Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 29 of 211
Found at i:8535659 original size:23 final size:23
Alignment explanation
Indices: 8535633--8535689 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
8535623 TTAATTTATA
*
8535633 TATATGTATATTCATTATTTTCT
1 TATATATATATTCATTATTTTCT
* * *
8535656 TATATACATATTTATTTTTTTCT
1 TATATATATATTCATTATTTTCT
* *
8535679 CATATTTATAT
1 TATATATATAT
8535690 ATATATATTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.61
Consensus pattern (23 bp):
TATATATATATTCATTATTTTCT
Found at i:8542297 original size:26 final size:26
Alignment explanation
Indices: 8542261--8542316 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
8542251 CGTTATATGA
8542261 CTCTTTGTGAGCTTCAC-GATTAAAGG
1 CTCTTTGTGAGCTTC-CTGATTAAAGG
*
8542287 CTCTTTGTGAGCTTCCTGATTAATGG
1 CTCTTTGTGAGCTTCCTGATTAAAGG
8542313 CTCT
1 CTCT
8542317 CCGGAGCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 1 0.04
26 27 0.96
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (26 bp):
CTCTTTGTGAGCTTCCTGATTAAAGG
Found at i:8542494 original size:25 final size:25
Alignment explanation
Indices: 8542438--8542509 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 25
8542428 TATGGCTTTT
* * * **
8542438 ATGAGCTTCCTGTTATATAGCCCGG
1 ATGAGCTTCCCGTTATATGGCTCAC
*
8542463 ATAAGCTTCCCGTTATATGGCTCAC
1 ATGAGCTTCCCGTTATATGGCTCAC
*
8542488 ATGAGCTTTCCGTTATATGGCT
1 ATGAGCTTCCCGTTATATGGCT
8542510 TGAGAGAAGG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATGGCTCAC
Found at i:8544047 original size:21 final size:21
Alignment explanation
Indices: 8544028--8544138 Score: 125
Period size: 21 Copynumber: 5.3 Consensus size: 21
8544018 TTTTGTTTAG
* *
8544028 CTCTTACGAGCTTCTTTTTAA
1 CTCTTACGAGCTTCTGTTCAA
*
8544049 CT-TATACGAGTTTCTGTTCAA
1 CTCT-TACGAGCTTCTGTTCAA
8544070 CTCTTACGAGCTTCTGTTCAA
1 CTCTTACGAGCTTCTGTTCAA
* * * *
8544091 CTCTTATGCGTTTCTGTTCAG
1 CTCTTACGAGCTTCTGTTCAA
*
8544112 CTCTTACAAGCTTCTGTTCAA
1 CTCTTACGAGCTTCTGTTCAA
*
8544133 CCCTTA
1 CTCTTA
8544139 TGGGTTTCTA
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
20 1 0.01
21 72 0.97
22 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.42
Consensus pattern (21 bp):
CTCTTACGAGCTTCTGTTCAA
Found at i:8544104 original size:42 final size:42
Alignment explanation
Indices: 8544021--8544173 Score: 173
Period size: 42 Copynumber: 3.6 Consensus size: 42
8544011 TTTTACTTTT
* * * *
8544021 TGTTTAGCTCTTACGAGCTTCTTTTTAACT-TATACGAGTTTC
1 TGTTCAGCTCTTACGAGCTTCTGTTCAACTCT-TATGAGTTTC
* *
8544063 TGTTCAACTCTTACGAGCTTCTGTTCAACTCTTATGCGTTTC
1 TGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGTTTC
* * *
8544105 TGTTCAGCTCTTACAAGCTTCTGTTCAACCCTTATGGGTTTC
1 TGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGTTTC
* * * *
8544147 TATTTAGCTTTTATGAGCTTCTGTTCA
1 TGTTCAGCTCTTACGAGCTTCTGTTCA
8544174 GCTTTCAAGC
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 94 0.99
43 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.15, T:0.45
Consensus pattern (42 bp):
TGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGTTTC
Found at i:8549153 original size:43 final size:43
Alignment explanation
Indices: 8549088--8549215 Score: 149
Period size: 43 Copynumber: 3.0 Consensus size: 43
8549078 TAGGATTTCT
*
8549088 GATATGTG-TTATCAT-TGAAGACCACATCTGGGACGTTGGCATC
1 GATATGTGATTA-CATGT-AAGACCACGTCTGGGACGTTGGCATC
* *
8549131 GACT-TGTGTTTACGTGTAAGACC-CTGTCTGGGACAG-TGGCATC
1 GA-TATGTGATTACATGTAAGACCAC-GTCTGGGAC-GTTGGCATC
8549174 GATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
8549216 TGTACGAGTT
Statistics
Matches: 73, Mismatches: 4, Indels: 16
0.78 0.04 0.17
Matches are distributed among these distances:
42 3 0.04
43 63 0.86
44 7 0.10
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (43 bp):
GATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:8550110 original size:47 final size:47
Alignment explanation
Indices: 8550051--8550450 Score: 608
Period size: 47 Copynumber: 8.6 Consensus size: 47
8550041 ATGAGTTGAA
* * *
8550051 CCAATTTATTACATATATGCTGTCCAATTTTGATGCATAAATGTTGC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
*
8550098 CAAATTTGTTACATA-ATGCTGTCCAATTTTGATGCTTAAATGCTGC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
* * *
8550144 CCAATTTATTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
*
8550191 CCAATTTGTTACATA-ATGCTGTCCAATTTTGATGCTTAAATGCTAC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
* * * * *
8550237 CCAATTTATTACAGATATGTTGTCCAATTTTGATGCATAAAAGCTGC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
8550284 CCAATTTGTTACATA-ATGCTGTCCAATTTTGATGCTTAAATGCTGC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
*
8550330 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCCTAAATGCTGC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
8550377 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
** ** *
8550424 CCAAACTGTTTTATATATGCTGACCAA
1 CCAATTTGTTACATATATGCTGTCCAA
8550451 ATTCATGAAT
Statistics
Matches: 320, Mismatches: 30, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
46 126 0.39
47 194 0.61
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (47 bp):
CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
Found at i:8550162 original size:93 final size:93
Alignment explanation
Indices: 8550051--8550427 Score: 664
Period size: 93 Copynumber: 4.0 Consensus size: 93
8550041 ATGAGTTGAA
* * *
8550051 CCAATTTATTACATATATGCTGTCCAATTTTGATGCATAAATGTTGCCAAATTTGTTACATAATG
1 CCAATTTATTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATG
8550116 CTGTCCAATTTTGATGCTTAAATGCTGC
66 CTGTCCAATTTTGATGCTTAAATGCTGC
8550144 CCAATTTATTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATG
1 CCAATTTATTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATG
*
8550209 CTGTCCAATTTTGATGCTTAAATGCTAC
66 CTGTCCAATTTTGATGCTTAAATGCTGC
* *
8550237 CCAATTTATTACAGATATGTTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATG
1 CCAATTTATTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATG
8550302 CTGTCCAATTTTGATGCTTAAATGCTGC
66 CTGTCCAATTTTGATGCTTAAATGCTGC
* * *
8550330 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCCTAAATGCTGCCCAATTTGTTACATATAT
1 CCAATTTATTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATA-AT
8550395 GCTGTCCAATTTTGATGCTTAAATGCTGC
65 GCTGTCCAATTTTGATGCTTAAATGCTGC
8550424 CCAA
1 CCAA
8550428 ACTGTTTTAT
Statistics
Matches: 271, Mismatches: 12, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
93 236 0.87
94 35 0.13
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (93 bp):
CCAATTTATTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATG
CTGTCCAATTTTGATGCTTAAATGCTGC
Found at i:8550465 original size:186 final size:186
Alignment explanation
Indices: 8550057--8550473 Score: 647
Period size: 186 Copynumber: 2.2 Consensus size: 186
8550047 TGAACCAATT
* * *
8550057 TATTACATATATGCTGTCCAATTTTGATGCATAAATGTTGCCAAATTTGTTACATAATGCTGTCC
1 TATTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATGCTGTCC
8550122 AATTTTGATGCTTAAATGCTGCCCAATTTATTACATATATGCTGTCCAATTTTGATGCATAAAAG
66 AATTTTGATGCTTAAATGCTGCCCAATTTATTACATATATGCTGTCCAATTTTGATGCATAAAAG
**
8550187 CTGCCCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTACCCAATT
131 CTGCCCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTACCCAAAC
* *
8550243 TATTACAGATATGTTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATGCTGTCC
1 TATTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATGCTGTCC
* * *
8550308 AATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGATGCCTAAATG
66 AATTTTGATGCTTAAATGCTGCCCAATTTATTACATATATGCTGTCCAATTTTGATGCATAAAAG
*
8550373 CTGCCCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAAAC
131 CTGCCCAATTTGTTACATA-ATGCTGTCCAATTTTGATGCTTAAATGCTACCCAAAC
* ** * * * * *
8550430 TGTTTTATATATGCTGACCAA-ATTCATGAATAAAAGCTGTCCAA
1 TATTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAA
8550474 ATAGGGTAGA
Statistics
Matches: 209, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
186 160 0.77
187 49 0.23
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (186 bp):
TATTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATGCTGTCC
AATTTTGATGCTTAAATGCTGCCCAATTTATTACATATATGCTGTCCAATTTTGATGCATAAAAG
CTGCCCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTACCCAAAC
Found at i:8552285 original size:45 final size:48
Alignment explanation
Indices: 8552232--8552333 Score: 120
Period size: 49 Copynumber: 2.2 Consensus size: 48
8552222 TCCATATGGA
* * *
8552232 ACTACACTTCTTTTATTT-TA-TT-TTAGAATAAGGTTTTTAAACCTT
1 ACTACACTTCATCTATTTATATTTCTTAGAATAAGGTGTTTAAACCTT
* * *
8552277 ATTACACTTCATCTATTTGATATTTCTTAGAATAATGTGTTTCAACCTT
1 ACTACACTTCATCTATTT-ATATTTCTTAGAATAAGGTGTTTAAACCTT
8552326 ACTACACT
1 ACTACACT
8552334 CCTTCTATCA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
45 15 0.33
47 2 0.04
48 2 0.04
49 27 0.59
ACGTcount: A:0.29, C:0.17, G:0.07, T:0.47
Consensus pattern (48 bp):
ACTACACTTCATCTATTTATATTTCTTAGAATAAGGTGTTTAAACCTT
Found at i:8552811 original size:17 final size:16
Alignment explanation
Indices: 8552785--8552826 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
8552775 TTATAATTTA
8552785 TTAATAAAATATTATC
1 TTAATAAAATATTATC
8552801 TTAATTAAAATATTAT-
1 TTAA-TAAAATATTATC
*
8552817 TTTATAAAAT
1 TTAATAAAAT
8552827 GTTTAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 6 0.25
16 7 0.29
17 11 0.46
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAATAAAATATTATC
Found at i:8560161 original size:9 final size:9
Alignment explanation
Indices: 8560149--8560196 Score: 78
Period size: 9 Copynumber: 5.3 Consensus size: 9
8560139 CATTAATCGG
8560149 ATTACCCGA
1 ATTACCCGA
*
8560158 ATTAACCGA
1 ATTACCCGA
8560167 ATTACCCGA
1 ATTACCCGA
8560176 ATTACCCGA
1 ATTACCCGA
*
8560185 ATTAACCGA
1 ATTACCCGA
8560194 ATT
1 ATT
8560197 GAATCCCTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.38, C:0.27, G:0.10, T:0.25
Consensus pattern (9 bp):
ATTACCCGA
Found at i:8560161 original size:18 final size:18
Alignment explanation
Indices: 8560130--8560196 Score: 80
Period size: 18 Copynumber: 3.7 Consensus size: 18
8560120 TTTGGTTAAA
* * *
8560130 AATTAACCGCATTAATCG
1 AATTACCCGAATTAACCG
*
8560148 GATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
*
8560166 AATTACCCGAATTACCCG
1 AATTACCCGAATTAACCG
*
8560184 AATTAACCGAATT
1 AATTACCCGAATT
8560197 GAATCCCTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.25
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:8560170 original size:27 final size:27
Alignment explanation
Indices: 8560130--8560201 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
8560120 TTTGGTTAAA
* *
8560130 AATTAACCGCATTAATCGGATTACCCG
1 AATTAACCGAATTAATCGAATTACCCG
**
8560157 AATTAACCGAATTACCCGAATTACCCG
1 AATTAACCGAATTAATCGAATTACCCG
8560184 AATTAACCGAATTGAATC
1 AATTAACCGAATT-AATC
8560202 CCTACATAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
27 36 0.95
28 2 0.05
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (27 bp):
AATTAACCGAATTAATCGAATTACCCG
Found at i:8568027 original size:15 final size:15
Alignment explanation
Indices: 8568007--8568058 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
8567997 ACTACAAAAC
8568007 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
8568022 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
8568041 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
8568056 ATT
1 ATT
8568059 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:8568122 original size:16 final size:16
Alignment explanation
Indices: 8568091--8568127 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
8568081 ATGTGAAGAA
8568091 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
8568107 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
8568123 TATTA
1 TATTA
8568128 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:8568151 original size:18 final size:18
Alignment explanation
Indices: 8568113--8568148 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8568103 TTATTATTTT
*
8568113 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
8568131 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
8568149 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:8568166 original size:16 final size:17
Alignment explanation
Indices: 8568122--8568196 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 17
8568112 TTAAAATTTA
8568122 TTATTAA-AATAA-AAT
1 TTATTAATAATAATAAT
*
8568137 TTA--AATATTAAATAAT
1 TTATTAATAAT-AATAAT
8568153 TTATTAA-AATAATAAAT
1 TTATTAATAATAAT-AAT
8568170 TATATTAATTATATTAATAAT
1 T-TATTAA-TA-A-TAATAAT
8568191 TTATTA
1 TTATTA
8568197 TATGACTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 17
0.71 0.03 0.26
Matches are distributed among these distances:
13 2 0.04
14 2 0.04
15 5 0.11
16 9 0.19
17 6 0.13
18 8 0.17
20 6 0.13
21 5 0.11
22 4 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTATTAATAATAATAAT
Found at i:8568167 original size:34 final size:36
Alignment explanation
Indices: 8568112--8568198 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 36
8568102 ATTATTATTT
*
8568112 TTAA-AATTTATTATTAAAATAAA-AT-TTAA-ATA
1 TTAATAATTTATTATAAAAATAAATATATTAATATA
8568144 TTAAATAATTTATTA-AAATAATAAATTATATTAATTATA
1 TT-AATAATTTATTATAAA-AATAAA-TATATTAA-TATA
8568183 TTAATAATTTATTATA
1 TTAATAATTTATTATA
8568199 TGACTAAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
32 2 0.04
33 4 0.09
34 15 0.33
36 2 0.04
37 4 0.09
38 12 0.27
39 6 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (36 bp):
TTAATAATTTATTATAAAAATAAATATATTAATATA
Found at i:8571275 original size:108 final size:107
Alignment explanation
Indices: 8571077--8571291 Score: 394
Period size: 108 Copynumber: 2.0 Consensus size: 107
8571067 TCATGTTGTT
* *
8571077 ATTTTGCTAGGTAGCTTAGATCATATGTTTAATGTTTAATGGTGGAAAAATGATATGTTGTGTGA
1 ATTTTGCTAGGTAGCTTAGATCATATGTTTAATGTTTAATGGTAGAAAAATGATATGTTATGTGA
8571142 TATGCTTTGAATGATGCTTGGTTATGGAATGATAATTGTAAG
66 TATGCTTTGAATGATGCTTGGTTATGGAATGATAATTGTAAG
8571184 ATTTTGCTAGGTAGCTTAGATCATATGTTTAATGTTTAATGGTAGAGAAAATGATATGTTATGTG
1 ATTTTGCTAGGTAGCTTAGATCATATGTTTAATGTTTAATGGTAGA-AAAATGATATGTTATGTG
*
8571249 ATATGCTTTGATTGATGCTTGGTTATGGAATGATAATTGTAAG
65 ATATGCTTTGAATGATGCTTGGTTATGGAATGATAATTGTAAG
8571292 CTTAAGTATG
Statistics
Matches: 104, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 45 0.43
108 59 0.57
ACGTcount: A:0.29, C:0.05, G:0.25, T:0.41
Consensus pattern (107 bp):
ATTTTGCTAGGTAGCTTAGATCATATGTTTAATGTTTAATGGTAGAAAAATGATATGTTATGTGA
TATGCTTTGAATGATGCTTGGTTATGGAATGATAATTGTAAG
Found at i:8577589 original size:3 final size:3
Alignment explanation
Indices: 8577581--8577615 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
8577571 AGACTCTTCT
* *
8577581 ATA ATA ATA ATA ATA ACA ACA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
8577616 TATTCTGCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:8591627 original size:17 final size:16
Alignment explanation
Indices: 8591613--8591644 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
8591603 TATTAATATT
8591613 AATAAAATAAGAATAAG
1 AATAAAATAA-AATAAG
8591630 AATAAAATAAAATAA
1 AATAAAATAAAATAA
8591645 AAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (16 bp):
AATAAAATAAAATAAG
Found at i:8591638 original size:5 final size:5
Alignment explanation
Indices: 8591613--8591654 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
8591603 TATTAATATT
8591613 AATAA AATAA GAATAA GAATAA AATAA AAT-A AA-AA AATAA AA
1 AATAA AATAA -AATAA -AATAA AATAA AATAA AATAA AATAA AA
8591655 CTCTAACAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 6 0.18
5 17 0.50
6 11 0.32
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:8600832 original size:19 final size:19
Alignment explanation
Indices: 8600810--8600849 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
8600800 ATTAATTTTG
* *
8600810 ATCAAGTAAATTTAAATTA
1 ATCAAATAAATTAAAATTA
8600829 ATCAAATAAATTAAAATTA
1 ATCAAATAAATTAAAATTA
8600848 AT
1 AT
8600850 ATGATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:8601465 original size:27 final size:26
Alignment explanation
Indices: 8601379--8601465 Score: 63
Period size: 27 Copynumber: 3.3 Consensus size: 26
8601369 TGTTTATCTT
* *
8601379 ATAGATA--AATATTCTATTATTTTA
1 ATAGATATTAATATTATATTAATTTA
* *
8601403 ATAAGAT-TTAATATTAAATTTAATCTA
1 AT-AGATATTAATATTATA-TTAATTTA
** *
8601430 ATATTTATTAATATTTTATTAATTTA
1 ATAGATATTAATATTATATTAATTTA
8601456 ATGAGATATT
1 AT-AGATATT
8601466 TGTAATTTGA
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
24 2 0.04
25 4 0.09
26 18 0.39
27 22 0.48
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (26 bp):
ATAGATATTAATATTATATTAATTTA
Found at i:8601503 original size:13 final size:13
Alignment explanation
Indices: 8601468--8601505 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
8601458 GAGATATTTG
*
8601468 TAATTTGAAAGCT
1 TAATTTGAAAACT
8601481 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
8601495 TAATTTGAAAA
1 TAATTTGAAAA
8601506 TTTGGAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:8601543 original size:29 final size:27
Alignment explanation
Indices: 8601469--8601543 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 27
8601459 AGATATTTGT
* * * *
8601469 AATTTGAAAGCTTAAGTTTGAAAACTT
1 AATTTGAAAACTTAAATTTAAAAACTA
*
8601496 AATTTGAAAATTTGGAAATTTAAAAACTA
1 AATTTGAAAACTT--AAATTTAAAAACTA
8601525 AATTTTTGAAAACTTAAAT
1 AA--TTTGAAAACTTAAAT
8601544 GTCTTGAGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 11 0.29
29 17 0.45
31 10 0.26
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (27 bp):
AATTTGAAAACTTAAATTTAAAAACTA
Found at i:8601806 original size:35 final size:34
Alignment explanation
Indices: 8601762--8602025 Score: 315
Period size: 35 Copynumber: 7.8 Consensus size: 34
8601752 TTCACTTGTC
* * * *
8601762 TTTTCTTGCAGGGAATATTTCATGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAC-CATTA
* * *
8601797 TTCTGTTGCAGGGAATCTTTCCTGTTCA-CATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACCATTA
*
8601830 -TTTCTTGCAGGGAATCTCTCCTGTTCACACATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAC-CATTA
8601864 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAC-CATTA
* * *
8601899 TTTTGTTGCAGGAAATCTTTCCTGTTCA-CATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACCATTA
*
8601932 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAC-CATTA
* *
8601966 TTTTGTTGTAGGGAATCTCTCCTGTTCA-CATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACCATTA
*
8601999 -TTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA
8602026 TGTATTATTT
Statistics
Matches: 201, Mismatches: 22, Indels: 15
0.84 0.09 0.06
Matches are distributed among these distances:
32 73 0.36
33 12 0.06
34 8 0.04
35 108 0.54
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (34 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACCATTA
Found at i:8601871 original size:67 final size:65
Alignment explanation
Indices: 8601762--8602025 Score: 305
Period size: 67 Copynumber: 3.9 Consensus size: 65
8601752 TTCACTTGTC
* * * * * *
8601762 TTTTCTTGCAGGGAATATTTCATGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCA--CATCATT-TCTTGCAGGGAATCTCTCCTGTTCACA
*
8601827 TCA
63 TTA
* *
8601830 -TTTCTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTT--CACATCA-TTTCTTGCAGGGAATCTCTCCTGTT--CA
8601894 CATTA
61 CATTA
* * *
8601899 TTTTGTTGCAGGAAATCTTTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCAT
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCA--CAT
8601964 TA
64 TA
* *
8601966 TTTTGTTGTAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCA
8602026 TGTATTATTT
Statistics
Matches: 175, Mismatches: 13, Indels: 17
0.85 0.06 0.08
Matches are distributed among these distances:
65 2 0.01
67 135 0.77
68 8 0.05
69 8 0.05
70 22 0.13
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (65 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCACATTA
Found at i:8601943 original size:102 final size:102
Alignment explanation
Indices: 8601762--8602025 Score: 399
Period size: 102 Copynumber: 2.6 Consensus size: 102
8601752 TTCACTTGTC
* * * * * *
8601762 TTTTCTTGCAGGGAATATTTCATGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
8601827 TCATTTCTTGCAGGGAATCTCTCCTGTTCACACATTA
66 TCATTTCTTGCAGGGAATCTCTCCTGTTCACACATTA
*
8601864 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGAAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
*
8601929 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
66 TCATTTCTTGCAGGGAATCTCTCCTGTTCACACATTA
* * * *
8601966 TTTTGTTGTAGGGAATCTCTCCTGTT--CACATCA-TTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCA
8602026 TGTATTATTT
Statistics
Matches: 149, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
99 24 0.16
100 6 0.04
102 119 0.80
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (102 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
TCATTTCTTGCAGGGAATCTCTCCTGTTCACACATTA
Found at i:8602033 original size:67 final size:67
Alignment explanation
Indices: 8601802--8602035 Score: 321
Period size: 67 Copynumber: 3.5 Consensus size: 67
8601792 CATTATTCTG
* * * *
8601802 TTGCAGGGAATCTTTCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACACATTA
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTT--CACATCA
*
8601864 TTTTG
64 -TTTC
* * *
8601869 TTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGAAATCTTTCCTGTTCACATCATT
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACATCATT
8601934 TC
66 TC
*
8601936 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGTAGGGAATCTCTCCTGTTCACATCATT
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACATCATT
8602001 TC
66 TC
* *
8602003 TTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTT
8602036 CTTTTTGGAC
Statistics
Matches: 151, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
67 119 0.79
68 6 0.04
69 4 0.03
70 22 0.15
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (67 bp):
TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACATCATT
TC
Found at i:8604872 original size:20 final size:22
Alignment explanation
Indices: 8604835--8604878 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
8604825 GAGCAAATTG
8604835 TTGATTCTATTTCTTTTTG-AT
1 TTGATTCTATTTCTTTTTGTAT
8604856 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTC-TTTTTGTAT
8604877 TT
1 TT
8604879 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.14
20 10 0.48
21 8 0.38
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.68
Consensus pattern (22 bp):
TTGATTCTATTTCTTTTTGTAT
Found at i:8609207 original size:13 final size:13
Alignment explanation
Indices: 8609172--8609209 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
8609162 GAGATATTTG
*
8609172 TAATTTGAAAGCT
1 TAATTTGAAAACT
8609185 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
8609199 TAATTTGAAAA
1 TAATTTGAAAA
8609210 TTTGGAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:8609451 original size:21 final size:22
Alignment explanation
Indices: 8609427--8609471 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
8609417 AGAAAAAGAG
8609427 AAATACAAAAAAG-AATAG-ATC
1 AAAT-CAAAAAAGAAATAGAATC
*
8609448 AAATCAAAAAGGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
8609470 AA
1 AA
8609472 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:8610251 original size:13 final size:13
Alignment explanation
Indices: 8610233--8610265 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
8610223 AATTTGCTAG
8610233 CAAATTCCCAGAC
1 CAAATTCCCAGAC
8610246 CAAATTCCCAGAC
1 CAAATTCCCAGAC
8610259 CAAATTC
1 CAAATTC
8610266 TTGATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.06, T:0.18
Consensus pattern (13 bp):
CAAATTCCCAGAC
Found at i:8612406 original size:21 final size:21
Alignment explanation
Indices: 8612382--8612422 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8612372 GCATACCCTG
*
8612382 AACCCTGGACCCTAGAATCTA
1 AACCCTGGACCCTAAAATCTA
* *
8612403 AACCTTGGACTCTAAAATCT
1 AACCCTGGACCCTAAAATCT
8612423 TGAATCTTAA
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:0.34, C:0.29, G:0.12, T:0.24
Consensus pattern (21 bp):
AACCCTGGACCCTAAAATCTA
Found at i:8612437 original size:29 final size:28
Alignment explanation
Indices: 8612396--8612469 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
8612386 CTGGACCCTA
*
8612396 GAATCTAAACCTTGGA-CTCTAAAATCTT
1 GAATCTAAACCTTGAAGC-CTAAAATCTT
*
8612424 GAATCTTAAACCTTAAAGCCTAAAATCTT
1 GAATC-TAAACCTTGAAGCCTAAAATCTT
*
8612453 GAATCCTAGACCTTGAA
1 GAAT-CTAAACCTTGAA
8612470 CCATGGACCC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
28 5 0.13
29 32 0.82
30 2 0.05
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.30
Consensus pattern (28 bp):
GAATCTAAACCTTGAAGCCTAAAATCTT
Found at i:8612537 original size:7 final size:7
Alignment explanation
Indices: 8612525--8612582 Score: 57
Period size: 7 Copynumber: 8.4 Consensus size: 7
8612515 AAGGTCCTGA
8612525 GTCTAAG
1 GTCTAAG
8612532 GTCTAAG
1 GTCTAAG
*
8612539 GTCAAAG
1 GTCTAAG
8612546 GTCTAAG
1 GTCTAAG
8612553 GT-TAAAG
1 GTCT-AAG
* *
8612560 GTTTAGG
1 GTCTAAG
*
8612567 GTCTAAA
1 GTCTAAG
8612574 GTC-AAG
1 GTCTAAG
8612580 GTC
1 GTC
8612583 CATGGCCTAG
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
6 6 0.14
7 35 0.83
8 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.28
Consensus pattern (7 bp):
GTCTAAG
Found at i:8623547 original size:11 final size:11
Alignment explanation
Indices: 8623531--8623573 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
8623521 TAATAATATA
8623531 ATAGCAAAATG
1 ATAGCAAAATG
*
8623542 ATAGCAAAATA
1 ATAGCAAAATG
*
8623553 ATAGTAAAATG
1 ATAGCAAAATG
8623564 ATAGCAAAAT
1 ATAGCAAAAT
8623574 AGCAGCAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.58, C:0.07, G:0.14, T:0.21
Consensus pattern (11 bp):
ATAGCAAAATG
Found at i:8623553 original size:22 final size:22
Alignment explanation
Indices: 8623528--8623574 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
8623518 TAGTAATAAT
8623528 ATAATAGCAAAATGATAGCAAA
1 ATAATAGCAAAATGATAGCAAA
*
8623550 ATAATAGTAAAATGATAGCAAA
1 ATAATAGCAAAATGATAGCAAA
8623572 ATA
1 ATA
8623575 GCAGCAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.60, C:0.06, G:0.13, T:0.21
Consensus pattern (22 bp):
ATAATAGCAAAATGATAGCAAA
Found at i:8623773 original size:2 final size:2
Alignment explanation
Indices: 8623766--8623792 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8623756 TCTAGTGAAG
8623766 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
8623793 GTACTTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8634152 original size:49 final size:49
Alignment explanation
Indices: 8634063--8634159 Score: 124
Period size: 49 Copynumber: 2.0 Consensus size: 49
8634053 GGTTATATAG
* * *
8634063 TCATGAGTTCAAGTATAACTAGGGCTCCTAGTTGATGGTGGTTTTGCAA
1 TCATGAGTTCAAGTATAACTAGGGCTCCTAATTGACGGTGGTTATGCAA
* * *
8634112 TCATGGGTTCAAGTATAACTCGGGCCTCC-AATTGGCGGTGGTTATGCA
1 TCATGAGTTCAAGTATAACTAGGG-CTCCTAATTGACGGTGGTTATGCA
8634160 GTTACAGGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 37 0.90
50 4 0.10
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.32
Consensus pattern (49 bp):
TCATGAGTTCAAGTATAACTAGGGCTCCTAATTGACGGTGGTTATGCAA
Found at i:8636238 original size:25 final size:26
Alignment explanation
Indices: 8636165--8636244 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 26
8636155 AATTGATAAA
8636165 AATTATAAAATATAAAATATATATATGT
1 AATTATAAAA-A-AAAATATATATATGT
* *
8636193 ACA-TATAAGAAAAATATATATGTATGT
1 A-ATTATAA-AAAAAAATATATATATGT
*
8636220 GAATTATAAAAAAAAATATAAATAT
1 -AATTATAAAAAAAAATATATATAT
8636245 ACATATTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
27 27 0.63
28 13 0.30
29 3 0.07
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (26 bp):
AATTATAAAAAAAAATATATATATGT
Found at i:8636942 original size:23 final size:22
Alignment explanation
Indices: 8636899--8636956 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
8636889 AAAGGGTATC
* *
8636899 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
8636920 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
8636943 TACATATCATATCT
1 TACAAATCATATCT
8636957 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:8636959 original size:19 final size:19
Alignment explanation
Indices: 8636912--8636990 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 19
8636902 AAATTAAATC
*
8636912 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
8636932 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
8636954 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
8636975 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
8636991 CTTGAAAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
19 14 0.28
21 18 0.36
22 7 0.14
23 11 0.22
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:8636972 original size:21 final size:21
Alignment explanation
Indices: 8636946--8636989 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
8636936 CTAAGATTAC
8636946 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
8636967 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
8636988 AT
1 AT
8636990 CCTTGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:8637602 original size:44 final size:43
Alignment explanation
Indices: 8637550--8637662 Score: 113
Period size: 44 Copynumber: 2.6 Consensus size: 43
8637540 GATCTACTCT
* * *
8637550 ACTGCAACTTCAGAGAGATAAGATCTA-TTATTTTAATCCGCTCC
1 ACTGCAACTT-AG-GAGATAAGATCTACTGACTTCAATCCGCTCC
* *
8637594 ACTGCAACTTTAGGAAGATAGGAT-TACTGACTTCAATCTGCTCC
1 ACTGCAAC-TTAGG-AGATAAGATCTACTGACTTCAATCCGCTCC
*
8637638 ACTGCAACTTAGGGAGATAAAATCT
1 ACTGCAACTTA-GGAGATAAGATCT
8637663 GTAATTTTCA
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
43 13 0.23
44 42 0.74
45 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (43 bp):
ACTGCAACTTAGGAGATAAGATCTACTGACTTCAATCCGCTCC
Found at i:8637673 original size:44 final size:43
Alignment explanation
Indices: 8637541--8637673 Score: 101
Period size: 44 Copynumber: 3.0 Consensus size: 43
8637531 ACCTGATACG
* * * * *
8637541 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTT-A
1 ATCTGCTCCACTGCAACTT-AGGGAGATAAAATCT-GTATTTTCA
* * * * *
8637585 ATCCGCTCCACTGCAACTTTAGGAAGATAGGATTACTG-A-CTTCA
1 ATCTGCTCCACTGCAAC-TTAGGGAGATA-AAAT-CTGTATTTTCA
8637629 ATCTGCTCCACTGCAACTTAGGGAGATAAAATCTGTAATTTTCA
1 ATCTGCTCCACTGCAACTTAGGGAGATAAAATCTGT-ATTTTCA
8637673 A
1 A
8637674 CCTATTCCAC
Statistics
Matches: 67, Mismatches: 15, Indels: 14
0.70 0.16 0.15
Matches are distributed among these distances:
41 3 0.04
42 2 0.03
43 13 0.19
44 44 0.66
45 3 0.04
46 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTAGGGAGATAAAATCTGTATTTTCA
Found at i:8637771 original size:88 final size:87
Alignment explanation
Indices: 8637679--8637966 Score: 269
Period size: 88 Copynumber: 3.3 Consensus size: 87
8637669 TTCAACCTAT
8637679 TCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTAGGAAGAT
1 TCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTAGGAAGAT
8637744 ATAATTCGCCGTCTTCGATCTGC
66 A-AATTCGCCGTCTTCGATCTGC
* * ** * ** * ** * *
8637767 TCCACTACTGCTTAGGGAGATAAGATCT-G-GAATT--TTCAACTTACCCCACTGTTGCTCAGGG
1 TCCACTACTGCTCAGGGAGATAAG-GCTAGTGGCTTAAATCTGCTT-CCCTAC--TACCTTAGGA
** * ** * * *
8637828 AGATAAGGTCTACAATCTTCAACCTAC
62 AGATAAATTC-GCCGTCTTCGATCTGC
* * *
8637855 TCTACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGAT
1 TCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTAGGAAGAT
8637920 AAGATTCGCCGTCTTCGATCTGC
66 AA-ATTCGCCGTCTTCGATCTGC
*
8637943 TCCACTACTGCTTAGGGAGATAAG
1 TCCACTACTGCTCAGGGAGATAAG
8637967 ATCTGTAATT
Statistics
Matches: 144, Mismatches: 46, Indels: 20
0.69 0.22 0.10
Matches are distributed among these distances:
85 5 0.03
86 5 0.03
87 8 0.06
88 109 0.76
89 7 0.05
90 5 0.03
91 5 0.03
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (87 bp):
TCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTAGGAAGAT
AAATTCGCCGTCTTCGATCTGC
Found at i:8637816 original size:44 final size:44
Alignment explanation
Indices: 8637768--8638991 Score: 168
Period size: 44 Copynumber: 28.5 Consensus size: 44
8637758 TCGATCTGCT
* * ** * *
8637768 CCACTACTGCTTAGGGAGATAAGATCTGGAATTTTCAACTTACC
1 CCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCAACCTACC
* * *
8637812 CCACTGTTGCTCAGGGAGATAAGGTCTACAATCTTCAACCTACT
1 CCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCAACCTACC
* * **** * *
8637856 CTACTGCTGCTCAGGGAGATAAG-GCTAGTGGCTTAAATCTGCTTCC
1 CCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCAA-C--CTACC
* * * * ** * * * *
8637902 CTACTAC--CT-TGGGAAGATAAGAT-TCGCCGTCTTCGATCTGCT
1 CCACTGCTGCTCAGGG-AGATAAGATCT-ACAATCTTCAACCTACC
* * ** * * *
8637944 CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACTTACT
1 CCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCAACCTACC
* **
8637988 CCACTGCTGCTCAGGGAGATAGGAT-TCACAATCTTCAACCTATT
1 CCACTGCTGCTCAGGGAGATAAGATCT-ACAATCTTCAACCTACC
* **
8638032 CCACTGCTGACT-AGGGAGAT-AG------GA--TTC-ACCTATT
1 CCACTGCTG-CTCAGGGAGATAAGATCTACAATCTTCAACCTACC
* **
8638066 CCACTGCTGACT-AGGGAGATAGGA-CTTACAATCTTCAACCTATT
1 CCACTGCTG-CTCAGGGAGATAAGATC-TACAATCTTCAACCTACC
* * **** * *
8638110 CCACTGCTGAC-CAGTGAGATAAG-GCTAGTGGCTTAAATCTGCTTCC
1 CCACTGCTG-CTCAGGGAGATAAGATCTACAATCTTCAA-C--CTACC
* * * * ** * * * *
8638156 CTACTAC--CT-TGGAAAGATAAGAT-TCACCGTCTTCGATCTGCT
1 CCACTGCTGCTCAGG-GAGATAAGATCT-ACAATCTTCAACCTACC
* ** * *
8638198 CCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAACCTACT
1 CCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCAACCTACC
* * **
8638242 CCACTACTGCTCAGGGAGATAGGAT-TCACAATCTTCAACCTATT
1 CCACTGCTGCTCAGGGAGATAAGATCT-ACAATCTTCAACCTACC
** * **
8638286 CCACTGCTAATCAGGGAGATAGGAT-TCACAATCTTCAACCTATT
1 CCACTGCTGCTCAGGGAGATAAGATCT-ACAATCTTCAACCTACC
* * **
8638330 CCACTGCTGAC-CAGAGAGATAGGA-CTCACAATCTTCAACCTATT
1 CCACTGCTG-CTCAGGGAGATAAGATCT-ACAATCTTCAACCTACC
* *
8638374 CCACTGCTGAC-CAGGGAGATAGGAT-TGAC---C-T--A--T--T
1 CCACTGCTG-CTCAGGGAGATAAGATCT-ACAATCTTCAACCTACC
* * **
8638408 CCACTACTGAC-CAGGGAGATAGGA-CTTACAATCTTCAACCTATT
1 CCACTGCTG-CTCAGGGAGATAAGATC-TACAATCTTCAACCTACC
* * **** * *
8638452 CCACTGCTGAC-CAGTGAGATAAG-GCTAGTGGCTTAAATCTGCTTCC
1 CCACTGCTG-CTCAGGGAGATAAGATCTACAATCTTCAA-C--CTACC
* * * * ** * * * *
8638498 CTACTAC--CT-TGGAAAGATAAGAT-TCACCGTCTTCGATCTGCT
1 CCACTGCTGCTCAGG-GAGATAAGATCT-ACAATCTTCAACCTACC
* * * ** * *
8638540 CCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAACCTACT
1 CCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCAACCTACC
* * * **
8638584 CCACTACTGCTCAAGGAGATAGGAT-TCACAATCTTCAACCTATT
1 CCACTGCTGCTCAGGGAGATAAGATCT-ACAATCTTCAACCTACC
* * * **
8638628 CCACTGCTAAC-CAGGGAGATAGGGT-TCACAATCTTCAACCTATT
1 CCACTGCT-GCTCAGGGAGATAAGATCT-ACAATCTTCAACCTACC
* * * **
8638672 CCACTGTTGAC-CAGGGAGATAGGA-CTTACAATCTTTAACCTATT
1 CCACTGCTG-CTCAGGGAGATAAGATC-TACAATCTTCAACCTACC
* **
8638716 CCACTGCTGAC-CAGGGAGATAGGA-CTCACAATCTTCAACCTATT
1 CCACTGCTG-CTCAGGGAGATAAGATCT-ACAATCTTCAACCTACC
* * * **
8638760 CTACTGCTGAC-CATGGAGAT-AG------GA--TTC-ACCTATT
1 CCACTGCTG-CTCAGGGAGATAAGATCTACAATCTTCAACCTACC
* * **
8638794 CCACTACTGAC-CAGGGAGATAGGA-CTTACAATCTTCAACCTATT
1 CCACTGCTG-CTCAGGGAGATAAGATC-TACAATCTTCAACCTACC
* **
8638838 CCACTGCTGACT-AGGGAGATATGA-CTCACAATCTTCAACCTATT
1 CCACTGCTG-CTCAGGGAGATAAGATCT-ACAATCTTCAACCTACC
* * **
8638882 CCACTGCTGAC-CAGAGAGATAGGAT-TCACAATCTTCAACCTATT
1 CCACTGCTG-CTCAGGGAGATAAGATCT-ACAATCTTCAACCTACC
* **
8638926 CCACTGCTGAC-CAGGGAGGTAAGA-CTTACAATCTTCAACCTATT
1 CCACTGCTG-CTCAGGGAGATAAGATC-TACAATCTTCAACCTACC
* **
8638970 CTACTGCTGAACAGGGAGATAA
1 CCACTGCTGCTCAGGGAGATAA
8638992 AGCTTTGTGA
Statistics
Matches: 919, Mismatches: 175, Indels: 172
0.73 0.14 0.14
Matches are distributed among these distances:
34 77 0.08
35 9 0.01
36 1 0.00
37 3 0.00
38 2 0.00
40 2 0.00
41 3 0.00
42 28 0.03
43 42 0.05
44 697 0.76
45 32 0.03
46 23 0.03
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (44 bp):
CCACTGCTGCTCAGGGAGATAAGATCTACAATCTTCAACCTACC
Found at i:8637868 original size:176 final size:176
Alignment explanation
Indices: 8637669--8638052 Score: 641
Period size: 176 Copynumber: 2.2 Consensus size: 176
8637659 ATCTGTAATT
*
8637669 TTCAACCTATTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACC
1 TTCAACCTATTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACC
8637734 TTAGGAAGATATA-ATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGA
66 TTAGGAAGATA-AGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGA
*
8637798 ATTTTCAACTTACCCCACTGTTGCTCAGGGAGATAAGG--TCTACAATC
130 ATTTTCAACTTACCCCACTGCTGCTCAGGGAGAT-AGGATTC-ACAATC
* *
8637845 TTCAACCTACTCTACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACC
1 TTCAACCTATTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACC
* *
8637910 TTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA
66 TTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGAA
*
8637975 TTTTCAACTTACTCCACTGCTGCTCAGGGAGATAGGATTCACAATC
131 TTTTCAACTTACCCCACTGCTGCTCAGGGAGATAGGATTCACAATC
8638021 TTCAACCTATTCCACTGCTGACT-AGGGAGATA
1 TTCAACCTATTCCACTGCTG-CTCAGGGAGATA
8638053 GGATTCACCT
Statistics
Matches: 195, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
175 4 0.02
176 187 0.96
177 4 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (176 bp):
TTCAACCTATTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACC
TTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGAA
TTTTCAACTTACCCCACTGCTGCTCAGGGAGATAGGATTCACAATC
Found at i:8638023 original size:88 final size:88
Alignment explanation
Indices: 8637766--8638991 Score: 454
Period size: 88 Copynumber: 14.3 Consensus size: 88
8637756 CTTCGATCTG
* * * * * *
8637766 CTCCACTACTGCTTAGGGAGATAAGATCTGGAATTTTCAACTTACCCCACTGTTGCTCAGGGAGA
1 CTCCACTGCTGCTCAGGGAGATAAGATCTGTAATCTTCAACTTACTCCACTGCTGCTCAGGGAGA
8637831 TAAGG--TCTACAATCTTCAACCTA
66 T-AGGATTC-ACAATCTTCAACCTA
* * ** * * * * *
8637854 CTCTACTGCTGCTCAGGGAGATAAG-GCTAGT-GGCTT-AAATCTGCTTCC-CTACTAC-CTTGG
1 CTCCACTGCTGCTCAGGGAGATAAGATCT-GTAATCTTCAACT-TAC-TCCACTGCTGCTC-AGG
* * ** * * *
8637914 GAAGATAAGATTCGCCGTCTTCGATCTG
62 G-AGATAGGATTCACAATCTTCAACCTA
* * *
8637942 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACTTACTCCACTGCTGCTCAGGGAGA
1 CTCCACTGCTGCTCAGGGAGATAAGATCTGTAATCTTCAACTTACTCCACTGCTGCTCAGGGAGA
8638007 TAGGATTCACAATCTTCAACCTA
66 TAGGATTCACAATCTTCAACCTA
* * *
8638030 TTCCACTGCTGACT-AGGGAGAT-AG----G--A--TTC-ACCTATTCCACTGCTGACT-AGGGA
1 CTCCACTGCTG-CTCAGGGAGATAAGATCTGTAATCTTCAACTTACTCCACTGCTG-CTCAGGGA
8638083 GATAGGACTT-ACAATCTTCAACCTA
64 GATAGGA-TTCACAATCTTCAACCTA
* * * ** * * * * *
8638108 TTCCACTGCTGAC-CAGTGAGATAAG-GCTAGT-GGCTT-AAATCTGCTTCC-CTACTAC-CTTG
1 CTCCACTGCTG-CTCAGGGAGATAAGATCT-GTAATCTTCAACT-TAC-TCCACTGCTGCTC-AG
* * ** * * *
8638167 GAAAGATAAGATTCACCGTCTTCGATCTG
61 G-GAGATAGGATTCACAATCTTCAACCTA
* * * *
8638196 CTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTGCTCAGGGAGA
1 CTCCACTGCTGCTCAGGGAGATAAGATCTGTAATCTTCAACTTACTCCACTGCTGCTCAGGGAGA
8638261 TAGGATTCACAATCTTCAACCTA
66 TAGGATTCACAATCTTCAACCTA
* ** * ** * * *
8638284 TTCCACTGCTAATCAGGGAGATAGGAT-TCACAATCTTCAACCTATTCCACTGCTGAC-CAGAGA
1 CTCCACTGCTGCTCAGGGAGATAAGATCT-GTAATCTTCAACTTACTCCACTGCTG-CTCAGGGA
*
8638347 GATAGGACTCACAATCTTCAACCTA
64 GATAGGATTCACAATCTTCAACCTA
* * * *
8638372 TTCCACTGCTGAC-CAGGGAGATAGGAT-TG--A----C--C-TATTCCACTACTGAC-CAGGGA
1 CTCCACTGCTG-CTCAGGGAGATAAGATCTGTAATCTTCAACTTACTCCACTGCTG-CTCAGGGA
8638425 GATAGGACTT-ACAATCTTCAACCTA
64 GATAGGA-TTCACAATCTTCAACCTA
* * * ** * * * * *
8638450 TTCCACTGCTGAC-CAGTGAGATAAG-GCTAGT-GGCTT-AAATCTGCTTCC-CTACTAC-CTTG
1 CTCCACTGCTG-CTCAGGGAGATAAGATCT-GTAATCTTCAACT-TAC-TCCACTGCTGCTC-AG
* * ** * * *
8638509 GAAAGATAAGATTCACCGTCTTCGATCTG
61 G-GAGATAGGATTCACAATCTTCAACCTA
* * * * * * *
8638538 CTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTGCTCAAGGAGA
1 CTCCACTGCTGCTCAGGGAGATAAGATCTGTAATCTTCAACTTACTCCACTGCTGCTCAGGGAGA
8638603 TAGGATTCACAATCTTCAACCTA
66 TAGGATTCACAATCTTCAACCTA
* * * * ** * * *
8638626 TTCCACTGCTAAC-CAGGGAGATAGGGT-TCACAATCTTCAACCTATTCCACTGTTGAC-CAGGG
1 CTCCACTGCT-GCTCAGGGAGATAAGATCT-GTAATCTTCAACTTACTCCACTGCTG-CTCAGGG
*
8638688 AGATAGGACTT-ACAATCTTTAACCTA
63 AGATAGGA-TTCACAATCTTCAACCTA
* * ** * * * *
8638714 TTCCACTGCTGAC-CAGGGAGATAGGA-CTCACAATCTTCAACCTATTCTACTGCTGAC-CATGG
1 CTCCACTGCTG-CTCAGGGAGATAAGATCT-GTAATCTTCAACTTACTCCACTGCTG-CTCAGGG
8638776 AGATAGGATTCAC---C-T--A--T-
63 AGATAGGATTCACAATCTTCAACCTA
* * * *
8638793 -TCCACTACTGAC-CAGGGAGATAGGA-CT-TACAATCTTCAACCTATTCCACTGCTGACT-AGG
1 CTCCACTGCTG-CTCAGGGAGATAAGATCTGT--AATCTTCAACTTACTCCACTGCTG-CTCAGG
* *
8638853 GAGATATGACTCACAATCTTCAACCTA
62 GAGATAGGATTCACAATCTTCAACCTA
* * * ** * *
8638880 TTCCACTGCTGAC-CAGAGAGATAGGAT-TCACAATCTTCAACCTATTCCACTGCTGAC-CAGGG
1 CTCCACTGCTG-CTCAGGGAGATAAGATCT-GTAATCTTCAACTTACTCCACTGCTG-CTCAGGG
* *
8638942 AGGTAAGACTT-ACAATCTTCAACCTA
63 AGATAGGA-TTCACAATCTTCAACCTA
* * **
8638968 TTCTACTGCTGAACAGGGAGATAA
1 CTCCACTGCTGCTCAGGGAGATAA
8638992 AGCTTTGTGA
Statistics
Matches: 880, Mismatches: 170, Indels: 176
0.72 0.14 0.14
Matches are distributed among these distances:
78 191 0.22
79 12 0.01
80 1 0.00
81 3 0.00
82 2 0.00
83 2 0.00
84 2 0.00
85 2 0.00
86 11 0.01
87 42 0.05
88 550 0.62
89 52 0.06
90 10 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (88 bp):
CTCCACTGCTGCTCAGGGAGATAAGATCTGTAATCTTCAACTTACTCCACTGCTGCTCAGGGAGA
TAGGATTCACAATCTTCAACCTA
Found at i:8638068 original size:34 final size:34
Alignment explanation
Indices: 8638025--8638089 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
8638015 ACAATCTTCA
8638025 ACCTATTCCACTGCTGACTAGGGAGATAGGATTC
1 ACCTATTCCACTGCTGACTAGGGAGATAGGATTC
8638059 ACCTATTCCACTGCTGACTAGGGAGATAGGA
1 ACCTATTCCACTGCTGACTAGGGAGATAGGA
8638090 CTTACAATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (34 bp):
ACCTATTCCACTGCTGACTAGGGAGATAGGATTC
Found at i:8638138 original size:254 final size:257
Alignment explanation
Indices: 8637823--8638394 Score: 895
Period size: 254 Copynumber: 2.2 Consensus size: 257
8637813 CACTGTTGCT
* * *
8637823 CAGGGAGATAAGGTC-TACAATCTTCAACCTACTCTACTGCTG-CTCAGGGAGATAAGGCTAGTG
1 CAGGGAGAT-AGGACTTACAATCTTCAACCTATTCCACTGCTGAC-CAGGGAGATAAGGCTAGTG
* *
8637886 GCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTAC
64 GCTTAAATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCACCGTCTTCGATCTGCTCCACTAC
* * *
8637951 TGCTTAGGGAGATAAGATCTGTAATTTTCAACTTACTCCACTGCTGCTCAGGGAGATAGGATTCA
129 TGCTCAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTGCTCAGGGAGATAGGATTCA
*
8638016 CAATCTTCAACCTATTCCACTGCTGA-CTAGGGAGATAGG-A-TTC-ACCTATTCCACTGCTGAC
194 CAATCTTCAACCTATTCCACTGCTAATC-AGGGAGATAGGAACTTCAACCTATTCCACTGCTGAC
* *
8638077 TAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGACCAGTGAGATAAGGCTAGTGGC
1 CAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAAGGCTAGTGGC
8638142 TTAAATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTG
66 TTAAATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTG
8638207 CTCAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTGCTCAGGGAGATAGGATTCACA
131 CTCAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTGCTCAGGGAGATAGGATTCACA
8638272 ATCTTCAACCTATTCCACTGCTAATCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGC
196 ATCTTCAACCTATTCCACTGCTAATCAGGGAGATAGG------AA-CTTCAACCTATTCCACTGC
8638337 TGAC
254 TGAC
* *
8638341 CAGAGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATA
1 CAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATA
8638395 GGATTGACCT
Statistics
Matches: 290, Mismatches: 15, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
253 4 0.01
254 212 0.73
255 2 0.01
261 1 0.00
263 3 0.01
264 68 0.23
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (257 bp):
CAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAAGGCTAGTGGC
TTAAATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTG
CTCAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTGCTCAGGGAGATAGGATTCACA
ATCTTCAACCTATTCCACTGCTAATCAGGGAGATAGGAACTTCAACCTATTCCACTGCTGAC
Found at i:8638391 original size:386 final size:379
Alignment explanation
Indices: 8638025--8638902 Score: 978
Period size: 386 Copynumber: 2.3 Consensus size: 379
8638015 ACAATCTTCA
* *
8638025 ACCTATTCCACTGCTGACTAGGGAGATAGG-A-TTC-ACCTATTCCACTGCTGACTAGGGAGATA
1 ACCTATTCCACTACTGACCAGGGAGATAGGAACTTCAACCTATTCCACTGCTGACTAGGGAGATA
* **
8638087 GGACTTACAATCTTCAACCTATTCCACTGCTGACCAGTGAGATAAGGCT-AGTGGCTTAAATCTG
66 GGACTTACAATCTTCAACCTATTCCACTGCTGACCAGTGAGATAAGACTCACCGGCTTAAATCTG
* * * * *
8638151 CTTCC-CTACTACCTT-GGAAAGATAAGAT-T-CACCGTCTTCGATCTGCTCCACTACTGCTCAG
131 C-TCCACTACTA-CTTAGG-AAGATAAGATCTGCA--ATCTTCAACCTACTCCACTACTGCTCAA
** * *
8638212 GGAGATAAGA-TCTGTAATTTTCAACCTACTCCACTACT-GCTCAGGGAGATAGGATTCACAATC
191 GGAGATAAGATTC-ACAATCTTCAACCTACTCCACTACTAAC-CAGGGAGATAGGATTCACAATC
*
8638275 TTCAACCTATTCCACTGCTAATCAGGGAGATAGGA-TTCACAATCTTCAACCTATTCCACTGCTG
254 TTCAACCTATTCCACTGCTAACCAGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACTGCTG
*
8638339 ACCAGAGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTG
318 ACCAGAGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTC
*
8638401 ACCTATTCCACTACTGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGACCAG
1 ACCTATTCCACTACTGACCAGGGAGATAGG------AA-CTTCAACCTATTCCACTGCTGACTAG
* **** * * * * * *
8638466 TGAGATAAGG-C-TAGTGGCTTAAATCTGCTTCC-CTACT-ACC-TTGGAAAGATAAGATTCACC
59 GGAGAT-AGGACTTACAATCTTCAACCT-ATTCCACTGCTGACCAGT-G--AGATAAGACTCACC
* ** * * *
8638526 GTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTAC
119 GGCTTAAATCTGCTCCACTACTACTTAGGAAGATAAGATCTGCAATCTTCAACCTACTCCACTAC
* * * *
8638591 TGCTCAAGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTAACCAGGGAGATAGGGTTCA
184 TGCTCAAGGAGATAAGATTCACAATCTTCAACCTACTCCACTACTAACCAGGGAGATAGGATTCA
* * *
8638656 CAATCTTCAACCTATTCCACTGTTGACCAGGGAGATAGGACTTACAATCTTTAACCTATTCCACT
249 CAATCTTCAACCTATTCCACTGCTAACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACT
* * *
8638721 GCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCTACTGCTGACCATGGAGATAGGATT
314 GCTGACCAGAGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATT
8638786 C
379 C
8638787 ACCTATTCCACTACTGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGACTAG
1 ACCTATTCCACTACTGACCAGGGAGATAGG------AA-CTTCAACCTATTCCACTGCTGACTAG
* * *
8638852 GGAGATATGACTCACAATCTTCAACCTATTCCACTGCTGACCAGAGAGATA
59 GGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGACCAGTGAGATA
8638903 GGATTCACAA
Statistics
Matches: 416, Mismatches: 58, Indels: 46
0.80 0.11 0.09
Matches are distributed among these distances:
376 28 0.07
383 2 0.00
384 4 0.01
385 18 0.04
386 319 0.77
387 40 0.10
388 5 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (379 bp):
ACCTATTCCACTACTGACCAGGGAGATAGGAACTTCAACCTATTCCACTGCTGACTAGGGAGATA
GGACTTACAATCTTCAACCTATTCCACTGCTGACCAGTGAGATAAGACTCACCGGCTTAAATCTG
CTCCACTACTACTTAGGAAGATAAGATCTGCAATCTTCAACCTACTCCACTACTGCTCAAGGAGA
TAAGATTCACAATCTTCAACCTACTCCACTACTAACCAGGGAGATAGGATTCACAATCTTCAACC
TATTCCACTGCTAACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGACCAGAGA
GATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTC
Found at i:8638408 original size:342 final size:342
Alignment explanation
Indices: 8637977--8638744 Score: 1367
Period size: 342 Copynumber: 2.2 Consensus size: 342
8637967 ATCTGTAATT
* * *
8637977 TTCAACTTACTCCACTGCTG-CTCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTG
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTG
* * *
8638041 ACTAGGGAGATAGGATTCACCTATTCCACTGCTGACTAGGGAGATAGGACTTACAATCTTCAACC
65 ACCAGGGAGATAGGATTCACCTATTCCACTACTGACCAGGGAGATAGGACTTACAATCTTCAACC
8638106 TATTCCACTGCTGACCAGTGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGAAA
130 TATTCCACTGCTGACCAGTGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGAAA
*
8638171 GATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTGTAATTTTCAA
195 GATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTCAGGGAGATAAGATCTGTAATTTTCAA
* *
8638236 CCTACTCCACTACTGCTCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTAATCAGG
260 CCTACTCCACTACTGCTCAAGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTAACCAGG
8638301 GAGATAGGATTCACAATC
325 GAGATAGGATTCACAATC
*
8638319 TTCAACCTATTCCACTGCTGACCAGAGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGA
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGA
*
8638384 CCAGGGAGATAGGATTGACCTATTCCACTACTGACCAGGGAGATAGGACTTACAATCTTCAACCT
66 CCAGGGAGATAGGATTCACCTATTCCACTACTGACCAGGGAGATAGGACTTACAATCTTCAACCT
8638449 ATTCCACTGCTGACCAGTGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGAAAG
131 ATTCCACTGCTGACCAGTGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGAAAG
*
8638514 ATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAAC
196 ATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTCAGGGAGATAAGATCTGTAATTTTCAAC
8638579 CTACTCCACTACTGCTCAAGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTAACCAGGG
261 CTACTCCACTACTGCTCAAGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTAACCAGGG
*
8638644 AGATAGGGTTCACAATC
326 AGATAGGATTCACAATC
* * *
8638661 TTCAACCTATTCCACTGTTGACCAGGGAGATAGGACTTACAATCTTTAACCTATTCCACTGCTGA
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGA
*
8638726 CCAGGGAGATAGGACTCAC
66 CCAGGGAGATAGGATTCAC
8638745 AATCTTCAAC
Statistics
Matches: 406, Mismatches: 19, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
342 405 1.00
343 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (342 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGA
CCAGGGAGATAGGATTCACCTATTCCACTACTGACCAGGGAGATAGGACTTACAATCTTCAACCT
ATTCCACTGCTGACCAGTGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGAAAG
ATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTCAGGGAGATAAGATCTGTAATTTTCAAC
CTACTCCACTACTGCTCAAGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTAACCAGGG
AGATAGGATTCACAATC
Found at i:8638410 original size:34 final size:34
Alignment explanation
Indices: 8638367--8638431 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
8638357 ACAATCTTCA
*
8638367 ACCTATTCCACTGCTGACCAGGGAGATAGGATTG
1 ACCTATTCCACTACTGACCAGGGAGATAGGATTG
8638401 ACCTATTCCACTACTGACCAGGGAGATAGGA
1 ACCTATTCCACTACTGACCAGGGAGATAGGA
8638432 CTTACAATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.22
Consensus pattern (34 bp):
ACCTATTCCACTACTGACCAGGGAGATAGGATTG
Found at i:8638516 original size:122 final size:122
Alignment explanation
Indices: 8638279--8638895 Score: 421
Period size: 122 Copynumber: 4.9 Consensus size: 122
8638269 ACAATCTTCA
* *
8638279 ACCTATTCCACTGCTAATCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAG
1 ACCTATTCCACTACTAACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAG
* * * * *
8638344 AGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTG
66 AGAGATAGGACTCACAAGCTTAAACCTATTCCACTACTGACCAGGAAGATAAGATTG
*
8638401 ACCTATTCCACTACTGACCAGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACTGCTGACCA
1 ACCTATTCCACTACTAACCAGGGAGATAGGA-TTCACAATCTTCAACCTATTCCACTGCTGACCA
* *** * * * *
8638465 GTGAGATAAGG-CT-AGTGGCTTAAATCTGCTTCC-CTACT-ACCTTGGAAAGATAAGATTC
65 GAGAGAT-AGGACTCACAAGCTTAAACCT-ATTCCACTACTGACC-AGG-AAGATAAGATTG
* * ** * *
8638523 ACCGTCTTCGATCTGCTCCACTACT-ACTTAGGGAGATAAGA-TCTGTAATTTTCAACCTACTCC
1 A-C--C-T--A--T--TCCACTACTAAC-CAGGGAGATAGGATTC-ACAATCTTCAACCTATTCC
* * * * * * *
8638586 ACTACTG-CTCA-AGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTAACCAGGGAGATA
54 ACTGCTGAC-CAGA-GAGATAGGACTCACAAGCTTAAACCTATTCCACTACTGACCAGGAAGATA
* *
8638649 GGGTTCACAATCTTCA
117 ------A-GA--TT-G
** * *
8638665 ACCTATTCCACTGTTGACCAGGGAGATAGGACTT-ACAATCTTTAACCTATTCCACTGCTGACCA
1 ACCTATTCCACTACTAACCAGGGAGATAGGA-TTCACAATCTTCAACCTATTCCACTGCTGACCA
* * * * * * *
8638729 GGGAGATAGGACTCACAATCTTCAACCTATTCTACTGCTGACCATGG-AGATAGGATTC
65 GAGAGATAGGACTCACAAGCTTAAACCTATTCCACTACTGACCA-GGAAGATAAGATTG
* *
8638787 ACCTATTCCACTACTGACCAGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACTGCTGACTA
1 ACCTATTCCACTACTAACCAGGGAGATAGGA-TTCACAATCTTCAACCTATTCCACTGCTGACCA
* * * * *
8638851 GGGAGATATGACTCACAATCTTCAACCTATTCCACTGCTGACCAG
65 GAGAGATAGGACTCACAAGCTTAAACCTATTCCACTACTGACCAG
8638896 AGAGATAGGA
Statistics
Matches: 395, Mismatches: 60, Indels: 81
0.74 0.11 0.15
Matches are distributed among these distances:
120 3 0.01
121 15 0.04
122 182 0.46
123 8 0.02
125 2 0.01
126 1 0.00
128 1 0.00
130 2 0.01
131 6 0.02
132 142 0.36
133 19 0.05
134 5 0.01
136 1 0.00
138 2 0.01
139 2 0.01
141 3 0.01
142 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (122 bp):
ACCTATTCCACTACTAACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAG
AGAGATAGGACTCACAAGCTTAAACCTATTCCACTACTGACCAGGAAGATAAGATTG
Found at i:8638804 original size:34 final size:34
Alignment explanation
Indices: 8638753--8638817 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
8638743 ACAATCTTCA
* * *
8638753 ACCTATTCTACTGCTGACCATGGAGATAGGATTC
1 ACCTATTCCACTACTGACCAGGGAGATAGGATTC
8638787 ACCTATTCCACTACTGACCAGGGAGATAGGA
1 ACCTATTCCACTACTGACCAGGGAGATAGGA
8638818 CTTACAATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (34 bp):
ACCTATTCCACTACTGACCAGGGAGATAGGATTC
Found at i:8638856 original size:210 final size:210
Alignment explanation
Indices: 8638577--8638990 Score: 645
Period size: 210 Copynumber: 2.0 Consensus size: 210
8638567 GTAATTTTCA
8638577 ACCTACTCCACTACTGCTCAAGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTAACCAG
1 ACCTACTCCACTACTGCTCAAGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTAACCAG
** * *
8638642 GGAGATAGGGTTCACAATCTTCAACCTATTCCACTGTTGACCAGGGAGATAGGACTT-ACAATCT
66 GGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGAGAGATAGGA-TTCACAATCT
* * *
8638706 TTAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCTACTGCTGAC
130 TCAACCTATTCCACTGCTGACCAGGGAGATAAGACTCACAATCTTCAACCTATTCTACTGCTGAA
*
8638771 CATGGAGATAGGATTC
195 CAGGGAGATAGGATTC
* * * *
8638787 ACCTATTCCACTACTGAC-CAGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACTGCTGACT
1 ACCTACTCCACTACTG-CTCAAGGAGATAGGA-TTCACAATCTTCAACCTATTCCACTGCTAACC
*
8638850 AGGGAGATATGACTCACAATCTTCAACCTATTCCACTGCTGACCAGAGAGATAGGATTCACAATC
64 AGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGAGAGATAGGATTCACAATC
* *
8638915 TTCAACCTATTCCACTGCTGACCAGGGAGGTAAGACTTACAATCTTCAACCTATTCTACTGCTGA
129 TTCAACCTATTCCACTGCTGACCAGGGAGATAAGACTCACAATCTTCAACCTATTCTACTGCTGA
8638980 ACAGGGAGATA
194 ACAGGGAGATA
8638991 AAGCTTTGTG
Statistics
Matches: 186, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
209 2 0.01
210 181 0.97
211 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (210 bp):
ACCTACTCCACTACTGCTCAAGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTAACCAG
GGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGAGAGATAGGATTCACAATCTT
CAACCTATTCCACTGCTGACCAGGGAGATAAGACTCACAATCTTCAACCTATTCTACTGCTGAAC
AGGGAGATAGGATTC
Found at i:8638895 original size:166 final size:166
Alignment explanation
Indices: 8638621--8638943 Score: 522
Period size: 166 Copynumber: 1.9 Consensus size: 166
8638611 ACAATCTTCA
* * *
8638621 ACCTATTCCACTGCTAACCAGGGAGATAGGGTTCACAATCTTCAACCTATTCCACTGTTGACCAG
1 ACCTATTCCACTACTAACCAGGGAGATAGGCTTCACAATCTTCAACCTATTCCACTGCTGACCAG
* * *
8638686 GGAGATAGGACTTACAATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTT
66 GGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGAGAGATAGGACTCACAATCTT
* *
8638751 CAACCTATTCTACTGCTGACCATGGAGATAGGATTC
131 CAACCTATTCCACTGCTGACCAGGGAGATAGGATTC
* *
8638787 ACCTATTCCACTACTGACCAGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACTGCTGACTA
1 ACCTATTCCACTACTAACCAGGGAGATAGG-CTTCACAATCTTCAACCTATTCCACTGCTGACCA
* *
8638851 GGGAGATATGACTCACAATCTTCAACCTATTCCACTGCTGACCAGAGAGATAGGATTCACAATCT
65 GGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGAGAGATAGGACTCACAATCT
8638916 TCAACCTATTCCACTGCTGACCAGGGAG
130 TCAACCTATTCCACTGCTGACCAGGGAG
8638944 GTAAGACTTA
Statistics
Matches: 144, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
166 142 0.99
167 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (166 bp):
ACCTATTCCACTACTAACCAGGGAGATAGGCTTCACAATCTTCAACCTATTCCACTGCTGACCAG
GGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGAGAGATAGGACTCACAATCTT
CAACCTATTCCACTGCTGACCAGGGAGATAGGATTC
Found at i:8638901 original size:122 final size:124
Alignment explanation
Indices: 8638274--8638990 Score: 645
Period size: 132 Copynumber: 5.6 Consensus size: 124
8638264 GATTCACAAT
* *
8638274 CTTCAACCTATTCCACTGCTAATCAGGGAGATAGGA-TTCACAATCTTCAACCTATTCCACTGCT
1 CTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACTGCT
* *
8638338 GACCAGAGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGG-A
65 GA-CAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCATGGAGATAGGAA
* *
8638398 -TT-GACCTATTCCACTACTGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTG
1 CTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTG
* **** * * * * * *
8638461 ACCAGTGAGATAAGG-CT-AGTGGCTTAAATCTGCTTCC-CTACT-ACCTTGGAAAGATAAGATT
66 A-CAGGGAGAT-AGGACTCACAATCTTCAACCT-ATTCCACTGCTGACCATGG--AGATAGGA--
8638522 CA
124 -A
* * ** * * * * *
8638524 CCGTCTTCGATCTGCTCCACTACT-ACTTAGGGAGATAAGATCTGT--AATTTTCAACCTACTCC
1 ----CTTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGA-CT-TACAATCTTCAACCTATTCC
* * * * * *
8638586 ACTACTGCTCAAGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTAACCAGGGAGATAGG
59 ACTGCTG-ACAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCATGGAGATA-G
8638651 GTTCACAA
122 G-----AA
* *
8638659 TCTTCAACCTATTCCACTGTTGACCAGGGAGATAGGACTTACAATCTTTAACCTATTCCACTGCT
1 -CTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCT
*
8638724 GACCAGGGAGATAGGACTCACAATCTTCAACCTATTCTACTGCTGACCATGGAGATAGG-A
65 GA-CAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCATGGAGATAGGAA
*
8638784 -TTC-ACCTATTCCACTACTGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTG
1 CTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTG
*
8638847 ACTAGGGAGATATGACTCACAATCTTCAACCTATTCCACTGCTGACCA-GAGAGATAGGATTCAC
66 AC-AGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCATG-GAGATAGG------
8638911 AA
123 AA
* * *
8638913 TCTTCAACCTATTCCACTGCTGACCAGGGAGGTAAGACTTACAATCTTCAACCTATTCTACTGCT
1 -CTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCT
8638978 GAACAGGGAGATA
65 G-ACAGGGAGATA
8638991 AAGCTTTGTG
Statistics
Matches: 481, Mismatches: 66, Indels: 84
0.76 0.10 0.13
Matches are distributed among these distances:
120 5 0.01
121 14 0.03
122 185 0.38
123 10 0.02
125 1 0.00
126 1 0.00
129 1 0.00
130 1 0.00
131 14 0.03
132 222 0.46
133 19 0.04
134 6 0.01
135 1 0.00
138 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (124 bp):
CTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTG
ACAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACCATGGAGATAGGAA
Found at i:8638990 original size:386 final size:385
Alignment explanation
Indices: 8638231--8638990 Score: 1003
Period size: 386 Copynumber: 2.0 Consensus size: 385
8638221 ATCTGTAATT
*
8638231 TTCAACCTACTCCACTACTGCTCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTAA
1 TTCAACCTACTCCACTACTACTCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTAA
*
8638296 TCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGAGAGATAGGACTCACAA
66 CCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGAGAGATAGGACTCACAA
*
8638361 TCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTGACCTATTCCACTACTGACCAGGGAG
131 TCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACCTATTCCACTACTGACCAGGGAG
* * *** *
8638426 ATAGGACTTACAATCTTCAACCTATTCCACTGCTGACCAGTGAGATAAGGCTAGTGGCTTAAATC
196 ATAGGACTTACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAAGACTACAAGCTTAAACC
* * ** * * * *
8638491 TGCTTCCCTACTACCTTGGAAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTTAGGG
261 TGATTCCCTACTACC-TAGAAAGATAAGATTCACAATCTTCAACCTACTCCACTACTACTCAGGG
* **
8638556 AGATAAGATCTGTAATTTTCAACCTACTCCACTACTGCTCAAGGAGATAGGATTCACAATC
325 AGATAAGATCTGTAATCTTCAACCTACTCCACTACTGAACAAGGAGATAGGATTCACAATC
* * * * *
8638617 TTCAACCTATTCCACTGCTAAC-CAGGGAGATAGGGTTCACAATCTTCAACCTATTCCACTGTTG
1 TTCAACCTACTCCACTACT-ACTCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTA
* *
8638681 ACCAGGGAGATAGGACTT-ACAATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGACTCAC
65 ACCAGGGAGATAGGA-TTCACAATCTTCAACCTATTCCACTGCTGACCAGAGAGATAGGACTCAC
* *
8638745 AATCTTCAACCTATTCTACTGCTGACCATGGAGATAGGATTCACCTATTCCACTACTGACCAGGG
129 AATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACCTATTCCACTACTGACCAGGG
* * * *
8638810 AGATAGGACTTACAATCTTCAACCTATTCCACTGCTGACTAGGGAGATATGACTCACAATCTTCA
194 AGATAGGACTTACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAAGACT-ACAAGCTTAA
* * * * *
8638875 ACCT-ATTCCACTGCTGACC-AGAGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGAC-
258 ACCTGATTCC-CTACT-ACCTAGAAAGATAAGATTCACAATCTTCAACCTACTCCACTACT-ACT
* * * * *
8638937 CAGGGAGGTAAGA-CT-TACAATCTTCAACCTATTCTACTGCTGAACAGGGAGATA
320 CAGGGAGATAAGATCTGT--AATCTTCAACCTACTCCACTACTGAACAAGGAGATA
8638991 AAGCTTTGTG
Statistics
Matches: 323, Mismatches: 43, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
384 1 0.00
385 2 0.01
386 300 0.93
387 17 0.05
388 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (385 bp):
TTCAACCTACTCCACTACTACTCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTAA
CCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGAGAGATAGGACTCACAA
TCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACCTATTCCACTACTGACCAGGGAG
ATAGGACTTACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAAGACTACAAGCTTAAACC
TGATTCCCTACTACCTAGAAAGATAAGATTCACAATCTTCAACCTACTCCACTACTACTCAGGGA
GATAAGATCTGTAATCTTCAACCTACTCCACTACTGAACAAGGAGATAGGATTCACAATC
Found at i:8641471 original size:21 final size:20
Alignment explanation
Indices: 8641418--8641471 Score: 54
Period size: 25 Copynumber: 2.5 Consensus size: 20
8641408 AATGATGTGG
*
8641418 AAGAAAATTCAAAAGAATGA
1 AAGAATATTCAAAAGAATGA
8641438 AAGAATAATTATTCGAAAAGAATGA
1 AAG---AA-TATTC-AAAAGAATGA
8641463 AAGAATATT
1 AAGAATATT
8641472 GGCTCAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
20 3 0.11
21 4 0.14
22 2 0.07
23 2 0.07
24 4 0.14
25 13 0.46
ACGTcount: A:0.59, C:0.04, G:0.15, T:0.22
Consensus pattern (20 bp):
AAGAATATTCAAAAGAATGA
Found at i:8641481 original size:25 final size:25
Alignment explanation
Indices: 8641428--8641493 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
8641418 AAGAAAATTC
* *
8641428 AAAAGAATGAAAGAATAATTATTCG
1 AAAAGAATGAAAGAATAATTACTCA
*
8641453 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
8641478 AAAATGAATGGAAAGA
1 AAAA-GAAT-GAAAGA
8641494 TGTATTTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 22 0.63
26 4 0.11
27 6 0.17
ACGTcount: A:0.56, C:0.05, G:0.20, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:8645949 original size:38 final size:38
Alignment explanation
Indices: 8645907--8646004 Score: 160
Period size: 38 Copynumber: 2.6 Consensus size: 38
8645897 ATGAAGCTTT
8645907 CTAGGCACATAGCCTGATAACATCGGCACAAAGGCCTG
1 CTAGGCACATAGCCTGATAACATCGGCACAAAGGCCTG
* * * *
8645945 CTAGGCATATAGCCTAATAATATCGGCACAAAGGCTTG
1 CTAGGCACATAGCCTGATAACATCGGCACAAAGGCCTG
8645983 CTAGGCACATAGCCTGATAACA
1 CTAGGCACATAGCCTGATAACA
8646005 CCGTATATAC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (38 bp):
CTAGGCACATAGCCTGATAACATCGGCACAAAGGCCTG
Found at i:8657512 original size:13 final size:13
Alignment explanation
Indices: 8657494--8657519 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8657484 GCATTTAACT
8657494 TGTTGGCGAATAG
1 TGTTGGCGAATAG
8657507 TGTTGGCGAATAG
1 TGTTGGCGAATAG
8657520 GTAAACTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.38, T:0.31
Consensus pattern (13 bp):
TGTTGGCGAATAG
Found at i:8658856 original size:20 final size:20
Alignment explanation
Indices: 8658824--8658879 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
8658814 ATTTTGGGGT
*
8658824 GTTAAAATGATTTTAACTTG
1 GTTAAAATCATTTTAACTTG
* *
8658844 GTTGAAATCATTTTGACTTG
1 GTTAAAATCATTTTAACTTG
*
8658864 GTTAAAATCAATTTAA
1 GTTAAAATCATTTTAA
8658880 TTTGATTTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (20 bp):
GTTAAAATCATTTTAACTTG
Found at i:8659568 original size:19 final size:19
Alignment explanation
Indices: 8659544--8659588 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
8659534 TTTATTTGTA
8659544 TTTTATTTGTGTATGTATG
1 TTTTATTTGTGTATGTATG
8659563 TTTTATTTGTGTATGTATG
1 TTTTATTTGTGTATGTATG
8659582 TTTTATT
1 TTTTATT
8659589 GTGGGTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.18, T:0.67
Consensus pattern (19 bp):
TTTTATTTGTGTATGTATG
Found at i:8662210 original size:20 final size:20
Alignment explanation
Indices: 8662185--8662234 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
8662175 TGAACCCTTC
8662185 CATTTACTTACTTTCCATTG
1 CATTTACTTACTTTCCATTG
*
8662205 CATTTACTTACTTTTCATTG
1 CATTTACTTACTTTCCATTG
8662225 CATTTACTTA
1 CATTTACTTA
8662235 ATTTAGCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.22, C:0.22, G:0.04, T:0.52
Consensus pattern (20 bp):
CATTTACTTACTTTCCATTG
Found at i:8663303 original size:45 final size:45
Alignment explanation
Indices: 8663180--8663396 Score: 222
Period size: 45 Copynumber: 4.8 Consensus size: 45
8663170 TCATTTTTCG
* ** * * * * *
8663180 TCGTGTTGCCATAGTGTCTTTCAACCATGGTCTTAATCGTTTGAT
1 TCGTGATGCCATAACGTCTTTCAATCATGGTCTTACTCGATAGAA
* * * * *
8663225 TCGTGATGCCATAGCGCCTTT-TAGCTATTGTCTTACTCGATAGAA
1 TCGTGATGCCATAACGTCTTTCAATC-ATGGTCTTACTCGATAGAA
*
8663270 TCGTGATGCCATAACGTCTTTCAATCATGGTCTTACTTGATAGAA
1 TCGTGATGCCATAACGTCTTTCAATCATGGTCTTACTCGATAGAA
* * * *
8663315 TCGTGATTCCATAACGTCTTTTAGTCATGGTCTTACTTGATAGAA
1 TCGTGATGCCATAACGTCTTTCAATCATGGTCTTACTCGATAGAA
* *
8663360 TTGTGACAG-CATAACGTCTTTCAATCATGGTCTTACT
1 TCGTGA-TGCCATAACGTCTTTCAATCATGGTCTTACT
8663397 TGTTTCTGGT
Statistics
Matches: 145, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
44 2 0.01
45 141 0.97
46 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.38
Consensus pattern (45 bp):
TCGTGATGCCATAACGTCTTTCAATCATGGTCTTACTCGATAGAA
Found at i:8663425 original size:90 final size:90
Alignment explanation
Indices: 8663195--8663398 Score: 259
Period size: 90 Copynumber: 2.3 Consensus size: 90
8663185 TTGCCATAGT
* * * * * * * * * *
8663195 GTCTTTCAACCATGGTCTTAATCGTTTGATTCGTGATGCCATAGCGCCTTTTAG-CTATTGTCTT
1 GTCTTTCAATCATGGTCTTACTTGATAGAATCGTGATTCCATAACGTCTTTTAGTC-ATGGTCTT
*
8663259 ACTCGATAGAATCGTGATGCCATAAC
65 ACTCGATAGAATCGTGAAGCCATAAC
8663285 GTCTTTCAATCATGGTCTTACTTGATAGAATCGTGATTCCATAACGTCTTTTAGTCATGGTCTTA
1 GTCTTTCAATCATGGTCTTACTTGATAGAATCGTGATTCCATAACGTCTTTTAGTCATGGTCTTA
* *
8663350 CTTGATAGAATTGTGACAG-CATAAC
66 CTCGATAGAATCGTGA-AGCCATAAC
8663375 GTCTTTCAATCATGGTCTTACTTG
1 GTCTTTCAATCATGGTCTTACTTG
8663399 TTTCTGGTAT
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
90 97 0.98
91 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (90 bp):
GTCTTTCAATCATGGTCTTACTTGATAGAATCGTGATTCCATAACGTCTTTTAGTCATGGTCTTA
CTCGATAGAATCGTGAAGCCATAAC
Found at i:8668548 original size:14 final size:15
Alignment explanation
Indices: 8668524--8668552 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8668514 TTAGGGGCAT
8668524 TTTTATAATTTTCCA
1 TTTTATAATTTTCCA
8668539 TTTT-TAATTTTCCA
1 TTTTATAATTTTCCA
8668553 CTCGATCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTATAATTTTCCA
Found at i:8668914 original size:64 final size:64
Alignment explanation
Indices: 8668846--8668976 Score: 228
Period size: 64 Copynumber: 2.0 Consensus size: 64
8668836 TAATTTCATC
* *
8668846 AAAAATCAC-TTAACAAAATACTTTTAAATAACAACTAATATTTCAATTTCATGATTTAACATAA
1 AAAAATCACTTTAA-AAAATACTTTTAAATAACAACTAATATTTCAAATTCATCATTTAACATAA
8668910 AAAAATCACTTTAAAAAATACTTTTAAATAACAACTAATATTTCAAATTCATCATTTAACATAA
1 AAAAATCACTTTAAAAAATACTTTTAAATAACAACTAATATTTCAAATTCATCATTTAACATAA
8668974 AAA
1 AAA
8668977 CCACTAGATC
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
64 60 0.94
65 4 0.06
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.34
Consensus pattern (64 bp):
AAAAATCACTTTAAAAAATACTTTTAAATAACAACTAATATTTCAAATTCATCATTTAACATAA
Found at i:8668968 original size:32 final size:33
Alignment explanation
Indices: 8668868--8668973 Score: 89
Period size: 32 Copynumber: 3.3 Consensus size: 33
8668858 ACAAAATACT
* *
8668868 TTTAA-ATAACAACTAATATTTCAATTTCATGA
1 TTTAACATAACAACTAATATTTCAAATTCATCA
* ** *
8668900 TTTAACATAA-AA-AAATCACTTT-AAA-AAATACT
1 TTTAACATAACAACTAAT-A-TTTCAAATTCAT-CA
8668932 TTTAA-ATAACAACTAATATTTCAAATTCATCA
1 TTTAACATAACAACTAATATTTCAAATTCATCA
8668964 TTTAACATAA
1 TTTAACATAA
8668974 AAACCACTAG
Statistics
Matches: 55, Mismatches: 10, Indels: 17
0.67 0.12 0.21
Matches are distributed among these distances:
31 12 0.22
32 27 0.49
33 16 0.29
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.37
Consensus pattern (33 bp):
TTTAACATAACAACTAATATTTCAAATTCATCA
Found at i:8673211 original size:35 final size:36
Alignment explanation
Indices: 8673172--8673256 Score: 102
Period size: 35 Copynumber: 2.4 Consensus size: 36
8673162 GGCTCGGTTA
*
8673172 GACTAGCTCTTATGACCATTGGTATGTTTCGG-AGG
1 GACTAGCTCTTATGACCATTGATATGTTTCGGTAGG
* * * *
8673207 GACTAGCTCTTGTGAGCATTGATGTGTTTCGGTTGG
1 GACTAGCTCTTATGACCATTGATATGTTTCGGTAGG
*
8673243 G-TTAGCTCTTATGA
1 GACTAGCTCTTATGA
8673257 GAATTTCTTG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 39 0.93
36 3 0.07
ACGTcount: A:0.18, C:0.15, G:0.29, T:0.38
Consensus pattern (36 bp):
GACTAGCTCTTATGACCATTGATATGTTTCGGTAGG
Found at i:8682448 original size:7 final size:7
Alignment explanation
Indices: 8682436--8682467 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
8682426 AGTGAGCATC
8682436 GATATGA
1 GATATGA
8682443 GATATGA
1 GATATGA
*
8682450 GATATAA
1 GATATGA
8682457 GATATGA
1 GATATGA
8682464 GATA
1 GATA
8682468 GTGGTGGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (7 bp):
GATATGA
Found at i:8687318 original size:43 final size:43
Alignment explanation
Indices: 8687248--8687369 Score: 133
Period size: 43 Copynumber: 2.8 Consensus size: 43
8687238 AGGCTCGTAA
* * * *
8687248 AATGACAACGTCCCAGATGTGGTCTTACATGTAATCACATA-TC
1 AATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACA-AGTC
*
8687291 GATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACAAGTC
1 AATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACAAGTC
* *
8687334 AATGCCAACGTCCCCGACGTGGTCTTACACGAAAAC
1 AATGCCAACGTCCCAGACGTGGTCTTACACGTAAAC
8687370 CCATATTGGA
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
42 4 0.06
43 59 0.89
44 3 0.05
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (43 bp):
AATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAGTC
Found at i:8691010 original size:25 final size:26
Alignment explanation
Indices: 8690955--8691027 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 26
8690945 AAGTACTGTC
*
8690955 TCGAGCCATATAACAGGAAGCTCATG
1 TCGAGCCATATAACAAGAAGCTCATG
* *
8690981 T-GAGCCATGTAACAAGAAGCTTAT-
1 TCGAGCCATATAACAAGAAGCTCATG
*
8691005 TCGAG-C-TATAACAAGAAACTCAT
1 TCGAGCCATATAACAAGAAGCTCAT
8691028 AAGAGTTTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
23 14 0.35
24 2 0.05
25 23 0.57
26 1 0.03
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (26 bp):
TCGAGCCATATAACAAGAAGCTCATG
Found at i:8691096 original size:24 final size:25
Alignment explanation
Indices: 8691069--8691136 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 25
8691059 TAACGGGTAA
8691069 CTCTGAATAG-C-TATTATCAGGAAG
1 CTCTGAATAGTCATA-TATCAGGAAG
8691093 CTCTGAATAGTCATATATCAGGAAG
1 CTCTGAATAGTCATATATCAGGAAG
* *
8691118 CTCATGAAGAGCCATATAT
1 CTC-TGAATAGTCATATAT
8691137 TGGGACGCTC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 10 0.26
25 14 0.36
26 15 0.38
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (25 bp):
CTCTGAATAGTCATATATCAGGAAG
Found at i:8691133 original size:26 final size:26
Alignment explanation
Indices: 8691083--8691154 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
8691073 GAATAGCTAT
* *
8691083 TATCAGGAAGCTC-TGAATAGTCATA
1 TATCAGGAAGCTCATGAAGAGCCATA
8691108 TATCAGGAAGCTCATGAAGAGCCATA
1 TATCAGGAAGCTCATGAAGAGCCATA
** * *
8691134 TATTGGGACGCTCATAAAGAG
1 TATCAGGAAGCTCATGAAGAG
8691155 TTGAAGTATG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
25 13 0.32
26 27 0.68
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (26 bp):
TATCAGGAAGCTCATGAAGAGCCATA
Found at i:8699493 original size:59 final size:59
Alignment explanation
Indices: 8699424--8699602 Score: 259
Period size: 68 Copynumber: 2.9 Consensus size: 59
8699414 TCAAGTTTGT
*
8699424 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
8699483 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATT---AC-----A-ACAATTAATACAATTAATAATTTGAT
8699548 AAA
57 AAA
*
8699551 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
8699603 AATAATTTGA
Statistics
Matches: 109, Mismatches: 2, Indels: 18
0.84 0.02 0.14
Matches are distributed among these distances:
59 47 0.43
60 1 0.01
62 2 0.02
65 2 0.02
67 1 0.01
68 56 0.51
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.40
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:8699525 original size:9 final size:9
Alignment explanation
Indices: 8699513--8699540 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
8699503 TTTTATTACA
8699513 ACAATTAAT
1 ACAATTAAT
8699522 ACAATTAAT
1 ACAATTAAT
8699531 ACAATTAAT
1 ACAATTAAT
8699540 A
1 A
8699541 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:8699528 original size:68 final size:68
Alignment explanation
Indices: 8699454--8699624 Score: 328
Period size: 68 Copynumber: 2.5 Consensus size: 68
8699444 TTTTGTTACA
8699454 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
8699519 AAT
66 AAT
8699522 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
8699587 AAT
66 AAT
8699590 ACAATT-A-ACAATTAATAATTTGATAAATTTACTAA
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAA
8699625 CAATTAATTT
Statistics
Matches: 103, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
66 28 0.27
67 1 0.01
68 74 0.72
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (68 bp):
ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
AAT
Found at i:8699636 original size:16 final size:16
Alignment explanation
Indices: 8699617--8699654 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
8699607 ATTTGATAAA
*
8699617 TTTACTAACAATTAAT
1 TTTAATAACAATTAAT
*
8699633 TTTAATAACAATTAGT
1 TTTAATAACAATTAAT
8699649 TTTAAT
1 TTTAAT
8699655 TTTATTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (16 bp):
TTTAATAACAATTAAT
Found at i:8734716 original size:147 final size:147
Alignment explanation
Indices: 8734449--8734744 Score: 556
Period size: 147 Copynumber: 2.0 Consensus size: 147
8734439 GGAAAAAAAA
*
8734449 TCCAATTTGATTTATGAGAGTACATATATATAATGGGGTGGATGGTTGGGTTCAGTCAAATTGTG
1 TCCAATTTGATTTATGAGAGTACATATATATAATGGGGTGGATGGTTGGGTTCAATCAAATTGTG
* *
8734514 AGGGTGAAGGTTCTTTGTAACGTTTCGATTTCTAGTGATATCTAAAATTGGTGTTTTGGGATGTC
66 AGGGTGAAGGTTCTTTGTAACGTTTCGATTTCCAGTGATATCTAAAATTGCTGTTTTGGGATGTC
8734579 ATCTCCATAAATCAAGT
131 ATCTCCATAAATCAAGT
8734596 TCCAATTTGATTTATGAGAGTACATATATATAATGGGGTGGATGGTTGGGTTCAATCAAATTGTG
1 TCCAATTTGATTTATGAGAGTACATATATATAATGGGGTGGATGGTTGGGTTCAATCAAATTGTG
*
8734661 AGGGTGAAGGTTCTTTGTAACGTTTCGATTTCCAGTGATATCTGAAATTGCTGTTTTGGGATGTC
66 AGGGTGAAGGTTCTTTGTAACGTTTCGATTTCCAGTGATATCTAAAATTGCTGTTTTGGGATGTC
8734726 ATCTCCATAAATCAAGT
131 ATCTCCATAAATCAAGT
8734743 TC
1 TC
8734745 GTAAATATTA
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
147 145 1.00
ACGTcount: A:0.26, C:0.11, G:0.25, T:0.38
Consensus pattern (147 bp):
TCCAATTTGATTTATGAGAGTACATATATATAATGGGGTGGATGGTTGGGTTCAATCAAATTGTG
AGGGTGAAGGTTCTTTGTAACGTTTCGATTTCCAGTGATATCTAAAATTGCTGTTTTGGGATGTC
ATCTCCATAAATCAAGT
Found at i:8737842 original size:9 final size:9
Alignment explanation
Indices: 8737830--8737932 Score: 64
Period size: 10 Copynumber: 10.7 Consensus size: 9
8737820 TTAAATTTTA
8737830 ATAAAAAAT
1 ATAAAAAAT
8737839 ATAAAAAAT
1 ATAAAAAAT
**
8737848 ACTTAAAATTT
1 A--TAAAAAAT
8737859 ATTAAAAAAT
1 A-TAAAAAAT
8737869 A-AAAAAAT
1 ATAAAAAAT
*
8737877 TTATAAAAAT
1 ATA-AAAAAT
*
8737887 CCTAAAAATAT
1 -ATAAAAA-AT
*
8737898 ATAAAATAT
1 ATAAAAAAT
*
8737907 ATAGAAATAT
1 ATA-AAAAAT
*
8737917 AGAAAAAATT
1 ATAAAAAA-T
8737927 ATAAAA
1 ATAAAA
8737933 TCTTATAAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
8 7 0.09
9 20 0.27
10 37 0.49
11 11 0.15
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:8737855 original size:19 final size:18
Alignment explanation
Indices: 8737833--8737933 Score: 62
Period size: 19 Copynumber: 5.3 Consensus size: 18
8737823 AATTTTAATA
8737833 AAAAATATAAAAAATACTT
1 AAAAATATAAAAAATA-TT
* *
8737852 AAAATTTATTAAAAAATA-A
1 AAAA-ATA-TAAAAAATATT
* **
8737871 AAAAATTTATAAAAATCCT
1 AAAAATATA-AAAAATATT
*
8737890 AAAAATATATAAAATATAT
1 AAAAATATAAAAAATAT-T
*
8737909 AGAAATATAGAAAAA-ATT
1 AAAAATATA-AAAAATATT
8737927 ATAAAAT
1 A-AAAAT
8737934 CTTATAAATT
Statistics
Matches: 62, Mismatches: 13, Indels: 14
0.70 0.15 0.16
Matches are distributed among these distances:
17 2 0.03
18 14 0.23
19 31 0.50
20 6 0.10
21 9 0.15
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAAATATAAAAAATATT
Found at i:8737865 original size:30 final size:29
Alignment explanation
Indices: 8737803--8737876 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 29
8737793 GGAAAAAATG
** *
8737803 ATAAAAAAT-AAAATTTA-TTAAATTTTA
1 ATAAAAAATAAAAAAATACTTAAAATTTA
8737830 ATAAAAAATATAAAAAATACTTAAAATTTA
1 ATAAAAAATA-AAAAAATACTTAAAATTTA
*
8737860 TTAAAAAATAAAAAAAT
1 ATAAAAAATAAAAAAAT
8737877 TTATAAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
27 9 0.22
29 13 0.32
30 18 0.45
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (29 bp):
ATAAAAAATAAAAAAATACTTAAAATTTA
Found at i:8737886 original size:30 final size:31
Alignment explanation
Indices: 8737812--8737886 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 31
8737802 GATAAAAAAT
*
8737812 AAAATTTATTAAATTTTAATAAAAAATATAA
1 AAAATTTATTAAAATTTAATAAAAAATATAA
*
8737843 AAAA--TACTTAAAATTTATTAAAAAATA-AA
1 AAAATTTA-TTAAAATTTAATAAAAAATATAA
*
8737872 AAAATTTATAAAAAT
1 AAAATTTATTAAAAT
8737887 CCTAAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
29 8 0.21
30 24 0.63
31 6 0.16
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (31 bp):
AAAATTTATTAAAATTTAATAAAAAATATAA
Found at i:8737952 original size:39 final size:39
Alignment explanation
Indices: 8737911--8738000 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 39
8737901 AAATATATAG
* **
8737911 AAATATAGAAAAAATTATAAAATCTTAT-AAATTCGTAAGA
1 AAAT-TAGAAAAAAGTA-AAAAAATTATAAAATTCGTAAGA
* *
8737951 AAATTATAAAAAAGTAAAAAAATTATAAAATTCGTAAAA
1 AAATTAGAAAAAAGTAAAAAAATTATAAAATTCGTAAGA
*
8737990 AAATTATAAAA
1 AAATTAGAAAA
8738001 TTATCGTACC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
38 8 0.18
39 32 0.73
40 4 0.09
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (39 bp):
AAATTAGAAAAAAGTAAAAAAATTATAAAATTCGTAAGA
Found at i:8737959 original size:19 final size:19
Alignment explanation
Indices: 8737935--8737999 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
8737925 TTATAAAATC
*
8737935 TTATAAATTCGTAAGAAAA
1 TTATAAATTCGTAAAAAAA
***
8737954 TTATAAAAAAGTAAAAAAA
1 TTATAAATTCGTAAAAAAA
8737973 TTATAAAATTCGTAAAAAAA
1 TTAT-AAATTCGTAAAAAAA
8737993 TTATAAA
1 TTATAAA
8738000 ATTATCGTAC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 22 0.58
20 16 0.42
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (19 bp):
TTATAAATTCGTAAAAAAA
Found at i:8738000 original size:10 final size:10
Alignment explanation
Indices: 8737830--8737980 Score: 56
Period size: 10 Copynumber: 15.6 Consensus size: 10
8737820 TTAAATTTTA
8737830 ATAAAAAA-T
1 ATAAAAAATT
8737839 ATAAAAAA-T
1 ATAAAAAATT
* *
8737848 ACTTAAAATTT
1 A-TAAAAAATT
8737859 ATTAAAAAA-T
1 A-TAAAAAATT
8737869 A-AAAAAATT
1 ATAAAAAATT
*
8737878 -TATAAAAATC
1 ATA-AAAAATT
*
8737888 CT-AAAAA-T
1 ATAAAAAATT
*
8737896 ATATAAAA-T
1 ATAAAAAATT
*
8737905 ATATAGAAATAT
1 ATA-AAAAAT-T
*
8737917 AGAAAAAATT
1 ATAAAAAATT
**
8737927 ATAAAATCTT
1 ATAAAAAATT
8737937 AT---AAATT
1 ATAAAAAATT
*
8737944 CGTAAGAAAATT
1 -ATAA-AAAATT
*
8737956 ATAAAAAAGT
1 ATAAAAAATT
8737966 A-AAAAAATT
1 ATAAAAAATT
8737975 ATAAAA
1 ATAAAA
8737981 TTCGTAAAAA
Statistics
Matches: 104, Mismatches: 22, Indels: 31
0.66 0.14 0.20
Matches are distributed among these distances:
7 3 0.03
8 8 0.08
9 33 0.32
10 36 0.35
11 16 0.15
12 8 0.08
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:8738014 original size:22 final size:20
Alignment explanation
Indices: 8737935--8738002 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
8737925 TTATAAAATC
*
8737935 TTAT-AAATTCGTAAGAAAA
1 TTATAAAATTCGTAAAAAAA
**
8737954 TTATAAAA-AAGTAAAAAAA
1 TTATAAAATTCGTAAAAAAA
8737973 TTATAAAATTCGTAAAAAAA
1 TTATAAAATTCGTAAAAAAA
8737993 TTATAAAATT
1 TTATAAAATT
8738003 ATCGTACCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
19 20 0.48
20 22 0.52
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (20 bp):
TTATAAAATTCGTAAAAAAA
Found at i:8738197 original size:10 final size:10
Alignment explanation
Indices: 8738184--8738263 Score: 65
Period size: 10 Copynumber: 8.0 Consensus size: 10
8738174 TTTTGATGCA
8738184 TTTTATAATT
1 TTTTATAATT
*
8738194 TTTTATGA-T
1 TTTTATAATT
**
8738203 TTTTATAAAA
1 TTTTATAATT
**
8738213 TTTTATAAAA
1 TTTTATAATT
*
8738223 GTTTATATATAT
1 TTTTATA-AT-T
*
8738235 TTTTACAA-T
1 TTTTATAATT
8738244 TTTTATAATT
1 TTTTATAATT
8738254 TTTTATAATT
1 TTTTATAATT
8738264 CTTAATAAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
9 16 0.28
10 34 0.60
11 2 0.04
12 5 0.09
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (10 bp):
TTTTATAATT
Found at i:8738206 original size:19 final size:19
Alignment explanation
Indices: 8738184--8738263 Score: 79
Period size: 19 Copynumber: 4.1 Consensus size: 19
8738174 TTTTGATGCA
*
8738184 TTTTATAATTTTTTATGAT
1 TTTTATAATTTTTTATAAT
** *
8738203 TTTTATAAAATTTTATAAAA
1 TTTTATAATTTTTTAT-AAT
* *
8738223 GTTTATATATATTTTTACAAT
1 TTTTATA-AT-TTTTTATAAT
8738244 TTTTATAATTTTTTATAAT
1 TTTTATAATTTTTTATAAT
8738263 T
1 T
8738264 CTTAATAAAT
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
19 24 0.51
20 9 0.19
21 9 0.19
22 5 0.11
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTATAATTTTTTATAAT
Found at i:8738246 original size:41 final size:39
Alignment explanation
Indices: 8738185--8738261 Score: 100
Period size: 41 Copynumber: 1.9 Consensus size: 39
8738175 TTTGATGCAT
**
8738185 TTTATAATTTTTTATGATTTTTATAAAATTTTATAAAAG
1 TTTATAATTTTTTACAATTTTTATAAAATTTTATAAAAG
**
8738224 TTTATATATATTTTTACAATTTTTATAATTTTTTATAA
1 TTTATA-AT-TTTTTACAATTTTTATAAAATTTTATAA
8738262 TTCTTAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 6 0.19
40 2 0.06
41 24 0.75
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (39 bp):
TTTATAATTTTTTACAATTTTTATAAAATTTTATAAAAG
Found at i:8738259 original size:31 final size:28
Alignment explanation
Indices: 8738183--8738288 Score: 83
Period size: 29 Copynumber: 3.6 Consensus size: 28
8738173 TTTTTGATGC
8738183 ATTTTATAATTTTTTATGATTTTTATAAA
1 ATTTTATAATTTTTTAT-ATTTTTATAAA
* *
8738212 ATTTTATAAAAGTTTATATATATTTTTA-CAA
1 ATTTTAT--AA-TTT-TTTATATTTTTATAAA
* *
8738243 TTTTTATAATTTTTTATAATTCTTA-ATAA
1 ATTTTATAATTTTTTAT-ATTTTTATA-AA
8738272 ATTTTA-AATATTTTTAT
1 ATTTTATAAT-TTTTTAT
8738289 TAAAGTTTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
27 4 0.06
28 12 0.19
29 23 0.37
31 10 0.16
32 10 0.16
33 4 0.06
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (28 bp):
ATTTTATAATTTTTTATATTTTTATAAA
Found at i:8754339 original size:27 final size:27
Alignment explanation
Indices: 8754309--8754404 Score: 88
Period size: 27 Copynumber: 3.6 Consensus size: 27
8754299 GTACACCATC
* * *
8754309 AAGGCATGCCTTTTAGAGTTTTCCACA
1 AAGGCATTCCTTTCAGAGTTTGCCACA
* *
8754336 AAGGCATTCCCTTCAGAGTTTGCCACG
1 AAGGCATTCCTTTCAGAGTTTGCCACA
* * *
8754363 AAGGTATTCCTTTC-GTA-TAATGCCTCA
1 AAGGCATTCCTTTCAG-AGT-TTGCCACA
8754390 AAGGCATTCCTTTCA
1 AAGGCATTCCTTTCA
8754405 TATATTTCCA
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (27 bp):
AAGGCATTCCTTTCAGAGTTTGCCACA
Found at i:8754419 original size:27 final size:27
Alignment explanation
Indices: 8754331--8754419 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
8754321 TTAGAGTTTT
* *
8754331 CCACAAAGGCATTCCCTTCAGAGT-TTG
1 CCACAAAGGCATTCCTTTCATA-TATTG
* * * *
8754358 CCACGAAGGTATTCCTTTCGTATAATG
1 CCACAAAGGCATTCCTTTCATATATTG
* *
8754385 CCTCAAAGGCATTCCTTTCATATATTT
1 CCACAAAGGCATTCCTTTCATATATTG
*
8754412 CCATAAAG
1 CCACAAAG
8754420 ACAATCATTT
Statistics
Matches: 47, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
26 1 0.02
27 46 0.98
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (27 bp):
CCACAAAGGCATTCCTTTCATATATTG
Found at i:8754615 original size:37 final size:37
Alignment explanation
Indices: 8754565--8754650 Score: 136
Period size: 37 Copynumber: 2.3 Consensus size: 37
8754555 CATACATGTA
* *
8754565 AGGTTACTAGTCTAGGCTAAATCTTTAAAACAACAAC
1 AGGTTACCAGTCTAGGCTAAACCTTTAAAACAACAAC
8754602 AGGTTACCAGTCTAGGCTAAACCTTTAAAACAACAAC
1 AGGTTACCAGTCTAGGCTAAACCTTTAAAACAACAAC
* *
8754639 AGATGACCAGTC
1 AGGTTACCAGTC
8754651 CAAACTAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (37 bp):
AGGTTACCAGTCTAGGCTAAACCTTTAAAACAACAAC
Found at i:8754670 original size:37 final size:37
Alignment explanation
Indices: 8754581--8754670 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 37
8754571 CTAGTCTAGG
* * * **
8754581 CTAAATCTTTAAAACAACAACAGGTTACCAGTCTAGG
1 CTAAATCTTTAAAACAACAACAGATGACCAGTCCAAA
*
8754618 CTAAACCTTTAAAACAACAACAGATGACCAGTCCAAA
1 CTAAATCTTTAAAACAACAACAGATGACCAGTCCAAA
* *
8754655 CTAAATTTTTGAAACA
1 CTAAATCTTTAAAACA
8754671 TGTATCTTTG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.23
Consensus pattern (37 bp):
CTAAATCTTTAAAACAACAACAGATGACCAGTCCAAA
Found at i:8764971 original size:27 final size:27
Alignment explanation
Indices: 8764929--8765015 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
8764919 CATCCTGTCA
* * *
8764929 GCCTTTATGGCGTACTTTGAATGAATT
1 GCCTTTGTGGCATACTCTGAATGAATT
*
8764956 GCCTTTGTGGCATACTCT-ATAT-ATATA
1 GCCTTTGTGGCATACTCTGA-ATGA-ATT
* *
8764983 GCCTTTGTGGCATACTCTGTATGGATT
1 GCCTTTGTGGCATACTCTGAATGAATT
8765010 GCCTTT
1 GCCTTT
8765016 ATGGTGTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
26 2 0.04
27 47 0.96
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (27 bp):
GCCTTTGTGGCATACTCTGAATGAATT
Found at i:8765267 original size:81 final size:81
Alignment explanation
Indices: 8765131--8765294 Score: 265
Period size: 81 Copynumber: 2.0 Consensus size: 81
8765121 ATGATTGCTT
*
8765131 TTATGGCGTGCTCTATTAGGCTTATGTGGCATGAACTGTCAAGAATGTCTAGTAAGATATGGGTT
1 TTATGACGTGCTCTATTAGGCTTATGTGGCATGAACTGTCAAGAATGTCTAGTAAGATATGGGTT
**
8765196 TGAATGTATGTCTCTA
66 TGAACATATGTCTCTA
* * *
8765212 TTATGACGTGCTCTATTAGGCTTATGTGGCATGAACTGTCAGGAATGTCTGGTAAGGTATGGGTT
1 TTATGACGTGCTCTATTAGGCTTATGTGGCATGAACTGTCAAGAATGTCTAGTAAGATATGGGTT
*
8765277 TGAACATCTGTCTCTA
66 TGAACATATGTCTCTA
8765293 TT
1 TT
8765295 GTAAGATATG
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.37
Consensus pattern (81 bp):
TTATGACGTGCTCTATTAGGCTTATGTGGCATGAACTGTCAAGAATGTCTAGTAAGATATGGGTT
TGAACATATGTCTCTA
Found at i:8768977 original size:23 final size:25
Alignment explanation
Indices: 8768918--8768974 Score: 89
Period size: 27 Copynumber: 2.2 Consensus size: 25
8768908 TAGAAATATC
8768918 AAAACAAGAATTAAGCACACATAATT
1 AAAACAAGAATTAAGCACACATAA-T
8768944 GAAAACAAGAATTAAGCACACATAA-
1 -AAAACAAGAATTAAGCACACATAAT
8768969 AAAACA
1 AAAACA
8768975 GAAAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 6 0.20
27 24 0.80
ACGTcount: A:0.61, C:0.16, G:0.09, T:0.14
Consensus pattern (25 bp):
AAAACAAGAATTAAGCACACATAAT
Found at i:8780239 original size:31 final size:30
Alignment explanation
Indices: 8780201--8780354 Score: 114
Period size: 31 Copynumber: 5.1 Consensus size: 30
8780191 AAGAAGCCTA
8780201 TATTTGAGCACTTTAAAAAATGTTTGACTCT
1 TATTTGAGCACTTT-AAAAATGTTTGACTCT
* * * * *
8780232 TATTTGAGCAGTTTCAAAAAGGCTTGGCGCT
1 TATTTGAGCACTTT-AAAAATGTTTGACTCT
* *
8780263 TATTTGAGCACTTT-GAAATGTTTGACTAT
1 TATTTGAGCACTTTAAAAATGTTTGACTCT
* * * **
8780292 TATTTGAACAGTTTTGAAAATGTTAAACTCT
1 TATTTGAGCA-CTTTAAAAATGTTTGACTCT
* * ** *
8780323 TATATGAGTA-TTTTGAAATGTTTGGCTCT
1 TATTTGAGCACTTTAAAAATGTTTGACTCT
8780352 TAT
1 TAT
8780355 GTGAACAACC
Statistics
Matches: 94, Mismatches: 27, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
29 35 0.37
30 3 0.03
31 56 0.60
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (30 bp):
TATTTGAGCACTTTAAAAATGTTTGACTCT
Found at i:8780325 original size:60 final size:60
Alignment explanation
Indices: 8780201--8780361 Score: 162
Period size: 60 Copynumber: 2.6 Consensus size: 60
8780191 AAGAAGCCTA
* * **
8780201 TATTTGAGCACTTTAAAAAATGTTTGACTCTTATTTGAGCAGTTTCAAAAAGGCTTGGCGCT
1 TATTTGAGCACTTT--GAAATGTTTGACTCTTATTTGAACAGTTTCAAAAAGGCTTAACGCT
* ** * *
8780263 TATTTGAGCACTTTGAAATGTTTGACTATTATTTGAACAGTTTTGAAAATG-TTAAACTCT
1 TATTTGAGCACTTTGAAATGTTTGACTCTTATTTGAACAGTTTCAAAAAGGCTT-AACGCT
* * * * *
8780323 TATATGAGTATTTTGAAATGTTTGGCTCTTATGTGAACA
1 TATTTGAGCACTTTGAAATGTTTGACTCTTATTTGAACA
8780362 ACCCCTACAA
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
59 2 0.02
60 67 0.81
62 14 0.17
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (60 bp):
TATTTGAGCACTTTGAAATGTTTGACTCTTATTTGAACAGTTTCAAAAAGGCTTAACGCT
Found at i:8782714 original size:19 final size:21
Alignment explanation
Indices: 8782659--8782729 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 21
8782649 ATTTTTTTAT
*
8782659 ATTTTTTAAAAATATAATATTTGA
1 ATTTTTTATAAAT-T-AT-TTTGA
* *
8782683 AATTTTTATAAA-TGTTTTGA
1 ATTTTTTATAAATTATTTTGA
8782703 ATTTTTTA-AAATTATTTTGA
1 ATTTTTTATAAATTATTTTGA
*
8782723 TTTTTTT
1 ATTTTTT
8782730 GTATTTTTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
19 3 0.08
20 25 0.62
21 1 0.03
22 1 0.03
24 10 0.25
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (21 bp):
ATTTTTTATAAATTATTTTGA
Found at i:8784288 original size:8 final size:8
Alignment explanation
Indices: 8784275--8784351 Score: 59
Period size: 8 Copynumber: 9.4 Consensus size: 8
8784265 AACAAAATAA
8784275 TTTAAAAT
1 TTTAAAAT
8784283 TTTAAAAT
1 TTTAAAAT
8784291 TTTAAATAAAT
1 TTT--A-AAAT
8784302 TTT-AAA-
1 TTTAAAAT
*
8784308 TTAATAAAT
1 TTTA-AAAT
*
8784317 TCTAAAAT
1 TTTAAAAT
** *
8784325 GCTAAATT
1 TTTAAAAT
8784333 TTTAAAAT
1 TTTAAAAT
8784341 TTTAAAAT
1 TTTAAAAT
8784349 TTT
1 TTT
8784352 TCATAAAAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
6 2 0.04
7 3 0.05
8 40 0.73
9 2 0.04
10 1 0.02
11 7 0.13
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (8 bp):
TTTAAAAT
Found at i:8789622 original size:41 final size:41
Alignment explanation
Indices: 8789589--8789789 Score: 271
Period size: 41 Copynumber: 4.9 Consensus size: 41
8789579 GATACAATTA
* *
8789589 CATCGGCACGAAGCCTACTAGG-ATAGAGCCTGATATAAAT
1 CATCGGCACGAAGCCTGCTAGGCACAGAGCCTGATATAAAT
* * * *
8789629 CACCGACACGAAGCCTGCTAGGCATAGAGCCTAATATAAAT
1 CATCGGCACGAAGCCTGCTAGGCACAGAGCCTGATATAAAT
* * *
8789670 CATCAGCACGAAGCCTGCCAGGCACAGAGCCTAATATAAAT
1 CATCGGCACGAAGCCTGCTAGGCACAGAGCCTGATATAAAT
* *
8789711 CATCGGCACGAAGCTTGCTAGGCACAGAGCGTGATATAAAT
1 CATCGGCACGAAGCCTGCTAGGCACAGAGCCTGATATAAAT
*
8789752 CA-CTGGCACGAAGCCTACTAGGCACAGAGCCTGATATA
1 CATC-GGCACGAAGCCTGCTAGGCACAGAGCCTGATATA
8789790 TTATCTCAAT
Statistics
Matches: 142, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
40 20 0.14
41 122 0.86
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.17
Consensus pattern (41 bp):
CATCGGCACGAAGCCTGCTAGGCACAGAGCCTGATATAAAT
Found at i:8794929 original size:17 final size:16
Alignment explanation
Indices: 8794909--8794984 Score: 59
Period size: 17 Copynumber: 4.7 Consensus size: 16
8794899 TATTTTAATA
*
8794909 AATTTAATATTACATTT
1 AATTTAATATTATA-TT
8794926 AATTTAATAATTATATT
1 AATTTAAT-ATTATATT
* *
8794943 GATGGT-AT-TT-TATT
1 AAT-TTAATATTATATT
*
8794957 AATTTAATATTAAATTT
1 AATTTAATATTATA-TT
8794974 AATTTAATATT
1 AATTTAATATT
8794985 TATCTTGTAG
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
13 1 0.02
14 8 0.17
15 4 0.09
16 1 0.02
17 27 0.57
18 6 0.13
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (16 bp):
AATTTAATATTATATT
Found at i:8795091 original size:58 final size:60
Alignment explanation
Indices: 8794962--8795096 Score: 163
Period size: 61 Copynumber: 2.3 Consensus size: 60
8794952 TTATTAATTT
* * *
8794962 AATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATTCTATTAATTAAATATATTT
1 AATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATT-AATATATTA
*
8795023 AATATTAAATTTAATCTAATATTTATC-T-T-GATAAGTATTATATTTAATT-A-ATATTA
1 AATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATA-TTAATTAATATATTA
8795079 AACTGATTAAATTTAATC
1 AA-T-ATTAAATTTAATC
8795097 ATAGTTGAAC
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
56 7 0.10
57 2 0.03
58 24 0.36
59 7 0.10
60 1 0.01
61 26 0.39
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (60 bp):
AATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTAATATATTA
Found at i:8814451 original size:20 final size:20
Alignment explanation
Indices: 8814420--8814473 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
8814410 TGCTATACAG
*
8814420 AGGCACCGAAGTGTAAAC-A
1 AGGCACCGAAGTGCAAACAA
*
8814439 AGGACACCAAAGTGCAAACAA
1 AGG-CACCGAAGTGCAAACAA
8814460 AGGCACCGAAGTGC
1 AGGCACCGAAGTGC
8814474 TAACCTGTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.10
20 23 0.77
21 4 0.13
ACGTcount: A:0.43, C:0.24, G:0.26, T:0.07
Consensus pattern (20 bp):
AGGCACCGAAGTGCAAACAA
Found at i:8818768 original size:102 final size:103
Alignment explanation
Indices: 8818592--8818796 Score: 247
Period size: 102 Copynumber: 2.0 Consensus size: 103
8818582 CCACAGCATG
* * *
8818592 TAGCTCAATAGAGCGTTAACTACACCACACCGAGGCACCATAGTGCAAAGCCTGTAGGCACAATA
1 TAGCTCAAAAGAGCGATAACTACACCACACCGAGGCACCATAATGCAAAGCCTGTAGGCACAATA
*
8818657 TCGTATCATGTAATATACCATCCCTCCACCACACCAAA
66 TCATATCATGTAATATACCATCCCTCCACCACACCAAA
* * **
8818695 TAGCTCAAAAGAGTGATAAC-ACACCACATC-AGTGCACCATAATGCAAAGCCCT-TAGGCACTG
1 TAGCTCAAAAGAGCGATAACTACACCACACCGAG-GCACCATAATGCAAAG-CCTGTAGGCACAA
* * * *
8818757 T-TACATGTCATGTATTATATCATCCCTTCACCACACCAAA
64 TAT-CATATCATGTAATATACCATCCCTCCACCACACCAAA
8818797 GTCTCCGTAG
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
101 3 0.03
102 64 0.74
103 20 0.23
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.21
Consensus pattern (103 bp):
TAGCTCAAAAGAGCGATAACTACACCACACCGAGGCACCATAATGCAAAGCCTGTAGGCACAATA
TCATATCATGTAATATACCATCCCTCCACCACACCAAA
Found at i:8822637 original size:4 final size:4
Alignment explanation
Indices: 8822628--8822665 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
8822618 TTAGTTTGTC
*
8822628 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTTT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TT
8822666 TGAAATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTCT
Found at i:8826350 original size:31 final size:31
Alignment explanation
Indices: 8826293--8826440 Score: 143
Period size: 31 Copynumber: 5.0 Consensus size: 31
8826283 ACCAAAAATT
* *
8826293 TATTTTAAAAATTAAAATAAAAATTAAAAAAAG
1 TATTTTAAAAA-T-AATTTAAAATTAAAAAAAG
8826326 TATTTTAAAAATAATTTAAAATTAAAAAAAG
1 TATTTTAAAAATAATTTAAAATTAAAAAAAG
*
8826357 TATTTTAAAAAAAATATT----TT-AAAAAA-
1 TATTTTAAAAATAAT-TTAAAATTAAAAAAAG
* *
8826383 -ATTTTAAAATTAA--AAAAATTAAAAAAAG
1 TATTTTAAAAATAATTTAAAATTAAAAAAAG
* *
8826411 TATTTTAAAAGTATTTTAAAATTAAAAAAA
1 TATTTTAAAAATAATTTAAAATTAAAAAAA
8826441 TAAAAATAAA
Statistics
Matches: 96, Mismatches: 9, Indels: 22
0.76 0.07 0.17
Matches are distributed among these distances:
25 11 0.11
26 2 0.02
27 12 0.12
28 2 0.02
29 11 0.11
31 44 0.46
32 3 0.03
33 11 0.11
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (31 bp):
TATTTTAAAAATAATTTAAAATTAAAAAAAG
Found at i:8826408 original size:17 final size:17
Alignment explanation
Indices: 8826375--8826408 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8826365 AAAAAATATT
**
8826375 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTAAAAAA
8826392 TTAAAAAAATTAAAAAA
1 TTAAAAAAATTAAAAAA
8826409 AGTATTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TTAAAAAAATTAAAAAA
Found at i:8826420 original size:11 final size:11
Alignment explanation
Indices: 8826406--8826431 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8826396 AAAAATTAAA
8826406 AAAAGTATTTT
1 AAAAGTATTTT
8826417 AAAAGTATTTT
1 AAAAGTATTTT
8826428 AAAA
1 AAAA
8826432 TTAAAAAAAT
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:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:8828681 original size:9 final size:9
Alignment explanation
Indices: 8828664--8828738 Score: 53
Period size: 9 Copynumber: 8.2 Consensus size: 9
8828654 TTGGGTAAGT
*
8828664 TTCGAGTAA
1 TTCGGGTAA
8828673 TTCGGGTAA
1 TTCGGGTAA
*
8828682 TTTTCGTGTAA
1 --TTCGGGTAA
***
8828693 TTCAATTAA
1 TTCGGGTAA
**
8828702 TTCGATTAA
1 TTCGGGTAA
*
8828711 TTCGGTTAA
1 TTCGGGTAA
8828720 -TCGGGTAA
1 TTCGGGTAA
8828728 TTCGGGTAA
1 TTCGGGTAA
8828737 TT
1 TT
8828739 TTTAACCAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
8 7 0.13
9 40 0.73
11 8 0.15
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:8828681 original size:20 final size:20
Alignment explanation
Indices: 8828656--8828695 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8828646 CGAACTTTTT
8828656 GGGTAAGTTTCGAGTAATTC
1 GGGTAAGTTTCGAGTAATTC
* *
8828676 GGGTAATTTTCGTGTAATTC
1 GGGTAAGTTTCGAGTAATTC
8828696 AATTAATTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.10, G:0.28, T:0.40
Consensus pattern (20 bp):
GGGTAAGTTTCGAGTAATTC
Done.