Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 219 of 343
Found at i:72214546 original size:66 final size:66
Alignment explanation
Indices: 72214439--72214562 Score: 185
Period size: 66 Copynumber: 1.9 Consensus size: 66
72214429 AAATTGAAAT
* * *
72214439 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGAC
1 TACCTCAGCATGTCCTGAGGCTCAACCCACCTCTCGCAATATGAGTTAATTTTTTTTTGAAAGAC
72214504 A
66 A
* ** *
72214505 TACCTCAGCATGTCTTGAGGCTCAACCCATTTCTCGTAATATGAGTTAATTTTTTTTT
1 TACCTCAGCATGTCCTGAGGCTCAACCCACCTCTCGCAATATGAGTTAATTTTTTTTT
72214563 TTGAAAAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 51 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (66 bp):
TACCTCAGCATGTCCTGAGGCTCAACCCACCTCTCGCAATATGAGTTAATTTTTTTTTGAAAGAC
A
Found at i:72214679 original size:72 final size:72
Alignment explanation
Indices: 72214504--72214715 Score: 264
Period size: 72 Copynumber: 2.8 Consensus size: 72
72214494 TTTGAAAGAC
* * *
72214504 ATACCTCAGCATGTCTTGAGGCTCAACCCATTTCTCGTAATATGAGTT-AATTTTTTTTTTTGAA
1 ATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-------TTTTG-A
*
72214568 AAATAGAAATTGAAA
58 AAATAAAAATTGAAA
* * *
72214583 ATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAA
1 ATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAATAAAA
72214648 ATTGAAA
66 ATTGAAA
* *
72214655 TTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAT
1 ATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAT
72214716 GGAAGTAACA
Statistics
Matches: 122, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
72 70 0.57
73 5 0.04
79 45 0.37
80 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (72 bp):
ATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAATAAAA
ATTGAAA
Found at i:72214710 original size:145 final size:141
Alignment explanation
Indices: 72214353--72214714 Score: 327
Period size: 145 Copynumber: 2.5 Consensus size: 141
72214343 TGAAAAACGG
* * *** * *
72214353 AAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTT
1 AAATTG-AAATACCTCAACGTGT--CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--AT
* * * *
72214418 TTTG-ACAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
61 TTTGAAAAATAGAAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATATG
******
72214482 AGTTGATTTTTTTTTG
126 AGTTGATTTTAAACAA
* * * * *
72214498 AAA--GACATACCTCAGCATGTCTTGAGGCTCAACCCATTTCTCGTAATATGAGTT-AATTTTTT
1 AAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA------
* **
72214560 TTTTTGAAAAATAGAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATA
60 -TTTTGAAAAATAGAAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATA
72214625 TGAGTTGAATTTTGAAAACAA
124 TGAGTTG-ATTTT--AAACAA
72214646 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
1 AAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
72214711 AAAA
65 AAAA
72214715 TGGAAGTAAC
Statistics
Matches: 172, Mismatches: 30, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
139 1 0.01
140 27 0.16
142 12 0.07
143 1 0.01
144 5 0.03
145 70 0.41
146 5 0.03
148 3 0.02
150 3 0.02
151 43 0.25
152 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (141 bp):
AAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
AAAATAGAAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTAAACAA
Found at i:72223282 original size:14 final size:14
Alignment explanation
Indices: 72223265--72223314 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
72223255 TTTTTGGTTT
*
72223265 TTTTTTTGCTGAAA
1 TTTTTTTGCTGGAA
**
72223279 TTTTTTTTTTGGAA
1 TTTTTTTGCTGGAA
72223293 TTTTTTTGGCTGGAA
1 TTTTTTT-GCTGGAA
72223308 TTTTTTT
1 TTTTTTT
72223315 TGCTCTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.14, C:0.04, G:0.16, T:0.66
Consensus pattern (14 bp):
TTTTTTTGCTGGAA
Found at i:72223282 original size:15 final size:15
Alignment explanation
Indices: 72223264--72223318 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
72223254 TTTTTTGGTT
*
72223264 TTTTTTTTGCTGAAA
1 TTTTTTTTGCTGGAA
*
72223279 TTTTTTTT-TTGGAA
1 TTTTTTTTGCTGGAA
*
72223293 TTTTTTTGGCTGGAA
1 TTTTTTTTGCTGGAA
72223308 TTTTTTTTGCT
1 TTTTTTTTGCT
72223319 CTTTTTTCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 11 0.32
15 23 0.68
ACGTcount: A:0.13, C:0.05, G:0.16, T:0.65
Consensus pattern (15 bp):
TTTTTTTTGCTGGAA
Found at i:72223284 original size:29 final size:29
Alignment explanation
Indices: 72223252--72223315 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
72223242 TGAATGTTCC
** *
72223252 TTTTTTTTGGTTTTTTTTTTGCTGAAATT
1 TTTTTTTTGGAATTTTTTTGGCTGAAATT
*
72223281 TTTTTTTTGGAATTTTTTTGGCTGGAATT
1 TTTTTTTTGGAATTTTTTTGGCTGAAATT
72223310 TTTTTT
1 TTTTTT
72223316 GCTCTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.11, C:0.03, G:0.16, T:0.70
Consensus pattern (29 bp):
TTTTTTTTGGAATTTTTTTGGCTGAAATT
Found at i:72223631 original size:30 final size:30
Alignment explanation
Indices: 72223560--72223631 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
72223550 ATTTAAGGTT
* *
72223560 AAAATGTAATTTAAGGAAAGTTTAGAGGCC
1 AAAATGAAATTTAAAGAAAGTTTAGAGGCC
* * * *
72223590 TAAGTGAAATTTAAAGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGAGGCC
*
72223620 AAAATGCAATTT
1 AAAATGAAATTT
72223632 TTTATTAAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.43, C:0.06, G:0.22, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGAGGCC
Found at i:72224775 original size:30 final size:30
Alignment explanation
Indices: 72224739--72224795 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
72224729 CCAATGTTAG
72224739 GGCCTAATTAGGGGTCGTTTGAGGGACGCA
1 GGCCTAATTAGGGGTCGTTTGAGGGACGCA
72224769 GGCCTAATTAGGGGTCGTTTGAGGGAC
1 GGCCTAATTAGGGGTCGTTTGAGGGAC
72224796 ACAAAAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.19, C:0.16, G:0.40, T:0.25
Consensus pattern (30 bp):
GGCCTAATTAGGGGTCGTTTGAGGGACGCA
Found at i:72225210 original size:5 final size:5
Alignment explanation
Indices: 72225200--72225245 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
72225190 ATAGGGGTAG
72225200 GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT G
72225246 TGATAAAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (5 bp):
GATAT
Found at i:72228129 original size:37 final size:37
Alignment explanation
Indices: 72228056--72228228 Score: 161
Period size: 37 Copynumber: 4.7 Consensus size: 37
72228046 ACCTTTAAAT
* * * **
72228056 ATTCCCTGCAAAGTAAAGA-TGAAGATAAACCGGAGTG
1 ATTCCCTGCAAAGAAAAGACAG-AGATGAACAAGAGTG
* *
72228093 ATTCCCTGCAAAGCAAAGACAGAGATTAACAAGAGTG
1 ATTCCCTGCAAAGAAAAGACAGAGATGAACAAGAGTG
** * * *
72228130 ATTCCCTATAAAGAAAAGATAGAGATGAATAAGAGAG
1 ATTCCCTGCAAAGAAAAGACAGAGATGAACAAGAGTG
* * * *
72228167 ATTCTCTACAAAGAAAAGACGGAGATGAACATGAGTG
1 ATTCCCTGCAAAGAAAAGACAGAGATGAACAAGAGTG
**
72228204 ATTCTTTGCAAAGAAAA-ACAGAGAT
1 ATTCCCTGCAAAGAAAAGACAGAGAT
72228229 AAATAGTAAA
Statistics
Matches: 113, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
36 7 0.06
37 105 0.93
38 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.19
Consensus pattern (37 bp):
ATTCCCTGCAAAGAAAAGACAGAGATGAACAAGAGTG
Found at i:72228274 original size:37 final size:36
Alignment explanation
Indices: 72228206--72228290 Score: 89
Period size: 37 Copynumber: 2.3 Consensus size: 36
72228196 CATGAGTGAT
* * *
72228206 TCTTTGCAAAGAAAAACAGAGATAAATAGTAAAAAA
1 TCTTTGCAAAAAAAAACAAAGATAAACAGTAAAAAA
* * * *
72228242 TCTTTGCAAATAAAAAATAAAGATGAACAGTAACAAT
1 TCTTTGCAAA-AAAAAACAAAGATAAACAGTAAAAAA
72228279 TCTTTGACAAAA
1 TCTTTG-CAAAA
72228291 TTCTCTCAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
36 10 0.25
37 26 0.65
38 4 0.10
ACGTcount: A:0.54, C:0.11, G:0.12, T:0.24
Consensus pattern (36 bp):
TCTTTGCAAAAAAAAACAAAGATAAACAGTAAAAAA
Found at i:72229628 original size:31 final size:31
Alignment explanation
Indices: 72229593--72229659 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
72229583 ATCGAATCTT
* * *
72229593 TTCAAGTATTAAAATAGATCTAATTTCTAAG
1 TTCAAGAATCAAAATAAATCTAATTTCTAAG
* *
72229624 TTCAAGAATCAAAATAAATCTAATTTTTAAT
1 TTCAAGAATCAAAATAAATCTAATTTCTAAG
72229655 TTCAA
1 TTCAA
72229660 AAATTAAAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (31 bp):
TTCAAGAATCAAAATAAATCTAATTTCTAAG
Found at i:72241138 original size:21 final size:21
Alignment explanation
Indices: 72241114--72241217 Score: 50
Period size: 21 Copynumber: 5.0 Consensus size: 21
72241104 TGAGTTTCAT
72241114 TTCAACCCTTATGGGTTTCTG
1 TTCAACCCTTATGGGTTTCTG
* * * * *
72241135 TTCAGCTC-TATTGAGCTTCTT
1 TTCAACCCTTA-TGGGTTTCTG
* * *
72241156 TTTAACCCTTATAGGTTTCCG
1 TTCAACCCTTATGGGTTTCTG
* *** *
72241177 TTTAGGTCTTATGAGCTTTC-G
1 TTCAACCCTTATG-GGTTTCTG
*
72241198 TTCAACCTTTATGGGTTTCT
1 TTCAACCCTTATGGGTTTCT
72241218 TTTTAGCACT
Statistics
Matches: 55, Mismatches: 24, Indels: 8
0.63 0.28 0.09
Matches are distributed among these distances:
20 7 0.13
21 41 0.75
22 7 0.13
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCAACCCTTATGGGTTTCTG
Found at i:72241192 original size:42 final size:41
Alignment explanation
Indices: 72241102--72241216 Score: 106
Period size: 42 Copynumber: 2.8 Consensus size: 41
72241092 TTTTAACTTA
* * *
72241102 TATGAGTTTCATTTCAACCCTTATGGGTTTCTGTTCAGCTC
1 TATGAGCTTCATTTCAACCCTTATAGGTTTCCGTTCAGCTC
* * * *
72241143 TATTGAGCTTCTTTTTAACCCTTATAGGTTTCCGTTTAGGTC
1 TA-TGAGCTTCATTTCAACCCTTATAGGTTTCCGTTCAGCTC
* * *
72241185 TTATGAGCTTTC-GTTCAACCTTTATGGGTTTC
1 -TATGAGC-TTCATTTCAACCCTTATAGGTTTC
72241217 TTTTTAGCAC
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
41 2 0.03
42 53 0.88
43 5 0.08
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (41 bp):
TATGAGCTTCATTTCAACCCTTATAGGTTTCCGTTCAGCTC
Found at i:72241223 original size:42 final size:42
Alignment explanation
Indices: 72241114--72241243 Score: 122
Period size: 42 Copynumber: 3.1 Consensus size: 42
72241104 TGAGTTTCAT
* *
72241114 TTCAACCCTTATGGGTTTCTGTTCAGCTCTATTGAGCTTCTT
1 TTCAACCCTTATGGGTTTCTGTTTAGCTCTATTGAGCTTCTG
* * * *
72241156 TTTAACCCTTATAGGTTTCCGTTTAGGTCT-TATGAGCTT-TCG
1 TTCAACCCTTATGGGTTTCTGTTTAGCTCTAT-TGAGCTTCT-G
* * * *
72241198 TTCAACCTTTATGGGTTTCTTTTTAGCACT-TATGTGCTTCTG
1 TTCAACCCTTATGGGTTTCTGTTTAGCTCTAT-TGAGCTTCTG
72241240 TTCA
1 TTCA
72241244 GCCTTCGGGC
Statistics
Matches: 71, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
41 2 0.03
42 68 0.96
43 1 0.01
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (42 bp):
TTCAACCCTTATGGGTTTCTGTTTAGCTCTATTGAGCTTCTG
Found at i:72250734 original size:14 final size:14
Alignment explanation
Indices: 72250712--72250745 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
72250702 TTGTCGTACC
72250712 ATATATTTTTATAT
1 ATATATTTTTATAT
* *
72250726 ATATCTTTTTATGT
1 ATATATTTTTATAT
72250740 ATATAT
1 ATATAT
72250746 AATTTTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (14 bp):
ATATATTTTTATAT
Found at i:72253190 original size:40 final size:40
Alignment explanation
Indices: 72253141--72253219 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
72253131 TTATAGTACC
* *
72253141 ACTTAGTGTGTAGAGCTGGACGGGTCGATTTTATCCCCAT
1 ACTTAGTGTGCAGAGCTGGACGGGTCGATTCTATCCCCAT
* * **
72253181 ACTTGGTGTGCAGGGCTGGGTGGGTCGATTCTATCCCCA
1 ACTTAGTGTGCAGAGCTGGACGGGTCGATTCTATCCCCA
72253220 CATGGTGTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.16, C:0.22, G:0.32, T:0.30
Consensus pattern (40 bp):
ACTTAGTGTGCAGAGCTGGACGGGTCGATTCTATCCCCAT
Found at i:72255134 original size:16 final size:15
Alignment explanation
Indices: 72255095--72255143 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
72255085 GATTTTTTTG
*
72255095 TTTATTTTTGTTTCGT
1 TTTATTTTTATTTC-T
72255111 TTTA-TTTTATCTTCT
1 TTTATTTTTAT-TTCT
72255126 TTTATTTTTTATTTCT
1 TTTA-TTTTTATTTCT
72255142 TT
1 TT
72255144 AACTTACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 10 0.34
16 13 0.45
17 6 0.21
ACGTcount: A:0.10, C:0.08, G:0.04, T:0.78
Consensus pattern (15 bp):
TTTATTTTTATTTCT
Found at i:72258687 original size:40 final size:38
Alignment explanation
Indices: 72258641--72258740 Score: 119
Period size: 40 Copynumber: 2.6 Consensus size: 38
72258631 TTTTACAGTA
72258641 CCACTTGGTGTGTAGGGTTAGATGGGTCAATTTTATCC
1 CCACTTGGTGTGTAGGGTTAGATGGGTCAATTTTATCC
* * * * *
72258679 CCATACTTGGTGTGTAAGGCTGGGTGGGTCGATTTTATCC
1 CC--ACTTGGTGTGTAGGGTTAGATGGGTCAATTTTATCC
* *
72258719 CCACATGGTGTGTTGGGTTAGA
1 CCACTTGGTGTGTAGGGTTAGA
72258741 CGGAGATGGT
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
38 16 0.33
40 33 0.67
ACGTcount: A:0.17, C:0.16, G:0.32, T:0.35
Consensus pattern (38 bp):
CCACTTGGTGTGTAGGGTTAGATGGGTCAATTTTATCC
Found at i:72260475 original size:36 final size:36
Alignment explanation
Indices: 72260428--72260496 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
72260418 TGTTCTTCAT
**
72260428 CTACTACTACTACTGTTGACTACTCATTTGCCTCTA
1 CTACTACTACTACCATTGACTACTCATTTGCCTCTA
72260464 CTACTACTACTACCATTGACTACTCATTTGCCT
1 CTACTACTACTACCATTGACTACTCATTTGCCT
72260497 TAGTCCTCCG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.23, C:0.32, G:0.07, T:0.38
Consensus pattern (36 bp):
CTACTACTACTACCATTGACTACTCATTTGCCTCTA
Found at i:72268908 original size:19 final size:19
Alignment explanation
Indices: 72268876--72268958 Score: 78
Period size: 19 Copynumber: 4.4 Consensus size: 19
72268866 GTGTACCATG
*
72268876 ATGCATTTTATGTG-TCAGT
1 ATGCACTTTATGTGCT-AGT
*
72268895 ATGCACTTTGTGTGCTAGT
1 ATGCACTTTATGTGCTAGT
* * * *
72268914 ATGTACTTTGTGTACTAGG
1 ATGCACTTTATGTGCTAGT
* *
72268933 ATGCTCTTTATGTGCCAGT
1 ATGCACTTTATGTGCTAGT
72268952 ATGCACT
1 ATGCACT
72268959 AATCTACCAA
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
19 50 0.98
20 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.42
Consensus pattern (19 bp):
ATGCACTTTATGTGCTAGT
Found at i:72274634 original size:36 final size:37
Alignment explanation
Indices: 72274587--72274661 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
72274577 ATATATTTTC
72274587 ATATATATACATATATG-AAAAAAAGTATTTTTAAAT
1 ATATATATACATATATGAAAAAAAAGTATTTTTAAAT
72274623 ATATATATACATATATGAAAAAAAAGTATTTTTAAAT
1 ATATATATACATATATGAAAAAAAAGTATTTTTAAAT
72274660 AT
1 AT
72274662 GGATAAATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 17 0.45
37 21 0.55
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (37 bp):
ATATATATACATATATGAAAAAAAAGTATTTTTAAAT
Found at i:72276626 original size:33 final size:33
Alignment explanation
Indices: 72276584--72276653 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
72276574 TATTAATGAG
*
72276584 TAATGTTAAGTTTAAATAATGATGATAATACAT
1 TAATGTTAAGTTTAAATAATGATGATAACACAT
** *
72276617 TAATGTTAAGTTTATGTAATGATGATGACACAT
1 TAATGTTAAGTTTAAATAATGATGATAACACAT
72276650 TAAT
1 TAAT
72276654 ATGATGACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.40
Consensus pattern (33 bp):
TAATGTTAAGTTTAAATAATGATGATAACACAT
Found at i:72276755 original size:2 final size:2
Alignment explanation
Indices: 72276748--72276772 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
72276738 GGTGTAGTTT
72276748 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
72276773 TGACCAGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:72278566 original size:217 final size:218
Alignment explanation
Indices: 72278182--72279633 Score: 1368
Period size: 217 Copynumber: 6.6 Consensus size: 218
72278172 AAGTATGTGC
* * * * * ** *
72278182 AAAAGTCAATGATTGTCGTATCACTTCAATATTCAATCACATGGAAACATGTATCACATTCATTA
1 AAAAGTTAATGATTGTCATATCGCTTCAATACTCAATCACATGAAAATGTGTATCACATTTATTA
* ** ** * * * *
72278247 ATGTAAAAGTCACAAATCCCTGAAAATCAAAACGCTTATTACTACACATGTTCCTAACATACGTT
66 ATGCAAAAGTTGCAAATCCCAAAAAATCAGAACGCTTATTACCACGCATGTTCCTAACATACGCT
** ** *
72278312 AATTATAAGTA-CAAGTTGACTTTCATTGTTGTCACTCATGTTCCCAACGTTATGACAG-TCACT
131 AATTATAAGTACCAA-TTGACTTTCAAGGTCATCACTCATGTTCCCAACGTTATGACTGCTCACT
*
72278375 AGCAAATCGACAATAAATATGAGG
195 AACAAATCGACAATAAATATGAGG
* * * *
72278399 AAAAGTTAATGATTGTTATATCGATTCAATACTCAATCACATGAAAATGTGCATTACATTTATTA
1 AAAAGTTAATGATTGTCATATCGCTTCAATACTCAATCACATGAAAATGTGTATCACATTTATTA
* *
72278464 ATGCAAAAGTTGCAAATCCCAAAAAATCAGAGCGCTTGTTACCACGCATGTTCCTAACATACGCT
66 ATGCAAAAGTTGCAAATCCCAAAAAATCAGAACGCTTATTACCACGCATGTTCCTAACATACGCT
* * *
72278529 AATTATAAGTACCAATTGACTTTCAAGGTCATCACTCATGTTCCCAACGTTTTGATTGTTCACTA
131 AATTATAAGTACCAATTGACTTTCAAGGTCATCACTCATGTTCCCAACGTTATGACTGCTCACTA
* **
72278594 ACAAATCGATAATAAATACAAGG
196 ACAAATCGACAATAAATATGAGG
* *
72278617 AAAAGTTAATGATTGTCATATCGCTTCAATAATCAAACATATCGCTTCAATAATCAATCACATGG
1 AAAAGTTAATGATTGTCATATCG---C--T--TC--A-ATA---C-TC---AATC-A-CA-T-GA
* * ** * *
72278682 AAACGTGTATCACATTTATTAATGCAAAAGTTGCAAAACCCGCAAAA-CCGAACCGTTTATTACC
45 AAATGTGTATCACATTTATTAATGCAAAAGTTGCAAATCCCAAAAAATCAGAA-CGCTTATTACC
* * * * * * *
72278746 ATG-AGTGTTCCCAACGTATGCTAATCATAAATACCAACTGACCTTTCAAGGTCATCA-TCATGT
109 ACGCA-TGTTCCTAACATACGCTAATTATAAGTACCAATTGA-CTTTCAAGGTCATCACTCATGT
* * * *
72278809 TCCCAA--TTATGGCTGCTCACTAACAGA-CTGACAATAAGTATGTA-C
172 TCCCAACGTTATGACTGCTCACTAACAAATC-GACAATAAATATG-AGG
* * * * *
72278854 AAAATTTAATGATTGTCGA-ATCGCTTCAATATTCAATCACATGGAAACGTGTATCACATTCATT
1 AAAAGTTAATGATTGTC-ATATCGCTTCAATACTCAATCACATGAAAATGTGTATCACATTTATT
** ** * ** * * * *
72278918 AATGTTAAAGTCACAACTCCCTGAAAATCAGAATGCTTATTACCATGCATGTTCCTAACATATGT
65 AATGCAAAAGTTGCAAATCCCAAAAAATCAGAACGCTTATTACCACGCATGTTCCTAACATACGC
* * * *
72278983 TAATTATAAGTACCAGTTGACTTTCAAGGTCACCACTTATGTTCCCAACGTTATGACTG-TTACT
130 TAATTATAAGTACCAATTGACTTTCAAGGTCATCACTCATGTTCCCAACGTTATGACTGCTCACT
* *
72279047 AGCAAATCGACAATAAATACGAGG
195 AACAAATCGACAATAAATATGAGG
* *
72279071 AAAAGTTAATGATTGTCATGTCGCTTCAATACTCAGTCACATGAAAATGTGTATCACATTTATTA
1 AAAAGTTAATGATTGTCATATCGCTTCAATACTCAATCACATGAAAATGTGTATCACATTTATTA
*** *
72279136 ATGCAAAA-TTCGCAAATCCTTGAAAATCAGAACGCTTATTACCACGCATGTTCCTAACATACGT
66 ATGCAAAAGTT-GCAAATCCCAAAAAATCAGAACGCTTATTACCACGCATGTTCCTAACATACGC
* ** * * *
72279200 TAATTATAAGTACCAAATGACTTTCAAGGTTGTCACTCATGTTCCTAACGTTCTGACTGTTCACT
130 TAATTATAAGTACCAATTGACTTTCAAGGTCATCACTCATGTTCCCAACGTTATGACTGCTCACT
*
72279265 AACAAATCAACAATAAATATGAGG
195 AACAAATCGACAATAAATATGAGG
* * * * * *
72279289 AAAAGTTAATGATTGTCACATTC-CTTTAATACTCAGTCACATGGAAACGTGTATCAGATTTATT
1 AAAAGTTAATGATTGTCATA-TCGCTTCAATACTCAATCACATGAAAATGTGTATCACATTTATT
* * * * * * * * *
72279353 AATGCAAAAGTTGCAAAACCTAAAAAATTACAACGCTTATTACTACACATGTTCCCAACCTATGC
65 AATGCAAAAGTTGCAAATCCCAAAAAATCAGAACGCTTATTACCACGCATGTTCCTAACATACGC
* * * * * *
72279418 TAATCATAAGCACCATTTGACCTTTCAAGGTCGTCACTCATGTTCCCAATGTTATGGCTGCTCAC
130 TAATTATAAGTACCAATTGA-CTTTCAAGGTCATCACTCATGTTCCCAACGTTATGACTGCTCAC
** *
72279483 TAACAACCCGACAATAAATATGTGG
194 TAACAAATCGACAATAAATATGAGG
* * * **
72279508 AAAAATTAATAATTGTCATATCGCTTCAATACTCAATCACATGGAAACATGTATCAC-TTTCATT
1 AAAAGTTAATGATTGTCATATCGCTTCAATACTCAATCACATGAAAATGTGTATCACATTT-ATT
** * * * * * *
72279572 AATGCAAAAGTCACAAAAACCC-AAAAATCAAAATGCTTATGACCACACATGTTTCTAACATA
65 AATGCAAAAGTTGC-AAATCCCAAAAAATCAGAACGCTTATTACCACGCATGTTCCTAACATA
72279634 TGTTGATCAT
Statistics
Matches: 1017, Mismatches: 173, Indels: 88
0.80 0.14 0.07
Matches are distributed among these distances:
215 14 0.01
216 95 0.09
217 338 0.33
218 213 0.21
219 158 0.16
220 10 0.01
223 3 0.00
225 2 0.00
227 4 0.00
228 4 0.00
230 2 0.00
231 1 0.00
232 3 0.00
234 1 0.00
235 4 0.00
236 2 0.00
237 47 0.05
238 6 0.01
239 95 0.09
240 15 0.01
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.30
Consensus pattern (218 bp):
AAAAGTTAATGATTGTCATATCGCTTCAATACTCAATCACATGAAAATGTGTATCACATTTATTA
ATGCAAAAGTTGCAAATCCCAAAAAATCAGAACGCTTATTACCACGCATGTTCCTAACATACGCT
AATTATAAGTACCAATTGACTTTCAAGGTCATCACTCATGTTCCCAACGTTATGACTGCTCACTA
ACAAATCGACAATAAATATGAGG
Found at i:72278657 original size:21 final size:21
Alignment explanation
Indices: 72278633--72278673 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
72278623 TAATGATTGT
72278633 CATATCGCTTCAATAATCAAA
1 CATATCGCTTCAATAATCAAA
72278654 CATATCGCTTCAATAATCAA
1 CATATCGCTTCAATAATCAA
72278674 TCACATGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.29
Consensus pattern (21 bp):
CATATCGCTTCAATAATCAAA
Found at i:72284342 original size:30 final size:29
Alignment explanation
Indices: 72284301--72284384 Score: 96
Period size: 33 Copynumber: 2.7 Consensus size: 29
72284291 AATGGAGGAT
* *
72284301 TTAATTAATTTTTAATTATTTTATAAGGTG
1 TTAATTGATTTTTAATTATTTTA-AAAGTG
72284331 TTAATTGATTTTTTAAAATTATTTTAAAAGTG
1 TTAATTGA-TTTTT--AATTATTTTAAAAGTG
*
72284363 TCTAAATGATTTTTAATTATTT
1 T-TAATTGATTTTTAATTATTT
72284385 AATCATAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
30 15 0.32
31 5 0.11
32 11 0.23
33 16 0.34
ACGTcount: A:0.35, C:0.01, G:0.08, T:0.56
Consensus pattern (29 bp):
TTAATTGATTTTTAATTATTTTAAAAGTG
Found at i:72289080 original size:28 final size:28
Alignment explanation
Indices: 72289048--72289107 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
72289038 AACCACATCA
72289048 TTTTGCCTCAATCCTAAAGATAATCTAC
1 TTTTGCCTCAATCCTAAAGATAATCTAC
72289076 TTTTGCCTCAATCCTAAAGATAATCTAC
1 TTTTGCCTCAATCCTAAAGATAATCTAC
72289104 TTTT
1 TTTT
72289108 AGAGCCCTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (28 bp):
TTTTGCCTCAATCCTAAAGATAATCTAC
Found at i:72289612 original size:6 final size:6
Alignment explanation
Indices: 72289601--72289652 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
72289591 AGATTATAAT
72289601 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
72289649 ATAA
1 ATAA
72289653 TGGATAATGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:72291175 original size:3 final size:3
Alignment explanation
Indices: 72291169--72291195 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
72291159 ATAAGAGTAT
72291169 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
72291196 TCTACAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:72291266 original size:28 final size:27
Alignment explanation
Indices: 72291233--72291298 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
72291223 CGCACAAAAT
*
72291233 ATATATATATATAAAG-TATTTACAACA
1 ATATATATATATAAAGATATGTACAA-A
* *
72291260 ATGATATA-AAATAATGATATGTACAAA
1 AT-ATATATATATAAAGATATGTACAAA
72291287 ATATATATATAT
1 ATATATATATAT
72291299 GCATATATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
26 5 0.16
27 14 0.44
28 13 0.41
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.36
Consensus pattern (27 bp):
ATATATATATATAAAGATATGTACAAA
Found at i:72291526 original size:24 final size:26
Alignment explanation
Indices: 72291481--72291549 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 26
72291471 GAAAACACAC
*
72291481 AATAATACTAATATTGAT-AATG-A-T
1 AATAATACTAATA-TAATAAATGTACT
72291505 AATAATACTAATATAATAAATGTACT
1 AATAATACTAATATAATAAATGTACT
* * *
72291531 AGTGATAATAATATAATAA
1 AATAATACTAATATAATAA
72291550 TGGTAGTATG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.08
24 17 0.45
25 1 0.03
26 17 0.45
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (26 bp):
AATAATACTAATATAATAAATGTACT
Found at i:72291564 original size:26 final size:27
Alignment explanation
Indices: 72291508--72291570 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
72291498 TAATGATAAT
*
72291508 AATACTAATATAATAAATGTACTAGTG
1 AATAATAATATAATAAATGTACTAGTG
*
72291535 -ATAATAATATAAT-AATGGTAGTA-TG
1 AATAATAATATAATAAAT-GTACTAGTG
72291560 AATAAT-ATATA
1 AATAATAATATA
72291571 CAAAAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 10 0.31
26 22 0.69
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.35
Consensus pattern (27 bp):
AATAATAATATAATAAATGTACTAGTG
Found at i:72291625 original size:22 final size:23
Alignment explanation
Indices: 72291600--72291646 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
72291590 ATGATATATG
* *
72291600 AATATATACAT-ATATGTATTAA
1 AATATATACATGATATATATAAA
72291622 AATATATACATGATATATATAAA
1 AATATATACATGATATATATAAA
72291645 AA
1 AA
72291647 ATACAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (23 bp):
AATATATACATGATATATATAAA
Found at i:72291893 original size:27 final size:26
Alignment explanation
Indices: 72291835--72291894 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
72291825 TACATAGTAT
* *
72291835 ATATACATATAATATAATTATTAAGA
1 ATATACATACAATATAAGTATTAAGA
*
72291861 AAATACATACAATATATAGTATTAAGA
1 ATATACATACAATATA-AGTATTAAGA
72291888 ATATACA
1 ATATACA
72291895 CAATACGTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 14 0.48
27 15 0.52
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (26 bp):
ATATACATACAATATAAGTATTAAGA
Found at i:72292161 original size:16 final size:16
Alignment explanation
Indices: 72292128--72292181 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
72292118 AATTATAGGC
72292128 ATAATA-AT-AAATATA
1 ATAATATATGAAA-ATA
72292143 ATAATATATGAAAATA
1 ATAATATATGAAAATA
* *
72292159 ATACTATATGTAAA-A
1 ATAATATATGAAAATA
72292174 AT-ATATAT
1 ATAATATAT
72292182 TGGTATTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 5 0.15
15 9 0.26
16 17 0.50
17 3 0.09
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (16 bp):
ATAATATATGAAAATA
Found at i:72292485 original size:12 final size:12
Alignment explanation
Indices: 72292462--72292508 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
72292452 AATAATACTA
72292462 AATA-TAAT-AT
1 AATAGTAATAAT
72292472 AATAGTAATAAT
1 AATAGTAATAAT
*
72292484 AATAGCAATAAT
1 AATAGTAATAAT
72292496 AA-ATGTAATAAT
1 AATA-GTAATAAT
72292508 A
1 A
72292509 TATAAAAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 4 0.12
11 5 0.16
12 23 0.72
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (12 bp):
AATAGTAATAAT
Found at i:72293243 original size:19 final size:18
Alignment explanation
Indices: 72293216--72293253 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
72293206 TTGTATTATA
*
72293216 TTTTTATATATTTATATG
1 TTTTTATATATATATATG
72293234 TTTTTGATATATATATATG
1 TTTTT-ATATATATATATG
72293253 T
1 T
72293254 GAAAAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (18 bp):
TTTTTATATATATATATG
Found at i:72293294 original size:23 final size:22
Alignment explanation
Indices: 72293257--72293299 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
72293247 TATATGTGAA
* *
72293257 AAAATGAAACCAAAACAGAATTT
1 AAAATGAAA-AAAAAAAGAATTT
72293280 AAAATGAAAAAAAAAAGAAT
1 AAAATGAAAAAAAAAAGAAT
72293300 AATCACCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.70, C:0.07, G:0.09, T:0.14
Consensus pattern (22 bp):
AAAATGAAAAAAAAAAGAATTT
Found at i:72293826 original size:16 final size:15
Alignment explanation
Indices: 72293805--72293834 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
72293795 GAGTTGGAAA
72293805 TATATATATGTATAAT
1 TATATATA-GTATAAT
72293821 TATATATAGTATAA
1 TATATATAGTATAA
72293835 ATATGAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
TATATATAGTATAAT
Found at i:72295235 original size:42 final size:42
Alignment explanation
Indices: 72295164--72295248 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
72295154 TTCACATGGT
*
72295164 CTGGCACACGACCGTGTGACCCAAATCAGTAAGTTACTCGGG
1 CTGGCACACGACCGTGTGACCCAAATCAGTAAGTTACGCGGG
* * * * *
72295206 CTGGGACACGACCGTGTGTCTCAAGTCAGTGAGTTACGCGGG
1 CTGGCACACGACCGTGTGACCCAAATCAGTAAGTTACGCGGG
72295248 C
1 C
72295249 AGAGACATGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.22, C:0.27, G:0.31, T:0.20
Consensus pattern (42 bp):
CTGGCACACGACCGTGTGACCCAAATCAGTAAGTTACGCGGG
Found at i:72305710 original size:23 final size:23
Alignment explanation
Indices: 72305679--72305725 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
72305669 GATATCATAA
72305679 GTTGAATTTATAATTTGATAAGG
1 GTTGAATTTATAATTTGATAAGG
*
72305702 GTTGTATTTATAATTTGATAAGG
1 GTTGAATTTATAATTTGATAAGG
72305725 G
1 G
72305726 GCCAAACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (23 bp):
GTTGAATTTATAATTTGATAAGG
Found at i:72309385 original size:40 final size:39
Alignment explanation
Indices: 72309341--72309434 Score: 95
Period size: 40 Copynumber: 2.4 Consensus size: 39
72309331 GGTACCTCTT
* *
72309341 GGTGTGTAGGGTTGGATGGGTTGATTTTATCCCCATAC-TA
1 GGTGTGTAGGGTTGGATGGGTCGATCTTAT-CCCA-ACATA
* *
72309381 GGTGTGTAAGGCTAGG-TGGGTCGATCTTATCCCAACATA
1 GGTGTGT-AGGGTTGGATGGGTCGATCTTATCCCAACATA
*
72309420 -GTGTGTTGGGTTGGA
1 GGTGTGTAGGGTTGGA
72309435 CGGAGATGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
37 5 0.11
38 8 0.18
39 6 0.14
40 19 0.43
41 6 0.14
ACGTcount: A:0.18, C:0.13, G:0.35, T:0.34
Consensus pattern (39 bp):
GGTGTGTAGGGTTGGATGGGTCGATCTTATCCCAACATA
Found at i:72311245 original size:30 final size:29
Alignment explanation
Indices: 72311209--72311266 Score: 107
Period size: 30 Copynumber: 2.0 Consensus size: 29
72311199 AACGAAAGTT
72311209 TTGGCACTAAGTGTGCGATTTAAACTAGCC
1 TTGGCACTAAGTGTGCGATTT-AACTAGCC
72311239 TTGGCACTAAGTGTGCGATTTAACTAGC
1 TTGGCACTAAGTGTGCGATTTAACTAGC
72311267 TCCGACTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (29 bp):
TTGGCACTAAGTGTGCGATTTAACTAGCC
Found at i:72320709 original size:40 final size:39
Alignment explanation
Indices: 72320662--72320808 Score: 170
Period size: 40 Copynumber: 3.6 Consensus size: 39
72320652 TTGATGACAA
*
72320662 TTCGGCTATGTATGGCACGTAGTGTACGATTCAAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTACGATT-AAGATAGC
* * *
72320702 TTTGGCTATGTGTGGCACTTAGTG-AGCGATTTGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTA-CGA-TTAAGATAGC
* *
72320742 TTCGGCTATGTATGGCACTTAGTGTGCGAGATTAAAATAGC
1 TTCGGCTATGTATGGCACTTAGTGTAC--GATTAAGATAGC
*
72320783 TTCGGCTATGAATTGGCACTTAGTGT
1 TTCGGCTATGTA-TGGCACTTAGTGT
72320809 GTGAGAATTC
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
39 1 0.01
40 54 0.59
41 21 0.23
42 15 0.16
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (39 bp):
TTCGGCTATGTATGGCACTTAGTGTACGATTAAGATAGC
Found at i:72323462 original size:12 final size:12
Alignment explanation
Indices: 72323445--72323477 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
72323435 TATATAAATG
*
72323445 AATTTAATTATC
1 AATTTAATCATC
72323457 AATTTAATCATC
1 AATTTAATCATC
72323469 AATTTAATC
1 AATTTAATC
72323478 CATTTCATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (12 bp):
AATTTAATCATC
Found at i:72329510 original size:13 final size:13
Alignment explanation
Indices: 72329492--72329518 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
72329482 AGATGTTAAC
72329492 TTTTTCGATAATT
1 TTTTTCGATAATT
72329505 TTTTTCGATAATT
1 TTTTTCGATAATT
72329518 T
1 T
72329519 AACAAATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (13 bp):
TTTTTCGATAATT
Found at i:72334365 original size:46 final size:46
Alignment explanation
Indices: 72334315--72334490 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
72334305 TGGTTGAGCA
72334315 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
72334361 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
72334406 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
72334454 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
72334491 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:72334471 original size:93 final size:93
Alignment explanation
Indices: 72334312--72334483 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
72334302 GGATGGTTGA
* *
72334312 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
72334377 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
72334405 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
72334470 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
72334484 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:72341925 original size:46 final size:46
Alignment explanation
Indices: 72341875--72342050 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
72341865 TGGTTGAGCA
72341875 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
72341921 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
72341966 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
72342014 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
72342051 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:72342031 original size:93 final size:93
Alignment explanation
Indices: 72341872--72342043 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
72341862 GGATGGTTGA
* *
72341872 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
72341937 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
72341965 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
72342030 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
72342044 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:72358499 original size:19 final size:19
Alignment explanation
Indices: 72358475--72358512 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
72358465 ATCCAAAAGA
72358475 ATGAATCGAATATCCCAAT
1 ATGAATCGAATATCCCAAT
72358494 ATGAATCGAATATCCCAAT
1 ATGAATCGAATATCCCAAT
72358513 CCACACCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (19 bp):
ATGAATCGAATATCCCAAT
Found at i:72363397 original size:27 final size:27
Alignment explanation
Indices: 72363366--72363423 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
72363356 ATAGGTAGCG
* * *
72363366 CCTATCTGGTAGGTGCCACTAGTAACT
1 CCTATCTGATACGCGCCACTAGTAACT
* *
72363393 CCTATCTGATACGCGCCACTGGTGACT
1 CCTATCTGATACGCGCCACTAGTAACT
72363420 CCTA
1 CCTA
72363424 CCTAATAGGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.28
Consensus pattern (27 bp):
CCTATCTGATACGCGCCACTAGTAACT
Found at i:72366699 original size:75 final size:76
Alignment explanation
Indices: 72366595--72366751 Score: 201
Period size: 78 Copynumber: 2.1 Consensus size: 76
72366585 TTACGTAAAT
* *
72366595 AATACAAAGTTTATTATCTAAATTAC-AAAAAACTCC-TAAAATTAATAACTGAAATAACAAAAA
1 AATACAAAGTTGACTATCTAAATTACAAAAAAAC-CCATAAAATTAATAACTGAAATAACAAAAA
72366658 AGTCATTACATA
65 AGTCATTACATA
* * * **
72366670 AATACAAAGTTGACTATTTAAATTGCAAAAAAAAACCCATAAAATTAATAACTTAAATGGCAAAA
1 AATACAAAGTTGACTATCTAAATT--ACAAAAAAACCCATAAAATTAATAACTGAAATAACAAAA
*
72366735 AAGTCATTATATA
64 AAGTCATTACATA
72366748 AATA
1 AATA
72366752 TGAAGTTATT
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
75 21 0.30
77 3 0.04
78 46 0.66
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (76 bp):
AATACAAAGTTGACTATCTAAATTACAAAAAAACCCATAAAATTAATAACTGAAATAACAAAAAA
GTCATTACATA
Found at i:72369059 original size:17 final size:16
Alignment explanation
Indices: 72369012--72369063 Score: 88
Period size: 16 Copynumber: 3.2 Consensus size: 16
72369002 AAATAAAAAT
72369012 AAAA-TTACATTATAA
1 AAAACTTACATTATAA
72369027 AAAACTTACATTATAA
1 AAAACTTACATTATAA
72369043 AAAACTTACATTAATAA
1 AAAACTTACATT-ATAA
72369060 AAAA
1 AAAA
72369064 TCACAAAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.11
16 23 0.66
17 8 0.23
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAACTTACATTATAA
Found at i:72369173 original size:103 final size:103
Alignment explanation
Indices: 72369052--72369400 Score: 375
Period size: 103 Copynumber: 3.3 Consensus size: 103
72369042 AAAAACTTAC
* *
72369052 ATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCATAAATTA
1 ATTACTAAAAAATCACAAAACACAAAACTAAACACTAACAATTTATATAACCTAATCATAAATTA
* * *
72369117 CTAACAAAAAAACTATAAAATTATTTTAAAAAGATTAA
66 CTAATAAAATAACTATAAAATTTTTTTAAAAAGATTAA
* * * *
72369155 ATTACTAAAAAATCACAAAACCCTAAACTAAACACACTAAC-A-GTCTATAACCTAATCATAAAT
1 ATTACTAAAAAATCACAAAACACAAAACT-AA-ACACTAACAATTTATATAACCTAATCATAAAT
* *
72369218 TACTAATAAAATAACTATAACATTTTTTTAAAAAGAATTTAC
64 TACTAATAAAATAACTATAAAATTTTTTTAAAAAG-A-TTAA
*
72369260 ATTACTAATAAGTCACAAAAT-ACAAAACACAAAACACAAAACACTAACAATTTATA-AA-CTAA
1 ATTAC---T-A---A-AAAATCACAAAACAC-AAA-ACTAAACACTAACAATTTATATAACCTAA
** *
72369322 TCATAAATTACTAATAAAATAACTATAAAAATATTTTTTAAAATATTTTAT
56 TCATAAATTACTAATAAAATAACTAT-AAAAT-TTTTTTAAAA-AGATTAA
72369373 ATTACTAAAAAATCACAAAACACAAAAC
1 ATTACTAAAAAATCACAAAACACAAAAC
72369401 ACTAACATAA
Statistics
Matches: 208, Mismatches: 18, Indels: 39
0.78 0.07 0.15
Matches are distributed among these distances:
103 77 0.37
104 6 0.03
105 24 0.12
106 10 0.05
108 1 0.00
109 2 0.01
110 1 0.00
112 47 0.23
113 24 0.12
114 15 0.07
115 1 0.00
ACGTcount: A:0.56, C:0.15, G:0.01, T:0.28
Consensus pattern (103 bp):
ATTACTAAAAAATCACAAAACACAAAACTAAACACTAACAATTTATATAACCTAATCATAAATTA
CTAATAAAATAACTATAAAATTTTTTTAAAAAGATTAA
Found at i:72369286 original size:7 final size:7
Alignment explanation
Indices: 72369273--72369303 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
72369263 ACTAATAAGT
72369273 CACAAAA
1 CACAAAA
*
72369280 TACAAAA
1 CACAAAA
72369287 CACAAAA
1 CACAAAA
72369294 CACAAAA
1 CACAAAA
72369301 CAC
1 CAC
72369304 TAACAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.68, C:0.29, G:0.00, T:0.03
Consensus pattern (7 bp):
CACAAAA
Found at i:72369304 original size:112 final size:113
Alignment explanation
Indices: 72369188--72369402 Score: 317
Period size: 112 Copynumber: 1.9 Consensus size: 113
72369178 TAAACTAAAC
* * *
72369188 ACACTAACAGTCTATAACCTAATCATAAATTACTAATAAAATAACTAT-AACAT-TTTTTTAAAA
1 ACACTAACAATCTATAAACTAATCATAAATTACTAATAAAATAACTATAAAAATATTTTTT-AAA
* * *
72369251 AGAATTTACATTACTAATAAGTCACAAAATACAAAACACAAAACACAAA
65 AGAATTTACATTACTAAAAAATCACAAAACACAAAACACAAAACACAAA
*
72369300 ACACTAACAATTTATAAACTAATCATAAATTACTAATAAAATAACTATAAAAATATTTTTTAAAA
1 ACACTAACAATCTATAAACTAATCATAAATTACTAATAAAATAACTATAAAAATATTTTTTAAAA
* * *
72369365 TATTTTATATTACTAAAAAATCACAAAACACAAAACAC
66 GAATTTACATTACTAAAAAATCACAAAACACAAAACAC
72369403 TAACATAAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
112 45 0.49
113 40 0.44
114 6 0.07
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.29
Consensus pattern (113 bp):
ACACTAACAATCTATAAACTAATCATAAATTACTAATAAAATAACTATAAAAATATTTTTTAAAA
GAATTTACATTACTAAAAAATCACAAAACACAAAACACAAAACACAAA
Found at i:72369431 original size:12 final size:12
Alignment explanation
Indices: 72369416--72369440 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
72369406 CATAAATTAC
72369416 TAACAAAATAAT
1 TAACAAAATAAT
72369428 TAACAAAATAAT
1 TAACAAAATAAT
72369440 T
1 T
72369441 TTACATTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (12 bp):
TAACAAAATAAT
Found at i:72369471 original size:7 final size:7
Alignment explanation
Indices: 72369453--72369488 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
72369443 ACATTAATAA
72369453 AAAATCAC
1 AAAA-CAC
*
72369461 AAAAAAC
1 AAAACAC
72369468 AAAACAC
1 AAAACAC
72369475 AAAACAC
1 AAAACAC
72369482 AAAACAC
1 AAAACAC
72369489 TAACAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 22 0.85
8 4 0.15
ACGTcount: A:0.72, C:0.25, G:0.00, T:0.03
Consensus pattern (7 bp):
AAAACAC
Found at i:72370337 original size:21 final size:21
Alignment explanation
Indices: 72370307--72370347 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
72370297 TAACAGAATT
72370307 GCTGACGTGGCAAGTTAACTA
1 GCTGACGTGGCAAGTTAACTA
*
72370328 GCTGATGTGGCAAGTTAACT
1 GCTGACGTGGCAAGTTAACT
72370348 TGTCACGTTG
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:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (21 bp):
GCTGACGTGGCAAGTTAACTA
Found at i:72370766 original size:14 final size:15
Alignment explanation
Indices: 72370747--72370775 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
72370737 CACCAAAAAC
72370747 CAGAGGAA-AAGAAG
1 CAGAGGAAGAAGAAG
72370761 CAGAGGAAGAAGAAG
1 CAGAGGAAGAAGAAG
72370776 ATGATGAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.07, G:0.38, T:0.00
Consensus pattern (15 bp):
CAGAGGAAGAAGAAG
Found at i:72371729 original size:20 final size:20
Alignment explanation
Indices: 72371706--72371746 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
72371696 TTTCTCTTAT
72371706 TCTTTTTCTCCTTCTCCTTC
1 TCTTTTTCTCCTTCTCCTTC
* *
72371726 TCTTTTTCTTCTTCTTCTTC
1 TCTTTTTCTCCTTCTCCTTC
72371746 T
1 T
72371747 TCTTCTTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (20 bp):
TCTTTTTCTCCTTCTCCTTC
Found at i:72371739 original size:3 final size:3
Alignment explanation
Indices: 72371700--72371789 Score: 103
Period size: 3 Copynumber: 30.7 Consensus size: 3
72371690 TTCCATTTTC
* * * * *
72371700 TCT TAT TCT TTT TCT CCT TCT CCT TC- TCT TTT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* *
72371747 TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT TC- TCC TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
72371790 CTCCTCCTCC
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
2 4 0.06
3 68 0.94
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:72371861 original size:19 final size:19
Alignment explanation
Indices: 72371817--72371859 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 19
72371807 CATCTTTATT
72371817 TTCTTCTTTGTTTCTTCTC
1 TTCTTCTTTGTTTCTTCTC
*
72371836 TTGTTC-TT-TTT-TTCTC
1 TTCTTCTTTGTTTCTTCTC
72371852 TTCTTCTT
1 TTCTTCTT
72371860 CTACTGCCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 10 0.48
17 4 0.19
18 2 0.10
19 5 0.24
ACGTcount: A:0.00, C:0.23, G:0.05, T:0.72
Consensus pattern (19 bp):
TTCTTCTTTGTTTCTTCTC
Found at i:72373674 original size:6 final size:6
Alignment explanation
Indices: 72373663--72373697 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
72373653 AAATGTTAAC
72373663 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
72373698 ATTAACCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:72382251 original size:27 final size:27
Alignment explanation
Indices: 72382198--72382251 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
72382188 TCGATTGGAT
* *
72382198 ATATTTAAGTATGGTATATATTAATAA
1 ATATTTAACTATGGTATATAGTAATAA
*
72382225 ATATTTAACTATTG-ATATAGTAGATAA
1 ATATTTAACTATGGTATATAGTA-ATAA
72382252 TTATGAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (27 bp):
ATATTTAACTATGGTATATAGTAATAA
Found at i:72385886 original size:3 final size:3
Alignment explanation
Indices: 72385878--72385922 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
72385868 TTTGATTCAC
72385878 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
72385923 TTTCTCCACC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:72387461 original size:41 final size:41
Alignment explanation
Indices: 72387375--72387463 Score: 106
Period size: 41 Copynumber: 2.2 Consensus size: 41
72387365 GCAATTTGAG
* * * ** * *
72387375 ATAGCTTTGGCTATATATGGCACTTAGTGTGTGAGACTGAG
1 ATAGCTTTGACTATAAAAGGCACTTAGTGTACGAGACTAAA
*
72387416 ATAGCTTTGACTATAAAAGGCACTTAGTGTACGAGATTAAA
1 ATAGCTTTGACTATAAAAGGCACTTAGTGTACGAGACTAAA
72387457 ATAGCTT
1 ATAGCTT
72387464 CAGCTATGCT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (41 bp):
ATAGCTTTGACTATAAAAGGCACTTAGTGTACGAGACTAAA
Found at i:72397412 original size:11 final size:10
Alignment explanation
Indices: 72397368--72397443 Score: 50
Period size: 11 Copynumber: 7.4 Consensus size: 10
72397358 CAAATATCTT
*
72397368 AAAAATTATTT
1 AAAAATTA-TA
72397379 AAAAATT-TA
1 AAAAATTATA
72397388 TAAAAA-TAT-
1 -AAAAATTATA
*
72397397 GAAAATTAGTA
1 AAAAATTA-TA
*
72397408 AAAAAATATA
1 AAAAATTATA
*
72397418 AATAATTATTA
1 AAAAATTA-TA
72397429 AAAAATTACTA
1 AAAAATTA-TA
72397440 AAAA
1 AAAA
72397444 TACATGTTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
8 4 0.08
9 4 0.08
10 15 0.29
11 28 0.55
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (10 bp):
AAAAATTATA
Found at i:72397434 original size:20 final size:20
Alignment explanation
Indices: 72397389--72397444 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
72397379 AAAAATTTAT
*
72397389 AAAAATATGAAAATTAGTAA
1 AAAAATATAAAAATTAGTAA
*
72397409 AAAAATATAAATAATTATTAA
1 AAAAATATAAA-AATTAGTAA
*
72397430 AAAATTACTAAAAAT
1 AAAAATA-TAAAAAT
72397445 ACATGTTTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.32
21 17 0.55
22 4 0.13
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (20 bp):
AAAAATATAAAAATTAGTAA
Found at i:72397559 original size:21 final size:21
Alignment explanation
Indices: 72397509--72397550 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
72397499 GTTTTTGAAT
*
72397509 ATTAT-AAAT-ATTATTTAAA
1 ATTATAAAATAATTATTAAAA
72397528 ATTATAAAATAATTATTAAAA
1 ATTATAAAATAATTATTAAAA
72397549 AT
1 AT
72397551 CTAATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 4 0.20
21 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTATAAAATAATTATTAAAA
Found at i:72400173 original size:128 final size:128
Alignment explanation
Indices: 72399945--72400200 Score: 503
Period size: 128 Copynumber: 2.0 Consensus size: 128
72399935 GTAGTAAATG
72399945 CATTTGTATCAGTAAACTTTTGGTTTACTTTAACATGCATTTCAATTGTACTAATAATGTCAATA
1 CATTTGTATCAGTAAACTTTTGGTTTACTTTAACATGCATTTCAATTGTACTAATAATGTCAATA
72400010 TAAATTGTGACAAATTGATAATCTTACTGTCATTCCTTTTACTTTGTATCCACATATAAGTAT
66 TAAATTGTGACAAATTGATAATCTTACTGTCATTCCTTTTACTTTGTATCCACATATAAGTAT
*
72400073 CATTTGTATCAGTAAACTTTTGGTTTACTTTAACATGCATTTCAATTGTACTAATAATGTCAATT
1 CATTTGTATCAGTAAACTTTTGGTTTACTTTAACATGCATTTCAATTGTACTAATAATGTCAATA
72400138 TAAATTGTGACAAATTGATAATCTTACTGTCATTCCTTTTACTTTGTATCCACATATAAGTAT
66 TAAATTGTGACAAATTGATAATCTTACTGTCATTCCTTTTACTTTGTATCCACATATAAGTAT
72400201 TATTGTGACA
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
128 127 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (128 bp):
CATTTGTATCAGTAAACTTTTGGTTTACTTTAACATGCATTTCAATTGTACTAATAATGTCAATA
TAAATTGTGACAAATTGATAATCTTACTGTCATTCCTTTTACTTTGTATCCACATATAAGTAT
Found at i:72402354 original size:25 final size:26
Alignment explanation
Indices: 72402313--72402368 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
72402303 GTGACAGTAC
* *
72402313 TTTTAAATTATACTTTTCAAT-ATTT
1 TTTTAAATTATAATTTTCAATAAATT
*
72402338 TTTTAAATT-TAAATTTTTAATAAATT
1 TTTTAAATTAT-AATTTTCAATAAATT
72402364 TTTTA
1 TTTTA
72402369 TATATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 17 0.65
26 8 0.31
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTTAAATTATAATTTTCAATAAATT
Found at i:72406533 original size:17 final size:17
Alignment explanation
Indices: 72406495--72406535 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
72406485 ATATATATTC
72406495 TAAAAA-AAATAAAAGT
1 TAAAAAGAAATAAAAGT
72406511 TCAAAAAGAATATAAAAG-
1 T-AAAAAGAA-ATAAAAGT
72406529 TAAAAAG
1 TAAAAAG
72406536 TAGTTAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.05
17 11 0.50
18 3 0.14
19 7 0.32
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (17 bp):
TAAAAAGAAATAAAAGT
Found at i:72406731 original size:23 final size:22
Alignment explanation
Indices: 72406705--72406747 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
72406695 GATTTACATA
72406705 TAATTTATGTTAATTTTTTAATT
1 TAATTTAT-TTAATTTTTTAATT
*
72406728 TAATTTATTTTATTTTTTAA
1 TAATTTATTTAATTTTTTAA
72406748 ATATTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TAATTTATTTAATTTTTTAATT
Found at i:72420449 original size:25 final size:25
Alignment explanation
Indices: 72420421--72420469 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
72420411 GAGCTTCCCG
*
72420421 ATTCACAGCTTGTGA-GAGCATACTA
1 ATTCACAGCTCGT-ATGAGCATACTA
*
72420446 ATTCATAGCTCGTATGAGCATACT
1 ATTCACAGCTCGTATGAGCATACT
72420470 TCAATATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (25 bp):
ATTCACAGCTCGTATGAGCATACTA
Found at i:72422164 original size:43 final size:42
Alignment explanation
Indices: 72422109--72422259 Score: 133
Period size: 43 Copynumber: 3.8 Consensus size: 42
72422099 ACTACTAAGA
*
72422109 TATGTTTACATGTAAGACCATGTTTGGGACATTAGAATTGTAT
1 TATGATTACATGTAAGACCATGTTTGGGACATTAG-ATTGTAT
72422152 TATGATTACATGTAAGACCA---TT-GG-C-----ATTGTAT
1 TATGATTACATGTAAGACCATGTTTGGGACATTAGATTGTAT
* * * * *
72422184 TGTGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTTT
1 TATGATTACATGTAAGACCATGTTTGGGACATTAG-ATTGTAT
* * *
72422227 TATGATTTCGTGTATGACCATGTTTGGGACATT
1 TATGATTACATGTAAGACCATGTTTGGGACATT
72422260 GGCAACGATA
Statistics
Matches: 87, Mismatches: 10, Indels: 22
0.73 0.08 0.18
Matches are distributed among these distances:
32 25 0.29
35 1 0.01
36 2 0.02
37 1 0.01
38 1 0.01
39 2 0.02
40 2 0.02
43 53 0.61
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (42 bp):
TATGATTACATGTAAGACCATGTTTGGGACATTAGATTGTAT
Found at i:72428850 original size:39 final size:40
Alignment explanation
Indices: 72428706--72428890 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
72428696 GCTACTCGTT
* *
72428706 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
72428746 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
72428786 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
72428826 C-AATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
72428866 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
72428891 CATCATTCAA
Statistics
Matches: 129, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
38 3 0.02
39 24 0.19
40 95 0.74
41 7 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:72436764 original size:27 final size:26
Alignment explanation
Indices: 72436734--72436958 Score: 246
Period size: 27 Copynumber: 8.6 Consensus size: 26
72436724 ATATTGAGTC
* * *
72436734 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAA-T
* *
72436761 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTC-AAT
72436788 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AA-T
** *
72436816 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAA-T
* *
72436843 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCA-AT
72436870 CGCACACTTAGTG---CATAGTC-AT
1 CGCACACTTAGTGCTACATAGTCAAT
72436892 CGCACACTTAGTGCTACATAGTCAAT
1 CGCACACTTAGTGCTACATAGTCAAT
72436918 CGCACACTTAGTGC-ACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTC-AAT
72436944 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
72436959 GTACAATTTA
Statistics
Matches: 173, Mismatches: 15, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
22 14 0.08
24 6 0.03
25 15 0.09
26 33 0.19
27 82 0.47
28 23 0.13
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (26 bp):
CGCACACTTAGTGCTACATAGTCAAT
Found at i:72436826 original size:55 final size:53
Alignment explanation
Indices: 72436734--72436958 Score: 273
Period size: 55 Copynumber: 4.3 Consensus size: 53
72436724 ATATTGAGTC
* * * * *
72436734 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC-ACATAGTCAAAT
* * *
72436788 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTG-CACATAGTCAAAT
* **
72436843 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTG--CATAGTC--AT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCACATAGTCAAAT
72436892 CGCACACTTAGTGCTACATAGTCAA-TCGCACACTTAGTGCACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCACATAGTCAAAT
72436944 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
72436959 GTACAATTTA
Statistics
Matches: 148, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
48 14 0.09
49 22 0.15
50 8 0.05
51 6 0.04
52 17 0.11
54 36 0.24
55 44 0.30
56 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (53 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCACATAGTCAAAT
Found at i:72436873 original size:82 final size:77
Alignment explanation
Indices: 72436734--72436958 Score: 251
Period size: 82 Copynumber: 2.9 Consensus size: 77
72436724 ATATTGAGTC
* * * * *
72436734 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGC-TACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCCACATAGTCAA-TCGCACACTTAGTGCAT-CATAATCAAATCGCACACTTA
72436798 GTGCTACATAGTCAAACT
64 GTGCT-CATAGTC--A-T
* * * **
72436816 CGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAG
1 CGCACACTTAGTGCCACATAGTCAA-TCGCACACTTAGTGCATCATAATCAAATCGCACACTTAG
72436881 TG--CATAGTCAT
65 TGCTCATAGTCAT
* *
72436892 CGCACACTTAGTGCTACATAGTCAATCGCACACTTAGTGCA-CATAGTCAAATCGCACACTTAGT
1 CGCACACTTAGTGCCACATAGTCAATCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGT
72436956 GCT
66 GCT
72436959 GTACAATTTA
Statistics
Matches: 123, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
74 21 0.17
75 16 0.13
76 23 0.19
77 1 0.01
79 7 0.06
82 54 0.44
83 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (77 bp):
CGCACACTTAGTGCCACATAGTCAATCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGT
GCTCATAGTCAT
Found at i:72442954 original size:26 final size:26
Alignment explanation
Indices: 72442918--72443027 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
72442908 CATAAAATTC
72442918 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
72442944 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
72442970 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
72442996 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
72443022 TTATCA
1 TTATCA
72443028 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:72448878 original size:14 final size:14
Alignment explanation
Indices: 72448859--72448886 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
72448849 CCAAAGAGAT
72448859 CATGAAAAATTTGG
1 CATGAAAAATTTGG
72448873 CATGAAAAATTTGG
1 CATGAAAAATTTGG
72448887 AGGATTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (14 bp):
CATGAAAAATTTGG
Found at i:72457715 original size:31 final size:30
Alignment explanation
Indices: 72457679--72457771 Score: 74
Period size: 31 Copynumber: 3.2 Consensus size: 30
72457669 TTTGCATGCA
72457679 TAAGGTTAATTCAGTAATTATTACCTATTGC
1 TAAGGTT-ATTCAGTAATTATTACCTATTGC
** *
72457710 TAAGG-T-TTCA-TGCTCATT--C-A-TGC
1 TAAGGTTATTCAGTAATTATTACCTATTGC
*
72457733 ATAAGGGTATTTCAGTAATTATTACCTATTGC
1 -TAAGGTTA-TTCAGTAATTATTACCTATTGC
72457765 TAAGGTT
1 TAAGGTT
72457772 TCATGCTCAT
Statistics
Matches: 46, Mismatches: 7, Indels: 18
0.65 0.10 0.25
Matches are distributed among these distances:
23 3 0.07
24 6 0.13
25 2 0.04
27 9 0.20
28 9 0.20
30 2 0.04
31 12 0.26
32 3 0.07
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (30 bp):
TAAGGTTATTCAGTAATTATTACCTATTGC
Found at i:72457719 original size:28 final size:28
Alignment explanation
Indices: 72457688--72457774 Score: 76
Period size: 28 Copynumber: 3.1 Consensus size: 28
72457678 ATAAGGTTAA
72457688 TTCAGTAATTATTACCTATTGCTAAGGT
1 TTCAGTAATTATTACCTATTGCTAAGGT
** *
72457716 TTCA-TGCTCATT--C-A-TGCATAAGGGTAT
1 TTCAGTAATTATTACCTATTGC-TAA-GG--T
72457743 TTCAGTAATTATTACCTATTGCTAAGGT
1 TTCAGTAATTATTACCTATTGCTAAGGT
72457771 TTCA
1 TTCA
72457775 TGCTCATTCT
Statistics
Matches: 44, Mismatches: 6, Indels: 18
0.65 0.09 0.26
Matches are distributed among these distances:
23 3 0.07
24 4 0.09
25 3 0.07
27 10 0.23
28 14 0.32
30 3 0.07
31 4 0.09
32 3 0.07
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (28 bp):
TTCAGTAATTATTACCTATTGCTAAGGT
Found at i:72457757 original size:55 final size:55
Alignment explanation
Indices: 72457673--72457783 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
72457663 TGTAATTTTG
*
72457673 CATGCATAAGGTTAATTCAGTAATTATTACCTATTGCTAAGGTTTCATGCTCATT
1 CATGCATAAGGGTAATTCAGTAATTATTACCTATTGCTAAGGTTTCATGCTCATT
*
72457728 CATGCATAAGGGTATTTCAGTAATTATTACCTATTGCTAAGGTTTCATGCTCATT
1 CATGCATAAGGGTAATTCAGTAATTATTACCTATTGCTAAGGTTTCATGCTCATT
72457783 C
1 C
72457784 TAACGTTTAC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (55 bp):
CATGCATAAGGGTAATTCAGTAATTATTACCTATTGCTAAGGTTTCATGCTCATT
Found at i:72462001 original size:26 final size:26
Alignment explanation
Indices: 72461972--72462024 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
72461962 GATCTCCAAA
72461972 GAAAACTTTTCCTTGAGTTTCTATAG
1 GAAAACTTTTCCTTGAGTTTCTATAG
72461998 GAAAACTTTTCCTTGAGTTTCTATAG
1 GAAAACTTTTCCTTGAGTTTCTATAG
72462024 G
1 G
72462025 CACATCTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (26 bp):
GAAAACTTTTCCTTGAGTTTCTATAG
Found at i:72467840 original size:6 final size:6
Alignment explanation
Indices: 72467829--72467908 Score: 117
Period size: 6 Copynumber: 13.3 Consensus size: 6
72467819 CTTTATAACT
72467829 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
***
72467877 AAAATA AAGCGA AAAATA AAAGAT- AAAATA AA
1 AAAATA AAAATA AAAATA AAA-ATA AAAATA AA
72467909 TGGACTCAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
5 2 0.03
6 62 0.94
7 2 0.03
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:72474774 original size:24 final size:25
Alignment explanation
Indices: 72474747--72474793 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
72474737 AATTCTAAAA
72474747 TCTAAGAAAAA-TAAAAAAATAAGT
1 TCTAAGAAAAATTAAAAAAATAAGT
* *
72474771 TCTAATAAAAATTAAAAACATAA
1 TCTAAGAAAAATTAAAAAAATAA
72474794 AATAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.23
Consensus pattern (25 bp):
TCTAAGAAAAATTAAAAAAATAAGT
Found at i:72495681 original size:22 final size:21
Alignment explanation
Indices: 72495640--72495690 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
72495630 CGAAAATCAT
*
72495640 AATTAG-ATTATATAATTAAA
1 AATTAGAATTATATAAATAAA
72495660 CAATTAGAATTA-ATTAAATAAA
1 -AATTAGAATTATA-TAAATAAA
72495682 ATATTAGAA
1 A-ATTAGAA
72495691 CATTTAGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (21 bp):
AATTAGAATTATATAAATAAA
Found at i:72497121 original size:22 final size:22
Alignment explanation
Indices: 72497095--72497143 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
72497085 CATGTGCATA
* *
72497095 CGAGCCCTGTTATATTTTCATG
1 CGAGCCCTATTATAATTTCATG
* *
72497117 CGAGCCCTATTGTAATTTGATG
1 CGAGCCCTATTATAATTTCATG
72497139 CGAGC
1 CGAGC
72497144 TCTGAGTAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (22 bp):
CGAGCCCTATTATAATTTCATG
Found at i:72498153 original size:17 final size:17
Alignment explanation
Indices: 72498133--72498216 Score: 69
Period size: 17 Copynumber: 4.9 Consensus size: 17
72498123 TTATGATAAA
72498133 GCATGAACTGTTATTTT
1 GCATGAACTGTTATTTT
* *
72498150 GCATGAATTGTTATTTG
1 GCATGAACTGTTATTTT
* * * *
72498167 GTATGAACTGATGTTTC
1 GCATGAACTGTTATTTT
** *
72498184 ATATGAACTATTATTTT
1 GCATGAACTGTTATTTT
* *
72498201 GCATGAGCTGTCATTT
1 GCATGAACTGTTATTT
72498217 GGTAAAAACT
Statistics
Matches: 50, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 50 1.00
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.45
Consensus pattern (17 bp):
GCATGAACTGTTATTTT
Found at i:72498190 original size:51 final size:51
Alignment explanation
Indices: 72498135--72498242 Score: 144
Period size: 51 Copynumber: 2.1 Consensus size: 51
72498125 ATGATAAAGC
* * * ** *
72498135 ATGAACTGTTATTTTGCATGAATTGTTATTTGGTATGAACTGATGTTTCAT
1 ATGAACTATTATTTTGCATGAACTGTCATTTGGTAAAAACTGATATTTCAT
* *
72498186 ATGAACTATTATTTTGCATGAGCTGTCATTTGGTAAAAACTGTTATTTCAT
1 ATGAACTATTATTTTGCATGAACTGTCATTTGGTAAAAACTGATATTTCAT
72498237 ATGAAC
1 ATGAAC
72498243 AGATGTTTGG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.44
Consensus pattern (51 bp):
ATGAACTATTATTTTGCATGAACTGTCATTTGGTAAAAACTGATATTTCAT
Found at i:72509925 original size:28 final size:28
Alignment explanation
Indices: 72509885--72509985 Score: 125
Period size: 28 Copynumber: 3.6 Consensus size: 28
72509875 AAAAATTTTC
*
72509885 TCGCACACTTAGTGCTCAATAACTGATT
1 TCGCACACTTAGTGCTCAATAACCGATT
* *
72509913 TCGCACACTTAGTGCTCGGAA-ATCCAATT
1 TCGCACACTTAGTGCTC--AATAACCGATT
*
72509942 T-GCACACTTAGTGCTCAATGACCGATT
1 TCGCACACTTAGTGCTCAATAACCGATT
*
72509969 TTGCACACTTAGTGCTC
1 TCGCACACTTAGTGCTC
72509986 GGTATCAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 2 0.03
27 6 0.10
28 47 0.75
29 6 0.10
30 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (28 bp):
TCGCACACTTAGTGCTCAATAACCGATT
Found at i:72509969 original size:56 final size:55
Alignment explanation
Indices: 72509887--72510010 Score: 176
Period size: 56 Copynumber: 2.2 Consensus size: 55
72509877 AAATTTTCTC
* *
72509887 GCACACTTAGTGCTCAATAACTGATTTCGCACACTTAGTGCTCGGAAATCCAATTT
1 GCACACTTAGTGCTCAATAACCGATTTCGCACACTTAGTGCTCGG-AATCAAATTT
* * *
72509943 GCACACTTAGTGCTCAATGACCGATTTTGCACACTTAGTGCTCGGTATCAAATTT
1 GCACACTTAGTGCTCAATAACCGATTTCGCACACTTAGTGCTCGGAATCAAATTT
**
72509998 GCACGTTTAGTGC
1 GCACACTTAGTGC
72510011 ATCTCTCAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
55 19 0.31
56 42 0.69
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (55 bp):
GCACACTTAGTGCTCAATAACCGATTTCGCACACTTAGTGCTCGGAATCAAATTT
Found at i:72509997 original size:28 final size:27
Alignment explanation
Indices: 72509887--72510010 Score: 108
Period size: 28 Copynumber: 4.5 Consensus size: 27
72509877 AAATTTTCTC
* **
72509887 GCACACTTAGTGCTCAATAACTGATTT
1 GCACACTTAGTGCTCAATATCCAATTT
72509914 CGCACACTTAGTGCTCGGAA-ATCCAATTT
1 -GCACACTTAGTGCTC--AATATCCAATTT
*
72509943 GCACACTTAGTGCTCAATGA-CCGATTTT
1 GCACACTTAGTGCTCAAT-ATCC-AATTT
** *
72509971 GCACACTTAGTGCTCGGTATCAAATTT
1 GCACACTTAGTGCTCAATATCCAATTT
**
72509998 GCACGTTTAGTGC
1 GCACACTTAGTGC
72510011 ATCTCTCAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 13
0.78 0.10 0.13
Matches are distributed among these distances:
26 2 0.03
27 18 0.22
28 52 0.65
29 6 0.08
30 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (27 bp):
GCACACTTAGTGCTCAATATCCAATTT
Found at i:72517224 original size:28 final size:26
Alignment explanation
Indices: 72517184--72517307 Score: 131
Period size: 28 Copynumber: 4.5 Consensus size: 26
72517174 AATTTTCTCT
72517184 CACACTTAGTGCTCAATAACCGATTTCG
1 CACACTTAGTGCTCAA-AACCGATTT-G
* *
72517212 CACACTTCGTGCTCGGAAATCCGATTTG
1 CACACTTAGTGCTC--AAAACCGATTTG
* * * *
72517240 CACACTTAATGCTTAAAACCAACTTG
1 CACACTTAGTGCTCAAAACCGATTTG
*
72517266 CACACTTAGTGCTCAATGACCGATTTCG
1 CACACTTAGTGCTCAA-AACCGATTT-G
72517294 CACACTTAGTGCTC
1 CACACTTAGTGCTC
72517308 GGTATCAAAT
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
26 23 0.29
27 6 0.08
28 40 0.51
29 8 0.10
30 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.28
Consensus pattern (26 bp):
CACACTTAGTGCTCAAAACCGATTTG
Found at i:72518761 original size:19 final size:18
Alignment explanation
Indices: 72518733--72518770 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
72518723 TGTTTAATTC
72518733 TAATAATAATATAATCATA
1 TAATAATAATATAAT-ATA
*
72518752 TAATATTAATATAATATA
1 TAATAATAATATAATATA
72518770 T
1 T
72518771 TTACTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAATAATATAATATA
Found at i:72526092 original size:22 final size:22
Alignment explanation
Indices: 72526067--72526112 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
72526057 TAAAACCCTA
*
72526067 TTTTTCCTTTCTTTTCTT-TCCC
1 TTTTT-CTTTCTTTCCTTCTCCC
72526089 TTTTTCTTTCTTTCCTTCTCCC
1 TTTTTCTTTCTTTCCTTCTCCC
72526111 TT
1 TT
72526113 GTTTTTCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTTCTTTCTTTCCTTCTCCC
Found at i:72526119 original size:21 final size:21
Alignment explanation
Indices: 72526073--72526119 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
72526063 CCTATTTTTC
* *
72526073 CTTTCTTTTCTTTCCCTTTTT
1 CTTTCTTTCCTTTCCCTTGTT
72526094 CTTTCTTTCCTTCTCCCTTGTT
1 CTTTCTTTCCTT-TCCCTTGTT
72526116 -TTTC
1 CTTTC
72526120 GTTTGGCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.00, C:0.32, G:0.02, T:0.66
Consensus pattern (21 bp):
CTTTCTTTCCTTTCCCTTGTT
Found at i:72552664 original size:14 final size:15
Alignment explanation
Indices: 72552635--72552668 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
72552625 AGGAGAGAAT
*
72552635 GATGAATGAGTGAGG
1 GATGAAGGAGTGAGG
72552650 GATGAAGGA-TGAGG
1 GATGAAGGAGTGAGG
72552664 GATGA
1 GATGA
72552669 TTAGAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.47, T:0.18
Consensus pattern (15 bp):
GATGAAGGAGTGAGG
Found at i:72555731 original size:6 final size:6
Alignment explanation
Indices: 72555720--72555745 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
72555710 GTGGTGCAAA
72555720 CTGATG CTGATG CTGATG CTGATG CT
1 CTGATG CTGATG CTGATG CTGATG CT
72555746 TCTGTGAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.19, G:0.31, T:0.35
Consensus pattern (6 bp):
CTGATG
Found at i:72556573 original size:16 final size:16
Alignment explanation
Indices: 72556552--72556582 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
72556542 ACAACCACCG
72556552 ACCTCACATCCATACA
1 ACCTCACATCCATACA
72556568 ACCTCACATCCATAC
1 ACCTCACATCCATAC
72556583 TAATGGTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (16 bp):
ACCTCACATCCATACA
Found at i:72557655 original size:17 final size:16
Alignment explanation
Indices: 72557617--72557648 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
72557607 GATCTAAAGA
72557617 ATAAAAGAAAAGAAAC
1 ATAAAAGAAAAGAAAC
72557633 ATAAAAGTAAAAGAAA
1 ATAAAAG-AAAAGAAA
72557649 ATGAAAACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.75, C:0.03, G:0.12, T:0.09
Consensus pattern (16 bp):
ATAAAAGAAAAGAAAC
Found at i:72567680 original size:46 final size:46
Alignment explanation
Indices: 72567630--72567805 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
72567620 TGGTTGAGCA
72567630 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
72567676 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
72567721 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
72567769 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
72567806 GCGCGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:72567786 original size:93 final size:93
Alignment explanation
Indices: 72567627--72567798 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
72567617 GGATGGTTGA
* * *
72567627 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
72567692 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
72567720 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
72567785 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
72567799 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:72575052 original size:46 final size:46
Alignment explanation
Indices: 72575002--72575175 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
72574992 TGGTTGAGCA
72575002 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
72575048 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
72575093 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
72575141 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
72575176 AGGCGGGTTA
Statistics
Matches: 109, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:72575158 original size:93 final size:93
Alignment explanation
Indices: 72574999--72575170 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
72574989 GGATGGTTGA
* *
72574999 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
72575064 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
72575092 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
72575157 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
72575171 CTTATAGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:72580966 original size:23 final size:23
Alignment explanation
Indices: 72580936--72580995 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
72580926 GTTTAAACCT
*
72580936 CACACGCCCATGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
72580959 CACACGCCCGTGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
72580982 CACACGCCCGTGTG
1 CACACGCCCGTGTG
72580996 CATTGGGACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.22, C:0.33, G:0.32, T:0.13
Consensus pattern (23 bp):
CACACGCCCGTGTGGAGGCAATG
Found at i:72582547 original size:43 final size:43
Alignment explanation
Indices: 72582483--72582564 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
72582473 CATGAATCGT
* *
72582483 ATCCATTATGAACTCGAACCTCTCAATGAGCTCGGATGCTTGC
1 ATCCATAATGAACTCGAACCTCTCAACGAGCTCGGATGCTTGC
* *
72582526 ATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATGC
1 ATCCATAATGAACTCGAACCTCTCAACGAGCTCGGATGC
72582565 CACATATCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (43 bp):
ATCCATAATGAACTCGAACCTCTCAACGAGCTCGGATGCTTGC
Found at i:72590058 original size:15 final size:15
Alignment explanation
Indices: 72590017--72590062 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
72590007 AATTATGCCC
*
72590017 AAATGAAGAAAA-AC
1 AAATGAAGAAAAGAA
72590031 AAA--AAGAAAAAGAA
1 AAATGAAG-AAAAGAA
72590045 AAATGAAGAAAAGAA
1 AAATGAAGAAAAGAA
72590060 AAA
1 AAA
72590063 AAATGGCAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
12 3 0.11
13 4 0.15
14 7 0.26
15 10 0.37
16 3 0.11
ACGTcount: A:0.78, C:0.02, G:0.15, T:0.04
Consensus pattern (15 bp):
AAATGAAGAAAAGAA
Found at i:72593524 original size:17 final size:19
Alignment explanation
Indices: 72593497--72593534 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
72593487 AGACTGATTT
72593497 GGGCTATGTGGG-CCACAC
1 GGGCTATGTGGGCCCACAC
72593515 GGGC-ATGTGGGCCCACAC
1 GGGCTATGTGGGCCCACAC
72593533 GG
1 GG
72593535 ATAATTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.16, C:0.29, G:0.42, T:0.13
Consensus pattern (19 bp):
GGGCTATGTGGGCCCACAC
Found at i:72598076 original size:17 final size:16
Alignment explanation
Indices: 72598050--72598099 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
72598040 ATTAGAATTG
72598050 AATTGAGAAAATTATTT
1 AATTGAG-AAATTATTT
* *
72598067 AATTGGGAAATTGTTT
1 AATTGAGAAATTATTT
72598083 AATT-A-AAATTAATTT
1 AATTGAGAAATT-ATTT
72598098 AA
1 AA
72598100 GATGTTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 5 0.18
15 5 0.18
16 12 0.43
17 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (16 bp):
AATTGAGAAATTATTT
Found at i:72600243 original size:20 final size:21
Alignment explanation
Indices: 72600215--72600265 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
72600205 ATAAAATTTA
72600215 ATTAGAATATATAAAT-TATACT
1 ATTA-AATATATAAATATA-ACT
*
72600237 -TTAAATATTTAAATATAACT
1 ATTAAATATATAAATATAACT
72600257 ATTAAATAT
1 ATTAAATAT
72600266 TTATAATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTAAATATATAAATATAACT
Found at i:72600263 original size:21 final size:21
Alignment explanation
Indices: 72600215--72600282 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
72600205 ATAAAATTTA
*
72600215 ATTAGAATATATAAATTATACT
1 ATTA-AATATTTAAATTATACT
72600237 -TTAAATATTTAAA-TATAACT
1 ATTAAATATTTAAATTAT-ACT
*
72600257 ATTAAATATTTATAATTAGA-T
1 ATTAAATATTTA-AATTATACT
72600278 ATTAA
1 ATTAA
72600283 CACATTTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 3 0.08
20 12 0.30
21 20 0.50
22 3 0.08
23 2 0.05
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (21 bp):
ATTAAATATTTAAATTATACT
Found at i:72600324 original size:20 final size:20
Alignment explanation
Indices: 72600287--72600324 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
72600277 TATTAACACA
*
72600287 TTTTTATTATTTTAATTTTT
1 TTTTTATTATTTAAATTTTT
72600307 TTTTTATT-TTTAAGATTT
1 TTTTTATTATTTAA-ATTT
72600325 AAAGTTTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTTATTATTTAAATTTTT
Found at i:72601535 original size:18 final size:18
Alignment explanation
Indices: 72601512--72601548 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
72601502 GATTTTATTG
72601512 ATGCATTAGTAATCGGAT
1 ATGCATTAGTAATCGGAT
72601530 ATGCATTAGTAATCGGAT
1 ATGCATTAGTAATCGGAT
72601548 A
1 A
72601549 CCCTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (18 bp):
ATGCATTAGTAATCGGAT
Found at i:72601958 original size:20 final size:19
Alignment explanation
Indices: 72601933--72601979 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
72601923 CAGTAAAATG
72601933 TTTTCTGGAAAATGATTTAC
1 TTTTCTGG-AAATGATTTAC
*
72601953 TTTTCTAGAAATGATTTAC
1 TTTTCTGGAAATGATTTAC
72601972 TTTTCTGG
1 TTTTCTGG
72601980 TATTTGAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.49
Consensus pattern (19 bp):
TTTTCTGGAAATGATTTAC
Found at i:72602106 original size:14 final size:14
Alignment explanation
Indices: 72602061--72602106 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
72602051 TGTTTTTACA
*
72602061 TATATTAATAAACT
1 TATATTAATAAATT
* *
72602075 TATA-T-ATATATA
1 TATATTAATAAATT
72602087 TATATTAATAAATT
1 TATATTAATAAATT
72602101 TATATT
1 TATATT
72602107 TTAAATTGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
12 8 0.32
13 2 0.08
14 15 0.60
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (14 bp):
TATATTAATAAATT
Done.