Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 140 of 199
Found at i:40904218 original size:24 final size:27
Alignment explanation
Indices: 40904185--40904238 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
40904175 AAACCTCTTC
* *
40904185 TAAAAGAAAAC-TCAAGAGAA-ATTCT
1 TAAAAGAAAACTTAAAGAGAATATTAT
40904210 TAAAA-AAAACTTAAAGAGAATATTAT
1 TAAAAGAAAACTTAAAGAGAATATTAT
40904236 TAA
1 TAA
40904239 CTCAAACCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 13 0.52
26 7 0.28
ACGTcount: A:0.59, C:0.07, G:0.09, T:0.24
Consensus pattern (27 bp):
TAAAAGAAAACTTAAAGAGAATATTAT
Found at i:40905402 original size:34 final size:34
Alignment explanation
Indices: 40905364--40905537 Score: 231
Period size: 34 Copynumber: 5.1 Consensus size: 34
40905354 CCATAACACT
* * *
40905364 AATACTCATCCATTTGATATCCTGCCACAATGCC
1 AATACTCATTCATTTAACATCCTGCCACAATGCC
* **
40905398 AATACTCATTCATTTAACATCCCGTGACAATGCC
1 AATACTCATTCATTTAACATCCTGCCACAATGCC
* *
40905432 AATACTCATTCATTTAACATCCTACCACAAAGCC
1 AATACTCATTCATTTAACATCCTGCCACAATGCC
* * ** *
40905466 AATACTCATTCATATAATATCCCACCGCAATGCC
1 AATACTCATTCATTTAACATCCTGCCACAATGCC
40905500 AATACTCATTCATTTAACATCCTGCCACAATGCC
1 AATACTCATTCATTTAACATCCTGCCACAATGCC
40905534 AATA
1 AATA
40905538 TTTCATAACA
Statistics
Matches: 119, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 119 1.00
ACGTcount: A:0.34, C:0.31, G:0.06, T:0.28
Consensus pattern (34 bp):
AATACTCATTCATTTAACATCCTGCCACAATGCC
Found at i:40905795 original size:12 final size:13
Alignment explanation
Indices: 40905778--40905810 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
40905768 AAACAATAAT
40905778 TATTAAAAATC-A
1 TATTAAAAATCAA
40905790 TATTAAAAAATCAA
1 TATT-AAAAATCAA
40905804 TATTAAA
1 TATTAAA
40905811 GATTAAGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.21
13 10 0.53
14 5 0.26
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (13 bp):
TATTAAAAATCAA
Found at i:40905800 original size:13 final size:14
Alignment explanation
Indices: 40905778--40905810 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
40905768 AAACAATAAT
40905778 TATT-AAAAATC-A
1 TATTAAAAAATCAA
40905790 TATTAAAAAATCAA
1 TATTAAAAAATCAA
40905804 TATTAAA
1 TATTAAA
40905811 GATTAAGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 7 0.37
14 8 0.42
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (14 bp):
TATTAAAAAATCAA
Found at i:40908320 original size:41 final size:41
Alignment explanation
Indices: 40908270--40908347 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
40908260 AATGTTGTCT
* * *
40908270 AGGCTGTGTCGTGACA-TAGGGTTCGGGTGTTGCAACATAAG
1 AGGCAGTGTCGCGACATTAGGGTTC-GATGTTGCAACATAAG
*
40908311 AGGCAGTGTCGCGACATTAGGTTTCGATGTTGCAACA
1 AGGCAGTGTCGCGACATTAGGGTTCGATGTTGCAACA
40908348 CAAATGCCTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 25 0.78
42 7 0.22
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.27
Consensus pattern (41 bp):
AGGCAGTGTCGCGACATTAGGGTTCGATGTTGCAACATAAG
Found at i:40916567 original size:9 final size:9
Alignment explanation
Indices: 40916553--40916577 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
40916543 AAACCATTTC
40916553 CATGTAATT
1 CATGTAATT
40916562 CATGTAATT
1 CATGTAATT
40916571 CATGTAA
1 CATGTAA
40916578 ATACCTGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (9 bp):
CATGTAATT
Found at i:40916724 original size:25 final size:25
Alignment explanation
Indices: 40916693--40916760 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
40916683 GTTGTAAACA
*
40916693 GTAAGCTCCTCCGAGCTGAATAATG
1 GTAAGCTCCTCCGAGCTGAATAACG
*
40916718 GTAAGCTCCTCCGAGTTGAATAACG
1 GTAAGCTCCTCCGAGCTGAATAACG
* *
40916743 GTAAGCTCATACGAGCTG
1 GTAAGCTCCTCCGAGCTG
40916761 TAATCGGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (25 bp):
GTAAGCTCCTCCGAGCTGAATAACG
Found at i:40921028 original size:34 final size:34
Alignment explanation
Indices: 40920984--40921059 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
40920974 GAGTTAGTTT
*
40920984 ATTAACTTTAGTTCAGCTCAAATAAGTGTTAGTA
1 ATTAATTTTAGTTCAGCTCAAATAAGTGTTAGTA
*
40921018 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAATTTTAGTTCAGCTCAAATAAGTGTTAGTA
40921052 ATTAATTT
1 ATTAATTT
40921060 GTTTAAATCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (34 bp):
ATTAATTTTAGTTCAGCTCAAATAAGTGTTAGTA
Found at i:40922617 original size:19 final size:18
Alignment explanation
Indices: 40922582--40922617 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
40922572 TTACGAAAAT
*
40922582 TAAAAAAAATGAAAAGTA
1 TAAAAAAAAGGAAAAGTA
40922600 TAAAAAAAAGGAAGAAGT
1 TAAAAAAAAGGAA-AAGT
40922618 GAAAAGTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (18 bp):
TAAAAAAAAGGAAAAGTA
Found at i:40923574 original size:10 final size:10
Alignment explanation
Indices: 40923561--40923609 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
40923551 AGCTCAAATA
40923561 AGCTCATTTG
1 AGCTCATTTG
*
40923571 AGCTCATTTT
1 AGCTCATTTG
*
40923581 AGCTCGTTTG
1 AGCTCATTTG
40923591 AGCTCAATTT-
1 AGCTC-ATTTG
*
40923601 AGCTTATTT
1 AGCTCATTT
40923610 TCAGCTCGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
9 4 0.12
10 26 0.79
11 3 0.09
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (10 bp):
AGCTCATTTG
Found at i:40923601 original size:20 final size:20
Alignment explanation
Indices: 40923549--40923609 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
40923539 TGAACTACAC
* *
40923549 TGAGCTCAAATAAGCTCATT
1 TGAGCTCAATTTAGCTCATT
* *
40923569 TGAGCTCATTTTAGCTCGTT
1 TGAGCTCAATTTAGCTCATT
*
40923589 TGAGCTCAATTTAGCTTATT
1 TGAGCTCAATTTAGCTCATT
40923609 T
1 T
40923610 TCAGCTCGTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (20 bp):
TGAGCTCAATTTAGCTCATT
Found at i:40923697 original size:20 final size:20
Alignment explanation
Indices: 40923672--40923719 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
40923662 TCAATTTCAT
40923672 ATAGCTCATGA-CTGAATTTC
1 ATAGCTCATGATC-GAATTTC
40923692 ATAGCTCATGATCGAATTTC
1 ATAGCTCATGATCGAATTTC
*
40923712 CTAGCTCA
1 ATAGCTCA
40923720 AATTAGTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (20 bp):
ATAGCTCATGATCGAATTTC
Found at i:40925091 original size:6 final size:6
Alignment explanation
Indices: 40925082--40925135 Score: 65
Period size: 6 Copynumber: 9.0 Consensus size: 6
40925072 AACGAAGAGG
** *
40925082 AAGAAA AAGAAA AAGAAA GTGAAA AAGAAA TAGAAA ACA-AAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA A-AGAAA AAGAAA
40925130 AAGAAA
1 AAGAAA
40925136 TTACAAGCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 1 0.03
6 38 0.95
7 1 0.03
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.04
Consensus pattern (6 bp):
AAGAAA
Found at i:40925136 original size:24 final size:24
Alignment explanation
Indices: 40925102--40925153 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
40925092 AAAAGAAAGT
40925102 GAAAAAGAAA-TAGAAAACAAAAAA
1 GAAAAAGAAATTA-AAAACAAAAAA
* *
40925126 GAAAAAGAAATTACAAGCAAAAAA
1 GAAAAAGAAATTAAAAACAAAAAA
40925150 GAAA
1 GAAA
40925154 TCGAAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.75, C:0.06, G:0.13, T:0.06
Consensus pattern (24 bp):
GAAAAAGAAATTAAAAACAAAAAA
Found at i:40925235 original size:16 final size:18
Alignment explanation
Indices: 40925214--40925252 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
40925204 ATTGAGATTG
40925214 AGAAAAA-A-ATTGAAAA
1 AGAAAAAGATATTGAAAA
*
40925230 AGAAAAAGATGTTGAAAA
1 AGAAAAAGATATTGAAAA
40925248 AGAAA
1 AGAAA
40925253 CGAGAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 1 0.05
18 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (18 bp):
AGAAAAAGATATTGAAAA
Found at i:40927110 original size:34 final size:34
Alignment explanation
Indices: 40927066--40927141 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
40927056 GAGTTAGTTT
*
40927066 ATTAACTTTAGTTCAGCTCAAATAAGTGTTAATA
1 ATTAATTTTAGTTCAGCTCAAATAAGTGTTAATA
* *
40927100 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAATTTTAGTTCAGCTCAAATAAGTGTTAATA
40927134 ATTAATTT
1 ATTAATTT
40927142 GTTTAAATCT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (34 bp):
ATTAATTTTAGTTCAGCTCAAATAAGTGTTAATA
Found at i:40932134 original size:14 final size:15
Alignment explanation
Indices: 40932115--40932162 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
40932105 TCTCTTTCCT
*
40932115 TTTTTTTCGAA-TTA
1 TTTTTTTCAAATTTA
40932129 TTTTTTTCAAATTTA
1 TTTTTTTCAAATTTA
*
40932144 TTTTTTTAAAATTT-
1 TTTTTTTCAAATTTA
40932158 TTTTT
1 TTTTT
40932163 AATTCAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 15 0.48
15 16 0.52
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTTTTTCAAATTTA
Found at i:40932230 original size:10 final size:10
Alignment explanation
Indices: 40932212--40932246 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
40932202 TTACACCTTG
40932212 AATTTTTTTC
1 AATTTTTTTC
40932222 AAATTTTTTTC
1 -AATTTTTTTC
40932233 AATTTTTTTAC
1 AATTTTTTT-C
40932244 AAT
1 AAT
40932247 GACTTCGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (10 bp):
AATTTTTTTC
Found at i:40941991 original size:47 final size:47
Alignment explanation
Indices: 40941870--40942158 Score: 470
Period size: 47 Copynumber: 6.1 Consensus size: 47
40941860 CTTCGGGACT
* * * * * *
40941870 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
40941917 TGTCACTTATATATACACTTCCACATTCATCACATCGGCCATTAGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
40941966 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
40942013 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
40942060 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
40942107 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
40942154 TATCA
1 TATCA
40942159 TCATTTCATA
Statistics
Matches: 227, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 189 0.83
49 38 0.17
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:40945491 original size:22 final size:21
Alignment explanation
Indices: 40945466--40945509 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
40945456 TGATAAACTT
40945466 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
40945488 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
40945509 T
1 T
40945510 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:40956445 original size:24 final size:24
Alignment explanation
Indices: 40956409--40956457 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
40956399 ATTTTTATTA
* *
40956409 AAATTTTTTATTTGCTGCTAAACC
1 AAATTTTTGATTTGCTGCAAAACC
40956433 AAATTTTTGATTTGCTGCAAAACC
1 AAATTTTTGATTTGCTGCAAAACC
40956457 A
1 A
40956458 TCTCATTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (24 bp):
AAATTTTTGATTTGCTGCAAAACC
Found at i:40959903 original size:28 final size:27
Alignment explanation
Indices: 40959839--40959990 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
40959829 ATTTTAAGTC
* *
40959839 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
40959866 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
40959894 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
40959921 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
40959949 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
40959976 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
40959991 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:40959923 original size:55 final size:55
Alignment explanation
Indices: 40959839--40960015 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
40959829 ATTTTAAGTC
* * *
40959839 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
40959894 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
40959949 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
40960005 CGCACACTTAG
1 CGCACACTTAG
40960016 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:40962095 original size:34 final size:30
Alignment explanation
Indices: 40962056--40962119 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 30
40962046 TCTCTGTTGG
*
40962056 CCGAATCTCCTTTCTCTTCTCCTCTTTTTTTTGA
1 CCGAATATCC-TTCTCTT-T-CT-TTTTTTTTGA
40962090 CCGAATATCCTTCTCTTTCTTTTTTTTTGA
1 CCGAATATCCTTCTCTTTCTTTTTTTTTGA
40962120 TTTCTACCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 10 0.34
31 2 0.07
32 1 0.03
33 7 0.24
34 9 0.31
ACGTcount: A:0.11, C:0.28, G:0.06, T:0.55
Consensus pattern (30 bp):
CCGAATATCCTTCTCTTTCTTTTTTTTTGA
Found at i:40963080 original size:53 final size:52
Alignment explanation
Indices: 40962988--40963125 Score: 159
Period size: 53 Copynumber: 2.6 Consensus size: 52
40962978 AGAGGTCAAT
* ** *
40962988 AAATAACCGAAATACCCTCATAGGTTAAAATGATTGAAATAACCCCATAGGGTA
1 AAAT-ACCGAAATACCC-CATAGGGTAAAATGAGAGAAATAACCCCATAAGGTA
* *
40963042 AAATGACCGACATACCCCATAGGGTAAAATGAGAGAAATACCCCCATAAGGTA
1 AAAT-ACCGAAATACCCCATAGGGTAAAATGAGAGAAATAACCCCATAAGGTA
**
40963095 AAATATTTGAAATACCACCATAGGGTAAAAT
1 AAATA-CCGAAATACC-CCATAGGGTAAAAT
40963126 AACCGAAATA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
52 1 0.01
53 42 0.58
54 29 0.40
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.20
Consensus pattern (52 bp):
AAATACCGAAATACCCCATAGGGTAAAATGAGAGAAATAACCCCATAAGGTA
Found at i:40963133 original size:27 final size:26
Alignment explanation
Indices: 40962988--40963138 Score: 149
Period size: 27 Copynumber: 5.7 Consensus size: 26
40962978 AGAGGTCAAT
*
40962988 AAATAACCGAAATACCCTCATAGGTTA
1 AAATAACCGAAATACCC-CATAGGGTA
* **
40963015 AAATGATTGAAATAACCCCATAGGGTA
1 AAATAACCGAAAT-ACCCCATAGGGTA
* *
40963042 AAATGACCGACATACCCCATAGGGTA
1 AAATAACCGAAATACCCCATAGGGTA
* ** *
40963068 AAATGAGAGAAATACCCCCATAAGGTA
1 AAATAACCGAAATA-CCCCATAGGGTA
***
40963095 AAATATTTGAAATACCACCATAGGGTA
1 AAATAACCGAAATACC-CCATAGGGTA
40963122 AAATAACCGAAATACCC
1 AAATAACCGAAATACCC
40963139 GTAGGAGATG
Statistics
Matches: 102, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
26 27 0.26
27 71 0.70
28 4 0.04
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (26 bp):
AAATAACCGAAATACCCCATAGGGTA
Found at i:40963334 original size:26 final size:26
Alignment explanation
Indices: 40963291--40963353 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
40963281 TGGAGGTAGT
* *
40963291 ATACTGTTACTGGTAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTACTGCG
*
40963317 ATACTGTTATTGGCAGCTTTACTGCG
1 ATACTGTTACTGGCAGCTTTACTGCG
40963343 ATACTGTTACT
1 ATACTGTTACT
40963354 TAAATATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTACTGCG
Found at i:40963550 original size:28 final size:27
Alignment explanation
Indices: 40963508--40963565 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
40963498 GTACTGATAT
*
40963508 TGTACTGGGCAAAGGCCCACATTGTTAC
1 TGTACTGGGCAAAGGCCCACACTG-TAC
* * *
40963536 TGTATTGGGCTAAGGCCTACACTGTAC
1 TGTACTGGGCAAAGGCCCACACTGTAC
40963563 TGT
1 TGT
40963566 TACTAAATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (27 bp):
TGTACTGGGCAAAGGCCCACACTGTAC
Found at i:40969853 original size:35 final size:36
Alignment explanation
Indices: 40969788--40969858 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 36
40969778 CTTTTTTCCC
* *
40969788 CTCTTCTCTTCTCTTTTGGCCGAATCTCCTTTCTCTT
1 CTCTTCTCTTCTCTTTTGACCGAATATCC-TTCTCTT
*
40969825 CTCTTCT-TTTTC-TTTGACCGAATATCCTTCTCTT
1 CTCTTCTCTTCTCTTTTGACCGAATATCCTTCTCTT
40969859 TCTGTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 7 0.23
35 13 0.42
36 4 0.13
37 7 0.23
ACGTcount: A:0.08, C:0.32, G:0.07, T:0.52
Consensus pattern (36 bp):
CTCTTCTCTTCTCTTTTGACCGAATATCCTTCTCTT
Found at i:40970827 original size:27 final size:27
Alignment explanation
Indices: 40970788--40970902 Score: 151
Period size: 27 Copynumber: 4.3 Consensus size: 27
40970778 AGAGGTCAAT
* *
40970788 AAATGACCGAAATTCCCCTATAGGGTA
1 AAATGACCAAAATACCCCTATAGGGTA
40970815 AAATGACCAAAATACCCCTATAGGGTA
1 AAATGACCAAAATACCCCTATAGGGTA
* **
40970842 AAATGACTAAAATACCCCTATAGAATA
1 AAATGACCAAAATACCCCTATAGGGTA
* *
40970869 AAATGACTAAAATACCACC-ATAAGGTA
1 AAATGACCAAAATACC-CCTATAGGGTA
40970896 AAATGAC
1 AAATGAC
40970903 TATTATACCC
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 77 0.97
28 2 0.03
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (27 bp):
AAATGACCAAAATACCCCTATAGGGTA
Found at i:40970860 original size:54 final size:54
Alignment explanation
Indices: 40970788--40970915 Score: 159
Period size: 54 Copynumber: 2.4 Consensus size: 54
40970778 AGAGGTCAAT
** * ** *
40970788 AAATGACCGAAATTCCCCTATAGGGTAAAATGACCAAAATACC-CCTATAGGGTA
1 AAATGACTAAAATACCCCTATAGAATAAAATGACCAAAATACCACC-ATAAGGTA
*
40970842 AAATGACTAAAATACCCCTATAGAATAAAATGACTAAAATACCACCATAAGGTA
1 AAATGACTAAAATACCCCTATAGAATAAAATGACCAAAATACCACCATAAGGTA
**
40970896 AAATGACTATTATACCCCTA
1 AAATGACTAAAATACCCCTA
40970916 GGAGATGAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 62 0.97
55 2 0.03
ACGTcount: A:0.45, C:0.21, G:0.12, T:0.22
Consensus pattern (54 bp):
AAATGACTAAAATACCCCTATAGAATAAAATGACCAAAATACCACCATAAGGTA
Found at i:40973383 original size:26 final size:26
Alignment explanation
Indices: 40973354--40973456 Score: 84
Period size: 26 Copynumber: 4.0 Consensus size: 26
40973344 GGGTTTGGGG
*
40973354 TGTTATAAGCAGCTTTGCTATGATAC
1 TGTTATAAGCAGCTTTGCTACGATAC
** *
40973380 TGTTATTGGCAGCTTTGCTGCGATAC
1 TGTTATAAGCAGCTTTGCTACGATAC
* * *
40973406 TGTTAT-TGACAGCTTTACTGCGATAC
1 TGTTATAAG-CAGCTTTGCTACGATAC
* * *
40973432 TATTACT-GGCAGCTTTGCTGCGATA
1 TGTTA-TAAGCAGCTTTGCTACGATA
40973457 TTAGTGAGTT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
25 1 0.02
26 63 0.95
27 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.38
Consensus pattern (26 bp):
TGTTATAAGCAGCTTTGCTACGATAC
Found at i:40979177 original size:9 final size:9
Alignment explanation
Indices: 40979160--40979196 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
40979150 TGAGTTTTCG
40979160 AATTCGAAT
1 AATTCGAAT
*
40979169 AACTCGAAT
1 AATTCGAAT
40979178 AATTCGAAT
1 AATTCGAAT
40979187 AATTCGAAT
1 AATTCGAAT
40979196 A
1 A
40979197 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:40981226 original size:28 final size:28
Alignment explanation
Indices: 40981191--40981323 Score: 169
Period size: 28 Copynumber: 4.8 Consensus size: 28
40981181 ATAAGGTGTC
**
40981191 CACCACAAAGGCTTATTCTTTTGTAGTT
1 CACCACAAAGGCTTATTCTTTCATAGTT
*
40981219 -AGGCACAAAGGCTTATTCTTTCATAGTT
1 CA-CCACAAAGGCTTATTCTTTCATAGTT
* * * **
40981247 CATCACAAAGGTTTAATCAGTCATAGTT
1 CACCACAAAGGCTTATTCTTTCATAGTT
*
40981275 CTCCACAAAGGCTTATTCTTTCATAGTT
1 CACCACAAAGGCTTATTCTTTCATAGTT
40981303 CACCACAAAGGCTTATTCTTT
1 CACCACAAAGGCTTATTCTTT
40981324 TCTGACATGT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
27 1 0.01
28 86 0.98
29 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (28 bp):
CACCACAAAGGCTTATTCTTTCATAGTT
Found at i:40987856 original size:35 final size:35
Alignment explanation
Indices: 40987800--40988004 Score: 119
Period size: 35 Copynumber: 5.6 Consensus size: 35
40987790 TTTGCCGGTT
* * *
40987800 TATCCGACTAGTGCTGAGCTCAAATATTGTTGGTA
1 TATCCAACTAGAGCTGGGCTCAAATATTGTTGGTA
* * * *
40987835 AATCCAACTAGAGCTGGGCTCACTATATATTCTTTAGTT
1 TATCCAACTAGAGCTGGGCTCA--A-ATATT-GTTGGTA
** * *
40987874 TATCCGGCTAGCA-CTGGGCGCAAATATCGTTGGTA
1 TATCCAACTAG-AGCTGGGCTCAAATATTGTTGGTA
* * * *
40987909 TATCCAACTAGAGTTGGGCTCACAATTTATTCTTCAGTT
1 TATCCAACTAGAGCTGGGCTCA-AA--TATTGTT-GGTA
* * * *
40987948 TAT-CAGACTAGCGCTCGGCGCAAATATCGTTGGTA
1 TATCCA-ACTAGAGCTGGGCTCAAATATTGTTGGTA
40987983 TATCCAACTAGAG-TGGGGCTCA
1 TATCCAACTAGAGCT-GGGCTCA
40988005 CTAATTATTC
Statistics
Matches: 123, Mismatches: 34, Indels: 26
0.67 0.19 0.14
Matches are distributed among these distances:
34 2 0.02
35 54 0.44
36 13 0.11
37 2 0.02
38 14 0.11
39 37 0.30
40 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (35 bp):
TATCCAACTAGAGCTGGGCTCAAATATTGTTGGTA
Found at i:40987906 original size:74 final size:73
Alignment explanation
Indices: 40987797--40988044 Score: 300
Period size: 74 Copynumber: 3.4 Consensus size: 73
40987787 TTATTTGCCG
* * * * *
40987797 GTTTATCCGACTAGTGCTGAGCTCAAATATTGTTGGTAAATCCAACTAGAGCTGGGCTCACTATA
1 GTTTATCCGACTAGCGCTGGGCGCAAATATCGTTGGTATATCCAACTAGAG-TGGGCTCACTATA
*
40987862 TATTCTTTA
65 TATTCTTCA
* * * *
40987871 GTTTATCCGGCTAGCACTGGGCGCAAATATCGTTGGTATATCCAACTAGAGTTGGGCTCACAATT
1 GTTTATCCGACTAGCGCTGGGCGCAAATATCGTTGGTATATCCAACTAGAG-TGGGCTCACTATA
40987936 TATTCTTCA
65 TATTCTTCA
* *
40987945 GTTTATCAGACTAGCGCTCGGCGCAAATATCGTTGGTATATCCAACTAGAGTGGGGCTCACTA-A
1 GTTTATCCGACTAGCGCTGGGCGCAAATATCGTTGGTATATCCAACTAGAGT-GGGCTCACTATA
* *
40988009 TTATTCGTCG
65 -TATTCTTCA
** *
40988019 GTTTATCTTACTAGTGCTGGGCGCAA
1 GTTTATCCGACTAGCGCTGGGCGCAA
40988045 CTTCCGTCAG
Statistics
Matches: 149, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
73 1 0.01
74 148 0.99
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.33
Consensus pattern (73 bp):
GTTTATCCGACTAGCGCTGGGCGCAAATATCGTTGGTATATCCAACTAGAGTGGGCTCACTATAT
ATTCTTCA
Found at i:41001691 original size:22 final size:22
Alignment explanation
Indices: 41001666--41001709 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
41001656 ACCACAAGTT
41001666 CTTTATTAAAAATGCAAATAAG
1 CTTTATTAAAAATGCAAATAAG
* *
41001688 CTTTATTTAAAATGTAAATAAG
1 CTTTATTAAAAATGCAAATAAG
41001710 AAAGACTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (22 bp):
CTTTATTAAAAATGCAAATAAG
Found at i:41011433 original size:19 final size:19
Alignment explanation
Indices: 41011389--41011433 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
41011379 GCGAAAACAC
* *
41011389 AAAAGAAAAGAAAAATGAGA
1 AAAAG-AAAGAAAAATCAAA
*
41011409 AGAAGAAAGAAAAATCAAA
1 AAAAGAAAGAAAAATCAAA
41011428 AAAAGA
1 AAAAGA
41011434 GAGCGAAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (19 bp):
AAAAGAAAGAAAAATCAAA
Found at i:41013315 original size:44 final size:44
Alignment explanation
Indices: 41013249--41013482 Score: 143
Period size: 44 Copynumber: 5.1 Consensus size: 44
41013239 GATCGCATCG
* *
41013249 GATTGAAGCCAGAAATCTTATCTCCCTTAGATTACAGCGGAGCA
1 GATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCA
* * * *
41013293 GATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCG
1 GATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCA
*** * * *
41013337 GATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCA
1 GATTGAAGCCAGAA--ATCCTATCTCCCTGAGA-TTAC---AGCG--GA--G---CA
* **
41013391 GATTGAAGCCAAAAATATTATCTCCCTGAGATTACAGCGGAGCA
1 GATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCA
* * * *
41013435 AATTGAAGCTA-ATAATCCTATCTCCCTGAGATTACAGTGGAGCG
1 GATTGAAGCCAGA-AATCCTATCTCCCTGAGATTACAGCGGAGCA
41013479 GATT
1 GATT
41013483 AAAACAAAGG
Statistics
Matches: 147, Mismatches: 26, Indels: 34
0.71 0.13 0.16
Matches are distributed among these distances:
42 1 0.01
43 6 0.04
44 100 0.68
47 4 0.03
49 4 0.03
51 4 0.03
54 22 0.15
55 4 0.03
56 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
GATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCA
Found at i:41013385 original size:142 final size:142
Alignment explanation
Indices: 41013169--41013541 Score: 656
Period size: 142 Copynumber: 2.6 Consensus size: 142
41013159 TTACAAGTCT
* * *
41013169 TATCTCCCTGAGATTACAGTGGAGCGAATTAAAATAAAAGATCTTTTCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
* * * * *
41013234 GAGTAGATCGCATCGGATTGAAGCCAGAAATCTTATCTCCCTTAGATTACAGCGGAGCAGATTGA
66 GAGTAGATCGCATCAGATTGAAGCCAAAAATATTATCTCCCTGAGATTACAGCGGAGCAAATTGA
*
41013299 AGCTAGTAATCC
131 AGCTAATAATCC
41013311 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
41013376 GAGTAGATCGCATCAGATTGAAGCCAAAAATATTATCTCCCTGAGATTACAGCGGAGCAAATTGA
66 GAGTAGATCGCATCAGATTGAAGCCAAAAATATTATCTCCCTGAGATTACAGCGGAGCAAATTGA
41013441 AGCTAATAATCC
131 AGCTAATAATCC
*
41013453 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
41013518 GAGTAGATCGCATCAGATTGAAGC
66 GAGTAGATCGCATCAGATTGAAGC
41013542 TACAACAGCA
Statistics
Matches: 221, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 221 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (142 bp):
TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
GAGTAGATCGCATCAGATTGAAGCCAAAAATATTATCTCCCTGAGATTACAGCGGAGCAAATTGA
AGCTAATAATCC
Found at i:41013501 original size:44 final size:44
Alignment explanation
Indices: 41013400--41013516 Score: 112
Period size: 44 Copynumber: 2.7 Consensus size: 44
41013390 AGATTGAAGC
* * * *
41013400 CAAA-AATATTATCTCCCTGAGATTACAGCGGAGCAAATTGAAG
1 CAAAGAATCTTATCTCCCTGAGATTACAGTGGAGCAAATTAAAA
* * * **
41013443 CTAATAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
1 CAAAGAATCTTATCTCCCTGAGATTACAGTGGAGCAAATTAAAA
* *
41013487 CAAAGGATCTTATCTCTCTGA-AGTTACAGT
1 CAAAGAATCTTATCTCCCTGAGA-TTACAGT
41013517 AGAGTAGATC
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
43 4 0.07
44 55 0.93
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (44 bp):
CAAAGAATCTTATCTCCCTGAGATTACAGTGGAGCAAATTAAAA
Found at i:41031513 original size:20 final size:21
Alignment explanation
Indices: 41031476--41031518 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
41031466 TTCATAATTT
41031476 TAAAATTTTTAAAAATAA-AA
1 TAAAATTTTTAAAAATAATAA
*
41031496 TAAAATTTATT-AATATAATAA
1 TAAAATTT-TTAAAAATAATAA
41031517 TA
1 TA
41031519 TTAGGTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAATTTTTAAAAATAATAA
Found at i:41031615 original size:20 final size:20
Alignment explanation
Indices: 41031578--41031638 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
41031568 CTCTTTTTCA
* * *
41031578 AAAAAGAAATTTACTTTTTTT
1 AAAAATAAA-TTAATTTTTTG
*
41031599 AAAAATAAATTAATTTTCATG
1 AAAAATAAATTAATTTT-TTG
*
41031620 AAAAAT-AATTTATTTTTTG
1 AAAAATAAATTAATTTTTTG
41031639 TTGACAAACT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 2 0.06
20 16 0.48
21 15 0.45
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (20 bp):
AAAAATAAATTAATTTTTTG
Found at i:41031921 original size:20 final size:20
Alignment explanation
Indices: 41031895--41031947 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
41031885 ATGTGCTAAT
41031895 AATTTTTGGTACTCCCTC-A
1 AATTTTTGGTACTCCCTCTA
* *
41031914 AATATTTTGGTATTCCTTCTA
1 AAT-TTTTGGTACTCCCTCTA
*
41031935 AATTTTTTGTACT
1 AATTTTTGGTACT
41031948 TTTTTATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 3 0.11
20 21 0.75
21 4 0.14
ACGTcount: A:0.23, C:0.17, G:0.09, T:0.51
Consensus pattern (20 bp):
AATTTTTGGTACTCCCTCTA
Found at i:41032436 original size:78 final size:73
Alignment explanation
Indices: 41032321--41032540 Score: 201
Period size: 78 Copynumber: 2.9 Consensus size: 73
41032311 TCTTTCATAA
* * *
41032321 TTTTTAGTATTTCCTCAAGTCTTATGATATTCTCTCATAATTTTTTATACTTCCTCATATTTTTA
1 TTTTTA-TACTTCCTCAAGTTTTATGGTATTCTCTCATAATTTTTTATACTTCCTCATATTTTTA
41032386 CATCCTCATAT
65 CATCCTC--AT
* * * * * ** *
41032397 TTTTTGGTACTTTCTCATATTTTTTTCGGTATTCCCTCATAA-TTTTGGTACATT-CTTATAAAT
1 TTTTT-ATACTTCCTCA-AGTTTTAT-GGTATTCTCTCATAATTTTTTATAC-TTCCTCAT--AT
41032460 TTTGGTACATCCTCAT
60 TTT--TACATCCTCAT
*
41032476 TTTTTATACTTCCTCAGGTTTTATGGTATTCTCTCATAATTTTTTTATACTTCCTCATATATTTT
1 TTTTTATACTTCCTCAAGTTTTATGGTATTCTCTCATAA-TTTTTTATACTTCCTCATAT-TTTT
41032541 TAGTATTCTC
Statistics
Matches: 112, Mismatches: 20, Indels: 25
0.71 0.13 0.16
Matches are distributed among these distances:
75 1 0.01
76 29 0.26
77 26 0.23
78 35 0.31
79 12 0.11
81 9 0.08
ACGTcount: A:0.21, C:0.18, G:0.07, T:0.54
Consensus pattern (73 bp):
TTTTTATACTTCCTCAAGTTTTATGGTATTCTCTCATAATTTTTTATACTTCCTCATATTTTTAC
ATCCTCAT
Found at i:41032525 original size:41 final size:41
Alignment explanation
Indices: 41032474--41032566 Score: 134
Period size: 41 Copynumber: 2.3 Consensus size: 41
41032464 GTACATCCTC
* *
41032474 ATTTTTTATACTTCCTCAGGT-TTTATGGTATTCTCTCATA
1 ATTTTTTATACTTCCTCAGATATTTATAGTATTCTCTCATA
* *
41032514 ATTTTTTTATACTTCCTCATATATTTTTAGTATTCTCTCATA
1 A-TTTTTTATACTTCCTCAGATATTTATAGTATTCTCTCATA
41032556 ATTTTTTATAC
1 ATTTTTTATAC
41032567 ATCTTCAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
40 1 0.02
41 28 0.60
42 18 0.38
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.56
Consensus pattern (41 bp):
ATTTTTTATACTTCCTCAGATATTTATAGTATTCTCTCATA
Found at i:41032559 original size:98 final size:96
Alignment explanation
Indices: 41032347--41032569 Score: 206
Period size: 98 Copynumber: 2.3 Consensus size: 96
41032337 AAGTCTTATG
* * * *
41032347 ATATTCTCTCATAATTTTTTATACTTCCTCATATTTTTACATCCTCATATTTTTTGGTACTTTCT
1 ATATTCTCTCATAA-TTTTGATACATCCTCATATTTTTACATCCTCAGATTTTATGGTACTTTCT
*
41032412 CATATTTTTTTCGGTATTCCCTCATAATTTTGGT
65 CATATTTTTTTC-ATATTCCCTCATAATTTT-GT
* * * * *
41032446 ACATTCT-T-ATAAATTTTGGTACATCCTCATTTTTTATACTTCCTCAGGTTTTATGGTA-TTCT
1 ATATTCTCTCAT-AATTTTGATACATCCTCATATTTT-TACATCCTCAGATTTTATGGTACTT-T
41032508 CTCATAATTTTTTT-ATACTT-CCTCATATATTTT-T
63 CTCAT-ATTTTTTTCATA-TTCCCTCATA-ATTTTGT
*
41032542 AGTATTCTCTCATAATTTTTTATACATC
1 A-TATTCTCTCATAA-TTTTGATACATC
41032570 TTCAAAATTT
Statistics
Matches: 101, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
96 2 0.02
97 36 0.36
98 37 0.37
99 26 0.26
ACGTcount: A:0.22, C:0.18, G:0.06, T:0.53
Consensus pattern (96 bp):
ATATTCTCTCATAATTTTGATACATCCTCATATTTTTACATCCTCAGATTTTATGGTACTTTCTC
ATATTTTTTTCATATTCCCTCATAATTTTGT
Found at i:41032562 original size:21 final size:21
Alignment explanation
Indices: 41032501--41032563 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 21
41032491 AGGTTTTATG
41032501 GTATTCTCTCATAATTTTTTTA
1 GTATTCTCTCATAA-TTTTTTA
41032523 -TACTTC-CTCAT-ATATTTTTA
1 GTA-TTCTCTCATAAT-TTTTTA
41032543 GTATTCTCTCATAATTTTTTA
1 GTATTCTCTCATAATTTTTTA
41032564 TACATCTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.03
20 10 0.28
21 20 0.56
22 5 0.14
ACGTcount: A:0.24, C:0.16, G:0.03, T:0.57
Consensus pattern (21 bp):
GTATTCTCTCATAATTTTTTA
Found at i:41032701 original size:36 final size:39
Alignment explanation
Indices: 41032661--41032739 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
41032651 TTTGGCATTC
*
41032661 CCTCATAA-TTTTT-TATACATC-TAAGTTTTGATACTT
1 CCTCATAACTTTTTGTATACATCATAAGTTTTGATAATT
* * *
41032697 CCTCATAACTTTTTGTATTCATCATAATTTTTGGTAATT
1 CCTCATAACTTTTTGTATACATCATAAGTTTTGATAATT
41032736 CCTC
1 CCTC
41032740 GTATTTTATG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 8 0.22
37 5 0.14
38 7 0.19
39 16 0.44
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.49
Consensus pattern (39 bp):
CCTCATAACTTTTTGTATACATCATAAGTTTTGATAATT
Found at i:41032798 original size:20 final size:20
Alignment explanation
Indices: 41032315--41032798 Score: 163
Period size: 20 Copynumber: 25.1 Consensus size: 20
41032305 TGGTGTTCTT
* *
41032315 TCATAATTTTTAGTATTTCC
1 TCATAATTTTTGGTACTTCC
* * *
41032335 TCA-AGTCTTATGATA-TTCTC
1 TCATAAT-TTTTGGTACTTC-C
**
41032355 TCATAATTTTTTATACTTCC
1 TCATAATTTTTGGTACTTCC
*
41032375 TCAT-A-TTTT--TACATCC
1 TCATAATTTTTGGTACTTCC
* *
41032391 TCATATTTTTTGGTACTTTC
1 TCATAATTTTTGGTACTTCC
*
41032411 TCATATTTTTTTCGGTA-TTCCC
1 TCATA-ATTTTT-GGTACTT-CC
41032433 TCATAA-TTTTGGTACATT-C
1 TCATAATTTTTGGTAC-TTCC
* * *
41032452 TTATAAATTTTGGTACATCC
1 TCATAATTTTTGGTACTTCC
*
41032472 TCAT--TTTTT-ATACTTCC
1 TCATAATTTTTGGTACTTCC
**
41032489 TCA-GGTTTTATGGTA-TTCTC
1 TCATAATTTT-TGGTACTTC-C
**
41032509 TCATAATTTTTTTATACTTCC
1 TCATAA-TTTTTGGTACTTCC
*
41032530 TCATATATTTTTAGTA-TTCTC
1 TCATA-ATTTTTGGTACTTC-C
** * *
41032551 TCATAATTTTTTATACATCT
1 TCATAATTTTTGGTACTTCC
* * *
41032571 TCAAAATTTTTGGTGCATCC
1 TCATAATTTTTGGTACTTCC
* *
41032591 TCATATTTTTTTGGTA-TCCC
1 TCATA-ATTTTTGGTACTTCC
* *
41032611 TCGTAATGTTTTTGTA-TTCGC
1 TCATAAT-TTTTGGTACTTC-C
41032632 TCAT-ATTTTTGGTA----C
1 TCATAATTTTTGGTACTTCC
*
41032647 T--T--TTTTTGGCA-TTCCC
1 TCATAATTTTTGGTACTT-CC
* *
41032663 TCATAATTTTT--TA-TACA
1 TCATAATTTTTGGTACTTCC
* *
41032680 TC-TAAGTTTTGATACTTCC
1 TCATAATTTTTGGTACTTCC
*
41032699 TCATAACTTTTT-GTA-TTCA
1 TCATAA-TTTTTGGTACTTCC
*
41032718 TCATAATTTTTGGTAATTCC
1 TCATAATTTTTGGTACTTCC
* *
41032738 TCGT-ATTTTATGGTACTTTC
1 TCATAATTTT-TGGTACTTCC
* ** * *
41032758 TCATATTTTTTTATGCATCC
1 TCATAATTTTTGGTACTTCC
*
41032778 TCATAAGTTTTGGTACTTCC
1 TCATAATTTTTGGTACTTCC
41032798 T
1 T
41032799 TATACTTCTT
Statistics
Matches: 345, Mismatches: 73, Indels: 92
0.68 0.14 0.18
Matches are distributed among these distances:
12 8 0.02
13 1 0.00
15 2 0.01
16 19 0.06
17 12 0.03
18 26 0.08
19 50 0.14
20 150 0.43
21 59 0.17
22 18 0.05
ACGTcount: A:0.21, C:0.18, G:0.08, T:0.52
Consensus pattern (20 bp):
TCATAATTTTTGGTACTTCC
Found at i:41032820 original size:31 final size:31
Alignment explanation
Indices: 41032785--41032847 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
41032775 TCCTCATAAG
*
41032785 TTTTGGTACTTCCTTATACTTCTTTG-TATTT
1 TTTTGGTACTTCCTTATAATTC-TTGATATTT
*
41032816 TTTTGGTACTTTCTTATAATTCTTGATATTT
1 TTTTGGTACTTCCTTATAATTCTTGATATTT
41032847 T
1 T
41032848 ATCATATTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.16, C:0.13, G:0.10, T:0.62
Consensus pattern (31 bp):
TTTTGGTACTTCCTTATAATTCTTGATATTT
Found at i:41033068 original size:16 final size:16
Alignment explanation
Indices: 41033027--41033068 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
41033017 GTTATATTTC
41033027 ATGAAAAATTAAAAGA
1 ATGAAAAATTAAAAGA
41033043 ATGCGAAAAATTAAATA-A
1 AT--GAAAAATTAAA-AGA
41033061 ATGAAAAA
1 ATGAAAAA
41033069 AAAATTGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 8 0.35
18 14 0.61
19 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.12, T:0.19
Consensus pattern (16 bp):
ATGAAAAATTAAAAGA
Found at i:41035023 original size:247 final size:246
Alignment explanation
Indices: 41034576--41035308 Score: 1126
Period size: 247 Copynumber: 3.0 Consensus size: 246
41034566 GATGTTTAAT
* * ** * * * *
41034576 ATTGAAGTGATGGATGCATGTTAAAGTGGTATGTGATTGAGTATGTGAAATGCCCTGTTTTGCTA
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATACGGAATGCCCTATTCTGCTT
* * ** * *
41034641 GAAATTTTCAGAATTATACAGAGGTATTGATAATCGGGGCATATGCATCGATACTTCTAAGTTGA
66 GAATTTTTCAGAATTATACAGAGGTATTGATAATCAGGGCATATATATCTATACTTCTGAGTTGA
* * * * * * * * * * *
41034706 AACGAATGTGCAAGAAACAATCGATCATTTTGGTATTGATACCAGTTCTCGAGTA-CTGATACTT
131 AACAAATGTCCAGGAAATAGTTGCTAATTTTGGTATCGATACCAGTTCCCGAGTATC-GATACTC
41034770 GGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTACTGGGTTTTG
195 GGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTACTGGGTTTTG
41034822 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATACGGAATGCCCTATTCTGCTT
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATACGGAATGCCCTATTCTGCTT
*
41034887 GAATTTTTGCAGAATTATACAGAGGTATTGATAACCAGGGCATATATATCTATACTTCTGAGTTG
66 GAATTTTT-CAGAATTATACAGAGGTATTGATAATCAGGGCATATATATCTATACTTCTGAGTTG
* *
41034952 AAACAAATGTCCAGGAAATAGTTTCTTATTTTGGTATCGATACCAGTTCCCGAGTATCGATACTC
130 AAACAAATGTCCAGGAAATAGTTGCTAATTTTGGTATCGATACCAGTTCCCGAGTATCGATACTC
41035017 GGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTACTGGGTTTTG
195 GGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTACTGGGTTTTG
* *
41035069 ATTGAAGTTATGGATGCATGTTGAAGTGGTAAGTGATTAAGTATACGGAATGCCCTATTCTGCTT
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATACGGAATGCCCTATTCTGCTT
* *
41035134 GAATTTTTACAAAATTATACAGAGGTATTGATAATCAGTGCATATATATCTATACTTCTGAGTTG
66 GAATTTTT-CAGAATTATACAGAGGTATTGATAATCAGGGCATATATATCTATACTTCTGAGTTG
*
41035199 AAACAAATGTCCAGGAAATAGTTGCTAATTTTGGTATCGATACCAATTCCCGAGTATCGATACTC
130 AAACAAATGTCCAGGAAATAGTTGCTAATTTTGGTATCGATACCAGTTCCCGAGTATCGATACTC
*
41035264 GGGGTAAAAATATAGATACTTTTGAATTGTATTGATAAATTACTG
195 GGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTACTG
41035309 AATTTTGGAT
Statistics
Matches: 448, Mismatches: 37, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
246 64 0.14
247 383 0.85
248 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.35
Consensus pattern (246 bp):
ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATACGGAATGCCCTATTCTGCTT
GAATTTTTCAGAATTATACAGAGGTATTGATAATCAGGGCATATATATCTATACTTCTGAGTTGA
AACAAATGTCCAGGAAATAGTTGCTAATTTTGGTATCGATACCAGTTCCCGAGTATCGATACTCG
GGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTACTGGGTTTTG
Found at i:41036659 original size:712 final size:710
Alignment explanation
Indices: 41035069--41042403 Score: 7689
Period size: 712 Copynumber: 10.5 Consensus size: 710
41035059 CTGGGTTTTG
* * ** * *
41035069 ATTGAAGTTATGGATGCATGTTGAAGTGGTAAGTGATTAAGTATACGGAATGCCCTATTCTGCTT
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTA
* * * * * *
41035134 GAATTTTTACAAAATTATACAGAGGTATTGATAATCAGTGCATATATATCTATACTTCTGAGTTG
66 GAATTTTTGCAGAATTATACAGAGGTATCGATAATCAGGGCATATGTATCGATACTTCTGAGTTG
* * * * * *
41035199 AAACAAATGTCCAGGAAATAGTTGCTAATTTTGGTATCGATACCAATTCCCGAGTATCGATACTC
131 AAAC-AATGTGCAGGAAACAGTTGCTCATTTTGGTATCGATACCAGTTCTCGAGTATTGATACTC
* **
41035264 GGGGTAAAAATATAGATACTTTTGAATTGTATTGATAAATT-ACTGAATTTTGGATTTTGAAGAA
195 GGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGA-TGGGTTTT-GATTTTGAAGAA
* * * * *
41035328 GATCAGAATGTTAAAAAGGTTTCGATTTTCCAAACAGTATCGGTACCTATTTAT-AGAAATATCG
258 AAT-AGAATGTTAAAAAGGTATCGATTTTCCAAACGGTATCGATACCCATTT-TGAGAAATATCG
* * *
41035392 ATTCTCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTGTTGGTAGTTTTCTCCCGATCA
321 ATTCCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCGATCA
* * * *
41035457 TTCCCTAAGTTTGTTTAAGCTCACACACTCTTTTTTTAACCTTTGCAGATAGTTAGTGTTTCCGG
386 TTCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCAGATAGTTAGTGTTTCCGG
* *
41035522 TGTGGGCAGTGCGGAATTCTAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATT
451 TGTGGGCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATT
*
41035587 ATTGCTATTAGTTTTT-AACTGTGGGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTCTC
516 ATTGCTATTA-TTTTTGAACTGT-GGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATC
* *
41035651 ATGATTTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGCTATTAGTTTA
579 ATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTTA
* *
41035716 TTGGCTTT-CTTGGTTGAAATTATTTATATTGCTATAGACTGCAAATATGGACATTTTGATGTTT
644 TTGG-TTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTG
41035780 AAT
708 AAT
* * * * *
41035783 ATTGAAATGATGGATGCATGTTAAAGTGGAATGTGATTGAGTATGTGGAATGCCCTGTTTTGCTA
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTA
* * *
41035848 GAATTTTTGCGGAATTATACAGAGGTATTGATAATC-GAGGCATATGCATCGATACTTCTGAGTT
66 GAATTTTTGCAGAATTATACAGAGGTATCGATAATCAG-GGCATATGTATCGATACTTCTGAGTT
* * *
41035912 GAAACGAATGTGCAGGAAACAATCGCTCATTTTGGTATTGATACCAGTTCTCGAGTATTGATACT
130 GAAAC-AATGTGCAGGAAACAGTTGCTCATTTTGGTATCGATACCAGTTCTCGAGTATTGATACT
*
41035977 CGAGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTTAGATTTTGAAGAA
194 CGGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTT-GATTTTGAAGAA
* * * **
41036042 AACTAGAATGTTAAAAAGGTTTTGGTTTTCCAAATAGTATCGATACCCATTTTGAGAAATATCGA
258 AA-TAGAATGTTAAAAAGGTATCGATTTTCCAAACGGTATCGATACCCATTTTGAGAAATATCGA
* * * * ** *
41036107 TTCCCATTTACATGTTCTTATTTAAAGTATGTTATCATGTTTATCAGTAGTTTTTTTCCGATCAT
322 TTCCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCGATCAT
* * *
41036172 TCACTAAGCTTGTTTAACCTCACACACTCTTTTCTGAACCTTTGCAGATAATTAGTGTTTCCGAT
387 TCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCAGATAGTTAGTGTTTCCGGT
* *** ** * *
41036237 TTGGGAAATGCAAAATTCCAAAGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTATGTGATATTA
452 GTGGGCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATTA
*
41036302 TT-CTATTATTTTT-AACTGTAGGAATAAAACAATGTGGTAGAATTGTTGGTTGATTATTATCAT
517 TTGCTATTATTTTTGAACTGT-GGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATCAT
* * *
41036365 GATGTTTTAAATGATTATTTTGATTTTAACACTCTTAGGTTCCTGGATGTTGTTATTAGTTTATT
581 GATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTTATT
* * *
41036430 GGTTTGCTTGGTTGAAATTATTCATATTGCTATGGATTTCAAATATGGACATTTTGATGTTGAAT
646 GGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTGAAT
41036495 ATTGAAGTTACT-GATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCT
1 ATTGAAGTTA-TGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCT
* * * *
41036559 GGAATTTTTGCAAAATTATACAGAGGTATCGATAATCAGAGCATACGTATCGATACTTCTGAGTT
65 AGAATTTTTGCAGAATTATACAGAGGTATCGATAATCAGGGCATATGTATCGATACTTCTGAGTT
* * * * *
41036624 GAAACAATTGTGCAAGAAACAGTAGCACTTTTTGGTATCGATACCAATTCTCGAGTATTGATACT
130 GAAACAA-TGTGCAGGAAACAGTTGCTCATTTTGGTATCGATACCAGTTCTCGAGTATTGATACT
* * * *
41036689 TGGGGTAAAAATATAGATACTTTTGAATTATATCGATAAATTGGTGGATTTTGGATTTTGAA-AA
194 CGGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTT-GATTTTGAAGAA
* * * * * *
41036753 AGATCAAAATGTTAAAAAGGTTTCAATTTTCCAAACGGTATTGATACCAATTTAT-AAAAATATC
258 A-AT-AGAATGTTAAAAAGGTATCGATTTTCCAAACGGTATCGATACCCATTT-TGAGAAATATC
* * *
41036817 GATTCCCATTTAGATGTTCTCATTTAATGTATGATATCATATTTGTTGGTAG-TTTTTCCCTATC
320 GATTCCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCGATC
* * * *
41036881 ATCCCCTAAGCTTGTTTAAGCTCACACACTCTTTTATGAACCTTTGTAGATAGTTAGTGTTTCCG
385 ATTCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCAGATAGTTAGTGTTTCCG
* *
41036946 GTGTGGGCAGTGCGGAATTCCAACGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATAT
450 GTGTGGGCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATAT
* *
41037011 TATTGCTATTAGTTTTT-AACTGTGGGAATAAGAAAATGTGGTAAAATTGTTGGTTGATTATTAT
515 TATTGCTATTA-TTTTTGAACTGT-GGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTAT
* * * *
41037075 CATGATTTTTTAAATGATTATTTTGCTTTTAATACTCTTAGGTTCGTGGACGTTGCT-TTAGTTC
578 CATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTT
* * * *
41037139 ATTGGCTTGCTTGGTTGAAATTATTTATATTGTTATGGACTGCAAATATGAACA-TTTGATGTTT
643 ATTGGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTG
41037203 AAT
708 AAT
* * *
41037206 ATTGAAGTGATGGATGCATGTTAAAGTGGTATGTGATTGAGTATGTGGAATGCTCTATTTTGCTA
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTA
* * * * *
41037271 GAATTTTTGTAGAATTATATAGAGGTATTGATAATCGGGGGCATATGCATCGATACTTCTGAGTT
66 GAATTTTTGCAGAATTATACAGAGGTATCGATAATC-AGGGCATATGTATCGATACTTCTGAGTT
* * *
41037336 GAAACGAATGTGCAGGAAACAATCGCTCATTTTGGTATCGATACCAGTTCTCGAGTATCGATACT
130 GAAAC-AATGTGCAGGAAACAGTTGCTCATTTTGGTATCGATACCAGTTCTCGAGTATTGATACT
* * *
41037401 CGGGGTAAAAATATAGATACTTTTGAATTGTATCGCTAAATTGATAGGTTTTGAATTTTGTAGAA
194 CGGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTTG-ATTTTGAAGAA
* * *
41037466 AATCAAAATGTTAAAAAGGT-TCCGATTTTCCAAATGGTATCGATACCCATTTTGAGAAATATTG
258 AAT-AGAATGTTAAAAAGGTAT-CGATTTTCCAAACGGTATCGATACCCATTTTGAGAAATATCG
41037530 ATT-CCAGTTTAGATGTTCTCATTTAATGCT-TGATATCATGTTTATTGGTAGTTTTTTCCCGAT
321 ATTCCCA-TTTAGATGTTCTCATTTAATG-TATGATATCATGTTTATTGGTAGTTTTTTCCCGAT
* * * * * *
41037593 CATTCACTAAGCTTGTATAAGCTCATACACTATTTTCTGAACCTTTGCACATAGTTAGTATTTTC
384 CATTCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCAGATAGTTAGTGTTTCC
* * ** * * * *
41037658 GGTGTAGGCGGTACAAAATTCTAAGGAAGTGATCAAAGTTAGGTTTAGTGTTTGAATAGGTGATA
449 GGTGTGGGCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATA
* *
41037723 TTATTGCTATTATTTTTGAACTGTAGGAATAAGACAATATGGTTGAATTGTTGGTTGATTATTAT
514 TTATTGCTATTATTTTTGAACTGT-GGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTAT
* *
41037788 CATGATTTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGCTATTAGTTT
578 CATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTT
* * * * *
41037853 A-TCGTTTCCTTGCTTGAAATTATTGATATTGCTATGGACTACATAA-ATGGACATTTTGATGTT
643 ATTGGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCA-AATATGGACATTTTGATGTT
* *
41037916 TAAG
707 GAAT
* * * * * * *
41037920 ATTGAAGTTATAGATGCATATTGACGTGGTATGTGATTGGGTATATGGAATGCCTTGTTTTGCTA
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTA
* * * *
41037985 GAATTTTTGTATAATTATACAGAGGTATCGATAATCAGGGCACATGTATCGATACTTCTAAGTTG
66 GAATTTTTGCAGAATTATACAGAGGTATCGATAATCAGGGCATATGTATCGATACTTCTGAGTTG
* * ** * * * *
41038050 GAACAAATGTGTAGGAAATGGCTGCTCATTTTGGTATTGATACTAGTTCTTGAGTATTGATACTC
131 AAAC-AATGTGCAGGAAACAGTTGCTCATTTTGGTATCGATACCAGTTCTCGAGTATTGATACTC
* * * * * * **
41038115 GGGATAAAAATATAGGTAGTTTTGAATTATATTGATAAATTGCTGAATTTTAGATTTTGAA-AAA
195 GGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTT-GATTTTGAAGAAA
* *
41038179 GATCAGAATGTTAAAAAGGT-TCTGATTTTCCAAACGGTGTCGATACCCATTTAT-AGAAATACC
259 -AT-AGAATGTTAAAAAGGTATC-GATTTTCCAAACGGTATCGATACCCATTT-TGAGAAATATC
* * *
41038242 GATTCTCATTTAGATGTTCTCATTTAATGTATGATATGATGTTTATTGGTAGTTTTTTCCCAATC
320 GATTCCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCGATC
*
41038307 ATTCACTAAACTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCA-AGTAGTTAGTGTTTCC
385 ATTCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCAGA-TAGTTAGTGTTTCC
* *
41038371 GGTGTGGGCGGTGCAGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTAATA
449 GGTGTGGGCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATA
*
41038436 TTATTGCTATTATTTTTGAACTGTGGGAATAAGACAATGTTGTAGAATTGTTGGTTGATTATTAT
514 TTATTGCTATTATTTTTGAACTGT-GGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTAT
* * *
41038501 C------------ATGATTATTTTAATTTTAATAATCTTAGGTTTGTGGACGTTGTTATTAGTTT
578 CATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTT
* * * * **
41038554 ATTGGTTTGCTTTGTTGAAATTATTCATATTGCTATAGATTTTAAATATGGACATTTTGATGTTG
643 ATTGGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTG
41038619 AAT
708 AAT
* * * *
41038622 ATTGAAGCTACT-GATGCATGTTAAAGTGGTATGTGATTGAGTATGTGGAATGCCTTATGTTGCT
1 ATTGAAGTTA-TGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCT
* * * *
41038686 GGAATTTTTGCAGAATTATACAGAGGTATCAATAATCAGGGCATACGTATCAATACTTCTGAGTT
65 AGAATTTTTGCAGAATTATACAGAGGTATCGATAATCAGGGCATATGTATCGATACTTCTGAGTT
* ** * * * * *
41038751 GAAACAATTGTGCAAGAAGTAGTAGCTCTTTTTGGTATC-AAATCTAATTCTCGAGTATTGATAC
130 GAAACAA-TGTGCAGGAAACAGTTGCTCATTTTGGTATCGATA-CCAGTTCTCGAGTATTGATAC
* * * * * *
41038815 TTGGGGTAAAAATATAGATACTTTTGGATTATATCAATAAATTGTTGGGTTTTGAATTTTGAATA
193 TCGGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTTG-ATTTTGAAGA
* * * * *
41038880 AAAGAAAAATTTTAAAAA-GTATCGATTTTCCAAACGGTATCGATACCTATTTTTAGAAATATCG
257 AAA-TAGAATGTTAAAAAGGTATCGATTTTCCAAACGGTATCGATACCCATTTTGAGAAATATCG
* * * * *
41038944 ATACTCATTTAGATATTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTTCTCAATC
321 ATTCCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAG-TTTTTTCCCGATC
* * * * * * * *
41039009 ATTCACTGAGTTTGTTTAAGCT--CATA-TCTTTTCTAAACTTTTGTAGATTGTTAGTGGTTCCG
385 ATTCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCAGATAGTTAGTGTTTCCG
* * ** * **
41039071 ATGTGGGCGATGCGGAATTCTTAGAAAGTGATTGAAGTTAGGCTTAGTGTTTGAGTAGGTGATAT
450 GTGTGGGCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATAT
* * * * *
41039136 TATTGCTATTATTTTTGAACTGTGAGAATGAGTCAACGTGATAGAATTGTTGGTTGATTACTATC
515 TATTGCTATTATTTTTGAACTGTG-GAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATC
* * * * *
41039201 ATGATGTTTTAAATGATTATTTTGATTTTAAGACTTTTAGGTTCATGGATGGTGTTATTAGTTTA
579 ATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTTA
* * *
41039266 TTGGTTTGCTTGGTTGAAATTATTTATACTGCTATGGACCG-AGAATATGGACATTTTGATGTTT
644 TTGGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCA-AATATGGACATTTTGATGTTG
41039330 AAT
708 AAT
* *
41039333 GTTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTT
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTA
* * *
41039398 GAATTTTTGCAGAATTATACAGAGGTATCGATAATCGGGGCATATATATCTATACTTCTGAGTTG
66 GAATTTTTGCAGAATTATACAGAGGTATCGATAATCAGGGCATATGTATCGATACTTCTGAGTTG
* * * *
41039463 AAACGAATGCGCAGGAAACAGTTGCTCACTTTT-GTATCAATACCAGTTCTTGAGTATCGATACT
131 AAAC-AATGTGCAGGAAACAGTTGCTCA-TTTTGGTATCGATACCAGTTCTCGAGTATTGATACT
* * * *
41039527 CAGGCTAAAAAGATAGATACTTTTTAATTGTATCGATAAATTGATGGGTTTTGGATTTTGAAGAA
194 CGGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTT-GATTTTGAAG-A
* ** * * * * * *
41039592 AAACAGAATGTTAAAAAGGTATTAATTTTTCAAACGATATCCATACCCATTTCGAAAAATATCTA
257 AAATAGAATGTTAAAAAGGTATCGATTTTCCAAACGGTATCGATACCCATTTTGAGAAATATCGA
* * * *
41039657 TACCCATTTAGATATTCTAATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCGACCAT
322 TTCCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCGATCAT
* * *
41039722 TCACTGAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGTAGATAGTTAGTGTGTT-TGG
387 TCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCAGATAGTTAGTGT-TTCCGG
* * * * * *
41039786 TGTGAGCGGTGCTGAATTTCAAGGAAGCGATCCAAGTTAGGCTTAGTGTTTGAGTTGATGATATT
451 TGTGGGCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATT
* * *
41039851 ATTGCTATTATTTTTTAGCTGTGAAAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATCA
516 ATTGCTATTATTTTTGAACTGTG-GAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATCA
* * *
41039916 TAATGTTTGAAATG---A--TT-ATTTTAATACTCTTAGGTTCTTGGACGTTGTTATTAGTTTAT
580 TGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTTAT
* * * * *
41039975 TGGTTTGGTTGGTTGAAATTATTGATATTGCTATGGATTGCAAATATGAAAATTTTGATGTT-AA
645 TGGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTGAA
41040039 TT
710 -T
* * * * * ** *
41040041 ATTAAATTTATAGATGTATGTTGAAGTGGTATATGATTGAGTATGTTCAATGCCCTATTTTCCTA
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTA
* * * * *
41040106 GAATTTTTGCAGAATTATACAAATGTATCAATAAAC-GAGGCATATGTATCGATACTTTTGAGTT
66 GAATTTTTGCAGAATTATACAGAGGTATCGATAATCAG-GGCATATGTATCGATACTTCTGAGTT
** * * * * * *
41040170 GAAGTGAATGTGCAAGAAATAGTTGCTCACTTTGG--T--A-ACGAG-----GAATATAGATACT
130 GAA-ACAATGTGCAGGAAACAGTTGCTCATTTTGGTATCGATACCAGTTCTCGAGTATTGATACT
*** *** * * * ** * * * ***** *
41040225 -TTTG-AATTTTATTGATAAATTACTGGGTT-T-TGGAT--TTTGAAGAAAAACTGAATGTT-AA
194 CGGGGTAAAAATATAGAT-ACTT-TTGAATTGTATCGATAAATTGATG-GGTTTTG-ATTTTGAA
* * * ** * * * *
41040283 -AAATGTATCGATTTTTTCAACGGTATCGATACCCATTTCGAGAA--ATATCGATACACA-TTT-
255 GAAA---ATAGAATGTTAAAAAGGTATCGAT-----TTTCCA-AACGGTATCGATACCCATTTTG
*
41040343 AG----AT-G-TTCTCATTTA-A---T-TC---------ATGATATCATGTTTATTGGTAGTTTT
311 AGAAATATCGATTCCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAG-TTT
* * * *
41040388 TTTCCTGATCATTCACTAAGCTTGTTTAAGCTCAAACACTCTTTTCTAAACCTTTGTAGATAGTT
375 TTTCCCGATCATTCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCAGATAGTT
*** * **
41040453 AGTGTTTTTAGTGTAGGCGGTGCAAAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAG
440 AGTGTTTCCGGTGTGGGCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAG
* * * * * ***
41040518 TAAGTGATATTATTGCTA-T-TGTTTG-A-T-T---ATTA-TC-A--TGAT-G--TT-TTAAATG
505 TAGGTGATATTATTGCTATTATTTTTGAACTGTGGAATAAGACAATGTGGTAGAATTGTTGGTTG
* * ** * * *
41040567 ATTATT-T--TGA--TTTT-AAT-A--CTCTT-AGGTTCATGGAC-GTT--GTTAGT--A-G-T-
570 ATTATTATCATGATGTTTTAAATGATTATTTTGATTTTAAT--ACTCTTAGGTTCGTGGACGTTG
* * * * * ** * *
41040614 TTATTGGTTTGCTTGG-TTGAAATT-ATTGATAATTATATGGATTGCAAAT--A-TGGAAAT-T-
633 TTATTAGTTT-ATTGGTTTG--CTTGGTTGA-AATTATTTATATTGC-TATGGACTGCAAATATG
* *
41040672 ----T--TGATATTGATT
693 GACATTTTGATGTTGAAT
* * *
41040684 ATTGAAGTTATGGATGCATGTTGAAGTGGTATATGATTGAGTATGTGGAATGCCCTATTTTACTT
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTA
* * * *
41040749 GAATTTTTGTAGAATTATACAGAAGTATCGATAAATGA-GGCATATGTGTCGATACTTCTGAGTT
66 GAATTTTTGCAGAATTATACAGAGGTATCGAT-AATCAGGGCATATGTATCGATACTTCTGAGTT
* * * * *
41040813 GAAACGAATGTGTAGGAAACAATTGCTCATTTTGGTATCGATACCAATTCTTGAGTATCGATACT
130 GAAAC-AATGTGCAGGAAACAGTTGCTCATTTTGGTATCGATACCAGTTCTCGAGTATTGATACT
* * * * *
41040878 CAGTGTAAAAATTTAGATACTTTTGAATTGTATCGATAAATTGTTGGATTTTAGATTTTGAAGAA
194 CGGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTT-GATTTTGAAG-A
* * * * *
41040943 AAATTGAATGTTAAAAAGGTATCGAGTTTCCAAATGGTATCAATACCTC-TTTTGAGAAATATTG
257 AAATAGAATGTTAAAAAGGTATCGATTTTCCAAACGGTATCGATACC-CATTTTGAGAAATATCG
* * * ** ** *
41041007 ATACCCATTTAGTTGTTCTCATATAATGTATGATATTGTGTTTATTTTTTA-TTTTTTCTCTCAA
321 ATTCCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTA-TTGGTAGTTTTTTC-C-CGA
* * * *
41041071 TCGTTCACTGAGCTTGTTTAAGCTCACACACTCTTTTCTAAACTTTTGCAGATAGTTAGTGTTTC
383 TCATTCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCAGATAGTTAGTGTTTC
* * * * * *
41041136 CGGTATGGGTGGTGTGAAATT-CTAGGAAACTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGA
448 CGGTGTGGGCGGTGCGGAATTCCAAGG-AAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGA
* * *
41041200 TATTATTACTATTATTTTTGAACTGTGGGAATAAGACAA-----T---A----TAGTTGA-AATT
512 TATTATTGCTATTATTTTTGAACTGT-GGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATT
* * * *
41041252 ATCATGATGTTTTAAGTGATTATTTTGATTTCAATGCTCTTAGGTTCGTGGACTTTGTTATTAGT
576 ATCATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGT
* * * *
41041317 TTATTGGTTTGCTTGGTTGAAATTATTCATAGTGCTATAGACTTCAAATATGGACATTTTGATGT
641 TTATTGGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGT
41041382 TGAAT
706 TGAAT
* * ** *
41041387 ATTGAAGTTATGGATGCATGTTGAAGTGGTTTGTGATTTAGTATACGGAATGCCCTGTTTTAG-T
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTT-GCT
* * * * * * * *
41041451 TGAATTTTTGCAGAATTATACTA-A-GAATTCGATAATCGGGGCATATATATCGATATTTTTTAT
65 AGAATTTTTGCAGAATTATAC-AGAGGTA-TCGATAATCAGGGCATATGTATCGATACTTCTGAG
* * * * * *
41041514 TTGAAACAAATGTGCATGAAACAATTCCTCATTTTTGTATCGATACCATTTCTCGAGTATGGATA
128 TTGAAAC-AATGTGCAGGAAACAGTTGCTCATTTTGGTATCGATACCAGTTCTCGAGTATTGATA
* * *
41041579 CTCGGGGTAAAATTATAGATACTTTTGAATTGTATCGATAAAATGCTGGGTTTTAGATTTTGAAG
192 CTCGGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTT-GATTTTGAAG
* * * * *
41041644 AAAAACAGAATGTTAAAAATGTACCAATTTTCCAAACAGTATCGATA--C--------------C
256 -AAAATAGAATGTTAAAAAGGTATCGATTTTCCAAACGGTATCGATACCCATTTTGAGAAATATC
*
41041693 ---T---ATTTAGATGTTCTCATTTAATGTATTATATCATGTTTATTGGTAGTTTTTTCCCGATC
320 GATTCCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCGATC
* * ** * *
41041752 ATTCGCTGAGCTTGTTTAAGCTCACACGTTTTTTTCT-AATCTTTTGCAGATAGTTAGTGTTTCC
385 ATTCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAA-CCTTTGCAGATAGTTAGTGTTTCC
* *
41041816 GGTGTGGGCGGTGTGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTAAGTAGGTGATA
449 GGTGTGGGCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATA
* * * * *
41041881 TTATTGCTATTATTTTTGAAGTGTGCGAATAAGATAATGTGATTGAATTGTTGGCTGATTATTAT
514 TTATTGCTATTATTTTTGAACTGTG-GAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTAT
* * * * * *
41041946 CATGATGGTTGAAATGATTATTTTGTTTTTAATACTCTTTGG-TCTATGGGCGTTGTTATTAGTT
578 CATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTC-GTGGACGTTGTTATTAGTT
* * * * * * *
41042010 TATTGGTTTGTTTCGTTGAAATTATTTATATCGCTTTGGACTTCAAATATGGATATTTTGATGTC
642 TATTGGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTT
41042075 GAAT
707 GAAT
* * **
41042079 ATGGAAGTTATGGATTCACATTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTA
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTA
* * * * ** * * *
41042144 AAATTTTTACAGAATTTTACAGTGGTATTAATAAT-AGTGGCATACGTATCAATACTTTTGAGTT
66 GAATTTTTGCAGAATTATACAGAGGTATCGATAATCAG-GGCATATGTATCGATACTTCTGAGTT
* * * * * *
41042208 GAAATGAATGTGTAGGAAACAATTGCTCATTTTGGTATCTATACTAGTTCTCGAGTATTAATACT
130 GAAA-CAATGTGCAGGAAACAGTTGCTCATTTTGGTATCGATACCAGTTCTCGAGTATTGATACT
* * *
41042273 CGGGGTAAAAATATAGATACTTTTGAATTGTATCAATAAATTGCTGAGTTTTGAATTTTGAAGAA
194 CGGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTTG-ATTTTGAAG-A
* * * * *
41042338 AAACAAAATGTTAAAAAGGTATCGATTTTTCGAACGGTATCGATACCTATTTTGAGAAATATCGA
257 AAATAGAATGTTAAAAAGGTATCGATTTTCCAAACGGTATCGATACCCATTTTGAGAAATATCGA
41042403 T
322 T
41042404 GCCAGTATGT
Statistics
Matches: 5531, Mismatches: 846, Indels: 491
0.81 0.12 0.07
Matches are distributed among these distances:
643 143 0.03
644 3 0.00
645 2 0.00
647 1 0.00
648 3 0.00
650 3 0.00
651 23 0.00
652 18 0.00
653 33 0.01
654 11 0.00
655 14 0.00
656 30 0.01
657 14 0.00
658 6 0.00
659 6 0.00
660 9 0.00
661 10 0.00
662 2 0.00
664 2 0.00
665 5 0.00
667 1 0.00
668 1 0.00
669 3 0.00
673 8 0.00
674 19 0.00
675 123 0.02
676 5 0.00
677 30 0.01
678 137 0.02
679 150 0.03
680 16 0.00
681 40 0.01
682 3 0.00
683 1 0.00
684 8 0.00
685 3 0.00
686 3 0.00
687 3 0.00
688 5 0.00
689 4 0.00
690 6 0.00
691 19 0.00
692 369 0.07
693 16 0.00
694 18 0.00
695 37 0.01
696 12 0.00
697 5 0.00
698 17 0.00
699 153 0.03
700 10 0.00
701 145 0.03
702 310 0.06
703 270 0.05
704 2 0.00
706 1 0.00
707 6 0.00
708 226 0.04
709 3 0.00
710 3 0.00
711 603 0.11
712 882 0.16
713 801 0.14
714 712 0.13
715 4 0.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (710 bp):
ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTA
GAATTTTTGCAGAATTATACAGAGGTATCGATAATCAGGGCATATGTATCGATACTTCTGAGTTG
AAACAATGTGCAGGAAACAGTTGCTCATTTTGGTATCGATACCAGTTCTCGAGTATTGATACTCG
GGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTTGATTTTGAAGAAAAT
AGAATGTTAAAAAGGTATCGATTTTCCAAACGGTATCGATACCCATTTTGAGAAATATCGATTCC
CATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCGATCATTCAC
TAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCAGATAGTTAGTGTTTCCGGTGTGG
GCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATTATTGC
TATTATTTTTGAACTGTGGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATCATGATGT
TTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTTATTGGTTT
GCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTGAAT
Found at i:41042229 original size:692 final size:680
Alignment explanation
Indices: 41040540--41042389 Score: 2124
Period size: 692 Copynumber: 2.7 Consensus size: 680
41040530 TTGCTATTGT
41040540 TTGATTATTATCATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCATGGACGTT
1 TTGATTATTATCATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCATGGACGTT
* * **
41040605 GTTAGTAGTTTATTGGTTTGCTTGGTTGAAATTATTGATAATTATATGGA-TTGCAAATATGGAA
66 GTTATTAGTTTATTGGTTTGCTTGGTTGAAATTATTCAT-ATGCTATGGACTT-CAAATATGGAA
* * *
41040669 ATTTTGATATTGATTATTGAAGTTATGGATGCATGTTGAAGTGGTATATGATTGAGTATGTGGAA
129 ATTTTGATGTTGAATATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAA
* * * * *
41040734 TGCCCTATTTTACTTGAATTTTTGTAGAATTATACAGAAGTATCGATAA-ATGAGGCATATGTGT
194 TGCCCTATTTTGCTTGAATTTTTGCAGAATTATACAGTAGTATTGATAATA-GAGGCATATGTAT
*
41040798 CGATACTTCTGAGTTGAAACGAATGTGTAGGAAACAATTGCTCATTTTGGTATCGATACCAATTC
258 CGATACTTTTGAGTTGAAACGAATGTGTAGGAAACAATTGCTCATTTTGGTATCGATACCAATTC
* * * * *
41040863 TTGAGTATCGATACTCAGTGTAAAAATT-TAGATACTTTTGAATTGTATCGATAAATTGTTGGAT
323 TCGAGTATCGATACTCGGGGT-AAAATTATAGATACTTTTGAATTGTATCGATAAATTGCTGGGT
** * *
41040927 TTTAGATTTTGAAGAAAAATTGAATGTTAAAAAGGTATCGAGTTTCCAAATGGTATCAATACCTC
387 TTTAGATTTTGAAGAAAAACAGAATGTT-AAAA---AT---G-TACC-AAT--TTTCAA-A---C
* * * ** **
41040992 TTTTGAGAAATATTGATACCCATTTAGTTGTTCTCATATAATGTATGATATTGTGTTTATTTTTT
437 -----AG---TATCGATACCTATTTAGATGTTCTCATATAATGTATGATATCATGTTTATTTGGT
*
41041057 ATTTTTTCTCTCAATCGTTCACTGAGCTTGTTTAAGCTCACACACTCTTTTCTAAACTTTTGCAG
494 ATTTTTTCTCTCAATCATTCACTGAGCTTGTTTAAGCTCACACACTCTTTTCTAAACTTTTGCAG
* *
41041122 ATAGTTAGTGTTTCCGGTATGGGTGGTGTGAAATTCTAGGAAACTGATCCAAGTTAGGCTTAGTG
559 ATAGTTAGTGTTTCCGGTATGGGCGGTGTGAAATTCAAGGAAACTGATCCAAGTTAGGCTTAGTG
* *
41041187 TTTGAGTAGGTGATATTATTACTATTATTTTTGAACTGTGGGAATAAGACAATATAG
624 TTTAAGTAGGTGATATTATTACTATTATTTTTGAACTGTGCGAATAAGACAATATAG
* * * * * *
41041244 TTGA-AATTATCATGATGTTTTAAGTGATTATTTTGATTTCAATGCTCTTAGGTTCGTGGACTTT
1 TTGATTATTATCATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCATGGACGTT
* *
41041308 GTTATTAGTTTATTGGTTTGCTTGGTTGAAATTATTCATAGTGCTATAGACTTCAAATATGGACA
66 GTTATTAGTTTATTGGTTTGCTTGGTTGAAATTATTCATA-TGCTATGGACTTCAAATATGGAAA
* * **
41041373 TTTTGATGTTGAATATTGAAGTTATGGATGCATGTTGAAGTGGTTTGTGATTTAGTATACGGAAT
130 TTTTGATGTTGAATATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAAT
* * * * *
41041438 GCCCTGTTTTAG-TTGAATTTTTGCAGAATTATAC--TAAGAATTCGATAATCGGGGCATATATA
195 GCCCTATTTT-GCTTGAATTTTTGCAGAATTATACAGT-AGTATT-GATAATAGAGGCATATGTA
* * * * * * * * *
41041500 TCGATATTTTTTATTTGAAACAAATGTGCATGAAACAATTCCTCATTTTTGTATCGATACCATTT
257 TCGATACTTTTGAGTTGAAACGAATGTGTAGGAAACAATTGCTCATTTTGGTATCGATACCAATT
* *
41041565 CTCGAGTATGGATACTCGGGGTAAAATTATAGATACTTTTGAATTGTATCGATAAAATGCTGGGT
322 CTCGAGTATCGATACTCGGGGTAAAATTATAGATACTTTTGAATTGTATCGATAAATTGCTGGGT
41041630 TTTAGATTTTGAAGAAAAACAGAATGTTAAAAATGTACCAATTTTCCAAACAGTATCGATACCTA
387 TTTAGATTTTGAAGAAAAACAGAATGTTAAAAATGTACCAATTTT-CAAACAGTATCGATACCTA
* * * *
41041695 TTTAGATGTTCTCATTTAATGTATTATATCATGTTTA-TTGGTAGTTTTTTC-C-CGATCATTCG
451 TTTAGATGTTCTCATATAATGTATGATATCATGTTTATTTGGTA-TTTTTTCTCTCAATCATTCA
** * * *
41041757 CTGAGCTTGTTTAAGCTCACACGTTTTTTTCTAATCTTTTGCAGATAGTTAGTGTTTCCGGTGTG
515 CTGAGCTTGTTTAAGCTCACACACTCTTTTCTAAACTTTTGCAGATAGTTAGTGTTTCCGGTATG
* *
41041822 GGCGGTGTGGAATTCCAAGG-AAGTGATCCAAGTTAGGCTTAGTGTTTAAGTAGGTGATATTATT
580 GGCGGTGTGAAATT-CAAGGAAACTGATCCAAGTTAGGCTTAGTGTTTAAGTAGGTGATATTATT
* * *
41041886 GCTATTATTTTTGAAGTGTGCGAATAAGATAATGTGATTGAATTG
644 ACTATTATTTTTGAACTGTGCGAATAAGACAA--T-A-T--A--G
* * * *
41041931 TTGGCTGATTATTATCATGATGGTTGAAATGATTATTTTGTTTTTAATACTCTTTGG-TCTATGG
1 -T---TGATTATTATCATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTC-ATGG
* * * * *
41041995 GCGTTGTTATTAGTTTATTGGTTTGTTTCGTTGAAATTATTTATATCGCTTTGGACTTCAAATAT
61 ACGTTGTTATTAGTTTATTGGTTTGCTTGGTTGAAATTATTCATAT-GCTATGGACTTCAAATAT
* * * * **
41042060 GGATATTTTGATGTCGAATATGGAAGTTATGGATTCACATTGAAGTGGTATGTGATTGAGTATGT
125 GGAAATTTTGATGTTGAATATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGT
** * * * * * *
41042125 GGAATGCCCTATTTTGCTAAAATTTTTACAGAATTTTACAGTGGTATTAATAATAGTGGCATACG
190 GGAATGCCCTATTTTGCTTGAATTTTTGCAGAATTATACAGTAGTATTGATAATAGAGGCATATG
* * * * *
41042190 TATCAATACTTTTGAGTTGAAATGAATGTGTAGGAAACAATTGCTCATTTTGGTATCTATACTAG
255 TATCGATACTTTTGAGTTGAAACGAATGTGTAGGAAACAATTGCTCATTTTGGTATCGATACCAA
** * * *
41042255 TTCTCGAGTATTAATACTCGGGGTAAAAATATAGATACTTTTGAATTGTATCAATAAATTGCTGA
320 TTCTCGAGTATCGATACTCGGGGTAAAATTATAGATACTTTTGAATTGTATCGATAAATTGCTGG
* * * * * *
41042320 GTTTT-GAATTTTGAAGAAAAACAAAATGTTAAAAAGGTATCGATTTTTCGAACGGTATCGATAC
385 GTTTTAG-ATTTTGAAGAAAAACAGAATGTTAAAAATGTA-CCAATTTTCAAACAGTATCGATAC
41042384 CTATTT
448 CTATTT
41042390 TGAGAAATAT
Statistics
Matches: 977, Mismatches: 139, Indels: 72
0.82 0.12 0.06
Matches are distributed among these distances:
679 149 0.15
680 9 0.01
681 50 0.05
682 1 0.00
683 1 0.00
684 2 0.00
685 1 0.00
687 1 0.00
688 1 0.00
689 1 0.00
691 8 0.01
692 367 0.38
693 13 0.01
694 4 0.00
695 3 0.00
696 1 0.00
699 2 0.00
702 15 0.02
703 342 0.35
704 6 0.01
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (680 bp):
TTGATTATTATCATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCATGGACGTT
GTTATTAGTTTATTGGTTTGCTTGGTTGAAATTATTCATATGCTATGGACTTCAAATATGGAAAT
TTTGATGTTGAATATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATG
CCCTATTTTGCTTGAATTTTTGCAGAATTATACAGTAGTATTGATAATAGAGGCATATGTATCGA
TACTTTTGAGTTGAAACGAATGTGTAGGAAACAATTGCTCATTTTGGTATCGATACCAATTCTCG
AGTATCGATACTCGGGGTAAAATTATAGATACTTTTGAATTGTATCGATAAATTGCTGGGTTTTA
GATTTTGAAGAAAAACAGAATGTTAAAAATGTACCAATTTTCAAACAGTATCGATACCTATTTAG
ATGTTCTCATATAATGTATGATATCATGTTTATTTGGTATTTTTTCTCTCAATCATTCACTGAGC
TTGTTTAAGCTCACACACTCTTTTCTAAACTTTTGCAGATAGTTAGTGTTTCCGGTATGGGCGGT
GTGAAATTCAAGGAAACTGATCCAAGTTAGGCTTAGTGTTTAAGTAGGTGATATTATTACTATTA
TTTTTGAACTGTGCGAATAAGACAATATAG
Found at i:41042774 original size:20 final size:19
Alignment explanation
Indices: 41042722--41042771 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
41042712 TTCCTTATAA
* *
41042722 ATTTTTA-TAATTCCTCAT
1 ATTTTTAGTACTTCTTCAT
*
41042740 ATTTTTTGTACTTCTTCAT
1 ATTTTTAGTACTTCTTCAT
*
41042759 GTTTTTAGTACTT
1 ATTTTTAGTACTT
41042772 TCTACGATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.20, C:0.14, G:0.06, T:0.60
Consensus pattern (19 bp):
ATTTTTAGTACTTCTTCAT
Found at i:41042783 original size:20 final size:17
Alignment explanation
Indices: 41042740--41042792 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 17
41042730 AATTCCTCAT
*
41042740 ATTTTTTGTACTTCTTC
1 ATTTTTTGTACTTCTAC
41042757 ATGTTTTTAGTACTTTCTAC
1 AT-TTTTT-GTAC-TTCTAC
41042777 GATTTTTTGTCACTTC
1 -ATTTTTTGT-ACTTC
41042793 CTCGTAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
17 2 0.07
18 5 0.17
19 9 0.30
20 12 0.40
21 2 0.07
ACGTcount: A:0.15, C:0.17, G:0.09, T:0.58
Consensus pattern (17 bp):
ATTTTTTGTACTTCTAC
Found at i:41042827 original size:19 final size:18
Alignment explanation
Indices: 41042802--41042868 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 18
41042792 CCTCGTAAAT
41042802 TTTTTTATTTCCTCATAATA
1 TTTTTTATTTCCTCAT-A-A
**
41042822 TTTTTATATTTCCTCATTT
1 TTTTT-TATTTCCTCATAA
* *
41042841 TTTTGTTATTCCCTCCTAA
1 TTTT-TTATTTCCTCATAA
41042860 TTTTTTATT
1 TTTTTTATT
41042869 CTTCCTCTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 5 0.13
19 17 0.44
20 6 0.15
21 11 0.28
ACGTcount: A:0.18, C:0.16, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTTTTATTTCCTCATAA
Found at i:41042849 original size:21 final size:21
Alignment explanation
Indices: 41042790--41042838 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
41042780 TTTTTGTCAC
* *
41042790 TTCCTCGTAA-ATTTTTTTAT
1 TTCCTCATAATATTTTTATAT
41042810 TTCCTCATAATATTTTTATAT
1 TTCCTCATAATATTTTTATAT
41042831 TTCCTCAT
1 TTCCTCAT
41042839 TTTTTTGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.22, C:0.18, G:0.02, T:0.57
Consensus pattern (21 bp):
TTCCTCATAATATTTTTATAT
Found at i:41042865 original size:39 final size:39
Alignment explanation
Indices: 41042801--41042875 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
41042791 TCCTCGTAAA
*
41042801 TTTTTTTATTTCCTCATAATATTTTTATAT-TTCCTCATT
1 TTTTTTTATTCCCTCATAATATTTTTAT-TCTTCCTCATT
*
41042840 TTTTTGTTATTCCCTCCTAAT-TTTTTATTCTTCCTC
1 TTTTT-TTATTCCCTCATAATATTTTTATTCTTCCTC
41042876 TTTGTGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 1 0.03
39 18 0.56
40 13 0.41
ACGTcount: A:0.16, C:0.20, G:0.01, T:0.63
Consensus pattern (39 bp):
TTTTTTTATTCCCTCATAATATTTTTATTCTTCCTCATT
Found at i:41043571 original size:21 final size:19
Alignment explanation
Indices: 41043547--41043586 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
41043537 AATTTTATTA
*
41043547 ATATGCAAAAATATTTATTTT
1 ATAT-CAAAAA-ATTGATTTT
41043568 ATATCAAAAAATTGATTTT
1 ATATCAAAAAATTGATTTT
41043587 TCTAGTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 6 0.33
21 4 0.22
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (19 bp):
ATATCAAAAAATTGATTTT
Found at i:41043607 original size:19 final size:19
Alignment explanation
Indices: 41043552--41043607 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
41043542 TATTAATATG
*
41043552 CAAAAATATTTATTTTATAT
1 CAAAAA-ATTTATTTTCTAT
*
41043572 CAAAAAATTGATTTTTCTAGT
1 CAAAAAATTTA-TTTTCTA-T
41043593 C-AAAAATTTATTTTC
1 CAAAAAATTTATTTTC
41043608 AAATCATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 9 0.29
20 20 0.65
21 2 0.06
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (19 bp):
CAAAAAATTTATTTTCTAT
Found at i:41043668 original size:10 final size:10
Alignment explanation
Indices: 41043637--41043684 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
41043627 GATCGCATAA
*
41043637 AAAAATTATG
1 AAAAATTATT
41043647 AGAAAA-TATT
1 A-AAAATTATT
41043657 AAAAATTATT
1 AAAAATTATT
*
41043667 AAAAATTACT
1 AAAAATTATT
*
41043677 AATAATTA
1 AAAAATTA
41043685 CGGGGATGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 4 0.12
10 25 0.76
11 4 0.12
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (10 bp):
AAAAATTATT
Found at i:41050158 original size:24 final size:24
Alignment explanation
Indices: 41050123--41050170 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
41050113 GAAAACAGAC
*
41050123 GGTTATCTAAGATAAATTTTATGG
1 GGTTATCGAAGATAAATTTTATGG
41050147 GGTTATCGAAGATAAATTTTATGG
1 GGTTATCGAAGATAAATTTTATGG
41050171 AAGAAATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (24 bp):
GGTTATCGAAGATAAATTTTATGG
Found at i:41050582 original size:31 final size:30
Alignment explanation
Indices: 41050520--41050587 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 30
41050510 TATATATTTT
**
41050520 AAAAATATTTTAAAATTAAAAAAATTTTAA
1 AAAAATATTTTAAAATTAAAAAAATAATAA
41050550 AAAAAGTATTTTAAAATTTAAAAAAA-AATAA
1 AAAAA-TATTTTAAAA-TTAAAAAAATAATAA
41050581 AAAAATA
1 AAAAATA
41050588 AAAAAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 7 0.21
31 18 0.53
32 9 0.26
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (30 bp):
AAAAATATTTTAAAATTAAAAAAATAATAA
Found at i:41053075 original size:21 final size:21
Alignment explanation
Indices: 41053049--41053198 Score: 77
Period size: 21 Copynumber: 7.1 Consensus size: 21
41053039 CCGAAGGCTG
*
41053049 AACAGAAGCTCATGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * * * * *
41053070 AACAGAAACCCGTAAGGGTTG
1 AACAGAAGCTCATAAGAGCTA
* ** *
41053091 AATAGAAGCTTGTAAGAGCTG
1 AACAGAAGCTCATAAGAGCTA
* * * * *
41053112 AACGGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTA
*
41053133 AACAGAAGCTCA-ATAGAGCTG
1 AACAGAAGCTCATA-AGAGCTA
* * * *
41053154 AACGGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTA
* *
41053175 AACAGAAGCTCGTGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
41053196 AAC
1 AAC
41053199 GGAAAGTAAA
Statistics
Matches: 88, Mismatches: 39, Indels: 4
0.67 0.30 0.03
Matches are distributed among these distances:
20 1 0.01
21 86 0.98
22 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.25, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:41053099 original size:42 final size:42
Alignment explanation
Indices: 41053049--41053203 Score: 177
Period size: 42 Copynumber: 3.7 Consensus size: 42
41053039 CCGAAGGCTG
* * *
41053049 AACAGAAGCTCATGAGAGCTAAACAGAAACCCGTAAGGGTTG
1 AACAGAAGCTCATGAGAGCTAAACGGAAACCCATAAGGGTTA
* ** * *
41053091 AATAGAAGCTTGTAAGAGCTGAACGGAAACCCATAAGGGTTA
1 AACAGAAGCTCATGAGAGCTAAACGGAAACCCATAAGGGTTA
* * * *
41053133 AACAGAAGCTCAAT-AGAGCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTC-ATGAGAGCTAAACGGAAACCCATAAGGGTTA
*
41053175 AACAGAAGCTCGTGAGAGCTAAACGGAAA
1 AACAGAAGCTCATGAGAGCTAAACGGAAA
41053204 GTAAACATGA
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
41 1 0.01
42 93 0.98
43 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCATGAGAGCTAAACGGAAACCCATAAGGGTTA
Found at i:41053193 original size:84 final size:84
Alignment explanation
Indices: 41053049--41053203 Score: 195
Period size: 84 Copynumber: 1.8 Consensus size: 84
41053039 CCGAAGGCTG
* * * * * *
41053049 AACAGAAGCTCATGAGAGCTAAACAGAAACCCGTAAGGGTTGAATAGAAGCTTGTAAGAGCTGAA
1 AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGAGTTAAACAGAAGCTCGTAAGAGCTAAA
41053114 CGGAAACCCATAAGGGTTA
66 CGGAAACCCATAAGGGTTA
* * * * *
41053133 AACAGAAGCTCAAT-AGAGCTGAACGGAAACTCATATGAGTTAAACAGAAGCTCGTGAGAGCTAA
1 AACAGAAGCTC-ATGAGAGCTAAACAGAAACCCATAAGAGTTAAACAGAAGCTCGTAAGAGCTAA
41053197 ACGGAAA
65 ACGGAAA
41053204 GTAAACATGA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
84 57 0.97
85 2 0.03
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.16
Consensus pattern (84 bp):
AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGAGTTAAACAGAAGCTCGTAAGAGCTAAA
CGGAAACCCATAAGGGTTA
Found at i:41055201 original size:15 final size:15
Alignment explanation
Indices: 41055181--41055210 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
41055171 TATTTAGAAA
41055181 AACATAGCAAAATAT
1 AACATAGCAAAATAT
41055196 AACATAGCAAAATAT
1 AACATAGCAAAATAT
41055211 CTTGTGTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (15 bp):
AACATAGCAAAATAT
Found at i:41056972 original size:34 final size:35
Alignment explanation
Indices: 41056928--41056994 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
41056918 GAGTAAAATA
* *
41056928 TTTTCCGTAAAATGATTTA-TGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
*
41056962 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
41056995 TTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 18 0.62
35 11 0.38
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:41059444 original size:25 final size:24
Alignment explanation
Indices: 41059393--41059446 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
41059383 GTCATTAGGG
* * * *
41059393 TTACCGATTCCAGCTCTTATGAGC
1 TTACCGATACCAACTCGTATGAAC
41059417 TTACCGATACTCAACTCGTATGAAC
1 TTACCGATAC-CAACTCGTATGAAC
41059442 TTACC
1 TTACC
41059447 ATTATTCAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (24 bp):
TTACCGATACCAACTCGTATGAAC
Found at i:41059466 original size:25 final size:26
Alignment explanation
Indices: 41059438--41059496 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
41059428 CAACTCGTAT
41059438 GAACTTACCA-TTATTCAGCTT-GAA
1 GAACTTACCAGTTATTCAGCTTAGAA
*
41059462 GGAACTTA-TAGTTATTCAGCTTAGAA
1 -GAACTTACCAGTTATTCAGCTTAGAA
*
41059488 GAGCTTACC
1 GAACTTACC
41059497 GTTTATAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 1 0.04
25 24 0.86
26 3 0.11
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (26 bp):
GAACTTACCAGTTATTCAGCTTAGAA
Found at i:41064804 original size:17 final size:18
Alignment explanation
Indices: 41064778--41064815 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
41064768 TAGTTATGCT
*
41064778 AAAATGTTTTG-AGTAGA
1 AAAATGTTTTGTAGCAGA
*
41064795 AAAATTTTTTGTAGCAGA
1 AAAATGTTTTGTAGCAGA
41064813 AAA
1 AAA
41064816 TTTGTTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.34
Consensus pattern (18 bp):
AAAATGTTTTGTAGCAGA
Found at i:41070537 original size:40 final size:39
Alignment explanation
Indices: 41070466--41070543 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 39
41070456 TATTTTAGTT
41070466 TGTGTCTTTAATTATGTCTTAGTTTGAACATCATTAATA
1 TGTGTCTTTAATTATGTCTTAGTTTGAACATCATTAATA
*
41070505 TGTGT-TTTAATTACTTGTCTTAATTTTG-ACATCATTAAT
1 TGTGTCTTTAATTA--TGTCTT-AGTTTGAACATCATTAAT
41070544 GTTTGTCTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
38 8 0.23
39 5 0.14
40 17 0.49
41 5 0.14
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (39 bp):
TGTGTCTTTAATTATGTCTTAGTTTGAACATCATTAATA
Found at i:41073100 original size:18 final size:17
Alignment explanation
Indices: 41073074--41073112 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
41073064 ATTTTCCTTC
41073074 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
41073091 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
41073109 CACA
1 CACA
41073113 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:41074880 original size:31 final size:31
Alignment explanation
Indices: 41074842--41074901 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
41074832 GGGATGCTCG
41074842 TAAACTATCCTTTGCTGGAATGCTAACTTCT
1 TAAACTATCCTTTGCTGGAATGCTAACTTCT
41074873 TAAACTATCCTTTGCTGGAATGCTAACTT
1 TAAACTATCCTTTGCTGGAATGCTAACTT
41074902 TAGTGAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (31 bp):
TAAACTATCCTTTGCTGGAATGCTAACTTCT
Found at i:41077440 original size:14 final size:15
Alignment explanation
Indices: 41077419--41077454 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
41077409 CTTAGATGTG
*
41077419 ATTTTTTAAATAATT
1 ATTTTTAAAATAATT
41077434 ATTTTTAAAAATAATT
1 ATTTTT-AAAATAATT
41077450 ATTTT
1 ATTTT
41077455 AAGGATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTTTAAAATAATT
Found at i:41079850 original size:19 final size:19
Alignment explanation
Indices: 41079813--41079849 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
41079803 TTTCAATTTT
41079813 TAAAAAAATAAAAGTAAAA
1 TAAAAAAATAAAAGTAAAA
*
41079832 TAAATAAATAAAA-TAAAA
1 TAAAAAAATAAAAGTAAAA
41079850 AACACTCAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (19 bp):
TAAAAAAATAAAAGTAAAA
Found at i:41081007 original size:20 final size:20
Alignment explanation
Indices: 41080982--41081024 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
41080972 ATTAGAATGT
* *
41080982 AAAAATTAAATTAAAAACAA
1 AAAAATAAAAATAAAAACAA
*
41081002 AAAAATAAAAATAAAAATAA
1 AAAAATAAAAATAAAAACAA
41081022 AAA
1 AAA
41081025 TAAAAAGGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAAATAAAAATAAAAACAA
Found at i:41081010 original size:26 final size:26
Alignment explanation
Indices: 41080981--41081030 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
41080971 AATTAGAATG
* *
41080981 TAAAAATTAAATTAAAAACAAAAAAA
1 TAAAAATAAAAATAAAAACAAAAAAA
*
41081007 TAAAAATAAAAATAAAAATAAAAA
1 TAAAAATAAAAATAAAAACAAAAA
41081031 GGCTAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (26 bp):
TAAAAATAAAAATAAAAACAAAAAAA
Found at i:41081011 original size:6 final size:6
Alignment explanation
Indices: 41081002--41081030 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
41080992 TTAAAAACAA
41081002 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
41081031 GGCTAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:41087308 original size:76 final size:77
Alignment explanation
Indices: 41087211--41087362 Score: 234
Period size: 76 Copynumber: 2.0 Consensus size: 77
41087201 CATTTTGGTA
* *
41087211 TTTAATAATATTTTTTTGGATTATTGTGGTAAAAGAACTACATTTTACAAATGTTAAATATATGT
1 TTTAATAATATTTTCTTGGATTATTGTGGTAAAAGAACTACATTTTACAAATGTTAAAGATATGT
41087276 TACGTAATAAAT
66 TACGTAATAAAT
* * * *
41087288 TTTAATTA-ATTTTCTTGGATTATTGTGGTAAAAGAATTACTTTTTACAAATGTTTAAGATATGT
1 TTTAATAATATTTTCTTGGATTATTGTGGTAAAAGAACTACATTTTACAAATGTTAAAGATATGT
*
41087352 TATGTAATAAA
66 TACGTAATAAA
41087363 AAACTTATTA
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
76 61 0.90
77 7 0.10
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (77 bp):
TTTAATAATATTTTCTTGGATTATTGTGGTAAAAGAACTACATTTTACAAATGTTAAAGATATGT
TACGTAATAAAT
Found at i:41090110 original size:28 final size:30
Alignment explanation
Indices: 41090076--41090134 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
41090066 TTTAAAGCAC
* *
41090076 AAAAGTAT-ATATACAT-AAATAATTAAAA
1 AAAAGTATCATAAAAATAAAATAATTAAAA
*
41090104 AAAAGTATCATAAAAATAAAATTATTAAAA
1 AAAAGTATCATAAAAATAAAATAATTAAAA
41090134 A
1 A
41090135 TATTTAGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 8 0.31
29 6 0.23
30 12 0.46
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (30 bp):
AAAAGTATCATAAAAATAAAATAATTAAAA
Found at i:41090956 original size:24 final size:25
Alignment explanation
Indices: 41090920--41090967 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
41090910 CTTTCGAGTT
*
41090920 TTTTCTTTTAATTTTCTCTTCAATA
1 TTTTCTTTTAATTTTCTATTCAATA
*
41090945 TTTT-TTTTAATTTTTTATTCAAT
1 TTTTCTTTTAATTTTCTATTCAAT
41090968 CTGTAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTCTTTTAATTTTCTATTCAATA
Found at i:41091872 original size:45 final size:45
Alignment explanation
Indices: 41091823--41092053 Score: 123
Period size: 44 Copynumber: 5.2 Consensus size: 45
41091813 GTCTTCGATT
* *
41091823 TGCTCCACTATCGAGGCAAGAAGGCAAGACCTGCTATCTTCAACC
1 TGCTCCACTATCGAAGCAGGAAGGCAAGACCTGCTATCTTCAACC
* * * * * * * *
41091868 TGCTCCACTA-C-AACCGAGGGAGACAAGGCTTG-TGTCTTCGATC
1 TGCTCCACTATCGAAGC-AGGAAGGCAAGACCTGCTATCTTCAACC
* * * * *
41091911 TGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACT
1 TGCTCCACTATCGAAGCAGGAAGGCAAGACCTGCTATCTTCAACC
* * * * * ** *
41091956 TGCTCCACTA-C-AACCGAGGGAGGCAAGGCTTG-TGTCTTTGATC
1 TGCTCCACTATCGAAGC-AGGAAGGCAAGACCTGCTATCTTCAACC
* * * * * * * *
41091999 TGCTTCGCTGTCGATGTAGAAAGGCAAGATCTGTTATCTTCAACC
1 TGCTCCACTATCGAAGCAGGAAGGCAAGACCTGCTATCTTCAACC
41092044 TGCTCCACTA
1 TGCTCCACTA
41092054 CAACCGAGGG
Statistics
Matches: 124, Mismatches: 54, Indels: 16
0.64 0.28 0.08
Matches are distributed among these distances:
43 33 0.27
44 49 0.40
45 42 0.34
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (45 bp):
TGCTCCACTATCGAAGCAGGAAGGCAAGACCTGCTATCTTCAACC
Found at i:41092158 original size:88 final size:88
Alignment explanation
Indices: 41091842--41092154 Score: 536
Period size: 88 Copynumber: 3.6 Consensus size: 88
41091832 ATCGAGGCAA
* *
41091842 GAAGGCAAGACCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGACAAGGCTTGTGTCTTC
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGACAAGGCTTGTGTCTTT
* *
41091907 GATCTGCTTCACTGTCGATGCAG
66 GATCTGCTTCGCTGTCGATGTAG
* *
41091930 GAAGGCAAGATCTGCTATCTTCAACTTGCTCCACTACAACCGAGGGAGGCAAGGCTTGTGTCTTT
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGACAAGGCTTGTGTCTTT
41091995 GATCTGCTTCGCTGTCGATGTAG
66 GATCTGCTTCGCTGTCGATGTAG
* * *
41092018 AAAGGCAAGATCTGTTATCTTCAACCTGCTCCACTACAACCGAGGGAGATAAGGCTTGTGTCTTT
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGACAAGGCTTGTGTCTTT
41092083 GATCTGCTTCGCTGTCGATGTAG
66 GATCTGCTTCGCTGTCGATGTAG
*
41092106 GAAGGCAAGATCTGCTATCTTCAACCTACTCCACTACAACCGAGGGAGA
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGA
41092155 TAAGATCTGT
Statistics
Matches: 211, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 211 1.00
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (88 bp):
GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGACAAGGCTTGTGTCTTT
GATCTGCTTCGCTGTCGATGTAG
Found at i:41092599 original size:44 final size:44
Alignment explanation
Indices: 41092173--41092598 Score: 476
Period size: 44 Copynumber: 9.7 Consensus size: 44
41092163 GTAATTTTCA
* * * * * *
41092173 ACCTACTCCACAGCTGCTCAGGGAGCTAGGACCTACAATTTTCT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
* * * * *
41092217 AACTATTCCATTGCTGGTCAAGGAGCTAGGATTTACAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
* * *
41092261 ACCTATTCCACTGCTGGTCAAGGG-GATAGGATTTACAATCTTCT
1 ACCTATTCCACTGCTGGTC-AGGGAGCTAGGACTTACAATCTTCC
* * * * *
41092305 GCCTATTCCAATGCTGTTCAGGGAGCTAGGACTTTCAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
* * *
41092349 ACCTATTCCAATGCTGGTCAGGGAGCTAGGATTTATAATCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
* * * * *
41092393 GCCTATTCCACTACTGTTCAGGGAGCTAGGGCTTACAATCTTCT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
* *
41092437 ACTTATTCCACTGCTGGTCAGGGAGCTAGGATTTACAATCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
* * * * * *
41092481 ACATATTCCACAGTTGGTCAGGGAACTAGGGCTTACAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
* * * *
41092525 ACCTATTCCACTACTGGTCAGGGAACTAGGGCTTACAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
*
41092569 ACCTATTCCACTGCTGGTCAGGGAACTAGG
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGG
41092599 GTTACAGTTG
Statistics
Matches: 322, Mismatches: 58, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
43 4 0.01
44 315 0.98
45 3 0.01
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (44 bp):
ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
Found at i:41094596 original size:96 final size:96
Alignment explanation
Indices: 41094430--41094656 Score: 370
Period size: 96 Copynumber: 2.4 Consensus size: 96
41094420 CCCTTCGGGA
* *
41094430 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACACATACAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACAC
* *
41094493 ATGTTCACATTCATCACATTGGCCATTCGGC
66 ATGTTCACATTCATCACATCGGCCATTAGGC
* *
41094524 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACAC
41094589 ACT-TTCACATTCATCACATCGGCCATTAGGC
66 A-TGTTCACATTCATCACATCGGCCATTAGGC
41094620 CTTATCACATATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATATACACTTTCACATTCATCACAT
41094657 CATGTAAAGA
Statistics
Matches: 124, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
94 10 0.08
95 1 0.01
96 112 0.90
97 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACAC
ATGTTCACATTCATCACATCGGCCATTAGGC
Found at i:41094657 original size:49 final size:49
Alignment explanation
Indices: 41094430--41094656 Score: 342
Period size: 47 Copynumber: 4.8 Consensus size: 49
41094420 CCCTTCGGGA
* *
41094430 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
41094477 CTTATCAC--ACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
41094524 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
41094573 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
41094620 CTTATCACATATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATATACACTTTCACATTCATCACAT
41094657 CATGTAAAGA
Statistics
Matches: 164, Mismatches: 8, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
46 1 0.01
47 92 0.56
49 70 0.43
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:41098447 original size:20 final size:21
Alignment explanation
Indices: 41098424--41098473 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 21
41098414 CCTTAGTCTC
41098424 TCCATTTTT-ACTTTTCA-TTT
1 TCCATTTTTCA-TTTTCATTTT
41098444 TCCATTTTTCATTTTCATTTT
1 TCCATTTTTCATTTTCATTTT
41098465 TCCATTTTT
1 TCCATTTTT
41098474 TTACTCAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.66
Consensus pattern (21 bp):
TCCATTTTTCATTTTCATTTT
Found at i:41098470 original size:8 final size:7
Alignment explanation
Indices: 41098426--41098473 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
41098416 TTAGTCTCTC
41098426 CATTTTT
1 CATTTTT
*
41098433 -ACTTTT
1 CATTTTT
*
41098439 CATTTTC
1 CATTTTT
41098446 CATTTTT
1 CATTTTT
41098453 CA-TTTT
1 CATTTTT
41098459 CATTTTT
1 CATTTTT
41098466 CCATTTTT
1 -CATTTTT
41098474 TTACTCAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
6 11 0.32
7 16 0.47
8 7 0.21
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.67
Consensus pattern (7 bp):
CATTTTT
Found at i:41099356 original size:20 final size:20
Alignment explanation
Indices: 41099317--41099356 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
41099307 CCTTGGCCTC
* *
41099317 TCCTTTTCTTTTTCCTTTTT
1 TCCTTATCTTTTTCCATTTT
*
41099337 TCCTTATCTTTTTTCATTTT
1 TCCTTATCTTTTTCCATTTT
41099357 CATTTTCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (20 bp):
TCCTTATCTTTTTCCATTTT
Found at i:41099383 original size:6 final size:6
Alignment explanation
Indices: 41099347--41099420 Score: 53
Period size: 6 Copynumber: 12.7 Consensus size: 6
41099337 TCCTTATCTT
* * * * **
41099347 TTTTCA TTTTCA TTTTCA TTTTGA CTTTGA TTTTGA TTTTTC TTTT--
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
* **
41099393 TCTTCT TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
41099421 TTTTTGAATT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
4 3 0.05
6 54 0.95
ACGTcount: A:0.12, C:0.09, G:0.08, T:0.70
Consensus pattern (6 bp):
TTTTGA
Found at i:41104799 original size:24 final size:26
Alignment explanation
Indices: 41104761--41104809 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
41104751 CTTTCGAGTT
*
41104761 TTTTTCTTTTAATTTTCTCTTCAATG
1 TTTTTCTTTTAATTTTCTATTCAATG
*
41104787 TTTTT-TTTT-ATTTTTTATTCAAT
1 TTTTTCTTTTAATTTTCTATTCAAT
41104810 CTGTAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 4 0.19
26 5 0.24
ACGTcount: A:0.16, C:0.10, G:0.02, T:0.71
Consensus pattern (26 bp):
TTTTTCTTTTAATTTTCTATTCAATG
Found at i:41106113 original size:46 final size:46
Alignment explanation
Indices: 41106063--41106161 Score: 162
Period size: 46 Copynumber: 2.2 Consensus size: 46
41106053 CAAGATTGTG
*
41106063 TTAATTTTGTTTGAATTAATTTATTAAACTATAACAAATGCTTGAC
1 TTAATTTTGTTTGAATTAATTTATTAAACTATAACAAAGGCTTGAC
** *
41106109 TTAATTTTGTTTTTATTAATTTATTAAACTATCACAAAGGCTTGAC
1 TTAATTTTGTTTGAATTAATTTATTAAACTATAACAAAGGCTTGAC
41106155 TTAATTT
1 TTAATTT
41106162 AAAATTTTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.34, C:0.09, G:0.08, T:0.48
Consensus pattern (46 bp):
TTAATTTTGTTTGAATTAATTTATTAAACTATAACAAAGGCTTGAC
Found at i:41108229 original size:45 final size:45
Alignment explanation
Indices: 41108105--41108235 Score: 199
Period size: 45 Copynumber: 2.9 Consensus size: 45
41108095 CTCGGTGCAT
*
41108105 TCAGCACATAGCAACCACCTTATTAATCAATGATATCCGGTGGAA
1 TCAGCACATAGCAACCACCTTATTAATCAATGATGTCCGGTGGAA
* *
41108150 TCAACACATAGCAACCACCTTATTAATCAATGATGTCTGGTGGAA
1 TCAGCACATAGCAACCACCTTATTAATCAATGATGTCCGGTGGAA
* * * *
41108195 TCAGCACATAGCAAACACCATACTAATCAATGATGTTCGGT
1 TCAGCACATAGCAACCACCTTATTAATCAATGATGTCCGGT
41108236 TCACATAGTA
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (45 bp):
TCAGCACATAGCAACCACCTTATTAATCAATGATGTCCGGTGGAA
Found at i:41108317 original size:51 final size:51
Alignment explanation
Indices: 41108232--41108427 Score: 225
Period size: 51 Copynumber: 3.9 Consensus size: 51
41108222 CAATGATGTT
* * * *
41108232 CGGTTCACATAGTAGCCTGCATATAGTACTACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATC
* * ** *
41108283 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATC
* * * * * *
41108334 CGGTACGCATAGTAGCATGCACATAGTACTACACATGCGACC--TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTACCA-TC
*
41108384 CGGTACACGTAGTAGTCTGCACATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
41108428 CACTTTCACT
Statistics
Matches: 117, Mismatches: 25, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
49 2 0.02
50 38 0.32
51 77 0.66
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATC
Found at i:41108416 original size:101 final size:101
Alignment explanation
Indices: 41108239--41108423 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
41108229 GTTCGGTTCA
* * *
41108239 CATAGTAGCCTGCATATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCATGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
41108304 CATAGTACTACACACGTGATCAAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCAAAACTATCCGGTACG
* * *
41108341 CATAGTAGCATGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGTCTGCA
1 CATAGTAGCATGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCA
41108405 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
41108424 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.53
102 32 0.42
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (101 bp):
CATAGTAGCATGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCAAAACTATCCGGTACG
Found at i:41113790 original size:17 final size:16
Alignment explanation
Indices: 41113740--41113797 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 16
41113730 GGGTGAGAAG
41113740 TAAAAGTTTAGGCGGAAAA
1 TAAAAGTTTA-G-GG-AAA
*
41113759 TAAAAAGTTTTGGGAAA
1 T-AAAAGTTTAGGGAAA
41113776 TAAAAGTTTGAGGGAAA
1 TAAAAGTTT-AGGGAAA
41113793 GTAAA
1 -TAAA
41113798 TAGGGGGAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 8 0.24
17 10 0.29
18 6 0.18
19 2 0.06
20 8 0.24
ACGTcount: A:0.48, C:0.02, G:0.26, T:0.24
Consensus pattern (16 bp):
TAAAAGTTTAGGGAAA
Found at i:41113915 original size:30 final size:31
Alignment explanation
Indices: 41113876--41113935 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
41113866 GGAAGTGGGA
*
41113876 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
41113907 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
41113936 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:41114245 original size:9 final size:9
Alignment explanation
Indices: 41114228--41114258 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
41114218 TCGAGTTGAT
41114228 TCGAATAAC
1 TCGAATAAC
*
41114237 TCGATTAAC
1 TCGAATAAC
41114246 TCGAATAAC
1 TCGAATAAC
41114255 TCGA
1 TCGA
41114259 TTCATTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:41141037 original size:3 final size:3
Alignment explanation
Indices: 41141029--41141074 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
41141019 TCATGATTCT
* * *
41141029 TTG TTG TTG TTG TTG TTT TTG TTG TTG TTG TTG TTA TAG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
41141075 GTAGCTTATG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.04, C:0.00, G:0.28, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:41141051 original size:18 final size:18
Alignment explanation
Indices: 41141028--41141074 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
41141018 TTCATGATTC
41141028 TTTGTTGTTGTTGTTGTT
1 TTTGTTGTTGTTGTTGTT
41141046 TTTGTTGTTGTTGTTGTT
1 TTTGTTGTTGTTGTTGTT
* *
41141064 ATAGTTGTTGT
1 TTTGTTGTTGT
41141075 GTAGCTTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.04, C:0.00, G:0.28, T:0.68
Consensus pattern (18 bp):
TTTGTTGTTGTTGTTGTT
Found at i:41141333 original size:45 final size:44
Alignment explanation
Indices: 41141268--41141352 Score: 116
Period size: 45 Copynumber: 1.9 Consensus size: 44
41141258 TTTATAATAA
* * * *
41141268 ATTAAATAGTATTTATAATAAATTATTTATATTTAATTTTACTTG
1 ATTAAATAATATTTACAATAAAATATTTATACTT-ATTTTACTTG
*
41141313 ATTATATAATATTTACAATAAAATATTTATACTTATTTTA
1 ATTAAATAATATTTACAATAAAATATTTATACTTATTTTA
41141353 ACTAAATAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 6 0.17
45 29 0.83
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (44 bp):
ATTAAATAATATTTACAATAAAATATTTATACTTATTTTACTTG
Found at i:41141370 original size:45 final size:45
Alignment explanation
Indices: 41141277--41141391 Score: 124
Period size: 45 Copynumber: 2.6 Consensus size: 45
41141267 AATTAAATAG
* ** * *
41141277 TATTTATAATAAATTATTTATATTTAATTTTACTTGATTATATAA
1 TATTTATAATAAATTATTTATACTTAATTTTACTAAATAACATAA
* * *
41141322 TATTTACAATAAAATATTTATACTT-ATTTTAACTAAATAACATGA
1 TATTTATAATAAATTATTTATACTTAATTTT-ACTAAATAACATAA
* *
41141367 TATTTATTATCAATTATTTATACTT
1 TATTTATAATAAATTATTTATACTT
41141392 GGCCAATGAC
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 5 0.09
45 52 0.91
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (45 bp):
TATTTATAATAAATTATTTATACTTAATTTTACTAAATAACATAA
Found at i:41150427 original size:7 final size:7
Alignment explanation
Indices: 41150415--41150446 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
41150405 GGGGAGTGCA
41150415 GGGAGGG
1 GGGAGGG
41150422 GGGAGGG
1 GGGAGGG
41150429 GGGAGGG
1 GGGAGGG
41150436 GGGAGGG
1 GGGAGGG
41150443 GGGA
1 GGGA
41150447 CTATAGCAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.84, T:0.00
Consensus pattern (7 bp):
GGGAGGG
Found at i:41152466 original size:39 final size:40
Alignment explanation
Indices: 41152388--41152548 Score: 202
Period size: 40 Copynumber: 4.1 Consensus size: 40
41152378 TCTTCGGAAT
* * *
41152388 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
41152427 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* * *
41152466 TTAGCCCGGATAAAATCGCTAGCACAATTGCCTTCGAGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
41152506 TTAACCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
41152546 TTA
1 TTA
41152549 AACTTGCACA
Statistics
Matches: 105, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
39 36 0.34
40 69 0.66
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:41152595 original size:67 final size:67
Alignment explanation
Indices: 41152487--41152615 Score: 222
Period size: 67 Copynumber: 1.9 Consensus size: 67
41152477 AAAATCGCTA
* *
41152487 GCACAATTGCCTTCGAGTCTTAACCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAAAC
1 GCACAAATGCCTTCGAGTCTTAACCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAAAC
41152552 TT
66 TT
* *
41152554 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTA
1 GCACAAATGCCTTCGAGTCTTAACCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTA
41152616 GCCCGGATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (67 bp):
GCACAAATGCCTTCGAGTCTTAACCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAAAC
TT
Found at i:41160566 original size:39 final size:40
Alignment explanation
Indices: 41160488--41160648 Score: 211
Period size: 40 Copynumber: 4.1 Consensus size: 40
41160478 TCTTCGGAAT
* * *
41160488 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
41160527 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* *
41160566 TTAGCCCGGATAAAATCGCTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
41160606 TTAACCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
41160646 TTA
1 TTA
41160649 AACTTGCACA
Statistics
Matches: 107, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
39 36 0.34
40 71 0.66
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:41160695 original size:67 final size:67
Alignment explanation
Indices: 41160587--41160715 Score: 231
Period size: 67 Copynumber: 1.9 Consensus size: 67
41160577 AAAATCGCTA
* *
41160587 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAAAC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAAAC
41160652 TT
66 TT
*
41160654 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTA
41160716 GCCCGGATAT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (67 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAAAC
TT
Found at i:41165690 original size:78 final size:78
Alignment explanation
Indices: 41165510--41165770 Score: 303
Period size: 78 Copynumber: 3.3 Consensus size: 78
41165500 TTGAATGCTG
* * * * * **
41165510 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGG-C-
41165573 TTGTGCGAGATACTAAA
62 TTGTGCGAGATACTAAA
*
41165590 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCTTCG
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCTT-G
*
41165655 TGCGAG-TATTAAA
65 TGCGAGATACTAAA
* * *
41165668 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC-TTG
* *
41165733 TGTGAGTTACTAAA
65 TGCGAGATACTAAA
* *
41165747 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
41165771 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 16, Indels: 11
0.86 0.09 0.06
Matches are distributed among these distances:
78 73 0.46
79 38 0.24
80 43 0.27
81 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCTTGT
GCGAGATACTAAA
Found at i:41165694 original size:39 final size:40
Alignment explanation
Indices: 41165510--41165770 Score: 298
Period size: 40 Copynumber: 6.6 Consensus size: 40
41165500 TTGAATGCTG
* * * * * *
41165510 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
** * * * *
41165550 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
41165590 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
41165630 TCCGGGTTAAGTCCCGAAGGC-TTCGTGCGAG-TATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
41165668 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
41165708 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
41165747 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
41165771 TGAACGAGGA
Statistics
Matches: 197, Mismatches: 19, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
38 28 0.14
39 55 0.28
40 106 0.54
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:41165794 original size:118 final size:117
Alignment explanation
Indices: 41165511--41165805 Score: 297
Period size: 118 Copynumber: 2.5 Consensus size: 117
41165501 TGAATGCTGT
* ** * * * * *
41165511 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTTT
1 CCGGGCTAAGTCCCGAAGGCTTCGAAC-GAG-GACTATATCCGG-TTAAG-TCCCGAAGGCATTC
* *
41165575 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAT
62 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAA
* ** * * *
41165631 CCGGGTTAAGTCCCGAAGGCTTCGTGCGAGTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTG
1 CCGGGCTAAGTCCCGAAGGCTTCGAACGAGGACTATATCC-GGTTAAGTCCCGAAGGCATTCGTG
* ** * *
41165696 CGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAA
65 CGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAA
* * *
41165748 CCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGC-TTCGAACGAGGA-CTATATCCGGTTAAGTCCCGAAGG
41165806 TACGTGATTT
Statistics
Matches: 146, Mismatches: 25, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
117 32 0.22
118 79 0.54
119 10 0.07
120 25 0.17
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (117 bp):
CCGGGCTAAGTCCCGAAGGCTTCGAACGAGGACTATATCCGGTTAAGTCCCGAAGGCATTCGTGC
GAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAA
Found at i:41165805 original size:78 final size:78
Alignment explanation
Indices: 41165563--41165805 Score: 231
Period size: 78 Copynumber: 3.1 Consensus size: 78
41165553 GGACTAAGAT
* * * ** * *
41165563 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGG-CTTCGTGCGAG-TACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
41165627 AAATCCGGGTTAAGTC
63 AAATCCGGGTTAAGTC
* * * ** ** *
41165643 CCGAAGGCTTCGTGCGAGTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 CCGAAGGCTTCGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
*
41165708 TCCGGGTTATGTC
66 TCCGGGTTAAGTC
* * *
41165721 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGC-TTCGTGCGAG-TACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
41165785 TATCC-GGTTAAATC
64 AATCCGGGTTAAGTC
41165799 CCGAAGG
1 CCGAAGG
41165806 TACGTGATTT
Statistics
Matches: 142, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
77 1 0.01
78 83 0.58
79 51 0.36
80 7 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGAAGGCTTCGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
TCCGGGTTAAGTC
Found at i:41173536 original size:39 final size:37
Alignment explanation
Indices: 41173304--41173554 Score: 251
Period size: 40 Copynumber: 6.6 Consensus size: 37
41173294 TTGAATGCTG
* * * *
41173304 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGT--ATAAA
** * *
41173344 TCCGGACTAAGAT-CCGAAGGCTTTGTGCGAGATACAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTGTGCGAG-TATAAA
41173382 TCCGGGTTAAG-CCCGAAGGCATTGTGCGAG-ATAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTATAAA
41173417 TCCGGGTTAAG-CCCGAAGGC-TTGTGCGAGTATAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTATAAA
*
41173452 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAG-T-ATAAA
* *
41173492 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAG-TA-TAAA
* * *
41173531 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
41173555 TGAACGAGGA
Statistics
Matches: 187, Mismatches: 14, Indels: 21
0.84 0.06 0.09
Matches are distributed among these distances:
34 9 0.05
35 40 0.21
36 9 0.05
37 19 0.10
38 19 0.10
39 37 0.20
40 53 0.28
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (37 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTATAAA
Found at i:41173574 original size:79 final size:76
Alignment explanation
Indices: 41173357--41173589 Score: 212
Period size: 79 Copynumber: 3.1 Consensus size: 76
41173347 GGACTAAGAT
* **
41173357 CCGAAGGCTTTGTGCGAG-ATACAAATCCGGGTTAAG-CCCGAAGGCATT-GTGCGA-GA--TAA
1 CCGAAGGC-TTGTGCGAGTATA-AAA-CCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAA
41173416 ATCCGGGTTAAG-C
63 ATCCGGGTTAAGTC
* * ** ** *
41173429 CCGAAGGCTTGTGCGAGTATAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATC
1 CCGAAGGCTTGTGCGAGTATAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATC
*
41173494 CGGGTTATGTC
66 CGGGTTAAGTC
* * * *
41173505 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTAT
1 CCGAAGGC-TTGTGCGAG-TA-TAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAA
*
41173570 ATCC-GGTTAAATC
63 ATCCGGGTTAAGTC
41173583 CCGAAGG
1 CCGAAGG
41173590 TACGTGATTT
Statistics
Matches: 134, Mismatches: 17, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
70 10 0.07
71 23 0.17
72 17 0.13
75 14 0.10
76 9 0.07
77 8 0.06
78 16 0.12
79 37 0.28
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.24
Consensus pattern (76 bp):
CCGAAGGCTTGTGCGAGTATAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATC
CGGGTTAAGTC
Found at i:41199175 original size:20 final size:20
Alignment explanation
Indices: 41199146--41199186 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
41199136 TTAAACGAGA
* *
41199146 TGATTTAAGCTCAAGTGAGC
1 TGATTGAAGCTCAAATGAGC
*
41199166 TGATTGAAGCTGAAATGAGC
1 TGATTGAAGCTCAAATGAGC
41199186 T
1 T
41199187 TGGGAAGCTG
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:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (20 bp):
TGATTGAAGCTCAAATGAGC
Found at i:41199919 original size:20 final size:20
Alignment explanation
Indices: 41199896--41199934 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
41199886 TAGCTCAACG
41199896 AGCTCATTCTT-AGCTCATTC
1 AGCTCA-TCTTAAGCTCATTC
41199916 AGCTCATCTTAAGCTCATT
1 AGCTCATCTTAAGCTCATT
41199935 TTAGTTTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.23, C:0.28, G:0.10, T:0.38
Consensus pattern (20 bp):
AGCTCATCTTAAGCTCATTC
Found at i:41215244 original size:20 final size:20
Alignment explanation
Indices: 41215177--41215245 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
41215167 ACTCTACTTC
* *
41215177 AAGCTCACTCAGCTCAACTT
1 AAGCTCATTCAGCTCATCTT
* *
41215197 TAGCTCA-ACGAGCTCATTCTT
1 AAGCTCATTC-AGCTCA-TCTT
41215218 -AGCTCATTCAGCTCATCTT
1 AAGCTCATTCAGCTCATCTT
41215237 AAGCTCATT
1 AAGCTCATT
41215246 TTAGTTTGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 5 0.12
20 32 0.78
21 4 0.10
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (20 bp):
AAGCTCATTCAGCTCATCTT
Found at i:41231296 original size:40 final size:40
Alignment explanation
Indices: 41231252--41231329 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
41231242 TAAATAAAAG
*
41231252 AAAGTCCAATAACTCAATTACTAACTAAGATGAGTTTAAT
1 AAAGTCCAACAACTCAATTACTAACTAAGATGAGTTTAAT
* * *
41231292 AAAGTCCAGCAACTCATTTATTAACTAAGATGAGTTTA
1 AAAGTCCAACAACTCAATTACTAACTAAGATGAGTTTA
41231330 TTTAAATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (40 bp):
AAAGTCCAACAACTCAATTACTAACTAAGATGAGTTTAAT
Done.