATAC
* *
7759263 AAAAAAACAAAGAAGGAA
1 AAAAAAAAAAAGAAGCAA
7759281 AAAACAAAAAAAGAAGCAGA
1 AAAA-AAAAAAAGAAGCA-A
7759301 AAAAAAAA
1 AAAAAAAA
7759309 GCAAAAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.17
19 15 0.62
20 5 0.21
ACGTcount: A:0.80, C:0.07, G:0.13, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAGAAGCAA
Found at i:7759304 original size:22 final size:23
Alignment explanation
Indices: 7759256--7759328 Score: 85
Period size: 23 Copynumber: 3.1 Consensus size: 23
7759246 CAAGACACGC
* *
7759256 AAAATACAAAAAAACAAAGAAGG
1 AAAAAACAAAAAAACAAAGAAGA
*
7759279 AAAAAACAAAAAAAGAAGCAGAA-A
1 AAAAAACAAAAAAACAA--AGAAGA
7759303 AAAAAAGCAAAAAAACAAAGAAGA
1 AAAAAA-CAAAAAAACAAAGAAGA
7759327 AA
1 AA
7759329 CAACCAGAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
23 19 0.45
24 9 0.21
25 14 0.33
ACGTcount: A:0.78, C:0.08, G:0.12, T:0.01
Consensus pattern (23 bp):
AAAAAACAAAAAAACAAAGAAGA
Found at i:7759305 original size:13 final size:12
Alignment explanation
Indices: 7759279--7759322 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
7759269 ACAAAGAAGG
7759279 AAAAAA-CAAAA
1 AAAAAAGCAAAA
*
7759290 AAAGAAGCAGAAA
1 AAAAAAGCA-AAA
7759303 AAAAAAGCAAAA
1 AAAAAAGCAAAA
7759315 AAACAAAG
1 AAA-AAAG
7759323 AAGAAACAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 5 0.18
12 8 0.29
13 15 0.54
ACGTcount: A:0.80, C:0.09, G:0.11, T:0.00
Consensus pattern (12 bp):
AAAAAAGCAAAA
Found at i:7760317 original size:17 final size:18
Alignment explanation
Indices: 7760295--7760328 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
7760285 TATTTATTTA
7760295 TTTTTATTTT-CTTTTTG
1 TTTTTATTTTACTTTTTG
7760312 TTTTTATTTTACTTTTT
1 TTTTTATTTTACTTTTT
7760329 AAACTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.09, C:0.06, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTTATTTTACTTTTTG
Found at i:7760599 original size:20 final size:22
Alignment explanation
Indices: 7760560--7760599 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
7760550 TATGTCATTT
*
7760560 TATTTTAAAATTTTACATATCA
1 TATTTTAAAATTTCACATATCA
7760582 TATTTT-AAA-TTCACATAT
1 TATTTTAAAATTTCACATAT
7760600 TAAGTAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTTTAAAATTTCACATATCA
Found at i:7760725 original size:24 final size:23
Alignment explanation
Indices: 7760670--7760725 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
7760660 TCAAATCGTA
7760670 TTATTATTATTTACCTTAAGTTT
1 TTATTATTATTTACCTTAAGTTT
* *
7760693 ATATATATTATTTA-CTTGAGGATTT
1 TTAT-TATTATTTACCTT-AAG-TTT
7760718 TTATTATT
1 TTATTATT
7760726 TATTCGTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
23 6 0.22
24 15 0.56
25 6 0.22
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (23 bp):
TTATTATTATTTACCTTAAGTTT
Found at i:7764595 original size:11 final size:11
Alignment explanation
Indices: 7764561--7764611 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
7764551 AAAATTTTAA
7764561 TTTTTA-AATT
1 TTTTTAGAATT
*
7764571 TTTTTATACA-T
1 TTTTTAGA-ATT
7764582 TTTTTAGAA--
1 TTTTTAGAATT
7764591 TTTTTAGAATT
1 TTTTTAGAATT
7764602 TTTTTAGAAT
1 TTTTTAGAAT
7764612 ATAAATTTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
9 9 0.25
10 7 0.19
11 19 0.53
12 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (11 bp):
TTTTTAGAATT
Found at i:7764634 original size:18 final size:19
Alignment explanation
Indices: 7764611--7764648 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
7764601 TTTTTTAGAA
7764611 TATAAAT-TTTGAAATTTT
1 TATAAATGTTTGAAATTTT
*
7764629 TATAAATGTTTTAAATTTT
1 TATAAATGTTTGAAATTTT
7764648 T
1 T
7764649 TGTATCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TATAAATGTTTGAAATTTT
Found at i:7765530 original size:18 final size:18
Alignment explanation
Indices: 7765461--7765522 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 18
7765451 ATTAATCTTC
7765461 AAAAATTTAAAATATCTATA-
1 AAAAA-TTAAAA-AT-TATAT
7765481 AAAAATTACAGAAA--ATAT
1 AAAAATTA-A-AAATTATAT
7765499 AAAAATTAAAAATTATAT
1 AAAAATTAAAAATTATAT
7765517 AAAAAT
1 AAAAAT
7765523 GTTAAATTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
16 3 0.08
17 4 0.11
18 18 0.49
19 3 0.08
20 7 0.19
21 2 0.05
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAAATTAAAAATTATAT
Found at i:7769358 original size:15 final size:16
Alignment explanation
Indices: 7769327--7769361 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
7769317 ATTTTATCTA
7769327 AATTTATTTAAATTTT
1 AATTTATTTAAATTTT
*
7769343 AATTTA-TTATATTTT
1 AATTTATTTAAATTTT
7769358 AATT
1 AATT
7769362 GTCAAAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
AATTTATTTAAATTTT
Done.