Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 103 of 221
Found at i:31724361 original size:184 final size:184
Alignment explanation
Indices: 31724049--31724416 Score: 548
Period size: 184 Copynumber: 2.0 Consensus size: 184
31724039 TGTCTATCAA
*
31724049 GATGTCCCCTGCGATCTTAAATATGTCATATATAATAGGGTTCAATTACCTTAGATATGTACATT
1 GATGTCCCCTGCGATCTTAAATATGTCATATATAATAGGGTTCAATGACCTTAGATATGTACATT
31724114 TCAAGCTCAAAATTCTTCTCCAGATCCCTACTTTCTGCCTAATATTTGTCCGAAGCTCTTTTAAT
66 TCAAGCTCAAAATTCTTCTCCAGATCCCTACTTTCTGCCTAATATTTGTCCGAAGCTCTTTTAAT
* * *
31724179 GTTATGCTCTGGTTAAAAGCCAAACTTTTAGATTGGGCTAATACAAAAACATGC
131 GTTATGCTCCGATTAAAAGCCAAACTTTTAGATTAGGCTAATACAAAAACATGC
** * **
31724233 GATGTCCTTTGCGATCTTAAATATGTCATATATAATGGGGTTCAATGATGTTA-ACTATGTACAT
1 GATGTCCCCTGCGATCTTAAATATGTCATATATAATAGGGTTCAATGACCTTAGA-TATGTACAT
* * *
31724297 TTCAAGCTCAAAATTCTTTTTCAGAT-CCTCACTTT-TCGCCTAATCTTTGTCC-AATGGC-CTT
65 TTCAAGCTCAAAATTCTTCTCCAGATCCCT-ACTTTCT-GCCTAATATTTGTCCGAA--GCTCTT
31724358 TTAATGTTATGCTCCGATTAAAAGCCAAACTTTTAGATTAGGCTAATACAAAAACATGC
126 TTAATGTTATGCTCCGATTAAAAGCCAAACTTTTAGATTAGGCTAATACAAAAACATGC
31724417 CCAATTTCAA
Statistics
Matches: 167, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
183 7 0.04
184 158 0.95
185 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (184 bp):
GATGTCCCCTGCGATCTTAAATATGTCATATATAATAGGGTTCAATGACCTTAGATATGTACATT
TCAAGCTCAAAATTCTTCTCCAGATCCCTACTTTCTGCCTAATATTTGTCCGAAGCTCTTTTAAT
GTTATGCTCCGATTAAAAGCCAAACTTTTAGATTAGGCTAATACAAAAACATGC
Found at i:31729779 original size:34 final size:35
Alignment explanation
Indices: 31729705--31729780 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
31729695 GTTATCGACT
* * *
31729705 GGTCCTTTGAGGCGAGAACGTGTAAACGGTAAATA
1 GGTCCTTTGAGGCAACAACGTGTAAACGATAAATA
* *
31729740 GGTCCTTTGAGGCAACACCGTGTAAATGAT-AATA
1 GGTCCTTTGAGGCAACAACGTGTAAACGATAAATA
31729774 GGTCCTT
1 GGTCCTT
31729781 CAGGGTGACA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 11 0.31
35 25 0.69
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (35 bp):
GGTCCTTTGAGGCAACAACGTGTAAACGATAAATA
Found at i:31733243 original size:28 final size:28
Alignment explanation
Indices: 31733203--31733273 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
31733193 TTTATAAGTA
*
31733203 CGCACACTTAGTGCTTAATAATCACACT
1 CGCACACTTAGTGCTTAACAATCACACT
* * * *
31733231 CGCACACTTAGTGCTTTACCATTATACT
1 CGCACACTTAGTGCTTAACAATCACACT
31733259 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31733274 AATCTCATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAACAATCACACT
Found at i:31735200 original size:43 final size:43
Alignment explanation
Indices: 31735153--31735297 Score: 155
Period size: 43 Copynumber: 3.4 Consensus size: 43
31735143 AGAACATGAC
*
31735153 CTTTAGCGGCGTTTTTGGGAAAAACACCACTAAAGGTCATGTT
1 CTTTAGCGGCGTTTTTGGGAAAAACGCCACTAAAGGTCATGTT
* * * * **
31735196 CTTTAACGGCGTCTGTGGGAAAAGCGCTGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTTTGGGAAAAACGCCACTAAAGGTCATGTT
* ** * * *
31735239 CTCTAGTAGCATTTTTGTGAGAAACGCCACTAAAGGTCATGTT
1 CTTTAGCGGCGTTTTTGGGAAAAACGCCACTAAAGGTCATGTT
* *
31735282 CTATAGCGTCGTTTTT
1 CTTTAGCGGCGTTTTT
31735298 CACATAAATG
Statistics
Matches: 78, Mismatches: 24, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
43 78 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGGGAAAAACGCCACTAAAGGTCATGTT
Found at i:31736072 original size:41 final size:41
Alignment explanation
Indices: 31736015--31736112 Score: 169
Period size: 41 Copynumber: 2.4 Consensus size: 41
31736005 TAGTTTGAGT
*
31736015 TTTAATTATGAGTCTTTAAATGTGTGTCTTAAAGACTACAC
1 TTTAATTATGTGTCTTTAAATGTGTGTCTTAAAGACTACAC
* *
31736056 TTTAATTATGTGTCTTTAAATGTGTGTCTTAAATACTGCAC
1 TTTAATTATGTGTCTTTAAATGTGTGTCTTAAAGACTACAC
31736097 TTTAATTATGTGTCTT
1 TTTAATTATGTGTCTT
31736113 AGTTTTTACA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (41 bp):
TTTAATTATGTGTCTTTAAATGTGTGTCTTAAAGACTACAC
Found at i:31743033 original size:15 final size:14
Alignment explanation
Indices: 31743007--31743041 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
31742997 ATGATAATTA
31743007 TATTTTGTTTATTC
1 TATTTTGTTTATTC
*
31743021 TATTTTAGTTTATTT
1 TATTTT-GTTTATTC
31743036 TATTTT
1 TATTTT
31743042 TATATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.74
Consensus pattern (14 bp):
TATTTTGTTTATTC
Found at i:31757323 original size:20 final size:20
Alignment explanation
Indices: 31757285--31757323 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31757275 ATCATATAAA
*
31757285 TTAAAAATTACAATTATTTT
1 TTAAAAATTACAATGATTTT
* *
31757305 TTAAAATTTATAATGATTT
1 TTAAAAATTACAATGATTT
31757324 ATCAAAGTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (20 bp):
TTAAAAATTACAATGATTTT
Found at i:31761147 original size:27 final size:26
Alignment explanation
Indices: 31761102--31761157 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
31761092 AATAAAGTAC
* *
31761102 ATTCTTTATTGCTTTCATATTTTCTTT
1 ATTCTTTATTGCTTCCATA-TCTCTTT
31761129 ATTCTTTATT-CTCTCCATATCTCTTT
1 ATTCTTTATTGCT-TCCATATCTCTTT
31761155 ATT
1 ATT
31761158 TTATAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.16, C:0.20, G:0.02, T:0.62
Consensus pattern (26 bp):
ATTCTTTATTGCTTCCATATCTCTTT
Found at i:31766562 original size:21 final size:21
Alignment explanation
Indices: 31766536--31766576 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
31766526 CAATGTGGCA
31766536 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
*
31766557 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
31766577 AGTCCCATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:31767178 original size:21 final size:20
Alignment explanation
Indices: 31767152--31767192 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
31767142 TCATAATTCA
31767152 AAAAATAATAATATAAAAATT
1 AAAAATAATAAT-TAAAAATT
* *
31767173 AAAAATTATAATTCAAAATT
1 AAAAATAATAATTAAAAATT
31767193 TTGGAACAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAATAATAATTAAAAATT
Found at i:31769212 original size:23 final size:24
Alignment explanation
Indices: 31769182--31769232 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 24
31769172 ACACACTTAC
31769182 CTTTTGGAATTAACCATTTTC-TT
1 CTTTTGGAATTAACCATTTTCTTT
*
31769205 CTTTTGGAATTAACTATTTTCTTT
1 CTTTTGGAATTAACCATTTTCTTT
31769229 CTTT
1 CTTT
31769233 CATTTCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.57
Consensus pattern (24 bp):
CTTTTGGAATTAACCATTTTCTTT
Found at i:31776839 original size:7 final size:7
Alignment explanation
Indices: 31776827--31776878 Score: 63
Period size: 7 Copynumber: 7.4 Consensus size: 7
31776817 TATGCATGTC
31776827 ATATGAT
1 ATATGAT
31776834 ATATGAT
1 ATATGAT
31776841 ATAAAT-AT
1 AT--ATGAT
*
31776849 GTATGAT
1 ATATGAT
31776856 ATATGAT
1 ATATGAT
31776863 ATATGAT
1 ATATGAT
31776870 -TATGAT
1 ATATGAT
31776876 ATA
1 ATA
31776879 CATGTGTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
6 8 0.21
7 26 0.67
8 3 0.08
9 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.42
Consensus pattern (7 bp):
ATATGAT
Found at i:31777137 original size:20 final size:20
Alignment explanation
Indices: 31777109--31777162 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
31777099 CATGATATGC
* *
31777109 TATGTTATGCTATGTTACAA
1 TATGTTATGATATGCTACAA
*
31777129 TATGGTATGATATGCTACAA
1 TATGTTATGATATGCTACAA
31777149 TATGTTATGATATG
1 TATGTTATGATATG
31777163 ATAAGATATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (20 bp):
TATGTTATGATATGCTACAA
Found at i:31791129 original size:28 final size:28
Alignment explanation
Indices: 31791098--31791151 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
31791088 ATGAAAGATA
* *
31791098 TGGAAGTCCGCCAAGATTATCTTATATG
1 TGGAAGTCCACCAAGACTATCTTATATG
*
31791126 TGGAAGTCCACCAGGACTATCTTATA
1 TGGAAGTCCACCAAGACTATCTTATA
31791152 AGTAGAATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (28 bp):
TGGAAGTCCACCAAGACTATCTTATATG
Found at i:31791437 original size:20 final size:20
Alignment explanation
Indices: 31791412--31791466 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
31791402 TGTGGTTCAA
*
31791412 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
31791432 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
31791452 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
31791467 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:31793487 original size:14 final size:14
Alignment explanation
Indices: 31793464--31793502 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
31793454 TAAAAAAAAT
31793464 AAAATAAAAAACTTG
1 AAAA-AAAAAACTTG
*
31793479 AAAAGAAAAAATTTG
1 AAAA-AAAAAACTTG
31793494 AAAAAAAAA
1 AAAAAAAAA
31793503 TTCAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15
Consensus pattern (14 bp):
AAAAAAAAAACTTG
Found at i:31793572 original size:13 final size:13
Alignment explanation
Indices: 31793554--31793578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31793544 ATTTAGTATT
31793554 GAAGAAAAAAAAA
1 GAAGAAAAAAAAA
31793567 GAAGAAAAAAAA
1 GAAGAAAAAAAA
31793579 TTCGGAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
GAAGAAAAAAAAA
Found at i:31793600 original size:28 final size:27
Alignment explanation
Indices: 31793559--31793625 Score: 91
Period size: 26 Copynumber: 2.4 Consensus size: 27
31793549 GTATTGAAGA
*
31793559 AAAAAAAAGAAGAAAAAAAATTCGGAATT
1 AAAAAAAA-AAGAAAAAAAA-TCGAAATT
31793588 AAAAAAAAAAG-AAAAAAATCGAAATT
1 AAAAAAAAAAGAAAAAAAATCGAAATT
*
31793614 GAAAAAAAAAGA
1 AAAAAAAAAAGA
31793626 GTGATTGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 17 0.49
27 7 0.20
28 3 0.09
29 8 0.23
ACGTcount: A:0.75, C:0.03, G:0.12, T:0.10
Consensus pattern (27 bp):
AAAAAAAAAAGAAAAAAAATCGAAATT
Found at i:31794495 original size:17 final size:15
Alignment explanation
Indices: 31794475--31794513 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
31794465 GCGACCGAGA
31794475 AAATGAACATGAAAAAG
1 AAATGAA-A-GAAAAAG
31794492 AAATGAAAGAAAAAG
1 AAATGAAAGAAAAAG
31794507 AAGATGA
1 AA-ATGA
31794514 GTGGGAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.67, C:0.03, G:0.21, T:0.10
Consensus pattern (15 bp):
AAATGAAAGAAAAAG
Found at i:31795984 original size:20 final size:20
Alignment explanation
Indices: 31795959--31796013 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
31795949 TGTGGTTCAA
*
31795959 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
31795979 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
31795999 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
31796014 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:31798058 original size:12 final size:12
Alignment explanation
Indices: 31798002--31798058 Score: 55
Period size: 12 Copynumber: 4.7 Consensus size: 12
31797992 ACGGTATTGT
31798002 AAAAAAAA-T-A
1 AAAAAAAATTCA
*
31798012 AAAAAAAACTTGA
1 AAAAAAAA-TTCA
*
31798025 ACAGAAAAAATTCG
1 A-A-AAAAAATTCA
31798039 AAAAAAAATTCA
1 AAAAAAAATTCA
31798051 AAAAAAAA
1 AAAAAAAA
31798059 GTTTGTATTC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 8 0.21
12 18 0.46
13 3 0.08
14 4 0.10
15 6 0.15
ACGTcount: A:0.75, C:0.07, G:0.05, T:0.12
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:31798147 original size:28 final size:27
Alignment explanation
Indices: 31798101--31798168 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
31798091 TTAGTATTGA
* *
31798101 AAAAAAGAAGAAGAAAAAATATTCGGAATT
1 AAAAAA-AA-AAGAAAAAA-AATCGAAATT
*
31798131 AAAAAAAAAAGGAAAAAAATCGAAATT
1 AAAAAAAAAAGAAAAAAAATCGAAATT
*
31798158 GAAAAAAAAAG
1 AAAAAAAAAAG
31798169 TGATTGAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.53
28 8 0.24
29 2 0.06
30 6 0.18
ACGTcount: A:0.71, C:0.03, G:0.15, T:0.12
Consensus pattern (27 bp):
AAAAAAAAAAGAAAAAAAATCGAAATT
Found at i:31798157 original size:27 final size:29
Alignment explanation
Indices: 31798113--31798168 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
31798103 AAAAGAAGAA
*
31798113 GAAAAAATATTCGGAATTAAAAAAAAAAG
1 GAAAAAATATTCGAAATTAAAAAAAAAAG
*
31798142 GAAAAAA-A-TCGAAATTGAAAAAAAAAG
1 GAAAAAATATTCGAAATTAAAAAAAAAAG
31798169 TGATTGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 17 0.68
28 1 0.04
29 7 0.28
ACGTcount: A:0.68, C:0.04, G:0.14, T:0.14
Consensus pattern (29 bp):
GAAAAAATATTCGAAATTAAAAAAAAAAG
Found at i:31799035 original size:17 final size:15
Alignment explanation
Indices: 31799015--31799053 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
31799005 GCGAGCGAGA
31799015 AAATGAACATGAAAAAG
1 AAATGAA-A-GAAAAAG
31799032 AAATGAAAGAAAAAG
1 AAATGAAAGAAAAAG
31799047 AAGATGA
1 AA-ATGA
31799054 GTGGGAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.67, C:0.03, G:0.21, T:0.10
Consensus pattern (15 bp):
AAATGAAAGAAAAAG
Found at i:31800558 original size:20 final size:20
Alignment explanation
Indices: 31800533--31800587 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
31800523 TGTGGTTCAA
*
31800533 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
31800553 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
31800573 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
31800588 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:31802622 original size:13 final size:12
Alignment explanation
Indices: 31802581--31802634 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
31802571 ACGGTATTGT
31802581 AAAAAAA-T-AA
1 AAAAAAATTCAA
*
31802591 AAAAAAACTTGAA
1 AAAAAAA-TTCAA
* *
31802604 AGAAAATTTCAA
1 AAAAAAATTCAA
31802616 AAAAAAATTCAA
1 AAAAAAATTCAA
31802628 AAAAAAA
1 AAAAAAA
31802635 GTTTGTATTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 7 0.19
12 22 0.61
13 7 0.19
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.15
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:31802717 original size:26 final size:27
Alignment explanation
Indices: 31802680--31802743 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
31802670 GTATTGAAGA
* *
31802680 AAAAAAAGAAGAAAAAAATTCGGAATT-
1 AAAAAAA-AAGAAAAAAAATCGAAATTG
31802707 AAAAAAAAAGAAAAAAAATCGAAATTG
1 AAAAAAAAAGAAAAAAAATCGAAATTG
31802734 AAAAAAAAAG
1 AAAAAAAAAG
31802744 TGATTGAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 17 0.50
27 17 0.50
ACGTcount: A:0.73, C:0.03, G:0.12, T:0.11
Consensus pattern (27 bp):
AAAAAAAAAGAAAAAAAATCGAAATTG
Found at i:31802721 original size:27 final size:29
Alignment explanation
Indices: 31802679--31802743 Score: 91
Period size: 27 Copynumber: 2.3 Consensus size: 29
31802669 AGTATTGAAG
*
31802679 AAAAAAAAGAAGAAAAAAATTCGGAATT-A
1 AAAAAAAAGAAGAAAAAAA-TCGAAATTGA
31802708 AAAAAAAAG-A-AAAAAAATCGAAATTGA
1 AAAAAAAAGAAGAAAAAAATCGAAATTGA
31802735 AAAAAAAAG
1 AAAAAAAAG
31802744 TGATTGAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
26 7 0.21
27 17 0.50
28 1 0.03
29 9 0.26
ACGTcount: A:0.74, C:0.03, G:0.12, T:0.11
Consensus pattern (29 bp):
AAAAAAAAGAAGAAAAAAATCGAAATTGA
Found at i:31803613 original size:17 final size:15
Alignment explanation
Indices: 31803593--31803631 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
31803583 GCGACCGAGA
31803593 AAATGAACATGAAAAAG
1 AAATGAA-A-GAAAAAG
31803610 AAATGAAAGAAAAAG
1 AAATGAAAGAAAAAG
31803625 AAGATGA
1 AA-ATGA
31803632 GTGGGAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.67, C:0.03, G:0.21, T:0.10
Consensus pattern (15 bp):
AAATGAAAGAAAAAG
Found at i:31805138 original size:20 final size:20
Alignment explanation
Indices: 31805113--31805167 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
31805103 TGTGGTTCAA
*
31805113 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
31805133 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
31805153 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
31805168 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:31807977 original size:40 final size:40
Alignment explanation
Indices: 31807921--31808044 Score: 171
Period size: 40 Copynumber: 3.1 Consensus size: 40
31807911 GCGTTTGATC
*
31807921 AAAAAACGCCGCTATAGATCGCGCATTAGCGACGCTTTTT
1 AAAAAACGCCGCTATAGATCGAGCATTAGCGACGCTTTTT
* * * *
31807961 GAAAAATGCCACTATAGATCAAGCATTAGCG-CTGCTTTTT
1 AAAAAACGCCGCTATAGATCGAGCATTAGCGAC-GCTTTTT
31808001 AAAAAACGCCGCTATAGATCGAGCATTAGCGACG-TTTTT
1 AAAAAACGCCGCTATAGATCGAGCATTAGCGACGCTTTTT
*
31808040 CAAAA
1 AAAAA
31808045 CGTGTTGCTA
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
39 10 0.14
40 61 0.85
41 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.26
Consensus pattern (40 bp):
AAAAAACGCCGCTATAGATCGAGCATTAGCGACGCTTTTT
Found at i:31808055 original size:40 final size:40
Alignment explanation
Indices: 31807922--31808069 Score: 162
Period size: 40 Copynumber: 3.7 Consensus size: 40
31807912 CGTTTGATCA
*
31807922 AAAAAC-GCCGCTATAGATCGCGCATTAGCGACGCTTTTT
1 AAAAACTGCCGCTATAGATCGAGCATTAGCGACGCTTTTT
* *
31807961 GAAAAA-TGCCACTATAGATCAAGCATTAGCG-CTGCTTTTT
1 -AAAAACTGCCGCTATAGATCGAGCATTAGCGAC-GCTTTTT
31808001 AAAAAAC-GCCGCTATAGATCGAGCATTAGCGACG-TTTTT
1 -AAAAACTGCCGCTATAGATCGAGCATTAGCGACGCTTTTT
* ** *
31808040 CAAAACGTGTTGCTATAGGTCGAGCATTAG
1 AAAAAC-TGCCGCTATAGATCGAGCATTAG
31808070 TGGCGCTATC
Statistics
Matches: 92, Mismatches: 10, Indels: 12
0.81 0.09 0.11
Matches are distributed among these distances:
38 5 0.05
39 6 0.07
40 80 0.87
41 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (40 bp):
AAAAACTGCCGCTATAGATCGAGCATTAGCGACGCTTTTT
Found at i:31808206 original size:40 final size:39
Alignment explanation
Indices: 31808138--31808240 Score: 116
Period size: 40 Copynumber: 2.6 Consensus size: 39
31808128 AGCTTTGGTG
* * *
31808138 GCATTAGTGGCGCTTTTTGAAAATCGCCGCTATAGATCAA
1 GCATTAGAGGCG-TTTTTAAAAAACGCCGCTATAGATCAA
**
31808178 GCATTAGAGGCGTTTTCTAAAAAACGCCGCTATAGATTGA
1 GCATTAGAGGCGTTTT-TAAAAAACGCCGCTATAGATCAA
* * *
31808218 GCATTAGCGGCATTTTTCAAAAA
1 GCATTAGAGGCGTTTTTAAAAAA
31808241 GCGTCGGGGT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
39 10 0.19
40 44 0.81
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (39 bp):
GCATTAGAGGCGTTTTTAAAAAACGCCGCTATAGATCAA
Found at i:31808260 original size:7 final size:7
Alignment explanation
Indices: 31808248--31808294 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
31808238 AAAGCGTCGG
31808248 GGTTTAT
1 GGTTTAT
31808255 GGTTTA-
1 GGTTTAT
*
31808261 GGATTAT
1 GGTTTAT
31808268 GGTTTAT
1 GGTTTAT
* *
31808275 AGTTTAA
1 GGTTTAT
*
31808282 GGTTTAA
1 GGTTTAT
31808289 GGTTTA
1 GGTTTA
31808295 GGGGTTAGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
6 5 0.15
7 29 0.85
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (7 bp):
GGTTTAT
Found at i:31808318 original size:21 final size:21
Alignment explanation
Indices: 31808278--31808335 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
31808268 GGTTTATAGT
* * *
31808278 TTAAGGTTTAAGGTTTAGGGG
1 TTAAGGGTTAGGGGTTAGGGG
*
31808299 TTAGGGGTTAGGGGTTAGGGG
1 TTAAGGGTTAGGGGTTAGGGG
*
31808320 TTAAGGGTTTGGGGTT
1 TTAAGGGTTAGGGGTT
31808336 TAAGGTTTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.17, C:0.00, G:0.47, T:0.36
Consensus pattern (21 bp):
TTAAGGGTTAGGGGTTAGGGG
Found at i:31808336 original size:7 final size:7
Alignment explanation
Indices: 31808292--31808335 Score: 70
Period size: 7 Copynumber: 6.3 Consensus size: 7
31808282 GGTTTAAGGT
31808292 TTAGGGG
1 TTAGGGG
31808299 TTAGGGG
1 TTAGGGG
31808306 TTAGGGG
1 TTAGGGG
31808313 TTAGGGG
1 TTAGGGG
*
31808320 TTAAGGG
1 TTAGGGG
*
31808327 TTTGGGG
1 TTAGGGG
31808334 TT
1 TT
31808336 TAAGGTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.14, C:0.00, G:0.52, T:0.34
Consensus pattern (7 bp):
TTAGGGG
Found at i:31812199 original size:23 final size:23
Alignment explanation
Indices: 31812168--31812466 Score: 265
Period size: 23 Copynumber: 13.1 Consensus size: 23
31812158 GGTGGTGGAT
31812168 CTGTAAATTGAAGTGTTTAAATG
1 CTGTAAATTGAAGTGTTTAAATG
* *
31812191 CTGTCAATTGAAGTGTTTAAGTG
1 CTGTAAATTGAAGTGTTTAAATG
* * **
31812214 TTGCAAATTGAAGTGTTTAGTTG
1 CTGTAAATTGAAGTGTTTAAATG
* *
31812237 CTGGAAATTG-AGATGTTT-TATCG
1 CTGTAAATTGAAG-TGTTTAAAT-G
*
31812260 CTGT-AATTG-AGTTGTATAAATG
1 CTGTAAATTGAAG-TGTTTAAATG
* * *
31812282 TTGTTAATTGAAATG-TTAAAGTG
1 CTGTAAATTGAAGTGTTTAAA-TG
*
31812305 CTGCAAATTGAAGTGTTTAAATG
1 CTGTAAATTGAAGTGTTTAAATG
*
31812328 ATGTAAATTGAAGTG-TTAAATG
1 CTGTAAATTGAAGTGTTTAAATG
**
31812350 CTACAAATTGAAGTGTTTAAATG
1 CTGTAAATTGAAGTGTTTAAATG
*
31812373 TTGTAAATTGAAGTGTTTAAATG
1 CTGTAAATTGAAGTGTTTAAATG
* * *
31812396 TTGTTAATCG-AGATG-TTAAAGTG
1 CTGTAAATTGAAG-TGTTTAAA-TG
* *
31812419 CTGCAAATTGAAGTGTTTTAATG
1 CTGTAAATTGAAGTGTTTAAATG
*
31812442 TTGTAAATTGAAGTG-TTAAAGTG
1 CTGTAAATTGAAGTGTTTAAA-TG
31812465 CT
1 CT
31812467 ACTTTCCATT
Statistics
Matches: 222, Mismatches: 41, Indels: 26
0.77 0.14 0.09
Matches are distributed among these distances:
22 52 0.23
23 158 0.71
24 12 0.05
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.39
Consensus pattern (23 bp):
CTGTAAATTGAAGTGTTTAAATG
Found at i:31812322 original size:68 final size:69
Alignment explanation
Indices: 31812172--31812435 Score: 213
Period size: 68 Copynumber: 3.9 Consensus size: 69
31812162 GTGGATCTGT
* * * *
31812172 AAATTGAAGTGTTTAAATGCTGTCAATTGAAGTGTTTAAGTGTTGCAAATTGAAGTGTTTAGTTG
1 AAATTGAAGTGTTTAAATGCTGTCAATTGAAGTGTATAAATGTTGCAAATTGAAATGTTAAGTTG
*
31812237 CTGG
66 CTGC
* **
31812241 AAATTG-AGATGTTT-TATCGCTGT-AATTG-AGTTGTATAAATGTTGTTAATTGAAATGTTAAA
1 AAATTGAAG-TGTTTAAAT-GCTGTCAATTGAAG-TGTATAAATGTTGCAAATTGAAATGTT-AA
31812302 G-TGCTGC
62 GTTGCTGC
* * * * * *
31812309 AAATTGAAGTGTTTAAATGATGTAAATTGAAGTGT-TAAATGCTACAAATTGAAGTGTTTAA-AT
1 AAATTGAAGTGTTTAAATGCTGTCAATTGAAGTGTATAAATGTTGCAAATTGAAATG-TTAAGTT
* *
31812372 GTTGT
65 GCTGC
* * * * *
31812377 AAATTGAAGTGTTTAAATGTTGTTAATCG-AGATGT-TAAAGTGCTGCAAATTGAAGTGTT
1 AAATTGAAGTGTTTAAATGCTGTCAATTGAAG-TGTATAAA-TGTTGCAAATTGAAATGTT
31812436 TTAATGTTGT
Statistics
Matches: 162, Mismatches: 21, Indels: 25
0.78 0.10 0.12
Matches are distributed among these distances:
67 4 0.02
68 108 0.67
69 48 0.30
70 2 0.01
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (69 bp):
AAATTGAAGTGTTTAAATGCTGTCAATTGAAGTGTATAAATGTTGCAAATTGAAATGTTAAGTTG
CTGC
Found at i:31812340 original size:114 final size:115
Alignment explanation
Indices: 31812173--31812468 Score: 356
Period size: 114 Copynumber: 2.6 Consensus size: 115
31812163 TGGATCTGTA
* * * **
31812173 AATTGAAGTGTTTAAA-TGCTGTC-AATTGAAGTGTTTAAGTGTTGCAAATTGAAGTGTTTAGTT
1 AATTGAAATG-TTAAAGTGCTG-CAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAAT
** *
31812236 GCTGGAAATTG-AGATGTTT-TATCGCTGT-AATTG-AGTTGTATAAATGTTGTT
64 GCTACAAATTGAAG-TGTTTAAAT-GCTGTAAATTGAAG-TGTATAAATGTTGTT
*
31812287 AATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGATGTAAATTGAAGTG-TTAAATGC
1 AATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAATGC
* *
31812351 TACAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAATGTTGTT
66 TACAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTATAAATGTTGTT
* * *
31812401 AATCGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTTAATGTTGTAAATTGAAGTG-TTAAAGTG
1 AATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAA-TG
31812465 CTAC
65 CTAC
31812469 TTTCCATTGT
Statistics
Matches: 160, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
113 28 0.17
114 124 0.77
115 8 0.05
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (115 bp):
AATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAATGC
TACAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTATAAATGTTGTT
Found at i:31812461 original size:91 final size:92
Alignment explanation
Indices: 31812168--31812458 Score: 294
Period size: 91 Copynumber: 3.2 Consensus size: 92
31812158 GGTGGTGGAT
* * * *
31812168 CTGTAAATTGAAGTGTTTAAATGCTGTCAATTGAAGTGTTTAAGTGTTGCAAATTGAAGTGTT-T
1 CTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAATGTTGCAAATTGAAGTGTTAA
*
31812232 AGTTGCTGGAAATTG-AGATGTTTT-ATCG
66 AG-TGCTGCAAATTGAAG-TGTTTTAAT-G
* * * *
31812260 CTGT-AATTG-AGTTGTATAAATGTTGTTAATTGAAATG-TTAAAGTGCTGCAAATTGAAGTGTT
1 CTGTAAATTGAAG-TGTTTAAATGTTGTAAATTGAAGTGTTTAAA-TGTTGCAAATTGAAGTG-T
* * *
31812322 TAAA-TGATGTAAATTGAAGTG-TTAAATG
63 TAAAGTGCTGCAAATTGAAGTGTTTTAATG
** ** *
31812350 CTACAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAATGTTGTTAATCG-AGATGTTA
1 CTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAATGTTGCAAATTGAAG-TGTTA
31812414 AAGTGCTGCAAATTGAAGTGTTTTAATG
65 AAGTGCTGCAAATTGAAGTGTTTTAATG
*
31812442 TTGTAAATTGAAGTGTT
1 CTGTAAATTGAAGTGTT
31812459 AAAGTGCTAC
Statistics
Matches: 162, Mismatches: 25, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
90 18 0.11
91 108 0.67
92 35 0.22
93 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.40
Consensus pattern (92 bp):
CTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAATGTTGCAAATTGAAGTGTTAA
AGTGCTGCAAATTGAAGTGTTTTAATG
Found at i:31813393 original size:43 final size:43
Alignment explanation
Indices: 31813328--31813551 Score: 297
Period size: 43 Copynumber: 5.2 Consensus size: 43
31813318 TTTCATGACG
* ** *
31813328 TTTAGCGGCATTTGTGAAAAAAGCGCCGCTAAAGATCAAGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
*
31813371 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAA-AGTCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGA-TCATGTTC
* * * * *
31813414 TTTAGTGGCTTTTGTGGTAAAAGCGCCGCTAAAGGTCATGCTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
* * * *
31813457 TTTAGCGGTGTTTGTGGGAAAAGCGTCGCTAAAGGTCATATTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
31813500 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
*
31813543 TATAGCGGC
1 TTTAGCGGC
31813552 TTTTTTTACA
Statistics
Matches: 156, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
42 1 0.01
43 155 0.99
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
Found at i:31813470 original size:86 final size:86
Alignment explanation
Indices: 31813328--31813551 Score: 331
Period size: 86 Copynumber: 2.6 Consensus size: 86
31813318 TTTCATGACG
* *
31813328 TTTAGCGGCATTTGTGAAAAAAGCGCCGCTAAAGATCAAGTTCTTTAGCGGCGTTTGTGGGAAAA
1 TTTAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGAAAA
*
31813393 GCGTCGCTAAAAGTCATGTTC
66 GCGTCGCTAAAAGTCATATTC
* * * * * *
31813414 TTTAGTGGCTTTTGTGGTAAAAGCGCCGCTAAAGGTCATGCTCTTTAGCGGTGTTTGTGGGAAAA
1 TTTAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGAAAA
*
31813479 GCGTCGCTAAAGGTCATATTC
66 GCGTCGCTAAAAGTCATATTC
* * *
31813500 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTCTATAGCGGC
1 TTTAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGC
31813552 TTTTTTTACA
Statistics
Matches: 121, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 121 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (86 bp):
TTTAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGAAAA
GCGTCGCTAAAAGTCATATTC
Found at i:31813703 original size:20 final size:20
Alignment explanation
Indices: 31813675--31813717 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
31813665 GCCGCTAAAA
*
31813675 ACCTGTTTTGCTGTAGTGCT
1 ACCTATTTTGCTGTAGTGCT
31813695 ACCTATTTTGCTGTAGTGCT
1 ACCTATTTTGCTGTAGTGCT
31813715 ACC
1 ACC
31813718 AGTACGCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.42
Consensus pattern (20 bp):
ACCTATTTTGCTGTAGTGCT
Found at i:31814184 original size:75 final size:75
Alignment explanation
Indices: 31814061--31814211 Score: 266
Period size: 75 Copynumber: 2.0 Consensus size: 75
31814051 AAAGGAAAAC
** *
31814061 TAGGATTATTCGCTTATTAATAGAGAAGGCAAATGGAAAGTTAGAAAAATGAATTATATTCTTTC
1 TAGGATTATTCGCTTATTAATAGAGAAAACAAATGGAAAATTAGAAAAATGAATTATATTCTTTC
31814126 CAAAAGAATA
66 CAAAAGAATA
*
31814136 TAGGATTATTCTCTTATTAATAGAGAAAACAAATGGAAAATTAGAAAAATGAATTATATTCTTTC
1 TAGGATTATTCGCTTATTAATAGAGAAAACAAATGGAAAATTAGAAAAATGAATTATATTCTTTC
31814201 CAAAAGAATA
66 CAAAAGAATA
31814211 T
1 T
31814212 TAATTTCTAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.32
Consensus pattern (75 bp):
TAGGATTATTCGCTTATTAATAGAGAAAACAAATGGAAAATTAGAAAAATGAATTATATTCTTTC
CAAAAGAATA
Found at i:31814348 original size:138 final size:138
Alignment explanation
Indices: 31814187--31814470 Score: 487
Period size: 138 Copynumber: 2.1 Consensus size: 138
31814177 TAGAAAAATG
*
31814187 AATTATATTCTTTCCAAAAGAATATTAATTTCTATATCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCAAAATTAATTAA
* *
31814252 TATAACTGTTTATATTAATAAATTCGGTACAATATATACAATTAATATTTTGTATGAATTAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
31814317 CATATATT
131 CATATATT
* ** * *
31814325 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTGATTAC
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCAAAATTAATTAA
31814390 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
31814455 TATATATT
131 CATATATT
31814463 AATTATAT
1 AATTATAT
31814471 CTATGTTCTC
Statistics
Matches: 137, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
138 137 1.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCAAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:31816759 original size:50 final size:50
Alignment explanation
Indices: 31816705--31816878 Score: 152
Period size: 50 Copynumber: 3.4 Consensus size: 50
31816695 CCCAAATATC
** * *
31816705 GTCTTACATGGGAGTTC-CAATATCGGTGCCCATGCCATGTCCCAGACATG
1 GTCTTACATGGGACCTCTC-ATATCGGTGCCAACGCCATGTCCCAGACATG
** * * *
31816755 GTCTTACGGGGGACCTCTCATCTCGTTTCCAACGCCATGTCCCAGACATG
1 GTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGACATG
* * * *
31816805 GTCTTACATGGGACCTGTCATAACCTCAATGATGCTAATGCCATGTCCCAGACATG
1 GTCTTACATGGGACCTCTCAT-A--TC---GGTGCCAACGCCATGTCCCAGACATG
*
31816861 GTCTTACATGGGATCTCT
1 GTCTTACATGGGACCTCT
31816879 TTACCCAAAT
Statistics
Matches: 98, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
50 57 0.58
51 1 0.01
53 2 0.02
56 38 0.39
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
GTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGACATG
Found at i:31833465 original size:16 final size:17
Alignment explanation
Indices: 31833432--31833465 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
31833422 TTGGGATATA
*
31833432 ACCATGCATTTCCAAAC
1 ACCATGCATATCCAAAC
31833449 ACCATGCATAT-CAAAC
1 ACCATGCATATCCAAAC
31833465 A
1 A
31833466 TAGTATACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.41, C:0.32, G:0.06, T:0.21
Consensus pattern (17 bp):
ACCATGCATATCCAAAC
Found at i:31835155 original size:40 final size:40
Alignment explanation
Indices: 31835072--31835334 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
31835062 GTGAATGCTG
* * * * * *
31835072 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
31835112 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
31835152 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
31835192 TCCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
31835232 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
31835272 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
31835311 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
31835335 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:31835354 original size:79 final size:80
Alignment explanation
Indices: 31835111--31835369 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
31835101 AAGTGAATAT
* * * * * * *
31835111 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTACGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
31835175 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
31835191 ATCCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
31835256 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* ** *
31835271 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
31835335 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
31835350 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
31835370 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:31843104 original size:40 final size:40
Alignment explanation
Indices: 31843021--31843283 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
31843011 TTGAATGCTG
* * * * * *
31843021 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
31843061 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
31843101 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
31843141 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
31843181 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
31843221 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
31843260 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
31843284 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:31843303 original size:79 final size:80
Alignment explanation
Indices: 31843060--31843318 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
31843050 AAGTGAATAT
* * * * * *
31843060 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
31843124 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
31843140 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
31843205 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
31843220 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
31843284 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
31843299 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
31843319 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:31850647 original size:27 final size:26
Alignment explanation
Indices: 31850617--31850792 Score: 147
Period size: 27 Copynumber: 6.5 Consensus size: 26
31850607 AATTGTACAG
*
31850617 CACTAAGTGTGCGATTTGACTACGTTA
1 CACTAAGTGTGCGATTTGACTATG-TA
* * *
31850644 CACTAAGTGTGCGAAATGGA-TATGATG
1 CACTAAGTGTGCG-ATTTGACTATG-TA
* * **
31850671 CACTAAGTGTGCGAATTGACCATGCGG
1 CACTAAGTGTGCGATTTGACTATG-TA
31850698 CACTAAGTGTGCGAGTTTGACTATGTA
1 CACTAAGTGTGCGA-TTTGACTATGTA
* *
31850725 GCACTAAGTGTGCGATTTGATTACGTA
1 -CACTAAGTGTGCGATTTGACTATGTA
* * *
31850752 GCACTAAGTGTGCGAGTTGATTATATA
1 -CACTAAGTGTGCGATTTGACTATGTA
*
31850779 GCACTGAGTGTGCG
1 -CACTAAGTGTGCG
31850793 GACTCAATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
26 5 0.04
27 95 0.75
28 26 0.21
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (26 bp):
CACTAAGTGTGCGATTTGACTATGTA
Found at i:31850756 original size:82 final size:81
Alignment explanation
Indices: 31850616--31850771 Score: 210
Period size: 82 Copynumber: 1.9 Consensus size: 81
31850606 AAATTGTACA
*
31850616 GCACTAAGTGTGCGATTTGACTACGTTACACTAAGTGTGCGAAATGGATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTACGTTACACTAAGTGTGCGAAATGGATACGATGCACTAAGTGT
31850681 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* * *
31850697 GCACTAAGTGTGCGAGTTTGACTATG-TAGCACTAAGTGTGCG-ATTTGATTACG-TAGCACTAA
1 GCACTAAGTGTGCGA-TTTGACTACGTTA-CACTAAGTGTGCGAAATGGA-TACGAT-GCACTAA
*
31850759 GTGTGCGAGTTGA
62 GTGTGCGAATTGA
31850772 TTATATAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
81 22 0.33
82 44 0.67
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTACGTTACACTAAGTGTGCGAAATGGATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31850783 original size:82 final size:81
Alignment explanation
Indices: 31850612--31850792 Score: 206
Period size: 82 Copynumber: 2.2 Consensus size: 81
31850602 GATTAAATTG
*
31850612 TACAGCACTAAGTGTGCGATTTGACTACGTTACACTAAGTGTGCGAAATGGATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTACGTTACACTAAGTGTGCGAAATGGATACGATGCACTAA
31850677 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * * *
31850693 TGCGGCACTAAGTGTGCGAGTTTGACTATG-TAGCACTAAGTGTGCG-ATTTGATTACG-TAGCA
1 TACAGCACTAAGTGTGCGA-TTTGACTACGTTA-CACTAAGTGTGCGAAATGGA-TACGAT-GCA
* **
31850755 CTAAGTGTGCGAGTTGATTA
62 CTAAGTGTGCGAATTGACCA
* *
31850775 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
31850793 GACTCAATAT
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
81 24 0.29
82 59 0.71
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTACGTTACACTAAGTGTGCGAAATGGATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31855016 original size:55 final size:54
Alignment explanation
Indices: 31854929--31855183 Score: 253
Period size: 55 Copynumber: 4.8 Consensus size: 54
31854919 ATTAGGGTTT
* *
31854929 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * *
31854984 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTAATATAAGGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAA-GGC
* *
31855040 AAGG-T-CCTATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 AAGGATACC-ATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
31855092 AAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * * *
31855141 AAGGATACCACGTAAGACCATGACAAGTCATGG-AAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
31855184 GTACCTATGT
Statistics
Matches: 170, Mismatches: 20, Indels: 26
0.79 0.09 0.12
Matches are distributed among these distances:
48 2 0.01
49 36 0.21
52 9 0.05
53 35 0.21
54 16 0.09
55 66 0.39
56 6 0.04
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:31855135 original size:108 final size:110
Alignment explanation
Indices: 31854939--31855136 Score: 330
Period size: 108 Copynumber: 1.8 Consensus size: 110
31854929 AAGGATACCG
31854939 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACCA
*
31855004 TGTCAAGACATGGCATTGATAAGTTAATATAAGGGAAAGGTCCTA
66 TGTCAAGACATGGCAATGATAAGTTAATATAAGGGAAAGGTCCTA
*
31855049 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAGACC
* *
31855111 ATGTCGAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
31855137 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
107 3 0.04
108 49 0.59
109 7 0.08
110 24 0.29
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTAATATAAGGGAAAGGTCCTA
Found at i:31860768 original size:13 final size:13
Alignment explanation
Indices: 31860750--31860779 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
31860740 AGGGTCTTAC
31860750 TCGAAAACACATA
1 TCGAAAACACATA
*
31860763 TCGAAATCACATA
1 TCGAAAACACATA
31860776 TCGA
1 TCGA
31860780 TGCCAACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.23, G:0.10, T:0.20
Consensus pattern (13 bp):
TCGAAAACACATA
Found at i:31860992 original size:43 final size:43
Alignment explanation
Indices: 31860767--31860994 Score: 294
Period size: 43 Copynumber: 5.3 Consensus size: 43
31860757 CACATATCGA
* * *** * *
31860767 AATCACATATCGATGCCAACATATTAAACGTGGTCTTACTCTT
1 AATCACATATTGATGCCAACGTCCCAAACGTGGTCTTACACAT
* * * *
31860810 AATCACATATCGATGCCAACATCCCAAACGTGGTTTTACACGT
1 AATCACATATTGATGCCAACGTCCCAAACGTGGTCTTACACAT
* * *
31860853 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
1 AATCACATATTGATGCCAACGTCCCAAACGTGGTCTTACACAT
*
31860896 AATCACATATTGATGCCAACGTCCCAAACGTTGTCTTACACAT
1 AATCACATATTGATGCCAACGTCCCAAACGTGGTCTTACACAT
* * *
31860939 AATCACATATTGATGCCAATGTCCCAAACGTAGTCGTACACAT
1 AATCACATATTGATGCCAACGTCCCAAACGTGGTCTTACACAT
31860982 AATCACATATTGA
1 AATCACATATTGA
31860995 AAATCCTATG
Statistics
Matches: 169, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 169 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (43 bp):
AATCACATATTGATGCCAACGTCCCAAACGTGGTCTTACACAT
Found at i:31868790 original size:10 final size:10
Alignment explanation
Indices: 31868775--31868802 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
31868765 TGTGGGCTTA
31868775 GGCCACTTTG
1 GGCCACTTTG
31868785 GGCCACTTTG
1 GGCCACTTTG
31868795 GGCCACTT
1 GGCCACTT
31868803 GGCCGTGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.32, G:0.29, T:0.29
Consensus pattern (10 bp):
GGCCACTTTG
Found at i:31872045 original size:6 final size:6
Alignment explanation
Indices: 31872034--31872172 Score: 117
Period size: 6 Copynumber: 22.8 Consensus size: 6
31872024 AACCAAAATG
* *
31872034 AGAATC AGAATC AGAATC AGAATC A-ATATT AGTAA-C AGAATC AGAATT
1 AGAATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC AGAATC
* * *
31872082 AGAATA AGAATT AG-GTGAC AGAATC AGAATC AGAATC AGTAA-C AGAATC
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
31872131 AGAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
31872173 GTGAATGCAA
Statistics
Matches: 109, Mismatches: 12, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
5 7 0.06
6 92 0.84
7 7 0.06
8 3 0.03
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:31872110 original size:55 final size:55
Alignment explanation
Indices: 31872045--31872172 Score: 204
Period size: 55 Copynumber: 2.3 Consensus size: 55
31872035 GAATCAGAAT
* * *
31872045 CAGAATCAGAATCA-ATATTAGTAACAGAATCAGAATTAGAATAAGAATTAGGTGA
1 CAGAATCAGAATCAGA-ATCAGTAACAGAATCAGAATCAGAATAAGAATTACGTGA
*
31872100 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATTACGTGA
1 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATAAGAATTACGTGA
31872155 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
31872173 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
55 67 0.99
56 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.20
Consensus pattern (55 bp):
CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATAAGAATTACGTGA
Found at i:31872327 original size:27 final size:26
Alignment explanation
Indices: 31872290--31872355 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
31872280 AGCATGGCTG
*
31872290 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* * *
31872316 CCAGATACAGATATTGTGGCTGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
31872343 CCAGAATCAGATA
1 CCAGAA-CAGATA
31872356 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:31872370 original size:27 final size:27
Alignment explanation
Indices: 31872314--31872371 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
31872304 GTGACAGAGT
* ** *
31872314 CACCAGATACAGATATTGTGGCTGAGC
1 CACCAGATACAGATAATGTGGCAAACC
31872341 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
31872368 CACC
1 CACC
31872372 TAACAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:31872752 original size:27 final size:26
Alignment explanation
Indices: 31872673--31872755 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
31872663 TCGATCGGTC
* * *
31872673 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
31872699 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
31872726 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
31872753 AAC
1 AAC
31872756 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:31873015 original size:27 final size:27
Alignment explanation
Indices: 31872953--31873149 Score: 214
Period size: 27 Copynumber: 7.3 Consensus size: 27
31872943 GGGGCAAAAT
* * * * *
31872953 GGTAATTTTACCCCACAAGGGAATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
31872980 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
31873007 GGTATTTCTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
31873034 GATAATTCTACCCTACAGGGGTATTTTT
1 GGTAATTCTACCCTACAGGGGTA-TTTC
* * *
31873062 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
31873089 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
31873116 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
31873143 AGTAATT
1 GGTAATT
31873150 TCACAATCAA
Statistics
Matches: 139, Mismatches: 30, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
27 118 0.85
28 21 0.15
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:31873077 original size:82 final size:82
Alignment explanation
Indices: 31872981--31873141 Score: 243
Period size: 82 Copynumber: 2.0 Consensus size: 82
31872971 GGGAATCTCA
* * *
31872981 GTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATCTC-GATAATTCTAC
1 GTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATCTCGGA-AATTCTAC
31873045 CCTACAGGGGTATTTTTG
65 CCTACAGGGGTATTTTTG
* * * *
31873063 GTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGAAATTCTACC
1 GTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATCTCGGAAATTCTACC
31873128 CTACAGGGGTATTT
66 CTACAGGGGTATTT
31873142 CAGTAATTTC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
82 69 0.97
83 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (82 bp):
GTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATCTCGGAAATTCTACC
CTACAGGGGTATTTTTG
Found at i:31873184 original size:27 final size:27
Alignment explanation
Indices: 31873154--31873671 Score: 580
Period size: 27 Copynumber: 19.2 Consensus size: 27
31873144 GTAATTTCAC
* *
31873154 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
31873181 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
31873208 AA-CTGAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * **
31873235 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
31873262 AATCGAGGGTAAAACGGTAATTCTCTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
31873289 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
31873316 AA-CTGAGGGTAAAACGATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
31873343 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
31873370 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * *
31873397 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
31873424 AAGT-GAGAGTAAACCAGTAATTCTGTA
1 AA-TCGAGGGTAAAACGGTAATTCTGTA
* * **
31873451 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
31873478 AATTGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
31873505 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
31873532 AA-CTGAATGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
31873559 AATCGAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
31873586 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
31873613 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
31873640 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
31873667 AATCG
1 AATCG
31873672 GGAATACTTT
Statistics
Matches: 415, Mismatches: 64, Indels: 24
0.83 0.13 0.05
Matches are distributed among these distances:
26 9 0.02
27 397 0.96
28 9 0.02
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:31878377 original size:11 final size:11
Alignment explanation
Indices: 31878361--31878386 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
31878351 CCTATTTAGA
31878361 TATGAAAAATG
1 TATGAAAAATG
31878372 TATGAAAAATG
1 TATGAAAAATG
31878383 TATG
1 TATG
31878387 TTTGATTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (11 bp):
TATGAAAAATG
Found at i:31882883 original size:31 final size:28
Alignment explanation
Indices: 31882809--31882883 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 28
31882799 TAAAGAGATT
* *
31882809 TTTGACAAAAATGTTAATTAGGGATTAA
1 TTTGAGAAAAATGTAAATTAGGGATTAA
*
31882837 TTTGAGAAAAATGTAAATTGAGGGGGTTAA
1 TTTGAGAAAAATGTAAATT-A-GGGATTAA
31882867 TTATGA-AATAAATGTAA
1 TT-TGAGAA-AAATGTAA
31882884 GTTTTGGGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
28 17 0.43
29 1 0.03
30 11 0.28
31 11 0.28
ACGTcount: A:0.44, C:0.01, G:0.21, T:0.33
Consensus pattern (28 bp):
TTTGAGAAAAATGTAAATTAGGGATTAA
Found at i:31885979 original size:101 final size:101
Alignment explanation
Indices: 31885779--31886019 Score: 288
Period size: 101 Copynumber: 2.4 Consensus size: 101
31885769 ATGTATATAA
* * * *
31885779 GGCATTGACATGTGAATTCTGATATGTGATGTGTGAGTAAGACCATGGCATCGATGTGCGATTCC
1 GGCATCGATATGTG-ATTCTGATATGTGATGTGCGAGTAAGACCATGGCATCGATATGCGATTCC
* * * *
31885844 TATATATGTGCGCGAGTAAGACCATGTTTAATACATT
65 GATAGATCTGCGCGAGTAAGACCACGTTTAATACATT
* *
31885881 GGCATCGATATGTGATTCTGATATGTGATGTGCGTGTAAGACCATGGCATCGATATGTGACTT-C
1 GGCATCGATATGTGATTCTGATATGTGATGTGCGAGTAAGACCATGGCATCGATATGCGA-TTCC
* * * *
31885945 GATAGATCTGTGTGAGTAAGTCCACGTTTTATACATT
65 GATAGATCTGCGCGAGTAAGACCACGTTTAATACATT
* * * *
31885982 GACATCGATATGTGATTCCGATATATG-TGTGCTAGTAA
1 GGCATCGATATGTGATTCTGATATGTGATGTGCGAGTAA
31886020 AACCCTATCT
Statistics
Matches: 119, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
100 9 0.08
101 96 0.81
102 14 0.12
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.34
Consensus pattern (101 bp):
GGCATCGATATGTGATTCTGATATGTGATGTGCGAGTAAGACCATGGCATCGATATGCGATTCCG
ATAGATCTGCGCGAGTAAGACCACGTTTAATACATT
Found at i:31894109 original size:27 final size:26
Alignment explanation
Indices: 31894062--31894112 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
31894052 CGAGGCTGCC
*
31894062 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
31894088 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
31894113 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:31894793 original size:27 final size:27
Alignment explanation
Indices: 31894763--31894934 Score: 209
Period size: 27 Copynumber: 6.4 Consensus size: 27
31894753 GAGGCAAAAT
* * *
31894763 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31894790 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31894817 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
31894844 AGTAATTCTATCCTATATGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31894871 GGTAATTCTACCCTAGAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
31894898 GGTAATTCAACCTTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31894925 TGTAATTCTA
1 GGTAATTCTA
31894935 TAACTTATCC
Statistics
Matches: 123, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:31894874 original size:81 final size:81
Alignment explanation
Indices: 31894781--31894935 Score: 247
Period size: 81 Copynumber: 1.9 Consensus size: 81
31894771 TACCCCACAA
* *
31894781 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAG
1 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCAACCCTACAAGGGTATTTCAG
31894846 TAATTCTATCCTATAT
66 TAATTCTATCCTATAT
* * * **
31894862 GGGTATTTCGGTAATTCTACCCTAGAGGGGTATTTCGGTAATTCAACCTTACAAGGGTATTTTTG
1 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCAACCCTACAAGGGTATTTCAG
31894927 TAATTCTAT
66 TAATTCTAT
31894936 AACTTATCCA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 67 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (81 bp):
GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCAACCCTACAAGGGTATTTCAG
TAATTCTATCCTATAT
Found at i:31902369 original size:27 final size:27
Alignment explanation
Indices: 31902339--31902511 Score: 222
Period size: 27 Copynumber: 6.4 Consensus size: 27
31902329 GGGGCAAAAT
* * *
31902339 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31902366 GGTAATTCTACTCTAC-AGGGCTATTTT
1 GGTAATTCTACCCTACAAGGG-TATTTC
* *
31902393 GGTATTTCTACCCTAAAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31902420 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31902447 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31902474 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31902501 GATAATTCTAC
1 GGTAATTCTAC
31902512 AACTTATCCA
Statistics
Matches: 127, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.03
27 119 0.94
28 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:31903310 original size:26 final size:27
Alignment explanation
Indices: 31903275--31903325 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
31903265 TTTAACCAAC
* *
31903275 CAGAACACACACAAATCTTAAAAATCA
1 CAGAACACACACAAAACCTAAAAATCA
*
31903302 CAGAA-ACACAGAAAACCTAAAAAT
1 CAGAACACACACAAAACCTAAAAAT
31903326 TGGGGCGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.59, C:0.24, G:0.06, T:0.12
Consensus pattern (27 bp):
CAGAACACACACAAAACCTAAAAATCA
Found at i:31906642 original size:46 final size:46
Alignment explanation
Indices: 31906493--31906666 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
31906483 TGTAACCCGC
* * * ** *
31906493 CCATAAGTGAACTCGGACTCAACTCAATGA-ATCGGGCGCTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
31906538 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* **
31906584 ACAT-TCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
31906630 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
31906667 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
44 2 0.02
45 30 0.29
46 67 0.64
47 1 0.01
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:31906666 original size:92 final size:91
Alignment explanation
Indices: 31906501--31906670 Score: 259
Period size: 92 Copynumber: 1.9 Consensus size: 91
31906491 GCCCATAAGT
* * * *
31906501 GAACTCGGACTCAACTCAATGAATCGGGCGCTCGTATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAATCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
31906566 GAGCTCGGATGCCTAGTTACATTCTC
66 GAGCTCGGATGCCTAGTTACATTCTC
* *
31906592 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGA-ATCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
31906657 TGAGTTCGGATGCC
65 CGAGCTCGGATGCC
31906671 CAAATATCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 21 0.30
92 49 0.70
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAATCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATTCTC
Found at i:31914647 original size:38 final size:38
Alignment explanation
Indices: 31914582--31914840 Score: 365
Period size: 38 Copynumber: 6.8 Consensus size: 38
31914572 AAAGGCCTGA
* * * *
31914582 ATATAATACCAGTACTAGGCCTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
31914620 ATATAATACCAGCACGAAGCCTACGGGATTTAACCTGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
31914658 ATATATTACCAGCACGAAGCCTGCAGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
31914696 ATATATTACCAGCACGAAGCCTGCGGGATTTAACTCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
31914734 ATATAATACCAGCACAAAGCCTGCGGGTCTTTAAGCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGG
* *
31914774 ATATATTACCAGCACGAAGCCTACGGGATTTAACCCAG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
31914812 ATGTATTACCAGCACGAAGCCTGCGGGAT
1 ATATATTACCAGCACGAAGCCTGCGGGAT
31914841 ATATCTTCAT
Statistics
Matches: 197, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
38 159 0.81
39 10 0.05
40 28 0.14
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:31917159 original size:79 final size:81
Alignment explanation
Indices: 31917042--31917224 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
31917032 GCTACTCGTT
* ** *
31917042 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGAGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCG-GATCTTAACCCG
* *
31917106 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
31917122 CAAATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
31917185 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
31917202 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
31917225 GACATCATTC
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.61
80 31 0.35
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:31917226 original size:40 final size:40
Alignment explanation
Indices: 31917023--31917226 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
31917013 CAAAATTTAA
** *
31917023 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
31917063 CCGGTTATAGTAACTCGCACAATTGCCTTCGAGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
31917103 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
31917142 CC-GAAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
31917182 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
31917222 CCGGA
1 CCGGA
31917227 CATCATTCAA
Statistics
Matches: 135, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
38 4 0.03
39 30 0.22
40 87 0.64
41 14 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:31925354 original size:40 final size:40
Alignment explanation
Indices: 31925080--31925340 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
31925070 AATGATGTCA
* * * *
31925080 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
* * * * *
31925120 GGACTAAGAT-CCGGAGGCA-TTGTACGAGATACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
**
31925159 GGGCTAAG-CCCGAAGGCATTTGCACGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
31925198 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
31925238 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
31925278 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
31925318 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
31925341 AACGAGTAGC
Statistics
Matches: 192, Mismatches: 21, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
38 8 0.04
39 40 0.21
40 141 0.73
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:31938674 original size:40 final size:40
Alignment explanation
Indices: 31938591--31938853 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
31938581 GTGAATGCTG
* * * * * *
31938591 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
31938631 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
31938671 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
31938711 TCCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
31938751 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
31938791 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
31938830 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
31938854 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:31938873 original size:79 final size:80
Alignment explanation
Indices: 31938630--31938888 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
31938620 AAGTGAATAT
* * * * * * *
31938630 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTACGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
31938694 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
31938710 ATCCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
31938775 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* ** *
31938790 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
31938854 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
31938869 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
31938889 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:31940864 original size:132 final size:137
Alignment explanation
Indices: 31940708--31940983 Score: 454
Period size: 132 Copynumber: 2.0 Consensus size: 137
31940698 AAAAAGGAAC
31940708 TATATTCTTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGACCAAAATTAATTAATAT
1 TATATTCTTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGACCAAAATTAATTAATAT
*
31940773 AACTGTTTATATTAATAAATTCAG-AAA-A-ACAT-ATTAATATTTTGTATGAATCAAATTCATA
66 AACTATTTATATTAATAAATTCAGAAAATATACATAATTAATATTTTGTATGAATCAAATTCATA
31940834 TATTAAT
131 TATTAAT
* * *
31940841 TATATTCTTTTC-AAAGAATATTAATTTCTATGTCTTTTATATTTTGATCGAAATTAATTAATAT
1 TATATTCTTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGACCAAAATTAATTAATAT
* *
31940905 AACTATTTATATTATTAAATTCAGTAAAATATATATAATTAATATTTTGTATGAATCAAATTCAT
66 AACTATTTATATTAATAAATTCAG-AAAATATACATAATTAATATTTTGTATGAATCAAATTCAT
31940970 ATATTAAT
130 ATATTAAT
31940978 TATATT
1 TATATT
31940984 TATGTTCTCT
Statistics
Matches: 132, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
132 72 0.55
133 11 0.08
134 3 0.02
135 1 0.01
136 3 0.02
137 42 0.32
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.47
Consensus pattern (137 bp):
TATATTCTTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGACCAAAATTAATTAATAT
AACTATTTATATTAATAAATTCAGAAAATATACATAATTAATATTTTGTATGAATCAAATTCATA
TATTAAT
Found at i:31941696 original size:17 final size:18
Alignment explanation
Indices: 31941664--31941698 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
31941654 TCAAAAGTCA
31941664 GTTATTTAATTTTTAATT
1 GTTATTTAATTTTTAATT
*
31941682 GTTATTTTA-TTTTAATT
1 GTTATTTAATTTTTAATT
31941699 TTAGAAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
GTTATTTAATTTTTAATT
Found at i:31947219 original size:10 final size:9
Alignment explanation
Indices: 31947206--31947262 Score: 62
Period size: 9 Copynumber: 6.2 Consensus size: 9
31947196 TTTTACATGA
31947206 TTTTTAATT
1 TTTTTAATT
31947215 TTTTTAA-T
1 TTTTTAATT
**
31947223 TTTAAAATAT
1 TTTTTAAT-T
*
31947233 TTTTAAATAT
1 TTTTTAAT-T
31947243 TTTTTAATT
1 TTTTTAATT
31947252 TTTTTAATT
1 TTTTTAATT
31947261 TT
1 TT
31947263 AAAATATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
8 6 0.14
9 19 0.45
10 17 0.40
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTAATT
Found at i:31947256 original size:39 final size:38
Alignment explanation
Indices: 31947173--31947336 Score: 217
Period size: 39 Copynumber: 4.3 Consensus size: 38
31947163 AAATATATTT
* *
31947173 ATTTTTTAAAATTTTAAAATATTTTTTACATGA--TTTTTA
1 ATTTTTT-TAATTTTAAAATA-TTTTTAAAT-ACTTTTTTA
31947212 ATTTTTTTAATTTTAAAATATTTTTAAATA-TTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAATACTTTTTTA
*
31947249 ATTTTTTTAATTTTAAAATATTTTAAAATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAATAC-TTTTTTA
*
31947288 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTT-AAATACTTTTTTA
*
31947327 AATTTTTTAA
1 ATTTTTTTAA
31947337 AATTTTTAAA
Statistics
Matches: 115, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
36 1 0.01
37 43 0.37
38 12 0.10
39 53 0.46
40 6 0.05
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.61
Consensus pattern (38 bp):
ATTTTTTTAATTTTAAAATATTTTTAAATACTTTTTTA
Found at i:31947271 original size:10 final size:10
Alignment explanation
Indices: 31947258--31947349 Score: 66
Period size: 10 Copynumber: 9.1 Consensus size: 10
31947248 AATTTTTTTA
31947258 ATTTTAAAAT
1 ATTTTAAAAT
31947268 ATTTTAAAAT
1 ATTTTAAAAT
**
31947278 ACTTTTTTTAAT
1 A--TTTTAAAAT
**
31947290 -TTTT-TTA-
1 ATTTTAAAAT
31947297 ATTTTAAAAT
1 ATTTTAAAAT
31947307 ATTTTTAAAAT
1 A-TTTTAAAAT
31947318 ACTTTTTAAAAT
1 A--TTTTAAAAT
*
31947330 TTTTTAAAAT
1 ATTTTAAAAT
31947340 -TTTTAAAAT
1 ATTTTAAAAT
31947349 A
1 A
31947350 AAAATGGGCC
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
8 6 0.09
9 14 0.21
10 21 0.31
11 10 0.15
12 17 0.25
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:31954477 original size:16 final size:17
Alignment explanation
Indices: 31954444--31954477 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
31954434 TTGGGATATA
*
31954444 ACCATGCATTTCCAAAC
1 ACCATGCATATCCAAAC
31954461 ACCATGCATAT-CAAAC
1 ACCATGCATATCCAAAC
31954477 A
1 A
31954478 TAGTATACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.41, C:0.32, G:0.06, T:0.21
Consensus pattern (17 bp):
ACCATGCATATCCAAAC
Found at i:31955206 original size:132 final size:137
Alignment explanation
Indices: 31955050--31955325 Score: 454
Period size: 132 Copynumber: 2.0 Consensus size: 137
31955040 AAAAAGGAAC
31955050 TATATTCTTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGACCAAAATTAATTAATAT
1 TATATTCTTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGACCAAAATTAATTAATAT
*
31955115 AACTGTTTATATTAATAAATTCAG-AAA-A-ACAT-ATTAATATTTTGTATGAATCAAATTCATA
66 AACTATTTATATTAATAAATTCAGAAAATATACATAATTAATATTTTGTATGAATCAAATTCATA
31955176 TATTAAT
131 TATTAAT
* * *
31955183 TATATTCTTTTC-AAAGAATATTAATTTCTATGTCTTTTATATTTTGATCGAAATTAATTAATAT
1 TATATTCTTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGACCAAAATTAATTAATAT
* *
31955247 AACTATTTATATTATTAAATTCAGTAAAATATATATAATTAATATTTTGTATGAATCAAATTCAT
66 AACTATTTATATTAATAAATTCAG-AAAATATACATAATTAATATTTTGTATGAATCAAATTCAT
31955312 ATATTAAT
130 ATATTAAT
31955320 TATATT
1 TATATT
31955326 TATGTTCTCT
Statistics
Matches: 132, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
132 72 0.55
133 11 0.08
134 3 0.02
135 1 0.01
136 3 0.02
137 42 0.32
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.47
Consensus pattern (137 bp):
TATATTCTTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGACCAAAATTAATTAATAT
AACTATTTATATTAATAAATTCAGAAAATATACATAATTAATATTTTGTATGAATCAAATTCATA
TATTAAT
Found at i:31956038 original size:17 final size:18
Alignment explanation
Indices: 31956006--31956040 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
31955996 TCAAAAGTCA
31956006 GTTATTTAATTTTTAATT
1 GTTATTTAATTTTTAATT
*
31956024 GTTATTTTA-TTTTAATT
1 GTTATTTAATTTTTAATT
31956041 TTAGAAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
GTTATTTAATTTTTAATT
Found at i:31961579 original size:11 final size:11
Alignment explanation
Indices: 31961565--31961696 Score: 99
Period size: 11 Copynumber: 12.9 Consensus size: 11
31961555 ATTTTTTTAA
31961565 TTTTAAAATAT
1 TTTTAAAATAT
31961576 TTTTAAAATAT
1 TTTTAAAATAT
**
31961587 TTTTTTAAT-T
1 TTTTAAAATAT
*
31961597 TTTT----TAA
1 TTTTAAAATAT
31961604 TTTTAAAATAT
1 TTTTAAAATAT
31961615 TTTTAAAATACT
1 TTTTAAAATA-T
**
31961627 TTTTTTAAT-T
1 TTTTAAAATAT
* *
31961637 TTTT---TTAA
1 TTTTAAAATAT
31961645 TTTTAAAATAT
1 TTTTAAAATAT
31961656 TTTTAAAATACT
1 TTTTAAAATA-T
31961668 TTTTAAAAT-T
1 TTTTAAAATAT
31961678 TTTT-AAA-AT
1 TTTTAAAATAT
31961687 TTTTAAAATA
1 TTTTAAAATA
31961697 AAAATGGGCC
Statistics
Matches: 97, Mismatches: 10, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
6 1 0.01
7 5 0.05
8 4 0.04
9 8 0.08
10 18 0.19
11 43 0.44
12 18 0.19
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:31961600 original size:8 final size:9
Alignment explanation
Indices: 31961548--31961607 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 9
31961538 TTTTACATGA
31961548 TTTTTTAAT
1 TTTTTTAAT
31961557 TTTTTTAA-
1 TTTTTTAAT
**
31961565 TTTTAAAAT
1 TTTTTTAAT
*
31961574 ATTTTTAAAATAT
1 -TTTTT--TA-AT
31961587 TTTTTTAAT
1 TTTTTTAAT
31961596 TTTTTTAAT
1 TTTTTTAAT
31961605 TTT
1 TTT
31961608 AAAATATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 6 0.14
9 22 0.52
10 5 0.12
12 7 0.17
13 2 0.05
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:31961616 original size:10 final size:10
Alignment explanation
Indices: 31961603--31961696 Score: 59
Period size: 10 Copynumber: 9.1 Consensus size: 10
31961593 AATTTTTTTA
31961603 ATTTTAAAAT
1 ATTTTAAAAT
31961613 ATTTTTAAAAT
1 A-TTTTAAAAT
**
31961624 ACTTTTTTTAAT
1 A--TTTTAAAAT
* **
31961636 TTTTTTTAAT
1 ATTTTAAAAT
31961646 -T-TTAAAAT
1 ATTTTAAAAT
31961654 ATTTTTAAAAT
1 A-TTTTAAAAT
31961665 ACTTTTTAAAAT
1 A--TTTTAAAAT
*
31961677 TTTTTAAAAT
1 ATTTTAAAAT
31961687 -TTTTAAAAT
1 ATTTTAAAAT
31961696 A
1 A
31961697 AAAATGGGCC
Statistics
Matches: 71, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
8 5 0.07
9 10 0.14
10 20 0.28
11 18 0.25
12 18 0.25
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:31961651 original size:80 final size:78
Alignment explanation
Indices: 31961515--31961683 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 78
31961505 AAATATATTT
* * *
31961515 ATTTTTTAAAATTTTAAAATATTTTTTACATGATTTTTTAATTTTTTTAATTTTAAAATATTTTT
1 ATTTTTT-TAATTTTAAAATATTTTTAAAATGATTTTTTAATTTTTTTAATTTTAAAATATTTTT
* *
31961580 AAAATATTTTTTTA
65 AAAATACTTTTTAA
31961594 ATTTTTTTAATTTTAAAATATTTTTAAAAT-ACTTTTTTTAATTTTTTTTAATTTTAAAATATTT
1 ATTTTTTTAATTTTAAAATATTTTTAAAATGA--TTTTTTAA-TTTTTTTAATTTTAAAATATTT
31961658 TTAAAATACTTTTTAA
63 TTAAAATACTTTTTAA
*
31961674 AATTTTTTAA
1 ATTTTTTTAA
31961684 AATTTTTAAA
Statistics
Matches: 81, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
77 1 0.01
78 20 0.25
79 15 0.19
80 45 0.56
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.62
Consensus pattern (78 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATGATTTTTTAATTTTTTTAATTTTAAAATATTTTTA
AAATACTTTTTAA
Found at i:31961689 original size:41 final size:39
Alignment explanation
Indices: 31961515--31961683 Score: 241
Period size: 39 Copynumber: 4.3 Consensus size: 39
31961505 AAATATATTT
* * *
31961515 ATTTTTTAAAATTTTAAAATATTTTTTACATGA-TTTTTTA
1 ATTTTTT-TAATTTTAAAATATTTTTAAAAT-ATTTTTTTA
31961555 ATTTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTA
31961594 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATA-TTTTTTTA
* *
31961634 ATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTAA
1 A-TTTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTA
*
31961674 AATTTTTTAA
1 ATTTTTTTAA
31961684 AATTTTTAAA
Statistics
Matches: 120, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
38 1 0.01
39 66 0.55
40 23 0.19
41 30 0.25
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.62
Consensus pattern (39 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTA
Found at i:31968829 original size:16 final size:17
Alignment explanation
Indices: 31968796--31968829 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
31968786 TTGGGATATA
*
31968796 ACCATGCATTTCCAAAC
1 ACCATGCATATCCAAAC
31968813 ACCATGCATAT-CAAAC
1 ACCATGCATATCCAAAC
31968829 A
1 A
31968830 TAGTATACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.41, C:0.32, G:0.06, T:0.21
Consensus pattern (17 bp):
ACCATGCATATCCAAAC
Found at i:31969558 original size:132 final size:137
Alignment explanation
Indices: 31969402--31969677 Score: 454
Period size: 132 Copynumber: 2.0 Consensus size: 137
31969392 AAAAAGGAAC
31969402 TATATTCTTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGACCAAAATTAATTAATAT
1 TATATTCTTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGACCAAAATTAATTAATAT
*
31969467 AACTGTTTATATTAATAAATTCAG-AAA-A-ACAT-ATTAATATTTTGTATGAATCAAATTCATA
66 AACTATTTATATTAATAAATTCAGAAAATATACATAATTAATATTTTGTATGAATCAAATTCATA
31969528 TATTAAT
131 TATTAAT
* * *
31969535 TATATTCTTTTC-AAAGAATATTAATTTCTATGTCTTTTATATTTTGATCGAAATTAATTAATAT
1 TATATTCTTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGACCAAAATTAATTAATAT
* *
31969599 AACTATTTATATTATTAAATTCAGTAAAATATATATAATTAATATTTTGTATGAATCAAATTCAT
66 AACTATTTATATTAATAAATTCAG-AAAATATACATAATTAATATTTTGTATGAATCAAATTCAT
31969664 ATATTAAT
130 ATATTAAT
31969672 TATATT
1 TATATT
31969678 TATGTTCTCT
Statistics
Matches: 132, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
132 72 0.55
133 11 0.08
134 3 0.02
135 1 0.01
136 3 0.02
137 42 0.32
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.47
Consensus pattern (137 bp):
TATATTCTTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGACCAAAATTAATTAATAT
AACTATTTATATTAATAAATTCAGAAAATATACATAATTAATATTTTGTATGAATCAAATTCATA
TATTAAT
Found at i:31970390 original size:17 final size:18
Alignment explanation
Indices: 31970358--31970392 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
31970348 TCAAAAGTCA
31970358 GTTATTTAATTTTTAATT
1 GTTATTTAATTTTTAATT
*
31970376 GTTATTTTA-TTTTAATT
1 GTTATTTAATTTTTAATT
31970393 TTAGAAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
GTTATTTAATTTTTAATT
Found at i:31975931 original size:11 final size:11
Alignment explanation
Indices: 31975917--31976058 Score: 128
Period size: 11 Copynumber: 13.9 Consensus size: 11
31975907 ATTTTTTTAA
31975917 TTTTAAAATAT
1 TTTTAAAATAT
31975928 TTTTAAAATAT
1 TTTTAAAATAT
**
31975939 TTTTTTAAT-T
1 TTTTAAAATAT
*
31975949 TTTT----TAA
1 TTTTAAAATAT
31975956 TTTTAAAATAT
1 TTTTAAAATAT
31975967 TTTTAAAATACT
1 TTTTAAAATA-T
**
31975979 TTTTTTAAT-T
1 TTTTAAAATAT
* *
31975989 TTTT---TTAA
1 TTTTAAAATAT
31975997 TTTTAAAATAT
1 TTTTAAAATAT
31976008 TTTTAAAATAT
1 TTTTAAAATAT
31976019 TTTTAAAATAT
1 TTTTAAAATAT
31976030 TTTTAAAAT-T
1 TTTTAAAATAT
31976040 TTTT-AAA-AT
1 TTTTAAAATAT
31976049 TTTTAAAATA
1 TTTTAAAATA
31976059 AAAATGGGCC
Statistics
Matches: 108, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
6 1 0.01
7 5 0.05
8 4 0.04
9 8 0.07
10 18 0.17
11 64 0.59
12 8 0.07
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:31975952 original size:8 final size:9
Alignment explanation
Indices: 31975900--31975959 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 9
31975890 TTTTACATGA
31975900 TTTTTTAAT
1 TTTTTTAAT
31975909 TTTTTTAA-
1 TTTTTTAAT
**
31975917 TTTTAAAAT
1 TTTTTTAAT
*
31975926 ATTTTTAAAATAT
1 -TTTTT--TA-AT
31975939 TTTTTTAAT
1 TTTTTTAAT
31975948 TTTTTTAAT
1 TTTTTTAAT
31975957 TTT
1 TTT
31975960 AAAATATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 6 0.14
9 22 0.52
10 5 0.12
12 7 0.17
13 2 0.05
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:31975953 original size:41 final size:39
Alignment explanation
Indices: 31975867--31976058 Score: 244
Period size: 39 Copynumber: 4.8 Consensus size: 39
31975857 AAATATATTT
* * *
31975867 ATTTTTTAAAATTTTAAAATATTTTTTACATGA-TTTTTTA
1 ATTTTTT-TAATTTTAAAATATTTTTAAAAT-ATTTTTTTA
31975907 ATTTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTA
31975946 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATA-TTTTTTTA
**
31975986 ATTTTTTTTAATTTTAAAATATTTTTAAAATATTTTTAAA
1 A-TTTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTA
* *
31976026 ATATTTTTAAAATTTTTTAAA-ATTTTTAAAATA
1 AT-TTTTT-TAA-TTTTAAAATATTTTTAAAATA
31976059 AAAATGGGCC
Statistics
Matches: 139, Mismatches: 7, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
38 1 0.01
39 59 0.42
40 28 0.20
41 44 0.32
42 7 0.05
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (39 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTA
Found at i:31981490 original size:6 final size:6
Alignment explanation
Indices: 31981481--31981550 Score: 52
Period size: 6 Copynumber: 11.8 Consensus size: 6
31981471 AAAAAAAGAG
* * * * * *
31981481 CAAAAT CAAAAT CAAAAA CAAAA- AAAAAG AAAAAG AAAAAT CAAAAT
1 CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT
* * *
31981528 CAAAGT CAAAAT GAAAAT GAAAA
1 CAAAAT CAAAAT CAAAAT CAAAA
31981551 AAAGATAAGG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
5 4 0.07
6 52 0.93
ACGTcount: A:0.73, C:0.10, G:0.07, T:0.10
Consensus pattern (6 bp):
CAAAAT
Found at i:31982445 original size:7 final size:7
Alignment explanation
Indices: 31982428--31982483 Score: 71
Period size: 7 Copynumber: 8.0 Consensus size: 7
31982418 TTGAGTAAAA
31982428 AAAAGATG
1 AAAA-ATG
31982436 AAAAATG
1 AAAAATG
31982443 -AAAATG
1 AAAAATG
31982449 -AAAATG
1 AAAAATG
31982455 AAAAATG
1 AAAAATG
31982462 AAAAATG
1 AAAAATG
*
31982469 AAAAAAG
1 AAAAATG
31982476 TAAAAATG
1 -AAAAATG
31982484 GAGAGGCTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 12 0.27
7 22 0.50
8 10 0.23
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:31982448 original size:6 final size:6
Alignment explanation
Indices: 31982437--31982472 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
31982427 AAAAAGATGA
31982437 AAAATG AAAATG AAAATG AAAAATG AAAAATG AAAA
1 AAAATG AAAATG AAAATG -AAAATG -AAAATG AAAA
31982473 AAGTAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 16 0.55
7 13 0.45
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:31982449 original size:13 final size:13
Alignment explanation
Indices: 31982433--31982472 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
31982423 TAAAAAAAAG
31982433 ATGAAAAATGAAA
1 ATGAAAAATGAAA
31982446 ATG-AAAATGAAAA
1 ATGAAAAATG-AAA
31982459 ATGAAAAATGAAA
1 ATGAAAAATGAAA
31982472 A
1 A
31982473 AAGTAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.24
13 13 0.52
14 6 0.24
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:31983981 original size:128 final size:128
Alignment explanation
Indices: 31983753--31984136 Score: 567
Period size: 128 Copynumber: 3.0 Consensus size: 128
31983743 TTGAAGATTG
** *
31983753 CAAGTCCTA-ATTCCCTGACCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
1 CAAGTCCTATA-TCCCTGGTCAGCAGTGGAATAGGTTGAAAATTACAGATCTTGTCTCCCTAAGC
* *
31983817 AATAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAAAGAAGCAGATTTAAGCCA
65 AGTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
* *
31983881 CAAGTCCTATATCCCTGGTCAGTAGTGAAATAGGTTGAAAATTACAGATCTTGTCTCCCTAAGCA
1 CAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGAAAATTACAGATCTTGTCTCCCTAAGCA
*
31983946 GTAGCGAAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
66 GTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
* * * *
31984009 CAAATCCTATATCCCTGGTCAACAATGGAATAGGTT-AGAAATTACAGATCTTGTCTTCCTAAGC
1 CAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGA-AAATTACAGATCTTGTCTCCCTAAGC
* * * * *
31984073 AGTAGCGGAGCAGAT-TAAGGACGGCGAATCTTATCTTCAAGAGTAAGGAAACAGATTGAAGCCA
65 AGTAGCGGAGCAGATCGAA-GACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
31984137 ATATCCTATC
Statistics
Matches: 233, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
127 3 0.01
128 229 0.98
129 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (128 bp):
CAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGAAAATTACAGATCTTGTCTCCCTAAGCA
GTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCA
Found at i:31984208 original size:44 final size:44
Alignment explanation
Indices: 31984143--31984423 Score: 175
Period size: 44 Copynumber: 6.4 Consensus size: 44
31984133 GCCAATATCC
* * * * * *
31984143 TATCTTCCTGAAATTGTAGTAGAGCGGATTAAAGTAATGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAATGGATCT
* * ** * * *
31984187 TATCTCTCTGAAGTTGCAGTAGAGTGGATCGCA-TCA-GG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAATGGATCT
* * * *
31984228 TATCTCCTTGAGGTTGCAGTGGAGCAGACTG-AGTAA-GCAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAATG--GATCT
* *
31984272 TATC-CCCTTGAAGTTGCAGTGGGGCAGATCGAAG--ATGGCAAATCT
1 TATCTCCC-TGAAGTTGCAGTGGAGCAGATTGAAGTAATGG---ATCT
* * * *
31984317 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGTCGAT-AATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-AATGGATCT
* * * * *
31984361 TATCTCCCTGAAATTGTAGTGGAGCGGATTAAAGTAATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAATGGATCT
*
31984405 TATCTCTCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAG
31984424 CAGAGTAGAT
Statistics
Matches: 182, Mismatches: 40, Indels: 30
0.72 0.16 0.12
Matches are distributed among these distances:
40 1 0.01
41 29 0.16
42 3 0.02
43 8 0.04
44 104 0.57
45 32 0.18
46 3 0.02
48 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAATGGATCT
Found at i:31984333 original size:45 final size:44
Alignment explanation
Indices: 31984225--31984542 Score: 179
Period size: 44 Copynumber: 7.2 Consensus size: 44
31984215 TCGCATCAGG
* **
31984225 TCTTATCTCCTTGAGGTTGCAGTGGAGCAGA-CTG-AGTAAGCAGG
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATC-GAAGT-AGCAAA
* * *
31984269 TCTTATC-CCCTTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAA
1 TCTTATCTCCC-TGAGGTTGCAGTGGAGCAGATCGAAG-TAGCAAA
* *
31984314 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGTCG-ATAA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGTAGCA-AA
* ** * * ** ** *
31984358 TCCTATCTCCCTGAAATTGTAGTGGAGCGGATTAAAGTAATAGA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGTAGCAAA
* * ** * **
31984402 TCTTATCTCTCTGAAGTTGCAGCAGAGTAGATC-ACA-T--CAGG
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGA-AGTAGCAAA
* * * * *
31984443 TCTTATCTCCTTGAGGTTGCAGCGGAGCAGACCG-AGAAAGCAAG
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAG-TAGCAAA
* * * *
31984487 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGA-CTGAGAATAGCAAA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATC-GA-AGTAGCAAA
31984532 TCTTATCTCCC
1 TCTTATCTCCC
31984543 AGGCGGTGTA
Statistics
Matches: 211, Mismatches: 47, Indels: 31
0.73 0.16 0.11
Matches are distributed among these distances:
40 1 0.00
41 29 0.14
43 6 0.03
44 118 0.56
45 52 0.25
46 5 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGTAGCAAA
Found at i:31984517 original size:218 final size:217
Alignment explanation
Indices: 31984124--31984542 Score: 671
Period size: 218 Copynumber: 1.9 Consensus size: 217
31984114 AGTAAGGAAA
* *
31984124 CAGATTGAAGCCAATATCCTATCTTCCTGAAATTGTAGTAGAGCGGATTAAAGTAATGGATCTTA
1 CAGATTGAAGCCAATATCCTATCTCCCTGAAATTGTAGTAGAGCGGATTAAAGTAATAGATCTTA
* * * *
31984189 TCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATCTCCTTGAGGTTGCAGTGGAGCA
66 TCTCTCTGAAGTTGCAGCAGAGTAGATCACATCAGGTCTTATCTCCTTGAGGTTGCAGCGGAGCA
* * * * *
31984254 GACTGAGTAAGCAGGTCTTATCCCCTTGAAGTTGCAGTGGGGCAGA-TCGA-AGATGGCAAATCT
131 GACCGAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACT-GAGA-ATAGCAAATCT
31984317 TATCTCCCTGAGGTTGCAGTGGAG
194 TATCTCCCTGAGGTTGCAGTGGAG
* * *
31984341 CAGATTGAAGTCGATAATCCTATCTCCCTGAAATTGTAGTGGAGCGGATTAAAGTAATAGATCTT
1 CAGATTGAAGCCAAT-ATCCTATCTCCCTGAAATTGTAGTAGAGCGGATTAAAGTAATAGATCTT
31984406 ATCTCTCTGAAGTTGCAGCAGAGTAGATCACATCAGGTCTTATCTCCTTGAGGTTGCAGCGGAGC
65 ATCTCTCTGAAGTTGCAGCAGAGTAGATCACATCAGGTCTTATCTCCTTGAGGTTGCAGCGGAGC
31984471 AGACCGAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAGAATAGCAAATCTT
130 AGACCGAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAGAATAGCAAATCTT
31984536 ATCTCCC
195 ATCTCCC
31984543 AGGCGGTGTA
Statistics
Matches: 185, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
217 13 0.07
218 170 0.92
219 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (217 bp):
CAGATTGAAGCCAATATCCTATCTCCCTGAAATTGTAGTAGAGCGGATTAAAGTAATAGATCTTA
TCTCTCTGAAGTTGCAGCAGAGTAGATCACATCAGGTCTTATCTCCTTGAGGTTGCAGCGGAGCA
GACCGAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAGAATAGCAAATCTTA
TCTCCCTGAGGTTGCAGTGGAG
Found at i:31984625 original size:50 final size:50
Alignment explanation
Indices: 31984560--31984802 Score: 181
Period size: 50 Copynumber: 4.9 Consensus size: 50
31984550 GTAGTGGAAT
* * * *
31984560 AGATTAAAGCCACAACGGCGAATCTTGCTTTCCCGACATTGCAGTTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTTCCCGACATTGCAGTGAAAA
* * * * * * * ** * **
31984610 AGAGTAAAGCTACAACAGTGAATCTTA-TCTCCAGGCGGTGCAGTGGAGC
1 AGATTGAAGCTACAACGGCGAATCTTACTTTCCCGACATTGCAGTGAAAA
* * *
31984659 AGATTGAAGCTACAACGGCGAATCTTAC-TTCTCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTTC-CCGACATTGCAGTGAAAA
** * * *
31984709 AGATTGAAGCCGCAACGGCGAATCTTAC-TTCCCTGGCGA-TGCAGTGGAAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTTCCC-GAC-ATTGCAGTGAAAA
* * *
31984759 AGATTGAAGCTACAACGGTGAATCTT-GTTTTCCGACATTGCAGT
1 AGATTGAAGCTACAACGGCGAATCTTACTTTCCCGACATTGCAGT
31984803 CAATTTGAAA
Statistics
Matches: 145, Mismatches: 42, Indels: 13
0.73 0.21 0.06
Matches are distributed among these distances:
48 1 0.01
49 47 0.32
50 96 0.66
51 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTACTTTCCCGACATTGCAGTGAAAA
Found at i:31984732 original size:99 final size:100
Alignment explanation
Indices: 31984530--31984800 Score: 325
Period size: 99 Copynumber: 2.7 Consensus size: 100
31984520 GAGAATAGCA
* * * *
31984530 AATCTTATCTCCCAGGCGGTGTAGTGGAATAGATTAAAGCCACAACGGCGAATCTTGCTTTCCCG
1 AATCTTATCTCCCAGGCGGTGCAGTGGAATAGATTGAAGCTACAACGGCGAATCTTACTTTCCCG
* * *
31984595 ACATTGCAGTTAAAAAGAGTAAAGCTACAACAGTG
66 ACATTGCAATTAAAAAGAGTAAAGCCACAACAGCG
** *
31984630 AATCTTATCT-CCAGGCGGTGCAGTGGAGCAGATTGAAGCTACAACGGCGAATCTTAC-TTCTCT
1 AATCTTATCTCCCAGGCGGTGCAGTGGAATAGATTGAAGCTACAACGGCGAATCTTACTTTC-CC
* * * *
31984693 GACATTGCAATTAAAAAGATTGAAGCCGCAACGGCG
65 GACATTGCAATTAAAAAGAGTAAAGCCACAACAGCG
* * * * *
31984729 AATCTTA-CTTCCCTGGCGATGCAGTGGAATAGATTGAAGCTACAACGGTGAATCTT-GTTTTCC
1 AATCTTATC-TCCCAGGCGGTGCAGTGGAATAGATTGAAGCTACAACGGCGAATCTTACTTTCCC
31984792 GACATTGCA
65 GACATTGCA
31984801 GTCAATTTGA
Statistics
Matches: 145, Mismatches: 22, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
98 4 0.03
99 89 0.61
100 52 0.36
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (100 bp):
AATCTTATCTCCCAGGCGGTGCAGTGGAATAGATTGAAGCTACAACGGCGAATCTTACTTTCCCG
ACATTGCAATTAAAAAGAGTAAAGCCACAACAGCG
Found at i:31984979 original size:128 final size:127
Alignment explanation
Indices: 31984818--31985113 Score: 439
Period size: 128 Copynumber: 2.3 Consensus size: 127
31984808 TGAAAGAAAT
*
31984818 CAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAACCACAGATCTTATCTCCCTAAGTAG
1 CAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAACCACAGATCTTATCTCCCTAAGCAG
* * * * *
31984883 TAGTGGAGCAGATCGCATCAAGTCGTATCTCCCTAAGCACTAGTGGATCAGACAAAAAAAAAC
66 TAGTGAAACAAATCGCATCAAGTCGTATCTCCCTAAGCACTAGTGCAGCAGAC-AAAAAAAAC
* *
31984946 CAATCCTATCTCCCTGAAGTTCCAGTGGAGTGGATTAAAACCACAGATCTTATCTCCCTAAGCAT
1 CAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAACCACAGATCTTATCTCCCTAAGCAG
* * * *
31985011 TAGTGAAACAAATCGCATCAAGTCTTATCTCTCTAAGCAGTAGTGCAGCAGACAAAAGAAAC
66 TAGTGAAACAAATCGCATCAAGTCGTATCTCCCTAAGCACTAGTGCAGCAGACAAAAAAAAC
* * **
31985073 CAATCCTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAAC
1 CAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAAC
31985114 GATGAATCAT
Statistics
Matches: 152, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
127 45 0.30
128 107 0.70
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (127 bp):
CAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAACCACAGATCTTATCTCCCTAAGCAG
TAGTGAAACAAATCGCATCAAGTCGTATCTCCCTAAGCACTAGTGCAGCAGACAAAAAAAAC
Found at i:31985968 original size:22 final size:23
Alignment explanation
Indices: 31985934--31985982 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
31985924 TTTTCGGTTC
31985934 TTTT-TTTCATTTTATTTTTATT
1 TTTTATTTCATTTTATTTTTATT
*
31985956 TTTTATTTC-TTTTATTTTTGTT
1 TTTTATTTCATTTTATTTTTATT
31985978 TTTTA
1 TTTTA
31985983 CTAAATAACG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.82
Consensus pattern (23 bp):
TTTTATTTCATTTTATTTTTATT
Found at i:31986753 original size:19 final size:20
Alignment explanation
Indices: 31986735--31986770 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 20
31986725 ATTTAATACT
31986735 TTATTTA-ATAT-TATTTAC
1 TTATTTATATATATATTTAC
31986753 TTATTTATATATATATTT
1 TTATTTATATATATATTT
31986771 TTTAAATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.44
19 4 0.25
20 5 0.31
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
TTATTTATATATATATTTAC
Found at i:31988238 original size:18 final size:18
Alignment explanation
Indices: 31988215--31988269 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
31988205 GAGATGGCAA
31988215 AGATGAGAAATGAATATG
1 AGATGAGAAATGAATATG
*
31988233 AGATGATAAATGAAATATG
1 AGATGAGAAATG-AATATG
*
31988252 AAATGATGAAATG-ATATG
1 AGATGA-GAAATGAATATG
31988270 TGAATTTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 16 0.50
19 11 0.34
20 5 0.16
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.25
Consensus pattern (18 bp):
AGATGAGAAATGAATATG
Found at i:31988251 original size:19 final size:19
Alignment explanation
Indices: 31988215--31988265 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
31988205 GAGATGGCAA
*
31988215 AGATGAGAAATG-AATATG
1 AGATGATAAATGAAATATG
31988233 AGATGATAAATGAAATATG
1 AGATGATAAATGAAATATG
*
31988252 AAATGATGAAATGA
1 AGATGAT-AAATGA
31988266 TATGTGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.38
19 12 0.41
20 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (19 bp):
AGATGATAAATGAAATATG
Found at i:31989109 original size:17 final size:17
Alignment explanation
Indices: 31989087--31989119 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31989077 CACGGTCTAT
31989087 CACATGGCCGTGTGTCA
1 CACATGGCCGTGTGTCA
*
31989104 CACATGGGCGTGTGTC
1 CACATGGCCGTGTGTC
31989120 CTAAACGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.27, G:0.33, T:0.24
Consensus pattern (17 bp):
CACATGGCCGTGTGTCA
Found at i:31995034 original size:17 final size:15
Alignment explanation
Indices: 31995003--31995046 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
31994993 TTTTTCTTGG
31995003 AATA-ATTTTTATAT
1 AATATATTTTTATAT
31995017 AATATTATTTTTAGTAT
1 AATA-TATTTTTA-TAT
31995034 AATATATTTTTAT
1 AATATATTTTTAT
31995047 TTTAAAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 4 0.15
15 1 0.04
16 15 0.56
17 7 0.26
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (15 bp):
AATATATTTTTATAT
Found at i:31995799 original size:25 final size:27
Alignment explanation
Indices: 31995757--31995824 Score: 95
Period size: 26 Copynumber: 2.5 Consensus size: 27
31995747 AATAAACACT
*
31995757 AAAAATTTATTTTAAAA-ATAAAAAATA
1 AAAAATATATTTTAAAATA-AAAAAATA
31995784 AAAAA-ATATTTTAAAATAAAAAAATA
1 AAAAATATATTTTAAAATAAAAAAATA
31995810 AAAAATATATATTTA
1 AAAAATATAT-TTTA
31995825 TTATATATTC
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
26 23 0.62
27 10 0.27
28 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (27 bp):
AAAAATATATTTTAAAATAAAAAAATA
Done.