Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 15 of 276
Found at i:4538476 original size:27 final size:27
Alignment explanation
Indices: 4538438--4538494 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
4538428 TTTTATTTGT
4538438 TACCCAAGCTTAGCCGAACCTAACACA
1 TACCCAAGCTTAGCCGAACCTAACACA
4538465 TACCCAAGCTTAGCCGAACCTAACACA
1 TACCCAAGCTTAGCCGAACCTAACACA
4538492 TAC
1 TAC
4538495 TCATATTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.37, G:0.11, T:0.16
Consensus pattern (27 bp):
TACCCAAGCTTAGCCGAACCTAACACA
Found at i:4541661 original size:21 final size:22
Alignment explanation
Indices: 4541632--4541687 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
4541622 TACCAAACAC
*
4541632 AACATTAATAT-CAAGTCTTTG
1 AACAGTAATATACAAGTCTTTG
4541653 AACAGTAATATTAACAAGTCTTTG
1 AACAGTAATA-T-ACAAGTCTTTG
* *
4541677 GATAGTAATAT
1 AACAGTAATAT
4541688 TAACAGTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 9 0.31
22 1 0.03
23 1 0.03
24 18 0.62
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (22 bp):
AACAGTAATATACAAGTCTTTG
Found at i:4541675 original size:24 final size:24
Alignment explanation
Indices: 4541643--4541692 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
4541633 ACATTAATAT
4541643 CAAGTCTTTGAACAGTAATATTAA
1 CAAGTCTTTGAACAGTAATATTAA
* *
4541667 CAAGTCTTTGGATAGTAATATTAA
1 CAAGTCTTTGAACAGTAATATTAA
4541691 CA
1 CA
4541693 GTAAGCGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (24 bp):
CAAGTCTTTGAACAGTAATATTAA
Found at i:4542936 original size:26 final size:30
Alignment explanation
Indices: 4542907--4542960 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
4542897 TAAACAGAGA
4542907 TTCAAAT-AA-ATA-CTT-GAAATAAAAAT
1 TTCAAATCAATATATCTTAGAAATAAAAAT
*
4542933 TTCAAGTCAATATATCTTAGAAATAAAA
1 TTCAAATCAATATATCTTAGAAATAAAA
4542961 TCATCATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 6 0.26
27 2 0.09
28 3 0.13
29 3 0.13
30 9 0.39
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.31
Consensus pattern (30 bp):
TTCAAATCAATATATCTTAGAAATAAAAAT
Found at i:4544272 original size:39 final size:39
Alignment explanation
Indices: 4544222--4544308 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
4544212 GACTTAATCT
*
4544222 CTAGCAGGCCTCATACCGGTGATAAGTTTAGGTTTATAC
1 CTAGCAGGCCTCATACCGGTGATAAGTTCAGGTTTATAC
* *
4544261 CTAGCAGGCCTCGTGCCGGTGATAAGTTCAGGTTTATAC
1 CTAGCAGGCCTCATACCGGTGATAAGTTCAGGTTTATAC
4544300 CTAGCAGGC
1 CTAGCAGGC
4544309 TAATTGCCGG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (39 bp):
CTAGCAGGCCTCATACCGGTGATAAGTTCAGGTTTATAC
Found at i:4544317 original size:39 final size:39
Alignment explanation
Indices: 4544222--4544321 Score: 132
Period size: 39 Copynumber: 2.6 Consensus size: 39
4544212 GACTTAATCT
* *
4544222 CTAGCAGGCCTCA-TACCGGTGATAAGTTTAGGTTTATAC
1 CTAGCAGGCCT-AGTGCCGGTGATAAGTTCAGGTTTATAC
*
4544261 CTAGCAGGCCTCGTGCCGGTGATAAGTTCAGGTTTATAC
1 CTAGCAGGCCTAGTGCCGGTGATAAGTTCAGGTTTATAC
*
4544300 CTAGCAGG-CTAATTGCCGGTGA
1 CTAGCAGGCCT-AGTGCCGGTGA
4544322 AATAATAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.04
39 52 0.96
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (39 bp):
CTAGCAGGCCTAGTGCCGGTGATAAGTTCAGGTTTATAC
Found at i:4551116 original size:39 final size:39
Alignment explanation
Indices: 4551054--4551140 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
4551044 AACTTAATAT
*
4551054 CTAGTAGGCCTCGTGCCGATGATAAGTTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGATGATAAGTTCAGGTTTATAC
*
4551093 CTAGCAGGCCTCGTGCCGGTGATAAGTTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGATGATAAGTTCAGGTTTATAC
4551132 CTAGCAGGC
1 CTAGCAGGC
4551141 TAATTGCCGG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.28
Consensus pattern (39 bp):
CTAGCAGGCCTCGTGCCGATGATAAGTTCAGGTTTATAC
Found at i:4551149 original size:39 final size:39
Alignment explanation
Indices: 4551054--4551153 Score: 139
Period size: 39 Copynumber: 2.6 Consensus size: 39
4551044 AACTTAATAT
* * *
4551054 CTAGTAGGCCTCGTGCCGATGATAAGTTCAGGTTTATAC
1 CTAGCAGGCCTAGTGCCGGTGATAAGTTCAGGTTTATAC
*
4551093 CTAGCAGGCCTCGTGCCGGTGATAAGTTCAGGTTTATAC
1 CTAGCAGGCCTAGTGCCGGTGATAAGTTCAGGTTTATAC
*
4551132 CTAGCAGG-CTAATTGCCGGTGA
1 CTAGCAGGCCT-AGTGCCGGTGA
4551154 AATAATAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
38 2 0.04
39 54 0.96
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (39 bp):
CTAGCAGGCCTAGTGCCGGTGATAAGTTCAGGTTTATAC
Found at i:4551641 original size:38 final size:38
Alignment explanation
Indices: 4551591--4551667 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
4551581 ATAAGTTTTG
*
4551591 TTGTTTAAAATACTTAAGACTTACTAATCTTAATTGCT
1 TTGTTTAAAATACTTAAGACTTACTAAGCTTAATTGCT
4551629 TTGTTTAAAATACTTAAGACTTACTAAGCTTAATTGCT
1 TTGTTTAAAATACTTAAGACTTACTAAGCTTAATTGCT
4551667 T
1 T
4551668 ACTGTGAATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (38 bp):
TTGTTTAAAATACTTAAGACTTACTAAGCTTAATTGCT
Found at i:4554715 original size:40 final size:40
Alignment explanation
Indices: 4554660--4554768 Score: 218
Period size: 40 Copynumber: 2.7 Consensus size: 40
4554650 NNNNNNNNNN
4554660 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
4554700 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
4554740 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
4554769 CATCCGAATA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
Found at i:4564678 original size:13 final size:13
Alignment explanation
Indices: 4564660--4564691 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
4564650 CGCACGCGGG
4564660 CGTGTCACACGGA
1 CGTGTCACACGGA
4564673 CGTGTCACACGGA
1 CGTGTCACACGGA
4564686 CGTGTC
1 CGTGTC
4564692 CCTGTCGAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.19, C:0.31, G:0.31, T:0.19
Consensus pattern (13 bp):
CGTGTCACACGGA
Found at i:4566373 original size:222 final size:222
Alignment explanation
Indices: 4565987--4566429 Score: 823
Period size: 222 Copynumber: 2.0 Consensus size: 222
4565977 TCAAAACCGT
* *
4565987 TCATCAAACCTGCTGTTCATCAACACTTGTGCCGAAACCACAAAAGCCGAAACCTCGAAAAATAC
1 TCATCAAACCTGCTGTTCATCAACACTTGTGCCGAAACAACAAAAACCGAAACCTCGAAAAATAC
4566052 ATTAGTTGTGCCGATTTCTTCCAAGCCAAATCCTTCGATATTTTTGTGCCTAATAAACAACAATC
66 ATTAGTTGTGCCGATTTCTTCCAAGCCAAATCCTTCGATATTTTTGTGCCTAATAAACAACAATC
4566117 ATCTTTTCTAAACCCTAGATACCTATCAGCAATTCTACATCAAGGTTATAGCCCCACATTGTCAT
131 ATCTTTTCTAAACCCTAGATACCTATCAGCAATTCTACATCAAGGTTATAGCCCCACATTGTCAT
4566182 CTCCTTCATCACCCAAAAGCCGAAAAA
196 CTCCTTCATCACCCAAAAGCCGAAAAA
* * * *
4566209 TCATCAAACCTGCTGTTCATTAACACTTGTGCTGAAACAACAAAAATCGAAACCTCGAAAAATGC
1 TCATCAAACCTGCTGTTCATCAACACTTGTGCCGAAACAACAAAAACCGAAACCTCGAAAAATAC
*
4566274 ATTAGTTGTGCCGATTTCTTCCAAGCCAAATCCTTCGATATTTTTGTGCCTAATAAGCAACAATC
66 ATTAGTTGTGCCGATTTCTTCCAAGCCAAATCCTTCGATATTTTTGTGCCTAATAAACAACAATC
4566339 ATCTTTTCTAAACCCTAGATACCTATCAGCAATTCTACATCAAGGTTATAGCCCCACATTGTCAT
131 ATCTTTTCTAAACCCTAGATACCTATCAGCAATTCTACATCAAGGTTATAGCCCCACATTGTCAT
4566404 CTCCTTCATCACCCAAAAGCCGAAAA
196 CTCCTTCATCACCCAAAAGCCGAAAA
4566430 CCATAGATTT
Statistics
Matches: 214, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
222 214 1.00
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.28
Consensus pattern (222 bp):
TCATCAAACCTGCTGTTCATCAACACTTGTGCCGAAACAACAAAAACCGAAACCTCGAAAAATAC
ATTAGTTGTGCCGATTTCTTCCAAGCCAAATCCTTCGATATTTTTGTGCCTAATAAACAACAATC
ATCTTTTCTAAACCCTAGATACCTATCAGCAATTCTACATCAAGGTTATAGCCCCACATTGTCAT
CTCCTTCATCACCCAAAAGCCGAAAAA
Found at i:4568523 original size:143 final size:143
Alignment explanation
Indices: 4568265--4568551 Score: 556
Period size: 143 Copynumber: 2.0 Consensus size: 143
4568255 TTTGATTCAT
*
4568265 GATTCCGTACATATGTGACTTTAATGTCTAATGTATAAATATGGGCTAAGTGCCTTGTGTTCCTC
1 GATTCCGTACATATGTGACTTTAATGTCTAATGTATAAATATGGGCTAAGTGCCTTGTGTTCCCC
*
4568330 TTTTCGATGCTCAAATGATTAAATCAATTTATTTGTTTAATTAAGCTCAAGAGCAAAGGGGAACT
66 TTTTCGATGCTCAAATGATTAAATCAATTTATTTGTTTAATTAAGCTCAAGAGCAAAGGAGAACT
4568395 AAATCCGATAAAG
131 AAATCCGATAAAG
4568408 GATTCCGTACATATGTGACTTTAATGTCTAATGTATAAATATGGGCTAAGTGCCTTGTGTTCCCC
1 GATTCCGTACATATGTGACTTTAATGTCTAATGTATAAATATGGGCTAAGTGCCTTGTGTTCCCC
4568473 TTTTCGATGCTCAAATGATTAAATCAATTTATTTGTTTAATTAAGCTCAAGAGCAAAGGAGAACT
66 TTTTCGATGCTCAAATGATTAAATCAATTTATTTGTTTAATTAAGCTCAAGAGCAAAGGAGAACT
4568538 AAATCCGATAAAG
131 AAATCCGATAAAG
4568551 G
1 G
4568552 GAAGGAAAAA
Statistics
Matches: 142, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 142 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (143 bp):
GATTCCGTACATATGTGACTTTAATGTCTAATGTATAAATATGGGCTAAGTGCCTTGTGTTCCCC
TTTTCGATGCTCAAATGATTAAATCAATTTATTTGTTTAATTAAGCTCAAGAGCAAAGGAGAACT
AAATCCGATAAAG
Found at i:4568895 original size:39 final size:40
Alignment explanation
Indices: 4568800--4569061 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
4568790 TTGAATGATG
*
4568800 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
4568838 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
4568879 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
4568918 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
4568957 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
4568996 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
4569035 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
4569062 AACGAGGAGC
Statistics
Matches: 201, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
39 130 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:4579007 original size:13 final size:13
Alignment explanation
Indices: 4578989--4579014 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4578979 CAAAATCATA
4578989 ATTATAATAATTT
1 ATTATAATAATTT
4579002 ATTATAATAATTT
1 ATTATAATAATTT
4579015 CGGTAAATAA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATAATTT
Found at i:4581270 original size:24 final size:24
Alignment explanation
Indices: 4581235--4581285 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4581225 CATTAAATGC
4581235 TTACTAGATTTTCTTTACTCAGTT
1 TTACTAGATTTTCTTTACTCAGTT
* * *
4581259 TTACTAGGTTTTCTTTTCTCTGTT
1 TTACTAGATTTTCTTTACTCAGTT
4581283 TTA
1 TTA
4581286 TTAGTGCTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.16, C:0.16, G:0.10, T:0.59
Consensus pattern (24 bp):
TTACTAGATTTTCTTTACTCAGTT
Found at i:4586550 original size:42 final size:43
Alignment explanation
Indices: 4586483--4586587 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 43
4586473 GACTTATGGT
* * * * *
4586483 TTACGTGTAAGACCATGTTTGGGACATTGGTATCG-CATTTGA
1 TTACGTGTAAGACCATGTCTAGGACAGTGGCATCGAAATTTGA
*
4586525 TTTCGTGTAAGACTC-TGTCTAGGACAGTGGCATCGAAATTTGA
1 TTACGTGTAAGAC-CATGTCTAGGACAGTGGCATCGAAATTTGA
* *
4586568 TTACATGTAAGACCACGTCT
1 TTACGTGTAAGACCATGTCT
4586588 GGGATGTTGG
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
42 29 0.57
43 22 0.43
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTAGGACAGTGGCATCGAAATTTGA
Found at i:4586599 original size:43 final size:42
Alignment explanation
Indices: 4586442--4586600 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 42
4586432 TATGTGTTTT
* * *
4586442 CGTGTAAGACCACGTCTGGGATGTTGACATCGACTTATGGTTTA
1 CGTGTAAGACCACGTCTGGGATGTTGGCATCGAATT-T-GATTA
* * ** * * *
4586486 CGTGTAAGACCATGTTTGGGACATTGGTATCGCATTTGATTT
1 CGTGTAAGACCACGTCTGGGATGTTGGCATCGAATTTGATTA
* * *
4586528 CGTGTAAGACTC-TGTCTAGGACAG-TGGCATCGAAATTTGATTA
1 CGTGTAAGAC-CACGTCTGGGA-TGTTGGCATCG-AATTTGATTA
*
4586571 CATGTAAGACCACGTCTGGGATGTTGGCAT
1 CGTGTAAGACCACGTCTGGGATGTTGGCAT
4586601 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 21, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
42 29 0.33
43 32 0.36
44 28 0.31
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGATGTTGGCATCGAATTTGATTA
Found at i:4593283 original size:33 final size:33
Alignment explanation
Indices: 4593245--4593312 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
4593235 AGAGAAAAAG
**
4593245 AAAGGGAGAAAGAACAGAGAGTAGGGACGAAAC
1 AAAGGGAGAAAGAACAGAGAACAGGGACGAAAC
4593278 AAAGGGAGAAAGAACAGAGAACAGGGACGAAAC
1 AAAGGGAGAAAGAACAGAGAACAGGGACGAAAC
4593311 AA
1 AA
4593313 GGAAAGGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.54, C:0.10, G:0.34, T:0.01
Consensus pattern (33 bp):
AAAGGGAGAAAGAACAGAGAACAGGGACGAAAC
Found at i:4593338 original size:19 final size:19
Alignment explanation
Indices: 4593314--4593352 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
4593304 ACGAAACAAG
*
4593314 GAAAGGAAAGAAGGAAAAA
1 GAAAGGAAAGAAAGAAAAA
4593333 GAAAGGAAAGAAAGAAAAA
1 GAAAGGAAAGAAAGAAAAA
4593352 G
1 G
4593353 GAAAAATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (19 bp):
GAAAGGAAAGAAAGAAAAA
Found at i:4594233 original size:6 final size:6
Alignment explanation
Indices: 4594216--4594245 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
4594206 GAACCGCTAT
*
4594216 TGTTAC TATTAC TGTTAC TGTTAC TGTTAC
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC
4594246 CATTACTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (6 bp):
TGTTAC
Found at i:4594233 original size:12 final size:12
Alignment explanation
Indices: 4594216--4594253 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
4594206 GAACCGCTAT
4594216 TGTTACTATTAC
1 TGTTACTATTAC
*
4594228 TGTTACTGTTAC
1 TGTTACTATTAC
*
4594240 TGTTACCATTAC
1 TGTTACTATTAC
4594252 TG
1 TG
4594254 ACATAGTGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.47
Consensus pattern (12 bp):
TGTTACTATTAC
Found at i:4594399 original size:18 final size:18
Alignment explanation
Indices: 4594376--4594442 Score: 80
Period size: 18 Copynumber: 3.7 Consensus size: 18
4594366 TATTAAAGAC
*
4594376 TGACCGCTACTGAATAAT
1 TGACCGCTACTGAATAAA
*
4594394 TGACCGTTACTGAATAAA
1 TGACCGCTACTGAATAAA
* *
4594412 TGACTGATACTGAATAAA
1 TGACCGCTACTGAATAAA
**
4594430 TGATTGCTACTGA
1 TGACCGCTACTGA
4594443 TTAACCGATT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (18 bp):
TGACCGCTACTGAATAAA
Found at i:4601066 original size:40 final size:40
Alignment explanation
Indices: 4601006--4601114 Score: 148
Period size: 40 Copynumber: 2.7 Consensus size: 40
4600996 TATTCGGATG
*
4601006 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CA
* * * *
4601047 AT-TCCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACA
*
4601086 ATAACCGGGCTAAGTCCCGAAGACATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
4601115 AGCAAGTAGC
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
39 3 0.05
40 54 0.92
41 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACA
Found at i:4601128 original size:40 final size:39
Alignment explanation
Indices: 4601006--4601147 Score: 144
Period size: 40 Copynumber: 3.6 Consensus size: 39
4600996 TATTCGGATG
* *
4601006 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ACT
* * *
4601046 A-ATTCCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACT
* *
4601086 ATAACCGGGCTAAGTCCCGAAGACATTTGAGCAAGTAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-CT
* * *
4601126 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
4601148 TACTTGGTTT
Statistics
Matches: 85, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
39 16 0.19
40 67 0.79
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (39 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTACT
Found at i:4611572 original size:51 final size:49
Alignment explanation
Indices: 4611388--4611629 Score: 268
Period size: 49 Copynumber: 4.9 Consensus size: 49
4611378 GTAGACAAGG
* * *
4611388 TTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAA
* * * *
4611437 TTATTCGGTACACGTAGTAGCCTCCACTTAGTACTATACACGTGACCTAA
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AA
** * * * *
4611487 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA
* *** * * *
4611537 GTTATCGGGTAGGTATAGTGGCCTGCACTTAGTACTACACATGCGACCAA
1 -TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAA
*
4611587 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGT
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGT
4611630 CACCTCACAA
Statistics
Matches: 155, Mismatches: 35, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
49 75 0.48
50 45 0.29
51 35 0.23
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAA
Found at i:4611909 original size:27 final size:27
Alignment explanation
Indices: 4611879--4611932 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
4611869 TCATACAACC
* *
4611879 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
4611906 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
4611933 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:4616180 original size:38 final size:38
Alignment explanation
Indices: 4616125--4616198 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
4616115 TCTCTCACTG
*
4616125 AAAACAAGTAAATGAAATAATTACTAGTGCCCGATCAA
1 AAAACAAGTAAACGAAATAATTACTAGTGCCCGATCAA
4616163 AAAACAAGTAAACGAAATAATTACTAGTGCCCGATC
1 AAAACAAGTAAACGAAATAATTACTAGTGCCCGATC
4616199 GAAATGTCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.49, C:0.18, G:0.14, T:0.20
Consensus pattern (38 bp):
AAAACAAGTAAACGAAATAATTACTAGTGCCCGATCAA
Found at i:4617974 original size:49 final size:49
Alignment explanation
Indices: 4617913--4618144 Score: 227
Period size: 49 Copynumber: 4.7 Consensus size: 49
4617903 CTGGTACGCA
*
4617913 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACAAG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGATACAAG
* * * * ** * *
4617962 TAGTCGCTTGCACTTACTACTACACACGTGACCTAACCATATGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCTGATACAAG
* * * *
4618012 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTAGGC-A-
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCTGATA--CAAG
* * *
4618063 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC-CAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGA-TACAAG
* *
4618112 TAGTAGCCTGTACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
4618145 TCACAATAGA
Statistics
Matches: 147, Mismatches: 28, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
47 1 0.01
49 65 0.44
50 45 0.31
51 35 0.24
53 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGATACAAG
Found at i:4618421 original size:27 final size:27
Alignment explanation
Indices: 4618391--4618444 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
4618381 TCATACAACC
* *
4618391 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
4618418 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
4618445 TCACATGACG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:4622873 original size:21 final size:21
Alignment explanation
Indices: 4622848--4622897 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
4622838 ACGTAAACTG
4622848 TAAAAGTGGCCTTCTATTAGT
1 TAAAAGTGGCCTTCTATTAGT
4622869 TAAAAGTGGCCTTCTATTAGT
1 TAAAAGTGGCCTTCTATTAGT
4622890 TAAAAGTG
1 TAAAAGTG
4622898 TCTATTTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (21 bp):
TAAAAGTGGCCTTCTATTAGT
Found at i:4624057 original size:43 final size:42
Alignment explanation
Indices: 4623910--4624066 Score: 158
Period size: 43 Copynumber: 3.6 Consensus size: 42
4623900 TGTGTTGTCG
*
4623910 TGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGATTTACA
1 TGTAAGACC-CGTCTGGGACGTTGGCATCGA-TATTTGA-TTACA
* * * * *
4623954 TGTAAGACCCTGCCTAGGACATTGGCATCG-TATTTGATTTCG
1 TGTAAGACCC-GTCTGGGACGTTGGCATCGATATTTGATTACA
*
4623996 TGTAAGACCCTGTTTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCC-GTCTGGGAC-GTTGGCATCGATATTTGATTACA
*
4624039 TGTAAGACCACATCTGGGACGTTGGCAT
1 TGTAAGACC-CGTCTGGGACGTTGGCAT
4624067 TGCACGAGCT
Statistics
Matches: 93, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
42 30 0.32
43 37 0.40
44 26 0.28
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCCGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:4627772 original size:27 final size:27
Alignment explanation
Indices: 4627736--4627829 Score: 134
Period size: 27 Copynumber: 3.5 Consensus size: 27
4627726 TTACTGAAAT
* * *
4627736 CCCTCAATTTGTAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
4627763 CCCTCGATTTACAGAGTTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
4627790 CCCTCGATTTATAGAATTACCATCTTA
1 CCCTCGATTTATAGAATTACCATTTTA
4627817 CCCTCGATTTATA
1 CCCTCGATTTATA
4627830 TACCATCGAT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.29, C:0.26, G:0.07, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:4627809 original size:54 final size:54
Alignment explanation
Indices: 4627748--4627959 Score: 223
Period size: 54 Copynumber: 4.1 Consensus size: 54
4627738 CTCAATTTGT
* *
4627748 AAAATTACCATTTTACCCTCGATTTACAGAGTTACCATTTTACCCTCGATTTAT
1 AAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
* * *
4627802 AGAATTACCATCTTACCCTCGATTT-----A-T---A---TACCATCGATTTAC
1 AAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
* * * * *
4627844 AAAATTACCATTTTACCCTCGATTTATAGAATTACCGTGTTATCCTTGATTTAC
1 AAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
* **
4627898 AAAATTACTATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
4627952 AAAATTAC
1 AAAATTAC
4627960 TAAAATACCC
Statistics
Matches: 129, Mismatches: 17, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
42 35 0.27
45 1 0.01
47 1 0.01
48 2 0.02
54 90 0.70
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (54 bp):
AAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
Found at i:4627840 original size:42 final size:42
Alignment explanation
Indices: 4627788--4627871 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
4627778 GTTACCATTT
* * *
4627788 TACCCTCGATTTATAGAATTACCATCTTACCCTCGATTTATA
1 TACCATCGATTTACAAAATTACCATCTTACCCTCGATTTATA
*
4627830 TACCATCGATTTACAAAATTACCATTTTACCCTCGATTTATA
1 TACCATCGATTTACAAAATTACCATCTTACCCTCGATTTATA
4627872 GAATTACCGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (42 bp):
TACCATCGATTTACAAAATTACCATCTTACCCTCGATTTATA
Found at i:4627853 original size:96 final size:96
Alignment explanation
Indices: 4627748--4627923 Score: 262
Period size: 96 Copynumber: 1.8 Consensus size: 96
4627738 CTCAATTTGT
* * * *
4627748 AAAATTACCATTTTACCCTCGATTTACAGAGTTACCATTTTACCCTCGATTTATAGAATTACCAT
1 AAAATTACCATTTTACCCTCGATTTACAGAATTACCATGTTACCCTCGATTTACAAAATTACCAT
4627813 CTTACCCTCGATTTATATACCATCGATTTAC
66 CTTACCCTCGATTTATATACCATCGATTTAC
* * * * *
4627844 AAAATTACCATTTTACCCTCGATTTATAGAATTACCGTGTTATCCTTGATTTACAAAATTACTAT
1 AAAATTACCATTTTACCCTCGATTTACAGAATTACCATGTTACCCTCGATTTACAAAATTACCAT
*
4627909 TTTACCCTCGATTTA
66 CTTACCCTCGATTTA
4627924 CAGAATTACT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 70 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (96 bp):
AAAATTACCATTTTACCCTCGATTTACAGAATTACCATGTTACCCTCGATTTACAAAATTACCAT
CTTACCCTCGATTTATATACCATCGATTTAC
Found at i:4627960 original size:27 final size:27
Alignment explanation
Indices: 4627830--4627961 Score: 165
Period size: 27 Copynumber: 4.9 Consensus size: 27
4627820 TCGATTTATA
* *
4627830 TACCATCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * ** *
4627857 TACCCTCGATTTATAGAATTACCGTGT
1 TACCCTCGATTTACAAAATTACTATTT
* *
4627884 TATCCTTGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
4627911 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
4627938 TACCCTCGATTTACAAAATTACTA
1 TACCCTCGATTTACAAAATTACTA
4627962 AAATACCCTT
Statistics
Matches: 87, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:4627968 original size:27 final size:27
Alignment explanation
Indices: 4627891--4628145 Score: 133
Period size: 27 Copynumber: 9.4 Consensus size: 27
4627881 TGTTATCCTT
* ***
4627891 GATTTACAAAATTACTATTTTACCCTC
1 GATTTATAAAATTACTAAAATACCCTC
* * ****
4627918 GATTTACAGAATTACTGTTTTACCCTC
1 GATTTATAAAATTACTAAAATACCCTC
*
4627945 GATTTACAAAATTACTAAAATACCCT-
1 GATTTATAAAATTACTAAAATACCCTC
* * *
4627971 TAGTTTACAAAATTACCAAAATACCCTC
1 GA-TTTATAAAATTACTAAAATACCCTC
* * * *
4627999 GA-TCAGTAAAATTTCCAAACTACCC-C
1 GATTTA-TAAAATTACTAAAATACCCTC
* *
4628025 TAGTTTGTAAAATTACTAAAATACCC-C
1 GA-TTTATAAAATTACTAAAATACCCTC
* * * *
4628052 TAGTTTGTAAAATTACCAAAATACCCTT
1 GA-TTTATAAAATTACTAAAATACCCTC
** * * *
4628080 GGCTTGTAAAATTACCAAAATACCCTT
1 GATTTATAAAATTACTAAAATACCCTC
* * *
4628107 GATTTGTGAAATTA-TCAAAATACTCTC
1 GATTTATAAAATTACT-AAAATACCCTC
*
4628134 GATTTGTAAAAT
1 GATTTATAAAAT
4628146 ATCGAAATAC
Statistics
Matches: 189, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
26 5 0.03
27 182 0.96
28 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (27 bp):
GATTTATAAAATTACTAAAATACCCTC
Found at i:4627978 original size:81 final size:81
Alignment explanation
Indices: 4627830--4627986 Score: 190
Period size: 81 Copynumber: 1.9 Consensus size: 81
4627820 TCGATTTATA
* * **** *
4627830 TACCATCGATTTACAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTGTTATCCTTGATT
1 TACCATCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTTGATT
4627895 TACAAAATTACTATTT
66 TACAAAATTACTATTT
* * ** *
4627911 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTT-AGT
1 TACCATCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTTGA-T
4627975 TTACAAAATTAC
65 TTACAAAATTAC
4627987 CAAAATACCC
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
80 1 0.02
81 62 0.98
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (81 bp):
TACCATCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTTGATT
TACAAAATTACTATTT
Found at i:4627985 original size:54 final size:54
Alignment explanation
Indices: 4627830--4627987 Score: 147
Period size: 54 Copynumber: 2.9 Consensus size: 54
4627820 TCGATTTATA
* * *** * * *
4627830 TACCATCGATTTACAAAATTACCATTTTACCCTCGATTTATAGAATTACCGTGT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTAGATTTACAAAATTACCGTGT
* * *** * * * *
4627884 TATCCTTGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTAGATTTACAAAATTACCGTGT
4627938 TACCCTCGATTTACAAAATTACTAAAATACCCTTAG-TTTACAAAATTACC
1 TACCCTCGATTTACAAAATTACTAAAATACCC-TAGATTTACAAAATTACC
4627988 AAAATACCCT
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 86 0.98
55 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.38
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTAGATTTACAAAATTACCGTGT
Found at i:4627996 original size:54 final size:54
Alignment explanation
Indices: 4627938--4628129 Score: 199
Period size: 54 Copynumber: 3.6 Consensus size: 54
4627928 ATTACTGTTT
* * **
4627938 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * * *
4627992 TACCCTCGA-TCAGTAAAATTTCCAAACTACCCCTAGTTTGTAAAATTACTAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * *
4628046 TACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGCTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * *
4628100 TACCCTTGATTTGTGAAATTATCAAAATAC
1 TACCCTCGATTTATAAAATTACCAAAATAC
4628130 TCTCGATTTG
Statistics
Matches: 112, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
53 4 0.04
54 106 0.95
55 2 0.02
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:4628089 original size:81 final size:81
Alignment explanation
Indices: 4627938--4628129 Score: 219
Period size: 81 Copynumber: 2.4 Consensus size: 81
4627928 ATTACTGTTT
* ** *
4627938 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCTCGATC
1 TACCCTAGATTTGTAAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTCGATC
* *
4628003 AGTAAAATTTCCAAAC
66 AGTAAAATTACCAAAA
** * *
4628019 TACCCCTAG-TTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTG-G
1 TA-CCCTAGATTTGTAAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTCGAT
*
4628082 CTTGTAAAATTACCAAAA
65 C-AGTAAAATTACCAAAA
* *
4628100 TACCCTTGATTTGTGAAATTA-TCAAAATAC
1 TACCCTAGATTTGTAAAATTACT-AAAATAC
4628130 TCTCGATTTG
Statistics
Matches: 94, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
80 7 0.07
81 82 0.87
82 5 0.05
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (81 bp):
TACCCTAGATTTGTAAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTCGATC
AGTAAAATTACCAAAA
Found at i:4628189 original size:27 final size:27
Alignment explanation
Indices: 4628149--4628362 Score: 281
Period size: 27 Copynumber: 8.0 Consensus size: 27
4628139 GTAAAATATC
* *
4628149 GAAATACCCCTGTAAGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACT
*
4628176 GAAATACCCTTGTAGGGTAGAA-TACC
1 GAAATACCCTTGTAGGGTAGAATTACT
*
4628202 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACT
*
4628229 AAAATAACCC-TGTAGGGTAGAATTA-T
1 GAAAT-ACCCTTGTAGGGTAGAATTACT
* * *
4628255 CGAAATACCCCTGTAGGGTAGAAATATT
1 -GAAATACCCTTGTAGGGTAGAATTACT
*
4628283 GAAATACCCTTGTAAGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACT
*
4628310 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACT
* *
4628337 GAGATACCCTTGTAGGGTAAAATTAC
1 GAAATACCCTTGTAGGGTAGAATTAC
4628363 CATTTTGCCC
Statistics
Matches: 166, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
26 29 0.17
27 132 0.80
28 5 0.03
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACT
Found at i:4628604 original size:25 final size:25
Alignment explanation
Indices: 4628566--4628635 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
4628556 AGGAAGTGCT
* *
4628566 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
4628591 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
4628616 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
4628636 ACTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:4635252 original size:34 final size:34
Alignment explanation
Indices: 4635209--4635276 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
4635199 GACACTATAA
4635209 GAAAATGGAAAGGAAATGGGGTAAGCATAAAGCT
1 GAAAATGGAAAGGAAATGGGGTAAGCATAAAGCT
*
4635243 GAAAATGGAAAGGAAATTGGGTAAGCATAAAGCT
1 GAAAATGGAAAGGAAATGGGGTAAGCATAAAGCT
4635277 TAGTAAGTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.47, C:0.06, G:0.31, T:0.16
Consensus pattern (34 bp):
GAAAATGGAAAGGAAATGGGGTAAGCATAAAGCT
Found at i:4635690 original size:49 final size:49
Alignment explanation
Indices: 4635621--4635885 Score: 142
Period size: 49 Copynumber: 5.6 Consensus size: 49
4635611 ATTAAAGTCT
* * *
4635621 ATGCCGTGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAG-GCCG
1 ATGCCATGTCCCAGAAAGGTCTTACACTAACTCTCATATATC-AGTGCCG
* * * ** * *
4635670 ATGCCATGTCTCGGAAAGGTCTTACATTGGCTCTCATTTATCAGTGTCG
1 ATGCCATGTCCCAGAAAGGTCTTACACTAACTCTCATATATCAGTGCCG
* * * * * *
4635719 ATGCCATGTCCCAGACAGGTCTTACACTGACAC-C-CA-A-CA-AGCTG
1 ATGCCATGTCCCAGAAAGGTCTTACACTAACTCTCATATATCAGTGCCG
* * * *
4635763 ACT-CCATGTCCCAGATAGGTCTTACACTAGCT-TGTATATACCGAG-GCCG
1 A-TGCCATGTCCCAGAAAGGTCTTACACTAACTCT-CATATATC-AGTGCCG
* * * * * * *
4635812 ATG-CATGTCCCAGACATGTCTTACACTAGCTCTC--GTCTCAATACCG
1 ATGCCATGTCCCAGAAAGGTCTTACACTAACTCTCATATATCAGTGCCG
* *
4635858 ATG-CATGTCCCAGACATGTCTTACACTA
1 ATGCCATGTCCCAGAAAGGTCTTACACTA
4635886 GCACTCATGT
Statistics
Matches: 168, Mismatches: 36, Indels: 27
0.73 0.16 0.12
Matches are distributed among these distances:
44 28 0.17
45 4 0.02
46 35 0.21
47 1 0.01
48 31 0.18
49 69 0.41
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAGAAAGGTCTTACACTAACTCTCATATATCAGTGCCG
Found at i:4635873 original size:46 final size:46
Alignment explanation
Indices: 4635809--4635935 Score: 166
Period size: 46 Copynumber: 2.8 Consensus size: 46
4635799 TATACCGAGG
*
4635809 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT-A
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCT-AATGA
* * ** *
4635855 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATGTTGTGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTAATGA
**
4635901 TTGATGCATGTCCCAGACATGTCTTACACTAGCTC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTC
4635936 ATATACCACC
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 1 0.01
46 70 0.99
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTAATGA
Found at i:4642354 original size:39 final size:40
Alignment explanation
Indices: 4642244--4642467 Score: 262
Period size: 39 Copynumber: 5.7 Consensus size: 40
4642234 GCTACTCGTT
* * *
4642244 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
4642284 CAATTGCCTTTGGGACTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
4642324 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
4642363 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
4642402 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
4642443 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
4642468 CATCATTCAA
Statistics
Matches: 163, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 75 0.46
40 73 0.45
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:4642372 original size:79 final size:78
Alignment explanation
Indices: 4642244--4642467 Score: 274
Period size: 79 Copynumber: 2.8 Consensus size: 78
4642234 GCTACTCGTT
* * * *
4642244 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTAGCACAATTGCCTTTGGGACTTAGCCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGT-ACTAGCACAAATGCCTTCGGGACTTAGCCCGG
*
4642309 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
4642324 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTA-CTAGCACAAATGCCTTCGGGACTTAGCCCGG
*
4642387 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * *
4642402 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGT-AC-TAGCACAAATGCCTTCGGGACTTAGCCCG
4642466 GA
63 GA
4642468 CATCATTCAA
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
78 38 0.30
79 53 0.42
80 35 0.28
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTACTAGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:4642467 original size:40 final size:40
Alignment explanation
Indices: 4642225--4642467 Score: 229
Period size: 40 Copynumber: 6.1 Consensus size: 40
4642215 CGGAATTTAA
** *
4642225 CCGGATATAGCTAC-TCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TACTTCGCACAAATGCCTTCGGGACTTAGC
* * * *
4642265 CCGGTTATAGTAAC-TAGCACAATTGCCTTTGGGACTTAGC
1 CCGGATATAGT-ACTTCGCACAAATGCCTTCGGGACTTAGC
*
4642305 CCGGATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGT-ACTTCGCACAAATGCCTTCGGGACTTAGC
4642344 CCGGA-ATTAGTA-TCTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATA-TAGTACT-TCGCACAAATGCCTTCGGGACTTAGC
*
4642383 CCGGA-ATTAGTA-TCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTACT-TCGCACAAATGCCTTCGGGA-CTTAGC
* *
4642423 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-ACTTCGCACAAATGCCTTCGGGACTTAGC
4642463 CCGGA
1 CCGGA
4642468 CATCATTCAA
Statistics
Matches: 176, Mismatches: 17, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
38 3 0.02
39 71 0.40
40 88 0.50
41 13 0.07
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTACTTCGCACAAATGCCTTCGGGACTTAGC
Found at i:4648063 original size:92 final size:92
Alignment explanation
Indices: 4647906--4648089 Score: 296
Period size: 92 Copynumber: 2.0 Consensus size: 92
4647896 ATCATTCAGC
* *
4647906 CCATCCTCGAAACGTTTACACATCACGGCTTCTGAAGAGATACATTCTCGAGCGTACCGGCTAAG
1 CCATCCTCGAAACGTTTACACATCACCGCTTCTGAAGAAATACATTCTCGAGCGTACCGGCTAAG
*
4647971 CCTTACAAACTTTCGTTCATAGTCGGT
66 CCTTACAAACTTTCGTTCAGAGTCGGT
* * * *
4647998 CCATCCTCGAAACGTTTACACATTACCGCTTCTGAGGAAATGCATTCTCGAGTGTACCGGCTAAG
1 CCATCCTCGAAACGTTTACACATCACCGCTTCTGAAGAAATACATTCTCGAGCGTACCGGCTAAG
*
4648063 CCTTACAAACTTTCTTTCAGAGTCGGT
66 CCTTACAAACTTTCGTTCAGAGTCGGT
4648090 AACTGACATG
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 84 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (92 bp):
CCATCCTCGAAACGTTTACACATCACCGCTTCTGAAGAAATACATTCTCGAGCGTACCGGCTAAG
CCTTACAAACTTTCGTTCAGAGTCGGT
Found at i:4648613 original size:84 final size:84
Alignment explanation
Indices: 4648472--4648637 Score: 287
Period size: 84 Copynumber: 2.0 Consensus size: 84
4648462 TGTGGGGGTG
4648472 GTATTAGTCGGGAATGGAGGTTGTGAAACAGCCCTATTAGTTCGAATGTATTGGTTGAACCAATC
1 GTATTAGTCGGGAATGGAGGTTGTGAAACAGCCCTATTAGTTCGAATGTATTGGTTGAACCAATC
4648537 ATTCACCACGCTATAAATT
66 ATTCACCACGCTATAAATT
* * * *
4648556 GTATTTGTCGGGAATGGAGGTTGTGGAATAGCCGTATTAGTTCGAATGTATTGGTTGAACCAATC
1 GTATTAGTCGGGAATGGAGGTTGTGAAACAGCCCTATTAGTTCGAATGTATTGGTTGAACCAATC
*
4648621 ATTCATCACGCTATAAA
66 ATTCACCACGCTATAAA
4648638 AAGCTTGTCT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 77 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (84 bp):
GTATTAGTCGGGAATGGAGGTTGTGAAACAGCCCTATTAGTTCGAATGTATTGGTTGAACCAATC
ATTCACCACGCTATAAATT
Found at i:4649343 original size:103 final size:103
Alignment explanation
Indices: 4649160--4649348 Score: 333
Period size: 103 Copynumber: 1.8 Consensus size: 103
4649150 ACAGTCACTG
* * *
4649160 TCGACTACTCTGACCTTCATGCATTACGACTTAGATATCTCCTTGTACAGGGCTTCAATACTTAT
1 TCGACTACTCTAACCTTCATGCATTACGACTTAGATATATCCTTGTACAGGGATTCAATACTTAT
*
4649225 GCCGTTGGTTGCTATTGAAACCTACCCTGATTCAGGGT
66 GCAGTTGGTTGCTATTGAAACCTACCCTGATTCAGGGT
4649263 TCGACTACTCTAACCTTCATGCATTACGACTTAGATATATCCTTGTACAGGGATTCAATACTTAT
1 TCGACTACTCTAACCTTCATGCATTACGACTTAGATATATCCTTGTACAGGGATTCAATACTTAT
*
4649328 GCAGTTGGTTTCTATTGAAAC
66 GCAGTTGGTTGCTATTGAAAC
4649349 TAGACTCAAA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 81 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (103 bp):
TCGACTACTCTAACCTTCATGCATTACGACTTAGATATATCCTTGTACAGGGATTCAATACTTAT
GCAGTTGGTTGCTATTGAAACCTACCCTGATTCAGGGT
Found at i:4650354 original size:40 final size:40
Alignment explanation
Indices: 4650301--4650496 Score: 252
Period size: 40 Copynumber: 4.9 Consensus size: 40
4650291 AGATATAGCT
* * * *
4650301 ACTCGCTCGAATGCCTTCGGGACATAGCCCGGTTATGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
4650341 ACTCGCACAAATGCCTTCGGGGCTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
4650381 ACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
4650421 ACTCGCACAAATGCCTTCAAGG-CTTAGCCCGG-AATTAGTC
1 ACTCGCACAAATGCCTTC-GGGACTTAGCCCGGTTA-TAGTA
*
4650461 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
4650497 CATCCGAATA
Statistics
Matches: 134, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.02
40 128 0.96
41 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:4650425 original size:80 final size:79
Alignment explanation
Indices: 4650292--4650496 Score: 304
Period size: 80 Copynumber: 2.6 Consensus size: 79
4650282 AATTTAACCA
* *
4650292 GATATAGCTACTCGCTCGAATGCCTTCGGGACATAGCCCGGTTATGGTAACTCGCACAAATGCCT
1 GATATAG-TACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCT
**
4650357 TCGGGGCTTAGCCCG
65 TCAAGGCTTAGCCCG
4650372 GATATAGTAACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCT
1 GATATAGT-ACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCT
4650437 TCAAGGCTTAGCCCG
65 TCAAGGCTTAGCCCG
* * *
4650452 GA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 GATA-TAGT-ACTCGCACGAATGCCTTCGGGACATAGCCCGGTTAT
4650497 CATCCGAATA
Statistics
Matches: 115, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
79 2 0.02
80 113 0.98
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (79 bp):
GATATAGTACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTT
CAAGGCTTAGCCCG
Found at i:4653255 original size:17 final size:17
Alignment explanation
Indices: 4653233--4653265 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4653223 CCAAAACAAA
4653233 GAAAAA-GAAAGAAGAAG
1 GAAAAAGGAAA-AAGAAG
4653250 GAAAAAGGAAAAAGAA
1 GAAAAAGGAAAAAGAA
4653266 AATGCAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (17 bp):
GAAAAAGGAAAAAGAAG
Found at i:4656272 original size:60 final size:61
Alignment explanation
Indices: 4656206--4656338 Score: 150
Period size: 60 Copynumber: 2.2 Consensus size: 61
4656196 CAGTGTCAAC
* *
4656206 TGGGCCTTAGCCCACA-CAATATTAATCTGGGCCATAGCCC-CTTAC-AGTATCAGAGTATAT
1 TGGGCCTTAGCCCACATCAATATCAATCTGGGCCATAGCCCTATTACAAGT-TCAGA-TATAT
* * * * *
4656266 TGGGCC-TAGCCCATATCAGTATCAATTTGGGCCGTAGCCCTATTACAAGTTGAGATATAT
1 TGGGCCTTAGCCCACATCAATATCAATCTGGGCCATAGCCCTATTACAAGTTCAGATATAT
4656326 TGGGCCTT-GCCCA
1 TGGGCCTTAGCCCA
4656339 TATTAACATA
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
59 8 0.13
60 42 0.68
61 9 0.15
62 3 0.05
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (61 bp):
TGGGCCTTAGCCCACATCAATATCAATCTGGGCCATAGCCCTATTACAAGTTCAGATATAT
Found at i:4667535 original size:5 final size:5
Alignment explanation
Indices: 4667521--4667618 Score: 56
Period size: 5 Copynumber: 18.2 Consensus size: 5
4667511 TGAATCCTCC
* *
4667521 TATTT GATTT TA-TT TATTCT TATTTT TATTT T-CTT TATTT TATTTT
1 TATTT TATTT TATTT TATT-T TA-TTT TATTT TATTT TATTT TA-TTT
* * *
4667567 TATTTT TCTTT TGATTTT TATTT TCATTT CAATTG TATTAT TATTT TATTT
1 TA-TTT TATTT T-A-TTT TATTT T-ATTT -TATTT TATT-T TATTT TATTT
4667618 T
1 T
4667619 GAAATACATA
Statistics
Matches: 73, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
4 7 0.10
5 32 0.44
6 28 0.38
7 6 0.08
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.73
Consensus pattern (5 bp):
TATTT
Found at i:4667562 original size:26 final size:25
Alignment explanation
Indices: 4667529--4667578 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
4667519 CCTATTTGAT
4667529 TTTATTTATTCTTATTTTTATTTTC
1 TTTATTTATTCTTATTTTTATTTTC
* *
4667554 TTTATTTTATTTTTATTTTTCTTTT
1 TTTA-TTTATTCTTATTTTTATTTT
4667579 GATTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTATTTATTCTTATTTTTATTTTC
Found at i:4667570 original size:11 final size:11
Alignment explanation
Indices: 4667533--4667618 Score: 55
Period size: 12 Copynumber: 7.2 Consensus size: 11
4667523 TTTGATTTTA
4667533 TTTATTCTTATT
1 TTTATT-TTATT
*
4667545 TTTATTTTCTTTAT
1 TTTA-TTT-TAT-T
4667559 TTTATTTTTATT
1 TTTA-TTTTATT
*
4667571 TTTCTTTTGATT
1 TTTATTTT-ATT
4667583 TTTATTTTCATT
1 TTTATTTT-ATT
** *
4667595 TCAATTGTATT
1 TTTATTTTATT
*
4667606 ATTATTTTATT
1 TTTATTTTATT
4667617 TT
1 TT
4667619 GAAATACATA
Statistics
Matches: 57, Mismatches: 13, Indels: 9
0.72 0.16 0.11
Matches are distributed among these distances:
11 15 0.26
12 27 0.47
13 6 0.11
14 9 0.16
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.74
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:4667585 original size:7 final size:6
Alignment explanation
Indices: 4667533--4667595 Score: 63
Period size: 6 Copynumber: 10.2 Consensus size: 6
4667523 TTTGATTTTA
* * * *
4667533 TTTATT CTTATT TTTATT TTCTTTAT TTTATT TTTATT TTTCTT TTGATT
1 TTTATT TTTATT TTTATT TT-TAT-T TTTATT TTTATT TTTATT TTTATT
*
4667583 TTTATT TTCATT T
1 TTTATT TTTATT T
4667596 CAATTGTATT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
6 39 0.85
7 4 0.09
8 3 0.07
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:4670567 original size:21 final size:22
Alignment explanation
Indices: 4670522--4670567 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
4670512 TCTTTGCTTT
***
4670522 AAATAAATTAGTTAATTAGTTC
1 AAATAAATTAGTTAATTAAAAC
4670544 AAAT-AATTAGTTAATTAAAAC
1 AAATAAATTAGTTAATTAAAAC
4670565 AAA
1 AAA
4670568 CCCTTTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (22 bp):
AAATAAATTAGTTAATTAAAAC
Found at i:4671045 original size:59 final size:59
Alignment explanation
Indices: 4670946--4671063 Score: 184
Period size: 59 Copynumber: 2.0 Consensus size: 59
4670936 TGTTTGAGTC
* * *
4670946 TGGTAACGCCTCTTACCCTGTCCCGATGTCCGATATAGGTAAGGGGTGTTACAATCAAT
1 TGGTAACGCCTCTGACCCTATCCCGATGTCCGATACAGGTAAGGGGTGTTACAATCAAT
*
4671005 TGGTAATGCCTCTGACCCTATCCCGATGT-CGCATACAGGTAAGGGGTGTTACAATCAAT
1 TGGTAACGCCTCTGACCCTATCCCGATGTCCG-ATACAGGTAAGGGGTGTTACAATCAAT
4671064 CCATAACCTT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
58 2 0.04
59 52 0.96
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (59 bp):
TGGTAACGCCTCTGACCCTATCCCGATGTCCGATACAGGTAAGGGGTGTTACAATCAAT
Found at i:4674507 original size:294 final size:295
Alignment explanation
Indices: 4673978--4674567 Score: 1155
Period size: 294 Copynumber: 2.0 Consensus size: 295
4673968 ATTAATGAGT
4673978 AATGCATGTGTTAAATTGATGGAAAGGGAGAGGATGCTTTACTAGTGTATATATGTGTGTATTAG
1 AATGCATGTGTTAAATTGATGGAAAGGGAGAGGATGCTTTACTAGTGTATATATGTGTGTATTAG
4674043 CCAAGTTTTGAACTTGAAACAAAAGGGTGTTTAGTCAATACAAGTGACCATACTTGTAGAATGTA
66 CCAAGTTTTGAACTTGAAACAAAAGGGTGTTTAGTCAATACAAGTGACCATACTTGTAGAATGTA
*
4674108 TTAAGTGTTGCAATCGGCCCCAACATAGACATGCATATTCGGCCATAGGAAGGAGATTGGTGTTG
131 TTAAGTGTTGAAATCGGCCCCAACATAGACATGCATATTCGGCCATAGGAAGGAGATTGGTGTTG
4674173 CATGTATTCGGTTAGAGGCAAGCATATTGATGCTTTTGTCTTGGCTTAGAAAATTCGGCCAAGGG
196 CATGTATTCGGTTAGAGGCAAGCATATTGATGCTTTTGTCTTGGCTTAGAAAATTCGGCCAAGGG
4674238 GG-AAAATTAGCCAAAATGTTGAGTTTGATTCATG
261 GGAAAAATTAGCCAAAATGTTGAGTTTGATTCATG
4674272 AATGCATGTGTTAAATTGATGGAAAGGGAGAGGATGCTTTACTAGTGTATATATGTGTGTATTAG
1 AATGCATGTGTTAAATTGATGGAAAGGGAGAGGATGCTTTACTAGTGTATATATGTGTGTATTAG
4674337 CCAAGTTTTGAACTTGAAACAAAAGGGTGTTTAGTCAATACAAGTGACCATACTTGTAGAATGTA
66 CCAAGTTTTGAACTTGAAACAAAAGGGTGTTTAGTCAATACAAGTGACCATACTTGTAGAATGTA
4674402 TTAAGTGTTGAAATCGGCCCCAACATAGACATGCATATTCGGCCATAGGAAGGAGATTGGTGTTG
131 TTAAGTGTTGAAATCGGCCCCAACATAGACATGCATATTCGGCCATAGGAAGGAGATTGGTGTTG
4674467 CATGTATTCGGTTAGAGGCAAGCATATTGATGCTTTTGTCTTGGCTTAGAAAATTCGGCCAAGGG
196 CATGTATTCGGTTAGAGGCAAGCATATTGATGCTTTTGTCTTGGCTTAGAAAATTCGGCCAAGGG
*
4674532 GGAAAAATTAGCTAAAATGTTGAGTTTGATTCATG
261 GGAAAAATTAGCCAAAATGTTGAGTTTGATTCATG
4674567 A
1 A
4674568 TTCCGTACAT
Statistics
Matches: 293, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
294 261 0.89
295 32 0.11
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (295 bp):
AATGCATGTGTTAAATTGATGGAAAGGGAGAGGATGCTTTACTAGTGTATATATGTGTGTATTAG
CCAAGTTTTGAACTTGAAACAAAAGGGTGTTTAGTCAATACAAGTGACCATACTTGTAGAATGTA
TTAAGTGTTGAAATCGGCCCCAACATAGACATGCATATTCGGCCATAGGAAGGAGATTGGTGTTG
CATGTATTCGGTTAGAGGCAAGCATATTGATGCTTTTGTCTTGGCTTAGAAAATTCGGCCAAGGG
GGAAAAATTAGCCAAAATGTTGAGTTTGATTCATG
Found at i:4675349 original size:40 final size:40
Alignment explanation
Indices: 4674960--4675342 Score: 517
Period size: 40 Copynumber: 9.7 Consensus size: 40
4674950 TTGAATGATG
* * * *
4674960 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
4675000 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
4675040 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
4675080 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
4675119 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
4675159 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
4675198 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
4675238 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * **
4675277 TCCGGGTTAAGTCCCAAAGGCAAATGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
4675318 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
4675343 AACGAGTAGC
Statistics
Matches: 301, Mismatches: 35, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
39 109 0.36
40 182 0.60
41 10 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:4675365 original size:79 final size:79
Alignment explanation
Indices: 4675013--4675342 Score: 581
Period size: 79 Copynumber: 4.2 Consensus size: 79
4675003 GGACTAAGAT
4675013 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
4675078 ATTCCGGGCTAAGC
66 ATTCCGGGCTAAGC
4675092 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
4675157 ATTCCGGGCTAAGC
66 ATTCCGGGCTAAGC
4675171 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
4675236 ATTCCGGGCTAAGC
66 ATTCCGGGCTAAGC
* ** *
4675250 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGGCAAATGTGCGAGTTACT-
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
* *
4675314 ATAACCGGGCTATGTC
66 AT-TCCGGGCTAAG-C
4675330 CCGAAGGCATTTG
1 CCGAAGGCATTTG
4675343 AACGAGTAGC
Statistics
Matches: 243, Mismatches: 6, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
78 2 0.01
79 227 0.93
80 14 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATTCCGGGCTAAGC
Found at i:4685054 original size:67 final size:65
Alignment explanation
Indices: 4684942--4685388 Score: 369
Period size: 67 Copynumber: 6.7 Consensus size: 65
4684932 GCTATAATGG
** *
4684942 GGTATAACATGTAAGACCATAGCTCAACTATGACAACATAGAGAGTCCACCATGACATTAAACAT
1 GGTATAATGTGTAAGACCATAGCTC-ACTATGA-AACATAGAGAGTCCACCAGGACATTAAACAT
4685007 GT
64 GT
* * * *** *
4685009 GGTATTATGTGTAAGACCATAGCTCATCTATGGAAAGATATAGAGTTTGCCAAGACATTAAACAT
1 GGTATAATGTGTAAGACCATAGCTCA-CTAT-GAAACATAGAGAGTCCACCAGGACATTAAACAT
4685074 AGT
64 -GT
* * * * *
4685077 -GTATAATGTGTAAAACCATAGCTCGACTATGGCAACATAGACAGTTCACCAGGACATTGAACAT
1 GGTATAATGTGTAAGACCATAGCTC-ACTAT-GAAACATAGAGAGTCCACCAGGACATTAAACAT
*
4685141 GG
64 GT
* * * * *
4685143 GGTATAATGTGTAAGACCATAGGTCGACTATGGTAACATAAAAAGTCCACCAGGACATGAAACAT
1 GGTATAATGTGTAAGACCATAGCTC-ACTAT-GAAACATAGAGAGTCCACCAGGACATTAAACAT
4685208 AG-
64 -GT
** * * * ** * * *
4685210 GGTATAATGTGTAAGACCATAATTCGCTATGACAACATAAAGAGTTCACCAATATATTGAACATA
1 GGTATAATGTGTAAGACCATAGCTCACTATGA-AACATAGAGAGTCCACCAGGACATTAAACATG
4685275 T
65 T
* * ** *
4685276 GGTATATTGTGTAAGACCATAGCTTGACTATTGTTACATAGAGAGTTCC-CTAGGACATTAAACA
1 GGTATAATGTGTAAGACCATAGC-TCACTA-TGAAACATAGAGAG-TCCACCAGGACATTAAACA
*
4685340 TGG
63 TGT
* * * *
4685343 GGTATGATGTGTAAGACCACAGCTAACTATGACAACATATAGAGTC
1 GGTATAATGTGTAAGACCATAGCTCACTATGA-AACATAGAGAGTC
4685389 TGTTGGGACA
Statistics
Matches: 305, Mismatches: 63, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
65 5 0.02
66 64 0.21
67 226 0.74
68 10 0.03
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (65 bp):
GGTATAATGTGTAAGACCATAGCTCACTATGAAACATAGAGAGTCCACCAGGACATTAAACATGT
Found at i:4685200 original size:134 final size:133
Alignment explanation
Indices: 4684941--4685387 Score: 486
Period size: 134 Copynumber: 3.4 Consensus size: 133
4684931 GGCTATAATG
** * * *
4684941 GGGTATAACATGTAAGACCATAGCTCAACTATGACAACATAGAGAGTCCACCATGACATTAAACA
1 GGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGTTCACCAAGACATTGAACA
* * * * ** *
4685006 TGTGGTATTATGTGTAAGACCATAGCTC-ATCTATGGAAAGATATAGAGTTTGCCAAGACATTAA
66 TGTGGTATAATGTGTAAGACCATAGCTCGA-CTATGGTAACATAAAGAG-TCCCCAGGACATTAA
4685070 ACATA
129 ACATA
* * * * * *
4685075 GTGTATAATGTGTAAAACCATAGCTCGACTATGGCAACATAGACAGTTCACCAGGACATTGAACA
1 GGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGTTCACCAAGACATTGAACA
* * * *
4685140 TGGGGTATAATGTGTAAGACCATAGGTCGACTATGGTAACATAAAAAGTCCACCAGGACATGAAA
66 TGTGGTATAATGTGTAAGACCATAGCTCGACTATGGTAACATAAAGAGTCC-CCAGGACATTAAA
4685205 CATA
130 CATA
** * * * *
4685209 GGGTATAATGTGTAAGACCATAATTC-GCTATGACAACATAAAGAGTTCACCAATATATTGAACA
1 GGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGTTCACCAAGACATTGAACA
* * * * * * *
4685273 TATGGTATATTGTGTAAGACCATAGCTTGACTATTGTTACATAGAGAGTTCCCTAGGACATTAAA
66 TGTGGTATAATGTGTAAGACCATAGCTCGACTATGGTAACATAAAGAG-TCCCCAGGACATTAAA
*
4685338 CATG
130 CATA
* * *
4685342 GGGTATGATGTGTAAGACCACAGCT-AACTATGACAACATATAGAGT
1 GGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGT
4685388 CTGTTGGGAC
Statistics
Matches: 259, Mismatches: 50, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
133 124 0.48
134 134 0.52
135 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (133 bp):
GGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGTTCACCAAGACATTGAACA
TGTGGTATAATGTGTAAGACCATAGCTCGACTATGGTAACATAAAGAGTCCCCAGGACATTAAAC
ATA
Found at i:4685355 original size:200 final size:201
Alignment explanation
Indices: 4684938--4685381 Score: 531
Period size: 200 Copynumber: 2.2 Consensus size: 201
4684928 ATGGGCTATA
** * * * *
4684938 ATGGGGTATAACATGTAAGACCATAGCTCAACTATGACAACATAGAGAGTCCACCATGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAAAAAGTCCACCAGGACATGAA
* * * * * **
4685003 ACATGTGGTATTATGTGTAAGACCATAGCTCATCTATGGAAAGATATAGAGTTTGCCAAGACATT
66 ACATGTGGTATAATGTGTAAGACCATAACTCAGCTATGGAAACATAAAGAGTTCACCAAGACATT
4685068 AAACATAGTGTATAATGTGTAAAACCATAGCTCGACTATGGCAACATAGACAGTTCACCAGGACA
131 AAACATAGTGTATAATGTGTAAAACCATAGCTCGACTATGGCAACATAGACAGTTCACCAGGACA
*
4685133 TTGAAC
196 TTAAAC
* * **
4685139 ATGGGGTATAATGTGTAAGACCATAGGTCGACTATGGTAACATAAAAAGTCCACCAGGACATGAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAAAAAGTCCACCAGGACATGAA
* * *
4685204 ACATAG-GGTATAATGTGTAAGACCATAATTC-GCTAT-GACAACATAAAGAGTTCACCAATATA
66 ACAT-GTGGTATAATGTGTAAGACCATAACTCAGCTATGGA-AACATAAAGAGTTCACCAAGACA
* * * * * ** *
4685266 TTGAACATA-TGGTATATTGTGTAAGACCATAGCTTGACTATTGTTACATAGAGAGTTC-CCTAG
129 TTAAACATAGT-GTATAATGTGTAAAACCATAGCTCGACTATGGCAACATAGACAGTTCACC-AG
4685329 GACATTAAAC
192 GACATTAAAC
* *
4685339 ATGGGGTATGATGTGTAAGACCACAGCT-AACTATGACAACATA
1 ATGGGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATA
4685382 TAGAGTCTGT
Statistics
Matches: 204, Mismatches: 35, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
199 17 0.08
200 105 0.51
201 81 0.40
202 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (201 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAAAAAGTCCACCAGGACATGAA
ACATGTGGTATAATGTGTAAGACCATAACTCAGCTATGGAAACATAAAGAGTTCACCAAGACATT
AAACATAGTGTATAATGTGTAAAACCATAGCTCGACTATGGCAACATAGACAGTTCACCAGGACA
TTAAAC
Found at i:4686781 original size:344 final size:344
Alignment explanation
Indices: 4686148--4686824 Score: 1124
Period size: 343 Copynumber: 2.0 Consensus size: 344
4686138 TAAAAGCAAT
* *
4686148 GGGTGAAATACAAGGCAGTAACCCAAACAAAATTTCAAATTGAGTGTAGGGTAGAAGTAGAAAAG
1 GGGTGAAATACAAGGCAGTAACCCAAAAAAAAATTCAAATTGAGTGTAGGGTAGAAGTAGAAAAG
* *
4686213 ATGAAATAGAGTAAGTCTGCCATGGTGGCGTGGGTTTTTATTAGTGGCCTAAGTGTGGAATGCTA
66 ATGAAATAGAGTAAGTCTGCCAAGGTGGCGTGGGTTTTTATTAGTGGCCTAAGGGTGGAATGCTA
* *
4686278 GTAAATATGCCTGAACTATTTTGAGATATAAGGATCAACTAAAGGGTACCATGTAATGGGAGTTT
131 GTAAATATGCCAGAACTATTTTGAGATACAAGGATCAACTAAAGGGTACCATGTAATGGGAGTTT
* *
4686343 TATTAAGGATAGAGCATACAATCAGACTTACAATCAAGGATGATGATGTGGCCAACAACTCACCA
196 TATTAAGGATAGAACATACAATCAGACTTACAACCAAGGATGATGATGTGGCCAACAACTCACCA
*
4686408 GGTTTCAAATTATAGGTCTATAAGTCGGGATAAAGGTAAAGGGTTGTTCATAACCAGAAATGTGT
261 AGTTTCAAATTATAGGTCTATAAGTCGGGATAAAGGTAAAGGGTTGTTCATAACCAGAAATGTGT
4686473 GGAAAAGGTATCAAAAATA
326 GGAAAAGGTATCAAAAATA
* *
4686492 GGGTGAAATACAAGGGAGTAACCCAAAAAAAAATTCAAATTGAGTGTAGGGTGGAAGTAGAAAAG
1 GGGTGAAATACAAGGCAGTAACCCAAAAAAAAATTCAAATTGAGTGTAGGGTAGAAGTAGAAAAG
4686557 ATGAAATAGAGTAAGTCTGCCAAGGTGGCGTGGG-TTTTATTAGTGGCCTAAGGGTGGAATG-TC
66 ATGAAATAGAGTAAGTCTGCCAAGGTGGCGTGGGTTTTTATTAGTGGCCTAAGGGTGGAATGCT-
* *
4686620 AGTAAATATGCCAGAACTATTTTGAGATACGAGGATCATCTAAAGGGTACCATGTAATGGGAGTT
130 AGTAAATATGCCAGAACTATTTTGAGATACAAGGATCAACTAAAGGGTACCATGTAATGGGAGTT
* * *
4686685 TTATTAAGGATGGAACGTACAATCAGATTTACAACCAAGGATGATGATGTGGCCAACAACTCACC
195 TTATTAAGGATAGAACATACAATCAGACTTACAACCAAGGATGATGATGTGGCCAACAACTCACC
* * * ** *
4686750 AAGTTTCAAAGTTATAGGTCTATGAGTCGGGATAAAGGTAAATGGTTGTTCATGACTGGAGATGT
260 AAGTTTCAAA-TTATAGGTCTATAAGTCGGGATAAAGGTAAAGGGTTGTTCATAACCAGAAATGT
4686815 GTGGAAAAGG
324 GTGGAAAAGG
4686825 GAAAGAAAGA
Statistics
Matches: 309, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
342 1 0.00
343 156 0.50
344 152 0.49
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.26
Consensus pattern (344 bp):
GGGTGAAATACAAGGCAGTAACCCAAAAAAAAATTCAAATTGAGTGTAGGGTAGAAGTAGAAAAG
ATGAAATAGAGTAAGTCTGCCAAGGTGGCGTGGGTTTTTATTAGTGGCCTAAGGGTGGAATGCTA
GTAAATATGCCAGAACTATTTTGAGATACAAGGATCAACTAAAGGGTACCATGTAATGGGAGTTT
TATTAAGGATAGAACATACAATCAGACTTACAACCAAGGATGATGATGTGGCCAACAACTCACCA
AGTTTCAAATTATAGGTCTATAAGTCGGGATAAAGGTAAAGGGTTGTTCATAACCAGAAATGTGT
GGAAAAGGTATCAAAAATA
Found at i:4706600 original size:67 final size:67
Alignment explanation
Indices: 4706469--4706840 Score: 237
Period size: 67 Copynumber: 5.6 Consensus size: 67
4706459 ATGGGCTGTA
* * * *
4706469 ATGGGGTATACTGTGTAAGACCATAGCTCGACTATGACAACATAGAAAGTCCACCATGAAATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGACAACAAAGAAAGTACACCATAAAATTAA
4706534 AC
66 AC
* * **
4706536 ATGGGGTATAATGTAG-AAGACCATAGCTCGACTATGATAATAAAGAGAA-TATGCC-TAAACAT
1 ATGGGGTATAATGT-GTAAGACCATAGCTCGACTATGACAACAAAGA-AAGTACACCATAAA-AT
4706598 TAAAC
63 TAAAC
* * * * * * * * *
4706603 ATTGGATATGATGTGTAAGACCATAGCTCAACTACGGA-AACATATAG-AA-TCCACTAGAACAT
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTA-TGACAACA-A-AGAAAGTACACCATAAAAT
4706665 TAAAC
63 TAAAC
* * * * * * ** *
4706670 ATGGGATATAATCTGTAAGACCATAGCT-TAGTTATGGCAAC-ATGAAATGT-CTGC-TAGGACA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGA-CTATGACAACAAAGAAA-GTACACCATA--AAA
4706731 TTAAAC
62 TTAAAC
* * * * * *
4706737 ATGGGGTATAATGTGTAAGACCATATCTCGACTATGGCAACATAGAGAGTTCACCA-AGATATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGACAACAAAGAAAGTACACCATA-AAATTA
4706801 AAC
65 AAC
* * *
4706804 ATGAGGTATGATGTATGAA-ACCATAGCTCGACTATGA
1 ATGGGGTATAATGTGT-AAGACCATAGCTCGACTATGA
4706841 TAGCATATGA
Statistics
Matches: 237, Mismatches: 48, Indels: 40
0.73 0.15 0.12
Matches are distributed among these distances:
64 1 0.00
65 4 0.02
66 7 0.03
67 206 0.87
68 17 0.07
69 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (67 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGACAACAAAGAAAGTACACCATAAAATTAA
AC
Found at i:4706856 original size:134 final size:134
Alignment explanation
Indices: 4706469--4706856 Score: 373
Period size: 134 Copynumber: 2.9 Consensus size: 134
4706459 ATGGGCTGTA
* * * *
4706469 ATGGGGTATACTGTGTAAGACCATAGCTCGACTATGACAACATAGAAAGTCCACCATGAAATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCCACCAAGAAATTAA
* * *
4706534 ACATGGGGTATAATGTA-GAAGACCATAGCTCGACTATGATA--ATAAAGAGAATATGCCTAAAC
66 ACAT-GGGTATAATGTATGAAGACCATAGCTCGACTATGATAGCAT-ATGA-AGTCTGCCTAAAC
4706596 ATTAAAC
128 ATTAAAC
* * * * * * * * *
4706603 ATTGGATATGATGTGTAAGACCATAGCTCAACTACGGAAACATATAGAATCCA-CTAGAACATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCCACCAAGAA-ATTA
* * * * * *
4706667 AACATGGGATATAATCTGT-AAGACCATAGCT-TAGT-T-ATGGCAACATGAAATGTCTG-CTAG
65 AACATGGG-TATAATGTATGAAGACCATAGCTCGACTATGATAGC-ATATG-AA-GTCTGCCTA-
*
4706727 GACATTAAAC
125 AACATTAAAC
* * *
4706737 ATGGGGTATAATGTGTAAGACCATATCTCGACTATGGCAACATAGAGAGTTCACCAAGATATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCCACCAAGAAATTAA
*
4706802 ACATGAGGTATGATGTATGAA-ACCATAGCTCGACTATGATAGCATATGAAGTCTG
66 ACATG-GGTATAATGTATGAAGACCATAGCTCGACTATGATAGCATATGAAGTCTG
4706857 TCGAGAAACT
Statistics
Matches: 197, Mismatches: 42, Indels: 30
0.73 0.16 0.11
Matches are distributed among these distances:
131 2 0.01
132 1 0.01
133 15 0.08
134 158 0.80
135 12 0.06
136 5 0.03
137 4 0.02
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (134 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTCCACCAAGAAATTAA
ACATGGGTATAATGTATGAAGACCATAGCTCGACTATGATAGCATATGAAGTCTGCCTAAACATT
AAAC
Found at i:4710396 original size:43 final size:43
Alignment explanation
Indices: 4710333--4710536 Score: 216
Period size: 43 Copynumber: 4.8 Consensus size: 43
4710323 AATTTTTTTA
* * * *
4710333 ATAAAAATGCCCCTATAGAACATGACCTTTAGTGGCGCTTCTC
1 ATAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTC
* * * * *
4710376 ATAAAAACGTCGCTAAAGAACATGACTTTTTGCGACGCTTCTA
1 ATAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTC
*** *
4710419 ATAAAAACGCTATTAAAGAACATGACCTTTAGCGGCGCTTTTC
1 ATAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTC
* * *
4710462 -CAGAAACGCCGCTAAAGAACATGACCTTTAACGGCGCTTTCTC
1 ATAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGC-TTCTC
* *
4710505 CT-CAAACGCCGCTAAAG-ACATGACCTTTAGCG
1 ATAAAAACGCCGCTAAAGAACATGACCTTTAGCG
4710537 ACATTTTCCC
Statistics
Matches: 131, Mismatches: 28, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
42 45 0.34
43 86 0.66
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
ATAAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTC
Found at i:4710482 original size:42 final size:42
Alignment explanation
Indices: 4710335--4710564 Score: 194
Period size: 43 Copynumber: 5.4 Consensus size: 42
4710325 TTTTTTTAAT
* * * * * *
4710335 AAAAATGCCCCTATAGAACATGACCTTTAGTGGCGCTTCTCAT
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTC-C
* * * * ***
4710378 AAAAACGTCGCTAAAGAACATGACTTTTTGCGACGCTTCTAAT
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTT-TTCC
***
4710421 AAAAACGCTATTAAAGAACATGACCTTTAGCGGCGCTTTTCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCC
* *
4710463 AGAAACGCCGCTAAAGAACATGACCTTTAACGGCGCTTTCTCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTT-TCC
** * *
4710506 TCAAACGCCGCTAAAG-ACATGACCTTTAGCGAC-ATTTTCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTT-CC
*
4710547 AAAAAACGCCACTAAAGA
1 -AAAAACGCCGCTAAAGA
4710565 CCATATCAAA
Statistics
Matches: 148, Mismatches: 34, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
40 1 0.01
41 5 0.03
42 63 0.43
43 79 0.53
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCC
Found at i:4710565 original size:42 final size:42
Alignment explanation
Indices: 4710421--4710564 Score: 139
Period size: 42 Copynumber: 3.4 Consensus size: 42
4710411 CGCTTCTAAT
* * *
4710421 AAAAACGCTATTAAAGAACATGACCTTTAGCGGCGCTTTT-CC
1 AAAAACGCCACTAAAGAACATGACCTTTAGCGGC-ATTTTCCC
* * * **
4710463 AGAAACGCCGCTAAAGAACATGACCTTTAACGGCGCTTTCTCC
1 AAAAACGCCACTAAAGAACATGACCTTTAGCGGCATTTTC-CC
** * *
4710506 TCAAACGCCGCTAAAG-ACATGACCTTTAGCGACATTTTCCC
1 AAAAACGCCACTAAAGAACATGACCTTTAGCGGCATTTTCCC
4710547 AAAAAACGCCACTAAAGA
1 -AAAAACGCCACTAAAGA
4710565 CCATATCAAA
Statistics
Matches: 82, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
41 5 0.06
42 61 0.74
43 16 0.20
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.22
Consensus pattern (42 bp):
AAAAACGCCACTAAAGAACATGACCTTTAGCGGCATTTTCCC
Found at i:4713312 original size:48 final size:48
Alignment explanation
Indices: 4713238--4713473 Score: 391
Period size: 48 Copynumber: 4.9 Consensus size: 48
4713228 CAAGATAAAT
* * *
4713238 ATATATATGTGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
4713286 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* **
4713334 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
4713382 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
4713430 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
4713474 GGAAATGTGT
Statistics
Matches: 175, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 175 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.32
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:4713670 original size:37 final size:37
Alignment explanation
Indices: 4713620--4713729 Score: 184
Period size: 37 Copynumber: 3.0 Consensus size: 37
4713610 GGAAATATAT
4713620 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
4713657 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
4713694 TCCGGGTAAGACCCGATAACTATGTGTGGGGATTAT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
4713730 TCGAGCTAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:4715028 original size:23 final size:23
Alignment explanation
Indices: 4715002--4715080 Score: 131
Period size: 23 Copynumber: 3.4 Consensus size: 23
4714992 ACATAAAGAA
4715002 CATTTAAACACTTCAATTTACAG
1 CATTTAAACACTTCAATTTACAG
** *
4715025 CATTTAAGTACTTCAATTTACAA
1 CATTTAAACACTTCAATTTACAG
4715048 CATTTAAACACTTCAATTTACAG
1 CATTTAAACACTTCAATTTACAG
4715071 CATTTAAACA
1 CATTTAAACA
4715081 GCAGTAACCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.41, C:0.20, G:0.04, T:0.35
Consensus pattern (23 bp):
CATTTAAACACTTCAATTTACAG
Found at i:4717721 original size:95 final size:95
Alignment explanation
Indices: 4717581--4717791 Score: 334
Period size: 95 Copynumber: 2.2 Consensus size: 95
4717571 AACGTCGTAG
* * *
4717581 ACAGGACGGCTAAAGGCCGTAAATATCGCAGCAACGCTGCCAGTTAACAGAACGGCTATAAGCCA
1 ACAGGACGGCTACAGGCCGTAAATATCGCAACAACGCTGCCAGTTAAAAGAACGGCTATAAGCCA
4717646 TAAGTAT-GACAGAAAGGATGAAAGCCTTAT
66 TAAGTATCG-CAGAAAGGATGAAAGCCTTAT
*
4717676 ACAGGACGGCTACAGGCCGTAAATATCGCAACAACGCTGCCAGTTAAAAGAACTGCTATAAGCCA
1 ACAGGACGGCTACAGGCCGTAAATATCGCAACAACGCTGCCAGTTAAAAGAACGGCTATAAGCCA
* *
4717741 TAAGTATCGCAGAAAGGCTGAAAGTCTTAT
66 TAAGTATCGCAGAAAGGATGAAAGCCTTAT
* *
4717771 ACAGGACGACTACAAGCCGTA
1 ACAGGACGGCTACAGGCCGTA
4717792 CACTTCCTCC
Statistics
Matches: 107, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 106 0.99
96 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.17
Consensus pattern (95 bp):
ACAGGACGGCTACAGGCCGTAAATATCGCAACAACGCTGCCAGTTAAAAGAACGGCTATAAGCCA
TAAGTATCGCAGAAAGGATGAAAGCCTTAT
Found at i:4719673 original size:18 final size:19
Alignment explanation
Indices: 4719637--4719675 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
4719627 TGATGTGTAG
4719637 ATAGTATTTTCTTTCAAAA
1 ATAGTATTTTCTTTCAAAA
4719656 ATAG-ATTTT-TTTCTAAAA
1 ATAGTATTTTCTTTC-AAAA
4719674 AT
1 AT
4719676 CTCACTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 11 0.58
19 4 0.21
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (19 bp):
ATAGTATTTTCTTTCAAAA
Found at i:4732362 original size:21 final size:21
Alignment explanation
Indices: 4732338--4732385 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
4732328 TGGTCAATAT
4732338 ATATGACAATCTATTGGAAGA
1 ATATGACAATCTATTGGAAGA
*
4732359 ATATGACAATCTGTTGGAAGA
1 ATATGACAATCTATTGGAAGA
*
4732380 AGATGA
1 ATATGA
4732386 AAGCATCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (21 bp):
ATATGACAATCTATTGGAAGA
Found at i:4732567 original size:37 final size:37
Alignment explanation
Indices: 4732526--4732600 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
4732516 AATGAACTAG
* *
4732526 GGAAATAATTTTTTTGTTGTTGTTTTTTTTAAACCTA
1 GGAAAGAATTTTGTTGTTGTTGTTTTTTTTAAACCTA
4732563 GGAAAGAATTTTGTTGTTGTTGTTTTTTTTAAACCTA
1 GGAAAGAATTTTGTTGTTGTTGTTTTTTTTAAACCTA
4732600 G
1 G
4732601 AGATTCAGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.24, C:0.05, G:0.17, T:0.53
Consensus pattern (37 bp):
GGAAAGAATTTTGTTGTTGTTGTTTTTTTTAAACCTA
Found at i:4733622 original size:43 final size:43
Alignment explanation
Indices: 4733575--4733659 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
4733565 AACCACTATC
* * * *
4733575 CCCTAAACCCTAAATCATAAAACATAAATCTTAAACCCTAAAG
1 CCCTAAACCCTAAACCATAAAACACAAACCTTAAACCATAAAG
* * *
4733618 CCCTAACCCCTAAACCTTAAAACACAACCCTTAAACCATAAA
1 CCCTAAACCCTAAACCATAAAACACAAACCTTAAACCATAAA
4733660 TCATAATCCC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.47, C:0.33, G:0.01, T:0.19
Consensus pattern (43 bp):
CCCTAAACCCTAAACCATAAAACACAAACCTTAAACCATAAAG
Found at i:4733654 original size:8 final size:7
Alignment explanation
Indices: 4733549--4733638 Score: 54
Period size: 7 Copynumber: 12.6 Consensus size: 7
4733539 AAAATTAATA
4733549 TAAACCC
1 TAAACCC
*
4733556 TAAATCC
1 TAAACCC
*
4733563 TTAACCAC
1 TAAACC-C
**
4733571 TATCCCC
1 TAAACCC
4733578 TAAACCC
1 TAAACCC
* *
4733585 TAAATCA
1 TAAACCC
* *
4733592 TAAAACA
1 TAAACCC
* *
4733599 TAAATCT
1 TAAACCC
4733606 TAAACCC
1 TAAACCC
4733613 TAAAGCCC
1 TAAA-CCC
*
4733621 TAACCCC
1 TAAACCC
*
4733628 TAAACCT
1 TAAACCC
4733635 TAAA
1 TAAA
4733639 ACACAACCCT
Statistics
Matches: 63, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
7 53 0.84
8 10 0.16
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:4733664 original size:7 final size:7
Alignment explanation
Indices: 4733578--4733755 Score: 51
Period size: 7 Copynumber: 25.4 Consensus size: 7
4733568 CACTATCCCC
*
4733578 TAAACCC
1 TAAACCA
*
4733585 TAAATCA
1 TAAACCA
*
4733592 TAAAACA
1 TAAACCA
* *
4733599 TAAATCT
1 TAAACCA
*
4733606 TAAACCC
1 TAAACCA
*
4733613 TAAAGCCC
1 TAAA-CCA
* *
4733621 TAACCCC
1 TAAACCA
*
4733628 TAAACCT
1 TAAACCA
*
4733635 TAAAACA
1 TAAACCA
* * *
4733642 CAACCCT
1 TAAACCA
4733649 TAAACCA
1 TAAACCA
*
4733656 TAAATCA
1 TAAACCA
* *
4733663 TAATCCC
1 TAAACCA
*
4733670 TAACCCCA
1 TAA-ACCA
*
4733678 TAATCCA
1 TAAACCA
*
4733685 T-AACCT
1 TAAACCA
4733691 TAAA--A
1 TAAACCA
4733696 TAGTAACTCA
1 TA--AAC-CA
*
4733706 TAAAGCA
1 TAAACCA
4733713 --AACCA
1 TAAACCA
4733718 TAAACCA
1 TAAACCA
* *
4733725 TATACCC
1 TAAACCA
4733732 TAAACCA
1 TAAACCA
*
4733739 TAAACCC
1 TAAACCA
*
4733746 TAAACTA
1 TAAACCA
4733753 TAA
1 TAA
4733756 TGATAATTAA
Statistics
Matches: 123, Mismatches: 38, Indels: 20
0.68 0.21 0.11
Matches are distributed among these distances:
5 6 0.05
6 4 0.03
7 97 0.79
8 13 0.11
10 3 0.02
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:4733737 original size:14 final size:14
Alignment explanation
Indices: 4733712--4733755 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
4733702 CTCATAAAGC
*
4733712 AAACCATAAACCAT
1 AAACCCTAAACCAT
*
4733726 ATACCCTAAACCAT
1 AAACCCTAAACCAT
*
4733740 AAACCCTAAACTAT
1 AAACCCTAAACCAT
4733754 AA
1 AA
4733756 TGATAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.18
Consensus pattern (14 bp):
AAACCCTAAACCAT
Found at i:4734219 original size:40 final size:39
Alignment explanation
Indices: 4734175--4734320 Score: 148
Period size: 40 Copynumber: 3.7 Consensus size: 39
4734165 ATTTTTTTGC
**
4734175 GGCGTTTTTCAAAACCCGCCACTAATGGTCGACCTATAGT
1 GGCGTTTTTCAAAAAGCGCCACTAATGGTCGA-CTATAGT
**
4734215 GGCGTTTTAGAAAAAGCGCCACTAATGGTCGACTATAGT
1 GGCGTTTTTCAAAAAGCGCCACTAATGGTCGACTATAGT
* * * ** * *
4734254 GGTGTTTTTTAAAAAACGCTGCTAATGCTCTATCTATAGT
1 GGCGTTTTTCAAAAAGCGCCACTAATGGTCGA-CTATAGT
* * *
4734294 AGCATTTTTCTAAAAGCGCCACTAATG
1 GGCGTTTTTCAAAAAGCGCCACTAATG
4734321 CTACTAAAGC
Statistics
Matches: 85, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 31 0.36
40 54 0.64
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (39 bp):
GGCGTTTTTCAAAAAGCGCCACTAATGGTCGACTATAGT
Found at i:4734415 original size:40 final size:40
Alignment explanation
Indices: 4734370--4734498 Score: 114
Period size: 40 Copynumber: 3.2 Consensus size: 40
4734360 TTTTTTGCGG
*
4734370 CGTTTTTTAAAAAAAGCCGCTAATTCTCGATCTATAGCGA
1 CGTTTTTTAAAAAAAGCCGCTAATGCTCGATCTATAGCGA
* * ** * * * * *
4734410 TGTTTTTCAAAAAGTGTCGTTAATGCTCGACCTATAGTGG
1 CGTTTTTTAAAAAAAGCCGCTAATGCTCGATCTATAGCGA
* * * * *
4734450 CGCTTTTTGAAAAACGCCGCTAATGCTCGATCTGTAGCGG
1 CGTTTTTTAAAAAAAGCCGCTAATGCTCGATCTATAGCGA
*
4734490 CATTTTTTA
1 CGTTTTTTA
4734499 TCCAAACGCC
Statistics
Matches: 65, Mismatches: 24, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (40 bp):
CGTTTTTTAAAAAAAGCCGCTAATGCTCGATCTATAGCGA
Found at i:4734447 original size:194 final size:195
Alignment explanation
Indices: 4734077--4734496 Score: 475
Period size: 194 Copynumber: 2.2 Consensus size: 195
4734067 TGATAAAGCA
* * * * ** *
4734077 CCGCTAAAGCTCGATCTACAACGGCATTTTTCAAAAAACGCTGCTAATTGCCACTAAAGCTTAAC
1 CCGCTAATGCTCGATCTATAGCAGCATTTTTCAAAAAACGCCACTAATTGCCACTAAAGCTCAAC
*** *
4734142 ATAAAACGACAGCGTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAAACCCGCCACTAATGGTCGA
66 ATAAAACGACAGCGTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAAAAAAGCCACTAATGCTCGA
* * * * * *
4734207 CCTATAGTGGCGTTTTAGAAAAAGCGCCACTAATGGTCGACTATAGTGGTGTTTTTTAAAAAACG
131 CCTATAGCGACGTTTTACAAAAAGCGCCACTAATGCTCGACTATAGTGGCGCTTTTTAAAAAACG
* * * * * *
4734272 CTGCTAATGCTCTATCTATAGTAGCATTTTTCTAAAAGCGCCACTAA-TGCTACTAAAGCTCAAC
1 CCGCTAATGCTCGATCTATAGCAGCATTTTTCAAAAAACGCCACTAATTGCCACTAAAGCTCAAC
** * * *
4734336 ATAAAACGAGGGC-TTGTGCTTAATTTTTTTGCGGCGTTTTTTAAAAAAAGCCGCTAATTCTCGA
66 ATAAAACGACAGCGTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAAAAAAGCCACTAATGCTCGA
* * * * * ** *
4734400 TCTATAGCGATGTTTTTCAAAAAGTGTCGTTAATGCTCGACCTATAGTGGCGCTTTTTGAAAAAC
131 CCTATAGCGACGTTTTACAAAAAGCGCCACTAATGCTCGA-CTATAGTGGCGCTTTTTAAAAAAC
4734465 G
195 G
* *
4734466 CCGCTAATGCTCGATCTGTAGCGGCATTTTT
1 CCGCTAATGCTCGATCTATAGCAGCATTTTT
4734497 TATCCAAACG
Statistics
Matches: 183, Mismatches: 41, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
193 73 0.40
194 74 0.40
195 36 0.20
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (195 bp):
CCGCTAATGCTCGATCTATAGCAGCATTTTTCAAAAAACGCCACTAATTGCCACTAAAGCTCAAC
ATAAAACGACAGCGTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAAAAAAGCCACTAATGCTCGA
CCTATAGCGACGTTTTACAAAAAGCGCCACTAATGCTCGACTATAGTGGCGCTTTTTAAAAAACG
Found at i:4738715 original size:283 final size:283
Alignment explanation
Indices: 4738211--4739339 Score: 2120
Period size: 283 Copynumber: 4.0 Consensus size: 283
4738201 TGTTTTATGC
*
4738211 GTGTAAAGTGATAGAGTATAATGGAAGTTGACATCAAATAAGGCATATGTATTTTTGCATGTTAT
1 GTGTAAAGCGATAGAGTATAATGGAAGTTGACATCAAATAAGGCATATGTATTTTTGCATGTTAT
* * *
4738276 ATATAT-TT-GGCTAAAGTTTTAGTATATGACCATATGAATAGTAACTTAGG-TTTTTAATGAGT
66 ATATATATTCGGCTAAAGTTTTATTAAATGACCATATGTATAGTAACTTAGGTTTTTTAATGAGT
* * *
4738338 AAGTTGGTTAAGATAAAACTTATAATAAGGTTGCATGTATGAATGGTCTTAAATAATGTGTAATG
131 AGGTTGGTTAAGATAAAACATATAATAAGGTTGCATGTATGTATGGTCTTAAATAATGTGTAATG
4738403 AGATATTTTAATCCATATGCTTATATTCGGCCTTTTAATAATGATTATGGTGGAATGTTATTTAA
196 AGATATTTTAATCCATATGCTTATATTCGGCCTTTTAATAATGATTATGGTGGAATGTTATTTAA
4738468 CTTATGTGTAACCTGTAAAATTT
261 CTTATGTGTAACCTGTAAAATTT
4738491 GTGTAAAGCGATAGAGTATAATGGAAGTTGACATCAAATAAGGCATATGTATTTTTGCATGTTAT
1 GTGTAAAGCGATAGAGTATAATGGAAGTTGACATCAAATAAGGCATATGTATTTTTGCATGTTAT
4738556 ATATATATTCGGCTAAAGTTTTATTAAATGACCATATGTATAGTAACTTAGGTTTTTTAATGAGT
66 ATATATATTCGGCTAAAGTTTTATTAAATGACCATATGTATAGTAACTTAGGTTTTTTAATGAGT
4738621 AGGTTGGTTAAGATAAAACATATAATAAGGTTGCATGTATGTATGGTCTTAAATAATGTGTAATG
131 AGGTTGGTTAAGATAAAACATATAATAAGGTTGCATGTATGTATGGTCTTAAATAATGTGTAATG
4738686 AGATATTTTAATCCATATGCTTATATTCGGCCTTTTAATAATGATTATGGTGGAATGTTATTTAA
196 AGATATTTTAATCCATATGCTTATATTCGGCCTTTTAATAATGATTATGGTGGAATGTTATTTAA
4738751 CTTATGTGTAACCTGTAAAATTT
261 CTTATGTGTAACCTGTAAAATTT
4738774 GTGTAAAGCGATAGAGTATAATGGAAGTTGACATCAAATAAGGCATATGTATTTTTGCATGTTAT
1 GTGTAAAGCGATAGAGTATAATGGAAGTTGACATCAAATAAGGCATATGTATTTTTGCATGTTAT
4738839 ATATATATTCGGCTAAAGTTTTATTAAATGACCATATGTATAGTAACTTAGGTTTTTTAATGAGT
66 ATATATATTCGGCTAAAGTTTTATTAAATGACCATATGTATAGTAACTTAGGTTTTTTAATGAGT
4738904 AGGTTGGTTAAGATAAAACATATAATAAGGTTGCATGTATGTATGGTCTTAAATAATGTGTAATG
131 AGGTTGGTTAAGATAAAACATATAATAAGGTTGCATGTATGTATGGTCTTAAATAATGTGTAATG
4738969 AGATATTTTAATCCATATGCTTATATTCGGCCTTTTAATAATGATTATGGTGGAATGTTATTTAA
196 AGATATTTTAATCCATATGCTTATATTCGGCCTTTTAATAATGATTATGGTGGAATGTTATTTAA
4739034 CTTATGTGTAACCTGTAAAATTT
261 CTTATGTGTAACCTGTAAAATTT
4739057 GTGTAAAGCGATAGAGTATAATGGAAGTTGACATCAAATAAGGCATATGTATTTTTGCATGTTAT
1 GTGTAAAGCGATAGAGTATAATGGAAGTTGACATCAAATAAGGCATATGTATTTTTGCATGTTAT
4739122 ATATATATTCGGCTAAAGTTTTATTAAATGACCATATGTATAGTAACTTAGGTTTTTTAATGAGT
66 ATATATATTCGGCTAAAGTTTTATTAAATGACCATATGTATAGTAACTTAGGTTTTTTAATGAGT
4739187 AGGTTGGTTAAGATAAAACATATAATAAGGTTGCATGTATGTATGGTCTTAAATAATGTGTAATG
131 AGGTTGGTTAAGATAAAACATATAATAAGGTTGCATGTATGTATGGTCTTAAATAATGTGTAATG
* ** *
4739252 AGATATTTTAGTCCATATGCTTATATTCGGGATTTTAATAACGATTATGGTGGAATGTTATTTAA
196 AGATATTTTAATCCATATGCTTATATTCGGCCTTTTAATAATGATTATGGTGGAATGTTATTTAA
* *
4739317 TTTATGTGTAACTTGTAAAATTT
261 CTTATGTGTAACCTGTAAAATTT
4739340 AGTTTGATTT
Statistics
Matches: 833, Mismatches: 13, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
280 70 0.08
281 2 0.00
282 39 0.05
283 722 0.87
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (283 bp):
GTGTAAAGCGATAGAGTATAATGGAAGTTGACATCAAATAAGGCATATGTATTTTTGCATGTTAT
ATATATATTCGGCTAAAGTTTTATTAAATGACCATATGTATAGTAACTTAGGTTTTTTAATGAGT
AGGTTGGTTAAGATAAAACATATAATAAGGTTGCATGTATGTATGGTCTTAAATAATGTGTAATG
AGATATTTTAATCCATATGCTTATATTCGGCCTTTTAATAATGATTATGGTGGAATGTTATTTAA
CTTATGTGTAACCTGTAAAATTT
Found at i:4750592 original size:43 final size:43
Alignment explanation
Indices: 4750539--4750643 Score: 165
Period size: 43 Copynumber: 2.4 Consensus size: 43
4750529 CTGACATTTC
*
4750539 GCCTGCTAGGCTCGAAGCCCGATATTATTTCACCGGCATTATA
1 GCCTGCTAGGCTCGAAGCCCAATATTATTTCACCGGCATTATA
* * *
4750582 GCCTACTAGGCTCGAGGCCCAATATTATTTCACTGGCATTATA
1 GCCTGCTAGGCTCGAAGCCCAATATTATTTCACCGGCATTATA
*
4750625 GCTTGCTAGGCTCGAAGCC
1 GCCTGCTAGGCTCGAAGCC
4750644 TGAATTCATC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (43 bp):
GCCTGCTAGGCTCGAAGCCCAATATTATTTCACCGGCATTATA
Found at i:4751677 original size:9 final size:9
Alignment explanation
Indices: 4751641--4751679 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
4751631 CTCAAACTTA
*
4751641 ATTTATAAC
1 ATTTAAAAC
*
4751650 TATTTAAAAT
1 -ATTTAAAAC
4751660 ATTTAAAAC
1 ATTTAAAAC
4751669 ATTTAAAAC
1 ATTTAAAAC
4751678 AT
1 AT
4751680 CCAACACCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 19 0.73
10 7 0.27
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (9 bp):
ATTTAAAAC
Found at i:4752479 original size:38 final size:38
Alignment explanation
Indices: 4752428--4752504 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
4752418 AGGCTATTTT
*
4752428 CCAAGCTTTGGTCAACCTTGATCTCTTACACACTTATA
1 CCAAGCTTTGGTCAACCTTAATCTCTTACACACTTATA
4752466 CCAAGCTTTGGTCAACCTTAATCTCTTACACACTTATA
1 CCAAGCTTTGGTCAACCTTAATCTCTTACACACTTATA
4752504 C
1 C
4752505 AAAATCAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (38 bp):
CCAAGCTTTGGTCAACCTTAATCTCTTACACACTTATA
Found at i:4756347 original size:37 final size:37
Alignment explanation
Indices: 4756297--4756369 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
4756287 GCTATTTTCC
*
4756297 AAGCTTTGGTCAACCTTGATCTCTTACACACTTATAT
1 AAGCTTTGGTCAACCTTAATCTCTTACACACTTATAT
4756334 AAGCTTTGGTCAACCTTAATCTCTTACACACTTATA
1 AAGCTTTGGTCAACCTTAATCTCTTACACACTTATA
4756370 CAAAATCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.37
Consensus pattern (37 bp):
AAGCTTTGGTCAACCTTAATCTCTTACACACTTATAT
Found at i:4759575 original size:47 final size:47
Alignment explanation
Indices: 4759506--4760335 Score: 1544
Period size: 47 Copynumber: 17.7 Consensus size: 47
4759496 GGATGGTTGA
4759506 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
4759553 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
4759600 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
4759647 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
4759694 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
4759741 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
4759788 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
4759835 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
4759882 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
4759929 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
4759976 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
4760023 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
4760070 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
4760117 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
4760164 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
4760211 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-G
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAG
* *
4760254 CGAATGTCCAAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
1 -GCA--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
4760304 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
4760336 ACTTATCGAT
Statistics
Matches: 764, Mismatches: 10, Indels: 18
0.96 0.01 0.02
Matches are distributed among these distances:
43 1 0.00
44 3 0.00
45 2 0.00
46 31 0.04
47 721 0.94
48 2 0.00
49 3 0.00
50 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:4767963 original size:93 final size:93
Alignment explanation
Indices: 4767804--4768624 Score: 1588
Period size: 93 Copynumber: 8.8 Consensus size: 93
4767794 GATGGTTGAG
*
4767804 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCCGAACTCGTTGAGTT
1 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCCGAACTCGTTGAGTT
4767869 GAGTCCGAGTTCGTGAAATGTAACTAGA
66 GAGTCCGAGTTCGTGAAATGTAACTAGA
4767897 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCCGAACTCGTTGAGTT
1 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCCGAACTCGTTGAGTT
4767962 GAGTCCGAGTTCGTGAAATGTAACTAGA
66 GAGTCCGAGTTCGTGAAATGTAACTAGA
4767990 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCCGAACTCGTTGAGTT
1 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCCGAACTCGTTGAGTT
4768055 GAGTCCGAGTTCGTGAAATGTAACTAGA
66 GAGTCCGAGTTCGTGAAATGTAACTAGA
4768083 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCCGAACTCGTTGAGTT
1 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCCGAACTCGTTGAGTT
4768148 GAGTCCGAGTTCGTGAAATGTAACTAGA
66 GAGTCCGAGTTCGTGAAATGTAACTAGA
4768176 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCCGAACTCGTTGAGTT
1 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCCGAACTCGTTGAGTT
4768241 GAGTCCGAGTTCGTGAAATGTAACTAGA
66 GAGTCCGAGTTCGTGAAATGTAACTAGA
4768269 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCCGAACTCGTTGAGTT
1 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCCGAACTCGTTGAGTT
4768334 GAGTCCGAGTTCGTGAAATGTAACTAGA
66 GAGTCCGAGTTCGTGAAATGTAACTAGA
4768362 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCCGAACTCGTTGAGTT
1 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCCGAACTCGTTGAGTT
4768427 GAGTCCGAGTTCGTGAAATGTAACTAGA
66 GAGTCCGAGTTCGTGAAATGTAACTAGA
*
4768455 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCCGAACTCGTTGAGTT
1 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCCGAACTCGTTGAGTT
4768520 GAGTCCGAGTTCGTGAAATGTAACTAGA
66 GAGTCCGAGTTCGTGAAATGTAACTAGA
* * *
4768548 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAGCTCGTTGAGTT
1 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCCGAACTCGTTGAGTT
*
4768613 GAGTCCAAGTTC
66 GAGTCCGAGTTC
4768625 AATTAGGGTC
Statistics
Matches: 721, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 721 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (93 bp):
CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAAATGTAACTAGA
Found at i:4778274 original size:38 final size:38
Alignment explanation
Indices: 4778232--4778307 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
4778222 TGTGACTAAC
4778232 TCTTTGATTGAGTGCATGTGATAGAGAACCATGTCATA
1 TCTTTGATTGAGTGCATGTGATAGAGAACCATGTCATA
4778270 TCTTTGATTGAGTGCATGTGATAGAGAACCATGTCATA
1 TCTTTGATTGAGTGCATGTGATAGAGAACCATGTCATA
4778308 CTTGTTGGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (38 bp):
TCTTTGATTGAGTGCATGTGATAGAGAACCATGTCATA
Found at i:4779257 original size:18 final size:20
Alignment explanation
Indices: 4779220--4779259 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
4779210 CTAAGGGCAT
4779220 GGGCGTGTCTTAAGCCACAC
1 GGGCGTGTCTTAAGCCACAC
*
4779240 GGGCGTGT-TTGA-CCACAC
1 GGGCGTGTCTTAAGCCACAC
4779258 GG
1 GG
4779260 CCCACCTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 3 0.16
20 8 0.42
ACGTcount: A:0.17, C:0.28, G:0.35, T:0.20
Consensus pattern (20 bp):
GGGCGTGTCTTAAGCCACAC
Found at i:4792779 original size:37 final size:37
Alignment explanation
Indices: 4792729--4792807 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
4792719 TTATTACGAA
* *
4792729 GTCTTACCCGGACATAAT-CTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCT-CACACGAAGTCATCGG
*
4792766 GTCTTACCCGGACAAAATCCTCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCTCACACGAAGTCATCGG
4792803 GTCTT
1 GTCTT
4792808 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCTCACACGAAGTCATCGG
Found at i:4796112 original size:40 final size:40
Alignment explanation
Indices: 4796067--4796382 Score: 325
Period size: 40 Copynumber: 7.9 Consensus size: 40
4796057 CGAATACACG
* * * *
4796067 TCACCAGCATGATTACTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * ** *
4796107 ACACCAGCATGAATGCTCTTTGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
4796147 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
* *
4796187 TCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
* *
4796227 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
*
4796267 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
* * ** * * *
4796307 GTAACTCGCACCAATGC-CATC-GGATCTTAGTCCGGATATGG
1 -TCACTAGCATGAATGCTCTTCGGGA-CTTAGCCCGGATAT-A
* *
4796348 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGA
4796383 CATCATTCGA
Statistics
Matches: 231, Mismatches: 40, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.01
40 209 0.90
41 19 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:4796728 original size:29 final size:29
Alignment explanation
Indices: 4796694--4796766 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
4796684 AATCAACCAT
* *
4796694 GCACACTTAGTGCCATGTACTTT-AAACTC
1 GCACACTTAGTGCCATGCA-TTTCAAACCC
*
4796723 GCACACTTAGTGCCATGCATTTCAAGCCC
1 GCACACTTAGTGCCATGCATTTCAAACCC
4796752 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
4796767 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCATTTCAAACCC
Found at i:4796801 original size:43 final size:43
Alignment explanation
Indices: 4796748--4796850 Score: 179
Period size: 43 Copynumber: 2.4 Consensus size: 43
4796738 TGCATTTCAA
4796748 GCCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATT
* * *
4796791 GCCCGTACACTTAGTGCCAATCTCAGAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATT
4796834 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
4796851 TGAAAACCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.27, C:0.34, G:0.16, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCATGAACACTTATT
Found at i:4798755 original size:37 final size:37
Alignment explanation
Indices: 4798705--4798783 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
4798695 TTATTACGAA
* * *
4798705 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
4798742 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
4798779 GTCTT
1 GTCTT
4798784 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:4798980 original size:47 final size:47
Alignment explanation
Indices: 4798902--4799312 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
4798892 CCCTTCGGGA
* * * * * *
4798902 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
4798949 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4798996 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4799043 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4799090 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4799137 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4799184 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4799231 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4799278 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
4799313 AGAATCCTAA
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:4806870 original size:66 final size:66
Alignment explanation
Indices: 4806821--4806969 Score: 246
Period size: 66 Copynumber: 2.3 Consensus size: 66
4806811 ACGATCGAGG
* *
4806821 ACACGCCCGTGTGCCAGACGATGTGAAATCTAAGGGAGGTTATTGACTTGGGTCACACAGCCGGC
1 ACACGCCCATGTGCCAGACGATGTGAAATCTAAGGGAGGTTATTGACTTGGATCACACAGCCGGC
4806886 C
66 C
*
4806887 ACACGCCCATGTGCCAGACGATGTGAAATCTAAGGGAGGTTATTGACTTAGG-TCACACGGCCGG
1 ACACGCCCATGTGCCAGACGATGTGAAATCTAAGGGAGGTTATTGACTT-GGATCACACAGCCGG
4806951 CC
65 CC
*
4806953 ACACGCTCATGTGCCAG
1 ACACGCCCATGTGCCAG
4806970 CCTGTATGCC
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
66 77 0.97
67 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.29, T:0.19
Consensus pattern (66 bp):
ACACGCCCATGTGCCAGACGATGTGAAATCTAAGGGAGGTTATTGACTTGGATCACACAGCCGGC
C
Found at i:4811081 original size:25 final size:26
Alignment explanation
Indices: 4811040--4811088 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
4811030 ATTTTTTAAT
4811040 ATTTATATTATAATATAATATAAAAC
1 ATTTATATTATAATATAATATAAAAC
*
4811066 ATTTAT-TTATCATATAATATAAA
1 ATTTATATTATAATATAATATAAA
4811089 TTAAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (26 bp):
ATTTATATTATAATATAATATAAAAC
Found at i:4811094 original size:30 final size:29
Alignment explanation
Indices: 4811038--4811102 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
4811028 ATATTTTTTA
4811038 ATATTTATATTATAATATAATATAAAACAT
1 ATATTTATATTATAATATAATATAAAA-AT
*
4811068 TTATTTATCA-TATAATATAA-ATTAAAAAT
1 ATATTTAT-ATTATAATATAATA-TAAAAAT
4811097 ATATTT
1 ATATTT
4811103 TAAACTCGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 8 0.26
30 22 0.71
31 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (29 bp):
ATATTTATATTATAATATAATATAAAAAT
Found at i:4812223 original size:31 final size:31
Alignment explanation
Indices: 4812180--4812241 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
4812170 GTTGAATTGT
* *
4812180 GTAGGGATAAACAAGCAGATAAATATCAATA
1 GTAGGGAAAAACAAGCAGAAAAATATCAATA
*
4812211 GTAGGGAAAAACATGCAGAAAAATATCAATA
1 GTAGGGAAAAACAAGCAGAAAAATATCAATA
4812242 TAATAGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.53, C:0.10, G:0.19, T:0.18
Consensus pattern (31 bp):
GTAGGGAAAAACAAGCAGAAAAATATCAATA
Found at i:4814249 original size:20 final size:20
Alignment explanation
Indices: 4814208--4814249 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
4814198 ATTTTTCCAT
* *
4814208 AAAAATATTTAAAAAATCAA
1 AAAAATATTAAAAAAATAAA
4814228 AAAAATA-TAAAAATAATAAA
1 AAAAATATTAAAAA-AATAAA
4814248 AA
1 AA
4814250 TAAAAAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAAATATTAAAAAAATAAA
Found at i:4814312 original size:8 final size:8
Alignment explanation
Indices: 4814284--4814353 Score: 50
Period size: 8 Copynumber: 7.9 Consensus size: 8
4814274 TTAAAATTGG
*
4814284 TATAAACT
1 TATAAAAT
*
4814292 TATTAAAAC
1 TA-TAAAAT
4814301 TATAAAAT
1 TATAAAAT
4814309 TATAAAATAAT
1 TAT--AA-AAT
4814320 TATAAAATTT
1 TATAAAA--T
4814330 TATAAATAT
1 TATAAA-AT
*
4814339 TATAAAAA
1 TATAAAAT
4814347 TATAAAA
1 TATAAAA
4814354 AATTAACAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
8 20 0.39
9 15 0.29
10 9 0.18
11 7 0.14
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (8 bp):
TATAAAAT
Found at i:4814322 original size:11 final size:10
Alignment explanation
Indices: 4814307--4814373 Score: 59
Period size: 11 Copynumber: 6.8 Consensus size: 10
4814297 AAACTATAAA
4814307 ATTATAAAAT
1 ATTATAAAAT
4814317 AATTATAAAAT
1 -ATTATAAAAT
*
4814328 TTTAT-AAAT
1 ATTATAAAAT
4814337 ATTATAAAA-
1 ATTATAAAAT
*
4814346 A-TATAAAAA
1 ATTATAAAAT
*
4814355 ATTAACAAAAT
1 ATT-ATAAAAT
*
4814366 ATAATAAA
1 ATTATAAA
4814374 TCATAAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
8 7 0.15
9 10 0.22
10 12 0.26
11 17 0.37
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (10 bp):
ATTATAAAAT
Found at i:4814325 original size:19 final size:19
Alignment explanation
Indices: 4814301--4814358 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
4814291 TTATTAAAAC
4814301 TATAAAATTATAAAATAAT
1 TATAAAATTATAAAATAAT
*
4814320 TATAAAATTTTATAAAT-AT
1 TATAAAATTATA-AAATAAT
*
4814339 TATAAAAATATAAAA-AAT
1 TATAAAATTATAAAATAAT
4814357 TA
1 TA
4814359 ACAAAATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 7 0.21
19 23 0.68
20 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TATAAAATTATAAAATAAT
Found at i:4814365 original size:29 final size:28
Alignment explanation
Indices: 4814333--4814389 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
4814323 AAAATTTTAT
*
4814333 AAATATTATAAAAAT-ATAAAAAATTAACA
1 AAATA-TA-AAAAATCATAAAAAAATAACA
*
4814362 AAATATAATAAATCATAAAAAAATAACA
1 AAATATAAAAAATCATAAAAAAATAACA
4814390 TTAATAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.20
28 15 0.60
29 5 0.20
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (28 bp):
AAATATAAAAAATCATAAAAAAATAACA
Found at i:4814365 original size:38 final size:38
Alignment explanation
Indices: 4814301--4814374 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
4814291 TTATTAAAAC
* * * *
4814301 TATAAAATTATAAAATAATTATAAAATTTTATAAATAT
1 TATAAAAATATAAAATAATTACAAAATATAATAAATAT
4814339 TATAAAAATATAAAA-AATTAACAAAATATAATAAAT
1 TATAAAAATATAAAATAATT-ACAAAATATAATAAAT
4814375 CATAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 4 0.13
38 27 0.87
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (38 bp):
TATAAAAATATAAAATAATTACAAAATATAATAAATAT
Found at i:4814386 original size:20 final size:18
Alignment explanation
Indices: 4814304--4814386 Score: 58
Period size: 18 Copynumber: 4.4 Consensus size: 18
4814294 TTAAAACTAT
* *
4814304 AAAATTATAAAATAATTAT
1 AAAAATATAAAA-AATTAA
* * * *
4814323 AAAATTTTATAAATATTAT
1 AAAAATATA-AAAAATTAA
4814342 AAAAATATAAAAAATTAA
1 AAAAATATAAAAAATTAA
* *
4814360 CAAAATATAATAAATCATAA
1 AAAAATATAAAAAAT--TAA
4814380 AAAAATA
1 AAAAATA
4814387 ACATTAATAA
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
18 20 0.38
19 20 0.38
20 12 0.23
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAATATAAAAAATTAA
Found at i:4814465 original size:32 final size:32
Alignment explanation
Indices: 4814423--4814486 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
4814413 TAAAAATTAA
*
4814423 AAATTCTTAAAAAATAATAAAAATTG-TAAAAC
1 AAATTATTAAAAAAT-ATAAAAATTGCTAAAAC
*
4814455 AAATTATTAAAAAATATTAAAATTGCTAAAAC
1 AAATTATTAAAAAATATAAAAATTGCTAAAAC
4814487 TTATAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 9 0.31
32 20 0.69
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (32 bp):
AAATTATTAAAAAATATAAAAATTGCTAAAAC
Found at i:4814474 original size:10 final size:10
Alignment explanation
Indices: 4814333--4814476 Score: 52
Period size: 10 Copynumber: 14.1 Consensus size: 10
4814323 AAAATTTTAT
4814333 AAATATTATAA
1 AAATATTA-AA
4814344 AAATA-T-AA
1 AAATATTAAA
4814352 AAA-ATTAACA
1 AAATATTAA-A
*
4814362 AAATA-TAAT
1 AAATATTAAA
*
4814371 AAATCATAAAA
1 AAAT-ATTAAA
4814382 AAATAACATTAATA
1 AAAT---ATTAA-A
4814396 AAACTCATT--A
1 AAA-T-ATTAAA
*
4814406 AAATATT-TA
1 AAATATTAAA
4814415 AAA-ATTAAA
1 AAATATTAAA
* *
4814424 AATTCTTAAA
1 AAATATTAAA
*
4814434 AAATAATAAA
1 AAATATTAAA
* * *
4814444 AATTGTAAAA
1 AAATATTAAA
4814454 CAAATTATTAAA
1 -AAA-TATTAAA
4814466 AAATATTAAA
1 AAATATTAAA
4814476 A
1 A
4814477 TTGCTAAAAC
Statistics
Matches: 101, Mismatches: 17, Indels: 31
0.68 0.11 0.21
Matches are distributed among these distances:
7 1 0.01
8 12 0.12
9 13 0.13
10 39 0.39
11 17 0.17
12 5 0.05
13 9 0.09
14 4 0.04
15 1 0.01
ACGTcount: A:0.65, C:0.05, G:0.01, T:0.29
Consensus pattern (10 bp):
AAATATTAAA
Found at i:4814493 original size:9 final size:10
Alignment explanation
Indices: 4814418--4814505 Score: 63
Period size: 10 Copynumber: 8.8 Consensus size: 10
4814408 ATATTTAAAA
4814418 ATTAAAAATT
1 ATTAAAAATT
* *
4814428 CTTAAAAAAT
1 ATTAAAAATT
*
4814438 AATAAAAATT
1 ATTAAAAATT
* *
4814448 GTAAAACAAATT
1 AT-TAA-AAATT
*
4814460 ATTAAAAAAT
1 ATTAAAAATT
4814470 ATT-AAAATT
1 ATTAAAAATT
** *
4814479 GCTAAAACTT
1 ATTAAAAATT
4814489 A-TAAAAATT
1 ATTAAAAATT
4814498 ATTAAAAA
1 ATTAAAAA
4814506 ATCATAAAAA
Statistics
Matches: 57, Mismatches: 17, Indels: 8
0.70 0.21 0.10
Matches are distributed among these distances:
9 14 0.25
10 33 0.58
11 4 0.07
12 6 0.11
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:4814503 original size:19 final size:19
Alignment explanation
Indices: 4814455--4814515 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
4814445 ATTGTAAAAC
*
4814455 AAATTATTAAAAAATATTA
1 AAATTATTAAAAAATATAA
** **
4814474 AAATTGCTAAAACTTATAA
1 AAATTATTAAAAAATATAA
4814493 AAATTATTAAAAAATCATAA
1 AAATTATTAAAAAAT-ATAA
4814513 AAA
1 AAA
4814516 CTTGAACTGG
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
19 25 0.78
20 7 0.22
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (19 bp):
AAATTATTAAAAAATATAA
Found at i:4815069 original size:9 final size:9
Alignment explanation
Indices: 4815031--4815155 Score: 71
Period size: 9 Copynumber: 13.6 Consensus size: 9
4815021 ATAATATTAA
4815031 TTTTATATT
1 TTTTATATT
* *
4815040 TTTTAAAGT
1 TTTTATATT
4815049 TTTTATAGTT
1 TTTTATA-TT
4815059 TTTTATA--
1 TTTTATATT
4815066 TTTTATATT
1 TTTTATATT
4815075 TTTGTATAATT
1 TTT-TAT-ATT
* *
4815086 TATTAGATT
1 TTTTATATT
4815095 TTTTAGT-TT
1 TTTTA-TATT
*
4815104 TTTTATAATAC
1 TTTTAT-AT-T
4815115 TTTT-TA-T
1 TTTTATATT
*
4815122 TTTTATAAGT
1 TTTTAT-ATT
*
4815132 TTTTATCTAT
1 TTTTATAT-T
*
4815142 TTTCATATT
1 TTTTATATT
4815151 TTTTA
1 TTTTA
4815156 AAAATTTAAA
Statistics
Matches: 88, Mismatches: 15, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
7 11 0.12
8 2 0.02
9 37 0.42
10 29 0.33
11 9 0.10
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (9 bp):
TTTTATATT
Done.