Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 178 of 343
Found at i:58988139 original size:93 final size:93
Alignment explanation
Indices: 58988024--58988196 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
58988014 CGCCCATAAG
* *
58988024 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCA
58988089 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* * * *
58988117 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCA
58988182 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
58988197 CAAATATCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:58991157 original size:40 final size:40
Alignment explanation
Indices: 58991067--58991291 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
58991057 TTGAATGATG
* * * * *
58991067 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAATGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
58991107 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58991147 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58991186 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58991226 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
58991267 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
58991292 AACGATGAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 118 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58991309 original size:80 final size:80
Alignment explanation
Indices: 58991120--58991324 Score: 231
Period size: 80 Copynumber: 2.6 Consensus size: 80
58991110 AGACTAAGAT
** * *
58991120 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACT
*
58991183 AAATCCGGGTTAAGTC
65 AAATCCGGGCTAAGTC
** * *
58991199 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA
*
58991264 TAA-CCGGGCTATGTC
66 -AATCCGGGCTAAGTC
* * *
58991279 CCGAAGGCATTTGAACGA-TGAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
58991325 TACGTGATTT
Statistics
Matches: 111, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
78 1 0.01
79 50 0.45
80 58 0.52
81 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA
AATCCGGGCTAAGTC
Found at i:58998877 original size:46 final size:46
Alignment explanation
Indices: 58998818--58998984 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 46
58998808 GCCCATAAGC
* *
58998818 GAACTCGGACTCAACTCAATGAGCTCGGTCATTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGTTCGGTCATTCGCATCCATAAAT
* * *
58998864 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-T-CAC
1 GAACTCGGACTCAACTCAACGAGTTCGG-T--C-A-TTCGCATCCATAAAT
* * *
58998911 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGTCATTCGCATCCATAAAT
*
58998957 GAACTCGGATTCAACTCAACGAGTTCGG
1 GAACTCGGACTCAACTCAACGAGTTCGG
58998985 ATGCCCAAAT
Statistics
Matches: 99, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 52 0.53
47 29 0.29
48 1 0.01
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGTCATTCGCATCCATAAAT
Found at i:58998944 original size:93 final size:93
Alignment explanation
Indices: 58998817--58998989 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
58998807 CGCCCATAAG
* * *
58998817 CGAACTCGGACTCAACTCAATGAGCTCGGTCATTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
58998882 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
58998910 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGATTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
58998975 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
58998990 CAAATATCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:59008629 original size:60 final size:59
Alignment explanation
Indices: 59008553--59008689 Score: 154
Period size: 60 Copynumber: 2.3 Consensus size: 59
59008543 AACTATGTTA
* *
59008553 ATATGGGCA-AGGCCCAATATA-TCTCGACT-TGTAACAGGGCTGCGGCCCAGATTGATACTG
1 ATATGGG-ATAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG
* *
59008613 ATATGGGATAGGCCCAATATACTCTGATACTGTAAAGGGCTATGGCCCAGATTAATATTG
1 ATATGGGATAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
*
59008673 ATATGGGCTAAGGCCCA
1 ATATGGGAT-AGGCCCA
59008690 GTTAACACTA
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
59 2 0.03
60 50 0.75
61 15 0.22
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (59 bp):
ATATGGGATAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:59013550 original size:60 final size:59
Alignment explanation
Indices: 59013474--59013610 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
59013464 AACTATGTTA
* * *
59013474 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTGCGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG
* * *
59013534 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
59013594 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
59013611 GTTAAGACTA
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
59 1 0.01
60 51 0.76
61 15 0.22
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:59017142 original size:14 final size:14
Alignment explanation
Indices: 59017123--59017151 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
59017113 CCTTCTGGGA
59017123 ACAGAGCTATCGAT
1 ACAGAGCTATCGAT
59017137 ACAGAGCTATCGAT
1 ACAGAGCTATCGAT
59017151 A
1 A
59017152 TTGGTGTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (14 bp):
ACAGAGCTATCGAT
Found at i:59018058 original size:25 final size:25
Alignment explanation
Indices: 59018029--59018112 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 25
59018019 TGAGAATCAA
*
59018029 AATCAGAATTAGGTGACATAATTAG
1 AATCAGAATTAGGTGACAGAATTAG
* *
59018054 AATCAGAATTAGGTGGCAGAATCAG
1 AATCAGAATTAGGTGACAGAATTAG
* * *
59018079 AATCAGTATCAGGTAACAGAATTAG
1 AATCAGAATTAGGTGACAGAATTAG
*
59018104 AATTAGAAT
1 AATCAGAAT
59018113 GTGAATGCAA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (25 bp):
AATCAGAATTAGGTGACAGAATTAG
Found at i:59020109 original size:40 final size:40
Alignment explanation
Indices: 59020030--59020229 Score: 255
Period size: 40 Copynumber: 5.0 Consensus size: 40
59020020 CGAGATTTAA
* *
59020030 CCGGATATAGCT-ACTCGCTC-AATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
59020069 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
59020109 CCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
59020149 CCGGATGTAATAATTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59020189 CC-GAAACTAGTCACTAGCGCA-AAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACT--CGCACAAATGCCTTCGGGACTTAGC
59020230 TCGGTTATCA
Statistics
Matches: 143, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
38 1 0.01
39 19 0.13
40 99 0.69
41 20 0.14
42 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:59023391 original size:40 final size:40
Alignment explanation
Indices: 59023309--59023526 Score: 248
Period size: 40 Copynumber: 5.5 Consensus size: 40
59023299 AAGCCAAGTA
* * * *
59023309 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCACTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
59023347 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59023387 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
59023427 CCTTCGAGACTTAGCCCGAATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
59023467 CCTTCGGGACTTAGCCC-GAAACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
59023508 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
59023527 TTATCATCCA
Statistics
Matches: 154, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
38 12 0.08
39 17 0.11
40 98 0.64
41 22 0.14
42 5 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59030714 original size:40 final size:40
Alignment explanation
Indices: 59030621--59030837 Score: 284
Period size: 40 Copynumber: 5.5 Consensus size: 40
59030611 AAGCCAAGTA
* * *
59030621 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
59030659 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59030699 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
59030739 CCTTC-GGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59030778 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
59030819 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
59030838 TTATCATCCA
Statistics
Matches: 161, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
38 12 0.07
39 54 0.34
40 67 0.42
41 24 0.15
42 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59030753 original size:79 final size:79
Alignment explanation
Indices: 59030621--59030837 Score: 282
Period size: 79 Copynumber: 2.7 Consensus size: 79
59030611 AAGCCAAGTA
* * * * *
59030621 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
*
59030684 TAACTCGCACCAATG
65 TAACTCGCACAAATG
*
59030699 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGACTTAGCCCGGATGTAA
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
59030763 TAACTCGCACAAATG
65 TAACTCGCACAAATG
59030778 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACT--CGCACAAATGCCTTCGGGACTTAGCCCGG
59030838 TTATCATCCA
Statistics
Matches: 124, Mismatches: 8, Indels: 11
0.87 0.06 0.08
Matches are distributed among these distances:
78 14 0.11
79 74 0.60
80 19 0.15
81 17 0.14
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAAT
AACTCGCACAAATG
Found at i:59032567 original size:36 final size:37
Alignment explanation
Indices: 59032499--59032572 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
59032489 TACGTAACCG
59032499 ACCAAACCATTGTCATTGCTTCACTAGCGATTTATAA
1 ACCAAACCATTGTCATTGCTTCACTAGCGATTTATAA
*
59032536 ACCAAACCATTGTCATTGC-TCACTAGTGATTTATAA
1 ACCAAACCATTGTCATTGCTTCACTAGCGATTTATAA
59032572 A
1 A
59032573 ATAAAAAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 17 0.47
37 19 0.53
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (37 bp):
ACCAAACCATTGTCATTGCTTCACTAGCGATTTATAA
Found at i:59033843 original size:38 final size:38
Alignment explanation
Indices: 59033795--59034025 Score: 354
Period size: 38 Copynumber: 6.1 Consensus size: 38
59033785 GGCCTAAAGG
* * * *
59033795 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAAGACCAGCACGAAGCCTGCGGGATTTAA
* *
59033833 CCCGGATATAAGACCAGCACGAAGCCTACGAGATTTAA
1 CCCGGATATAAGACCAGCACGAAGCCTGCGGGATTTAA
* * *
59033871 CCCGAATATAAGACCAGCATGAAGCCTACGGGATTTAA
1 CCCGGATATAAGACCAGCACGAAGCCTGCGGGATTTAA
59033909 CCCGGATATAAGACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAAGACCAGCACGAAGCCTGCGGGATTTAA
* *
59033947 CCCGGATATAAGACCAACACGAAGCCTGTGGGATTTAA
1 CCCGGATATAAGACCAGCACGAAGCCTGCGGGATTTAA
59033985 CCCGGATATAAGACCAGCACGAAGCCTGCGGGATTATAA
1 CCCGGATATAAGACCAGCACGAAGCCTGCGGGATT-TAA
59034024 CC
1 CC
59034026 TGAAATCTTA
Statistics
Matches: 176, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
38 171 0.97
39 5 0.03
ACGTcount: A:0.34, C:0.26, G:0.23, T:0.17
Consensus pattern (38 bp):
CCCGGATATAAGACCAGCACGAAGCCTGCGGGATTTAA
Found at i:59034606 original size:27 final size:27
Alignment explanation
Indices: 59034570--59034672 Score: 80
Period size: 27 Copynumber: 3.5 Consensus size: 27
59034560 ACTGACTTCG
*
59034570 CACACTTAGTGCTCAGAAATTAATTCA
1 CACACATAGTGCTCAGAAATTAATTCA
* * *
59034597 CACACATAGTGCTTAAATCCAACTCGTACACATTCG
1 CACACATAGTGCTCAGA---AA-T--T--A-ATTCA
*
59034633 CACACTTAGTGCTCAGAAATTAATTCA
1 CACACATAGTGCTCAGAAATTAATTCA
59034660 CACACATAGTGCT
1 CACACATAGTGCT
59034673 TAAATCCAAC
Statistics
Matches: 58, Mismatches: 9, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
27 30 0.52
28 1 0.02
30 3 0.05
31 1 0.02
32 1 0.02
33 3 0.05
35 1 0.02
36 18 0.31
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (27 bp):
CACACATAGTGCTCAGAAATTAATTCA
Found at i:59034642 original size:63 final size:63
Alignment explanation
Indices: 59034566--59034684 Score: 238
Period size: 63 Copynumber: 1.9 Consensus size: 63
59034556 AATAACTGAC
59034566 TTCGCACACTTAGTGCTCAGAAATTAATTCACACACATAGTGCTTAAATCCAACTCGTACACA
1 TTCGCACACTTAGTGCTCAGAAATTAATTCACACACATAGTGCTTAAATCCAACTCGTACACA
59034629 TTCGCACACTTAGTGCTCAGAAATTAATTCACACACATAGTGCTTAAATCCAACTC
1 TTCGCACACTTAGTGCTCAGAAATTAATTCACACACATAGTGCTTAAATCCAACTC
59034685 ACACACTTAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.28
Consensus pattern (63 bp):
TTCGCACACTTAGTGCTCAGAAATTAATTCACACACATAGTGCTTAAATCCAACTCGTACACA
Found at i:59037050 original size:27 final size:27
Alignment explanation
Indices: 59037021--59037188 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
59037011 GGGCATAATG
* * * *
59037021 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
59037048 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
59037075 GTATTTCTATCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
59037102 GTAATTCTACCCTAC-AGGAGTATTTCA
1 GTAATTCTACCCTACAAGG-GTATTTCA
59037129 GTAATTCTACCCTAC-AGAGGTATTTCA
1 GTAATTCTACCCTACAAG-GGTATTTCA
* * *
59037156 GTAATTCTACCTTGCAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
59037183 ATAATT
1 GTAATT
59037189 TTGTAAATCG
Statistics
Matches: 124, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.02
27 119 0.96
28 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:59037092 original size:54 final size:54
Alignment explanation
Indices: 59037021--59037188 Score: 221
Period size: 54 Copynumber: 3.1 Consensus size: 54
59037011 GGGCATAATG
* * * * *
59037021 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
* * *
59037075 GTATTTCTATCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGAGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
* *
59037129 GTAATTCTACCCTAC-AGAGGTATTTCAGTAATTCTACCTTGCAGGGGTATTTCA
1 GTAATTCTACCCTACAAG-GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
*
59037183 ATAATT
1 GTAATT
59037189 TTGTAAATCG
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 2 0.02
54 97 0.98
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
Found at i:59040083 original size:49 final size:48
Alignment explanation
Indices: 59039990--59040120 Score: 149
Period size: 49 Copynumber: 2.7 Consensus size: 48
59039980 ACATTAAAGT
* * *
59039990 TGATGCCATGTCCTAGATAGGTCTTACACTAACTTCCATATATCGAG-G
1 TGATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATATATCG-GTG
* * *
59040038 CTGATGCCATGTCCCAGACAAGTCTTACACTGGC-TCTCATCTATCGGTG
1 -TGATGCCATGTCCCAGACAGGTCTTACACTGACTTC-CATATATCGGTG
*
59040087 TCGATGCAATGTCCCAGACAGGTCTTACACTGAC
1 T-GATGCCATGTCCCAGACAGGTCTTACACTGAC
59040121 ACATAACAAG
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
48 4 0.06
49 66 0.94
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (48 bp):
TGATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATATATCGGTG
Found at i:59043426 original size:12 final size:12
Alignment explanation
Indices: 59043409--59043446 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
59043399 TATCATTCAT
59043409 TCAAACTTGACC
1 TCAAACTTGACC
59043421 TCAAACTTGACC
1 TCAAACTTGACC
59043433 TCAAACTTGACC
1 TCAAACTTGACC
59043445 TC
1 TC
59043447 TTTTTGTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.32, C:0.34, G:0.08, T:0.26
Consensus pattern (12 bp):
TCAAACTTGACC
Found at i:59048774 original size:15 final size:15
Alignment explanation
Indices: 59048754--59048785 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
59048744 ATTTATCGAT
59048754 TTTAACTAGAACATC
1 TTTAACTAGAACATC
59048769 TTTAACTAGAACATC
1 TTTAACTAGAACATC
59048784 TT
1 TT
59048786 CAATAATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (15 bp):
TTTAACTAGAACATC
Found at i:59060059 original size:20 final size:21
Alignment explanation
Indices: 59060034--59060073 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
59060024 CTCTTGAAAC
*
59060034 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCCTGTGGA
59060054 AGGGCAACACGCCCCTGTGG
1 AGGGCAACACGCCCCTGTGG
59060074 CCACTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.33, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCCTGTGGA
Found at i:59063120 original size:27 final size:27
Alignment explanation
Indices: 59063089--59063446 Score: 441
Period size: 27 Copynumber: 13.3 Consensus size: 27
59063079 CCCTACATGG
* *
59063089 TAAATTGACGATTTTGCCCTCAT-TGA
1 TAAAATGACGATTTTGCCCTTATGTGA
* * * *
59063115 TAAAATAACGTTTTTTCCCTTATGTAA
1 TAAAATGACGATTTTGCCCTTATGTGA
* *
59063142 TAAAATAACGATTTTGCCCTCATGTGA
1 TAAAATGACGATTTTGCCCTTATGTGA
*
59063169 TAAAATGACAATTTTGCCCTTATGTGA
1 TAAAATGACGATTTTGCCCTTATGTGA
*
59063196 TAAAATGACGA-TTTCCCCTTATGTGA
1 TAAAATGACGATTTTGCCCTTATGTGA
* * *
59063222 TAAAATAACGATTTTACCCTTATGCGA
1 TAAAATGACGATTTTGCCCTTATGTGA
* ** * *
59063249 TAAGATGATAATTTTACCCTCATGTGA
1 TAAAATGACGATTTTGCCCTTATGTGA
* *
59063276 TAAAATGACGATCTTGCCCTCATGTGA
1 TAAAATGACGATTTTGCCCTTATGTGA
59063303 TAAAATGACGATTTTGCCCTTATGTGA
1 TAAAATGACGATTTTGCCCTTATGTGA
* * *
59063330 TAAAATGACGATTTTTCCTTTATGAGA
1 TAAAATGACGATTTTGCCCTTATGTGA
*
59063357 TAAAATGACCATTTTGCCCTTATGTGA
1 TAAAATGACGATTTTGCCCTTATGTGA
* * *
59063384 TAAAATGATGATTTTACCCTCATGTGA
1 TAAAATGACGATTTTGCCCTTATGTGA
*
59063411 TAAAGTGACGATTTTGCCCTTATGTGA
1 TAAAATGACGATTTTGCCCTTATGTGA
*
59063438 TAACATGAC
1 TAAAATGAC
59063447 CGAAATACCC
Statistics
Matches: 282, Mismatches: 48, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
26 42 0.15
27 240 0.85
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (27 bp):
TAAAATGACGATTTTGCCCTTATGTGA
Found at i:59063493 original size:27 final size:27
Alignment explanation
Indices: 59063442--59063498 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
59063432 ATGTGATAAC
* *
59063442 ATGACCGAAATACCCTCATAGGGTAGA
1 ATGACCGAAATACCCTCATAAGGTAAA
*
59063469 ATGACCGAAATACCC-CTGTAAGGTAAA
1 ATGACCGAAATACCCTC-ATAAGGTAAA
59063496 ATG
1 ATG
59063499 GCTGTAATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (27 bp):
ATGACCGAAATACCCTCATAAGGTAAA
Found at i:59063604 original size:23 final size:23
Alignment explanation
Indices: 59063561--59063610 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
59063551 CTGTATTTGA
59063561 GCATGCCATGTTATATGTATGTT
1 GCATGCCATGTTATATGTATGTT
59063584 GCAT-CCATGTATAATAT-TATGTT
1 GCATGCCATGT-T-ATATGTATGTT
59063607 GCAT
1 GCAT
59063611 TGCATGAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 15 0.60
24 4 0.16
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (23 bp):
GCATGCCATGTTATATGTATGTT
Found at i:59063888 original size:18 final size:18
Alignment explanation
Indices: 59063862--59063898 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
59063852 GGACTTGCAT
*
59063862 ACTGCTTACTGTTACTGC
1 ACTGCTTACTATTACTGC
*
59063880 ACTGTTTACTATTACTGC
1 ACTGCTTACTATTACTGC
59063898 A
1 A
59063899 ATGGGCCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (18 bp):
ACTGCTTACTATTACTGC
Found at i:59067376 original size:27 final size:27
Alignment explanation
Indices: 59067346--59067624 Score: 315
Period size: 27 Copynumber: 10.3 Consensus size: 27
59067336 CCCTACATGG
* * * *
59067346 TAAATTGACGATTTTACCATTTTGTGA
1 TAAAATGACGATTTTGCCCTTATGTGA
*
59067373 TAAAATGACGATTTTGTCCTTATGTGA
1 TAAAATGACGATTTTGCCCTTATGTGA
* * *
59067400 TAAAAAGACAATTTTGCCCTCATGTGA
1 TAAAATGACGATTTTGCCCTTATGTGA
* * **
59067427 TAAAATTACAATTTTGCCCTTACATGA
1 TAAAATGACGATTTTGCCCTTATGTGA
* *
59067454 TAAAATGACGATTTTTCCCTTTTGTGA
1 TAAAATGACGATTTTGCCCTTATGTGA
** * *
59067481 TAAAACAATGATTTTGCCCTCATGTGA
1 TAAAATGACGATTTTGCCCTTATGTGA
59067508 TAAAATGACGATTTTGCCCTTATGTGA
1 TAAAATGACGATTTTGCCCTTATGTGA
*
59067535 TAAAATGACGATTTTGCTCTTATGTGA
1 TAAAATGACGATTTTGCCCTTATGTGA
** ** *
59067562 TAAAATGATTATTTTTTCCTCATGTGA
1 TAAAATGACGATTTTGCCCTTATGTGA
* **
59067589 TAAAATGATGATTTCACCCTTATGTGA
1 TAAAATGACGATTTTGCCCTTATGTGA
59067616 TAAAATGAC
1 TAAAATGAC
59067625 TGAAATACCC
Statistics
Matches: 209, Mismatches: 43, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 209 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (27 bp):
TAAAATGACGATTTTGCCCTTATGTGA
Found at i:59067634 original size:27 final size:26
Alignment explanation
Indices: 59067497--59067651 Score: 87
Period size: 27 Copynumber: 5.8 Consensus size: 26
59067487 AATGATTTTG
* * ** *
59067497 CCCTCATGTGATAAAATGACGATTTTG
1 CCCTTATGTGATAAAATGATGA-AATA
* ** *
59067524 CCCTTATGTGATAAAATGACGATTTTG
1 CCCTTATGTGATAAAATGATGA-AATA
* * ** *
59067551 CTCTTATGTGATAAAATGATTATTTTT
1 CCCTTATGTGATAAAATGATGA-AATA
* * **
59067578 TCCTCATGTGATAAAATGATGATTTCA
1 CCCTTATGTGATAAAATGATGAAAT-A
59067605 CCCTTATGTGATAAAATGACTGAAATA
1 CCCTTATGTGATAAAATGA-TGAAATA
59067632 CCCTTATAG-GATAAAATGAT
1 CCCTTAT-GTGATAAAATGAT
59067652 TGTAATACTC
Statistics
Matches: 111, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.04
27 102 0.92
28 5 0.05
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (26 bp):
CCCTTATGTGATAAAATGATGAAATA
Found at i:59067658 original size:27 final size:27
Alignment explanation
Indices: 59067583--59067659 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
59067573 TTTTTTCCTC
**
59067583 ATGTGATAAAATGA-TGATTTCACCCTT
1 ATGTGATAAAATGACTGAAAT-ACCCTT
59067610 ATGTGATAAAATGACTGAAATACCCTT
1 ATGTGATAAAATGACTGAAATACCCTT
* *
59067637 ATAG-GATAAAATGATTGTAATAC
1 AT-GTGATAAAATGACTGAAATAC
59067660 TCGGTAAGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
27 39 0.89
28 5 0.11
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (27 bp):
ATGTGATAAAATGACTGAAATACCCTT
Found at i:59068042 original size:18 final size:18
Alignment explanation
Indices: 59068021--59068066 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
59068011 TACTGCTTAC
*
59068021 TGTTACTGCACTGTTTAA
1 TGTTACTGCACTATTTAA
* *
59068039 TGTTACTGAACTATTTAC
1 TGTTACTGCACTATTTAA
59068057 TGTTACTGCA
1 TGTTACTGCA
59068067 ATGGGCCAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.43
Consensus pattern (18 bp):
TGTTACTGCACTATTTAA
Found at i:59069080 original size:49 final size:49
Alignment explanation
Indices: 59069019--59069340 Score: 163
Period size: 49 Copynumber: 6.8 Consensus size: 49
59069009 ACATTAAATT
* * * * *
59069019 CGATGCCGTGTCCCAGAGAGGTCTTACATTGGCTTTTATATATCGAG-AC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATATC-AGTAC
* * * **
59069068 CGATGCCATGTCCCAAATAGGTCTTACACTGGCTCTCATCTATCAGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCAGTAC
* * * *
59069117 CGATGCCATGTCCCAGACAGGTCTTACACTGACACACA-ACA--AG--C
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCAGTAC
* * * * * * *
59069161 TGATGCCATGTCCCAGATAGGTCTTACACTAAGTTGT-ATATCTCGAG-GC
1 CGATGCCATGTCCCAGACAGGTCTTACACT-GGCTCTCATATATC-AGTAC
* * * * * *
59069210 CGATG-CATGTCCCAGACATGTCTTACACTAGCTCTC--GTCTCAATGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCAGTAC
* * ** * * *
59069256 CGATG-CTTGTCCTAGACATATCTTACATTGGCTTTCATA-AT--GTGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCAGT-AC
* * *
59069302 CGATG-CATGTCCCAAACATGTCTTACACTGGCTCACATA
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATA
59069341 CCACCCAATG
Statistics
Matches: 211, Mismatches: 50, Indels: 27
0.73 0.17 0.09
Matches are distributed among these distances:
44 29 0.14
45 3 0.01
46 72 0.34
47 5 0.02
48 27 0.13
49 75 0.36
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCAGTAC
Found at i:59069214 original size:93 final size:92
Alignment explanation
Indices: 59069069--59069238 Score: 227
Period size: 93 Copynumber: 1.8 Consensus size: 92
59069059 TATCGAGACC
* * *
59069069 GATGCCATGTCCCAAATAGGTCTTACACTGGCTCTCATCTATCAGTGTCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAAATAGGTCTTACACTAGCTCTCATATATCAGTGCCGATG-CATGTCCCAGA
59069134 CAGGTCTTACACTGACACACAACAAGCT
65 CAGGTCTTACACTGACACACAACAAGCT
* * * *
59069162 GATGCCATGTCCCAGATAGGTCTTACACTAAGTTGT-ATATCTCGAG-GCCGATGCATGTCCCAG
1 GATGCCATGTCCCAAATAGGTCTTACACT-AGCTCTCATATATC-AGTGCCGATGCATGTCCCAG
*
59069225 ACATGTCTTACACT
64 ACAGGTCTTACACT
59069239 AGCTCTCGTC
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
92 23 0.34
93 39 0.58
94 5 0.07
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (92 bp):
GATGCCATGTCCCAAATAGGTCTTACACTAGCTCTCATATATCAGTGCCGATGCATGTCCCAGAC
AGGTCTTACACTGACACACAACAAGCT
Found at i:59075461 original size:34 final size:34
Alignment explanation
Indices: 59075409--59075481 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
59075399 GCGTTACTAT
* *
59075409 TACTGTTACAGTATTGGGCTAAGGCCC-ACACTGA
1 TACTGATACAGTAATGGGCTAAGGCCCTA-ACTGA
* *
59075443 TACTGATACTGTAATGGGCTATGGCCCTAACTGA
1 TACTGATACAGTAATGGGCTAAGGCCCTAACTGA
59075477 TACTG
1 TACTG
59075482 GACTGTCACT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 33 0.97
35 1 0.03
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (34 bp):
TACTGATACAGTAATGGGCTAAGGCCCTAACTGA
Found at i:59079247 original size:171 final size:172
Alignment explanation
Indices: 59078962--59079306 Score: 683
Period size: 171 Copynumber: 2.0 Consensus size: 172
59078952 TGCCATTATT
59078962 ATTTTAGTTTCTTTTCTATGTGTATAAATAAATTATTTTTTAATAATTTCCTAAGAATAATATGA
1 ATTTTAGTTTCTTTTCTATGTGTATAAATAAATTATTTTTTAATAATTTCCTAAGAATAATATGA
59079027 TTATTCTTAAAAGTTCTAGTCAAGTATTATTGTGGTCTTAGACAACAATAATGCGTTAAGACTAA
66 TTATTCTTAAAAGTTCTAGTCAAGTATTATTGTGGTCTTAGACAACAATAATGCGTTAAGACTAA
59079092 CATGTAG-TTATTAATGACAAAGTGTTTTCATTGACATAAGG
131 CATGTAGTTTATTAATGACAAAGTGTTTTCATTGACATAAGG
59079133 ATTTTAGTTTCTTTTCTATGTGTATAAATAAATTATTTTTTAATAATTTCCTAAGAATAATATGA
1 ATTTTAGTTTCTTTTCTATGTGTATAAATAAATTATTTTTTAATAATTTCCTAAGAATAATATGA
59079198 TTATTCTTAAAAGTTCTAGTCAAGTATTATTGTGGTCTTAGACAACAATAATGCGTTAAGACTAA
66 TTATTCTTAAAAGTTCTAGTCAAGTATTATTGTGGTCTTAGACAACAATAATGCGTTAAGACTAA
59079263 CATGTAGTTTATTAATGACAAAGTGTTTTCATTGACATAAGG
131 CATGTAGTTTATTAATGACAAAGTGTTTTCATTGACATAAGG
59079305 AT
1 AT
59079307 GTCAAAATCA
Statistics
Matches: 173, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
171 137 0.79
172 36 0.21
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.42
Consensus pattern (172 bp):
ATTTTAGTTTCTTTTCTATGTGTATAAATAAATTATTTTTTAATAATTTCCTAAGAATAATATGA
TTATTCTTAAAAGTTCTAGTCAAGTATTATTGTGGTCTTAGACAACAATAATGCGTTAAGACTAA
CATGTAGTTTATTAATGACAAAGTGTTTTCATTGACATAAGG
Found at i:59080506 original size:34 final size:34
Alignment explanation
Indices: 59080456--59080534 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
59080446 ATTTCAGTTA
59080456 GGGCCTAAGCCCATTTCAGCAACAGTAGCAGTCT
1 GGGCCTAAGCCCATTTCAGCAACAGTAGCAGTCT
* * * * *
59080490 GGGCCTGAGCCTATTTCAGTAACAGTATCAGT-G
1 GGGCCTAAGCCCATTTCAGCAACAGTAGCAGTCT
59080523 GGGCCTAA-CCCA
1 GGGCCTAAGCCCA
59080535 ATACAGTATC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
32 3 0.08
33 7 0.18
34 28 0.74
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (34 bp):
GGGCCTAAGCCCATTTCAGCAACAGTAGCAGTCT
Found at i:59089652 original size:36 final size:36
Alignment explanation
Indices: 59089611--59089679 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
59089601 CTAAACTAAT
*
59089611 AACTCACAGAGAAAATAATTGAGGAATTGCTTTAAG
1 AACTCACAGAGAAAAGAATTGAGGAATTGCTTTAAG
*
59089647 AACTCACAGAGAAAAGAATTGGGGAATTGCTTT
1 AACTCACAGAGAAAAGAATTGAGGAATTGCTTT
59089680 TGGGAAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.25
Consensus pattern (36 bp):
AACTCACAGAGAAAAGAATTGAGGAATTGCTTTAAG
Found at i:59089814 original size:19 final size:19
Alignment explanation
Indices: 59089790--59089854 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
59089780 TTCAGTAGAG
*
59089790 ATCCCTAAGTTATGTTATT
1 ATCCCTAAGTTATGTTATA
* *
59089809 ATCCCT-A-TTCAAGACTAATA
1 ATCCCTAAGTT-ATG--TTATA
*
59089829 ATCCCTAAGTTATGTTATC
1 ATCCCTAAGTTATGTTATA
59089848 ATCCCTA
1 ATCCCTA
59089855 TTCAAGACTA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
17 2 0.06
18 3 0.09
19 16 0.46
20 9 0.26
21 3 0.09
22 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (19 bp):
ATCCCTAAGTTATGTTATA
Found at i:59089833 original size:39 final size:39
Alignment explanation
Indices: 59089790--59089869 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
59089780 TTCAGTAGAG
*
59089790 ATCCCTAAGTTATGTTATTATCCCTATTCAAGACTAATA
1 ATCCCTAAGTTATGTTATCATCCCTATTCAAGACTAATA
59089829 ATCCCTAAGTTATGTTATCATCCCTATTCAAGACTAATA
1 ATCCCTAAGTTATGTTATCATCCCTATTCAAGACTAATA
59089868 AT
1 AT
59089870 GTCTAATCCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (39 bp):
ATCCCTAAGTTATGTTATCATCCCTATTCAAGACTAATA
Found at i:59089834 original size:20 final size:20
Alignment explanation
Indices: 59089809--59089869 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
59089799 TTATGTTATT
59089809 ATCCCTATTCAAGACTAATA
1 ATCCCTATTCAAGACTAATA
* * *
59089829 ATCCCTAAGTT-ATG--TTATC
1 ATCCCT-A-TTCAAGACTAATA
59089848 ATCCCTATTCAAGACTAATA
1 ATCCCTATTCAAGACTAATA
59089868 AT
1 AT
59089870 GTCTAATCCC
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
17 2 0.07
18 3 0.10
19 9 0.30
20 11 0.37
21 3 0.10
22 2 0.07
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (20 bp):
ATCCCTATTCAAGACTAATA
Found at i:59097079 original size:29 final size:28
Alignment explanation
Indices: 59097013--59097121 Score: 128
Period size: 29 Copynumber: 3.8 Consensus size: 28
59097003 CACATACTTG
* * * *
59097013 TATATGGCCCACTAGACCCAACTATATT
1 TATATGGCCCATTAGGCCCAAATACATT
* *
59097041 CACATGGCCCATTAGGCCCAAATGACATT
1 TATATGGCCCATTAGGCCCAAAT-ACATT
*
59097070 TATATGGCCCTTTAGGCCCAAATTACATT
1 TATATGGCCCATTAGGCCCAAA-TACATT
*
59097099 TATGTGGCCCATTAGGCCCAAAT
1 TATATGGCCCATTAGGCCCAAAT
59097122 CAAATTATAT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 19 0.28
29 48 0.71
30 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (28 bp):
TATATGGCCCATTAGGCCCAAATACATT
Found at i:59097360 original size:16 final size:16
Alignment explanation
Indices: 59097339--59097381 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
59097329 GTAGCCAAAC
*
59097339 TTTCAGCTTTTCT-GTA
1 TTTCAGCTTTT-TGGCA
59097355 TTTCAGCTTTTTGGCA
1 TTTCAGCTTTTTGGCA
59097371 TTTCAGCTTTT
1 TTTCAGCTTTT
59097382 GCTGATCTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 1 0.04
16 24 0.96
ACGTcount: A:0.12, C:0.19, G:0.14, T:0.56
Consensus pattern (16 bp):
TTTCAGCTTTTTGGCA
Found at i:59101483 original size:29 final size:29
Alignment explanation
Indices: 59101405--59101523 Score: 116
Period size: 29 Copynumber: 4.2 Consensus size: 29
59101395 CACATACCTG
* * * *
59101405 TATATGGCCCACTAGACCCAACT-ATATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* * * *
59101433 CATATGGCCCATTAAGCTCAAATGACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* * *
59101462 TATATGGCTCTTTAGGCCCAAATTACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
59101491 TATGTGGCCCATTAGGCCCAAATCACA-T
1 TATATGGCCCATTAGGCCCAAATCACATT
59101519 TATAT
1 TATAT
59101524 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
28 22 0.31
29 50 0.69
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:59104213 original size:14 final size:14
Alignment explanation
Indices: 59104194--59104221 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
59104184 ATATGGTATA
59104194 TCGCATTTAAACAC
1 TCGCATTTAAACAC
59104208 TCGCATTTAAACAC
1 TCGCATTTAAACAC
59104222 ATGTAATGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (14 bp):
TCGCATTTAAACAC
Found at i:59110803 original size:21 final size:21
Alignment explanation
Indices: 59110777--59110822 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
59110767 ATATCCCTCT
59110777 ACATAGATTGTGGTATATCCA
1 ACATAGATTGTGGTATATCCA
59110798 ACATAGATTGTGGTATATCCA
1 ACATAGATTGTGGTATATCCA
59110819 ACAT
1 ACAT
59110823 CAGCCTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
ACATAGATTGTGGTATATCCA
Found at i:59111191 original size:15 final size:17
Alignment explanation
Indices: 59111171--59111202 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
59111161 TTCTCAGGAC
59111171 TTTA-TTATAAA-ACAG
1 TTTATTTATAAACACAG
59111186 TTTATTTATAAACACAG
1 TTTATTTATAAACACAG
59111203 AAAGAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 7 0.47
17 4 0.27
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (17 bp):
TTTATTTATAAACACAG
Found at i:59118062 original size:39 final size:39
Alignment explanation
Indices: 59118019--59118097 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
59118009 TCATATTACA
* *
59118019 CATATAATAACCTATCATACAAGCATATACCACAATACT
1 CATATAATAACATAACATACAAGCATATACCACAATACT
* ** **
59118058 CATATAATCACATAACATTTAAGCATATGTCACAATACT
1 CATATAATAACATAACATACAAGCATATACCACAATACT
59118097 C
1 C
59118098 GAAAACATCT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.24, G:0.04, T:0.28
Consensus pattern (39 bp):
CATATAATAACATAACATACAAGCATATACCACAATACT
Found at i:59121214 original size:22 final size:22
Alignment explanation
Indices: 59121189--59121232 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
59121179 AATACAATAT
59121189 TTTTAAGCATATAAGTTATTCC
1 TTTTAAGCATATAAGTTATTCC
59121211 TTTTAAGCATATAAGTTATTCC
1 TTTTAAGCATATAAGTTATTCC
59121233 AACTCGTACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (22 bp):
TTTTAAGCATATAAGTTATTCC
Found at i:59121754 original size:39 final size:39
Alignment explanation
Indices: 59121690--59121788 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
59121680 TATTCACTTT
* * * * *
59121690 CAAGCATATATCATATTACAT-ATATAATTACCTATCATA
1 CAAGCATATATCACAATAC-TCATATAATCACATAACATA
*
59121729 CAAGCATATATCACAATACTCATATAATCACATAACATT
1 CAAGCATATATCACAATACTCATATAATCACATAACATA
* *
59121768 TAAGCATATGTCACAATACTC
1 CAAGCATATATCACAATACTC
59121789 GAAACCATCC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 1 0.02
39 50 0.98
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.31
Consensus pattern (39 bp):
CAAGCATATATCACAATACTCATATAATCACATAACATA
Found at i:59124089 original size:17 final size:18
Alignment explanation
Indices: 59124069--59124109 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
59124059 ATAAACATAA
59124069 ATCATTCATTTCAT-TAT-
1 ATCATT-ATTTCATGTATC
*
59124086 ATCAATATTTCATGTATC
1 ATCATTATTTCATGTATC
59124104 ATCATT
1 ATCATT
59124110 TTCATGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 7 0.35
17 8 0.40
18 5 0.25
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.49
Consensus pattern (18 bp):
ATCATTATTTCATGTATC
Found at i:59130380 original size:27 final size:27
Alignment explanation
Indices: 59130320--59130430 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
59130310 CATGGCTACT
* *
59130320 AGAACAGATAA-TGTGACAGAGTCACC
1 AGAACAGATAATTGTGGCAGAGCCACC
*
59130346 AGATACAGATAATTGTGGCAGAACCACC
1 AGA-ACAGATAATTGTGGCAGAGCCACC
59130374 AGAACAGAT-ATATGTGGCAGAGCCACC
1 AGAACAGATAAT-TGTGGCAGAGCCACC
* **
59130401 AGATCAGATAATTTGTGGCATCGCCACC
1 AGAACAGATAA-TTGTGGCAGAGCCACC
59130429 AG
1 AG
59130431 GATGCTTCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
26 5 0.07
27 36 0.49
28 31 0.42
29 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (27 bp):
AGAACAGATAATTGTGGCAGAGCCACC
Found at i:59131876 original size:24 final size:24
Alignment explanation
Indices: 59131845--59131915 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
59131835 CTAGATTTCC
**
59131845 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
* *
59131869 TCCGTTATCAACTCCCAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
59131893 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
59131916 CTCCTGACAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.25, C:0.38, G:0.03, T:0.34
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:59136660 original size:20 final size:20
Alignment explanation
Indices: 59136635--59136675 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
59136625 TCAACTCCCA
59136635 TCAGCTCACTTGAGCTCGAT
1 TCAGCTCACTTGAGCTCGAT
** *
59136655 TCAGCTCGTTTGAGCTTGAT
1 TCAGCTCACTTGAGCTCGAT
59136675 T
1 T
59136676 TTAGCCCATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (20 bp):
TCAGCTCACTTGAGCTCGAT
Found at i:59146337 original size:137 final size:136
Alignment explanation
Indices: 59146090--59146343 Score: 296
Period size: 137 Copynumber: 1.9 Consensus size: 136
59146080 AAGCCAGAAA
* * *
59146090 TGGGTCTGCTCACACAAGCTAATGGTCAGAATGTAACTACACGATATTGCTCACACAAGCTTACG
1 TGGGTCTGCTCACACAAGCTAACGGTCAGAATGTAACTACACGATACTGCTCACACAAGCTGACG
** * * *
59146155 GGTATCTACAAAAAATGTTAGAACTCAACCATCGGTAGGACATTCAGGACCAAAACCCTGAACAG
66 GGTATCTACAAAAAATGCCAGAACTCAACCATCAGTAGAAAATTCAGGACCAAAACCCTGAACAG
59146220 GTAACT
131 GTAACT
* * * * *
59146226 TGGGTCTGCTCACACAAGTTGACGGTC-GAAATGTAAGCTATACGATGCTGCTCCCACAAGCTGA
1 TGGGTCTGCTCACACAAGCTAACGGTCAG-AATGTAA-CTACACGATACTGCTCACACAAGCTGA
* * * * * *
59146290 TGTGTATC-CCTAATAAATGCCAGACCTCCACCATCAGTAGAAAATTCAGGACCA
64 CGGGTATCTAC-AAAAAATGCCAGAACTCAACCATCAGTAGAAAATTCAGGACCA
59146344 GCACCTAAAA
Statistics
Matches: 96, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
135 1 0.01
136 32 0.33
137 63 0.66
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (136 bp):
TGGGTCTGCTCACACAAGCTAACGGTCAGAATGTAACTACACGATACTGCTCACACAAGCTGACG
GGTATCTACAAAAAATGCCAGAACTCAACCATCAGTAGAAAATTCAGGACCAAAACCCTGAACAG
GTAACT
Found at i:59147195 original size:185 final size:184
Alignment explanation
Indices: 59146874--59147244 Score: 589
Period size: 185 Copynumber: 2.0 Consensus size: 184
59146864 ACATCAAGTC
* *
59146874 CTTGAACTATTTCTATTTCAACAATTTAGTCCCTAATCGCGAAATTCATCAAAAATCACTTGACA
1 CTTGAACTATTTCTATTTCAACAATTTAGTCCCTAATCGCGAAATTCATAAAAAATCACTTAACA
* * ** *
59146939 AAATACTTTTAAATACCAACCAATAATCCAAATTGATCATTTAACATCTAAAATCACAAAGATTC
66 AAATAATTTTAAATACAAAAAAATAATCCAAATTCATCATTTAACATCTAAAATCACAAAGATTC
* *
59147004 ATTAATGGAAACATTCAAAATCTTTAACAGTTTCAAAAATAAAGGTAAGGGCTAG
131 ATTAATGAAAAC-TTCAAAATCTTTAACAGTTTCAAAAACAAAGGTAAGGGCTAG
** *
59147059 CTTGAACTATTTCTATTTCAACAATTTAGTCTTTAATTGCGAAATTCATAAAAAATCACTTAACA
1 CTTGAACTATTTCTATTTCAACAATTTAGTCCCTAATCGCGAAATTCATAAAAAATCACTTAACA
* * *
59147124 AAATAATTTTAAATACAAAAAAATAATTCAAATTCATCATTTAACATCTAAAATCACAAATATTT
66 AAATAATTTTAAATACAAAAAAATAATCCAAATTCATCATTTAACATCTAAAATCACAAAGATTC
*
59147189 ATTAATGAAAACTTCAAAATCTTTAACAGTTTCAAAAACAAAGGTACGGGCTAG
131 ATTAATGAAAACTTCAAAATCTTTAACAGTTTCAAAAACAAAGGTAAGGGCTAG
59147243 CT
1 CT
59147245 GGACCTAGTT
Statistics
Matches: 170, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
184 42 0.25
185 128 0.75
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.32
Consensus pattern (184 bp):
CTTGAACTATTTCTATTTCAACAATTTAGTCCCTAATCGCGAAATTCATAAAAAATCACTTAACA
AAATAATTTTAAATACAAAAAAATAATCCAAATTCATCATTTAACATCTAAAATCACAAAGATTC
ATTAATGAAAACTTCAAAATCTTTAACAGTTTCAAAAACAAAGGTAAGGGCTAG
Found at i:59156716 original size:20 final size:19
Alignment explanation
Indices: 59156644--59156722 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 19
59156634 TTGTACGGTA
*
59156644 TTTGCACTTTGGTGCCTCTG
1 TTTGCAC-TTGGTGCCCCTG
* * *
59156664 TATACACTTCGGTGTCCCTG
1 TTTGCACTT-GGTGCCCCTG
* *
59156684 TTCGTACTATGGTGCCCCTG
1 TTTGCACT-TGGTGCCCCTG
59156704 TTTGCACATTGGTGCCCCT
1 TTTGCAC-TTGGTGCCCCT
59156723 TTCTGCACCG
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
19 2 0.04
20 41 0.91
21 2 0.04
ACGTcount: A:0.10, C:0.29, G:0.23, T:0.38
Consensus pattern (19 bp):
TTTGCACTTGGTGCCCCTG
Found at i:59163126 original size:29 final size:28
Alignment explanation
Indices: 59163090--59163171 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
59163080 GCATGAATAT
*
59163090 AATGTGATTTAGGCTTAATGGGCCACATA
1 AATGTGATTT-GGCCTAATGGGCCACATA
* *
59163119 AATGTGATTTGGCCTAAAGGGCCATATA
1 AATGTGATTTGGCCTAATGGGCCACATA
*
59163147 AATGTGATTTGGGCCTAATAGGCCA
1 AATGTGATTT-GGCCTAATGGGCCA
59163172 TGTGAATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 25 0.53
29 22 0.47
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (28 bp):
AATGTGATTTGGCCTAATGGGCCACATA
Found at i:59166580 original size:52 final size:50
Alignment explanation
Indices: 59166514--59166638 Score: 162
Period size: 50 Copynumber: 2.4 Consensus size: 50
59166504 ATGAACAAAT
* * *
59166514 GAGTTACTTAATGCATGATTTAATTTAATGATTCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGATTTAATTT-ATGATGCAAAC-TTAACTAACATGA
*
59166566 GAGTTACATAATGCATG-TCATAATTTATGATGCAAACTTAACTAACATGA
1 GAGTTACATAATGCATGAT-TTAATTTATGATGCAAACTTAACTAACATGA
*
59166616 GAGCTACATAATGCATGACTTTA
1 GAGTTACATAATGCATGA-TTTA
59166639 TTAAATGTAG
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
50 28 0.44
51 13 0.20
52 23 0.36
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (50 bp):
GAGTTACATAATGCATGATTTAATTTATGATGCAAACTTAACTAACATGA
Found at i:59168800 original size:40 final size:40
Alignment explanation
Indices: 59168733--59168909 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
59168723 ACCCAAGTAT
*
59168733 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
59168772 CTTCGGGTCTTAGCACGGATATAGCAACTCGTACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
59168812 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
59168852 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
59168892 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
59168910 TTATCATCCG
Statistics
Matches: 114, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 98 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:59168871 original size:80 final size:79
Alignment explanation
Indices: 59168733--59168909 Score: 241
Period size: 80 Copynumber: 2.2 Consensus size: 79
59168723 ACCCAAGTAT
* * *
59168733 CTTCGGGAT-TTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCACGGATATAGC
1 CTTCGGG-TCTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCACGGATATAGC
*
59168797 AACTCGTACGAATGC
65 AACTCGCACGAATGC
* *
59168812 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAG
1 CTTCGGGTCTTAG-CCGGATATAA-CAACTAGCACAAATGCCTTCGGGACATAGCACGGATATAG
59168876 CAACTCGCACGAATGC
64 CAACTCGCACGAATGC
*
59168892 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAG-CCGG
59168910 TTATCATCCG
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
78 1 0.01
79 11 0.13
80 74 0.85
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCACGGATATAGCA
ACTCGCACGAATGC
Found at i:59171755 original size:42 final size:42
Alignment explanation
Indices: 59171693--59171854 Score: 137
Period size: 42 Copynumber: 3.7 Consensus size: 42
59171683 CGTTTCCTTG
* * *
59171693 ATGCCATAGTCCAACTATGGTCTTACACATCTTCACATAAT-A
1 ATGCCATAGACCAACTATGGTCTTACACATATTAACAT-ATCA
* * ** * *
59171735 ATTCCATAGCCCAGTTATGGTTTTACACATATTAACATATCG
1 ATGCCATAGACCAACTATGGTCTTACACATATTAACATATCA
* *
59171777 ATGCCATAGACCAACTATGGTCTTACACGTAATCACATATCACATATCG
1 ATGCCATAGACCAACTATGGTCTTACAC---AT---AT-TAACATATCA
*
59171826 ATGCCATAGACCAGCTATGGTCTTACACA
1 ATGCCATAGACCAACTATGGTCTTACACA
59171855 GAATCACATA
Statistics
Matches: 97, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 2 0.02
42 54 0.56
45 2 0.02
46 1 0.01
48 2 0.02
49 36 0.37
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (42 bp):
ATGCCATAGACCAACTATGGTCTTACACATATTAACATATCA
Found at i:59171833 original size:49 final size:49
Alignment explanation
Indices: 59171760--59171972 Score: 241
Period size: 50 Copynumber: 4.3 Consensus size: 49
59171750 TATGGTTTTA
* * *
59171760 CACATATTAACATATCGATGCCATAGACCAACTATGGTCTTACACGTAAT
1 CACATAATCACATATCGATGCCATAGACCAGCTATGGTCTTACACG-AAT
59171810 CACAT-ATCACATATCGATGCCATAGACCAGCTATGGTCTTACACAGAAT
1 CACATAATCACATATCGATGCCATAGACCAGCTATGGTCTTACAC-GAAT
* * * * *
59171859 CACATAATCACATACCGATGCCATAGCCCACCTATAGTCTTATACGGAAT
1 CACATAATCACATATCGATGCCATAGACCAGCTATGGTCTTACAC-GAAT
* * * * *
59171909 CACATAATCACATA-CTGATGCTATAGCCCAGCTATGATCTTATAAGGAAAT
1 CACATAATCACATATC-GATGCCATAGACCAGCTATGGTCTTA-CACG-AAT
59171960 CACATAATCACAT
1 CACATAATCACAT
59171973 CTTGCCATGA
Statistics
Matches: 143, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 45 0.31
50 81 0.57
51 17 0.12
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (49 bp):
CACATAATCACATATCGATGCCATAGACCAGCTATGGTCTTACACGAAT
Found at i:59171900 original size:99 final size:101
Alignment explanation
Indices: 59171760--59171972 Score: 272
Period size: 99 Copynumber: 2.1 Consensus size: 101
59171750 TATGGTTTTA
* * * * *
59171760 CACATATTAACATATCGATGCCATAGACCAACTATGGTCTTACACGTAATCACAT-ATCACATA-
1 CACATAATCACATACCGATGCCATAGACCAACTATAGTCTTACACGGAATCACATAATCACATAC
*
59171823 TCGATGCCATAGACCAGCTATGGTCTTACACA-G-AAT
66 T-GATGCCATAGACCAGCTATGATCTTACA-AGGAAAT
* * *
59171859 CACATAATCACATACCGATGCCATAGCCCACCTATAGTCTTATACGGAATCACATAATCACATAC
1 CACATAATCACATACCGATGCCATAGACCAACTATAGTCTTACACGGAATCACATAATCACATAC
* * *
59171924 TGATGCTATAGCCCAGCTATGATCTTATAAGGAAAT
66 TGATGCCATAGACCAGCTATGATCTTACAAGGAAAT
59171960 CACATAATCACAT
1 CACATAATCACAT
59171973 CTTGCCATGA
Statistics
Matches: 98, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
99 48 0.49
100 33 0.34
101 17 0.17
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (101 bp):
CACATAATCACATACCGATGCCATAGACCAACTATAGTCTTACACGGAATCACATAATCACATAC
TGATGCCATAGACCAGCTATGATCTTACAAGGAAAT
Found at i:59174709 original size:49 final size:49
Alignment explanation
Indices: 59174655--59174886 Score: 266
Period size: 49 Copynumber: 4.7 Consensus size: 49
59174645 CTGGTACGCA
* **
59174655 TAGTAGCCTGCACATAGTACTACACATGCAACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
*
59174704 TAGTAGCCTACACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * ** * *
59174753 TAGTAGCCTGCACTTAGTAATACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* ** * * ** *
59174803 TAGTAGCCTGCACTTAGTACTACACACGTGATCACTGTTTTCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAATTATCCGGTACACG
*
59174854 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
59174887 TCACAATAGA
Statistics
Matches: 156, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 76 0.49
50 43 0.28
51 36 0.23
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:59174826 original size:99 final size:101
Alignment explanation
Indices: 59174642--59174879 Score: 266
Period size: 99 Copynumber: 2.4 Consensus size: 101
59174632 TAGCCAAAGC
* * * * * ** ** * *
59174642 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCAACC-AATTATCCGGTACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTAATACACACGTGACCTAACCATCTGATACACGTA
*
59174706 GTAGCCTACACTTAGTACTACACATGTGA-C-CAAT
66 GTAGCCTACACTTAGTACTACACACGTGATCACAAT
*
59174740 TATCCGGTACACGTAGTAGCCTGCACTTAGTAATACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTAATACACACGTGACCTAACCATCTGATACACGTA
* **
59174805 GTAGCCTGCACTTAGTACTACACACGTGATCACTGT
66 GTAGCCTACACTTAGTACTACACACGTGATCACAAT
* * ** *
59174841 TTTCGGGTATGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTAATACACA
59174880 TGCGACCTCA
Statistics
Matches: 115, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
98 38 0.33
99 41 0.36
100 1 0.01
101 35 0.30
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (101 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTAATACACACGTGACCTAACCATCTGATACACGTA
GTAGCCTACACTTAGTACTACACACGTGATCACAAT
Found at i:59177066 original size:15 final size:15
Alignment explanation
Indices: 59177018--59177084 Score: 66
Period size: 15 Copynumber: 4.5 Consensus size: 15
59177008 TAAAGATAAC
*
59177018 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
59177032 AAGAAATCCTAG-ATA
1 AAGAAA-CCCAGAATA
*
59177047 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
* *
59177062 AAGAAACCTAGAGTA
1 AAGAAACCCAGAATA
59177077 AAGAAACC
1 AAGAAACC
59177085 GAAGATACGA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
14 10 0.23
15 32 0.74
16 1 0.02
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:59177071 original size:29 final size:30
Alignment explanation
Indices: 59177018--59177084 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
59177008 TAAAGATAAC
*
59177018 AAGAAAACCGAATAAAGAAATCCTAGA-TA
1 AAGAAACCCGAATAAAGAAATCCTAGAGTA
*
59177047 GAGAAACCCAGAATAAAGAAA-CCTAGAGTA
1 AAGAAACCC-GAATAAAGAAATCCTAGAGTA
59177077 AAGAAACC
1 AAGAAACC
59177085 GAAGATACGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGAATAAAGAAATCCTAGAGTA
Found at i:59177941 original size:6 final size:6
Alignment explanation
Indices: 59177930--59177962 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
59177920 GCTCAACTCT
59177930 CATATA CATATA CATATA CATATA CATATA CAT
1 CATATA CATATA CATATA CATATA CATATA CAT
59177963 GTAACACAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (6 bp):
CATATA
Found at i:59180168 original size:49 final size:49
Alignment explanation
Indices: 59180115--59180339 Score: 288
Period size: 49 Copynumber: 4.5 Consensus size: 49
59180105 CTGGTACGCA
* * *
59180115 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
59180164 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * *
59180213 TAGTAGCCTGCACTTAATACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * * *
59180263 TAGTAGCCTACACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
*
59180314 TAGTAGCATGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
59180340 TGCGACCTCA
Statistics
Matches: 153, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
49 78 0.51
50 41 0.27
51 33 0.22
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:59180284 original size:99 final size:100
Alignment explanation
Indices: 59180102--59180346 Score: 305
Period size: 99 Copynumber: 2.5 Consensus size: 100
59180092 TAGCCAAAGC
* * * * ** *
59180102 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
*
59180167 TAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
66 TAGCCTACACTTAGTACTACACACGTGATCACAAT
* * * *
59180200 TATCCGGTACACGTAGTAGCCTGCACTTAATACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGTA
*
59180265 GTAGCCTACACTTAGTACTACACACGTGATCACAGT
65 GTAGCCTACACTTAGTACTACACACGTGATCACAAT
* * * * *
59180301 TTTCGGGTACGCATAGTAGCATGCACTTAGTACTACACATGCGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
59180347 TCACAATAGA
Statistics
Matches: 123, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
98 39 0.32
99 42 0.34
100 1 0.01
101 41 0.33
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (100 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
TAGCCTACACTTAGTACTACACACGTGATCACAAT
Found at i:59182011 original size:24 final size:24
Alignment explanation
Indices: 59181981--59182030 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
59181971 GCCTCGGCCA
*
59181981 TTTTAAAATGATCCATTTTCCATT
1 TTTTAAAACGATCCATTTTCCATT
59182005 TTTTAAAACGATCCATTTTCCATT
1 TTTTAAAACGATCCATTTTCCATT
59182029 TT
1 TT
59182031 AGTCCTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.18, G:0.04, T:0.50
Consensus pattern (24 bp):
TTTTAAAACGATCCATTTTCCATT
Found at i:59184558 original size:68 final size:67
Alignment explanation
Indices: 59184512--59184669 Score: 262
Period size: 68 Copynumber: 2.3 Consensus size: 67
59184502 ATACTATATA
59184512 GTAGCTAGGTCACATGTGTGATACGAGATCTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGAGATCTATCCCATGTAGACAAGAGAGCTAC-TGAGAGATA
59184577 AAT
65 AAT
* *
59184580 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGAGATCTATCCCATGTAGACAAGAGAGCTAC-TGAGAGATA
59184645 AAT
65 AAT
* *
59184648 GTAGCTAGGTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
59184670 TCCAAGTGAA
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 86 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGATACGAGATCTATCCCATGTAGACAAGAGAGCTACTGAGAGATAA
AT
Found at i:59184743 original size:66 final size:67
Alignment explanation
Indices: 59184546--59184743 Score: 192
Period size: 68 Copynumber: 2.9 Consensus size: 67
59184536 GAGATCTATC
* * *
59184546 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
* *
59184608 TGTATC-
62 AGGA-CA
*
59184614 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
59184679 AGGACA
62 AGGACA
* *
59184685 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
59184744 TTCACCATGT
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
66 24 0.21
67 9 0.08
68 55 0.47
69 1 0.01
70 1 0.01
71 26 0.22
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:59193356 original size:33 final size:33
Alignment explanation
Indices: 59193314--59193379 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
59193304 TTGATGAGAG
59193314 GATATGTATGATATTACGATACTGTTTCTTCTA
1 GATATGTATGATATTACGATACTGTTTCTTCTA
* *
59193347 GATATGTATGATATTATGATACTGTTTTTTCTA
1 GATATGTATGATATTACGATACTGTTTCTTCTA
59193380 CTTAATGCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.48
Consensus pattern (33 bp):
GATATGTATGATATTACGATACTGTTTCTTCTA
Found at i:59193578 original size:15 final size:15
Alignment explanation
Indices: 59193554--59193622 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
59193544 AATCGTATCT
59193554 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
*
59193569 TGGATTTCTTTATTC
1 TGGGTTTCTTTATTC
59193584 TGGGTTT-TTCTA-TC
1 TGGGTTTCTT-TATTC
59193598 TTGGGTTTCTTTATTC
1 -TGGGTTTCTTTATTC
*
59193614 -GGTTTTCTT
1 TGGGTTTCTT
59193623 GTCATCTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
14 12 0.26
15 31 0.66
16 4 0.09
ACGTcount: A:0.07, C:0.13, G:0.19, T:0.61
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:59198882 original size:42 final size:42
Alignment explanation
Indices: 59198836--59198986 Score: 160
Period size: 42 Copynumber: 3.4 Consensus size: 42
59198826 ATTCCATAGT
*
59198836 CCAACTATGGTCTTACACATCTTCACATAAT-GATGCCACAAC
1 CCAACTATGGTCTTACACATATTCACAT-ATCGATGCCACAAC
* *
59198878 CCAACTATGGTCTTACACATATTCACATATCGATGCCATAGC
1 CCAACTATGGTCTTACACATATTCACATATCGATGCCACAAC
* * *
59198920 CCAGCTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGC
1 CCAACTATGGTCTTACAC---AT---AT-TCACATATCGATGCCACAAC
*
59198969 CCAGCTATGGTCTTACAC
1 CCAACTATGGTCTTACAC
59198987 GGAATCACAT
Statistics
Matches: 97, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
41 2 0.02
42 53 0.55
45 2 0.02
48 2 0.02
49 38 0.39
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.27
Consensus pattern (42 bp):
CCAACTATGGTCTTACACATATTCACATATCGATGCCACAAC
Found at i:59199025 original size:50 final size:50
Alignment explanation
Indices: 59198900--59199112 Score: 338
Period size: 50 Copynumber: 4.3 Consensus size: 50
59198890 TTACACATAT
* *
59198900 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACAT-A
1 TCACATACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATGA
*
59198949 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATGA
1 TCACATACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATGA
* *
59198999 TCACATACCGATGCCATAGCCTAGCTATGGTCTTACACGAAATCACATGA
1 TCACATACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATGA
* * *
59199049 TCACATACCGATGCCATAGCCCAACTATGGTCTTACATGGAATCACATAA
1 TCACATACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATGA
*
59199099 TCACATACCAATGC
1 TCACATACCGATGC
59199113 TTATAAGTAA
Statistics
Matches: 153, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 47 0.31
50 106 0.69
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (50 bp):
TCACATACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATGA
Found at i:59202855 original size:21 final size:21
Alignment explanation
Indices: 59202831--59202875 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
59202821 ATACAACACG
59202831 TAAGTCACATGCATACTCATA
1 TAAGTCACATGCATACTCATA
59202852 TAAGTCACATGCATACTCATA
1 TAAGTCACATGCATACTCATA
59202873 TAA
1 TAA
59202876 CAAATACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (21 bp):
TAAGTCACATGCATACTCATA
Found at i:59203828 original size:18 final size:18
Alignment explanation
Indices: 59203795--59203847 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
59203785 CTCTTTTTTT
*
59203795 AAAACAA-AAGAAATAAC
1 AAAACAACAAAAAATAAC
* *
59203812 AAAATAACAAAAAATAAT
1 AAAACAACAAAAAATAAC
*
59203830 AAAACAATAAAATAATAA
1 AAAACAACAAAA-AATAA
59203848 AAGAAATCCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 6 0.21
18 18 0.62
19 5 0.17
ACGTcount: A:0.77, C:0.08, G:0.02, T:0.13
Consensus pattern (18 bp):
AAAACAACAAAAAATAAC
Found at i:59203830 original size:21 final size:20
Alignment explanation
Indices: 59203797--59203839 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
59203787 CTTTTTTTAA
*
59203797 AACAAAAGAAATAACAA-AAT
1 AACAAAAAAAATAA-AACAAT
59203817 AACAAAAAATAATAAAACAAT
1 AACAAAAAA-AATAAAACAAT
59203838 AA
1 AA
59203840 AATAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.77, C:0.09, G:0.02, T:0.12
Consensus pattern (20 bp):
AACAAAAAAAATAAAACAAT
Found at i:59203843 original size:16 final size:15
Alignment explanation
Indices: 59203817--59203849 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
59203807 ATAACAAAAT
59203817 AACAAAAAATAATAA
1 AACAAAAAATAATAA
59203832 AACAATAAAATAATAA
1 AACAA-AAAATAATAA
59203848 AA
1 AA
59203850 GAAATCCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (15 bp):
AACAAAAAATAATAA
Found at i:59218823 original size:22 final size:22
Alignment explanation
Indices: 59218795--59218836 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
59218785 TGCCCTTGGA
*
59218795 GTTAGAACATAGAGCTTACTGG
1 GTTAGAACATAAAGCTTACTGG
59218817 GTTAGAACATAAAGCTTACT
1 GTTAGAACATAAAGCTTACT
59218837 AGGCTCTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (22 bp):
GTTAGAACATAAAGCTTACTGG
Found at i:59220038 original size:21 final size:21
Alignment explanation
Indices: 59220005--59220065 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
59219995 CTCTTGAAAT
59220005 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
59220025 AGGGCAATACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
59220046 AGGGCAACACGCCAGTGTGG
1 AGGGCAACACGCCCGTGTGG
59220066 TCATTATAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
20 5 0.14
21 32 0.86
ACGTcount: A:0.23, C:0.26, G:0.39, T:0.11
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:59221505 original size:94 final size:92
Alignment explanation
Indices: 59221360--59221530 Score: 240
Period size: 94 Copynumber: 1.8 Consensus size: 92
59221350 TCTCGTAGTC
*
59221360 GATGCATGTCCCAGACATGTCTTACACTGGCTTATATCTCGAGGCCAATGCATGT-CTCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTATATATCGAGGCCAATGCATGTCCT-AGACAT
59221424 GTCTTACACTAGCTCTCGTCTCAATACT
65 GTCTTACACTAGCTCTCGTCTCAATACT
* * *
59221452 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-GTGGTCGATGCATGTCCTAGA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-ATATATCGAGGCCAATGCATGTCCTAGA
59221515 CATGTCTTACACTAGC
62 CATGTCTTACACTAGC
59221531 ACACAAATAT
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
92 4 0.06
93 14 0.20
94 45 0.64
95 4 0.06
96 3 0.04
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.30
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTATATATCGAGGCCAATGCATGTCCTAGACATG
TCTTACACTAGCTCTCGTCTCAATACT
Found at i:59223223 original size:27 final size:27
Alignment explanation
Indices: 59223206--59223731 Score: 570
Period size: 27 Copynumber: 19.7 Consensus size: 27
59223196 TTACACTACA
* *
59223206 AGGGTATTTCAGTAATTTTACATTAT-A
1 AGGGTATTTCAGTAATTTTACA-AATCG
*
59223233 AAGGTATTTC-GATAATTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
*
59223260 AGGGTGTTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* ** *
59223287 AAGGTATTTTGGTAATTTTACAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
*
59223314 AGGGTATTTC-GTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* ** *
59223340 AGGGTGTTTTGGTAATTTCACAAATCTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
* *
59223368 -GGGTATTTCGGTAATATTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
59223394 AGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
59223421 AGGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
59223447 AGGGTATTTC-GATAATTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
** *
59223474 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
59223501 AGGGTATTTCAATAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* **
59223527 AGAGTATTTTGGTAATTTTACAAATC-
1 AGGGTATTTCAGTAATTTTACAAATCG
*
59223553 AGGGGTATTTC-GATAATTTTACAAATTG
1 A-GGGTATTTCAG-TAATTTTACAAATCG
** * *
59223581 AGGGTATTTTGGTAATTTCAC-AATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
**
59223607 ATAGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
59223634 AGGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
59223660 AAGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* ** *
59223687 GGGGTATTTTGGTAATTTTACAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
59223714 AGGGTATTTCAGTAATTT
1 AGGGTATTTCAGTAATTT
59223732 CTCTTTATTA
Statistics
Matches: 419, Mismatches: 64, Indels: 32
0.81 0.12 0.06
Matches are distributed among these distances:
25 1 0.00
26 115 0.27
27 298 0.71
28 5 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:59223350 original size:53 final size:54
Alignment explanation
Indices: 59223206--59223731 Score: 555
Period size: 53 Copynumber: 9.8 Consensus size: 54
59223196 TTACACTACA
* * * *
59223206 AGGGTATTTCAGTAATTTTAC-ATTATAAAGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAAT-TGAGGGTATTTCGGTAATTTTACAAATCG
* * * * *
59223260 AGGGTGTTTCAGTAATTTTACAAATCGAAGGTATTTTGGTAATTTTACAAATCA
1 AGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAATCG
* * *
59223314 AGGGTATTTC-GTAATTTTACAAATTGAGGGTGTTTTGGTAATTTCACAAATCTG
1 AGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAATC-G
* * * *
59223368 -GGGTATTTCGGTAATATTACAAATCGAGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAATCG
* * *
59223421 AGGGTATTTCAGTAATTTCAC-AATCGAGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAATCG
** ** *
59223474 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAATAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAATCG
* ** * * *
59223527 AGAGTATTTTGGTAATTTTACAAA-TCAGGGGTATTTCGATAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTTACAAATCG
** * ** *
59223581 AGGGTATTTTGGTAATTTCAC-AATTGATAGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAATCG
* * * *
59223634 AGGGTATTTCAGTAATTTCAC-AATCGAAGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAATCG
* ** ** *
59223687 GGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTT
1 AGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCGGTAATTT
59223732 CTCTTTATTA
Statistics
Matches: 406, Mismatches: 57, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
52 2 0.00
53 228 0.56
54 174 0.43
55 2 0.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAATCG
Found at i:59223732 original size:80 final size:79
Alignment explanation
Indices: 59223206--59223731 Score: 608
Period size: 80 Copynumber: 6.6 Consensus size: 79
59223196 TTACACTACA
* * * *
59223206 AGGGTATTTCAGTAATTTTACATTAT-AAAGGTATTTCGATAATTTTACAAATCGAGGGTGTTTC
1 AGGGTATTTCGGTAATTTTACA-AATCAAGGGTATTTCG-TAATTTTACAAATCGAGGGTATTTC
*
59223270 AGTAATTTTACAAATCG
64 AGTAATTTCAC-AATCG
* * * * **
59223287 AAGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGTAATTTTACAAATTGAGGGTGTTTTGG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGTAATTTTACAAATCGAGGGTATTTCAG
59223352 TAATTTCACAAATCTG
66 TAATTTCAC-AATC-G
* *
59223368 -GGGTATTTCGGTAATATTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCA
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTC-GTAATTTTACAAATCGAGGGTATTTCA
59223432 GTAATTTCACAATCG
65 GTAATTTCACAATCG
* * * *
59223447 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCA
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTA-TTTCGTAATTTTACAAATCGAGGGTATTTCA
*
59223512 ATAATTTCACAATCG
65 GTAATTTCACAATCG
* * * * **
59223527 AGAGTATTTTGGTAATTTTACAAATCAGGGGTATTTCGATAATTTTACAAATTGAGGGTATTTTG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCG-TAATTTTACAAATCGAGGGTATTTCA
*
59223592 GTAATTTCACAATTG
65 GTAATTTCACAATCG
** * * * * *
59223607 ATAGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCAC-AATCGAAGGTATTTCG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTC-GTAATTTTACAAATCGAGGGTATTTCA
* *
59223671 GTAATTTTACAAATTG
65 GTAATTTCAC-AATCG
* *
59223687 GGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTT
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTC-GTAATTT
59223732 CTCTTTATTA
Statistics
Matches: 389, Mismatches: 48, Indels: 17
0.86 0.11 0.04
Matches are distributed among these distances:
79 27 0.07
80 294 0.76
81 68 0.17
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (79 bp):
AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGTAATTTTACAAATCGAGGGTATTTCAG
TAATTTCACAATCG
Found at i:59224116 original size:28 final size:28
Alignment explanation
Indices: 59224048--59224170 Score: 140
Period size: 28 Copynumber: 4.4 Consensus size: 28
59224038 TGGACCCTTT
* * * * *
59224048 AGGCCCAATCTTGTTCATATGACCCCTTT
1 AGGCCCAATCTCGTTCACATG-GCCCATC
*
59224077 AGGTCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCTCGTTCACATGGCCCATC
59224105 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCTCGTTCACATGGCCCATC
* *
59224133 AGGCCCAATCAT-ATTCATATGGCCCATC
1 AGGCCCAATC-TCGTTCACATGGCCCATC
*
59224161 AAGCCCAATC
1 AGGCCCAATC
59224171 ACTTCCCACC
Statistics
Matches: 83, Mismatches: 10, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
28 64 0.77
29 19 0.23
ACGTcount: A:0.24, C:0.35, G:0.15, T:0.25
Consensus pattern (28 bp):
AGGCCCAATCTCGTTCACATGGCCCATC
Found at i:59226589 original size:13 final size:13
Alignment explanation
Indices: 59226567--59226599 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
59226557 AAGGGTTTGT
59226567 TTAT-TAAACTAA
1 TTATCTAAACTAA
59226579 TTATCTAAACTAA
1 TTATCTAAACTAA
*
59226592 TTAACTAA
1 TTATCTAA
59226600 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:59229505 original size:5 final size:5
Alignment explanation
Indices: 59229451--59229525 Score: 55
Period size: 5 Copynumber: 14.2 Consensus size: 5
59229441 TATGTCTTTC
* * *
59229451 AAAAT AAAA- AAATT GAAAT GAAAAT AATAAT CAAAAGA AAAAT AAGAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT -AAAA-T AAAAT AA-AAT
59229500 AAAAT -AAAT AAAAT AAAAAT AAAAT A
1 AAAAT AAAAT AAAAT -AAAAT AAAAT A
59229526 TGAGGATTCA
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
4 7 0.12
5 24 0.43
6 23 0.41
7 2 0.04
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:59229505 original size:11 final size:10
Alignment explanation
Indices: 59229451--59229525 Score: 55
Period size: 11 Copynumber: 7.1 Consensus size: 10
59229441 TATGTCTTTC
59229451 AAAATAAAA-
1 AAAATAAAAT
* *
59229460 AAATTGAAAT
1 AAAATAAAAT
59229470 GAAAATAATAAT
1 -AAAATAA-AAT
*
59229482 CAAAAGAAAAAT
1 -AAAA-TAAAAT
59229494 AAGAATAAAAT
1 AA-AATAAAAT
59229505 -AAATAAAAT
1 AAAATAAAAT
59229514 AAAAATAAAAT
1 -AAAATAAAAT
59229525 A
1 A
59229526 TGAGGATTCA
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
9 15 0.29
10 2 0.04
11 21 0.40
12 12 0.23
13 2 0.04
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.19
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:59235452 original size:47 final size:47
Alignment explanation
Indices: 59235365--59235532 Score: 246
Period size: 47 Copynumber: 3.6 Consensus size: 47
59235355 CCCTTCGGGA
* * * * *
59235365 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
59235412 CCTGTTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
59235459 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
59235506 CTTATCAGATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
59235533 ACCAACCCTT
Statistics
Matches: 107, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 107 1.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:59235828 original size:39 final size:40
Alignment explanation
Indices: 59235738--59235901 Score: 167
Period size: 40 Copynumber: 4.1 Consensus size: 40
59235728 CGGAATTTAA
** *
59235738 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
59235778 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
59235817 CCGGA-ATTAGTATCTCACACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
59235857 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
59235897 CCGGA
1 CCGGA
59235902 CATCATTCGA
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
38 3 0.03
39 31 0.30
40 58 0.56
41 11 0.11
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:59239945 original size:40 final size:40
Alignment explanation
Indices: 59239901--59240158 Score: 446
Period size: 40 Copynumber: 6.5 Consensus size: 40
59239891 TCTTCGAGGT
* * * *
59239901 TTAGCACGGATATATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
* *
59239941 TTAGCCCGGATACATCACTAGTACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
59239981 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
59240021 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
59240061 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
59240101 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGGC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
59240141 TTAGCCCGGATA-ATCACT
1 TTAGCCCGGATATATCACT
59240159 CTCAATTCTC
Statistics
Matches: 209, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
39 6 0.03
40 203 0.97
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
Found at i:59244774 original size:40 final size:40
Alignment explanation
Indices: 59244695--59244951 Score: 421
Period size: 40 Copynumber: 6.5 Consensus size: 40
59244685 CTTCGAGGTT
* * *
59244695 TTAGCACGGATATATTACTAGCACGAATGCTCTTC-GGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
* *
59244734 TTAGCCCGGATACATCATCTAGTACGAATGCTCCT-GGGAC
1 TTAGCCCGGATATATCA-CTAGCACGAATGCTCCTCGGGAC
59244774 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
59244814 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
59244854 TTAGCCTGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
59244894 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGGC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
59244934 TTAGCCCGGATAT-TCACT
1 TTAGCCCGGATATATCACT
59244952 CTCAATTTCA
Statistics
Matches: 205, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
39 35 0.17
40 170 0.83
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
Found at i:59247038 original size:46 final size:47
Alignment explanation
Indices: 59246917--59247081 Score: 239
Period size: 46 Copynumber: 3.6 Consensus size: 47
59246907 GCCTTCGGGA
* * * * *
59246917 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACT-CGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
59246963 CTGT-T-ACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
59247009 CTTATCACATATAT-CACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
59247055 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
59247082 ACCAACCCTT
Statistics
Matches: 107, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
45 33 0.31
46 53 0.50
47 21 0.20
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:59247342 original size:40 final size:39
Alignment explanation
Indices: 59247305--59247396 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
59247295 GCTACTCGTT
*
59247305 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
59247345 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
59247384 CAAATGCCTTCGG
1 CAAATGCCTTCGG
59247397 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:59247376 original size:39 final size:40
Alignment explanation
Indices: 59247286--59247447 Score: 172
Period size: 40 Copynumber: 4.1 Consensus size: 40
59247276 CGGAATTTAA
** *
59247286 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
59247326 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59247365 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
59247405 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
59247445 CCG
1 CCG
59247448 ACATCATTCA
Statistics
Matches: 103, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.31
40 56 0.54
41 12 0.12
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:59251484 original size:40 final size:40
Alignment explanation
Indices: 59251440--59251697 Score: 455
Period size: 40 Copynumber: 6.5 Consensus size: 40
59251430 TCTTCGAGGT
* * * *
59251440 TTAGCACGGATATATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
* *
59251480 TTAGCCCGGATACATCACTAGTACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
59251520 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
59251560 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
59251600 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
59251640 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGG-C
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
59251679 TTAGCCCGGATATATCACT
1 TTAGCCCGGATATATCACT
59251698 CTCAATTCTC
Statistics
Matches: 210, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
39 20 0.10
40 190 0.90
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
Found at i:59253756 original size:47 final size:47
Alignment explanation
Indices: 59253669--59253836 Score: 255
Period size: 47 Copynumber: 3.6 Consensus size: 47
59253659 CCCTTCGGGA
* * * * *
59253669 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
59253716 CCTGTTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
59253763 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
59253810 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
59253837 ACCAACCCTT
Statistics
Matches: 108, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 108 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:59254098 original size:40 final size:39
Alignment explanation
Indices: 59254061--59254152 Score: 123
Period size: 39 Copynumber: 2.3 Consensus size: 39
59254051 GCTACTCGTT
*
59254061 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* * *
59254101 CAAATGCTTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
59254140 CAAATGCCTTCGG
1 CAAATGCCTTCGG
59254153 ATCTTAGTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 32 0.70
40 14 0.30
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:59254132 original size:39 final size:40
Alignment explanation
Indices: 59254042--59254205 Score: 167
Period size: 40 Copynumber: 4.1 Consensus size: 40
59254032 CGAAATTTAA
** *
59254042 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59254082 CCGGTTATAGTAACTCGCACAAATGCTTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59254121 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
59254161 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
59254201 CCGGA
1 CCGGA
59254206 CATCATTCGA
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
38 3 0.03
39 31 0.30
40 57 0.55
41 12 0.12
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:59258248 original size:40 final size:40
Alignment explanation
Indices: 59258204--59258462 Score: 446
Period size: 40 Copynumber: 6.5 Consensus size: 40
59258194 TCTTCGAGGT
* * * *
59258204 TTAGCACGGATATATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
* *
59258244 TTAGCCCGGATACATCACTAGTACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
59258284 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
59258324 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
59258364 TTAGCCCGGATATATCACTAGCAGGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
59258404 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGGC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
59258444 TTAGCCCGGATATATCACT
1 TTAGCCCGGATATATCACT
59258463 CTCAATTCTC
Statistics
Matches: 208, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 208 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
Found at i:59259956 original size:13 final size:13
Alignment explanation
Indices: 59259934--59259966 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
59259924 AAGGGTTTAT
59259934 TTAT-TAAACTAA
1 TTATCTAAACTAA
59259946 TTATCTAAACTAA
1 TTATCTAAACTAA
*
59259959 TTAACTAA
1 TTATCTAA
59259967 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:59265074 original size:34 final size:33
Alignment explanation
Indices: 59265011--59265072 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
59265001 AATAGTACAT
59265011 ATTTTTTTATCTATTATATTATTATTATATTAA
1 ATTTTTTTATCTATTATATTATTATTATATTAA
*
59265044 ATTTTTTTATC-A-TATATTTTTATATATAT
1 ATTTTTTTATCTATTATATTATTAT-TATAT
59265073 ATACATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 10 0.37
32 6 0.22
33 11 0.41
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (33 bp):
ATTTTTTTATCTATTATATTATTATTATATTAA
Found at i:59265205 original size:15 final size:14
Alignment explanation
Indices: 59265178--59265215 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
59265168 TATTATTTTA
59265178 TATATTTATTATAT
1 TATATTTATTATAT
59265192 TATATTTCATTATAT
1 TATATTT-ATTATAT
*
59265207 TTTATTTAT
1 TATATTTAT
59265216 GTGTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (14 bp):
TATATTTATTATAT
Found at i:59265313 original size:12 final size:12
Alignment explanation
Indices: 59265278--59265316 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
59265268 TATTTTTCTT
*
59265278 TTATATATTATA
1 TTATATATTTTA
59265290 TTATATACATTTTA
1 TTATAT--ATTTTA
59265304 TTATATATTTTA
1 TTATATATTTTA
59265316 T
1 T
59265317 ATTACTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 13 0.54
14 11 0.46
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATATATTTTA
Found at i:59265319 original size:14 final size:14
Alignment explanation
Indices: 59265229--59265320 Score: 55
Period size: 14 Copynumber: 6.4 Consensus size: 14
59265219 TTTTTATTAC
*
59265229 ATATTATATTTTTT
1 ATATTATATATTTT
59265243 AT-TCTATATTATTCCTT
1 ATAT-TATA-TATT--TT
* *
59265260 ATAATATCTATTTT
1 ATATTATATATTTT
* * *
59265274 -TCTTTTATATATT
1 ATATTATATATTTT
*
59265287 ATATTATATACATTT
1 ATATTATATA-TTTT
59265302 -TATTATATATTTT
1 ATATTATATATTTT
59265315 ATATTA
1 ATATTA
59265321 CTTATTATAC
Statistics
Matches: 57, Mismatches: 13, Indels: 16
0.66 0.15 0.19
Matches are distributed among these distances:
13 12 0.21
14 29 0.51
15 5 0.09
16 4 0.07
17 7 0.12
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.62
Consensus pattern (14 bp):
ATATTATATATTTT
Found at i:59267824 original size:21 final size:21
Alignment explanation
Indices: 59267800--59267841 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59267790 GGTTAATTTT
* * *
59267800 GTAATTTAATTAATAAACAAA
1 GTAAATTAATAAAGAAACAAA
59267821 GTAAATTAATAAAGAAACAAA
1 GTAAATTAATAAAGAAACAAA
59267842 AGTTTTCATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.26
Consensus pattern (21 bp):
GTAAATTAATAAAGAAACAAA
Found at i:59285317 original size:14 final size:15
Alignment explanation
Indices: 59285280--59285325 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
59285270 ATATATATGA
*
59285280 ATTATTAATAAATTAT
1 ATTA-TAATTAATTAT
59285296 ATTA-AATTAATT-T
1 ATTATAATTAATTAT
59285309 ATTATAATTATATTAT
1 ATTATAATTA-ATTAT
59285325 A
1 A
59285326 AGATATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.19
14 12 0.46
15 3 0.12
16 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTATAATTAATTAT
Found at i:59286572 original size:51 final size:54
Alignment explanation
Indices: 59286487--59286604 Score: 152
Period size: 51 Copynumber: 2.2 Consensus size: 54
59286477 AAGTGTCGAC
* *
59286487 TACTGTTACTGTTCTGGATTCGTTCTGAAAAGGTACT-T-CGTACC-TTACTGT
1 TACTGTTACTGTTCTGGATTCGTTCCGAAAAGGTACTCTGCGTACCACTACTGT
* * ** *
59286538 TACTTTTACTGTTCTGGATTTGTTCCGATGAGGTACTCTGTGTACCACTACTGT
1 TACTGTTACTGTTCTGGATTCGTTCCGAAAAGGTACTCTGCGTACCACTACTGT
59286592 TACTGTTACTGTT
1 TACTGTTACTGTT
59286605 ACTATTACCG
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
51 32 0.57
52 1 0.02
53 5 0.09
54 18 0.32
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.43
Consensus pattern (54 bp):
TACTGTTACTGTTCTGGATTCGTTCCGAAAAGGTACTCTGCGTACCACTACTGT
Found at i:59286799 original size:17 final size:18
Alignment explanation
Indices: 59286759--59286800 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
59286749 AATATTTGAC
*
59286759 TGTTACTGAATTACTGAT
1 TGTTACTGAATGACTGAT
* *
59286777 TATTACTG-ATGACTGGT
1 TGTTACTGAATGACTGAT
59286794 TGTTACT
1 TGTTACT
59286801 AAAATGAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.45
Consensus pattern (18 bp):
TGTTACTGAATGACTGAT
Found at i:59287563 original size:11 final size:10
Alignment explanation
Indices: 59287526--59287571 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
59287516 CACTTAGACA
*
59287526 TAATTATGAT
1 TAATTATGTT
59287536 TAATTTATGTT
1 TAA-TTATGTT
59287547 TAATTATGTCT
1 TAATTATGT-T
59287558 TAATTA-G-T
1 TAATTATGTT
59287566 TAATTA
1 TAATTA
59287572 AGAAAAGTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 7 0.21
10 10 0.30
11 16 0.48
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (10 bp):
TAATTATGTT
Found at i:59288571 original size:5 final size:5
Alignment explanation
Indices: 59288551--59288589 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
59288541 TATATATATA
* *
59288551 TGAAT TGGAG TGAAT TGAAT TGAAT TGAAT TGAAT TGAA
1 TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAA
59288590 AGAAATGCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (5 bp):
TGAAT
Found at i:59293385 original size:43 final size:43
Alignment explanation
Indices: 59293334--59293419 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
59293324 GAGATATGTG
* * *
59293334 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATAGATGCAA
1 GCATCCGAGCTCATTCAGAGGTCCGAGTTCATGATAGATGCAA
* * *
59293377 GCATCCGAGCTCATTCAGTGGTTCGAGTTCATGATGGATGCAA
1 GCATCCGAGCTCATTCAGAGGTCCGAGTTCATGATAGATGCAA
59293420 TTCATGTAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (43 bp):
GCATCCGAGCTCATTCAGAGGTCCGAGTTCATGATAGATGCAA
Found at i:59297402 original size:104 final size:104
Alignment explanation
Indices: 59297280--59297503 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
59297270 AATGGATATC
59297280 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
59297345 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
59297384 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
59297449 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
59297488 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
59297504 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:59297865 original size:29 final size:29
Alignment explanation
Indices: 59297832--59297895 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
59297822 TAATCCACCA
59297832 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
59297861 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
59297891 CCCAA
1 CCCAA
59297896 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:59297869 original size:30 final size:30
Alignment explanation
Indices: 59297839--59297895 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
59297829 CCACCCAACT
59297839 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
59297868 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
59297896 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:59307456 original size:42 final size:43
Alignment explanation
Indices: 59307400--59307513 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 43
59307390 AACTAAGAAG
* * * * *
59307400 TCTGAACTCGTTGAGTGATCCGAGTTCGTCAGATATG-TGGCA
1 TCTGAGCTCGTTGAGTGGTCCGAGTTCATCAGAGATGCTAGCA
* * * *
59307442 TCTGAGCTCATTGAGAGGTCCGAGTTCATTATAGATGCTAGCA
1 TCTGAGCTCGTTGAGTGGTCCGAGTTCATCAGAGATGCTAGCA
*
59307485 TCCGAGCTCGTTGAGTGGTCCGAGTTCAT
1 TCTGAGCTCGTTGAGTGGTCCGAGTTCAT
59307514 GATGTATGCG
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 29 0.49
43 30 0.51
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (43 bp):
TCTGAGCTCGTTGAGTGGTCCGAGTTCATCAGAGATGCTAGCA
Found at i:59307499 original size:43 final size:45
Alignment explanation
Indices: 59307439--59307573 Score: 132
Period size: 43 Copynumber: 2.9 Consensus size: 45
59307429 CAGATATGTG
* *
59307439 GCATCTGAGCTCATTGAGAGGTCCGAGTTCATTATAGATGC-T-A-
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTAT-GATGCATCAT
* *
59307482 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATGATGTATGCGATTCAT
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATG-ATGC-A-TCAT
*
59307530 GTAACATCCGAGCTCGTTGAGAGGTCCAAGTTCATTATGGATGC
1 G---CATCCGAGCTCGTTGAGAGGTCCGAGTTCATTAT-GATGC
59307574 GTTACTTGTT
Statistics
Matches: 75, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 35 0.47
46 1 0.01
47 1 0.01
48 1 0.01
51 35 0.47
52 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (45 bp):
GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGATGCATCAT
Done.