Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold15
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: 4011073
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 11440 characters in sequence are not A, C, G, or T
File 23 of 25
Found at i:3648419 original size:33 final size:33
Alignment explanation
Indices: 3648379--3648447 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
3648369 CCGTTACAAG
*
3648379 CAATGTATCGATACATT-TCATCATGTATCGATA
1 CAATGTATCGATACATTAT-ACCATGTATCGATA
3648412 CAATGTATCGATACATTATACCATGTATCGATA
1 CAATGTATCGATACATTATACCATGTATCGATA
3648445 CAA
1 CAA
3648448 ATAGTGATAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACATTATACCATGTATCGATA
Found at i:3648432 original size:20 final size:20
Alignment explanation
Indices: 3648409--3648446 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3648399 TCATGTATCG
3648409 ATACAATGTATCGATACATT
1 ATACAATGTATCGATACATT
*
3648429 ATACCATGTATCGATACA
1 ATACAATGTATCGATACA
3648447 AATAGTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (20 bp):
ATACAATGTATCGATACATT
Found at i:3648445 original size:13 final size:13
Alignment explanation
Indices: 3648379--3648426 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
3648369 CCGTTACAAG
3648379 CAATGTATCGATA
1 CAATGTATCGATA
3648392 C-AT-T-TC-AT-
1 CAATGTATCGATA
3648400 C-ATGTATCGATA
1 CAATGTATCGATA
3648412 CAATGTATCGATA
1 CAATGTATCGATA
3648425 CA
1 CA
3648427 TTATACCATG
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
8 3 0.10
9 3 0.10
10 4 0.13
11 3 0.10
12 3 0.10
13 14 0.47
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:3648520 original size:19 final size:20
Alignment explanation
Indices: 3648476--3648548 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 20
3648466 CTGCCAGTTT
* *
3648476 CATGTATCGATACAATTATC
1 CATGTATCGATACAATGATA
*
3648496 CATGTATTGATACAATGA-A
1 CATGTATCGATACAATGATA
*
3648515 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-ATA
3648536 -ATGTATCGATACA
1 CATGTATCGATACA
3648549 TCTGGGTGTG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 15 0.33
20 30 0.65
21 1 0.02
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATGATA
Found at i:3649567 original size:22 final size:20
Alignment explanation
Indices: 3649519--3649574 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
3649509 AAAAACTCAG
*
3649519 AATGTATCGATACAATGAAT
1 AATGTATCGATACAATGAAC
*
3649539 AATGTATCGATACAATTTAAGC
1 AATGTATCGATACAA-TGAA-C
*
3649561 AATGTATCAATACA
1 AATGTATCGATACA
3649575 TTCACTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 15 0.48
21 3 0.10
22 13 0.42
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:3649646 original size:21 final size:21
Alignment explanation
Indices: 3649622--3649677 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
3649612 AAGGTGATTT
**
3649622 TGTATTGATACATTTCAGGCA
1 TGTATTGATACATTTCACACA
* *
3649643 TGTATCGATACA-TTCACATA
1 TGTATTGATACATTTCACACA
3649663 TGTATTGATACATTT
1 TGTATTGATACATTT
3649678 ACTATTTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (21 bp):
TGTATTGATACATTTCACACA
Found at i:3649665 original size:20 final size:21
Alignment explanation
Indices: 3649642--3649695 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
3649632 CATTTCAGGC
3649642 ATGTATCGATACATTCAC-AT
1 ATGTATCGATACATTCACTAT
* *
3649662 ATGTATTGATACATTTACTAT
1 ATGTATCGATACATTCACTAT
* *
3649683 TTATATCGATACA
1 ATGTATCGATACA
3649696 AATTGTAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATTCACTAT
Found at i:3653272 original size:69 final size:66
Alignment explanation
Indices: 3653161--3653295 Score: 173
Period size: 69 Copynumber: 2.0 Consensus size: 66
3653151 CATAAACAAT
* *
3653161 TAAGCACAATTTGGTTTATATATGAAGAAGACATATCAAGTGTTATTAGAAAAAATATTCCAATT
1 TAAGCACAATTTGGTTTATATA-GAAAAAGACATATCAAGTGTCATTA-AAAAAA-ATTCCAATT
3653226 GTTG
63 GTTG
* * *
3653230 TAAGCACAATTTGGTTTGTGAGTA-AAAAAGACATATCAAGTGTCATTAAAATAAATTCCAGTTG
1 TAAGCACAATTTGGTTTAT-A-TAGAAAAAGACATATCAAGTGTCATTAAAAAAAATTCCAATTG
3653294 TT
64 TT
3653296 CTCTGCATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
67 11 0.19
68 5 0.08
69 40 0.68
70 1 0.02
71 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (66 bp):
TAAGCACAATTTGGTTTATATAGAAAAAGACATATCAAGTGTCATTAAAAAAAATTCCAATTGTT
G
Found at i:3653994 original size:23 final size:23
Alignment explanation
Indices: 3653950--3653995 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
3653940 ATCCTACTAG
**
3653950 TCTTGAATGGTCACCATTAAATA
1 TCTTGAATGGTCACCACGAAATA
3653973 TCTTGAATGGTCACCACGAAATA
1 TCTTGAATGGTCACCACGAAATA
3653996 ACCATGAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (23 bp):
TCTTGAATGGTCACCACGAAATA
Found at i:3654915 original size:79 final size:79
Alignment explanation
Indices: 3654807--3655037 Score: 309
Period size: 79 Copynumber: 2.9 Consensus size: 79
3654797 TTTTGGAGAT
* * * *
3654807 AAAAACGAGGGTTGGAGTATCTCCGATGGTGAAAAATCGATATTTTGAAAATAAAAATGGAGTTG
1 AAAAACGA-GATTGAAGTATCCCCGATGGTGAAAAATCGATATTTTGAAAATAAAAATGGGGTTG
*
3654872 GAGTATCCCCTCGAA
65 GAGTATCCCCTAGAA
* * *
3654887 AAAAATGAGATTGAAGTATCCCCAATGGTGAAAAATCGATATTTTGGAAATAAAAATGGGGTTGG
1 AAAAACGAGATTGAAGTATCCCCGATGGTGAAAAATCGATATTTTGAAAATAAAAATGGGGTTGG
3654952 AGTATCCCCTAGAA
66 AGTATCCCCTAGAA
* * * * * * * *
3654966 AATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAGAACTGGGGTTAG
1 AAAAACGAGATTGAAGTATCCCCGATGGTGAAAAATCGATATTTTGAAAATAAAAATGGGGTTGG
3655031 AGTATCC
66 AGTATCC
3655038 TCGATGGTAA
Statistics
Matches: 132, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 125 0.95
80 7 0.05
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.26
Consensus pattern (79 bp):
AAAAACGAGATTGAAGTATCCCCGATGGTGAAAAATCGATATTTTGAAAATAAAAATGGGGTTGG
AGTATCCCCTAGAA
Found at i:3655035 original size:130 final size:130
Alignment explanation
Indices: 3654901--3655168 Score: 367
Period size: 130 Copynumber: 2.1 Consensus size: 130
3654891 ATGAGATTGA
* ** * *
3654901 AGTATCCCCAATGGTGAAAAATCGATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCC-TAGA
1 AGTATCCCCAATGGTAAAAAATCGATATTTTAAAAATAAAAATAGGATTGGAGTATCCCCTTAG-
* * *
3654965 AAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAGAACTGGGGTTA
65 AAATAACAGGGTTGGAGTATCCCCGATAGTGAAAAATCGAAATTTTAAAAATAGAACTGGGGTTA
3655030 G
130 G
* * * * *
3655031 AGTATCCTCGATGGTAAAAAATTGATATTTTAAAAATAGAACTAGGATTGGAGTATCCCCTTAGA
1 AGTATCCCCAATGGTAAAAAATCGATATTTTAAAAATAAAAATAGGATTGGAGTATCCCCTTAGA
* * * *
3655096 AATAATAGGGTTTGAGTATCCCCGATAGTGGAAAATCGAAATTTTAAAAATAGAACTGGGGTTGG
66 AATAACAGGGTTGGAGTATCCCCGATAGTGAAAAATCGAAATTTTAAAAATAGAACTGGGGTTAG
3655161 AGTATCCC
1 AGTATCCC
3655169 TTCAAAAATA
Statistics
Matches: 119, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
130 116 0.97
131 3 0.03
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.28
Consensus pattern (130 bp):
AGTATCCCCAATGGTAAAAAATCGATATTTTAAAAATAAAAATAGGATTGGAGTATCCCCTTAGA
AATAACAGGGTTGGAGTATCCCCGATAGTGAAAAATCGAAATTTTAAAAATAGAACTGGGGTTAG
Found at i:3655037 original size:51 final size:51
Alignment explanation
Indices: 3654972--3655090 Score: 184
Period size: 51 Copynumber: 2.3 Consensus size: 51
3654962 AGAAAATAAC
*
3654972 GGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAGAACT
1 GGGGTTGGAGTATCCCCGATGGTAAAAAATCGATATTTTAAAAATAGAACT
* * *
3655023 GGGGTTAGAGTATCCTCGATGGTAAAAAATTGATATTTTAAAAATAGAACT
1 GGGGTTGGAGTATCCCCGATGGTAAAAAATCGATATTTTAAAAATAGAACT
* *
3655074 AGGATTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
3655091 TTAGAAATAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATGGTAAAAAATCGATATTTTAAAAATAGAACT
Found at i:3655107 original size:79 final size:79
Alignment explanation
Indices: 3655024--3655561 Score: 566
Period size: 79 Copynumber: 6.8 Consensus size: 79
3655014 AATAGAACTG
* * * *
3655024 GGGTTAGAGTATCCTCGATGGTAAAAAATTGATATTTTAAAAATAGAACTAGGATTGGAGTATCC
1 GGGTTTGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAGAACTGGGATTGGAGTATCC
* *
3655089 CCTTAGAAATAATA
66 CCTCAAAAATAATA
* * * * *
3655103 GGGTTTGAGTATCCCCGATAGTGGAAAATCGAAATTTTAAAAATAGAACTGGGGTTGGAGTATCC
1 GGGTTTGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAGAACTGGGATTGGAGTATCC
* *
3655168 CTTCAAAAATAACA
66 CCTCAAAAATAATA
* * * *
3655182 GGGTTTGAGTATCCTCGATGGTAAAAAATTGATATTTTAAAAATAGAACCGGGATTGGAGTATCT
1 GGGTTTGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAGAACTGGGATTGGAGTATCC
*
3655247 TCTCAAAAATAATA
66 CCTCAAAAATAATA
* * *
3655261 GGGTTTGAGAATCCCCG-GGGTGAAAAATTGATATTTTAAAAATAGAACTGGGGTTGGAGTATCC
1 GGGTTTGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAGAACTGGGATTGGAGTATCC
3655325 CCTCAAAAA-AA-A
66 CCTCAAAAATAATA
* * *
3655337 GGGGATTGGAGTATCCCCGATGGTGAGAAATTGATATTTTAAAAATAGAACTGGAATTGGAGTAT
1 -GGG-TTTGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAGAACTGGGATTGGAGTAT
* * *
3655402 CCTCTCAGAAATAA-C
64 CCCCTCAAAAATAATA
* ** * * * * *
3655417 GAGGTTGGAGTATCCCTAATGGCGAAAAATCGATATTTTAAAAATAAAATTGGGGTTGGAGTATC
1 G-GGTTTGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAGAACTGGGATTGGAGTATC
* *
3655482 CCCTCGAAAATAA-C
65 CCCTCAAAAATAATA
* * * ** ** * * *
3655496 GGGATTGAAGTTTCCCTGATGGCAAAAAATCAATATTTTGAAAATA-AAATCGGAGTTGGAGTAT
1 GGGTTTG-AGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAGAACTGGGA-TTGGAGTAT
3655560 CC
64 CC
3655562 TCTTGAAAAT
Statistics
Matches: 388, Mismatches: 64, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
76 1 0.00
77 5 0.01
78 71 0.18
79 307 0.79
80 4 0.01
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (79 bp):
GGGTTTGAGTATCCCCGATGGTGAAAAATTGATATTTTAAAAATAGAACTGGGATTGGAGTATCC
CCTCAAAAATAATA
Found at i:3655192 original size:158 final size:157
Alignment explanation
Indices: 3655024--3655564 Score: 655
Period size: 158 Copynumber: 3.4 Consensus size: 157
3655014 AATAGAACTG
*
3655024 GGGTTAGAGTATCCTCGATGGTAAAAAATTGATATTTTAAAAATAGAACTAGGATTGGAGTATCC
1 GGGTTTGAGTATCCTCGATGGTAAAAAATTGATATTTTAAAAATAGAACT-GGATTGGAGTATCC
* * * * *
3655089 CCTTAGAAATAATAGGGTTTGAGTATCCCCGATAGTGGAAAATCGAAATTTTAAAAATAGAACTG
65 TCTCAGAAATAATAGGGTTTGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAGAACTG
*
3655154 GGGTTGGAGTATCCCTTCAAAAATAACA
130 GGGTTGGAGTATCCCCTCAAAAATAACA
* *
3655182 GGGTTTGAGTATCCTCGATGGTAAAAAATTGATATTTTAAAAATAGAACCGGGATTGGAGTATCT
1 GGGTTTGAGTATCCTCGATGGTAAAAAATTGATATTTTAAAAATAGAA-CTGGATTGGAGTATCC
* * * *
3655247 TCTCAAAAATAATAGGGTTTGAGAATCCCCG-GGGTGAAAAATTGATATTTTAAAAATAGAACTG
65 TCTCAGAAATAATAGGGTTTGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAGAACTG
3655311 GGGTTGGAGTATCCCCTCAAAAA-AA-A
130 GGGTTGGAGTATCCCCTCAAAAATAACA
* * * *
3655337 GGGGATTGGAGTATCCCCGATGGTGAGAAATTGATATTTTAAAAATAGAACTGGAATTGGAGTAT
1 -GGG-TTTGAGTATCCTCGATGGTAAAAAATTGATATTTTAAAAATAGAACTGG-ATTGGAGTAT
* * ** * *
3655402 CCTCTCAGAAATAA-CGAGGTTGGAGTATCCCTAATGGCGAAAAATCGATATTTTAAAAATAAAA
63 CCTCTCAGAAATAATAG-GGTTTGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAGAA
* *
3655466 TTGGGGTTGGAGTATCCCCTCGAAAATAAC-
127 CTGGGGTTGGAGTATCCCCTCAAAAATAACA
* * * ** * *
3655496 GGGATTGAAGTTTCC-CTGATGGCAAAAAATCAATATTTTGAAAATA-AAATCGGAGTTGGAGTA
1 GGGTTTG-AGTATCCTC-GATGGTAAAAAATTGATATTTTAAAAATAGAACT-GGA-TTGGAGTA
3655559 TCCTCT
62 TCCTCT
3655565 TGAAAATAAC
Statistics
Matches: 330, Mismatches: 41, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
155 1 0.00
156 9 0.03
157 132 0.40
158 185 0.56
159 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (157 bp):
GGGTTTGAGTATCCTCGATGGTAAAAAATTGATATTTTAAAAATAGAACTGGATTGGAGTATCCT
CTCAGAAATAATAGGGTTTGAGTATCCCCGATGGTGAAAAATCGATATTTTAAAAATAGAACTGG
GGTTGGAGTATCCCCTCAAAAATAACA
Found at i:3655194 original size:209 final size:210
Alignment explanation
Indices: 3654815--3655245 Score: 550
Period size: 209 Copynumber: 2.1 Consensus size: 210
3654805 ATAAAAACGA
* *
3654815 GGGTTGGAGTAT-CTCCGATGGTGAAAAATCGATATTTTGAAAATAAAAATGGAGTTGGAGTATC
1 GGGTTGGAGTATCCTCCGATGGTAAAAAATCGATATTTTAAAAATAAAAATGGAGTTGGAGTATC
* * * **
3654879 CCCTCGAAAAAAATGAGATTGAAGTATCCCCAATGGTGAAAAATCGATATTTTGGAAATAAAAAT
66 CCCTAGAAAAAAATGAGATTGAAGTATCCCCAATAGTGAAAAATCGAAATTTTAAAAATAAAAAT
* *
3654944 GGGGTTGGAGTATCCCCTAGAAAATAACGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATT
131 GGGGTTGGAGTATCCCCTAGAAAATAACAGGGTTGGAGTATCCCCGATGGTAAAAAATCGATATT
*
3655009 TTAAAAATAGAACTG
196 TTAAAAATAGAACCG
* * * *
3655024 GGGTTAGAGTATCCT-CGATGGTAAAAAATTGATATTTTAAAAATAGAACTAGGA-TTGGAGTAT
1 GGGTTGGAGTATCCTCCGATGGTAAAAAATCGATATTTTAAAAATAAAAAT-GGAGTTGGAGTAT
* * * * * *
3655087 CCCCTTAG-AAATAATAGGGTTTG-AGTATCCCCGATAGTGGAAAATCGAAATTTTAAAAATAGA
65 CCCC-TAGAAAAAAAT-GAGATTGAAGTATCCCCAATAGTGAAAAATCGAAATTTTAAAAATAAA
* * * * *
3655150 ACTGGGGTTGGAGTATCCCTTCA-AAAATAACAGGGTTTGAGTATCCTCGATGGTAAAAAATTGA
128 AATGGGGTTGGAGTATCCCCT-AGAAAATAACAGGGTTGGAGTATCCCCGATGGTAAAAAATCGA
3655214 TATTTTAAAAATAGAACCG
192 TATTTTAAAAATAGAACCG
*
3655233 GGATTGGAGTATC
1 GGGTTGGAGTATC
3655246 TTCTCAAAAA
Statistics
Matches: 190, Mismatches: 27, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
209 177 0.93
210 13 0.07
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (210 bp):
GGGTTGGAGTATCCTCCGATGGTAAAAAATCGATATTTTAAAAATAAAAATGGAGTTGGAGTATC
CCCTAGAAAAAAATGAGATTGAAGTATCCCCAATAGTGAAAAATCGAAATTTTAAAAATAAAAAT
GGGGTTGGAGTATCCCCTAGAAAATAACAGGGTTGGAGTATCCCCGATGGTAAAAAATCGATATT
TTAAAAATAGAACCG
Found at i:3655351 original size:236 final size:236
Alignment explanation
Indices: 3655047--3655481 Score: 594
Period size: 236 Copynumber: 1.8 Consensus size: 236
3655037 CTCGATGGTA
* * *
3655047 AAAAATTGATATTTTAAAAATAGAACTAGGATTGGAGTATCCCCTTAGAAATAATAGGGTTTGAG
1 AAAAATTGATATTTTAAAAATAGAACTAGGATTGGAGTATCCCCTCAGAAATAAAAGGGTTGGAG
**
3655112 TATCCCCGATAGTG-GAAAATCGAAATTTTAAAAATAGAACTGGGGTTGGAGTATCC-CTTCAAA
66 TATCCCCGATAGTGAG-AAATCGAAATTTTAAAAATAGAACTGGAATTGGAGTATCCTC-TCAAA
* * * * *
3655175 AATAAC-AGGGTTTGAGTAT-CCTCGATGGTAAAAAATTGATATTTTAAAAATAGAACCGGGATT
129 AATAACGA-GGTTGGAGTATCCCT-AATGGCAAAAAATCGATATTTTAAAAATAAAACCGGGATT
3655238 GGAGTATCTTCTCAAAAATAATAGGGTTTGAGAATCCCCGGGGTG
192 GGAGTATCTTCTCAAAAATAATAGGGTTTGAGAATCCCCGGGGTG
* *
3655283 AAAAATTGATATTTTAAAAATAGAACTGGGGTTGGAGTATCCCCTCA-AAA-AAAAGGGGATTGG
1 AAAAATTGATATTTTAAAAATAGAACTAGGATTGGAGTATCCCCTCAGAAATAAAA-GGG-TTGG
* * * *
3655346 AGTATCCCCGATGGTGAGAAATTGATATTTTAAAAATAGAACTGGAATTGGAGTATCCTCTCAGA
64 AGTATCCCCGATAGTGAGAAATCGAAATTTTAAAAATAGAACTGGAATTGGAGTATCCTCTCAAA
* ** *
3655411 AATAACGAGGTTGGAGTATCCCTAATGGCGAAAAATCGATATTTTAAAAATAAAATTGGGGTTGG
129 AATAACGAGGTTGGAGTATCCCTAATGGCAAAAAATCGATATTTTAAAAATAAAACCGGGATTGG
3655476 AGTATC
194 AGTATC
3655482 CCCTCGAAAA
Statistics
Matches: 173, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
234 3 0.02
235 6 0.03
236 158 0.91
237 6 0.03
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (236 bp):
AAAAATTGATATTTTAAAAATAGAACTAGGATTGGAGTATCCCCTCAGAAATAAAAGGGTTGGAG
TATCCCCGATAGTGAGAAATCGAAATTTTAAAAATAGAACTGGAATTGGAGTATCCTCTCAAAAA
TAACGAGGTTGGAGTATCCCTAATGGCAAAAAATCGATATTTTAAAAATAAAACCGGGATTGGAG
TATCTTCTCAAAAATAATAGGGTTTGAGAATCCCCGGGGTG
Found at i:3657999 original size:24 final size:22
Alignment explanation
Indices: 3657967--3658028 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 22
3657957 AATTGCCTAC
*
3657967 ATGTATCGATACATTTTTCAATAT
1 ATGTATCGATACATTTAT-AA-AT
* *
3657991 ATGTATCGATACAATTATAAGT
1 ATGTATCGATACATTTATAAAT
*
3658013 ATGTATCAATACATTT
1 ATGTATCGATACATTT
3658029 CCATGGCAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
22 15 0.45
23 2 0.06
24 16 0.48
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (22 bp):
ATGTATCGATACATTTATAAAT
Found at i:3670085 original size:31 final size:32
Alignment explanation
Indices: 3670021--3670093 Score: 103
Period size: 31 Copynumber: 2.3 Consensus size: 32
3670011 TTGAAGAATA
*
3670021 TATCGATACATTTGGGTCAAAAACCCAAAATG
1 TATCGATACATTTAGGTCAAAAACCCAAAATG
* * *
3670053 TATCGATTCATTTAGGTC-AAAATCTAAAATG
1 TATCGATACATTTAGGTCAAAAACCCAAAATG
3670084 TATCGATACA
1 TATCGATACA
3670094 ATGAAAAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 20 0.56
32 16 0.44
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (32 bp):
TATCGATACATTTAGGTCAAAAACCCAAAATG
Found at i:3670218 original size:21 final size:21
Alignment explanation
Indices: 3670172--3670228 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
3670162 CATTTCAAAC
*
3670172 ATGTATCAATAC-ATT-CACTT
1 ATGTATCGATACAATTAC-CTT
3670192 ATGTATCGATA-AATTACCTT
1 ATGTATCGATACAATTACCTT
3670212 ATTGTATCGATACAATT
1 A-TGTATCGATACAATT
3670229 TATTGAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 17 0.53
21 11 0.34
22 4 0.12
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (21 bp):
ATGTATCGATACAATTACCTT
Found at i:3671621 original size:12 final size:12
Alignment explanation
Indices: 3671603--3671637 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
3671593 CACTAACATG
3671603 AAAAATTAAAGA
1 AAAAATTAAAGA
*
3671615 TAAAATTAAA-A
1 AAAAATTAAAGA
3671626 AAAAATTAAAGA
1 AAAAATTAAAGA
3671638 GTTTATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (12 bp):
AAAAATTAAAGA
Found at i:3675068 original size:16 final size:16
Alignment explanation
Indices: 3675047--3675077 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3675037 TATACCTCAT
3675047 TGAGATAATAGCACTC
1 TGAGATAATAGCACTC
3675063 TGAGATAATAGCACT
1 TGAGATAATAGCACT
3675078 GTCAATCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (16 bp):
TGAGATAATAGCACTC
Found at i:3677067 original size:2 final size:2
Alignment explanation
Indices: 3677060--3677086 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3677050 TCAAAGGTTA
3677060 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
3677087 ACAATCACCA
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3677776 original size:21 final size:22
Alignment explanation
Indices: 3677752--3677793 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3677742 AAATCTTAAA
3677752 TTAT-AAATAATTTTTATTTTT
1 TTATAAAATAATTTTTATTTTT
*
3677773 TTATAAAATTATTTTTATTTT
1 TTATAAAATAATTTTTATTTT
3677794 ATATTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTATAAAATAATTTTTATTTTT
Found at i:3677918 original size:3 final size:3
Alignment explanation
Indices: 3677910--3677953 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
3677900 TCATAAAATC
*
3677910 TAA TAA TAA TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3677954 GTTTCCTTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3678690 original size:50 final size:50
Alignment explanation
Indices: 3678634--3678801 Score: 201
Period size: 50 Copynumber: 3.4 Consensus size: 50
3678624 TTGAGAGAGA
* * * * **
3678634 TGATCGTAATTATTGATTATTTTTTACCAATTTTTGACAATCGAGAAAAG
1 TGATCGTAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAAAAG
* * * *
3678684 TAATCGTAATTGTTAACTATTCTTCACCAACCTTTGGCAATCGAGAAAGG
1 TGATCGTAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAAAAG
* * * *
3678734 TGGTCGTAATTGTTGACTATTCTTCAACTACCTTTGACAATAGAGAAAAG
1 TGATCGTAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAAAAG
*
3678784 TGACCGTAATTGTTGACT
1 TGATCGTAATTGTTGACT
3678802 TTAAACATCT
Statistics
Matches: 98, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 98 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (50 bp):
TGATCGTAATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAAAAG
Found at i:3678891 original size:30 final size:30
Alignment explanation
Indices: 3678855--3678911 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
3678845 TCATTTAATA
3678855 TATCCTAGAATTGAAAGAAACAAAATCATG
1 TATCCTAGAATTGAAAGAAACAAAATCATG
*
3678885 TATCCTAGAATTGAAAGAAATAAAATC
1 TATCCTAGAATTGAAAGAAACAAAATC
3678912 CTCTATCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.25
Consensus pattern (30 bp):
TATCCTAGAATTGAAAGAAACAAAATCATG
Found at i:3679909 original size:18 final size:18
Alignment explanation
Indices: 3679886--3679924 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
3679876 GCACATTAAG
* *
3679886 AAAAAGTGTTGAAAAAAT
1 AAAAAGAGTAGAAAAAAT
*
3679904 AAAAAGAGTAGAGAAAAT
1 AAAAAGAGTAGAAAAAAT
3679922 AAA
1 AAA
3679925 GTTGAGTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.15
Consensus pattern (18 bp):
AAAAAGAGTAGAAAAAAT
Found at i:3683340 original size:50 final size:50
Alignment explanation
Indices: 3683229--3683323 Score: 136
Period size: 50 Copynumber: 1.9 Consensus size: 50
3683219 CCACCAAAAT
* * *
3683229 TAATTATTGGCTATTATTCACCAACCTTTGACAATTGAGAGAGGTAACCG
1 TAATTATTGACTATTATTCACCAACCTTTGACAATAGAGAAAGGTAACCG
* * *
3683279 TAATTATTGACTATTCTTTACCAACTTTTGACAATAGAGAAAGGT
1 TAATTATTGACTATTATTCACCAACCTTTGACAATAGAGAAAGGT
3683324 GATTGTAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.35
Consensus pattern (50 bp):
TAATTATTGACTATTATTCACCAACCTTTGACAATAGAGAAAGGTAACCG
Found at i:3685120 original size:3 final size:3
Alignment explanation
Indices: 3685112--3685159 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
3685102 AAGAGATTGT
3685112 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3685160 AGTCATGTTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3687371 original size:30 final size:27
Alignment explanation
Indices: 3687335--3687397 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 27
3687325 CAATATTTTT
3687335 TTATTTATGCCTATAAAACAAAAATTAATA
1 TTATTTA--CCTATAAAA-AAAAATTAATA
* **
3687365 TTATTTACTTATCCAAAAAAATTAATA
1 TTATTTACCTATAAAAAAAAATTAATA
3687392 TTATTT
1 TTATTT
3687398 TGTGAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 17 0.57
28 6 0.20
30 7 0.23
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.43
Consensus pattern (27 bp):
TTATTTACCTATAAAAAAAAATTAATA
Found at i:3694789 original size:20 final size:21
Alignment explanation
Indices: 3694743--3694789 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
3694733 TATGTAAAAG
*
3694743 AAAATTATGAGTTAAAACTTT
1 AAAATTATGAGTTAAAACATT
* **
3694764 ATAATTATG-GTTAAGGCATT
1 AAAATTATGAGTTAAAACATT
3694784 AAAATT
1 AAAATT
3694790 TCATAATAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (21 bp):
AAAATTATGAGTTAAAACATT
Found at i:3694818 original size:142 final size:143
Alignment explanation
Indices: 3694604--3694891 Score: 325
Period size: 142 Copynumber: 2.0 Consensus size: 143
3694594 AAATTATTTT
** *
3694604 ATTATGAGTTAGAAATTTATGTTTATGGTTAAGACATTAAAATTCCACGATAATCTCACAAAATT
1 ATTATGAGTTAGAAATTTATAATTATGGTTAAGACATTAAAATTCCACAATAATCTCACAAAATT
* *** * * *
3694669 GGATTCATGACTT-T-TTGTAACTTTCATAAAATTAATTTCACTAG-ATCAAAATTTTATATGCA
66 GAATTCATGA-TTCTCCAATAACTTTCATAAAATTAAGTTCA-TAGAATCAAAACTTTATATACA
3694731 CATATGTAAAAGAAA
129 CATATGTAAAAGAAA
* * * * *
3694746 ATTATGAGTTA-AAACTTTATAATTATGGTTAAGGCATTAAAATTTCATAATAATTTTACAAAA-
1 ATTATGAGTTAGAAA-TTTATAATTATGGTTAAGACATTAAAATTCCACAATAATCTCACAAAAT
* * *
3694809 TGAAGTTCATGATTCTCCAATAACTTTTATAAAATTAAGTTCATCGAATTAAAACTTTATATACA
65 TGAA-TTCATGATTCTCCAATAACTTTCATAAAATTAAGTTCATAGAATCAAAACTTTATATACA
* *
3694874 CATATTTAAAATAAA
129 CATATGTAAAAGAAA
3694889 ATT
1 ATT
3694892 TATCTTATTT
Statistics
Matches: 121, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
141 8 0.07
142 61 0.50
143 52 0.43
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.38
Consensus pattern (143 bp):
ATTATGAGTTAGAAATTTATAATTATGGTTAAGACATTAAAATTCCACAATAATCTCACAAAATT
GAATTCATGATTCTCCAATAACTTTCATAAAATTAAGTTCATAGAATCAAAACTTTATATACACA
TATGTAAAAGAAA
Found at i:3703502 original size:28 final size:29
Alignment explanation
Indices: 3703433--3703507 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 29
3703423 AAGTAAAAAA
*
3703433 GGGGTTGGAGTATCCCCT-CAGAATTGAT
1 GGGGTTGGAGTATCCCCTGCAGAAGTGAT
* ** * *
3703461 GAGGTTAAATTATCCCCTGGA-AAGTGAT
1 GGGGTTGGAGTATCCCCTGCAGAAGTGAT
3703489 GGGGTTGGAGTATCCCCTG
1 GGGGTTGGAGTATCCCCTG
3703508 AGATGAAAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
28 35 0.97
29 1 0.03
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
GGGGTTGGAGTATCCCCTGCAGAAGTGAT
Found at i:3703996 original size:81 final size:81
Alignment explanation
Indices: 3703894--3704077 Score: 212
Period size: 81 Copynumber: 2.3 Consensus size: 81
3703884 ATTTTTGGTG
* * *
3703894 AAAATCGAGGTTGGAGAATCCCCTAAAAAAT-AGTAACGTTGGAGTATCCCTTGAGATGAA-AAT
1 AAAAT-GAGGTTGGAGTATCCCCTAAAAAATGA-TAACGTTGGAGTAT-CCTAGAGATGAAGAAA
3703957 TTCAATGTTTTAGAAA-ATA
63 TTCAATGTTTTAGAAATA-A
* * ***
3703976 AAAATGAGGTTGGAGTATCCCCTCAGAAATGATGGGGTTGGAGTATCCTAGAGATGAAGAAATTC
1 AAAATGAGGTTGGAGTATCCCCTAAAAAATGATAACGTTGGAGTATCCTAGAGATGAAGAAATTC
*
3704041 AATGTTTTAGAAGTAA
66 AATGTTTTAGAAATAA
* *
3704057 AAAAGGGGGTTGGAGTATCCC
1 AAAATGAGGTTGGAGTATCCC
3704078 TCAGAATTGA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
80 11 0.12
81 70 0.80
82 7 0.08
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (81 bp):
AAAATGAGGTTGGAGTATCCCCTAAAAAATGATAACGTTGGAGTATCCTAGAGATGAAGAAATTC
AATGTTTTAGAAATAA
Found at i:3704090 original size:80 final size:80
Alignment explanation
Indices: 3703931--3704103 Score: 242
Period size: 81 Copynumber: 2.1 Consensus size: 80
3703921 AAATAGTAAC
* * *
3703931 GTTGGAGTATCCCTTGAGATGAAAATTTCAATGTTTTAGAAAATAAAAATGAGGTTGGAGTATCC
1 GTTGGAGTAT-CCTAGAGATGAAAAATTCAATGTTTTAGAAAATAAAAAGGAGGTTGGAGTATCC
3703996 CCTCAGAAATGATGGG
65 CCTCAGAAATGATGGG
* *
3704012 GTTGGAGTATCCTAGAGATGAAGAAATTCAATGTTTTAG-AAGTAAAAAAGGGGGTTGGAGTAT-
1 GTTGGAGTATCCTAGAGATGAA-AAATTCAATGTTTTAGAAAAT-AAAAAGGAGGTTGGAGTATC
*
3704075 CCCTCAGAATTGATGGG
64 CCCTCAGAAATGATGGG
*
3704092 GTTAGAGTATCC
1 GTTGGAGTATCC
3704104 CCTAGAAAAT
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
80 41 0.49
81 42 0.51
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (80 bp):
GTTGGAGTATCCTAGAGATGAAAAATTCAATGTTTTAGAAAATAAAAAGGAGGTTGGAGTATCCC
CTCAGAAATGATGGG
Found at i:3704105 original size:628 final size:628
Alignment explanation
Indices: 3702894--3704152 Score: 2085
Period size: 628 Copynumber: 2.0 Consensus size: 628
3702884 GTCCCTATGA
* *
3702894 AAGGAAACGTGTTAGTAAATCGAAAAAGAAAATAATGAATAAATTTGCACAAAACAAATGCACAA
1 AAGGAAACATGTTAGTAAATCAAAAAAGAAAATAATGAATAAATTTGCACAAAACAAATGCACAA
3702959 AATACATAAAAGGGAAGGATGATCGAAGTGTATCTCATGATTGTCTTTGATTATTGATGAATAAC
66 AATACATAAAAGGGAAGGATGATCGAAGTGTATCTCATGATTGTCTTTGATTATTGATGAATAAC
* *
3703024 CGTGATGATAATATTGAGACTTAATCAAATTTTGTGAGATTTGAGAAAAAGAAGGTTATGATTAA
131 CATGATGATAATATTGAGACTTAATCAAATTTTGTGAGATTTGAGAAAAAGAAGGTTATGACTAA
*
3703089 TGATCCAGGGATGCCTTAGGGAAAAGTTTGAAGTTTTAAAAGAAATTCGAAAAGAAACAAAGTTG
196 TGATCCAAGGATGCCTTAGGGAAAAGTTTGAAGTTTTAAAAGAAATTCGAAAAGAAACAAAGTTG
* *
3703154 GAGTGTCTCCTCGCAATATCGAGTTAGAGTACCTCCAATGATTATATTTAAAAGAGACTTTGATT
261 GAGTGTCTCCTCGAAATACCGAGTTAGAGTACCTCCAATGATTATATTTAAAAGAGACTTTGATT
* * * *
3703219 GGAAGAGTTTAGAAACTTTGAAAAGAATGGAAATTCGATTTTTGGTGAAAATCTAGGTTGGAGTA
326 GGAAAAGTTTAGAAACTTCGAAAAGAATGGAAATTCGATTTTTGGTGAAAATCGAGGTTGGAGAA
* *
3703284 TCCCCTAAAAAATGGTAACGTTGGAGTATCCCCTGAGATGAAAATTTCAATGTTTTGGAAAATAA
391 TCCCCTAAAAAATAGTAACGTTGGAGTATCCCCTGAGATGAAAATTTCAATGTTTTAGAAAATAA
**
3703349 AAATGAGGTTGGAGTATCCCCTTGGAAACCATGGGGTTGGAGTATCCTAGAGATAAAGAAATTCA
456 AAATGAGGTTGGAGTATCCCCTCAGAAACCATGGGGTTGGAGTATCCTAGAGATAAAGAAATTCA
*
3703414 ATGTTTTAGAAGTAAAAAAGGGGTTGGAGTATCCCCTCAGAATTGATGAGGTTAAATTATCCCCT
521 ATGTTTTAGAAGTAAAAAAGGGGTTGGAGTATCCCCTCAGAATTGATGAGGTTAAAGTATCCCCT
* * *
3703479 GGAAAGTGATGGGGTTGGAGTATCCCCTGAGATGAAAATTTTG
586 AGAAAATGATGGGCTTGGAGTATCCCCTGAGATGAAAATTTTG
3703522 AAGGAAACATGTTAGTAAATCAAAAAATGAAAATAATGAATAAATTTGCACAAAACAAATGCACA
1 AAGGAAACATGTTAGTAAATCAAAAAA-GAAAATAATGAATAAATTTGCACAAAACAAATGCACA
* * * *
3703587 AAATACATAAAA-TGAGGGATGATGGAAGTGTATCT-AGTTATTGTCTTTGATTATTGATGAATA
65 AAATACATAAAAGGGAAGGATGATCGAAGTGTATCTCA-TGATTGTCTTTGATTATTGATGAATA
*
3703650 ACCATGATGATAATATTGAGACTTGATCAAATTTTGTGAGATTTGAGAAAAAGAAGGTTATGACT
129 ACCATGATGATAATATTGAGACTTAATCAAATTTTGTGAGATTTGAGAAAAAGAAGGTTATGACT
* **
3703715 AATGATCCAAGGATGCCTTAGGGAAAAGTTTGAAGTTTTAAAAGAAATTCGAAAAGAAATAGGGT
194 AATGATCCAAGGATGCCTTAGGGAAAAGTTTGAAGTTTTAAAAGAAATTCGAAAAGAAACAAAGT
* * * *
3703780 TGGAGTGTCTCCTCGAAATACCGGGTTGGAGTTACC-CCGATGATTATATTTGAAAGAGACTTTG
259 TGGAGTGTCTCCTCGAAATACCGAGTTAGAG-TACCTCCAATGATTATATTTAAAAGAGACTTTG
* * *
3703844 ATTGGAAAAGTTTGGAAACTTCGACAATAATGGAAATTCGATTTTTGGTGAAAATCGAGGTTGGA
323 ATTGGAAAAGTTTAGAAACTTCGAAAAGAATGGAAATTCGATTTTTGGTGAAAATCGAGGTTGGA
*
3703909 GAATCCCCTAAAAAATAGTAACGTTGGAGTATCCCTTGAGATGAAAATTTCAATGTTTTAGAAAA
388 GAATCCCCTAAAAAATAGTAACGTTGGAGTATCCCCTGAGATGAAAATTTCAATGTTTTAGAAAA
** *
3703974 TAAAAATGAGGTTGGAGTATCCCCTCAGAAATGATGGGGTTGGAGTATCCTAGAGATGAAGAAAT
453 TAAAAATGAGGTTGGAGTATCCCCTCAGAAACCATGGGGTTGGAGTATCCTAGAGATAAAGAAAT
* *
3704039 TCAATGTTTTAGAAGTAAAAAAGGGGGTTGGAGTAT-CCCTCAGAATTGATGGGGTTAGAGTATC
518 TCAATGTTTTAGAAGTAAAAAA-GGGGTTGGAGTATCCCCTCAGAATTGATGAGGTTAAAGTATC
*
3704103 CCCTAGAAAATGGTGGGCTTGGAGTATCCCCTGAGATGAAAATTTTG
582 CCCTAGAAAATGATGGGCTTGGAGTATCCCCTGAGATGAAAATTTTG
3704150 AAG
1 AAG
3704153 TTTTGGAAGT
Statistics
Matches: 586, Mismatches: 41, Indels: 8
0.92 0.06 0.01
Matches are distributed among these distances:
627 1 0.00
628 519 0.89
629 66 0.11
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (628 bp):
AAGGAAACATGTTAGTAAATCAAAAAAGAAAATAATGAATAAATTTGCACAAAACAAATGCACAA
AATACATAAAAGGGAAGGATGATCGAAGTGTATCTCATGATTGTCTTTGATTATTGATGAATAAC
CATGATGATAATATTGAGACTTAATCAAATTTTGTGAGATTTGAGAAAAAGAAGGTTATGACTAA
TGATCCAAGGATGCCTTAGGGAAAAGTTTGAAGTTTTAAAAGAAATTCGAAAAGAAACAAAGTTG
GAGTGTCTCCTCGAAATACCGAGTTAGAGTACCTCCAATGATTATATTTAAAAGAGACTTTGATT
GGAAAAGTTTAGAAACTTCGAAAAGAATGGAAATTCGATTTTTGGTGAAAATCGAGGTTGGAGAA
TCCCCTAAAAAATAGTAACGTTGGAGTATCCCCTGAGATGAAAATTTCAATGTTTTAGAAAATAA
AAATGAGGTTGGAGTATCCCCTCAGAAACCATGGGGTTGGAGTATCCTAGAGATAAAGAAATTCA
ATGTTTTAGAAGTAAAAAAGGGGTTGGAGTATCCCCTCAGAATTGATGAGGTTAAAGTATCCCCT
AGAAAATGATGGGCTTGGAGTATCCCCTGAGATGAAAATTTTG
Found at i:3704110 original size:27 final size:29
Alignment explanation
Indices: 3704062--3704134 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 29
3704052 AGTAAAAAAG
*
3704062 GGGGTTGGAGTAT-CCCTCAG-AATTGAT
1 GGGGTTGGAGTATCCCCTCAGAAAATGAT
* *
3704089 GGGGTTAGAGTATCCCCT-AGAAAATGGT
1 GGGGTTGGAGTATCCCCTCAGAAAATGAT
*
3704117 GGGCTTGGAGTATCCCCT
1 GGGGTTGGAGTATCCCCT
3704135 GAGATGAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 14 0.36
28 25 0.64
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (29 bp):
GGGGTTGGAGTATCCCCTCAGAAAATGAT
Found at i:3704171 original size:80 final size:78
Alignment explanation
Indices: 3704087--3704488 Score: 306
Period size: 80 Copynumber: 5.0 Consensus size: 78
3704077 CTCAGAATTG
* * * *
3704087 ATGGGGTTAGAGTATCCCCTAGAAAATGGTGGGCTTGGAGTATCCCCTGA-GATGAAAATTTTGA
1 ATGGGGTTGGAGTATCCCCTAGAAAATGATGGGGTTGGAGTATCCCC-GATGGTGAAAA-TTTGA
3704151 AGTTTTGGAAGTAAAA
64 A-TTTTGGAAGTAAAA
* * ** * * * * *
3704167 ATGGGGTTGGAGTATTCCCTTGGTAATGATGGGGTTGGAGTATTCTCGACGGTGAAAAATTCAAT
1 ATGGGGTTGGAGTATCCCCTAGAAAATGATGGGGTTGGAGTATCCCCGATGGTGAAAATTTGAAT
* *
3704232 ATTATGAAAGTGTAAA
66 -TT-TGGAAGT-AAAA
** * * * * * *
3704248 A-GGGGTTAAAGTATCCTCTAAAAAATGATGGGTTTGAAATATCCCCGATGGGGAAACATTTGAT
1 ATGGGGTTGGAGTATCCCCTAGAAAATGATGGGGTTGGAGTATCCCCGATGGTGAAA-ATTTGA-
* *
3704312 GTTTTTGGAAGTAGAA
64 -ATTTTGGAAGTAAAA
* * * * ** * * *
3704328 ACGGGCTTGGAGTATCCCATCGGTAATGATGGGGTTGGAGTATCCCCGATAGTGAAAAATTCAAT
1 ATGGGGTTGGAGTATCCCCTAGAAAATGATGGGGTTGGAGTATCCCCGATGGTGAAAATTTGAAT
3704393 ATTGTGGAAGTAAAA
66 -TT-TGGAAGTAAAA
** **
3704408 ATGGGGTTGGAGTATCCTTTCA-AAAATGATGGGGTTGGAGTATCCCTAATGGTGAAAATTTTGA
1 ATGGGGTTGGAGTATCCCCT-AGAAAATGATGGGGTTGGAGTATCCCCGATGGTGAAAA-TTTGA
*
3704472 TATTTTGGATGTAAAA
64 -ATTTTGGAAGTAAAA
3704488 A
1 A
3704489 CAAGGTATGT
Statistics
Matches: 243, Mismatches: 66, Indels: 26
0.73 0.20 0.08
Matches are distributed among these distances:
78 2 0.01
79 10 0.04
80 166 0.68
81 60 0.25
82 4 0.02
83 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.30
Consensus pattern (78 bp):
ATGGGGTTGGAGTATCCCCTAGAAAATGATGGGGTTGGAGTATCCCCGATGGTGAAAATTTGAAT
TTTGGAAGTAAAA
Found at i:3704186 original size:108 final size:108
Alignment explanation
Indices: 3703983--3704209 Score: 277
Period size: 108 Copynumber: 2.1 Consensus size: 108
3703973 ATAAAAATGA
*
3703983 GGTTGGAGTATCCCCTCAGAAATGATGGGGTTGGAGTATCCTAGAGATGAAGAAATTCAATGTTT
1 GGTTGGAGTATCCCCTCAGAAATGATGGGCTTGGAGTATCCTAGAGATGAAGAAATTCAATGTTT
3704048 TAGAAGTAAAAAAGGGGGTTGGAGTATCCCTCAG-AATTGATGG
66 TAGAAGTAAAAAAGGGGGTTGGAGTATCCCTCAGTAA-TGATGG
* * * *
3704091 GGTTAGAGTATCCCCT-AGAAAATGGTGGGCTTGGAGTATCCCCT-GAGATGAA-AATTTTGAA-
1 GGTTGGAGTATCCCCTCAG-AAATGATGGGCTTGGAGTAT--CCTAGAGATGAAGAA-ATTCAAT
* * **
3704152 GTTTTGGAAGT-AAAAATGGGGTTGGAGTATTCCCTTGGTAATGATGG
62 GTTTTAGAAGTAAAAAAGGGGGTTGGAGTA-TCCCTCAGTAATGATGG
3704199 GGTTGGAGTAT
1 GGTTGGAGTAT
3704210 TCTCGACGGT
Statistics
Matches: 103, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
107 19 0.18
108 67 0.65
109 14 0.14
110 3 0.03
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.29
Consensus pattern (108 bp):
GGTTGGAGTATCCCCTCAGAAATGATGGGCTTGGAGTATCCTAGAGATGAAGAAATTCAATGTTT
TAGAAGTAAAAAAGGGGGTTGGAGTATCCCTCAGTAATGATGG
Found at i:3704279 original size:188 final size:189
Alignment explanation
Indices: 3703932--3704279 Score: 436
Period size: 188 Copynumber: 1.8 Consensus size: 189
3703922 AATAGTAACG
*
3703932 TTGGAGTATCCCTTGAGATGAAAATTTCAATGTTTTAGAAAATAAAAATGAGGTTGGAGTATCCC
1 TTGGAGTATCCCCTGAGATGAAAATTTCAATGTTTTAGAAAATAAAAATGAGGTTGGAGTATCCC
* *
3703997 CTCAGAAATGATGGGGTTGGAGTATCCTAGAGATGAAGAAATTCAATGTTTTAGAAGTAAAAAAG
66 CTCAGAAATGATGGGGTTGGAGTATCCTAGAGATGAAGAAATTCAATATTTGAGAAGTAAAAAAG
** * * *
3704062 GGGGTTGGAGTATCCCTCAGAATTGATGGGGTTAGAGTATCCCCTAGAAAATGGTGGGC
131 GGGGTTAAAGTATCCCTAAAAAATGATGGGGTTAGAGTATCCCCTAGAAAATGGTGGGC
* * * * *
3704121 TTGGAGTATCCCCTGAGATGAAAATTTTGAA-GTTTT-GGAAGTAAAAATGGGGTTGGAGTATTC
1 TTGGAGTATCCCCTGAGATGAAAA-TTTCAATGTTTTAGAAAATAAAAATGAGGTTGGAGTATCC
** * * * * **
3704184 CCTTGGTAATGATGGGGTTGGAGTATTCTCGACGGTGAA-AAATTCAATATTATGA-AAGTGTAA
65 CCTCAGAAATGATGGGGTTGGAGTATCCTAGA-GATGAAGAAATTCAATATT-TGAGAAGTAAAA
3704247 AA-GGGGTTAAAGTATCCTCTAAAAAATGATGGG
128 AAGGGGGTTAAAGTATCC-CTAAAAAATGATGGG
3704280 TTTGAAATAT
Statistics
Matches: 134, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
187 13 0.10
188 81 0.60
189 35 0.26
190 5 0.04
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (189 bp):
TTGGAGTATCCCCTGAGATGAAAATTTCAATGTTTTAGAAAATAAAAATGAGGTTGGAGTATCCC
CTCAGAAATGATGGGGTTGGAGTATCCTAGAGATGAAGAAATTCAATATTTGAGAAGTAAAAAAG
GGGGTTAAAGTATCCCTAAAAAATGATGGGGTTAGAGTATCCCCTAGAAAATGGTGGGC
Found at i:3709288 original size:21 final size:22
Alignment explanation
Indices: 3709264--3709313 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
3709254 TTTCGATAAT
*
3709264 TGTTTTTGAGTTATGAA-CAAA
1 TGTTTTTGAGTTATAAATCAAA
* *
3709285 TGTTTTCGAGTTTTAAATCAAA
1 TGTTTTTGAGTTATAAATCAAA
3709307 TGTTTTT
1 TGTTTTT
3709314 AAGTAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (22 bp):
TGTTTTTGAGTTATAAATCAAA
Found at i:3709482 original size:32 final size:33
Alignment explanation
Indices: 3709424--3709486 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
3709414 CTTTCAGATG
*
3709424 TATCGATACATTATGCTTTGTATCGATACATTA
1 TATCGATACATTATGCATTGTATCGATACATTA
3709457 TATCGATACATGT-T-CATTGTATCGATACAT
1 TATCGATACAT-TATGCATTGTATCGATACAT
3709487 AAACAAATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (33 bp):
TATCGATACATTATGCATTGTATCGATACATTA
Found at i:3709571 original size:13 final size:13
Alignment explanation
Indices: 3709553--3709578 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3709543 GATACATGGC
3709553 ATGTATCGATACA
1 ATGTATCGATACA
3709566 ATGTATCGATACA
1 ATGTATCGATACA
3709579 TGAAGAATTA
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3710594 original size:115 final size:115
Alignment explanation
Indices: 3710459--3710682 Score: 385
Period size: 115 Copynumber: 1.9 Consensus size: 115
3710449 CAAGAAAAAA
*
3710459 TGTCTTATGGTATTAGAAAATAATTCAAATGACATCGGACTCGGAGGTCACTCTACCATGAGACC
1 TGTCTTATGGTATTAGAAAATAATTCAAATGACATCGGACTCGAAGGTCACTCTACCATGAGACC
* *
3710524 ATCATACTATAATGGGGACAACTACTCATATTAGAAAACAAGAAAAATTG
66 ATCATACTACAACGGGGACAACTACTCATATTAGAAAACAAGAAAAATTG
* *
3710574 TGTCTTATGGTATTAGAAAATAATTCAAATGCCATCGGACTCGAAGGTCACTCTATCATGAGACC
1 TGTCTTATGGTATTAGAAAATAATTCAAATGACATCGGACTCGAAGGTCACTCTACCATGAGACC
* *
3710639 ATTATACTACAACGGGGACAACTACTCATATTAGAAAATAAGAA
66 ATCATACTACAACGGGGACAACTACTCATATTAGAAAACAAGAA
3710683 TGAGATTGTT
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
115 102 1.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (115 bp):
TGTCTTATGGTATTAGAAAATAATTCAAATGACATCGGACTCGAAGGTCACTCTACCATGAGACC
ATCATACTACAACGGGGACAACTACTCATATTAGAAAACAAGAAAAATTG
Found at i:3715890 original size:13 final size:13
Alignment explanation
Indices: 3715872--3715896 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3715862 AAAAACATAG
3715872 ATGTATCGATACA
1 ATGTATCGATACA
3715885 ATGTATCGATAC
1 ATGTATCGATAC
3715897 CTGAGTTACT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3716186 original size:143 final size:143
Alignment explanation
Indices: 3715928--3716189 Score: 488
Period size: 143 Copynumber: 1.8 Consensus size: 143
3715918 TCGAACCTTT
3715928 TTCTTTCATTCTTTATCGATACAACCCCAAAAAAAACCTAAATTCTCTCAAACCCTAACAATTCT
1 TTCTTTCATTCTTTATCGATACAACCCCAAAAAAAACCTAAATTCTCTCAAACCCTAACAATTCT
*
3715993 TTCATCAAATTTCTTCAAATCATTTTCAAATTTCATCAATTTCGCATCAAAACAATTCTTTCATC
66 TTCATCAAATTTCTTCAAATCATTTTCAAATTTCATCAATTTCACATCAAAACAATTCTTTCATC
3716058 AAATTTTTCATTC
131 AAATTTTTCATTC
* *
3716071 TTCTTTCATTCTTTATCGATACAACCCCAGAAAAAACCTAAATTCTCTCAAACTCTAACAATTCT
1 TTCTTTCATTCTTTATCGATACAACCCCAAAAAAAACCTAAATTCTCTCAAACCCTAACAATTCT
*
3716136 TTTATCAAATTTCTTCAAATCATTTTCAAATTTCATCAATTTCACATCAAAACA
66 TTCATCAAATTTCTTCAAATCATTTTCAAATTTCATCAATTTCACATCAAAACA
3716190 TTTCATTTTT
Statistics
Matches: 115, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
143 115 1.00
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.38
Consensus pattern (143 bp):
TTCTTTCATTCTTTATCGATACAACCCCAAAAAAAACCTAAATTCTCTCAAACCCTAACAATTCT
TTCATCAAATTTCTTCAAATCATTTTCAAATTTCATCAATTTCACATCAAAACAATTCTTTCATC
AAATTTTTCATTC
Found at i:3718537 original size:19 final size:20
Alignment explanation
Indices: 3718510--3718567 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
3718500 TGTATTGATA
* *
3718510 CATTATATCGATACATG-TT
1 CATTGTATCGATACATGAAT
3718529 CATTGTATCGATACATGAAT
1 CATTGTATCGATACATGAAT
* *
3718549 AAATGTATCGATACATGAA
1 CATTGTATCGATACATGAA
3718568 ATTAGCAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (20 bp):
CATTGTATCGATACATGAAT
Found at i:3721917 original size:22 final size:22
Alignment explanation
Indices: 3721892--3721953 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
3721882 TACTTAAACT
* *
3721892 ATGTATATATGACTATAATTGA
1 ATGTACATATAACTATAATTGA
* *
3721914 ATGTACATTTAATTATAATTGA
1 ATGTACATATAACTATAATTGA
* *
3721936 ATGTGCATATAATTATAA
1 ATGTACATATAACTATAA
3721954 CAATATATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (22 bp):
ATGTACATATAACTATAATTGA
Found at i:3722155 original size:22 final size:22
Alignment explanation
Indices: 3722125--3722180 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
3722115 TAAAATAATG
*
3722125 TGTACATATGACCATAGCTAA-A
1 TGTACATATGACCATAAC-AACA
* *
3722147 TGTAGATATGACTATAACAACA
1 TGTACATATGACCATAACAACA
*
3722169 TGTATATATGAC
1 TGTACATATGAC
3722181 TTTAATTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (22 bp):
TGTACATATGACCATAACAACA
Found at i:3722658 original size:22 final size:22
Alignment explanation
Indices: 3722633--3722677 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
3722623 GTATAACTGG
3722633 ATGTACATATAACTTTT-ATTGA
1 ATGTACATATAA-TTTTAATTGA
*
3722655 ATGTACATATGATTTTAATTGA
1 ATGTACATATAATTTTAATTGA
3722677 A
1 A
3722678 CCAATCTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (22 bp):
ATGTACATATAATTTTAATTGA
Found at i:3722826 original size:54 final size:52
Alignment explanation
Indices: 3722732--3722906 Score: 196
Period size: 52 Copynumber: 3.3 Consensus size: 52
3722722 CCTAATACAT
* *
3722732 ATATAAAATAGTTTTTTATTTTTATTATTTTTT-AATAGTAATTCAAAATTTA
1 ATATAAAATATTTTTTTATTTTT-TTATTTTTTAAATAGTAATTTAAAATTTA
*
3722784 ATATAAAATATTTTTTTATTTTTTTATTTTTTAAAAAAAGTAATTTAAAATTTA
1 ATATAAAATATTTTTTTATTTTTTTATTTTTT--AAATAGTAATTTAAAATTTA
** * *
3722838 ATAT-AAAT-TTTTTAAAAAATTTTTATTA-TTTTTAAATAGTAATTTGAGATTTA
1 ATATAAAATATTTTT---TTATTTTT-TTATTTTTTAAATAGTAATTTAAAATTTA
3722891 ATATAAAATATTTTTT
1 ATATAAAATATTTTTT
3722907 ATGGTTATTA
Statistics
Matches: 105, Mismatches: 9, Indels: 18
0.80 0.07 0.14
Matches are distributed among these distances:
51 9 0.09
52 27 0.26
53 25 0.24
54 25 0.24
55 16 0.15
56 3 0.03
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (52 bp):
ATATAAAATATTTTTTTATTTTTTTATTTTTTAAATAGTAATTTAAAATTTA
Found at i:3722890 original size:53 final size:53
Alignment explanation
Indices: 3722749--3722905 Score: 174
Period size: 53 Copynumber: 2.9 Consensus size: 53
3722739 ATAGTTTTTT
* * ** *
3722749 ATTTTTATTATTTTTTAATAGTAATTCAAAATTTAATATAAAATATTTTTTTAT
1 ATTTTTATTATTTTTAAATAGTAATTTAAAATTTAATAT-AAATATTTTTAAAA
* * *
3722803 TTTTTTATT-TTTTAAAAAAAGTAATTTAAAATTTAATATAAAT-TTTTTAAAAA
1 ATTTTTATTATTTT-TAAATAGTAATTTAAAATTTAATATAAATATTTTT-AAAA
* *
3722856 ATTTTTATTATTTTTAAATAGTAATTTGAGATTTAATATAAAATATTTTT
1 ATTTTTATTATTTTTAAATAGTAATTTAAAATTTAATAT-AAATATTTTT
3722906 TATGGTTATT
Statistics
Matches: 85, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
52 5 0.06
53 38 0.45
54 37 0.44
55 5 0.06
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (53 bp):
ATTTTTATTATTTTTAAATAGTAATTTAAAATTTAATATAAATATTTTTAAAA
Found at i:3722950 original size:23 final size:23
Alignment explanation
Indices: 3722879--3722950 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
3722869 TTAAATAGTA
3722879 ATTTGAGATTTAATATAAAATAT
1 ATTTGAGATTTAATATAAAATAT
* * * *
3722902 TTTTTATG-GTTATTA-AAAACTA-
1 ATTTGA-GATTTAATATAAAA-TAT
3722924 ATTTGAGATTTAATATAAAATAT
1 ATTTGAGATTTAATATAAAATAT
3722947 ATTT
1 ATTT
3722951 TAATTTTTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
21 1 0.03
22 15 0.42
23 19 0.53
24 1 0.03
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.47
Consensus pattern (23 bp):
ATTTGAGATTTAATATAAAATAT
Found at i:3722979 original size:18 final size:19
Alignment explanation
Indices: 3722948--3722987 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
3722938 ATAAAATATA
*
3722948 TTTTAATTTTTTTATTATT
1 TTTTAATTTGTTTATTATT
3722967 TTTTAA-TTGTTTATTATT
1 TTTTAATTTGTTTATTATT
3722985 TTT
1 TTT
3722988 CAGATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTTAATTTGTTTATTATT
Found at i:3730162 original size:30 final size:32
Alignment explanation
Indices: 3730127--3730187 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
3730117 GAGTTGCAAT
*
3730127 TTTTACTGATAA-AT-TATATGTATTTTTTTA
1 TTTTACTGATAATATGTATATATATTTTTTTA
* *
3730157 TTTTACTGTTAATCTGTATATATATTTTTTT
1 TTTTACTGATAATATGTATATATATTTTTTT
3730188 GTTTCAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 11 0.42
31 1 0.04
32 14 0.54
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (32 bp):
TTTTACTGATAATATGTATATATATTTTTTTA
Found at i:3732012 original size:15 final size:15
Alignment explanation
Indices: 3731973--3732012 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
3731963 AATTTATCAT
* *
3731973 AATAAATGAATATAA
1 AATATATGATTATAA
3731988 AATATATGATTATAA
1 AATATATGATTATAA
3732003 AATATATGAT
1 AATATATGAT
3732013 ATTCAATCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (15 bp):
AATATATGATTATAA
Found at i:3732646 original size:9 final size:9
Alignment explanation
Indices: 3732623--3732666 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 9
3732613 TTATATAATT
3732623 TAAATATAAA
1 TAAA-ATAAA
*
3732633 GAAAATAAA
1 TAAAATAAA
3732642 TAAAAATAATA
1 T-AAAATAA-A
3732653 TAAAATAAA
1 TAAAATAAA
3732662 TAAAA
1 TAAAA
3732667 AATTAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 11 0.37
10 17 0.57
11 2 0.07
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (9 bp):
TAAAATAAA
Found at i:3732751 original size:18 final size:19
Alignment explanation
Indices: 3732728--3732763 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
3732718 ATAATGAGAT
3732728 CAAGAGTT-ATTAGTATAA
1 CAAGAGTTGATTAGTATAA
*
3732746 CAAGAGTTGATTGGTATA
1 CAAGAGTTGATTAGTATA
3732764 TATCTCTTAG
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:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (19 bp):
CAAGAGTTGATTAGTATAA
Found at i:3734667 original size:14 final size:15
Alignment explanation
Indices: 3734648--3734682 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
3734638 AACAAGCATG
3734648 AATTTTG-AAAAATC
1 AATTTTGAAAAAATC
3734662 AATTTTGAAAAAATC
1 AATTTTGAAAAAATC
3734677 AATTTT
1 AATTTT
3734683 TAATGGCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (15 bp):
AATTTTGAAAAAATC
Found at i:3735872 original size:21 final size:20
Alignment explanation
Indices: 3735825--3735878 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
3735815 CATTTTAGAC
*
3735825 ATGTACCGATACATTCACTT
1 ATGTATCGATACATTCACTT
3735845 ATGTATCGATACATT-ACCTT
1 ATGTATCGATACATTCA-CTT
3735865 ATTGTATCGATACA
1 A-TGTATCGATACA
3735879 AATTATTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 1 0.03
20 18 0.58
21 12 0.39
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:3737988 original size:79 final size:78
Alignment explanation
Indices: 3737761--3737993 Score: 236
Period size: 79 Copynumber: 3.0 Consensus size: 78
3737751 TTTGGGTCAA
* ** * * *
3737761 TAGGGTTATGTGGGTATTTTTGTATCAATACATGT-CTATTAAGGTCATTTAAGTAATAGTATAT
1 TAGGGTTATGTAGGTATTTTCATGTCAATACATGTCCT-TTAAGATCAATTAAGTAATAGTATAT
*
3737825 TAAAAGTAAGTCTT
65 TAAAACTAAGTCTT
* * * * * * *
3737839 TAAGGTTATGTAAGTATTTTCATGTCAATATATGTCCGTT-AGAGCGAATTTAAGTAATGGTACA
1 TAGGGTTATGTAGGTATTTTCATGTCAATACATGTCCTTTAAGATC-AA-TTAAGTAATAGTATA
*
3737903 TTAAAACCAAGTCTT
64 TTAAAACTAAGTCTT
* * * * *
3737918 TAGGGTCATGTTGGTATTTTCATGTCAATACATGTCCTTTAAGATCAATTAAGAAATACTATGTT
1 TAGGGTTATGTAGGTATTTTCATGTCAATACATGTCCTTTAAGATCAATTAAGTAATAGTATATT
3737983 AAAAACTAAGT
66 -AAAACTAAGT
3737994 GCCTACTATT
Statistics
Matches: 122, Mismatches: 28, Indels: 9
0.77 0.18 0.06
Matches are distributed among these distances:
77 3 0.02
78 43 0.35
79 72 0.59
80 4 0.03
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.39
Consensus pattern (78 bp):
TAGGGTTATGTAGGTATTTTCATGTCAATACATGTCCTTTAAGATCAATTAAGTAATAGTATATT
AAAACTAAGTCTT
Found at i:3739689 original size:39 final size:38
Alignment explanation
Indices: 3739586--3739690 Score: 99
Period size: 35 Copynumber: 2.8 Consensus size: 38
3739576 AGTCATTTTT
*
3739586 GTAATTTCATGCATAAACATGCCCATTAGGGTTATTTAT
1 GTAATTTCATGCATAAACAT-CCCATTAGGGTTATTTAG
* * ** * * *
3739625 GTTATTGCATAAAT-GA-ATCTC-TTAGGGTTTTTTAG
1 GTAATTTCATGCATAAACATCCCATTAGGGTTATTTAG
3739660 GTAATTTCATGCATAAACATACCCATTAGGG
1 GTAATTTCATGCATAAACAT-CCCATTAGGG
3739691 CCATTGAAGG
Statistics
Matches: 48, Mismatches: 14, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
35 22 0.46
36 3 0.06
37 4 0.08
38 3 0.06
39 16 0.33
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (38 bp):
GTAATTTCATGCATAAACATCCCATTAGGGTTATTTAG
Found at i:3739832 original size:77 final size:77
Alignment explanation
Indices: 3739662--3739841 Score: 188
Period size: 77 Copynumber: 2.3 Consensus size: 77
3739652 TTTTTTAGGT
* * * *
3739662 AATTTCATGCATAAACATACCCATTAGGGCCATTGAAGGAATTTTAGGCATATATGCATCCTTTA
1 AATTTCATGCATAAACATACCCATTAGGGCCATTGAACG-ATTTTAGGCATAAATGCATCATTCA
*
3739727 GGGTCACTTTGGT
65 GGGTCACTTTGGC
* * * *
3739740 AA-TTCTTACATAAACATACTCATTAGGGTCATTTTG-ACG-TTTTAGGCATAAATGCAGT-ATT
1 AATTTCATGCATAAACATACCCATTAGGGCCA--TTGAACGATTTTAGGCATAAATGCA-TCATT
* *
3739801 CGGGGTCATTTTGGC
63 CAGGGTCACTTTGGC
*
3739816 AATTTCATGCATAAACATACCTATTA
1 AATTTCATGCATAAACATACCCATTA
3739842 AGGTCGTTAG
Statistics
Matches: 83, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
76 31 0.37
77 45 0.54
78 4 0.05
79 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (77 bp):
AATTTCATGCATAAACATACCCATTAGGGCCATTGAACGATTTTAGGCATAAATGCATCATTCAG
GGTCACTTTGGC
Found at i:3750455 original size:20 final size:21
Alignment explanation
Indices: 3750409--3750455 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
3750399 TATGTAAAAG
*
3750409 AAAATTATGAGTTAAAACTTT
1 AAAATTATGAGTTAAAACATT
* **
3750430 ATAATTATG-GTTAAGGCATT
1 AAAATTATGAGTTAAAACATT
3750450 AAAATT
1 AAAATT
3750456 CATAATAATT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (21 bp):
AAAATTATGAGTTAAAACATT
Found at i:3753440 original size:15 final size:16
Alignment explanation
Indices: 3753417--3753449 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
3753407 GATTCCTGTA
3753417 TTATATATAATATATTT
1 TTATATAT-ATATATTT
3753434 TTATATATATATATTT
1 TTATATATATATATTT
3753450 CATTTGGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATATATATATATTT
Found at i:3756891 original size:17 final size:17
Alignment explanation
Indices: 3756869--3756902 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3756859 GAGAGCAGTC
3756869 ATAAAATTTAAAATAAA
1 ATAAAATTTAAAATAAA
*
3756886 ATAAAATTTTAAATAAA
1 ATAAAATTTAAAATAAA
3756903 CTGTCATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAATTTAAAATAAA
Found at i:3759166 original size:28 final size:29
Alignment explanation
Indices: 3759097--3759171 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 29
3759087 AAGTAAAAAA
*
3759097 GGGGTTGGAGTATCCCCT-CAGAATTGAT
1 GGGGTTGGAGTATCCCCTGCAGAAGTGAT
* ** * *
3759125 GAGGTTAAATTATCCCCTGGA-AAGTGAT
1 GGGGTTGGAGTATCCCCTGCAGAAGTGAT
3759153 GGGGTTGGAGTATCCCCTG
1 GGGGTTGGAGTATCCCCTG
3759172 AGATGAAAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
28 35 0.97
29 1 0.03
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
GGGGTTGGAGTATCCCCTGCAGAAGTGAT
Found at i:3759660 original size:81 final size:81
Alignment explanation
Indices: 3759566--3759742 Score: 198
Period size: 81 Copynumber: 2.2 Consensus size: 81
3759556 TGAAAATCGG
* * *
3759566 GGTTGGAGAATCCCTTAAAAAAT-AGTAACGTTGGAGTATCCCTTGAGATGAA-AATTTCAATGT
1 GGTTGGAGTATCCCTTAAAAAATGA-TAACGTTGGAGTAT-CCTAGAGATGAAGAAATTCAATGT
*
3759629 TTTAGAAA-ATAAAAATGA
64 TTTAGAAATA-AAAAAGGA
* * * ***
3759647 GGTTGGAGTATCCCCTCAGAAATGATGGGGTTGGAGTATCCTAGAGATGAAGAAATTCAATGTTT
1 GGTTGGAGTATCCCTTAAAAAATGATAACGTTGGAGTATCCTAGAGATGAAGAAATTCAATGTTT
* *
3759712 TAGAAGTAAAAAAGGG
66 TAGAAATAAAAAAGGA
3759728 GGTTGGAGTATCCCT
1 GGTTGGAGTATCCCT
3759743 CAGAATTGAT
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
80 11 0.14
81 67 0.84
82 2 0.03
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (81 bp):
GGTTGGAGTATCCCTTAAAAAATGATAACGTTGGAGTATCCTAGAGATGAAGAAATTCAATGTTT
TAGAAATAAAAAAGGA
Found at i:3759754 original size:80 final size:80
Alignment explanation
Indices: 3759595--3759767 Score: 242
Period size: 81 Copynumber: 2.1 Consensus size: 80
3759585 AAATAGTAAC
* * *
3759595 GTTGGAGTATCCCTTGAGATGAAAATTTCAATGTTTTAGAAAATAAAAATGAGGTTGGAGTATCC
1 GTTGGAGTAT-CCTAGAGATGAAAAATTCAATGTTTTAGAAAATAAAAAGGAGGTTGGAGTATCC
3759660 CCTCAGAAATGATGGG
65 CCTCAGAAATGATGGG
* *
3759676 GTTGGAGTATCCTAGAGATGAAGAAATTCAATGTTTTAG-AAGTAAAAAAGGGGGTTGGAGTAT-
1 GTTGGAGTATCCTAGAGATGAA-AAATTCAATGTTTTAGAAAAT-AAAAAGGAGGTTGGAGTATC
*
3759739 CCCTCAGAATTGATGGG
64 CCCTCAGAAATGATGGG
*
3759756 GTTAGAGTATCC
1 GTTGGAGTATCC
3759768 CCTAGAAAAT
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
80 41 0.49
81 42 0.51
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (80 bp):
GTTGGAGTATCCTAGAGATGAAAAATTCAATGTTTTAGAAAATAAAAAGGAGGTTGGAGTATCCC
CTCAGAAATGATGGG
Found at i:3759769 original size:628 final size:628
Alignment explanation
Indices: 3758558--3759816 Score: 2101
Period size: 628 Copynumber: 2.0 Consensus size: 628
3758548 GTCCCTATGA
*
3758558 AAGGAAACATGTTAGTAAATCGAAAAAGAAAATAATGAATAAATTTGCACAAAACAAATGCACAA
1 AAGGAAACATGTTAGTAAATCAAAAAAGAAAATAATGAATAAATTTGCACAAAACAAATGCACAA
*
3758623 AATACATAAAAGGGAAGGATGATCGAAGTGTATCTCGTGATTGTCTTTGATTATTGATGAATAAC
66 AATACATAAAAGGGAAGGATGATCGAAGTGTATCTAGTGATTGTCTTTGATTATTGATGAATAAC
* *
3758688 CGTGATGATAATATTGAGACTTAATCAAATTTTGTGAGATTTGAGAAAAAGAAGGTTATGATTAA
131 CATGATGATAATATTGAGACTTAATCAAATTTTGTGAGATTTGAGAAAAAGAAGGTTATGACTAA
*
3758753 TGATCCAGGGATGCCTTAGGGAAAAGTTTGAAGTTTTAAAAGAAATTCGAAAAGAAACAAAGTTG
196 TGATCCAAGGATGCCTTAGGGAAAAGTTTGAAGTTTTAAAAGAAATTCGAAAAGAAACAAAGTTG
* *
3758818 GAGTGTCTCCTCGCAATATCGAGTTAGAGTACCTCCAATGATTATATTTAAAAGAGACTTTGATT
261 GAGTGTCTCCTCGAAATACCGAGTTAGAGTACCTCCAATGATTATATTTAAAAGAGACTTTGATT
* * * *
3758883 GGAAGAGTTTAGAAACTTTGAAAAGAATGGAAATTCGATTTTTGGTGAAAATCTGGGTTGGAGTA
326 GGAAAAGTTTAGAAACTTCGAAAAGAATGGAAATTCGATTTTTGGTGAAAATCGGGGTTGGAGAA
* *
3758948 TCCCCTAAAAAATGGTAACGTTGGAGTATCCCCTGAGATGAAAATTTCAATGTTTTGGAAAATAA
391 TCCCCTAAAAAATAGTAACGTTGGAGTATCCCCTGAGATGAAAATTTCAATGTTTTAGAAAATAA
* **
3759013 AAATGAGGTTGGAGTATCCCTTTGGAAACCATGGGGTTGGAGTATCCTAGAGATGAAGAAATTCA
456 AAATGAGGTTGGAGTATCCCCTCAGAAACCATGGGGTTGGAGTATCCTAGAGATGAAGAAATTCA
*
3759078 ATGTTTTAGAAGTAAAAAAGGGGTTGGAGTATCCCCTCAGAATTGATGAGGTTAAATTATCCCCT
521 ATGTTTTAGAAGTAAAAAAGGGGTTGGAGTATCCCCTCAGAATTGATGAGGTTAAAGTATCCCCT
* * *
3759143 GGAAAGTGATGGGGTTGGAGTATCCCCTGAGATGAAAATTTTG
586 AGAAAATGATGGGCTTGGAGTATCCCCTGAGATGAAAATTTTG
3759186 AAGGAAACATGTTAGTAAATCAAAAAATGAAAATAATGAATAAATTTGCACAAAACAAATGCACA
1 AAGGAAACATGTTAGTAAATCAAAAAA-GAAAATAATGAATAAATTTGCACAAAACAAATGCACA
* * * *
3759251 AAATACATAAAA-TGAGGGATGATGGAAGTGTATCTAGTTATTGTCTTTGATTATTGATGAATAA
65 AAATACATAAAAGGGAAGGATGATCGAAGTGTATCTAGTGATTGTCTTTGATTATTGATGAATAA
*
3759315 CCATGATGATAATATTGAGACTTGATCAAATTTTGTGAGATTTGAGAAAAAGAAGGTTATGACTA
130 CCATGATGATAATATTGAGACTTAATCAAATTTTGTGAGATTTGAGAAAAAGAAGGTTATGACTA
* **
3759380 ATGATCCAAGGATGCCTTAGGGAAAAGTTTGAAGTTTTAAAAGAAATTCGAAAAGAAATAGGGTT
195 ATGATCCAAGGATGCCTTAGGGAAAAGTTTGAAGTTTTAAAAGAAATTCGAAAAGAAACAAAGTT
* * * *
3759445 GGAGTGTCTCCTCGAAATACCGGGTTGGAGTTACC-CCGATGATTATATTTGAAAGAGACTTTGA
260 GGAGTGTCTCCTCGAAATACCGAGTTAGAG-TACCTCCAATGATTATATTTAAAAGAGACTTTGA
* *
3759509 TTGGAAAAGTTTGGAAACTTCGACAAGAATGGAAATTCGATTTTTGGTGAAAATCGGGGTTGGAG
324 TTGGAAAAGTTTAGAAACTTCGAAAAGAATGGAAATTCGATTTTTGGTGAAAATCGGGGTTGGAG
* *
3759574 AATCCCTTAAAAAATAGTAACGTTGGAGTATCCCTTGAGATGAAAATTTCAATGTTTTAGAAAAT
389 AATCCCCTAAAAAATAGTAACGTTGGAGTATCCCCTGAGATGAAAATTTCAATGTTTTAGAAAAT
**
3759639 AAAAATGAGGTTGGAGTATCCCCTCAGAAATGATGGGGTTGGAGTATCCTAGAGATGAAGAAATT
454 AAAAATGAGGTTGGAGTATCCCCTCAGAAACCATGGGGTTGGAGTATCCTAGAGATGAAGAAATT
* *
3759704 CAATGTTTTAGAAGTAAAAAAGGGGGTTGGAGTAT-CCCTCAGAATTGATGGGGTTAGAGTATCC
519 CAATGTTTTAGAAGTAAAAAA-GGGGTTGGAGTATCCCCTCAGAATTGATGAGGTTAAAGTATCC
*
3759768 CCTAGAAAATGGTGGGCTTGGAGTATCCCCTGAGATGAAAATTTTG
583 CCTAGAAAATGATGGGCTTGGAGTATCCCCTGAGATGAAAATTTTG
3759814 AAG
1 AAG
3759817 TTTTGGAAGT
Statistics
Matches: 587, Mismatches: 41, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
628 521 0.89
629 66 0.11
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (628 bp):
AAGGAAACATGTTAGTAAATCAAAAAAGAAAATAATGAATAAATTTGCACAAAACAAATGCACAA
AATACATAAAAGGGAAGGATGATCGAAGTGTATCTAGTGATTGTCTTTGATTATTGATGAATAAC
CATGATGATAATATTGAGACTTAATCAAATTTTGTGAGATTTGAGAAAAAGAAGGTTATGACTAA
TGATCCAAGGATGCCTTAGGGAAAAGTTTGAAGTTTTAAAAGAAATTCGAAAAGAAACAAAGTTG
GAGTGTCTCCTCGAAATACCGAGTTAGAGTACCTCCAATGATTATATTTAAAAGAGACTTTGATT
GGAAAAGTTTAGAAACTTCGAAAAGAATGGAAATTCGATTTTTGGTGAAAATCGGGGTTGGAGAA
TCCCCTAAAAAATAGTAACGTTGGAGTATCCCCTGAGATGAAAATTTCAATGTTTTAGAAAATAA
AAATGAGGTTGGAGTATCCCCTCAGAAACCATGGGGTTGGAGTATCCTAGAGATGAAGAAATTCA
ATGTTTTAGAAGTAAAAAAGGGGTTGGAGTATCCCCTCAGAATTGATGAGGTTAAAGTATCCCCT
AGAAAATGATGGGCTTGGAGTATCCCCTGAGATGAAAATTTTG
Found at i:3759774 original size:27 final size:29
Alignment explanation
Indices: 3759726--3759798 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 29
3759716 AGTAAAAAAG
*
3759726 GGGGTTGGAGTAT-CCCTCAG-AATTGAT
1 GGGGTTGGAGTATCCCCTCAGAAAATGAT
* *
3759753 GGGGTTAGAGTATCCCCT-AGAAAATGGT
1 GGGGTTGGAGTATCCCCTCAGAAAATGAT
*
3759781 GGGCTTGGAGTATCCCCT
1 GGGGTTGGAGTATCCCCT
3759799 GAGATGAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 14 0.36
28 25 0.64
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (29 bp):
GGGGTTGGAGTATCCCCTCAGAAAATGAT
Found at i:3759837 original size:80 final size:78
Alignment explanation
Indices: 3759753--3760153 Score: 304
Period size: 80 Copynumber: 5.0 Consensus size: 78
3759743 CAGAATTGAT
* * * *
3759753 GGGGTTAGAGTATCCCCTAGAAAATGGTGGGCTTGGAGTATCCCCTGA-GATGAAAATTTTGAAG
1 GGGGTTGGAGTATCCCCTAGAAAATGATGGGGTTGGAGTATCCCC-GATGGTGAAAA-TTTGAA-
3759817 TTTTGGAAGTAAAAAC
63 TTTTGGAAGTAAAAAC
* ** * * * * *
3759833 GGGGTTGGAGTATCCCCTTGGTAATGATGGGGTTGGAGTATTCTCGACGGTGAAAAATTCAATAT
1 GGGGTTGGAGTATCCCCTAGAAAATGATGGGGTTGGAGTATCCCCGATGGTGAAAATTTGAAT-T
* *
3759898 TATGAAAGTGTAAAA-
65 T-TGGAAGT-AAAAAC
** * * * * * * *
3759913 GGGGTTAAAGTATCCTCTAAAAAATGATGGGTTTGAAATATCCCCGATGGGGAAACATTTGATGT
1 GGGGTTGGAGTATCCCCTAGAAAATGATGGGGTTGGAGTATCCCCGATGGTGAAA-ATTTGA--A
*
3759978 TTTTGGAAGTAGAAAC
63 TTTTGGAAGTAAAAAC
* * * * ** * * *
3759994 GAGCTTGGAGTATCCCATCGGTAATGATGGGGTTGGAGTATCCCCGATAGTGAAAAATTCAATAT
1 GGGGTTGGAGTATCCCCTAGAAAATGATGGGGTTGGAGTATCCCCGATGGTGAAAATTTGAAT-T
*
3760059 TGTGGAAGTAAAAAT
65 T-TGGAAGTAAAAAC
** **
3760074 GGGGTTGGAGTATCCTTTCA-AAAATGATGGGGTTGGAGTATCCCTAATGGTGAAAATTTTGATA
1 GGGGTTGGAGTATCCCCT-AGAAAATGATGGGGTTGGAGTATCCCCGATGGTGAAAA-TTTGA-A
*
3760138 TTTTGGATGTAAAAAC
63 TTTTGGAAGTAAAAAC
3760154 AAGGTATGTG
Statistics
Matches: 241, Mismatches: 67, Indels: 26
0.72 0.20 0.08
Matches are distributed among these distances:
78 2 0.01
79 10 0.04
80 165 0.68
81 59 0.24
82 4 0.02
83 1 0.00
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.30
Consensus pattern (78 bp):
GGGGTTGGAGTATCCCCTAGAAAATGATGGGGTTGGAGTATCCCCGATGGTGAAAATTTGAATTT
TGGAAGTAAAAAC
Found at i:3759861 original size:108 final size:108
Alignment explanation
Indices: 3759647--3759873 Score: 277
Period size: 108 Copynumber: 2.1 Consensus size: 108
3759637 ATAAAAATGA
*
3759647 GGTTGGAGTATCCCCTCAGAAATGATGGGGTTGGAGTATCCTAGAGATGAAGAAATTCAATGTTT
1 GGTTGGAGTATCCCCTCAGAAATGATGGGCTTGGAGTATCCTAGAGATGAAGAAATTCAATGTTT
*
3759712 TAGAAGTAAAAAAGGGGGTTGGAGTATCCCTCAGAATTGATGG
66 TAGAAGTAAAAAACGGGGTTGGAGTATCCCTCAGAATTGATGG
* * * *
3759755 GGTTAGAGTATCCCCT-AGAAAATGGTGGGCTTGGAGTATCCCCT-GAGATGAA-AATTTTGAA-
1 GGTTGGAGTATCCCCTCAG-AAATGATGGGCTTGGAGTAT--CCTAGAGATGAAGAA-ATTCAAT
* **
3759816 GTTTTGGAAGT-AAAAACGGGGTTGGAGTATCCCCTTGGTAA-TGATGG
62 GTTTTAGAAGTAAAAAACGGGGTTGGAGTAT-CCCTCAG-AATTGATGG
3759863 GGTTGGAGTAT
1 GGTTGGAGTAT
3759874 TCTCGACGGT
Statistics
Matches: 103, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
107 20 0.19
108 66 0.64
109 14 0.14
110 3 0.03
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.28
Consensus pattern (108 bp):
GGTTGGAGTATCCCCTCAGAAATGATGGGCTTGGAGTATCCTAGAGATGAAGAAATTCAATGTTT
TAGAAGTAAAAAACGGGGTTGGAGTATCCCTCAGAATTGATGG
Found at i:3759943 original size:188 final size:189
Alignment explanation
Indices: 3759596--3759943 Score: 436
Period size: 188 Copynumber: 1.8 Consensus size: 189
3759586 AATAGTAACG
* *
3759596 TTGGAGTATCCCTTGAGATGAAAATTTCAATGTTTTAGAAAATAAAAATGAGGTTGGAGTATCCC
1 TTGGAGTATCCCCTGAGATGAAAATTTCAATGTTTTAGAAAATAAAAACGAGGTTGGAGTATCCC
* *
3759661 CTCAGAAATGATGGGGTTGGAGTATCCTAGAGATGAAGAAATTCAATGTTTTAGAAGTAAAAAAG
66 CTCAGAAATGATGGGGTTGGAGTATCCTAGAGATGAAGAAATTCAATATTTGAGAAGTAAAAAAG
** * * *
3759726 GGGGTTGGAGTATCCCTCAGAATTGATGGGGTTAGAGTATCCCCTAGAAAATGGTGGGC
131 GGGGTTAAAGTATCCCTAAAAAATGATGGGGTTAGAGTATCCCCTAGAAAATGGTGGGC
* * * *
3759785 TTGGAGTATCCCCTGAGATGAAAATTTTGAA-GTTTT-GGAAGTAAAAACGGGGTTGGAGTATCC
1 TTGGAGTATCCCCTGAGATGAAAA-TTTCAATGTTTTAGAAAATAAAAACGAGGTTGGAGTATCC
** * * * * **
3759848 CCTTGGTAATGATGGGGTTGGAGTATTCTCGACGGTGAA-AAATTCAATATTATGA-AAGTGTAA
65 CCTCAGAAATGATGGGGTTGGAGTATCCTAGA-GATGAAGAAATTCAATATT-TGAGAAGTAAAA
3759911 AA-GGGGTTAAAGTATCCTCTAAAAAATGATGGG
128 AAGGGGGTTAAAGTATCC-CTAAAAAATGATGGG
3759944 TTTGAAATAT
Statistics
Matches: 134, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
187 13 0.10
188 81 0.60
189 35 0.26
190 5 0.04
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.29
Consensus pattern (189 bp):
TTGGAGTATCCCCTGAGATGAAAATTTCAATGTTTTAGAAAATAAAAACGAGGTTGGAGTATCCC
CTCAGAAATGATGGGGTTGGAGTATCCTAGAGATGAAGAAATTCAATATTTGAGAAGTAAAAAAG
GGGGTTAAAGTATCCCTAAAAAATGATGGGGTTAGAGTATCCCCTAGAAAATGGTGGGC
Found at i:3765144 original size:32 final size:33
Alignment explanation
Indices: 3765086--3765148 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
3765076 CTTTCAGATG
*
3765086 TATCGATACATTATGCTTTGTATCGATACATTA
1 TATCGATACATTATGCATTGTATCGATACATTA
3765119 TATCGATACATGT-T-CATTGTATCGATACAT
1 TATCGATACAT-TATGCATTGTATCGATACAT
3765149 AAACAAATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (33 bp):
TATCGATACATTATGCATTGTATCGATACATTA
Found at i:3765233 original size:13 final size:13
Alignment explanation
Indices: 3765215--3765240 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3765205 GATACATGGC
3765215 ATGTATCGATACA
1 ATGTATCGATACA
3765228 ATGTATCGATACA
1 ATGTATCGATACA
3765241 TGAAGAATTA
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3766256 original size:115 final size:115
Alignment explanation
Indices: 3766121--3766344 Score: 394
Period size: 115 Copynumber: 1.9 Consensus size: 115
3766111 CAAGAAAAAA
*
3766121 TGTCTTATGGTATTAGAAAATAATTCAAATGACATCGGACTCGGAGGTCACTCTACCATGAGACC
1 TGTCTTATGGTATTAGAAAATAATTCAAATGACATCGGACTCGAAGGTCACTCTACCATGAGACC
* *
3766186 ATCATACTATAATGGGGACAACTACTCATATTAGAAAACAAGAAAAATTG
66 ATCATACTACAACGGGGACAACTACTCATATTAGAAAACAAGAAAAATTG
* *
3766236 TGTCTTATGGTATTAGAAAATAATTCAAATGCCATCGGACTCGAAGGTTACTCTACCATGAGACC
1 TGTCTTATGGTATTAGAAAATAATTCAAATGACATCGGACTCGAAGGTCACTCTACCATGAGACC
*
3766301 ATCATACTACAACGGGGACAACTACTCATATTAGAAAATAAGAA
66 ATCATACTACAACGGGGACAACTACTCATATTAGAAAACAAGAA
3766345 TGAGGTTGTT
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
115 103 1.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (115 bp):
TGTCTTATGGTATTAGAAAATAATTCAAATGACATCGGACTCGAAGGTCACTCTACCATGAGACC
ATCATACTACAACGGGGACAACTACTCATATTAGAAAACAAGAAAAATTG
Found at i:3771851 original size:143 final size:143
Alignment explanation
Indices: 3771593--3771854 Score: 488
Period size: 143 Copynumber: 1.8 Consensus size: 143
3771583 TCGAACCTTT
3771593 TTCTTTCATTCTTTATCGATACAACCCCAAAAAAAACCTAAATTCTCTCAAACCCTAACAATTCT
1 TTCTTTCATTCTTTATCGATACAACCCCAAAAAAAACCTAAATTCTCTCAAACCCTAACAATTCT
*
3771658 TTCATCAAATTTCTTCAAATCATTTTCAAATTTCATCAATTTCGCATCAAAACAATTCTTTCATC
66 TTCATCAAATTTCTTCAAATCATTTTCAAATTTCATCAATTTCACATCAAAACAATTCTTTCATC
3771723 AAATTTTTCATTC
131 AAATTTTTCATTC
* *
3771736 TTCTTTCATTCTTTATCGATACAACCCCAGAAAAAACCTAAATTCTCTCAAACTCTAACAATTCT
1 TTCTTTCATTCTTTATCGATACAACCCCAAAAAAAACCTAAATTCTCTCAAACCCTAACAATTCT
*
3771801 TTTATCAAATTTCTTCAAATCATTTTCAAATTTCATCAATTTCACATCAAAACA
66 TTCATCAAATTTCTTCAAATCATTTTCAAATTTCATCAATTTCACATCAAAACA
3771855 TTTCATTTTT
Statistics
Matches: 115, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
143 115 1.00
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.38
Consensus pattern (143 bp):
TTCTTTCATTCTTTATCGATACAACCCCAAAAAAAACCTAAATTCTCTCAAACCCTAACAATTCT
TTCATCAAATTTCTTCAAATCATTTTCAAATTTCATCAATTTCACATCAAAACAATTCTTTCATC
AAATTTTTCATTC
Found at i:3774204 original size:19 final size:20
Alignment explanation
Indices: 3774177--3774234 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
3774167 TGTATTGATA
* *
3774177 CATTATATCGATACATG-TT
1 CATTGTATCGATACATGAAT
3774196 CATTGTATCGATACATGAAT
1 CATTGTATCGATACATGAAT
* *
3774216 AAATGTATCGATACATGAA
1 CATTGTATCGATACATGAA
3774235 ATTAGCAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (20 bp):
CATTGTATCGATACATGAAT
Found at i:3777579 original size:22 final size:22
Alignment explanation
Indices: 3777553--3777614 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
3777543 TACTTAAACT
*
3777553 ATGTATATATAACTATAATTGA
1 ATGTACATATAACTATAATTGA
* *
3777575 ATGTACATTTAATTATAATTGA
1 ATGTACATATAACTATAATTGA
* *
3777597 ATGTGCATATAATTATAA
1 ATGTACATATAACTATAA
3777615 CAATATATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.42
Consensus pattern (22 bp):
ATGTACATATAACTATAATTGA
Found at i:3777818 original size:22 final size:22
Alignment explanation
Indices: 3777788--3777843 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
3777778 TAAAATAATG
*
3777788 TGTACATATGACCATAGCTAA-A
1 TGTACATATGACCATAAC-AACA
* *
3777810 TGTAGATATGACTATAACAACA
1 TGTACATATGACCATAACAACA
*
3777832 TGTATATATGAC
1 TGTACATATGAC
3777844 TTTAATTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (22 bp):
TGTACATATGACCATAACAACA
Found at i:3778338 original size:22 final size:22
Alignment explanation
Indices: 3778271--3778340 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
3778261 TTTTAATTTG
* * * *
3778271 TGAATATACATATGAGTATAAC
1 TGAATGTACATATGATTTTAAT
*
3778293 TGAATGTACATATAACTTTT-AT
1 TGAATGTACATATGA-TTTTAAT
3778315 TGAATGTACATATGATTTTAAT
1 TGAATGTACATATGATTTTAAT
3778337 TGAA
1 TGAA
3778341 CCAATCTCTC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 4 0.10
22 34 0.85
23 2 0.05
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (22 bp):
TGAATGTACATATGATTTTAAT
Found at i:3778496 original size:53 final size:51
Alignment explanation
Indices: 3778395--3778630 Score: 202
Period size: 53 Copynumber: 4.6 Consensus size: 51
3778385 CCTAATACAT
* * *
3778395 ATATAAAATAGTTTTTTATTTTTATTATTTTTT-AATAGTAATTCAAAATTTA
1 ATATAAAATA-TTTTTAATTTTT-TTATTTTTTAAAAAGTAATTTAAAATTTA
3778447 ATATAAAATATATTTTAATTTTTTTATTTTTTAAAAAAGTAATTTAAAATTTA
1 ATATAAAATAT-TTTTAATTTTTTTATTTTTT-AAAAAGTAATTTAAAATTTA
* * * *
3778500 ATAT-AAATTTTTTTAAAAATTTTTATTA-TTTTTAAATAGTAATTTGAGATTTA
1 ATATAAAATATTTTT---AATTTTT-TTATTTTTTAAAAAGTAATTTAAAATTTA
* ** * * *
3778553 ATATAAAATATTTTT--TATGGTTA----TTAAAAACTAATTTGAGATTTA
1 ATATAAAATATTTTTAATTTTTTTATTTTTTAAAAAGTAATTTAAAATTTA
3778598 ATATAAAATATATTTTAATTTTTTTATTATTTT
1 ATATAAAATAT-TTTTAATTTTTTTATT-TTTT
3778631 TTAATTGTTT
Statistics
Matches: 152, Mismatches: 16, Indels: 31
0.76 0.08 0.16
Matches are distributed among these distances:
45 31 0.20
46 4 0.03
48 8 0.05
49 2 0.01
51 14 0.09
52 25 0.16
53 44 0.29
54 21 0.14
55 3 0.02
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (51 bp):
ATATAAAATATTTTTAATTTTTTTATTTTTTAAAAAGTAATTTAAAATTTA
Found at i:3778568 original size:45 final size:45
Alignment explanation
Indices: 3778518--3778623 Score: 142
Period size: 45 Copynumber: 2.3 Consensus size: 45
3778508 TTTTTTAAAA
* *
3778518 ATTTTTATTATTTTTAAATAGTAATTTGAGATTTAATATAAAATAT
1 ATTTTTATT-TTTTTAAAAACTAATTTGAGATTTAATATAAAATAT
* *
3778564 -TTTTTATGGTTATTAAAAACTAATTTGAGATTTAATATAAAATAT
1 ATTTTTAT-TTTTTTAAAAACTAATTTGAGATTTAATATAAAATAT
*
3778609 ATTTTAATTTTTTTA
1 ATTTTTATTTTTTTA
3778624 TTATTTTTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
45 45 0.88
46 6 0.12
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.53
Consensus pattern (45 bp):
ATTTTTATTTTTTTAAAAACTAATTTGAGATTTAATATAAAATAT
Found at i:3778612 original size:23 final size:23
Alignment explanation
Indices: 3778541--3778612 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
3778531 TTAAATAGTA
3778541 ATTTGAGATTTAATATAAAATAT
1 ATTTGAGATTTAATATAAAATAT
* * * *
3778564 TTTTTATG-GTTATTA-AAAACTA-
1 ATTTGA-GATTTAATATAAAA-TAT
3778586 ATTTGAGATTTAATATAAAATAT
1 ATTTGAGATTTAATATAAAATAT
3778609 ATTT
1 ATTT
3778613 TAATTTTTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
21 1 0.03
22 15 0.42
23 19 0.53
24 1 0.03
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.47
Consensus pattern (23 bp):
ATTTGAGATTTAATATAAAATAT
Found at i:3778641 original size:18 final size:19
Alignment explanation
Indices: 3778610--3778649 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
3778600 ATAAAATATA
*
3778610 TTTTAATTTTTTTATTATT
1 TTTTAATTTGTTTATTATT
3778629 TTTTAA-TTGTTTATTATT
1 TTTTAATTTGTTTATTATT
3778647 TTT
1 TTT
3778650 CAGATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTTAATTTGTTTATTATT
Found at i:3780514 original size:11 final size:11
Alignment explanation
Indices: 3780498--3780522 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3780488 AATTTCACAC
3780498 AAAAAAGTTAA
1 AAAAAAGTTAA
3780509 AAAAAAGTTAA
1 AAAAAAGTTAA
3780520 AAA
1 AAA
3780523 TATTTTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (11 bp):
AAAAAAGTTAA
Found at i:3783821 original size:2 final size:2
Alignment explanation
Indices: 3783814--3783838 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3783804 AAAAATGAAA
3783814 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
3783839 AAATTCATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:3785868 original size:30 final size:32
Alignment explanation
Indices: 3785833--3785893 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
3785823 GAGTTGCAAT
*
3785833 TTTTACTGATAA-AT-TATATGTATTTTTTTA
1 TTTTACTGATAATATGTATATATATTTTTTTA
* *
3785863 TTTTACTGTTAATCTGTATATATATTTTTTT
1 TTTTACTGATAATATGTATATATATTTTTTT
3785894 GTTTCAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 11 0.42
31 1 0.04
32 14 0.54
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (32 bp):
TTTTACTGATAATATGTATATATATTTTTTTA
Found at i:3785917 original size:2 final size:2
Alignment explanation
Indices: 3785910--3785937 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3785900 ATAACAATAC
3785910 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3785938 TCCAATTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3787447 original size:15 final size:14
Alignment explanation
Indices: 3787425--3787457 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
3787415 ATTAAAAATT
3787425 AAAAAATAAATAAC
1 AAAAAATAAATAAC
3787439 AAAATAATAAATAAC
1 AAAA-AATAAATAAC
3787454 AAAA
1 AAAA
3787458 GTTTAAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAAATAAATAAC
Found at i:3787747 original size:15 final size:15
Alignment explanation
Indices: 3787708--3787747 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
3787698 AATTTATCAT
* *
3787708 AATAAATGAATATAA
1 AATATATGATTATAA
3787723 AATATATGATTATAA
1 AATATATGATTATAA
3787738 AATATATGAT
1 AATATATGAT
3787748 ATTCAATCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (15 bp):
AATATATGATTATAA
Found at i:3788338 original size:9 final size:9
Alignment explanation
Indices: 3788315--3788358 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 9
3788305 TTATATAATT
3788315 TAAATATAAA
1 TAAA-ATAAA
*
3788325 GAAAATAAA
1 TAAAATAAA
3788334 TAAAAATAATA
1 T-AAAATAA-A
3788345 TAAAATAAA
1 TAAAATAAA
3788354 TAAAA
1 TAAAA
3788359 AATTAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 11 0.37
10 17 0.57
11 2 0.07
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (9 bp):
TAAAATAAA
Found at i:3788443 original size:18 final size:19
Alignment explanation
Indices: 3788420--3788455 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
3788410 ACAATGAGAT
3788420 CAAGAGTT-ATTAGTATAA
1 CAAGAGTTGATTAGTATAA
*
3788438 CAAGAGTTGATTGGTATA
1 CAAGAGTTGATTAGTATA
3788456 TATCTCTTAG
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:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (19 bp):
CAAGAGTTGATTAGTATAA
Found at i:3790344 original size:14 final size:15
Alignment explanation
Indices: 3790325--3790359 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
3790315 AACAAGCATG
3790325 AATTTTG-AAAAATC
1 AATTTTGAAAAAATC
3790339 AATTTTGAAAAAATC
1 AATTTTGAAAAAATC
3790354 AATTTT
1 AATTTT
3790360 TAATGGCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (15 bp):
AATTTTGAAAAAATC
Found at i:3791103 original size:21 final size:21
Alignment explanation
Indices: 3791079--3791134 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
3791069 ATTTATCCAG
3791079 ATGTATCGATACATTTGTAGA
1 ATGTATCGATACATTTGTAGA
* *
3791100 ATGTATCGAAACATTTGTGGA
1 ATGTATCGATACATTTGTAGA
3791121 ATGTATCGATACAT
1 ATGTATCGATACAT
3791135 CCTACAAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.36
Consensus pattern (21 bp):
ATGTATCGATACATTTGTAGA
Found at i:3791214 original size:19 final size:19
Alignment explanation
Indices: 3791190--3791257 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
3791180 AATTCAACAA
3791190 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
3791209 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
3791224 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
3791241 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
3791258 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:3791229 original size:13 final size:13
Alignment explanation
Indices: 3791211--3791235 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3791201 ACATAAGTTT
3791211 TGTATCGATACAA
1 TGTATCGATACAA
3791224 TGTATCGATACA
1 TGTATCGATACA
3791236 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3791233 original size:32 final size:32
Alignment explanation
Indices: 3791192--3791254 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3791182 TTCAACAATT
*
3791192 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
3791224 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
3791255 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:3791301 original size:20 final size:20
Alignment explanation
Indices: 3791276--3791331 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
3791266 TGCCAAGGAA
*
3791276 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTATCT
* **
3791296 ATGTATCGATACCTGGATCT
1 ATGTATCGATACATTTATCT
*
3791316 TTGTATCGATACATTT
1 ATGTATCGATACATTT
3791332 GGAAATTTTA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACATTTATCT
Found at i:3793865 original size:31 final size:28
Alignment explanation
Indices: 3793782--3793854 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 28
3793772 CTTCACAATC
* * ***
3793782 GGGGACACTCCAACCCCGTTA-ATCATC
1 GGGGATACTCCAACCCCGTTATTTCCGA
3793809 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCCGA
3793837 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
3793855 ACTTTATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 20 0.50
28 20 0.50
ACGTcount: A:0.23, C:0.36, G:0.22, T:0.19
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCGA
Found at i:3793912 original size:51 final size:51
Alignment explanation
Indices: 3793839--3794009 Score: 191
Period size: 52 Copynumber: 3.3 Consensus size: 51
3793829 ATTTCCGAGG
* * ** *
3793839 GGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATCGG
1 GGATACTCCAACCTCGATTTTATTTCCAAAATATCAATTTTTCATAATCGA
* * * * * * *
3793890 GGATACTCAAACCTCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGA
1 GGATACTCCAACCTCGATTTTATTTCCAAAATATCAATTTTTC-ATAATCGA
*
3793942 GGATACTCCAACAC-CGATTTTATTTCCAAAAATATCAATTTTTCACAATCGA
1 GGATACTCCAAC-CTCGATTTTATTTCC-AAAATATCAATTTTTCATAATCGA
3793994 GGATACTCCAACCTCG
1 GGATACTCCAACCTCG
3794010 TTATTTCATC
Statistics
Matches: 96, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
51 34 0.35
52 48 0.50
53 14 0.15
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.33
Consensus pattern (51 bp):
GGATACTCCAACCTCGATTTTATTTCCAAAATATCAATTTTTCATAATCGA
Found at i:3794017 original size:31 final size:28
Alignment explanation
Indices: 3793989--3794070 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
3793979 ATTTTTCACA
*
3793989 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
* *
3794017 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
* *
3794045 --CGAGGGAACACTCCAACCCTGTTATT
1 ATCGA-GG-ATACTCCAACCCCGTTATT
3794071 ATCTCCAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 2 0.04
27 2 0.04
28 41 0.91
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:3794080 original size:211 final size:211
Alignment explanation
Indices: 3793696--3794080 Score: 569
Period size: 211 Copynumber: 1.8 Consensus size: 211
3793686 CCAACTCCGA
* * * *
3793696 TTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAA
1 TTTTATTTTCAAAACACCAATTTTCTATAATCGAGGATACTCCAACACCGATTTTATTTCCAAAA
*
3793761 AACACCAATTTCTTCACAATCGGGGACACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCC
66 AACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCC
* * * *
3793826 GTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATCGGG
131 GTTACTTCCGAGGGAACACTCCAACCCCGACTTTATCTCCAAAATATTGATTTTTCATAATCGGG
3793891 GATACTCAAACCTCGG
196 GATACTCAAACCTCGG
*
3793907 TTTTATTTTCAAAACACCAATTTTCCTTTAATCGAGGATACTCCAACACCGATTTTATTTCC-AA
1 TTTTATTTTCAAAACACCAATTTT-CTATAATCGAGGATACTCCAACACCGATTTTATTTCCAAA
* * * * *
3793971 AAATATCAATTT-TTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACC
65 AAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTTA-ATCATCGGGGATACTCCAACC
* *
3794035 CCGTTACTTCCGAGGGAACACTCCAACCCTG-TTATTATCTCCAAAA
129 CCGTTACTTCCGAGGGAACACTCCAACCCCGACT-TTATCTCCAAAA
3794081 CATTAAATTT
Statistics
Matches: 154, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
210 28 0.18
211 93 0.60
212 33 0.21
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (211 bp):
TTTTATTTTCAAAACACCAATTTTCTATAATCGAGGATACTCCAACACCGATTTTATTTCCAAAA
AACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCC
GTTACTTCCGAGGGAACACTCCAACCCCGACTTTATCTCCAAAATATTGATTTTTCATAATCGGG
GATACTCAAACCTCGG
Found at i:3806481 original size:13 final size:12
Alignment explanation
Indices: 3806462--3806516 Score: 65
Period size: 13 Copynumber: 4.4 Consensus size: 12
3806452 ACCTTCTCTT
*
3806462 CAAAAAAAAGAG
1 CAAAAAAAAAAG
3806474 CAAAAAAAAAAG
1 CAAAAAAAAAAG
*
3806486 CAAAAAAAAAAAA
1 C-AAAAAAAAAAG
*
3806499 CAAAACAAAAAAA
1 CAAAA-AAAAAAG
3806512 CAAAA
1 CAAAA
3806517 CAAAGAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
12 16 0.41
13 23 0.59
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAAAG
Found at i:3806482 original size:14 final size:14
Alignment explanation
Indices: 3806463--3806545 Score: 71
Period size: 15 Copynumber: 5.9 Consensus size: 14
3806453 CCTTCTCTTC
*
3806463 AAAAAAAAGAGCAA
1 AAAAAAAAGAACAA
*
3806477 AAAAAAAAGCAAAAA
1 AAAAAAAAG-AACAA
*
3806492 AAAAAAACAAAACAA
1 AAAAAAA-AGAACAA
*
3806507 AAAAACAA-AAC-A
1 AAAAAAAAGAACAA
* *
3806519 AAGAAAAAGAGAGAA
1 AAAAAAAAGA-ACAA
3806534 AAAAAAAAGAAC
1 AAAAAAAAGAAC
3806546 CTGCTTAAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
12 7 0.13
13 4 0.07
14 12 0.22
15 30 0.56
16 1 0.02
ACGTcount: A:0.82, C:0.08, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAACAA
Found at i:3806496 original size:18 final size:18
Alignment explanation
Indices: 3806475--3806542 Score: 66
Period size: 18 Copynumber: 3.6 Consensus size: 18
3806465 AAAAAAGAGC
3806475 AAAAAAAAAAGCAAAAAA
1 AAAAAAAAAAGCAAAAAA
3806493 AAAAAACAAAA-CAAAAAA
1 AAAAAA-AAAAGCAAAAAA
* * *
3806511 ACAAAACAAAGAAAAAGAGA
1 AAAAAAAAAAGCAAAA-A-A
3806531 GAAAAAAAAAAG
1 -AAAAAAAAAAG
3806543 AACCTGCTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
17 3 0.08
18 22 0.55
19 5 0.12
20 1 0.03
21 9 0.22
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAGCAAAAAA
Found at i:3806517 original size:13 final size:13
Alignment explanation
Indices: 3806474--3806525 Score: 70
Period size: 13 Copynumber: 4.0 Consensus size: 13
3806464 AAAAAAAGAG
*
3806474 CAAAA-AAAAAAG
1 CAAAACAAAAAAA
*
3806486 CAAAAAAAAAAAA
1 CAAAACAAAAAAA
3806499 CAAAACAAAAAAA
1 CAAAACAAAAAAA
3806512 CAAAACAAAGAAAA
1 CAAAACAAA-AAAA
3806526 AGAGAGAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.14
13 27 0.75
14 4 0.11
ACGTcount: A:0.85, C:0.12, G:0.04, T:0.00
Consensus pattern (13 bp):
CAAAACAAAAAAA
Found at i:3807588 original size:55 final size:54
Alignment explanation
Indices: 3807505--3807925 Score: 423
Period size: 55 Copynumber: 7.4 Consensus size: 54
3807495 CTCCTTCCGC
*
3807505 TTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
3807559 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
3807614 TTTTCCAGTCCTCAGAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
** * * *
3807669 CCTTCAGTCCTCAAAGAGCGGGACACATTTTCTTTTAAAGCCCATACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGACAC-----CTTTCAAAGCCCACACAAGTTGGTGGCA
** * ** * *
3807728 CCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACCCAAGTTAGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCA
** * *
3807787 CCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
3807847 CTTTTCAGTCCCCAAAGAGCAGGAC-CCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACACC-TTTCAAAGCCCACACAAGTTGGTGGCA
* * *
3807902 CTTTTTACTCCTCAATGAGCAGGA
1 -TTTTCAGTCCTCAAAGAGCAGGA
3807926 TACACTTTAT
Statistics
Matches: 318, Mismatches: 28, Indels: 41
0.82 0.07 0.11
Matches are distributed among these distances:
54 26 0.08
55 151 0.47
56 2 0.01
58 2 0.01
59 91 0.29
60 21 0.07
61 20 0.06
64 4 0.01
65 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (54 bp):
TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:3807795 original size:118 final size:114
Alignment explanation
Indices: 3807506--3807925 Score: 464
Period size: 118 Copynumber: 3.7 Consensus size: 114
3807496 TCCTTCCGCT
* * **
3807506 TTTCAGTCCCCAAAGAGCAGGACA-C-CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
1 TTTCAGTCCTCAAAGAGCAGGACACCTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTC
* *
3807569 CTCAAAGAGCAGGACAC----CTTTCAAAGCCCACACAAGTTGGTGGCAT
65 CTCAAAGAGCAGGACACTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
*
3807615 TTTCCAGTCCTCAGAGAGCAGGACACCTC--TTAAAGCCCACACAAGTTGGTGGCACCTTCAGTC
1 TTT-CAGTCCTCAAAGAGCAGGACACCTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTC
* *
3807678 CTCAAAGAGCGGGACACATTTTCTTTTAAAGCCCATACAAGTTGGTGGCAC
65 CTCAAAGAGCAGGACAC-TTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * ** * *
3807729 CTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACCCAAGTTAGTGGCACCTTCAG
1 TTTCAGTCCTCAAAGAGCAGGACACC---TCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
**
3807794 TCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAC
63 TCCTCAAAGAGCAGGACAC-TTTTCTTTT-AAAGCCCACACAAGTTGGTGGCAC
* * * * * *
3807848 TTTTCAGTCCCCAAAGAGCAGGAC-CCT-TTTCAAAGCCCACACGAGTTGGTGGCACTTTTTACT
1 -TTTCAGTCCTCAAAGAGCAGGACACCTCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCAGT
*
3807911 CCTCAATGAGCAGGA
64 CCTCAAAGAGCAGGA
3807926 TACACTTTAT
Statistics
Matches: 262, Mismatches: 33, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
109 24 0.09
110 45 0.17
111 1 0.00
112 1 0.00
113 19 0.07
114 28 0.11
115 24 0.09
116 21 0.08
118 55 0.21
119 25 0.10
120 19 0.07
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (114 bp):
TTTCAGTCCTCAAAGAGCAGGACACCTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
TCAAAGAGCAGGACACTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
Found at i:3807906 original size:29 final size:29
Alignment explanation
Indices: 3807818--3807906 Score: 76
Period size: 29 Copynumber: 3.2 Consensus size: 29
3807808 GATGCTTTTT
*
3807818 CTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTTCAAAGCCCACACGAGTTGGTGGCA
*** * ** * *
3807847 CTTTTCAGTCCCCA-AAGAG-CAG-GACC
1 CTTTTCAAAGCCCACACGAGTTGGTGGCA
3807873 CTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CTTTTCAAAGCCCACACGAGTTGGTGGCA
3807902 CTTTT
1 CTTTT
3807907 TACTCCTCAA
Statistics
Matches: 40, Mismatches: 17, Indels: 6
0.63 0.27 0.10
Matches are distributed among these distances:
26 13 0.32
27 5 0.12
28 4 0.10
29 18 0.45
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (29 bp):
CTTTTCAAAGCCCACACGAGTTGGTGGCA
Found at i:3808663 original size:21 final size:21
Alignment explanation
Indices: 3808637--3808690 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
3808627 TTATCCAAAA
3808637 GTATCGATACATTTGTAGAAT
1 GTATCGATACATTTGTAGAAT
*
3808658 GTATCGATACATTTGTGGAAT
1 GTATCGATACATTTGTAGAAT
*
3808679 ATATCGATACAT
1 GTATCGATACAT
3808691 CCTACAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
GTATCGATACATTTGTAGAAT
Found at i:3808770 original size:19 final size:18
Alignment explanation
Indices: 3808746--3808815 Score: 78
Period size: 19 Copynumber: 4.1 Consensus size: 18
3808736 AATTCAACAA
3808746 TTTGTATCGATACATAACT
1 TTTGTATCGATACATAA-T
3808765 TTTGTATCGATAC--AA-
1 TTTGTATCGATACATAAT
3808780 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAA-T
*
3808797 ATTGTATCGATACATAAT
1 TTTGTATCGATACATAAT
3808815 T
1 T
3808816 AGCTACTGCC
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.25
15 2 0.05
17 2 0.05
18 1 0.02
19 28 0.64
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (18 bp):
TTTGTATCGATACATAAT
Found at i:3808785 original size:13 final size:13
Alignment explanation
Indices: 3808767--3808791 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3808757 ACATAACTTT
3808767 TGTATCGATACAA
1 TGTATCGATACAA
3808780 TGTATCGATACA
1 TGTATCGATACA
3808792 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3808789 original size:32 final size:32
Alignment explanation
Indices: 3808748--3808810 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
3808738 TTCAACAATT
*
3808748 TGTATCGATACATAACTTTTGTATCGATACAA
1 TGTATCGATACATAACTATTGTATCGATACAA
*
3808780 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAACTATTGTATCGATACA
3808811 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAACTATTGTATCGATACAA
Found at i:3808871 original size:13 final size:13
Alignment explanation
Indices: 3808853--3808878 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3808843 CATTTTTCTG
3808853 TGTATCGATACAT
1 TGTATCGATACAT
3808866 TGTATCGATACAT
1 TGTATCGATACAT
3808879 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3808875 original size:33 final size:33
Alignment explanation
Indices: 3808833--3808899 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3808823 GCCAAGGAAA
***
3808833 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
3808866 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
3808899 T
1 T
3808900 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:3811363 original size:54 final size:51
Alignment explanation
Indices: 3811231--3811364 Score: 162
Period size: 51 Copynumber: 2.6 Consensus size: 51
3811221 TTGAGTTTCT
* * * *
3811231 CAATTCTCCACAATCGGGGATATTCCAACTCTGATTTTATTTTCAAAACAC
1 CAATTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
* *
3811282 TAATT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACAC
1 CAATTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC--AAAACAC
*
3811335 CAATTTCTTCACAATCGGGGACACTCCAAC
1 CAA-TTCTTCACAATCGGGGATACTCCAAC
3811365 CCCGTTAATC
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
50 2 0.03
51 35 0.51
53 9 0.13
54 20 0.29
55 3 0.04
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.31
Consensus pattern (51 bp):
CAATTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
Found at i:3811418 original size:28 final size:27
Alignment explanation
Indices: 3811351--3811423 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
3811341 CTTCACAATC
* *
3811351 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
3811378 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
3811406 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
3811424 CCTTGAACTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:3811524 original size:52 final size:52
Alignment explanation
Indices: 3811446--3811577 Score: 167
Period size: 52 Copynumber: 2.5 Consensus size: 52
3811436 TAAAATATTG
* * * *
3811446 ATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCA
1 ATTTTCCATAATCGAGGATACTCCAACCCCGATTTTATTTCCAAAAACACCA
* * *
3811497 ATTTTCCTTTAATCGAGGATACTCCAACACCGATTTTATTTCCAAAAATACCA
1 ATTTTCC-ATAATCGAGGATACTCCAACCCCGATTTTATTTCCAAAAACACCA
* *
3811550 ATTTTTCACAATCGAGGATACTCCAACC
1 ATTTTCCATAATCGAGGATACTCCAACC
3811578 TCGTTATTTC
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
51 6 0.09
52 48 0.71
53 14 0.21
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.33
Consensus pattern (52 bp):
ATTTTCCATAATCGAGGATACTCCAACCCCGATTTTATTTCCAAAAACACCA
Done.