Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 99 of 325
Found at i:31863023 original size:7 final size:7
Alignment explanation
Indices: 31863011--31863181 Score: 111
Period size: 7 Copynumber: 23.1 Consensus size: 7
31863001 AATTATACAT
31863011 AATAATA
1 AATAATA
31863018 AATAATA
1 AATAATA
31863025 AATAATA
1 AATAATA
31863032 AATAAT-
1 AATAATA
31863038 -ATAATA
1 AATAATA
*
31863044 TATAATA
1 AATAATA
31863051 ACATAA-A
1 A-ATAATA
31863058 AATAATA
1 AATAATA
31863065 TAATGAATA
1 -AAT-AATA
31863074 ATATATATA
1 A-ATA-ATA
*
31863083 ATAAAATGA
1 A-ATAAT-A
*
31863092 TATAATA
1 AATAATA
*
31863099 TATAATAA
1 AATAAT-A
31863107 AATATATA
1 AATA-ATA
31863115 AATAAAATA
1 AAT--AATA
*
31863124 TATAATA
1 AATAATA
31863131 AA-ATATA
1 AATA-ATA
31863138 AATAATA
1 AATAATA
31863145 TAATAA-A
1 -AATAATA
31863152 TAATACATA
1 -AATA-ATA
31863161 AATAA-A
1 AATAATA
31863167 AATAATA
1 AATAATA
*
31863174 TATAATA
1 AATAATA
31863181 A
1 A
31863182 TTTTTTACAT
Statistics
Matches: 136, Mismatches: 9, Indels: 38
0.74 0.05 0.21
Matches are distributed among these distances:
5 5 0.04
6 11 0.08
7 63 0.46
8 34 0.25
9 22 0.16
10 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (7 bp):
AATAATA
Found at i:31863119 original size:45 final size:42
Alignment explanation
Indices: 31863013--31863180 Score: 120
Period size: 45 Copynumber: 4.0 Consensus size: 42
31863003 TTATACATAA
*
31863013 TAAT-AAATAATAAATAATA-AATAATATAATATATAATAACATAA
1 TAATAAAATAATAAATAATATAATAA-ATAA-ATAT-ATAATAT-A
* * *
31863057 AAATAATATAATGAATAATAT-ATATAATAAAATGATATAATATA
1 TAATAAAATAATAAATAATATAATA-AAT-AAAT-ATATAATATA
*
31863101 TAATAAAATATATAAATAAAAT-ATATAATAAA-ATATAAATAATA
1 TAATAAAATA-ATAAATAATATAATA-AATAAATATAT-AAT-ATA
*
31863145 TAAT-AAATAATACATAA-ATAA-AAAT-AATATATAATA
1 TAATAAAATAATAAATAATATAATAAATAAATATATAATA
31863181 ATTTTTTACA
Statistics
Matches: 105, Mismatches: 9, Indels: 26
0.75 0.06 0.19
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 7 0.07
41 3 0.03
42 12 0.11
43 8 0.08
44 22 0.21
45 42 0.40
46 5 0.05
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (42 bp):
TAATAAAATAATAAATAATATAATAAATAAATATATAATATA
Found at i:31863143 original size:80 final size:77
Alignment explanation
Indices: 31863011--31863181 Score: 215
Period size: 80 Copynumber: 2.2 Consensus size: 77
31863001 AATTATACAT
* * *
31863011 AATAATAAATAAT-AAATAATAAATAATATAATATATAATAACATAAAAATAATATAATGAATAA
1 AATAATATATAATAAAATAATAAATAATATAATATATAATAAAATAAAAATAATATAATAAATAA
*
31863075 TATATATAATAAAA
66 TACATA-AAT-AAA
*
31863089 TGATATAATATATAATAAAATATATAAAT-A-A-AATATATAATAAAATATAAATAATATAATAA
1 --A-ATAATATATAATAAAATA-ATAAATAATATAATATATAATAAAATAAAAATAATATAATAA
31863151 ATAATACATAAATAAA
62 ATAATACATAAATAAA
31863167 AATAATATATAATAA
1 AATAATATATAATAA
31863182 TTTTTTACAT
Statistics
Matches: 83, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
75 14 0.17
76 1 0.01
78 3 0.04
79 3 0.04
80 38 0.46
81 12 0.14
82 6 0.07
83 6 0.07
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (77 bp):
AATAATATATAATAAAATAATAAATAATATAATATATAATAAAATAAAAATAATATAATAAATAA
TACATAAATAAA
Found at i:31863235 original size:9 final size:9
Alignment explanation
Indices: 31863206--31863262 Score: 53
Period size: 9 Copynumber: 6.0 Consensus size: 9
31863196 AAATAATGTT
31863206 TATAGTAAAA
1 TATA-TAAAA
31863216 TA-ATAATAA
1 TATATAA-AA
31863225 TATATAAAA
1 TATATAAAA
*
31863234 TATTTAAAA
1 TATATAAAA
*
31863243 TAAATAAATTA
1 TATATAAA--A
31863254 TATATAAAA
1 TATATAAAA
31863263 AATTTAAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
8 3 0.08
9 22 0.56
10 6 0.15
11 8 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (9 bp):
TATATAAAA
Found at i:31863267 original size:29 final size:27
Alignment explanation
Indices: 31863211--31863271 Score: 86
Period size: 29 Copynumber: 2.2 Consensus size: 27
31863201 ATGTTTATAG
*
31863211 TAAAATAATAATAATATATAAAATATT
1 TAAAATAATAATAATATATAAAAAATT
*
31863238 TAAAATAAATAAATTATATATAAAAAATT
1 TAAAAT-AAT-AATAATATATAAAAAATT
31863267 TAAAA
1 TAAAA
31863272 GGGATTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 6 0.20
28 3 0.10
29 21 0.70
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (27 bp):
TAAAATAATAATAATATATAAAAAATT
Found at i:31866640 original size:12 final size:13
Alignment explanation
Indices: 31866618--31866649 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
31866608 TTTGTTAAGT
31866618 AATTATTATTTAA
1 AATTATTATTTAA
31866631 AATT-TTATTTAA
1 AATTATTATTTAA
31866643 AA-TATTA
1 AATTATTA
31866650 GTATTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.06
12 13 0.72
13 4 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
AATTATTATTTAA
Found at i:31870315 original size:27 final size:27
Alignment explanation
Indices: 31870274--31870356 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
31870264 CTCTCAAATC
* *
31870274 TGTAGGCTAGTATTACTGAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
*
31870301 TGTAGGGTAGAATTACTGAAATGTCCC-
1 TGTAGGGTAGAATTACTGAAAT-ACCCT
* *
31870328 TGGAGGGTAGAATTATTGAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCT
31870355 TG
1 TG
31870357 GTTTACAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.06
27 42 0.88
28 3 0.06
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (27 bp):
TGTAGGGTAGAATTACTGAAATACCCT
Found at i:31870368 original size:27 final size:27
Alignment explanation
Indices: 31870338--31870712 Score: 251
Period size: 27 Copynumber: 13.9 Consensus size: 27
31870328 TGGAGGGTAG
* * *
31870338 AATTATTGAAATACCCTTGGTTTACAA
1 AATTATCGAAATACCCTTGATTTGCAA
* *
31870365 AATTA-CTG-AATACCCTTGGTTTACAA
1 AATTATC-GAAATACCCTTGATTTGCAA
* * * * *
31870391 AATTACCAAAATACCCTCGATTAGAAA
1 AATTATCGAAATACCCTTGATTTGCAA
* * * *
31870418 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTATCGAAATACCCTTGA-TTTGCAA
* * **
31870445 AATTATCAAAATACCCCTGATTTGTGA
1 AATTATCGAAATACCCTTGATTTGCAA
* * *
31870472 AATTATCGAAATACCCTCGACTTGTAA
1 AATTATCGAAATACCCTTGATTTGCAA
* * *
31870499 AATTATCGAAATACCCTCGACTTGTAA
1 AATTATCGAAATACCCTTGATTTGCAA
* * * * *
31870526 AATTATTGAAATACCATCGATTCGTAA
1 AATTATCGAAATACCCTTGATTTGCAA
* * *
31870553 AATTACCAAAATACCCTTGATTTGGAA
1 AATTATCGAAATACCCTTGATTTGCAA
* * *
31870580 AATTAGCAAAATACCCTTAATTTAG-AA
1 AATTATCGAAATACCCTTGATTT-GCAA
* * * *
31870607 AATTATAGAAATACCCCTAATTTACAA
1 AATTATCGAAATACCCTTGATTTGCAA
31870634 AATTA-CAGAAATACCCTTGACTTT-CAAA
1 AATTATC-GAAATACCCTTGA-TTTGC-AA
* *
31870662 AATTA-CAGAAATACCATTGGTTTGCAA
1 AATTATC-GAAATACCCTTGATTTGCAA
* *
31870689 AATTATCGAAATACACTTGGTTTG
1 AATTATCGAAATACCCTTGATTTG
31870713 TAGATTTACC
Statistics
Matches: 293, Mismatches: 43, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
26 24 0.08
27 242 0.83
28 27 0.09
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTATCGAAATACCCTTGATTTGCAA
Found at i:31871021 original size:41 final size:41
Alignment explanation
Indices: 31870976--31871094 Score: 193
Period size: 41 Copynumber: 2.9 Consensus size: 41
31870966 GAAAAAATTG
31870976 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
*
31871017 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCAATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
* * * *
31871058 AGGATTGTAGGGTTGCTTGACGATCGTGGATCCACCG
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
31871095 GTGGCTTTTA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (41 bp):
AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
Found at i:31871288 original size:22 final size:22
Alignment explanation
Indices: 31871236--31871300 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
31871226 GCCAATTATT
**
31871236 CTGATTATGGCTTTGCACCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
31871258 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
31871280 CTGATTATGG-TTGTGTGCCAA
1 CTGATTATGGCTT-TGTGCCAA
31871301 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 3 0.08
22 32 0.89
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:31883207 original size:42 final size:41
Alignment explanation
Indices: 31883105--31883257 Score: 135
Period size: 42 Copynumber: 3.7 Consensus size: 41
31883095 GATGCCAATT
** *
31883105 CCATGTCCCAGATGTGGTCTTACATGGGATCTCACATTGATG
1 CCATGTCCCAGATGTGGTCTTACATGAAATCTCA-TTTGATG
* * * * *
31883147 TCATATCCTAGATATGGTCTTATATGAAATCTCATTTCGATG
1 CCATGTCCCAGATGTGGTCTTACATGAAATCTCATTT-GATG
* * ** *
31883189 CCATGTCCCAGACGTGGTCTTACACGAAATCTCATATCAACG
1 CCATGTCCCAGATGTGGTCTTACATGAAATCTCAT-TTGATG
* * *
31883231 CCATATCTCAGATATGGTCTTACATGA
1 CCATGTCCCAGATGTGGTCTTACATGA
31883258 TAACACATAA
Statistics
Matches: 86, Mismatches: 23, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
41 2 0.02
42 83 0.97
43 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (41 bp):
CCATGTCCCAGATGTGGTCTTACATGAAATCTCATTTGATG
Found at i:31883274 original size:84 final size:84
Alignment explanation
Indices: 31883100--31883280 Score: 186
Period size: 84 Copynumber: 2.1 Consensus size: 84
31883090 ATTAAGATGC
* * * ** ** * *
31883100 CAATTCCATGTCCCAGATGTGGTCTTACATGGGATCTCACATTGATGTCATATCCTAGATATGGT
1 CAATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCACATCAACGCCATATCCTAGATATGGT
* * **
31883165 CTTATATGAAATCTCATTT
66 CTTACATGAAATCACATAA
* *
31883184 CGATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCATATCAACGCCATAT-CTCAGATATGG
1 CAATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCACATCAACGCCATATCCT-AGATATGG
31883248 TCTTACATGATAA-CACATAA
65 TCTTACATGA-AATCACATAA
31883268 CAATGCCGATGTC
1 CAATGCC-ATGTC
31883281 ATATCCCAGA
Statistics
Matches: 78, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
83 2 0.03
84 69 0.88
85 7 0.09
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (84 bp):
CAATGCCATGTCCCAGACGTGGTCTTACACGAAATCTCACATCAACGCCATATCCTAGATATGGT
CTTACATGAAATCACATAA
Found at i:31885746 original size:44 final size:44
Alignment explanation
Indices: 31885683--31885811 Score: 204
Period size: 44 Copynumber: 2.9 Consensus size: 44
31885673 TATGTATGAG
*
31885683 GCATTCGAGCTCATTGAGTTGGTCCGAGTTCATTATAGATGCGA
1 GCATCCGAGCTCATTGAGTTGGTCCGAGTTCATTATAGATGCGA
* * * *
31885727 GCATCTGAGCTCGTTGAGTTGGTCTGAGTTAATTATAGATGCGA
1 GCATCCGAGCTCATTGAGTTGGTCCGAGTTCATTATAGATGCGA
*
31885771 GCATCCGAGCTCATTGAGTTGGTCCGAGTTCATTATGGATG
1 GCATCCGAGCTCATTGAGTTGGTCCGAGTTCATTATAGATG
31885812 TGATACATGT
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 75 1.00
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.33
Consensus pattern (44 bp):
GCATCCGAGCTCATTGAGTTGGTCCGAGTTCATTATAGATGCGA
Found at i:31890836 original size:9 final size:9
Alignment explanation
Indices: 31890781--31890847 Score: 55
Period size: 9 Copynumber: 7.0 Consensus size: 9
31890771 AATTTAAAAA
31890781 AAAACTTATAT
1 AAAA-TTAT-T
*
31890792 AACATTATT
1 AAAATTATT
*
31890801 AAAATCATT
1 AAAATTATT
*
31890810 AAATACTA-T
1 AAA-ATTATT
31890819 AAATTATTATT
1 AAA--ATTATT
31890830 AAAATTATT
1 AAAATTATT
31890839 AAAATTATT
1 AAAATTATT
31890848 GCAAAAAAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
9 30 0.64
10 10 0.21
11 7 0.15
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATTATT
Found at i:31893286 original size:128 final size:128
Alignment explanation
Indices: 31893058--31893314 Score: 469
Period size: 128 Copynumber: 2.0 Consensus size: 128
31893048 GATGTGAAAG
* *
31893058 TTAATATAAGCGTGTGTTGTTCATGTCATGTGATAGAGTTTATAATGTGCTAATAATGTGAATAT
1 TTAATATAAGCGTGTGTTGTTCATGTCATGTGATAGAGTTTATAATGAGCTAATAATATGAATAT
*
31893123 ATAGTGAATATGTGCAGAAAATTGATAAGTAAATATGTGATAATAATGTGGATATTTTGGCCT
66 ACAGTGAATATGTGCAGAAAATTGATAAGTAAATATGTGATAATAATGTGGATATTTTGGCCT
* *
31893186 TTAATATAAGCGTGTGTTGTTCATGTCATGTGATAGTGTTTATAATGAGCTAATAATATTAATAT
1 TTAATATAAGCGTGTGTTGTTCATGTCATGTGATAGAGTTTATAATGAGCTAATAATATGAATAT
31893251 ACAGTGAATATGTGCAGAAAATTGATAAGTAAATATGTGATAATAATGTGGATATTTTGGCCT
66 ACAGTGAATATGTGCAGAAAATTGATAAGTAAATATGTGATAATAATGTGGATATTTTGGCCT
31893314 T
1 T
31893315 GTGTTATTAT
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
128 124 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.39
Consensus pattern (128 bp):
TTAATATAAGCGTGTGTTGTTCATGTCATGTGATAGAGTTTATAATGAGCTAATAATATGAATAT
ACAGTGAATATGTGCAGAAAATTGATAAGTAAATATGTGATAATAATGTGGATATTTTGGCCT
Found at i:31897024 original size:18 final size:18
Alignment explanation
Indices: 31897003--31897045 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
31896993 ATAAACTTAA
31897003 ATATGTTATGAATATGTT
1 ATATGTTATGAATATGTT
31897021 ATATGTTATGAATATGTT
1 ATATGTTATGAATATGTT
*
31897039 ACATGTT
1 ATATGTT
31897046 TGCTTAGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (18 bp):
ATATGTTATGAATATGTT
Found at i:31910259 original size:40 final size:40
Alignment explanation
Indices: 31910166--31910305 Score: 246
Period size: 40 Copynumber: 3.5 Consensus size: 40
31910156 TATGTGCATA
31910166 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCC-AAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
31910205 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
31910245 GCATTCGTGTGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
31910285 GCATTCGTGCTGGTTGTTATA
1 GCATTCGTGCGGGTTATTATA
31910306 TCCGAGCCAA
Statistics
Matches: 96, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 36 0.38
40 60 0.62
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:31915049 original size:27 final size:26
Alignment explanation
Indices: 31914997--31915056 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
31914987 ACATATATAT
*
31914997 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
31915023 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
31915050 ATATCTG
1 ATATCTG
31915057 GTAGCCTCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:31921373 original size:29 final size:28
Alignment explanation
Indices: 31921330--31921407 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
31921320 TCATGAGATT
31921330 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
31921360 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
31921387 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
31921408 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:31921674 original size:174 final size:175
Alignment explanation
Indices: 31921360--31921689 Score: 538
Period size: 174 Copynumber: 1.9 Consensus size: 175
31921350 AAATTGTACA
* *
31921360 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* * *
31921425 TGTGCGAACCCAATATATATATTTTTTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTC
66 CGTGCGAACCC-ATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTC
*
31921490 GATTTTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
130 AATTTTGGACAGCGG-AAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
31921537 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
31921602 CGTGC-AACCC-TATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
66 CGTGCGAACCCATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
31921665 ATTTTGGACAGCGGAAAAGGTAAGT
131 ATTTTGGACAGCGGAAAAGGTAAGT
31921690 ACCTTGAGTT
Statistics
Matches: 143, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
173 11 0.08
174 64 0.45
176 5 0.03
177 63 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (175 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
CGTGCGAACCCATATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCA
ATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:31929519 original size:40 final size:40
Alignment explanation
Indices: 31929465--31929698 Score: 353
Period size: 40 Copynumber: 5.9 Consensus size: 40
31929455 GATATAGCTT
* *
31929465 CTCGCTCAAATGCCTTCGGGACTTAGCTCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* * *
31929505 CTCGCACAATTGCCTTCGAGACTTAGCCCGGTTATAATAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* * *
31929545 CTAGCACAATTGCCTTCGGGACTTAGCCCTGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
31929585 CTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
31929625 CTCGCACAAATGCCTTCGAGACTTAGCCCGGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
31929665 CTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
31929699 CAATCCGAAT
Statistics
Matches: 176, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 13 0.07
40 163 0.93
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:31931907 original size:46 final size:46
Alignment explanation
Indices: 31931852--31931958 Score: 162
Period size: 46 Copynumber: 2.3 Consensus size: 46
31931842 AGTGAATTTG
***
31931852 GACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTC-
1 GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCA
*
31931897 GAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCA
1 G-ACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCA
31931944 GACTCAACTCAACGA
1 GACTCAACTCAACGA
31931959 CTTCGGATGC
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
45 1 0.02
46 54 0.96
47 1 0.02
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCA
Found at i:31940939 original size:62 final size:62
Alignment explanation
Indices: 31940870--31940995 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 62
31940860 TTCGAATGAT
*
31940870 ATCCGGGCTAAGTCCCGAAGGCATTTGTGTTATTGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGC
31940932 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGC
31940994 AT
1 AT
31940996 TTGTGCTAGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (62 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGC
Found at i:31940963 original size:22 final size:22
Alignment explanation
Indices: 31940910--31940955 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
31940900 TATTGACTAT
31940910 ATCCGGGCTAAGTCCCGAAGGC
1 ATCCGGGCTAAGTCCCGAAGGC
31940932 ATCCGGGCTAAGTCCCGAAGGC
1 ATCCGGGCTAAGTCCCGAAGGC
31940954 AT
1 AT
31940956 TTGTGCTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.15
Consensus pattern (22 bp):
ATCCGGGCTAAGTCCCGAAGGC
Found at i:31940987 original size:40 final size:40
Alignment explanation
Indices: 31940932--31941113 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
31940922 TCCCGAAGGC
31940932 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
*
31940972 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
*
31941012 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
* *
31941052 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACTAT
*
31941092 ATCC-GGCTAAATCCCGAAGGCA
1 ATCCGGGCTAAGTCCCGAAGGCA
31941114 CTTGGGTTTG
Statistics
Matches: 133, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 16 0.12
40 114 0.86
41 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
Found at i:31942608 original size:46 final size:47
Alignment explanation
Indices: 31942484--31942609 Score: 204
Period size: 46 Copynumber: 2.7 Consensus size: 47
31942474 AATCCGCCCC
*
31942484 TAAGTGAACTCGGACTCAACTCAACGAGC-TC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGA-CTTCGGAGCATTCGCATCCA
*
31942530 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGACTTCGGAGCATTCGCATCCA
31942576 TAAGTGAACTCGGACTCAACTCAACGACTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGACTTCGGA
31942610 TGCTCAACCA
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
46 73 0.97
47 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGACTTCGGAGCATTCGCATCCA
Found at i:31942628 original size:46 final size:45
Alignment explanation
Indices: 31942486--31942628 Score: 125
Period size: 46 Copynumber: 3.1 Consensus size: 45
31942476 TCCGCCCCTA
*
31942486 AGTGAACTCGGACTCAACTCAACGAGC-TC-GA-GCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGA-CTTCGGATGC--TCACCATCC-T
* *** *
31942531 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGACTTCGGATGCTCACCATCC-T
31942577 AAGTGAACTCGGACTCAACTCAACGACTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGACTTCGGATGCTC-ACCATCCT
31942624 AGTGA
1 AGTGA
31942629 CATGTCACTT
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
46 76 0.90
47 3 0.04
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGACTTCGGATGCTCACCATCCT
Found at i:31945566 original size:15 final size:15
Alignment explanation
Indices: 31945548--31945591 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
31945538 ACCAATATTA
*
31945548 AGAAGTCCAAGATAG
1 AGAAATCCAAGATAG
31945563 AGAAATCCAAGATA-
1 AGAAATCCAAGATAG
*
31945577 AGGAAATCTAAGATA
1 A-GAAATCCAAGATA
31945592 CAATATCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 1 0.04
15 25 0.96
ACGTcount: A:0.52, C:0.11, G:0.20, T:0.16
Consensus pattern (15 bp):
AGAAATCCAAGATAG
Found at i:31946808 original size:14 final size:14
Alignment explanation
Indices: 31946791--31946821 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
31946781 CTTTATGAAT
31946791 TTCTTTTTATCACA
1 TTCTTTTTATCACA
31946805 TTCTTTTTATCACA
1 TTCTTTTTATCACA
31946819 TTC
1 TTC
31946822 ACTTAATCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (14 bp):
TTCTTTTTATCACA
Found at i:31948904 original size:16 final size:16
Alignment explanation
Indices: 31948885--31948916 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31948875 AATTGTTTTA
31948885 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
31948901 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
31948917 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:31957125 original size:47 final size:47
Alignment explanation
Indices: 31957073--31957412 Score: 527
Period size: 47 Copynumber: 7.2 Consensus size: 47
31957063 AAGATATGTG
31957073 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* * *
31957120 TATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
31957167 TATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* * *
31957214 TATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
31957261 TATGTGATAAGGCCGAATGGCCAATATGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* * * * * *
31957308 TATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* *
31957355 TATGTGATAAGGTCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
31957402 AATGTGATAAG
1 TATGTGATAAG
31957413 TCCCGAAGGG
Statistics
Matches: 264, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 264 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:31957187 original size:94 final size:94
Alignment explanation
Indices: 31957073--31957412 Score: 581
Period size: 94 Copynumber: 3.6 Consensus size: 94
31957063 AAGATATGTG
* *
31957073 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCTAAT
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAAT
31957138 GGCCGATGTGATGAATGTGAAAGTGTATA
66 GGCCGATGTGATGAATGTGAAAGTGTATA
*
31957167 TATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAAT
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAAT
31957232 GGCCGATGTGATGAATGTGAAAGTGTATA
66 GGCCGATGTGATGAATGTGAAAGTGTATA
* *
31957261 TATGTGATAAGGCCGAATGGCCAATATGATGAATGTGAAAGTGTATATATGAGATAAGACCTAAT
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAAT
* *
31957326 GGCCGATGTGATGGATGTGAAGGTGTATA
66 GGCCGATGTGATGAATGTGAAAGTGTATA
* * * *
31957355 TATGTGATAAGGTCGAATGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGAGATAAG
31957413 TCCCGAAGGG
Statistics
Matches: 233, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 233 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (94 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:31963122 original size:50 final size:50
Alignment explanation
Indices: 31963040--31963236 Score: 162
Period size: 50 Copynumber: 3.9 Consensus size: 50
31963030 AAGACAGTTT
* * * * * * *
31963040 TAGGTCACGTGTGTAGTACTAATTGGAAGCTACTACGTGTACCAGATTGA
1 TAGGTTACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGA
* * * *
31963090 TAGGTTTCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCG-TTAA
1 TAGGTTACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGA
* * * * ** *
31963139 CTTTGATTACGTGTGTAGCACTAAGTGCAGGCTACTATATGTTCCAGATTGA
1 --TAGGTTACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGA
* ** * *
31963191 TACGTCGCATGTGTTGTACTAAGTGCATGCTACTATGCGTACCAGA
1 TAGGTTACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
31963237 GAGCTTCGGT
Statistics
Matches: 110, Mismatches: 34, Indels: 6
0.73 0.23 0.04
Matches are distributed among these distances:
49 3 0.03
50 69 0.63
51 35 0.32
52 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (50 bp):
TAGGTTACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGA
Found at i:31963175 original size:101 final size:101
Alignment explanation
Indices: 31963046--31963233 Score: 259
Period size: 101 Copynumber: 1.9 Consensus size: 101
31963036 GTTTTAGGTC
* * * * * **
31963046 ACGTGTGTAGTACTAATTGGAAGCTACTACGTGTACCAGATTGATAGGTTTCATGTGTAGTACTA
1 ACGTGTGTAGCACTAAGTGCAAGCTACTACATGTACCAGATTGATACGTCGCATGTGTAGTACTA
31963111 AGTGCAGGCTACTATGCATACCCGTTAACTTTGATT
66 AGTGCAGGCTACTATGCATACCCGTTAACTTTGATT
* * * *
31963147 ACGTGTGTAGCACTAAGTGCAGGCTACTATATGTTCCAGATTGATACGTCGCATGTGTTGTACTA
1 ACGTGTGTAGCACTAAGTGCAAGCTACTACATGTACCAGATTGATACGTCGCATGTGTAGTACTA
* *
31963212 AGTGCATGCTACTATGCGTACC
66 AGTGCAGGCTACTATGCATACC
31963234 AGAGAGCTTC
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (101 bp):
ACGTGTGTAGCACTAAGTGCAAGCTACTACATGTACCAGATTGATACGTCGCATGTGTAGTACTA
AGTGCAGGCTACTATGCATACCCGTTAACTTTGATT
Found at i:31964577 original size:20 final size:20
Alignment explanation
Indices: 31964540--31964585 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
31964530 TAGGGACAAA
* *
31964540 AATGAAAAGTTGTAAAATTT
1 AATGAAAACTTCTAAAATTT
*
31964560 AATGAAAACTTCTGAAATTT
1 AATGAAAACTTCTAAAATTT
*
31964580 TATGAA
1 AATGAA
31964586 TACATGTGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.04, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGAAAACTTCTAAAATTT
Found at i:31968047 original size:12 final size:13
Alignment explanation
Indices: 31968011--31968048 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
31968001 AAATATTTGA
31968011 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
31968024 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
31968038 CTTG-TCTTAAT
1 CTTGTTCTTAAT
31968049 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:31973800 original size:7 final size:8
Alignment explanation
Indices: 31973783--31973807 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
31973773 GTTTAAAGAC
31973783 TTTTTATT
1 TTTTTATT
31973791 TTTTTATT
1 TTTTTATT
31973799 TTTTTATT
1 TTTTTATT
31973807 T
1 T
31973808 CCACTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTATT
Found at i:31973864 original size:25 final size:27
Alignment explanation
Indices: 31973823--31973878 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 27
31973813 TTTATCTTTG
31973823 TTTATCTTCTTTAAATACT-TTTT-AT
1 TTTATCTTCTTTAAATACTATTTTAAT
* *
31973848 TTTATTTTCCTTT-AATATTATTTTAAT
1 TTTATCTT-CTTTAAATACTATTTTAAT
31973875 TTTA
1 TTTA
31973879 GGTTCTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 12 0.46
26 8 0.31
27 6 0.23
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTATCTTCTTTAAATACTATTTTAAT
Found at i:31979239 original size:19 final size:18
Alignment explanation
Indices: 31979203--31979249 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
31979193 TAGGCTATTC
31979203 TGGGCCTCGT-TGGGCTAAA
1 TGGG-CTCGTGTGGGCT-AA
31979222 TGGG-TCGTGTGGGTCTAA
1 TGGGCTCGTGTGGG-CTAA
31979240 TGGGCTCGTG
1 TGGGCTCGTG
31979250 GGCCCCACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.16
18 10 0.40
19 11 0.44
ACGTcount: A:0.11, C:0.17, G:0.43, T:0.30
Consensus pattern (18 bp):
TGGGCTCGTGTGGGCTAA
Found at i:31979503 original size:27 final size:27
Alignment explanation
Indices: 31979467--31979518 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
31979457 TTAAGACCCT
*
31979467 GATTTTTAAAATTACCAAAATACCCAC
1 GATTTGTAAAATTACCAAAATACCCAC
31979494 GATTTGTAAAATTACCAAAATACCC
1 GATTTGTAAAATTACCAAAATACCC
31979519 TTGTAGTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (27 bp):
GATTTGTAAAATTACCAAAATACCCAC
Found at i:31979528 original size:27 final size:27
Alignment explanation
Indices: 31979473--31979559 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
31979463 CCCTGATTTT
** *
31979473 TAAAATTACCAAAATACCCACG-ATTTG
1 TAAAATTACCAAAATACCCTTGTA-GTG
31979500 TAAAATTACCAAAATACCCTTGTAGTG
1 TAAAATTACCAAAATACCCTTGTAGTG
* * *
31979527 TAAAATTCCCGAAATACCCTTGTAGGG
1 TAAAATTACCAAAATACCCTTGTAGTG
31979554 TAAAAT
1 TAAAAT
31979560 AACTGTTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTTGTAGTG
Found at i:31983336 original size:27 final size:27
Alignment explanation
Indices: 31983305--31983366 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
31983295 GACCCTGGTT
*
31983305 TGTAAAATTACCAAAATACCCTTGTAG
1 TGTAAAATTACCAAAAGACCCTTGTAG
*
31983332 TGTAAAATTACCGAAAGACCCTTGTAG
1 TGTAAAATTACCAAAAGACCCTTGTAG
*
31983359 GGTAAAAT
1 TGTAAAAT
31983367 AACTATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
TGTAAAATTACCAAAAGACCCTTGTAG
Found at i:31984760 original size:16 final size:17
Alignment explanation
Indices: 31984728--31984760 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
31984718 AAATAAGAAG
31984728 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
31984746 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
31984761 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:31987610 original size:5 final size:5
Alignment explanation
Indices: 31987600--31987631 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
31987590 TGATGCAACT
31987600 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT
31987632 TTTATTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:31991469 original size:19 final size:19
Alignment explanation
Indices: 31991445--31991488 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
31991435 GTTATCGCAT
31991445 AGAGTGAATCTACCTGATG
1 AGAGTGAATCTACCTGATG
31991464 AGAGTGAATCTACCTGATG
1 AGAGTGAATCTACCTGATG
31991483 AGAGTG
1 AGAGTG
31991489 TAGGCCCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.25
Consensus pattern (19 bp):
AGAGTGAATCTACCTGATG
Found at i:31997204 original size:8 final size:8
Alignment explanation
Indices: 31997191--31997226 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
31997181 TGTACGCTTT
31997191 TGAAATTG
1 TGAAATTG
31997199 TGAAATTG
1 TGAAATTG
*
31997207 TGAAGTTG
1 TGAAATTG
*
31997215 TGAAATTA
1 TGAAATTG
31997223 TGAA
1 TGAA
31997227 CATACATGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (8 bp):
TGAAATTG
Found at i:32000025 original size:47 final size:47
Alignment explanation
Indices: 31999908--32000341 Score: 698
Period size: 47 Copynumber: 9.3 Consensus size: 47
31999898 TGTGAATGTA
31999908 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
*
31999957 ATATATGTGATAAGGCCTAATGGCCGATGTGAGGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
32000004 ATATATTTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
32000051 ATATATGTGAT-AGG-CTAATGG-CGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
32000095 ATATATGTGATAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
32000141 ATATATGTGATAAGGCCTAATAG-CGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
32000187 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTTAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
32000234 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * * * ** * *
32000281 ATATATGTGACAGGGCCGAGTGGCTAACGTGATGGATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
32000328 ATAAATGTGATAAG
1 ATATATGTGATAAG
32000342 TCCGAAGGGC
Statistics
Matches: 363, Mismatches: 19, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
44 34 0.09
45 10 0.03
46 100 0.28
47 174 0.48
49 45 0.12
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
Found at i:32000104 original size:25 final size:25
Alignment explanation
Indices: 32000074--32000197 Score: 66
Period size: 25 Copynumber: 5.3 Consensus size: 25
32000064 GCTAATGGCG
32000074 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ***
32000099 ATGTGAT-AAGGCCTAA-TG--GCG
1 ATGTGATGAATGTGAAAGTGTATAT
32000120 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ***
32000145 ATGTGAT-AAGGCCTAA---TAGCG
1 ATGTGATGAATGTGAAAGTGTATAT
32000166 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
32000191 ATGTGAT
1 ATGTGAT
32000198 AAGGCCTAAT
Statistics
Matches: 63, Mismatches: 28, Indels: 16
0.59 0.26 0.15
Matches are distributed among these distances:
21 16 0.25
22 10 0.16
23 4 0.06
24 10 0.16
25 23 0.37
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:32000514 original size:37 final size:37
Alignment explanation
Indices: 32000458--32000536 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
32000448 CCGAGCTCTA
* * * *
32000458 AAGACCCGATGACTACGTGTGGGGATTTTGTTCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
32000495 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
32000532 AAGAC
1 AAGAC
32000537 TTGGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:32001822 original size:40 final size:40
Alignment explanation
Indices: 32001741--32002124 Score: 559
Period size: 39 Copynumber: 9.8 Consensus size: 40
32001731 GAGAATTGAG
32001741 AGTGATATATCCGGGCTAAGT--CGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
32001779 AGTGATATATCCGGGCTAAGTCCCGAAAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
32001819 AGTGATGTATCTGGGCTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
32001859 AGTGATGTATCCGGGCTAAGTTCCG-AGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
32001898 AGTGATATATCCGGGCTAAGT-CCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
32001937 AGTGATATATCCGGGCTAAGT-CCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
32001976 AGTGATGTAT-CGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
32002015 AGTGATATATCCGGGCTAAGTCCCG-AG-GCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
32002053 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
32002093 GGTGTTATATCCGGGCTAGGTCTCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
32002125 ATCATGCTGG
Statistics
Matches: 315, Mismatches: 24, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
38 67 0.21
39 125 0.40
40 123 0.39
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:32002330 original size:25 final size:25
Alignment explanation
Indices: 32002300--32002347 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
32002290 TGTGTATAAC
32002300 GAATGAATAAGA-GCACTATGTGTGT
1 GAATG-ATAAGAGGCACTATGTGTGT
* *
32002325 GAATGATTAGAGGCACTGTGTGT
1 GAATGATAAGAGGCACTATGTGT
32002348 TGCGAATTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (25 bp):
GAATGATAAGAGGCACTATGTGTGT
Found at i:32005955 original size:47 final size:47
Alignment explanation
Indices: 32005893--32006542 Score: 984
Period size: 47 Copynumber: 13.6 Consensus size: 47
32005883 GATAATTGTG
* *
32005893 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
32005940 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
32005987 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
32006034 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
32006081 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
32006128 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
32006175 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
32006224 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC---GTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
32006270 ATGTGAAAGTGTATATGTGATGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATA--T-ATGTG-ATA-A---G----GCCT-AATGGCCGATGTGATGA
32006330 ATGTG-AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
32006376 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
32006423 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
32006470 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
32006517 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
32006543 TCCCGAAGGG
Statistics
Matches: 562, Mismatches: 22, Indels: 38
0.90 0.04 0.06
Matches are distributed among these distances:
44 4 0.01
46 40 0.07
47 398 0.71
48 3 0.01
49 76 0.14
51 1 0.00
52 1 0.00
54 1 0.00
55 3 0.01
56 7 0.01
57 7 0.01
59 9 0.02
60 12 0.02
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:32006304 original size:106 final size:105
Alignment explanation
Indices: 32006175--32006485 Score: 441
Period size: 93 Copynumber: 3.0 Consensus size: 105
32006165 GATGTGATGA
32006175 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
32006240 ATATGTGATAAGGCCTAATGGCCGTGATGAATGTGAAAGTGTAT
62 ATATGTGATAAGGCCTAATGGCCGTGATGAATGTGAAAGTGTAT
* *
32006284 ATGTG-ATGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG-AAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
32006347 GTGATAAGGCCTAATGGCC-----G-ATGTG--A-TG-A-
66 GTGATAAGGCCTAATGGCCGTGATGAATGTGAAAGTGTAT
*
32006376 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
32006441 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 GTGATAAGGCCTAATGGCC---GTGATGAATGTGAAAGTGTAT
32006484 AT
1 AT
32006486 ATGTGACAGG
Statistics
Matches: 181, Mismatches: 5, Indels: 33
0.83 0.02 0.15
Matches are distributed among these distances:
92 5 0.03
93 44 0.24
94 33 0.18
95 1 0.01
97 5 0.03
98 1 0.01
102 1 0.01
103 31 0.17
105 6 0.03
106 42 0.23
107 1 0.01
108 6 0.03
109 5 0.03
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.32
Consensus pattern (105 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGTGATGAATGTGAAAGTGTAT
Found at i:32006325 original size:37 final size:37
Alignment explanation
Indices: 32006284--32006374 Score: 92
Period size: 46 Copynumber: 2.2 Consensus size: 37
32006274 GAAAGTGTAT
32006284 ATGTGATGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGTGTATATATGTGATAAGGCCTAATAGCCG
*
32006321 ATGTGATGAATGTGAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 A--TG-TG-A--T---GTGTATATATGTGATAAGGCCTAATAGCCG
32006367 ATGTGATG
1 ATGTGATG
32006375 AATGTGAAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 18
0.70 0.02 0.29
Matches are distributed among these distances:
37 2 0.05
39 2 0.05
40 3 0.07
41 1 0.02
42 1 0.02
43 3 0.07
44 2 0.05
46 30 0.68
ACGTcount: A:0.30, C:0.09, G:0.30, T:0.32
Consensus pattern (37 bp):
ATGTGATGTGTATATATGTGATAAGGCCTAATAGCCG
Found at i:32006716 original size:37 final size:37
Alignment explanation
Indices: 32006660--32006738 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
32006650 CCGAGCTCTA
* * * *
32006660 AAGACCCGATGACTACGTGTGGGGATTTTGTTCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
32006697 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
32006734 AAGAC
1 AAGAC
32006739 TTGGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:32010052 original size:19 final size:19
Alignment explanation
Indices: 32010028--32010127 Score: 150
Period size: 19 Copynumber: 5.3 Consensus size: 19
32010018 AATCTTTAAG
32010028 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
32010047 GATATGAAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
32010066 GATA--CTATCTTAGATAT
1 GATATGCAATCTTAGATAT
32010083 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
32010102 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
32010123 GATAT
1 GATAT
32010128 TGTAATCTTG
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
17 15 0.21
19 47 0.64
21 11 0.15
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:32010058 original size:36 final size:35
Alignment explanation
Indices: 32010018--32010136 Score: 98
Period size: 36 Copynumber: 3.2 Consensus size: 35
32010008 ATGGAAATAT
32010018 AATCTTTAAGGATATGCAATCTTAGATATGATATGA
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGA
* *
32010054 AATC-TT-AGATATGATACTATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGA
* *
32010090 AATCTTAGATATGATATGCAATCTTGAAGATATGATATTGT
1 AATCTT---TAAGATATGCAATCTT--AGATATGATA-TGA
32010131 AATCTT
1 AATCTT
32010137 GGAGATTTAA
Statistics
Matches: 67, Mismatches: 5, Indels: 17
0.75 0.06 0.19
Matches are distributed among these distances:
33 6 0.09
34 1 0.01
35 2 0.03
36 26 0.39
37 1 0.01
38 6 0.09
40 11 0.16
41 14 0.21
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGA
Found at i:32012974 original size:33 final size:34
Alignment explanation
Indices: 32012912--32013010 Score: 94
Period size: 33 Copynumber: 2.9 Consensus size: 34
32012902 TTACACATTA
** * * *
32012912 CCAGAAACATATGTCAAATTAGAACGTCATATTT
1 CCAGAAACATATACCAGATCAGAAAGTCATATTT
*
32012946 CCA-TAACATATACCAGATCAGAAAGTCATATTT
1 CCAGAAACATATACCAGATCAGAAAGTCATATTT
* * *
32012979 TCAGAAACATATATCATATCA-AAATGTCATAT
1 CCAGAAACATATACCAGATCAGAAA-GTCATAT
32013011 CATATCAGAA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
33 29 0.55
34 24 0.45
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.29
Consensus pattern (34 bp):
CCAGAAACATATACCAGATCAGAAAGTCATATTT
Found at i:32015081 original size:29 final size:28
Alignment explanation
Indices: 32015041--32015124 Score: 91
Period size: 29 Copynumber: 3.0 Consensus size: 28
32015031 AAGCATGTAA
32015041 AAAGAA-AAGAAAAGAAAAATGAAAGAAG
1 AAAGAAGAAGAAAAGAAAAATGAAA-AAG
* * *
32015069 AAAGAAGAAGAAAAGGAAAAGGAAAAAT
1 AAAGAAGAAGAAAAGAAAAATGAAAAAG
*
32015097 AAAGTAAGAA-AAAAAAAGAAATGAAAAA
1 AAAG-AAGAAGAAAAGAA-AAATGAAAAA
32015125 ATGTTAAAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
28 17 0.36
29 30 0.64
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (28 bp):
AAAGAAGAAGAAAAGAAAAATGAAAAAG
Found at i:32015106 original size:36 final size:34
Alignment explanation
Indices: 32015039--32015123 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 34
32015029 GAAAGCATGT
*
32015039 AAAAAGAAAAGAAAAGAAAAATGAAAGAAGAAAG
1 AAAAAGAAAAGAAAAGAAAAATGAAAGAAGAAAA
*
32015073 AAGAAGAAAAGGAAAAGGAAAAAT-AAAGTAAGAAAA
1 AAAAAGAAAA-GAAAA-GAAAAATGAAAG-AAGAAAA
*
32015109 AAAAAGAAATGAAAA
1 AAAAAGAAAAGAAAA
32015124 AATGTTAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
34 9 0.20
35 14 0.32
36 21 0.48
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (34 bp):
AAAAAGAAAAGAAAAGAAAAATGAAAGAAGAAAA
Found at i:32015124 original size:15 final size:14
Alignment explanation
Indices: 32015039--32015125 Score: 56
Period size: 14 Copynumber: 6.1 Consensus size: 14
32015029 GAAAGCATGT
32015039 AAAAAGAAAAGAAAA
1 AAAAAG-AAAGAAAA
*
32015054 GAAAAATGAAAGAAGA
1 -AAAAA-GAAAGAAAA
*
32015070 AAGAAG-AAGAAAA
1 AAAAAGAAAGAAAA
*
32015083 GGAAAAG---GAAAA
1 -AAAAAGAAAGAAAA
* *
32015095 ATAAAGTAAGAAAA
1 AAAAAGAAAGAAAA
32015109 AAAAAGAAATGAAAA
1 AAAAAGAAA-GAAAA
32015124 AA
1 AA
32015126 TGTTAAAGAA
Statistics
Matches: 56, Mismatches: 9, Indels: 13
0.72 0.12 0.17
Matches are distributed among these distances:
11 4 0.07
12 5 0.09
13 6 0.11
14 17 0.30
15 11 0.20
16 12 0.21
17 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.05
Consensus pattern (14 bp):
AAAAAGAAAGAAAA
Found at i:32017003 original size:14 final size:14
Alignment explanation
Indices: 32016984--32017011 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32016974 CCTAAGGTTC
32016984 AACTCCTTCTGAGT
1 AACTCCTTCTGAGT
32016998 AACTCCTTCTGAGT
1 AACTCCTTCTGAGT
32017012 CAGTAGATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (14 bp):
AACTCCTTCTGAGT
Found at i:32020043 original size:17 final size:19
Alignment explanation
Indices: 32020021--32020055 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
32020011 TATGTGTATA
32020021 GTAAGTA-AAAT-TTTAAG
1 GTAAGTATAAATATTTAAG
32020038 GTAAGTATAAATATTTAA
1 GTAAGTATAAATATTTAA
32020056 TTTAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (19 bp):
GTAAGTATAAATATTTAAG
Found at i:32020715 original size:23 final size:22
Alignment explanation
Indices: 32020676--32020785 Score: 95
Period size: 23 Copynumber: 5.0 Consensus size: 22
32020666 GGGTTTACCG
32020676 ATCAGGCACTTATGTGTCGTAT
1 ATCAGGCACTTATGTGTCGTAT
32020698 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCAC-TTATGTGTCGTAT
* *
32020721 TTCAGGTACCTCT-TGTGTC--AT
1 ATCAGGCA-CT-TATGTGTCGTAT
* * *
32020742 ATCAGGCACCT-GGTAT-GTCAT
1 ATCAGGCACTTATGTGTCGT-AT
*
32020763 TTCAGGCACTTATGTGTCGTAT
1 ATCAGGCACTTATGTGTCGTAT
32020785 A
1 A
32020786 CTGATCAGGT
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
19 4 0.06
20 1 0.01
21 19 0.28
22 14 0.21
23 28 0.41
24 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (22 bp):
ATCAGGCACTTATGTGTCGTAT
Found at i:32020752 original size:21 final size:21
Alignment explanation
Indices: 32020696--32020771 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
32020686 TATGTGTCGT
*
32020696 ATATCAGGCA-CTTTATGTGTC
1 ATATCAGGCACCTCT-TGTGTC
* *
32020717 GTATTTCAGGTACCTCTTGTGTC
1 --ATATCAGGCACCTCTTGTGTC
** *
32020740 ATATCAGGCACCTGGTATGTC
1 ATATCAGGCACCTCTTGTGTC
*
32020761 ATTTCAGGCAC
1 ATATCAGGCAC
32020772 TTATGTGTCG
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
21 26 0.60
23 14 0.33
24 3 0.07
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (21 bp):
ATATCAGGCACCTCTTGTGTC
Found at i:32026345 original size:16 final size:16
Alignment explanation
Indices: 32026306--32026346 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
32026296 TAACCCAAAT
32026306 TAAATTAGATTAAATTA
1 TAAATTA-ATTAAATTA
*
32026323 -AAATTAATTATATTA
1 TAAATTAATTAAATTA
32026338 TAAATTAAT
1 TAAATTAAT
32026347 ACACATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
TAAATTAATTAAATTA
Found at i:32029407 original size:25 final size:26
Alignment explanation
Indices: 32029378--32029433 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
32029368 TTAATCAGTA
*
32029378 TAAAATATTAA-TAATTCAAT-AAAT
1 TAAAATATTAATTAATTAAATAAAAT
32029402 TGAAAA-ATTAATTAATTAAATAAAAT
1 T-AAAATATTAATTAATTAAATAAAAT
32029428 TAAAAT
1 TAAAAT
32029434 TTAGGAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 6 0.22
25 16 0.59
26 5 0.19
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (26 bp):
TAAAATATTAATTAATTAAATAAAAT
Found at i:32048372 original size:49 final size:49
Alignment explanation
Indices: 32048312--32048523 Score: 174
Period size: 49 Copynumber: 4.4 Consensus size: 49
32048302 GTCAATGCTG
*
32048312 TGTCCTAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATGCCA
* ** * *
32048361 TGTCCCAGACAGGTCTTACATTGGGTCTCATCTATCG-GTG-TCGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GCT-GATGCCA
* * * * *
32048410 TGTCCCAGACAGGTCTTACACTGAC--ACACA-A-C-AAGTTGACGCCA
1 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATGCCA
* **
32048454 TGTCCCAAACAGGTCTTACACT-AGCTTGT-ATATCCCGAGGCTGATG-CA
1 TGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCGAGGCTGATGCCA
* *
32048502 TGCCCCAGACATGTCTTACACT
1 TGTCCCAGACAGGTCTTACACT
32048524 AGCTCTTGTC
Statistics
Matches: 128, Mismatches: 24, Indels: 23
0.73 0.14 0.13
Matches are distributed among these distances:
43 1 0.01
44 29 0.23
45 2 0.02
46 3 0.02
47 2 0.02
48 24 0.19
49 67 0.52
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (49 bp):
TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATGCCA
Found at i:32051409 original size:43 final size:43
Alignment explanation
Indices: 32051345--32051431 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 43
32051335 ATATCTGATT
*
32051345 TCGATATGTGTGTACGAGTAAGACCCTGTCTAGGACAG-TGGCA
1 TCGATATGTGTGTACGAGTAAGACCATGTCTAGGAC-GTTGGCA
*
32051388 TCGATATGTG-GCTAC-ATGTAAGACCATGTCTGGGACGTTGGCA
1 TCGATATGTGTG-TACGA-GTAAGACCATGTCTAGGACGTTGGCA
32051431 T
1 T
32051432 TGTATGATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 36 0.92
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (43 bp):
TCGATATGTGTGTACGAGTAAGACCATGTCTAGGACGTTGGCA
Found at i:32055261 original size:36 final size:35
Alignment explanation
Indices: 32055214--32055303 Score: 103
Period size: 36 Copynumber: 2.5 Consensus size: 35
32055204 TTTTTAATGT
*
32055214 TTTTTCC-TTTCTCTTTTTTCTTCCTTTATT-TTTCC
1 TTTTTCCTTTTCTCTTTTTTCTT-ATTTATTCTTT-C
*
32055249 TTTTTCCTTTTCTCTTTTCTTCTTATTTCTTCTTTC
1 TTTTTCCTTTTCTCTTTT-TTCTTATTTATTCTTTC
* *
32055285 TTTTTCATTTTTTCTTTTT
1 TTTTTCCTTTTCTCTTTTT
32055304 ATGTGCTTCC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
35 8 0.17
36 32 0.67
37 8 0.17
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.74
Consensus pattern (35 bp):
TTTTTCCTTTTCTCTTTTTTCTTATTTATTCTTTC
Found at i:32055289 original size:43 final size:43
Alignment explanation
Indices: 32055221--32055302 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
32055211 TGTTTTTTCC
* *
32055221 TTTCTCTTTTTTCTTCCTTTATTTTTCCTTTTTCCTTTTCTCT
1 TTTCTCTTATTTCTTCCTTTATTTTTCATTTTTCCTTTTCTCT
* *
32055264 TTTCTTCTTATTTCTT-CTTTCTTTTTCATTTTTTCTTTT
1 TTTC-TCTTATTTCTTCCTTTATTTTTCATTTTTCCTTTT
32055303 TATGTGCTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 24 0.71
44 10 0.29
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (43 bp):
TTTCTCTTATTTCTTCCTTTATTTTTCATTTTTCCTTTTCTCT
Found at i:32055298 original size:8 final size:7
Alignment explanation
Indices: 32055213--32055303 Score: 67
Period size: 7 Copynumber: 12.7 Consensus size: 7
32055203 TTTTTTAATG
32055213 TTTTTTC
1 TTTTTTC
* *
32055220 CTTTCTC
1 TTTTTTC
32055227 TTTTTTC
1 TTTTTTC
* *
32055234 TTCCTTTA
1 TT-TTTTC
*
32055242 TTTTTCC
1 TTTTTTC
*
32055249 TTTTTCC
1 TTTTTTC
*
32055256 TTTTCTC
1 TTTTTTC
32055263 TTTTCTTC
1 TTTT-TTC
*
32055271 TTATTTC
1 TTTTTTC
*
32055278 TTCTTTC
1 TTTTTTC
32055285 -TTTTTC
1 TTTTTTC
32055291 ATTTTTTC
1 -TTTTTTC
32055299 TTTTT
1 TTTTT
32055304 ATGTGCTTCC
Statistics
Matches: 65, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
6 5 0.08
7 44 0.68
8 16 0.25
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTTC
Found at i:32078800 original size:47 final size:47
Alignment explanation
Indices: 32078740--32078896 Score: 206
Period size: 47 Copynumber: 3.3 Consensus size: 47
32078730 ACAGTAATGC
***
32078740 AGATAAACTGCCACTTAATAATATTGAAAACAAGCCACCACTTTTGT
1 AGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTTTGT
* * * *
32078787 AAATAAACCGCCACTTAATAAAATTGTGGACAAGCCACCACTTTTGC
1 AGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTTTGT
* * * *
32078834 AGATAAACTGCCACTTTATAATAATGTGGGCAAGCCACCATTTTTGT
1 AGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTTTGT
*
32078881 AGATAAACTACCACTT
1 AGATAAACTGCCACTT
32078897 CTTCCTCCTT
Statistics
Matches: 94, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 94 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (47 bp):
AGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTTTGT
Found at i:32078966 original size:20 final size:20
Alignment explanation
Indices: 32078941--32078980 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32078931 GATTGGCTAC
* *
32078941 AAAAATCACTTTTTCACTTT
1 AAAAATCAATATTTCACTTT
32078961 AAAAATCAATATTTCACTTT
1 AAAAATCAATATTTCACTTT
32078981 GGCATGTGAG
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:0.40, C:0.17, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAAATCAATATTTCACTTT
Found at i:32080750 original size:48 final size:48
Alignment explanation
Indices: 32080679--32080893 Score: 213
Period size: 48 Copynumber: 4.8 Consensus size: 48
32080669 CATTAGGGTT
32080679 ATATGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCG
* *
32080727 ATATGAGATCCCATGGAAGACCATGT-T------TGG----GACAT-G
1 ATATGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCG
* * *
32080763 ATATGAGATCCCACGTAAGACCATGTCTGGGACATGGAATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCG
* * *
32080811 ATATGAGATCCCATATAAGACCATATCTAGGATATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCG
* **** *
32080859 ATAT-TGATTTTGTGTAAGACCATGTCTGGGACATG
1 ATATGAGATCCCATGTAAGACCATGTCTAGGACATG
32080894 ACATCGATGT
Statistics
Matches: 135, Mismatches: 20, Indels: 25
0.75 0.11 0.14
Matches are distributed among these distances:
36 25 0.19
37 5 0.04
41 3 0.02
43 3 0.02
47 27 0.20
48 72 0.53
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (48 bp):
ATATGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCG
Found at i:32080766 original size:36 final size:36
Alignment explanation
Indices: 32080726--32080798 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
32080716 CATTGGCATC
* *
32080726 GATATGAGATCCCATGGAAGACCATGTTTGGGACAT
1 GATATGAGATCCCACGGAAGACCATGTCTGGGACAT
*
32080762 GATATGAGATCCCACGTAAGACCATGTCTGGGACAT
1 GATATGAGATCCCACGGAAGACCATGTCTGGGACAT
32080798 G
1 G
32080799 GAATTGGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (36 bp):
GATATGAGATCCCACGGAAGACCATGTCTGGGACAT
Found at i:32080814 original size:84 final size:84
Alignment explanation
Indices: 32080679--32080834 Score: 267
Period size: 84 Copynumber: 1.9 Consensus size: 84
32080669 CATTAGGGTT
* * *
32080679 ATATGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGAGATCCCATGGA
1 ATATGAGATCCCACGTAAGACCATGTCTAGGACATGGAATTGGCATCGATATGAGATCCCATAGA
32080744 AGACCATGTTTGGGACATG
66 AGACCATGTTTGGGACATG
* *
32080763 ATATGAGATCCCACGTAAGACCATGTCTGGGACATGGAATTGGCATCGATATGAGATCCCATATA
1 ATATGAGATCCCACGTAAGACCATGTCTAGGACATGGAATTGGCATCGATATGAGATCCCATAGA
32080828 AGACCAT
66 AGACCAT
32080835 ATCTAGGATA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 67 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (84 bp):
ATATGAGATCCCACGTAAGACCATGTCTAGGACATGGAATTGGCATCGATATGAGATCCCATAGA
AGACCATGTTTGGGACATG
Found at i:32093263 original size:49 final size:49
Alignment explanation
Indices: 32093203--32093414 Score: 174
Period size: 49 Copynumber: 4.4 Consensus size: 49
32093193 GTCAATGCTG
*
32093203 TGTCCTAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATGCCA
* ** * *
32093252 TGTCCCAGACAGGTCTTACATTGGGTCTCATCTATCG-GTG-TCGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GCT-GATGCCA
* * * * *
32093301 TGTCCCAGACAGGTCTTACACTGAC--ACACA-A-C-AAGTTGACGCCA
1 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATGCCA
* **
32093345 TGTCCCAAACAGGTCTTACACT-AGCTTGT-ATATCCCGAGGCTGATG-CA
1 TGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCGAGGCTGATGCCA
* *
32093393 TGCCCCAGACATGTCTTACACT
1 TGTCCCAGACAGGTCTTACACT
32093415 AGCTCTTGTC
Statistics
Matches: 128, Mismatches: 24, Indels: 23
0.73 0.14 0.13
Matches are distributed among these distances:
43 1 0.01
44 29 0.23
45 2 0.02
46 3 0.02
47 2 0.02
48 24 0.19
49 67 0.52
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (49 bp):
TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATGCCA
Found at i:32096301 original size:43 final size:43
Alignment explanation
Indices: 32096237--32096323 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 43
32096227 ATATCTGATT
*
32096237 TCGATATGTGTGTACGAGTAAGACCCTGTCTAGGACAG-TGGCA
1 TCGATATGTGTGTACGAGTAAGACCATGTCTAGGAC-GTTGGCA
*
32096280 TCGATATGTG-GCTAC-ATGTAAGACCATGTCTGGGACGTTGGCA
1 TCGATATGTGTG-TACGA-GTAAGACCATGTCTAGGACGTTGGCA
32096323 T
1 T
32096324 TGTATGATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 36 0.92
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (43 bp):
TCGATATGTGTGTACGAGTAAGACCATGTCTAGGACGTTGGCA
Found at i:32109625 original size:27 final size:26
Alignment explanation
Indices: 32109595--32109656 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
32109585 ATTTACTAGA
* *
32109595 ATACCCCTAAGTATAAAAATTACCATT
1 ATACCCCTAAGT-GAAAAATGACCATT
* * *
32109622 ATACCCCTAGGTGCAAAGTGACCATT
1 ATACCCCTAAGTGAAAAATGACCATT
32109648 ATACCCCTA
1 ATACCCCTA
32109657 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.26
Consensus pattern (26 bp):
ATACCCCTAAGTGAAAAATGACCATT
Found at i:32109798 original size:27 final size:26
Alignment explanation
Indices: 32109760--32109846 Score: 111
Period size: 27 Copynumber: 3.3 Consensus size: 26
32109750 TGGAGGAAGC
*
32109760 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
32109787 GTTCTGGTGGCTCTGCCACAATATTT
1 GTTCTGGTGGCTCTGCCACAATATCT
* **
32109813 GTATCTGGTGACTCTTTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
32109840 GTTCTGG
1 GTTCTGG
32109847 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 13 0.25
27 40 0.75
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:32117513 original size:27 final size:26
Alignment explanation
Indices: 32117475--32117561 Score: 111
Period size: 27 Copynumber: 3.3 Consensus size: 26
32117465 TGGCGGAAGC
*
32117475 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
32117502 GTTCTGGTGGCTCTGCCACAATATTT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
32117528 GTATCTAGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
32117555 GTTCTGG
1 GTTCTGG
32117562 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 12 0.23
27 40 0.77
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:32119452 original size:42 final size:42
Alignment explanation
Indices: 32119401--32119482 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
32119391 TAAAAAGAAA
* *
32119401 AAAATGAAAAATGAAA-GAAG-AAATAAGAAGAAAAGGAAAAGG
1 AAAAGGAAAAAT-AAAGGAAGAAAAAAAGAAG-AAAGGAAAAGG
32119443 AAAAGGAAAAATAAAGGAAGAAAAAAAGAAGAAAGGAAAA
1 AAAAGGAAAAATAAAGGAAGAAAAAAAGAAGAAAGGAAAA
32119483 AACATTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
41 3 0.08
42 24 0.67
43 9 0.25
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (42 bp):
AAAAGGAAAAATAAAGGAAGAAAAAAAGAAGAAAGGAAAAGG
Found at i:32119469 original size:23 final size:23
Alignment explanation
Indices: 32119395--32119470 Score: 56
Period size: 23 Copynumber: 3.5 Consensus size: 23
32119385 AGCACATAAA
*
32119395 AAGAAAAAAATGAAAAATGAAA-G
1 AAGAAAAAAAGGAAAAAT-AAAGG
* *
32119418 AAG-AAATAA-G-AAGA-AAAGG
1 AAGAAAAAAAGGAAAAATAAAGG
*
32119437 AA-AAGGAAAAGGAAAAATAAAGG
1 AAGAA-AAAAAGGAAAAATAAAGG
32119460 AAGAAAAAAAG
1 AAGAAAAAAAG
32119471 AAGAAAGGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
18 3 0.08
19 4 0.10
20 6 0.15
21 2 0.05
22 8 0.20
23 15 0.38
24 2 0.05
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.05
Consensus pattern (23 bp):
AAGAAAAAAAGGAAAAATAAAGG
Found at i:32124349 original size:47 final size:47
Alignment explanation
Indices: 32124289--32124445 Score: 215
Period size: 47 Copynumber: 3.3 Consensus size: 47
32124279 ACAGTAATGC
***
32124289 AGATAAACTGCCACTTAATAATATTGAAAACAAGCCACCACTTTTGT
1 AGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTTTGT
* * * *
32124336 AAATAAACCGCCACTTAATAAAATTGTGGACAAGCCACCACTTTTGC
1 AGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTTTGT
* * *
32124383 AGATAAACTGCCACTTTATAATATTGTGGGCAAGCCACCATTTTTGT
1 AGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTTTGT
*
32124430 AGATAAACTACCACTT
1 AGATAAACTGCCACTT
32124446 CTTCCTCCTT
Statistics
Matches: 95, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 95 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (47 bp):
AGATAAACTGCCACTTAATAATATTGTGGACAAGCCACCACTTTTGT
Found at i:32124515 original size:20 final size:20
Alignment explanation
Indices: 32124490--32124529 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32124480 GATTGGCTAC
* *
32124490 AAAAATCACTTTTTCACTTT
1 AAAAATCAATATTTCACTTT
32124510 AAAAATCAATATTTCACTTT
1 AAAAATCAATATTTCACTTT
32124530 GGCATGTGAG
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:0.40, C:0.17, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAAATCAATATTTCACTTT
Found at i:32126299 original size:48 final size:48
Alignment explanation
Indices: 32126228--32126442 Score: 213
Period size: 48 Copynumber: 4.8 Consensus size: 48
32126218 CATTAGGGTT
32126228 ATATGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCG
* *
32126276 ATATGAGATCCCATGGAAGACCATGT-T------TGG----GACAT-G
1 ATATGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCG
* * *
32126312 ATATGAGATCCCACGTAAGACCATGTCTGGGACATGGAATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCG
* * *
32126360 ATATGAGATCCCATATAAGACCATATCTAGGATATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCG
* **** *
32126408 ATAT-TGATTTTGTGTAAGACCATGTCTGGGACATG
1 ATATGAGATCCCATGTAAGACCATGTCTAGGACATG
32126443 ACATCGATGT
Statistics
Matches: 135, Mismatches: 20, Indels: 25
0.75 0.11 0.14
Matches are distributed among these distances:
36 25 0.19
37 5 0.04
41 3 0.02
43 3 0.02
47 27 0.20
48 72 0.53
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (48 bp):
ATATGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCG
Found at i:32126315 original size:36 final size:36
Alignment explanation
Indices: 32126275--32126347 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
32126265 CATTGGCATC
* *
32126275 GATATGAGATCCCATGGAAGACCATGTTTGGGACAT
1 GATATGAGATCCCACGGAAGACCATGTCTGGGACAT
*
32126311 GATATGAGATCCCACGTAAGACCATGTCTGGGACAT
1 GATATGAGATCCCACGGAAGACCATGTCTGGGACAT
32126347 G
1 G
32126348 GAATTGGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (36 bp):
GATATGAGATCCCACGGAAGACCATGTCTGGGACAT
Found at i:32126363 original size:84 final size:84
Alignment explanation
Indices: 32126228--32126383 Score: 267
Period size: 84 Copynumber: 1.9 Consensus size: 84
32126218 CATTAGGGTT
* * *
32126228 ATATGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGAGATCCCATGGA
1 ATATGAGATCCCACGTAAGACCATGTCTAGGACATGGAATTGGCATCGATATGAGATCCCATAGA
32126293 AGACCATGTTTGGGACATG
66 AGACCATGTTTGGGACATG
* *
32126312 ATATGAGATCCCACGTAAGACCATGTCTGGGACATGGAATTGGCATCGATATGAGATCCCATATA
1 ATATGAGATCCCACGTAAGACCATGTCTAGGACATGGAATTGGCATCGATATGAGATCCCATAGA
32126377 AGACCAT
66 AGACCAT
32126384 ATCTAGGATA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 67 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (84 bp):
ATATGAGATCCCACGTAAGACCATGTCTAGGACATGGAATTGGCATCGATATGAGATCCCATAGA
AGACCATGTTTGGGACATG
Found at i:32130006 original size:28 final size:28
Alignment explanation
Indices: 32129974--32130027 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
32129964 ACAAGTGGAC
* * *
32129974 ACACGGGCGTCTGTCTAGGCCGTGTGTG
1 ACACGAGCGTCTGTCTAAGCCATGTGTG
32130002 ACACGAGCGTCTGTCTAAGCCATGTG
1 ACACGAGCGTCTGTCTAAGCCATGTG
32130028 CCTTGGCCGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.17, C:0.26, G:0.33, T:0.24
Consensus pattern (28 bp):
ACACGAGCGTCTGTCTAAGCCATGTGTG
Found at i:32133676 original size:28 final size:28
Alignment explanation
Indices: 32133644--32133708 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
32133634 ATTTACTAGA
* *
32133644 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATACAAAATGACC-TCT
32133672 ATACCCCTATGTATACAAAATGACCTCT
1 ATACCCCTATGTATACAAAATGACCTCT
32133700 ATACCCCTA
1 ATACCCCTA
32133709 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATACAAAATGACCTCT
Found at i:32133855 original size:28 final size:27
Alignment explanation
Indices: 32133814--32133903 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 27
32133804 AGGAAGCGTC
32133814 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGCTATGCCACAAA-TATCTGTT
*
32133842 CTGGTGGTCT-TGCCACATATATCTGTT
1 CTGGTGG-CTATGCCACAAATATCTGTT
*
32133869 CTGGTGGC-ACTGCCACAACATATCTATAT
1 CTGGTGGCTA-TGCCACAA-ATATCTGT-T
32133898 CTGGTG
1 CTGGTG
32133904 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
26 1 0.02
27 22 0.41
28 22 0.41
29 9 0.17
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAAATATCTGTT
Found at i:32133914 original size:29 final size:28
Alignment explanation
Indices: 32133852--32133914 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
32133842 CTGGTGGTCT
* * *
32133852 TGCCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAACATATCTATTCTGGTGACAC
*
32133879 TGCCACAACATATCTATATCTGGTGACTC
1 TGCCACAACATATCTAT-TCTGGTGACAC
*
32133908 TGTCACA
1 TGCCACA
32133915 TTTTCTGTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 6 0.21
28 8 0.28
29 15 0.52
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (28 bp):
TGCCACAACATATCTATTCTGGTGACAC
Found at i:32135019 original size:11 final size:10
Alignment explanation
Indices: 32134991--32135024 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
32134981 AGCTTGTAAG
32134991 TATTCTGAAT
1 TATTCTGAAT
*
32135001 TTTTCTGAAT
1 TATTCTGAAT
32135011 ATATTCTGAAT
1 -TATTCTGAAT
32135022 TAT
1 TAT
32135025 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:32141171 original size:28 final size:28
Alignment explanation
Indices: 32141139--32141231 Score: 152
Period size: 28 Copynumber: 3.3 Consensus size: 28
32141129 ATTTATTAGA
*
32141139 ATACCCCTATGTATGTAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
32141167 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
32141195 ATACCCCTATGTATGCAAAATGACC-TCT
1 ATACCCCTATGTATGCAAAATTACCAT-T
32141223 ATACCCCTA
1 ATACCCCTA
32141232 GGGTTAATTT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 1 0.02
28 61 0.98
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:32141393 original size:27 final size:28
Alignment explanation
Indices: 32141357--32141418 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
32141347 TGCCATAAAT
* * *
32141357 TATCTGTTCTAGTGGCCCTGCCAC-ATA
1 TATCTGTTCTAGTGGCACTACCACAACA
*
32141384 TATCTGTTCTGGTGGCACTACCACAACA
1 TATCTGTTCTAGTGGCACTACCACAACA
32141412 TATCTGT
1 TATCTGT
32141419 ATCTGGTGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 21 0.70
28 9 0.30
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (28 bp):
TATCTGTTCTAGTGGCACTACCACAACA
Found at i:32141437 original size:29 final size:28
Alignment explanation
Indices: 32141357--32141428 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 28
32141347 TGCCATAAAT
* * * * *
32141357 TATCTGTTCTAGTGGCCCTGCCAC-ATA
1 TATCTGTTCTGGTGACACTACCACAACA
*
32141384 TATCTGTTCTGGTGGCACTACCACAACA
1 TATCTGTTCTGGTGACACTACCACAACA
32141412 TATCTGTATCTGGTGAC
1 TATCTGT-TCTGGTGAC
32141429 TCTGTCACAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 21 0.55
28 9 0.24
29 8 0.21
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.33
Consensus pattern (28 bp):
TATCTGTTCTGGTGACACTACCACAACA
Found at i:32144477 original size:49 final size:49
Alignment explanation
Indices: 32144418--32144663 Score: 260
Period size: 49 Copynumber: 5.0 Consensus size: 49
32144408 GTAGCCAAAG
* * * * * *
32144418 TTATCTAGTACGCATAGTAGCCTGCACTTAGTACCACACATGAGACCAA
1 TTATCCAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
*
32144467 TTATCCAGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAA
1 TTATCCAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AA
** * * *
32144517 CCAT-CTGATACACGTAATAGCCTGCACTTAGTACTACACACGTGATCGAA
1 TTATCCAG-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA
** * * * * *
32144567 GTTATCGGGTACGCATAGAAGCCTGCACTTAGTACTACACATGCGACCAA
1 -TTATCCAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
**
32144617 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TTATCCAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
32144664 TCACAATAGA
Statistics
Matches: 162, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
49 83 0.51
50 44 0.27
51 34 0.21
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TTATCCAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
Found at i:32144648 original size:100 final size:99
Alignment explanation
Indices: 32144418--32144663 Score: 296
Period size: 100 Copynumber: 2.5 Consensus size: 99
32144408 GTAGCCAAAG
* * * * * * *
32144418 TTATCTAGTACGCATAGTAGCCTGCACTTAGTACCACACATGAGACCAATTATCCAGTACACGTA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACATA
* * *
32144483 GTAGCTTGCACTTAGTACTACACACGTGACCTAA
66 GAAGCCTGCACTTAGTACTACACACGCGACCTAA
** * * * ** *
32144517 CCATCTGATACACGTAATAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCAGTACACA
*
32144582 TAGAAGCCTGCACTTAGTACTACACATGCGACC-AA
64 TAGAAGCCTGCACTTAGTACTACACACGCGACCTAA
32144617 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
32144664 TCACAATAGA
Statistics
Matches: 121, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
99 36 0.30
100 46 0.38
101 39 0.32
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (99 bp):
TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACATA
GAAGCCTGCACTTAGTACTACACACGCGACCTAA
Found at i:32146118 original size:12 final size:12
Alignment explanation
Indices: 32146101--32146125 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32146091 CCAAGTTCGT
32146101 TTATGGTTTGTA
1 TTATGGTTTGTA
32146113 TTATGGTTTGTA
1 TTATGGTTTGTA
32146125 T
1 T
32146126 GTATATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (12 bp):
TTATGGTTTGTA
Found at i:32150992 original size:44 final size:43
Alignment explanation
Indices: 32150942--32151024 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
32150932 CATGTTGATA
*
32150942 TCTTCGATCTGCTCTCCGCCGAACACAGAGATGCCAAATCTGCT
1 TCTTCGATCTGCTCTCCGAC-AACACAGAGATGCCAAATCTGCT
* * ** *
32150986 TCTTCGATTTGTTCTTTGACAATACAGAGATGCCAAATC
1 TCTTCGATCTGCTCTCCGACAACACAGAGATGCCAAATC
32151025 ATCTTAGATT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 18 0.55
44 15 0.45
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (43 bp):
TCTTCGATCTGCTCTCCGACAACACAGAGATGCCAAATCTGCT
Found at i:32166578 original size:15 final size:15
Alignment explanation
Indices: 32166558--32166609 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
32166548 AATTCATTTT
32166558 TTTTATTTGTAGACA
1 TTTTATTTGTAGACA
* * *
32166573 TTTTATTGGCAGAAA
1 TTTTATTTGTAGACA
* *
32166588 TCTTAATTGTAGACA
1 TTTTATTTGTAGACA
32166603 TTTTATT
1 TTTTATT
32166610 GGCAGAAATC
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (15 bp):
TTTTATTTGTAGACA
Found at i:32166600 original size:30 final size:30
Alignment explanation
Indices: 32166564--32166625 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
32166554 TTTTTTTTAT
32166564 TTGTAGACATTTTATTGGCAGAAATCTTAA
1 TTGTAGACATTTTATTGGCAGAAATCTTAA
32166594 TTGTAGACATTTTATTGGCAGAAATCTTAA
1 TTGTAGACATTTTATTGGCAGAAATCTTAA
32166624 TT
1 TT
32166626 AACTCTTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (30 bp):
TTGTAGACATTTTATTGGCAGAAATCTTAA
Found at i:32170107 original size:16 final size:16
Alignment explanation
Indices: 32170086--32170137 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
32170076 TTTGGTTCGC
32170086 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
32170102 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
32170118 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
32170134 TGTA
1 TGTA
32170138 ATAGCAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:32170374 original size:16 final size:16
Alignment explanation
Indices: 32170337--32170378 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
32170327 TTAATCATAT
*
32170337 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
32170353 TT-AAATATATTATAA
1 TTAAAATATATTATAA
32170368 TTAAAATATAT
1 TTAAAATATAT
32170379 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:32170385 original size:14 final size:15
Alignment explanation
Indices: 32170346--32170387 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
32170336 TTTAAACATA
*
32170346 ATTATTATTAAATAT
1 ATTATAATTAAATAT
32170361 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
32170375 A-TATAATTTAATA
1 ATTATAATTAAATA
32170388 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:32170435 original size:54 final size:54
Alignment explanation
Indices: 32170377--32170609 Score: 245
Period size: 54 Copynumber: 4.1 Consensus size: 54
32170367 ATTAAAATAT
32170377 ATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
* * * * * *
32170431 ATAATATATGATACTATAAAATATAAATTAA-CATAATTATTATTAAAT-ATATTATAACTAAAA
1 ATAAT-T-T-A-A-TA-AAATTCTTAA-TAATC--AA-TATTCTTATATGA-ATT-T-ACTCAAA
*
32170494 TAT
53 T-C
32170497 ATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
* *
32170551 ATAATTTAATAAAATTCTTAATAATTAATATTTTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
32170605 ATAAT
1 ATAAT
32170610 ATATGATACT
Statistics
Matches: 147, Mismatches: 16, Indels: 32
0.75 0.08 0.16
Matches are distributed among these distances:
54 62 0.42
55 8 0.05
56 2 0.01
57 13 0.09
58 4 0.03
59 5 0.03
60 16 0.11
61 5 0.03
62 4 0.03
63 13 0.09
64 2 0.01
65 8 0.05
66 5 0.03
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
Found at i:32170553 original size:120 final size:120
Alignment explanation
Indices: 32170340--32170555 Score: 423
Period size: 120 Copynumber: 1.8 Consensus size: 120
32170330 ATCATATTTA
*
32170340 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAACTAAAATATATAATTTAATAAAATTCTTAATAATCAA
32170405 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
32170460 AACATAATTATTATTAAATATATTATAACTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAACTAAAATATATAATTTAATAAAATTCTTAATAATCAA
32170525 TATTCTTATATGAATTTACTCAAATCATAAT
66 TATTCTTATATGAATTTACTCAAATCATAAT
32170556 TTAATAAAAT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 95 1.00
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAACTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:32175972 original size:20 final size:20
Alignment explanation
Indices: 32175947--32175994 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
32175937 TATAAATTCA
32175947 TTTAATAAAAAATATTAATT
1 TTTAATAAAAAATATTAATT
**
32175967 TTTAATTAATTAATATTAATT
1 TTTAA-TAAAAAATATTAATT
32175988 TTATAAT
1 TT-TAAT
32175995 GGTAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.21
21 16 0.67
22 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTAATAAAAAATATTAATT
Found at i:32176625 original size:16 final size:15
Alignment explanation
Indices: 32176604--32176635 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
32176594 TTTAGGATAA
32176604 TAATTTAGAGTTAATT
1 TAATTTAGA-TTAATT
32176620 TAATTTAGATTAATT
1 TAATTTAGATTAATT
32176635 T
1 T
32176636 TTACTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (15 bp):
TAATTTAGATTAATT
Found at i:32176910 original size:22 final size:22
Alignment explanation
Indices: 32176863--32176911 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
32176853 TTATCTTATA
* *
32176863 TAAATTTATTATAATTTAATTG
1 TAAATTTACTATAATTTAATTC
*
32176885 TAAATTTACTCTAATTTACA-TC
1 TAAATTTACTATAATTTA-ATTC
32176907 TAAAT
1 TAAAT
32176912 ATATTTTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (22 bp):
TAAATTTACTATAATTTAATTC
Found at i:32189355 original size:24 final size:24
Alignment explanation
Indices: 32189327--32189373 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
32189317 TTTTTTCTTT
32189327 CCCTCCAAAA-TTTTACTCCCCCAA
1 CCCT-CAAAACTTTTACTCCCCCAA
*
32189351 CCCTCAAAACTTTTTATTCCCCC
1 CCCTCAAAAC-TTTTACTCCCCC
32189374 CCAAACTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 4 0.20
25 11 0.55
ACGTcount: A:0.26, C:0.45, G:0.00, T:0.30
Consensus pattern (24 bp):
CCCTCAAAACTTTTACTCCCCCAA
Found at i:32190560 original size:13 final size:13
Alignment explanation
Indices: 32190542--32190566 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32190532 TTCTCACCAC
32190542 AAAAAATAAAAAT
1 AAAAAATAAAAAT
32190555 AAAAAATAAAAA
1 AAAAAATAAAAA
32190567 ATCCCTAAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:32191385 original size:119 final size:118
Alignment explanation
Indices: 32191164--32191395 Score: 297
Period size: 119 Copynumber: 2.0 Consensus size: 118
32191154 TATATTATAT
*** *
32191164 CTACCATAAAGTTAATTACATGTTTAGGGTTTAAGGTTATTATCATTAATATAAAAATGCACATT
1 CTACCATAAAGTTAATTACATGTTTACCATTTAAGCTTATTATCATTAATATAAAAATGCACATT
* *
32191229 ATAATATCACAATTGTATATAAGGTTATATACAATTAATAATATACTTATAAA
66 ATAATAACACAATTGTATATAAGGATATATACAATTAATAATATACTTATAAA
* * * *
32191282 CTACCATAATGTTAGTTACATGTTTTCCATTTAAGCTTATCTATCATTAATATAAAAATGTACAT
1 CTACCATAAAGTTAATTACATGTTTACCATTTAAGCTTAT-TATCATTAATATAAAAATGCACAT
* * * *
32191347 TATAATAACATAGTTGTATATAGGGATACGTAT-C-ATTAATAATCTACTT
65 TATAATAACACAATTGTATATAAGGATA--TATACAATTAATAATATACTT
32191396 TAATTATATA
Statistics
Matches: 97, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
118 33 0.34
119 60 0.62
120 1 0.01
121 3 0.03
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.39
Consensus pattern (118 bp):
CTACCATAAAGTTAATTACATGTTTACCATTTAAGCTTATTATCATTAATATAAAAATGCACATT
ATAATAACACAATTGTATATAAGGATATATACAATTAATAATATACTTATAAA
Found at i:32191510 original size:14 final size:13
Alignment explanation
Indices: 32191491--32191527 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 13
32191481 AAGAATGCAC
32191491 ATTATAATATCATA
1 ATTATAATAT-ATA
32191505 ATTAT-ATA-ATA
1 ATTATAATATATA
32191516 ATTATAATATAT
1 ATTATAATATAT
32191528 TTGTAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 8 0.38
12 3 0.14
13 5 0.24
14 5 0.24
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTATAATATATA
Found at i:32196217 original size:56 final size:53
Alignment explanation
Indices: 32196116--32196281 Score: 170
Period size: 54 Copynumber: 3.0 Consensus size: 53
32196106 CCATCCTTTA
* * * *
32196116 TTTTTATCCCCACATGATGCCATAGTCCTAGAATAGGTCTTACACTATGTGGTC
1 TTTTTATCCCCATATGATG-CATAGTCCCAGACTAGGTCTTACACTATATGGTC
* * *
32196170 TTTTTTTCCCCATATGATGTCATAGTCACCATGACTAGGTCTCACACTATATGGTA
1 TTTTTATCCCCATATGATG-CATAGTC-CCA-GACTAGGTCTTACACTATATGGTC
**** * *
32196226 TTCACCTCCCCATATGGTGCAATAGTCCCAGACTAAGTCTTACACTATATGGTC
1 TTTTTATCCCCATATGATGC-ATAGTCCCAGACTAGGTCTTACACTATATGGTC
32196280 TT
1 TT
32196282 CTTGCCATGG
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
54 47 0.51
55 6 0.06
56 40 0.43
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (53 bp):
TTTTTATCCCCATATGATGCATAGTCCCAGACTAGGTCTTACACTATATGGTC
Found at i:32198514 original size:49 final size:49
Alignment explanation
Indices: 32198461--32198635 Score: 260
Period size: 49 Copynumber: 3.5 Consensus size: 49
32198451 CTGGTACGCA
32198461 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * * * *
32198510 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACG
*
32198561 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
*
32198610 TAGTAGCCTGTACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
32198636 CGTGACCTCA
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 64 0.58
50 6 0.05
51 40 0.36
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:32198572 original size:51 final size:49
Alignment explanation
Indices: 32198448--32198642 Score: 255
Period size: 49 Copynumber: 3.9 Consensus size: 49
32198438 TAGCCAAAGC
* * *
32198448 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
32198497 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * *
32198548 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
32198597 TATCCAGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
32198643 TCACAATAGA
Statistics
Matches: 125, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 79 0.63
50 6 0.05
51 40 0.32
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:32198588 original size:100 final size:100
Alignment explanation
Indices: 32198448--32198640 Score: 359
Period size: 100 Copynumber: 1.9 Consensus size: 100
32198438 TAGCCAAAGC
* *
32198448 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
32198513 TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
32198548 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
*
32198613 TAGCCTGTACTTAGTACTACACACGTGA
66 TAGCCTGCACTTAGTACTACACACGTGA
32198641 CCTCACAATA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 90 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
Found at i:32200438 original size:71 final size:68
Alignment explanation
Indices: 32200309--32200445 Score: 179
Period size: 71 Copynumber: 2.0 Consensus size: 68
32200299 TTTAATAGAT
* *
32200309 TTAATATTAAATTTAATTTAATACTTATCTTAATAGGATTTTATTAATTTAATATTAAAGTGATT
1 TTAATATTAAATTTAATTTAATACTTATCTTAATAGAATTTTATTAATTTAATATTAAAGTAATT
32200374 ATC
66 ATC
* *
32200377 TTAATATTAAATTTAA-TTATTATTTATCTTGTATATA-AATATTCTATTAATTTAATATTAAAG
1 TTAATATTAAATTTAATTTAATACTTATC-T-TA-ATAGAAT-TT-TATTAATTTAATATTAAAG
32200440 TAATTA
61 TAATTA
32200446 AGTTAAATCA
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
67 10 0.17
68 17 0.28
69 4 0.07
70 5 0.08
71 24 0.40
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (68 bp):
TTAATATTAAATTTAATTTAATACTTATCTTAATAGAATTTTATTAATTTAATATTAAAGTAATT
ATC
Done.