Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
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: 8646418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 36 of 43
Found at i:7270475 original size:2 final size:2
Alignment explanation
Indices: 7270468--7270494 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7270458 TTGGATCCTA
7270468 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
7270495 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:7270499 original size:2 final size:2
Alignment explanation
Indices: 7270494--7270551 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
7270484 ACACACACAC
7270494 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7270536 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
7270552 CATAAAATAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7272477 original size:24 final size:24
Alignment explanation
Indices: 7272423--7272477 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
7272413 CCACAACTCG
*
7272423 TATAAATTGCACCGAAGTGCCGCA
1 TATAAATTGCACCGAAGTGCCACA
* **
7272447 TAGAAATTGCACCGAAGTGCCATT
1 TATAAATTGCACCGAAGTGCCACA
7272471 TATAAAT
1 TATAAAT
7272478 GTCCCTAAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (24 bp):
TATAAATTGCACCGAAGTGCCACA
Found at i:7272526 original size:23 final size:23
Alignment explanation
Indices: 7272474--7272557 Score: 69
Period size: 23 Copynumber: 3.7 Consensus size: 23
7272464 TGCCATTTAT
* * *
7272474 AAATGTCCCTAAGGATCACATAG
1 AAATGTCCCAAAGGACCACGTAG
* * * *
7272497 TATTGTCCTAAAGGACCGCGTAG
1 AAATGTCCCAAAGGACCACGTAG
* *
7272520 AAATGTCCCGAAGGACCATGTAG
1 AAATGTCCCAAAGGACCACGTAG
* *
7272543 AATTGTCCCAGAGGA
1 AAATGTCCCAAAGGA
7272558 TCGTGTAGAA
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (23 bp):
AAATGTCCCAAAGGACCACGTAG
Found at i:7272564 original size:23 final size:23
Alignment explanation
Indices: 7272498--7272567 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
7272488 ATCACATAGT
* * *
7272498 ATTGTCCTAAAGGACCGCGTAGA
1 ATTGTCCCAGAGGACCGTGTAGA
* *
7272521 AATGTCCC-GAAGGACCATGTAGA
1 ATTGTCCCAG-AGGACCGTGTAGA
*
7272544 ATTGTCCCAGAGGATCGTGTAGA
1 ATTGTCCCAGAGGACCGTGTAGA
7272567 A
1 A
7272568 CCCTCAACTC
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
23 36 0.97
24 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.21
Consensus pattern (23 bp):
ATTGTCCCAGAGGACCGTGTAGA
Found at i:7272566 original size:46 final size:46
Alignment explanation
Indices: 7272474--7272567 Score: 107
Period size: 46 Copynumber: 2.0 Consensus size: 46
7272464 TGCCATTTAT
* * * *
7272474 AAATGTCCCTAAGGATCACATAGTATTGTCCTAAAGGACCGCGTAG
1 AAATGTCCCGAAGGACCACATAGAATTGTCCCAAAGGACCGCGTAG
** * * *
7272520 AAATGTCCCGAAGGACCATGTAGAATTGTCCCAGAGGATCGTGTAG
1 AAATGTCCCGAAGGACCACATAGAATTGTCCCAAAGGACCGCGTAG
7272566 AA
1 AA
7272568 CCCTCAACTC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.22
Consensus pattern (46 bp):
AAATGTCCCGAAGGACCACATAGAATTGTCCCAAAGGACCGCGTAG
Found at i:7285729 original size:102 final size:95
Alignment explanation
Indices: 7285581--7285796 Score: 231
Period size: 97 Copynumber: 2.2 Consensus size: 95
7285571 TTAATGATTT
* ** * *
7285581 ATTTATTTCC-TTTAAAATAGAATCATACTTGATTCCCAAGAAAATAAATTCAATCTACCAGTTT
1 ATTTATTTCCTTTTAAAAAAGAATCATACAAGATTCCCAAAAAAATAAATCCAA--T--CA-TTT
** *
7285645 ATTTTCTTTT-GTAAATCATG-AAAATAAATCCAACG
61 ATTTTCTTTTACAAAAT-A-GAAAAATAAATACAACG
* *
7285680 ATTTATTTCCTTTTATAAACAAGAATCATACAAGATTCTCAAAAAAATAAATCCAATGATTTATT
1 ATTTATTTCCTTTTA-AAA-AAGAATCATACAAGATTCCCAAAAAAATAAATCCAATCATTTATT
7285745 TTCTTTTACAAAATAGAAAAATAAATACAACG
64 TTCTTTTACAAAATAGAAAAATAAATACAACG
*
7285777 ATTTATTTCCTTTTACAAAA
1 ATTTATTTCCTTTTAAAAAA
7285797 TTGGAAACTA
Statistics
Matches: 101, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
95 2 0.02
96 3 0.03
97 43 0.43
98 5 0.05
99 10 0.10
100 5 0.05
101 3 0.03
102 30 0.30
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.37
Consensus pattern (95 bp):
ATTTATTTCCTTTTAAAAAAGAATCATACAAGATTCCCAAAAAAATAAATCCAATCATTTATTTT
CTTTTACAAAATAGAAAAATAAATACAACG
Found at i:7285766 original size:39 final size:39
Alignment explanation
Indices: 7285723--7285988 Score: 272
Period size: 39 Copynumber: 6.8 Consensus size: 39
7285713 GATTCTCAAA
* * *
7285723 AAAATAAATCCAATGATTTATTTTCTTTTACAAAATAGA
1 AAAATAAATACAACGATTTATTTTCTTTTACAAAATAGG
* *
7285762 AAAATAAATACAACGATTTATTTCCTTTTACAAAATTGG
1 AAAATAAATACAACGATTTATTTTCTTTTACAAAATAGG
* * * *
7285801 AAACTAGAT-CTAATGATTTA-TTTCTTTTTATAAAATAGG
1 AAAATAAATAC-AACGATTTATTTTC-TTTTACAAAATAGG
** *
7285840 AAAATAAATACAACGATTTA-TTTCTTTTTACAAACCAAG
1 AAAATAAATACAACGATTTATTTTC-TTTTACAAAATAGG
* **
7285879 AAAATAAATACAACGATTTATTTCCTTTTACAAACCAGG
1 AAAATAAATACAACGATTTATTTTCTTTTACAAAATAGG
* * * *
7285918 AAAATAAATTA-TATGATTTATTTCCTTTTTCAAAATAGG
1 AAAATAAA-TACAACGATTTATTTTCTTTTACAAAATAGG
*
7285957 AAAATAAATTCAACGATTTA-TTTCTTTGTACA
1 AAAATAAATACAACGATTTATTTTCTTT-TACA
7285989 TATCAGAATC
Statistics
Matches: 190, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
38 11 0.06
39 173 0.91
40 6 0.03
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (39 bp):
AAAATAAATACAACGATTTATTTTCTTTTACAAAATAGG
Found at i:7285934 original size:117 final size:117
Alignment explanation
Indices: 7285723--7285988 Score: 362
Period size: 117 Copynumber: 2.3 Consensus size: 117
7285713 GATTCTCAAA
* *
7285723 AAAATAAATCCAATGATTTATTT-TCTTTTACAAAATAGAAAAATAAATACAACGATTTATTTCC
1 AAAATAAATACAACGATTTATTTCT-TTTTACAAAATAGAAAAATAAATACAACGATTTATTTCC
** * * *
7285787 TTTTACAAAATTGGAAACTAGATCTAATGATTTATTT-CTTTTTATAAAATAGG
65 TTTTACAAAACAGGAAAATAAATCTAATGATTTATTTCCTTTTT-CAAAATAGG
7285840 AAAATAAATACAACGATTTATTTCTTTTTACAAACCA-AG-AAAATAAATACAACGATTTATTTC
1 AAAATAAATACAACGATTTATTTCTTTTTACAAA--ATAGAAAAATAAATACAACGATTTATTTC
*
7285903 CTTTTACAAACCAGGAAAATAAAT-TATATGATTTATTTCCTTTTTCAAAATAGG
64 CTTTTACAAAACAGGAAAATAAATCTA-ATGATTTATTTCCTTTTTCAAAATAGG
* *
7285957 AAAATAAATTCAACGATTTATTTCTTTGTACA
1 AAAATAAATACAACGATTTATTTCTTTTTACA
7285989 TATCAGAATC
Statistics
Matches: 134, Mismatches: 10, Indels: 10
0.87 0.06 0.06
Matches are distributed among these distances:
116 2 0.01
117 122 0.91
118 9 0.07
119 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (117 bp):
AAAATAAATACAACGATTTATTTCTTTTTACAAAATAGAAAAATAAATACAACGATTTATTTCCT
TTTACAAAACAGGAAAATAAATCTAATGATTTATTTCCTTTTTCAAAATAGG
Found at i:7286058 original size:39 final size:38
Alignment explanation
Indices: 7286012--7286124 Score: 145
Period size: 39 Copynumber: 2.9 Consensus size: 38
7286002 CAAGATTCTT
* * *
7286012 AGGAAAATAAATTTAACGATTTATTTCCTTCTACAAAAC
1 AGGAAAATAAA-TCAATGATTTATTTCCTTTTACAAAAC
* * *
7286051 AGGAAAATAAATCATATGATTTATTTCTTTTTACACAAT
1 AGGAAAATAAATCA-ATGATTTATTTCCTTTTACAAAAC
7286090 AGGAAAATAAACTCAATGATTTATTTCCTTTTACA
1 AGGAAAATAAA-TCAATGATTTATTTCCTTTTACA
7286125 TATCAAAATC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.03
39 60 0.92
40 3 0.05
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (38 bp):
AGGAAAATAAATCAATGATTTATTTCCTTTTACAAAAC
Found at i:7286125 original size:136 final size:135
Alignment explanation
Indices: 7285878--7286216 Score: 477
Period size: 136 Copynumber: 2.5 Consensus size: 135
7285868 TACAAACCAA
** *
7285878 GAAAATAAATACAACGATTTATTTCCTTTTACAAACCAGGAAAATAAATTATATGATTTATTTCC
1 GAAAATAAATTTAACGATTTATTTCCTTTTACAAAACAGGAAAATAAATTATATGATTTATTT-C
* *
7285943 TTTTTCAAAATAGGAAAATAAATTCAACGATTTATTTCTTTGTACATATCAGAATCATACAAGAT
65 TTTTTCAAAATAGGAAAATAAACTCAACGATTTATTTCTTTGTACATATCAAAATCATACAAGAT
7286008 TCTTAG
130 TCTTAG
* *
7286014 GAAAATAAATTTAACGATTTATTTCCTTCTACAAAACAGGAAAATAAATCATATGATTTATTTCT
1 GAAAATAAATTTAACGATTTATTTCCTTTTACAAAACAGGAAAATAAATTATATGATTTATTTCT
* * *
7286079 TTTTACACAATAGGAAAATAAACTCAATGATTTATTTCCTTT-TACATATCAAAATCATATAAGA
66 TTTT-CAAAATAGGAAAATAAACTCAACGATTTATTT-CTTTGTACATATCAAAATCATACAAGA
7286143 TTCTTAG
129 TTCTTAG
* * ** * *
7286150 GAAAA-ACAA-TTATCAATTTATTTATTTTTTCAAAACAGGAAAATAAATTATACGATTTATTTC
1 GAAAATA-AATTTAACGATTTATTTCCTTTTACAAAACAGGAAAATAAATTATATGATTTATTTC
7286213 TTTT
65 TTTT
7286217 AACAAATCAC
Statistics
Matches: 182, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
135 57 0.31
136 121 0.66
137 4 0.02
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (135 bp):
GAAAATAAATTTAACGATTTATTTCCTTTTACAAAACAGGAAAATAAATTATATGATTTATTTCT
TTTTCAAAATAGGAAAATAAACTCAACGATTTATTTCTTTGTACATATCAAAATCATACAAGATT
CTTAG
Found at i:7286197 original size:232 final size:231
Alignment explanation
Indices: 7285933--7286356 Score: 556
Period size: 232 Copynumber: 1.8 Consensus size: 231
7285923 AAATTATATG
* * * *
7285933 ATTTATTTCCTTTTTCAAAATAGGAAAATAAATTCA-ACGATTTATTTCTTTGT-ACATATCAGA
1 ATTTATTTACTTTTTCAAAACAGGAAAATAAATT-ATACGATTTATTTCTTT-TAACAAATCACA
* * * * *
7285996 ATCATACAAGATTCTTAGGAAAATAAATTTAACGATTTATTTCCTTCTAC-AAAACAGGAAAATA
64 ATCATACAAGATTCATAGAAAAATAAATTCAACGACTTATTTCCTT-T-CGAAAACAGAAAAATA
* * *
7286060 AA-TCATATGATTTA-TTTCTTT-TTACACAATAGGAAAATAAACTC-AATGATTTATTTCCTTT
127 AACTCA-ATGATTTATTTTCTTTCATA-A-AATAGGAAAATAAA-TCAAAAGATTTATTTCCTTA
7286121 TACATATCAAAATCATATAAGATTCTTAGGAAAAACAATTATCA
188 TACATATCAAAATCATATAAGATTCTTAGGAAAAACAATTATCA
*
7286165 ATTTATTTATTTTTTCAAAACAGGAAAATAAATTATACGATTTATTTCTTTTAACAAATCACAAT
1 ATTTATTTACTTTTTCAAAACAGGAAAATAAATTATACGATTTATTTCTTTTAACAAATCACAAT
* * *
7286230 CATATAAGATTCATAGAAAAATAAATTCATCGACTTATTTCCTTTCGTAAAAGAGAAAAATAAAC
66 CATACAAGATTCATAGAAAAATAAATTCAACGACTTATTTCCTTTCG-AAAACAGAAAAATAAAC
* *
7286295 TCAATGATTTATTTTCTTTCATAAAATATGAAAATAAATCAAAAGATTTATTTTCTTATACA
130 TCAATGATTTATTTTCTTTCATAAAATAGGAAAATAAATCAAAAGATTTATTTCCTTATACA
7286357 AAAAAGGAAA
Statistics
Matches: 166, Mismatches: 18, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
230 1 0.01
231 5 0.03
232 147 0.89
233 11 0.07
234 2 0.01
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.38
Consensus pattern (231 bp):
ATTTATTTACTTTTTCAAAACAGGAAAATAAATTATACGATTTATTTCTTTTAACAAATCACAAT
CATACAAGATTCATAGAAAAATAAATTCAACGACTTATTTCCTTTCGAAAACAGAAAAATAAACT
CAATGATTTATTTTCTTTCATAAAATAGGAAAATAAATCAAAAGATTTATTTCCTTATACATATC
AAAATCATATAAGATTCTTAGGAAAAACAATTATCA
Found at i:7286231 original size:96 final size:95
Alignment explanation
Indices: 7286069--7286313 Score: 242
Period size: 96 Copynumber: 2.5 Consensus size: 95
7286059 AAATCATATG
* * * * *
7286069 ATTTATTTCTTTTTACACAATAGGAAAATAAACTCAATGATTTATTTCCTTTTACATATCAAAAT
1 ATTTATTTATTTTTACAAAACAGGAAAATAAACTCAACGATTTATTTCCTTTTACAAATCAAAAT
*
7286134 CATATAAGATTCTTAGGAAAAACAATTATCA
66 CATATAAGATTCATA-GAAAAACAATTATCA
* * *
7286165 ATTTATTTATTTTTTCAAAACAGGAAAATAAA-TTATACGATTTATTT-CTTTTAACAAATCACA
1 ATTTATTTATTTTTACAAAACAGGAAAATAAACTCA-ACGATTTATTTCCTTTT-ACAAATCAAA
* *
7286228 ATCATATAAGATTCATAGAAAAATAAATTCATCG
64 ATCATATAAGATTCATAGAAAAA-CAATT-ATCA
* ** *** * * * *
7286262 ACTTATTTCCTTTCGTAAAAGAGAAAAATAAACTCAATGATTTATTTTCTTT
1 ATTTATTTATTTTTACAAAACAGGAAAATAAACTCAACGATTTATTTCCTTT
7286314 CATAAAATAT
Statistics
Matches: 122, Mismatches: 21, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
95 13 0.11
96 66 0.54
97 37 0.30
98 6 0.05
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.39
Consensus pattern (95 bp):
ATTTATTTATTTTTACAAAACAGGAAAATAAACTCAACGATTTATTTCCTTTTACAAATCAAAAT
CATATAAGATTCATAGAAAAACAATTATCA
Found at i:7286307 original size:39 final size:38
Alignment explanation
Indices: 7286244--7286430 Score: 107
Period size: 39 Copynumber: 4.8 Consensus size: 38
7286234 TAAGATTCAT
* *
7286244 AGAAAAATAAATTC-ATCGACTTATTTCCTTTCGTAAAAG
1 AGAAAAATAAA-TCAAT-GATTTATTTCCTTTCATAAAAG
* *
7286283 AGAAAAATAAACTCAATGATTTATTTTCTTTCATAAAAT
1 AGAAAAATAAA-TCAATGATTTATTTCCTTTCATAAAAG
* *
7286322 ATG-AAAATAAATCAAAAGATTTATTTTCTTATACA-AAAA-
1 A-GAAAAATAAATC-AATGATTTATTTCCTT-T-CATAAAAG
* * * * *
7286361 AGGAAACTAAATTCAATGATCTT-TTTCATTTTC-CAAAAT
1 AGAAAAATAAA-TCAATGAT-TTATTTC-CTTTCATAAAAG
* * *
7286400 AGGAAAATAAATCCGACGATTTATTTCCTTT
1 AGAAAAATAAAT-CAATGATTTATTTCCTTT
7286431 TAAAAAATAG
Statistics
Matches: 121, Mismatches: 14, Indels: 27
0.75 0.09 0.17
Matches are distributed among these distances:
38 14 0.12
39 91 0.75
40 14 0.12
41 2 0.02
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (38 bp):
AGAAAAATAAATCAATGATTTATTTCCTTTCATAAAAG
Found at i:7286438 original size:39 final size:39
Alignment explanation
Indices: 7286286--7286440 Score: 118
Period size: 39 Copynumber: 4.0 Consensus size: 39
7286276 GTAAAAGAGA
* * * * *
7286286 AAAATAAA-CTCAATGATTTATTTTCTTTCATAAAATATG
1 AAAATAAATC-CAAAGATTTATTTCCTTTTAAAAAATAGG
* * *
7286325 AAAATAAATCAAAAGATTTATTTTCTTATACAAAAA-AGG
1 AAAATAAATCCAAAGATTTATTTCCTTTTA-AAAAATAGG
* * * * **
7286364 AAACTAAATTCAATGATCTT-TTTCATTTTCCAAAATAGG
1 AAAATAAATCCAAAGAT-TTATTTCCTTTTAAAAAATAGG
* *
7286403 AAAATAAATCCGACGATTTATTTCCTTTTAAAAAATAG
1 AAAATAAATCCAAAGATTTATTTCCTTTTAAAAAATAG
7286441 AATCATATAA
Statistics
Matches: 89, Mismatches: 22, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
38 6 0.07
39 76 0.85
40 7 0.08
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (39 bp):
AAAATAAATCCAAAGATTTATTTCCTTTTAAAAAATAGG
Found at i:7286745 original size:58 final size:58
Alignment explanation
Indices: 7286567--7286897 Score: 348
Period size: 58 Copynumber: 5.7 Consensus size: 58
7286557 ATAAACAATA
* * ** * *
7286567 AAATAAATTTAACAATTTA-TTTCATTTTA-AAAGATAGAATCATTCGCGATTCTTAAGA
1 AAATAAATTTAACAATTTATTTTC--CTTACAAAGTTAGAATCATTCAAGATTCTCAAGG
* * * * *
7286625 AAACAAATTCAACAATTTATTTTCCTTATAAAGTTA-AATCATTTAAGAAT-TCAAGG
1 AAATAAATTTAACAATTTATTTTCCTTACAAAGTTAGAATCATTCAAGATTCTCAAGG
* * *
7286681 AAATAAATTAAACAATTTATTTTTCTTACAAAATTAGAATCATTCAAGATTCTCAAGG
1 AAATAAATTTAACAATTTATTTTCCTTACAAAGTTAGAATCATTCAAGATTCTCAAGG
* * * * * * *
7286739 AAATAAATTTAATAATTTTATTTCCCTAACAAGGTTAAAATCATTCTAGATTTTCAAGG
1 AAATAAATTTAACAA-TTTATTTTCCTTACAAAGTTAGAATCATTCAAGATTCTCAAGG
* * * *
7286798 AAATAAATTCAACGATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTCTTAAGG
1 AAATAAATTTAACAATTTATTTTCCTTACAAAGTTAGAATCATTCAAGATTCTCAAGG
* *
7286856 AAATAAATTTAATAATTTA-TTTCCACTACAAAGTTAGAATCA
1 AAATAAATTTAACAATTTATTTTCC-TTACAAAGTTAGAATCA
7286898 ACGTAAGATT
Statistics
Matches: 225, Mismatches: 42, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
56 35 0.16
57 30 0.13
58 109 0.48
59 51 0.23
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (58 bp):
AAATAAATTTAACAATTTATTTTCCTTACAAAGTTAGAATCATTCAAGATTCTCAAGG
Found at i:7286828 original size:117 final size:114
Alignment explanation
Indices: 7286567--7286897 Score: 380
Period size: 117 Copynumber: 2.9 Consensus size: 114
7286557 ATAAACAATA
* * ** * ** * *
7286567 AAATAAATTTAACAATTTA-TTTCATTTTAAAAGATAGAATCATTCGCGATTCTTAAGAAAACAA
1 AAATAAATTAAACAATTTATTTTCCTTACAAAA-TTAGAATCATTCAAGATTCTTAAGGAAATAA
* * * *
7286631 ATTCAACAATTTATTTTCCTTATAAAGTT-AAATCATTTAAGAATTCAAGG
65 ATTTAATAATTTA-TTTCCCTACAAAGTTAAAATCATTTAAGAATTCAAGG
* *
7286681 AAATAAATTAAACAATTTATTTTTCTTACAAAATTAGAATCATTCAAGATTCTCAAGGAAATAAA
1 AAATAAATTAAACAATTTATTTTCCTTACAAAATTAGAATCATTCAAGATTCTTAAGGAAATAAA
* *
7286746 TTTAATAATTTTATTTCCCTAACAAGGTTAAAATCATTCT-AGATTTTCAAGG
66 TTTAATAA-TTTATTTCCCT-ACAAAGTTAAAATCATT-TAAGA-ATTCAAGG
* * * *
7286798 AAATAAATTCAACGATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTCTTAAGGAAATAAA
1 AAATAAATTAAACAATTTATTTTCCTTACAAAATTAGAATCATTCAAGATTCTTAAGGAAATAAA
*
7286863 TTTAATAATTTATTTCCACTACAAAGTTAGAATCA
66 TTTAATAATTTATTTCC-CTACAAAGTTAAAATCA
7286898 ACGTAAGATT
Statistics
Matches: 185, Mismatches: 25, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
114 56 0.30
115 19 0.10
116 33 0.18
117 77 0.42
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (114 bp):
AAATAAATTAAACAATTTATTTTCCTTACAAAATTAGAATCATTCAAGATTCTTAAGGAAATAAA
TTTAATAATTTATTTCCCTACAAAGTTAAAATCATTTAAGAATTCAAGG
Found at i:7287120 original size:45 final size:44
Alignment explanation
Indices: 7287060--7287208 Score: 176
Period size: 45 Copynumber: 3.3 Consensus size: 44
7287050 TTTTACCGAC
* * * *
7287060 CCAATAATCACAAGGAACTAATCATTTGATTTTAATTTTCGTAAT
1 CCAATAACCAAAAGGAACTAATCATTTGATTTTACTTTT-GCAAT
*
7287105 CCAATAACCGAAAGGAACTAAT-ACTTTGATTTTACTTTTTGCAA-
1 CCAATAACCAAAAGGAACTAATCA-TTTGATTTTAC-TTTTGCAAT
*
7287149 CACAATAACCAAAAGGAACTAATCTTTTGATTTTACTTTTGACAAT
1 C-CAATAACCAAAAGGAACTAATCATTTGATTTTACTTTTG-CAAT
*
7287195 CCAATAATCAAAAG
1 CCAATAACCAAAAG
7287209 CCTAGGATTA
Statistics
Matches: 90, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
44 7 0.08
45 78 0.87
46 5 0.06
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (44 bp):
CCAATAACCAAAAGGAACTAATCATTTGATTTTACTTTTGCAAT
Found at i:7287634 original size:22 final size:22
Alignment explanation
Indices: 7287608--7287668 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
7287598 GAAATACTAT
7287608 ATGAACAGTACCGTGAACAATA
1 ATGAACAGTACCGTGAACAATA
* *
7287630 ATGAACAGTACCGTGAACAGTG
1 ATGAACAGTACCGTGAACAATA
*
7287652 ATGAACAGTAGCGTGAA
1 ATGAACAGTACCGTGAA
7287669 TATTACCATG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (22 bp):
ATGAACAGTACCGTGAACAATA
Found at i:7287668 original size:12 final size:12
Alignment explanation
Indices: 7287609--7287650 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
7287599 AAATACTATA
7287609 TGAACAGTACCG
1 TGAACAGTACCG
* *
7287621 TGAACAATA--A
1 TGAACAGTACCG
7287631 TGAACAGTACCG
1 TGAACAGTACCG
7287643 TGAACAGT
1 TGAACAGT
7287651 GATGAACAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
10 8 0.33
12 16 0.67
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (12 bp):
TGAACAGTACCG
Found at i:7288705 original size:32 final size:33
Alignment explanation
Indices: 7288600--7288726 Score: 133
Period size: 31 Copynumber: 4.0 Consensus size: 33
7288590 AACCTCGGCA
* *
7288600 ACTGTCCATAGGTCCCG-AAGAACCTAGGTAA--
1 ACTGTCCATATGTCCCGAAAG-ACATAGGTAATT
* ***
7288631 ACTGTTCATATGTTCTTTAAA-ACATAGGT--TT
1 ACTGTCCATATG-TCCCGAAAGACATAGGTAATT
7288662 ACTGTCCATATGTCCCGAAAGACATAGGTAATT
1 ACTGTCCATATGTCCCGAAAGACATAGGTAATT
7288695 A-TGTCCATATGTCCCGAAAGACATAGGTAATT
1 ACTGTCCATATGTCCCGAAAGACATAGGTAATT
7288727 CTTCGACTCT
Statistics
Matches: 79, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
30 5 0.06
31 36 0.46
32 33 0.42
33 5 0.06
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (33 bp):
ACTGTCCATATGTCCCGAAAGACATAGGTAATT
Found at i:7289798 original size:19 final size:20
Alignment explanation
Indices: 7289760--7289804 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
7289750 CGAAATATCC
7289760 ATGCATCGATGCACCCCTTA
1 ATGCATCGATGCACCCCTTA
7289780 ATGCATCGATGCA-CCCTTA
1 ATGCATCGATGCACCCCTTA
7289799 ATGCAT
1 ATGCAT
7289805 ATAGAAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (20 bp):
ATGCATCGATGCACCCCTTA
Found at i:7292764 original size:2 final size:2
Alignment explanation
Indices: 7292757--7292781 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7292747 TTCTATGGAG
7292757 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
7292782 TTTGGTCAAT
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:7294988 original size:19 final size:20
Alignment explanation
Indices: 7294964--7295010 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
7294954 TTAATAATAG
*
7294964 AAATATATGTTT-TTTATAT
1 AAATATATGTTTATTTATAC
*
7294983 AAATATGT-TTTATTTATAC
1 AAATATATGTTTATTTATAC
7295002 AAATATATG
1 AAATATATG
7295011 ATGTTTGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.51
Consensus pattern (20 bp):
AAATATATGTTTATTTATAC
Found at i:7295294 original size:5 final size:5
Alignment explanation
Indices: 7295278--7295359 Score: 137
Period size: 5 Copynumber: 16.4 Consensus size: 5
7295268 AGAATCACTC
* *
7295278 TGAAT TGTAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAA TGAAT
1 TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT
*
7295328 TGAAA TGAAT TGAAT TGAAT TGAAT TGAAT TG
1 TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TG
7295360 CACGGACATG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 71 1.00
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.39
Consensus pattern (5 bp):
TGAAT
Found at i:7298303 original size:20 final size:19
Alignment explanation
Indices: 7298278--7298319 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
7298268 TATTATATGT
* *
7298278 TTAATTAATATTATGTAAAA
1 TTAATTAACAATAT-TAAAA
7298298 TTAATTAACAATATTAAAA
1 TTAATTAACAATATTAAAA
7298317 TTA
1 TTA
7298320 CAATTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
TTAATTAACAATATTAAAA
Found at i:7307978 original size:32 final size:32
Alignment explanation
Indices: 7307941--7308040 Score: 128
Period size: 32 Copynumber: 3.1 Consensus size: 32
7307931 CCTAAGGTGA
* * * *
7307941 CCTTGGGTAGGATATAAGGCCCTAAGACATTT
1 CCTTGGGTAGGATCTTAGGCCCTAAGACACTC
*
7307973 CCTTGGGTAGGATCTTAGGCCCTAAGATACTC
1 CCTTGGGTAGGATCTTAGGCCCTAAGACACTC
* * *
7308005 CCTTGGGTAGGCTCTTAGGCCCTAAGATAATC
1 CCTTGGGTAGGATCTTAGGCCCTAAGACACTC
7308037 CCTT
1 CCTT
7308041 AGGTTGGTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (32 bp):
CCTTGGGTAGGATCTTAGGCCCTAAGACACTC
Found at i:7308612 original size:26 final size:25
Alignment explanation
Indices: 7308583--7308636 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 25
7308573 GAAACTTGTC
7308583 TGATTTTAATTTCGTTTGTAAATATA
1 TGATTTTAATTTCGTTTGT-AATATA
7308609 TGATTTTAATTTCGTTTGTAATATA
1 TGATTTTAATTTCGTTTGTAATATA
7308634 TGA
1 TGA
7308637 ATGATTTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.30, C:0.04, G:0.13, T:0.54
Consensus pattern (25 bp):
TGATTTTAATTTCGTTTGTAATATA
Found at i:7312426 original size:12 final size:12
Alignment explanation
Indices: 7312411--7312435 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7312401 GAACGTGATC
7312411 GAGATAGGGATA
1 GAGATAGGGATA
7312423 GAGATAGGGATA
1 GAGATAGGGATA
7312435 G
1 G
7312436 GGATCGATAT
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:0.40, C:0.00, G:0.44, T:0.16
Consensus pattern (12 bp):
GAGATAGGGATA
Found at i:7312434 original size:18 final size:18
Alignment explanation
Indices: 7312413--7312450 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7312403 ACGTGATCGA
7312413 GATAGGGATAGAGATAGG
1 GATAGGGATAGAGATAGG
* *
7312431 GATAGGGATCGATATAGG
1 GATAGGGATAGAGATAGG
7312449 GA
1 GA
7312451 AGGCAGAGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.03, G:0.42, T:0.18
Consensus pattern (18 bp):
GATAGGGATAGAGATAGG
Found at i:7322558 original size:26 final size:25
Alignment explanation
Indices: 7322505--7322612 Score: 96
Period size: 26 Copynumber: 4.2 Consensus size: 25
7322495 AATAACATTT
* *
7322505 TTTTC-AAAATTACGAAAATAGCACCA
1 TTTTCAAAAATTACTAAAATAG--TCA
7322531 TTTTCAAAATATTTACTAAAAT-GTCA
1 TTTTCAAAA-A-TTACTAAAATAGTCA
*
7322557 TTTTCCCAAAATTACTAAAATAG-CA
1 TTTT-CAAAAATTACTAAAATAGTCA
* *
7322582 TTTTTAAAAATTACAAAAATAGTACA
1 TTTTCAAAAATTACTAAAATAGT-CA
7322608 TTTTC
1 TTTTC
7322613 GAATTAATTC
Statistics
Matches: 68, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
24 15 0.22
25 16 0.24
26 19 0.28
27 7 0.10
28 2 0.03
29 9 0.13
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (25 bp):
TTTTCAAAAATTACTAAAATAGTCA
Found at i:7322574 original size:25 final size:26
Alignment explanation
Indices: 7322510--7322612 Score: 88
Period size: 25 Copynumber: 3.9 Consensus size: 26
7322500 CATTTTTTTC
* *
7322510 AAAATTACGAAAATAGCACCATTTT-CA
1 AAAATTACTAAAATAG--TCATTTTCCA
*
7322537 AAATATTTACTAAAAT-GTCATTTTCCC
1 AAA-A-TTACTAAAATAGTCATTTTCCA
*
7322564 AAAATTACTAAAATAG-CATTTT-TA
1 AAAATTACTAAAATAGTCATTTTCCA
*
7322588 AAAATTACAAAAATAGTACATTTTC
1 AAAATTACTAAAATAGT-CATTTTC
7322613 GAATTAATTC
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
24 15 0.24
25 16 0.25
26 14 0.22
27 7 0.11
28 2 0.03
29 9 0.14
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.34
Consensus pattern (26 bp):
AAAATTACTAAAATAGTCATTTTCCA
Found at i:7329851 original size:29 final size:28
Alignment explanation
Indices: 7329780--7329923 Score: 95
Period size: 29 Copynumber: 5.3 Consensus size: 28
7329770 ATAGCATTTT
7329780 TTTTCAAAA-ATTACAAAAATATCACCA
1 TTTTCAAAATATTACAAAAATATCACCA
* *
7329807 TTTT-AAAATTAATTACCAATATATCACCA
1 TTTTCAAAA-T-ATTACAAAAATATCACCA
* * *
7329836 TTTTCAAAATATTTACTAAAATGTCATC-
1 TTTTCAAAATA-TTACAAAAATATCACCA
* * * * *
7329864 TTTCCCAAA-ATTACTAAAATAGCA--T
1 TTTTCAAAATATTACAAAAATATCACCA
* * *
7329889 TTTTTAAAA-ATTACAAAAATAGCACCT
1 TTTTCAAAATATTACAAAAATATCACCA
7329916 TTTTCAAA
1 TTTTCAAA
7329924 TTAATTCCCA
Statistics
Matches: 94, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
25 20 0.21
26 16 0.17
27 13 0.14
28 8 0.09
29 33 0.35
30 4 0.04
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (28 bp):
TTTTCAAAATATTACAAAAATATCACCA
Found at i:7329903 original size:109 final size:111
Alignment explanation
Indices: 7329762--7329968 Score: 310
Period size: 109 Copynumber: 1.9 Consensus size: 111
7329752 GTCAACCATT
*
7329762 TTACGAAAATAGCATTTTTTTTCAAAAATTACAAAAATATCACCATTTTAAAATTAATTACCAAT
1 TTACGAAAATAGCA-TTTTTTTCAAAAATTACAAAAATAGCACCATTTTAAAATTAATTACCAAT
* *
7329827 ATATCACCATTTTCAAAATATTTACTAAAATGTCATCTTTCCCAAAA
65 ATATCACCAGTTTCAAAATAATTACTAAAATGTCATCTTTCCCAAAA
* * * *
7329874 TTACTAAAATAGCA-TTTTTT-AAAAATTACAAAAATAGCACCTTTTTCAAATTAATTCCCAATA
1 TTACGAAAATAGCATTTTTTTCAAAAATTACAAAAATAGCACCATTTTAAAATTAATTACCAATA
* *
7329937 TGTCACTAGTTTCAAAATAATTACTAAAATGT
66 TATCACCAGTTTCAAAATAATTACTAAAATGT
7329969 GACCCGGTCA
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
109 67 0.78
110 6 0.07
112 13 0.15
ACGTcount: A:0.43, C:0.16, G:0.04, T:0.37
Consensus pattern (111 bp):
TTACGAAAATAGCATTTTTTTCAAAAATTACAAAAATAGCACCATTTTAAAATTAATTACCAATA
TATCACCAGTTTCAAAATAATTACTAAAATGTCATCTTTCCCAAAA
Found at i:7329926 original size:25 final size:25
Alignment explanation
Indices: 7329870--7329919 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
7329860 CATCTTTCCC
* *
7329870 AAAATTACTAAAATAGCATTTTTTA
1 AAAATTACAAAAATAGCACTTTTTA
7329895 AAAATTACAAAAATAGCACCTTTTT
1 AAAATTACAAAAATAGCA-CTTTTT
7329920 CAAATTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.36
Consensus pattern (25 bp):
AAAATTACAAAAATAGCACTTTTTA
Found at i:7333280 original size:3 final size:3
Alignment explanation
Indices: 7333260--7333395 Score: 227
Period size: 3 Copynumber: 45.3 Consensus size: 3
7333250 TACCCATATC
* *
7333260 ATT ATC ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
7333308 ATT ATT ATT ATT ATT ATT ATT ATC ATC ATC ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7333356 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
7333396 AATATTAAAT
Statistics
Matches: 127, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 127 1.00
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:7338838 original size:14 final size:15
Alignment explanation
Indices: 7338808--7338840 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7338798 TATTATTTTT
7338808 ATTTATTAAGATAAA
1 ATTTATTAAGATAAA
*
7338823 ATTTATTAA-TTAAA
1 ATTTATTAAGATAAA
7338837 ATTT
1 ATTT
7338841 GAAAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
ATTTATTAAGATAAA
Found at i:7347948 original size:224 final size:226
Alignment explanation
Indices: 7347562--7348230 Score: 1157
Period size: 224 Copynumber: 3.0 Consensus size: 226
7347552 CAAAGATTCA
* ** *
7347562 AATCTATCATTTGAAAGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
7347627 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGAGGG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGAGGG
7347692 ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
131 ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
7347757 AATGAGAAGAATTTGTTCAACCTTTTACCTG
196 AATGAGAAGAATTTGTTCAACCTTTTACCTG
7347788 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
7347853 AGGAAGAAGAAGTTCATAATGAGAAGAA-TTGTTCAACC-TTTACCTGAATCCATCATTTGAGGG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGAGGG
7347916 ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
131 ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
7347981 AATGAGAAGAATTTGTTCAACC-TTTACCTG
196 AATGAGAAGAATTTGTTCAACCTTTTACCTG
*
7348011 AATCCATCATTTGAGGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * * * *
7348076 AGGAAGAAGAAGTTTATAATTAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAATTGATGG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGAGGG
* * * *
7348141 ATTATCTTTTCCGGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCAT
131 ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* * *
7348205 AATAAGAAGAACTTGTTCAACTTTTT
196 AATGAGAAGAATTTGTTCAACCTTTT
7348231 GCATAATTCT
Statistics
Matches: 423, Mismatches: 17, Indels: 7
0.95 0.04 0.02
Matches are distributed among these distances:
223 98 0.23
224 188 0.44
225 48 0.11
226 89 0.21
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (226 bp):
AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGAGGG
ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
AATGAGAAGAATTTGTTCAACCTTTTACCTG
Found at i:7348078 original size:112 final size:113
Alignment explanation
Indices: 7347562--7348230 Score: 1157
Period size: 113 Copynumber: 6.0 Consensus size: 113
7347552 CAAAGATTCA
* ** *
7347562 AATCTATCATTTGAAAGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
7347627 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
7347675 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
7347740 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
7347788 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
7347853 AGGAAGAAGAAGTTCATAATGAGAAGAA-TTGTTCAACC-TTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
7347899 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
7347964 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACC-TTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
*
7348011 AATCCATCATTTGAGGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* *
7348076 AGGAAGAAGAAGTTTATAATTAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
* * * * * *
7348124 AATTCATCAATTGATGGATTATCTTTTCCGGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * * *
7348188 AGAAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTT
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
7348231 GCATAATTCT
Statistics
Matches: 537, Mismatches: 17, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
111 101 0.19
112 198 0.37
113 238 0.44
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (113 bp):
AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
Found at i:7348565 original size:3 final size:3
Alignment explanation
Indices: 7348557--7348677 Score: 208
Period size: 3 Copynumber: 40.7 Consensus size: 3
7348547 ATCATTATCA
*
7348557 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
7348605 TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
7348652 TAT TAT TAT TAT CAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
7348678 ATATATTAAA
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
2 2 0.02
3 109 0.98
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:7350089 original size:20 final size:21
Alignment explanation
Indices: 7350060--7350100 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
7350050 TTTTATTTTA
7350060 TTTTATTATATGAATAAATAT
1 TTTTATTATATGAATAAATAT
**
7350081 TTTTA-TATATTCATAAATAT
1 TTTTATTATATGAATAAATAT
7350101 ATATAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TTTTATTATATGAATAAATAT
Found at i:7354440 original size:7 final size:7
Alignment explanation
Indices: 7354428--7354475 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
7354418 ATTAATATAA
7354428 AAAATAT
1 AAAATAT
7354435 AAAATAT
1 AAAATAT
* *
7354442 TATATAT
1 AAAATAT
*
7354449 ATAAT-T
1 AAAATAT
*
7354455 AATATAT
1 AAAATAT
7354462 AAAATAT
1 AAAATAT
7354469 AAAATAT
1 AAAATAT
7354476 TATATATATA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
6 4 0.12
7 28 0.88
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AAAATAT
Found at i:7354448 original size:34 final size:34
Alignment explanation
Indices: 7354401--7354485 Score: 152
Period size: 34 Copynumber: 2.5 Consensus size: 34
7354391 CCCGAACCCA
*
7354401 AAAATATTTTATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
*
7354435 AAAATATTATATATATAATTAATATATAAAATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
7354469 AAAATATTATATATATA
1 AAAATATTATATATATA
7354486 TATATAATCG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (34 bp):
AAAATATTATATATATAATTAATATAAAAAATAT
Found at i:7354486 original size:27 final size:27
Alignment explanation
Indices: 7354431--7354492 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 27
7354421 AATATAAAAA
* *
7354431 ATATAAAATATTATATATATAATTAAT
1 ATATAAAATATAAAATATATAATTAAT
7354458 ATATAAAATATAAAATAT-TATATATATAT
1 ATATAAAATATAAAATATATA-AT-TA-AT
7354487 ATATAA
1 ATATAA
7354493 TCGGGTAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.07
27 18 0.60
28 2 0.07
29 8 0.27
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
ATATAAAATATAAAATATATAATTAAT
Found at i:7355190 original size:33 final size:33
Alignment explanation
Indices: 7355148--7355215 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
7355138 ATTCTATATA
7355148 TTTTTAATGTTCACACATTTATCTTTTAATCTT
1 TTTTTAATGTTCACACATTTATCTTTTAATCTT
7355181 TTTTTAATGTTCACACATTTATCTTTTAATCTT
1 TTTTTAATGTTCACACATTTATCTTTTAATCTT
7355214 TT
1 TT
7355216 AGGGGTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.24, C:0.15, G:0.03, T:0.59
Consensus pattern (33 bp):
TTTTTAATGTTCACACATTTATCTTTTAATCTT
Found at i:7355650 original size:37 final size:37
Alignment explanation
Indices: 7355574--7355650 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
7355564 TTTTTATATT
*
7355574 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
7355611 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
7355648 TTT
1 TTT
7355651 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:7356866 original size:4 final size:4
Alignment explanation
Indices: 7356857--7356883 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
7356847 TCAAGAACAC
7356857 ATTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATT
7356884 GTTAATCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:7357154 original size:21 final size:21
Alignment explanation
Indices: 7357125--7357179 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
7357115 ATTCTGACTA
7357125 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
7357146 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
7357167 TCGCATTGCGATT
1 TCGCATTGCGATT
7357180 CTCTCGTTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:7359207 original size:20 final size:20
Alignment explanation
Indices: 7359182--7359223 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
7359172 TTTTGGTGCA
*
7359182 GAGGGAATCGATCCCCCATT
1 GAGGGAACCGATCCCCCATT
* *
7359202 GAGGGAACCGATTCCCCTTT
1 GAGGGAACCGATCCCCCATT
7359222 GA
1 GA
7359224 AGGGGAACCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.21
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCATT
Found at i:7364347 original size:42 final size:42
Alignment explanation
Indices: 7364268--7364358 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
7364258 CCTCTTCAAC
* * *
7364268 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* * **
7364310 GATGATAGGGGCCTCTTGAACGATAGGG-GAGGCCTCTTGAAC
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGACTCTTGAGG
7364352 GATGACA
1 GATGACA
7364359 TGTGAGTCGG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 37 0.93
43 3 0.08
ACGTcount: A:0.23, C:0.18, G:0.38, T:0.21
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:7364863 original size:20 final size:20
Alignment explanation
Indices: 7364840--7364948 Score: 110
Period size: 20 Copynumber: 5.5 Consensus size: 20
7364830 GAAACATAAA
7364840 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
7364860 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* * * *
7364880 ATTGTAATGTGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* * **
7364900 ATTGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
* * **
7364920 ATTGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
7364940 ATCGCAACG
1 ATCGCAACG
7364949 AGAGAATCGC
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 79 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:7364912 original size:40 final size:40
Alignment explanation
Indices: 7364843--7364948 Score: 131
Period size: 40 Copynumber: 2.6 Consensus size: 40
7364833 ACATAAAATC
*
7364843 GCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATT
1 GCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATT
* * * * **
7364883 GTAATGTGAAAATGACTATTGCAATGCGAATTTGACTATT
1 GCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATT
**
7364923 GCAATGCGAATTTGACTATCGCAACG
1 GCAATGCGAAAATGACTATCGCAACG
7364949 AGAGAATCGC
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (40 bp):
GCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATT
Found at i:7365016 original size:20 final size:20
Alignment explanation
Indices: 7364991--7365042 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
7364981 GCGATTCTCT
7364991 CGTTGCGATAGTCATTTTCA
1 CGTTGCGATAGTCATTTTCA
*
7365011 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCA
*
7365031 CATTGCGATAGT
1 CGTTGCGATAGT
7365043 AAACTATTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCA
Found at i:7365202 original size:22 final size:21
Alignment explanation
Indices: 7365162--7365202 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7365152 CAGTATTGGC
*
7365162 AGCAATCGAATGAATTTACTA
1 AGCAATCGAATGAAATTACTA
*
7365183 AGCAATCTAAGTGAAATTAC
1 AGCAATCGAA-TGAAATTAC
7365203 GAGTAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (21 bp):
AGCAATCGAATGAAATTACTA
Found at i:7366972 original size:20 final size:20
Alignment explanation
Indices: 7366924--7367013 Score: 83
Period size: 20 Copynumber: 4.5 Consensus size: 20
7366914 CTGAAACTTT
*
7366924 AAATCGCAACACGAAAATAAA
1 AAATCGCAACACGAAAAT-GA
7366945 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
** * **
7366965 CTATCGCAACGCGAATTTGA
1 AAATCGCAACACGAAAATGA
** *
7366985 CTATCGCAACGCG-AAATGA
1 AAATCGCAACACGAAAATGA
7367004 AAATCGCAAC
1 AAATCGCAAC
7367014 GACAGAATCG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
19 12 0.20
20 29 0.49
21 18 0.31
ACGTcount: A:0.47, C:0.23, G:0.16, T:0.14
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:7367412 original size:22 final size:22
Alignment explanation
Indices: 7367350--7367415 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
7367340 TGACCATGAA
* *
7367350 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
*
7367372 TGATATCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
7367394 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
7367416 GGATGTCGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.21, C:0.15, G:0.39, T:0.24
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:7367635 original size:20 final size:20
Alignment explanation
Indices: 7367612--7367684 Score: 128
Period size: 20 Copynumber: 3.6 Consensus size: 20
7367602 CGATAGTCAG
* *
7367612 ATTCGCGTTGCGATTTACAT
1 ATTCGCATTGCGATTTACGT
7367632 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
7367652 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
7367672 ATTCGCATTGCGA
1 ATTCGCATTGCGA
7367685 ATTAGGAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:7367705 original size:21 final size:21
Alignment explanation
Indices: 7367681--7367735 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
7367671 TATTCGCATT
7367681 GCGAA-TTAGGAAAATCGCAAC
1 GCGAATTTA-GAAAATCGCAAC
*
7367702 GCGAATTTAGAAAATCGCAAT
1 GCGAATTTAGAAAATCGCAAC
*
7367723 GCGATAGTTAGAA
1 GCGA-ATTTAGAA
7367736 TCGTGTTGCG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 20 0.67
22 10 0.33
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.20
Consensus pattern (21 bp):
GCGAATTTAGAAAATCGCAAC
Found at i:7369393 original size:29 final size:29
Alignment explanation
Indices: 7369351--7369410 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
7369341 ATTCTACAGT
*
7369351 GATCTCGTAGGACGCCATGCAATCTAGGC
1 GATCTCGTAGGACGCCATGCAATCCAGGC
*
7369380 GATCTTGTAGGACGCCATGCAATCCAGGC
1 GATCTCGTAGGACGCCATGCAATCCAGGC
7369409 GA
1 GA
7369411 CATACGGGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.27, G:0.28, T:0.20
Consensus pattern (29 bp):
GATCTCGTAGGACGCCATGCAATCCAGGC
Found at i:7369436 original size:20 final size:21
Alignment explanation
Indices: 7369411--7369456 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
7369401 ATCCAGGCGA
7369411 CATAC-GGGAGACATACGAGC
1 CATACGGGGAGACATACGAGC
*
7369431 CATACGGGGTGACATACGAGC
1 CATACGGGGAGACATACGAGC
7369452 CATAC
1 CATAC
7369457 AAGCCATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.33, C:0.26, G:0.28, T:0.13
Consensus pattern (21 bp):
CATACGGGGAGACATACGAGC
Found at i:7369587 original size:29 final size:29
Alignment explanation
Indices: 7369543--7369637 Score: 154
Period size: 29 Copynumber: 3.3 Consensus size: 29
7369533 CTCAATGGAG
* * **
7369543 AGGTCTCCATGCAGTCTGGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
7369572 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
7369601 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
7369630 AGGTCGCC
1 AGGTCGCC
7369638 CCGGCGTCGC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.14, C:0.31, G:0.32, T:0.24
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:7370159 original size:45 final size:45
Alignment explanation
Indices: 7370056--7370187 Score: 134
Period size: 45 Copynumber: 3.0 Consensus size: 45
7370046 TACATAAATT
*
7370056 AAAAATTATTTAATTAGTATATG-TTTG---ATAGTTA--TATAGTTA
1 AAAAATTATTTAATTAGT-T-TGTTTTGTTAATAGTTAGTTATA-TAA
*
7370098 AAAAA-TAATTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
1 AAAAATTATTTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
*
7370142 AAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAATTATTTAATTAGTTTGT-TTTGTT-AATAGTT-AGTTATAT
7370188 TTGTTTGTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
39 2 0.03
40 5 0.07
41 11 0.14
42 5 0.07
43 7 0.09
44 7 0.09
45 19 0.25
46 5 0.07
47 7 0.09
48 8 0.11
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (45 bp):
AAAAATTATTTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
Found at i:7370265 original size:33 final size:32
Alignment explanation
Indices: 7370228--7370309 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 32
7370218 TTAGTTAGTA
7370228 AGTTTATTAGTAGTATATTA-TAATGA-AAAAAAT
1 AGTTTATTAGTAGT-T-TTAGTAAT-ATAAAAAAT
*
7370261 AGTTTATTAGTTAGTTTTAGTTATATAAAAAAT
1 AGTTTATTAG-TAGTTTTAGTAATATAAAAAAT
* *
7370294 ATTTTATTAGTTGTTT
1 AGTTTATTAGTAGTTT
7370310 AAGGGTTTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
32 9 0.21
33 30 0.70
34 4 0.09
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (32 bp):
AGTTTATTAGTAGTTTTAGTAATATAAAAAAT
Found at i:7372970 original size:26 final size:24
Alignment explanation
Indices: 7372910--7372970 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 24
7372900 TACTAATATT
*
7372910 ATTAATAATGATTTAATAATTATT
1 ATTAATAATGATTTAATAATTATG
* *
7372934 ATTAATCTAATGATTTGATATTTAATG
1 ATTAA--TAATGATTTAATAATT-ATG
7372961 ATTTAATAAT
1 A-TTAATAAT
7372971 AATATGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 5 0.17
26 18 0.60
27 3 0.10
28 4 0.13
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (24 bp):
ATTAATAATGATTTAATAATTATG
Found at i:7373357 original size:14 final size:14
Alignment explanation
Indices: 7373338--7373364 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7373328 CACATACACA
7373338 ACAACAAAAAATAG
1 ACAACAAAAAATAG
7373352 ACAACAAAAAATA
1 ACAACAAAAAATA
7373365 ATAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.15, G:0.04, T:0.07
Consensus pattern (14 bp):
ACAACAAAAAATAG
Found at i:7373357 original size:17 final size:17
Alignment explanation
Indices: 7373335--7373367 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7373325 TTACACATAC
7373335 ACAACAACAAAA-AATAG
1 ACAACAA-AAAATAATAG
7373352 ACAACAAAAAATAATA
1 ACAACAAAAAATAATA
7373368 AATTACTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.73, C:0.15, G:0.03, T:0.09
Consensus pattern (17 bp):
ACAACAAAAAATAATAG
Found at i:7373802 original size:21 final size:21
Alignment explanation
Indices: 7373769--7373817 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
7373759 AATATAATAT
7373769 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
7373790 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
7373811 ATTAACT
1 A-TAACT
7373818 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:7374338 original size:12 final size:12
Alignment explanation
Indices: 7374321--7374345 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7374311 TCCATGGCGA
7374321 CCTACCACCTAC
1 CCTACCACCTAC
7374333 CCTACCACCTAC
1 CCTACCACCTAC
7374345 C
1 C
7374346 ATGTCGTCGG
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:0.24, C:0.60, G:0.00, T:0.16
Consensus pattern (12 bp):
CCTACCACCTAC
Found at i:7374589 original size:31 final size:31
Alignment explanation
Indices: 7374554--7374618 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
7374544 CCCATGCATA
7374554 GCACCAAAGCAGCATCAGCGAGCAACAGCGG
1 GCACCAAAGCAGCATCAGCGAGCAACAGCGG
*
7374585 GCACCAAAGCAGCATCAGTGAGCAACAGCGG
1 GCACCAAAGCAGCATCAGCGAGCAACAGCGG
7374616 GCA
1 GCA
7374619 AAGAACCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.35, C:0.31, G:0.29, T:0.05
Consensus pattern (31 bp):
GCACCAAAGCAGCATCAGCGAGCAACAGCGG
Found at i:7374690 original size:29 final size:29
Alignment explanation
Indices: 7374648--7374703 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
7374638 AAATAATGAT
7374648 GGACGCCGGGCGTGCATGGCGACCTATAA
1 GGACGCCGGGCGTGCATGGCGACCTATAA
*
7374677 GGACGTCGGGCGTGCATGGCGACCTAT
1 GGACGCCGGGCGTGCATGGCGACCTAT
7374704 GTTGCCACTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.18, C:0.27, G:0.39, T:0.16
Consensus pattern (29 bp):
GGACGCCGGGCGTGCATGGCGACCTATAA
Found at i:7374876 original size:5 final size:5
Alignment explanation
Indices: 7374868--7374900 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
7374858 TATTATATGT
7374868 ATGCC ATGCC ATGCC ATGCC ATGCC ATGCC ATG
1 ATGCC ATGCC ATGCC ATGCC ATGCC ATGCC ATG
7374901 ATCAAGGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (5 bp):
ATGCC
Found at i:7375958 original size:20 final size:20
Alignment explanation
Indices: 7375935--7375989 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
7375925 TGACCGGGTT
7375935 TTATATTTTTATTTTTATTA
1 TTATATTTTTATTTTTATTA
*
7375955 TTATA-ATTTATTTATTATTA
1 TTATATTTTTATTT-TTATTA
7375975 TTATTATTTTT-TTTT
1 TTA-TATTTTTATTTT
7375990 GCAGATCCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 7 0.23
20 15 0.50
21 5 0.17
22 3 0.10
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (20 bp):
TTATATTTTTATTTTTATTA
Found at i:7377186 original size:24 final size:24
Alignment explanation
Indices: 7377142--7377188 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
7377132 TTATTTATCT
* *
7377142 TTGTTATCTATTGTATTTATTTTG
1 TTGTTATCTATTATATATATTTTG
7377166 TTGTTAT-TATTATATAATATTTT
1 TTGTTATCTATTATAT-ATATTTT
7377189 TTCTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (24 bp):
TTGTTATCTATTATATATATTTTG
Found at i:7378919 original size:18 final size:19
Alignment explanation
Indices: 7378898--7378942 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
7378888 ATTTATACAT
7378898 TTTGCATTTT-TTATTTTC
1 TTTGCATTTTGTTATTTTC
7378916 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTGTTATTTTC
7378935 TTTGCATT
1 TTTGCATT
7378943 CACGTTAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.11, C:0.11, G:0.09, T:0.69
Consensus pattern (19 bp):
TTTGCATTTTGTTATTTTC
Found at i:7382454 original size:106 final size:106
Alignment explanation
Indices: 7382264--7383139 Score: 1328
Period size: 106 Copynumber: 8.2 Consensus size: 106
7382254 AAAAGTTGTC
* * * * *
7382264 TGTCAACAAACAACTT-TCCAATTTCATTTAGAGTCTATTTCAACTTCGCAGCGAAGAAAATTGG
1 TGTCAACAAACAACTTCT-CAATTTC----AGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
7382328 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
61 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * * * *
7382374 CGTCAATAAACAA-TTTTCCACTTCTAGAGCCAATTTCAACTTCACAGCGAAGGATAGTGGACTC
1 TGTCAACAAACAACTTCTCAATTTC-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
*
7382438 CAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGT
65 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
7382480 TGT-AACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
7382544 AGACAACGCAAGTTCAACTTCACGAAGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * *
7382585 TGTCAATAAATAACTTCCCAATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
7382650 AGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
7382691 TGTCAACAAATAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
7382756 AGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
7382797 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
7382862 AGACAACGCAAGTTCAACTTCACGACGAAGGTACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
7382903 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
7382968 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * * * *
7383009 TATCAATAAACAATTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * *
7383074 AGACAATGCAAGTTCAACTTCATGACAAAGGGACCACTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
7383115 TGTCAATAAACAACTT-TCAACTTCA
1 TGTCAACAAACAACTTCTCAATTTCA
7383140 CGACGGAGGA
Statistics
Matches: 709, Mismatches: 54, Indels: 11
0.92 0.07 0.01
Matches are distributed among these distances:
105 95 0.13
106 595 0.84
109 7 0.01
110 12 0.02
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (106 bp):
TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
Found at i:7383506 original size:84 final size:83
Alignment explanation
Indices: 7383351--7383789 Score: 443
Period size: 84 Copynumber: 5.2 Consensus size: 83
7383341 AGGCTATCTG
** * * * * * * *
7383351 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGG
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTCAAGG
* *
7383416 CTAGAAGGGTTATCTGTCA
65 CAAGAAGGGTTATCTGCCA
* * * * *
7383435 CCAAAAGACCTTCGATTTCGACTATGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGT
1 CC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTCAAGG
*
7383500 CAAGAAGGGCTATCTG---
65 CAAGAAGGGTTATCTGCCA
** * * * * *
7383516 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAGCTCAAGG
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTCAAGG
*
7383581 CTAGAAGGGTTATCTGCCAA
65 CAAGAAGGGTTATCTGCC-A
* * * *
7383601 CCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGTACATCATTTGCAACATAGCTCAAGGA
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTCAAGGC
*
7383666 AAGAAGGGTTATTTGCCAA
66 AAGAAGGGTTATCTGCC-A
* * * * *
7383685 CCAAAGACCTTCGAGTTTGACCACGCTCAGCTCCGAGGCACATCATTTGCAGCATAGCTTAAGTC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTCAAGGC
* *
7383750 GAGAAGGGCTATCTGCCAA
66 AAGAAGGGTTATCTGCC-A
* *
7383769 CAAAAGACCTGACGAGTTCGA
1 CCAAAGACCT-TCGAGTTCGA
7383790 TTTCATTCAG
Statistics
Matches: 290, Mismatches: 58, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
80 23 0.08
81 43 0.15
84 167 0.58
85 57 0.20
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (83 bp):
CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTCAAGGC
AAGAAGGGTTATCTGCCA
Found at i:7383622 original size:165 final size:165
Alignment explanation
Indices: 7383338--7383789 Score: 577
Period size: 165 Copynumber: 2.7 Consensus size: 165
7383328 ATCCAACTCG
7383338 AGAA-GGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
1 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
* * * * *
7383402 AACATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAAGACCTTCGATTTCGACTATGCTCAG
66 AGCATAGCTCAAGGCTAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTCAG
** * **
7383466 CTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCA
130 CTCCAAGGCACATCATTTGCAACATAGCTCAAGGAA
7383502 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
1 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
*
7383567 AGCATAGCTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGC
66 AGCATAGCTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
*
7383632 TCCAAGGTACATCATTTGCAACATAGCTCAAGGAA
131 TCCAAGGCACATCATTTGCAACATAGCTCAAGGAA
* * ** * ** * *
7383667 AGAAGGGTTATTTGCCAACCAAAGACCTTCGAGTTTGACCACGCTCAGCTCCGA-GGCACATCAT
1 AGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCAT
* * * * * * *
7383731 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACAAAAGACCTGACGAGTTCGA
62 TTACAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCT-TCGAGTTCGA
7383790 TTTCATTCAG
Statistics
Matches: 252, Mismatches: 29, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
164 4 0.02
165 156 0.62
166 3 0.01
168 52 0.21
169 37 0.15
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (165 bp):
AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
AGCATAGCTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
TCCAAGGCACATCATTTGCAACATAGCTCAAGGAA
Found at i:7384066 original size:26 final size:25
Alignment explanation
Indices: 7384009--7384069 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
7383999 TTTGACCGGG
* * *
7384009 TTTTATATTTATATTTTTATTATTA
1 TTTTTTATTTATATTATTATTAATA
**
7384034 TAATTTATTTATTATTATTATTAATA
1 TTTTTTATTTA-TATTATTATTAATA
7384060 TTTTTTATTT
1 TTTTTTATTT
7384070 TTTTTGCAGG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTTTTATTTATATTATTATTAATA
Found at i:7390725 original size:76 final size:75
Alignment explanation
Indices: 7390613--7390799 Score: 286
Period size: 76 Copynumber: 2.5 Consensus size: 75
7390603 AACAGTGGGG
* **
7390613 GGGAATCGATACCCCC-TGGGGGGAATCGGTTCCCTCCGAGCACACTGTTATTTCTCGGAGCAAA
1 GGGAATCGGTACCCCCTTGGGGGGAATCGGTTCCCTCCGAGCACACTGGAATTTCTCGGAGCAAA
7390677 ACAATTCAGA
66 ACAATTCAGA
* *
7390687 GGGAATCGGTACCCCCTTGGGGAGGAATCGGTTCCCTCCGAGCATACTGGAATTTCTCGGAGCCA
1 GGGAATCGGTACCCCCTTGGGG-GGAATCGGTTCCCTCCGAGCACACTGGAATTTCTCGGAGCAA
* *
7390752 AACCATTCAGG
65 AACAATTCAGA
7390763 GGGAATCGGTACCCCCTTGGGGGGGAATCGGTTCCCT
1 GGGAATCGGTACCCCCTT-GGGGGGAATCGGTTCCCT
7390800 TTGGACAAAC
Statistics
Matches: 103, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
74 15 0.15
75 5 0.05
76 79 0.77
77 4 0.04
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.21
Consensus pattern (75 bp):
GGGAATCGGTACCCCCTTGGGGGGAATCGGTTCCCTCCGAGCACACTGGAATTTCTCGGAGCAAA
ACAATTCAGA
Found at i:7390799 original size:20 final size:21
Alignment explanation
Indices: 7390761--7390803 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
7390751 AAACCATTCA
7390761 GGGGGAATCGGTACCCCCTTGG
1 GGGGGAATCGGTA-CCCCTTGG
* *
7390783 GGGGGAATCGGTTCCCTTTGG
1 GGGGGAATCGGTACCCCTTGG
7390804 ACAAACTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.12, C:0.23, G:0.42, T:0.23
Consensus pattern (21 bp):
GGGGGAATCGGTACCCCTTGG
Found at i:7393661 original size:22 final size:23
Alignment explanation
Indices: 7393615--7393661 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
7393605 TCCCCTAAGT
*
7393615 GGAATCGGTTCCGCTTCAAAGGG
1 GGAATCGGTTCCCCTTCAAAGGG
7393638 GGAATCGGTTCCCCTTC-AAGGG
1 GGAATCGGTTCCCCTTCAAAGGG
7393660 GG
1 GG
7393662 TATTGATTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.19, C:0.23, G:0.36, T:0.21
Consensus pattern (23 bp):
GGAATCGGTTCCCCTTCAAAGGG
Found at i:7393671 original size:22 final size:23
Alignment explanation
Indices: 7393615--7393672 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
7393605 TCCCCTAAGT
* *
7393615 GGAATCGGTTCCGCTTCAAAGGG
1 GGAATCGATTCCCCTTCAAAGGG
*
7393638 GGAATCGGTTCCCCTTC-AAGGG
1 GGAATCGATTCCCCTTCAAAGGG
* *
7393660 GGTATTGATTCCC
1 GGAATCGATTCCC
7393673 TTTGCACCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 15 0.48
23 16 0.52
ACGTcount: A:0.19, C:0.24, G:0.31, T:0.26
Consensus pattern (23 bp):
GGAATCGATTCCCCTTCAAAGGG
Found at i:7398975 original size:54 final size:54
Alignment explanation
Indices: 7398833--7398975 Score: 189
Period size: 54 Copynumber: 2.6 Consensus size: 54
7398823 ATACCCCCTG
* * * *
7398833 GGGGGAATCGGTTCCCTCCAAGCACACTTTTATTTCTCGAAGCAAAACCATTCA
1 GGGGGAATCGGTTCCCTCCGAGCAAACTGTAATTTCTCGAAGCAAAACCATTCA
* * * *
7398887 GGGGGAATCGGTTCCCTCCGAGCATACTGGAATTTCTCGGAGCCAAACCATTCA
1 GGGGGAATCGGTTCCCTCCGAGCAAACTGTAATTTCTCGAAGCAAAACCATTCA
*
7398941 GGGGGAATCGGTTCCCTCTG-GACAAACTGTAATTT
1 GGGGGAATCGGTTCCCTCCGAG-CAAACTGTAATTT
7398976 TTTGCTTTGA
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.01
54 77 0.99
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (54 bp):
GGGGGAATCGGTTCCCTCCGAGCAAACTGTAATTTCTCGAAGCAAAACCATTCA
Found at i:7399451 original size:15 final size:15
Alignment explanation
Indices: 7399431--7399495 Score: 53
Period size: 15 Copynumber: 4.4 Consensus size: 15
7399421 TTATTTTTTA
*
7399431 TTTTTATTTAATATT
1 TTTTTATTTAATAAT
*
7399446 TTTTTATTTTATAAT
1 TTTTTATTTAATAAT
* *
7399461 ATTTTATTGTACTAAT
1 TTTTTATT-TAATAAT
* *
7399477 TATTT-TTT-ATTAT
1 TTTTTATTTAATAAT
7399490 TTTTTA
1 TTTTTA
7399496 CTTGTAAAAT
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
13 7 0.18
14 1 0.03
15 22 0.58
16 8 0.21
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTTTATTTAATAAT
Found at i:7399460 original size:18 final size:20
Alignment explanation
Indices: 7399424--7399465 Score: 61
Period size: 18 Copynumber: 2.1 Consensus size: 20
7399414 AAAAATCTTA
7399424 TTTTTTATTTTTATTTAATAT
1 TTTTTTATTTTTA-TTAATAT
7399445 TTTTTTA-TTTTA-TAATAT
1 TTTTTTATTTTTATTAATAT
7399463 TTT
1 TTT
7399466 ATTGTACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.43
20 5 0.24
21 7 0.33
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTTATTTTTATTAATAT
Found at i:7400774 original size:2 final size:2
Alignment explanation
Indices: 7400767--7400792 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7400757 TTGATAAGAA
7400767 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7400793 TAGTTCTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7401348 original size:137 final size:137
Alignment explanation
Indices: 7401102--7401376 Score: 523
Period size: 137 Copynumber: 2.0 Consensus size: 137
7401092 CAAAAGAATT
*
7401102 CATCATAAATTACAGCGGAAATCAATTCAACTTTTACAAAATATAGGAGTCCTCCAAAATACGTA
1 CATCATAAATTACAGCGGAAATCAATTCAACTTTTACAAAATATAAGAGTCCTCCAAAATACGTA
7401167 CATCACAACCATATGGTTTAAAATCAAAATAGAGTTATGACTCGATTATACAAGGTCCATATAGA
66 CATCACAACCATATGGTTTAAAATCAAAATAGAGTTATGACTCGATTATACAAGGTCCATATAGA
7401232 ATACATG
131 ATACATG
*
7401239 CATCATAAATTACAGCGGAAATCAATTCAACTTTTACAAAATATAAGAGTCCTCCAAGATACGTA
1 CATCATAAATTACAGCGGAAATCAATTCAACTTTTACAAAATATAAGAGTCCTCCAAAATACGTA
*
7401304 CATCACAACCATATGGTTTAAAATCAAAATAGAGTTATGACTCGATTATACAAGGTCTATATAGA
66 CATCACAACCATATGGTTTAAAATCAAAATAGAGTTATGACTCGATTATACAAGGTCCATATAGA
7401369 ATACATG
131 ATACATG
7401376 C
1 C
7401377 CCTCTACAAA
Statistics
Matches: 135, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 135 1.00
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.27
Consensus pattern (137 bp):
CATCATAAATTACAGCGGAAATCAATTCAACTTTTACAAAATATAAGAGTCCTCCAAAATACGTA
CATCACAACCATATGGTTTAAAATCAAAATAGAGTTATGACTCGATTATACAAGGTCCATATAGA
ATACATG
Found at i:7405056 original size:30 final size:29
Alignment explanation
Indices: 7404999--7405077 Score: 90
Period size: 31 Copynumber: 2.7 Consensus size: 29
7404989 TAGTGACTAG
7404999 AATATAAAAATT-TAAAAGTTTGGACT-AA
1 AATAT-AAAATTGTAAAAGTTTGGACTAAA
* *
7405027 AGTATAAAGTTGTAAAAGTTTAGGGACTAAA
1 AATATAAAATTGTAAAAGTTT--GGACTAAA
*
7405058 AATATAAAATTTTAAAAGTT
1 AATATAAAATTGTAAAAGTT
7405078 ATGTTTTGGG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
27 5 0.12
28 13 0.31
30 5 0.12
31 19 0.45
ACGTcount: A:0.51, C:0.03, G:0.14, T:0.33
Consensus pattern (29 bp):
AATATAAAATTGTAAAAGTTTGGACTAAA
Found at i:7405924 original size:5 final size:5
Alignment explanation
Indices: 7405914--7405967 Score: 63
Period size: 5 Copynumber: 10.6 Consensus size: 5
7405904 GTTGTTGTGA
* * * *
7405914 ATTTG ATTTG ATTTG ATTTG ATTTG TTTTG CTTTG AATTTG ATTGG AATTG
1 ATTTG ATTTG ATTTG ATTTG ATTTG ATTTG ATTTG -ATTTG ATTTG ATTTG
7405965 ATT
1 ATT
7405968 GGAAATGGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
5 37 0.90
6 4 0.10
ACGTcount: A:0.20, C:0.02, G:0.20, T:0.57
Consensus pattern (5 bp):
ATTTG
Found at i:7407423 original size:9 final size:9
Alignment explanation
Indices: 7407411--7407455 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
7407401 AAGAGATATA
7407411 AATGATAAT
1 AATGATAAT
*
7407420 AATGCTAAT
1 AATGATAAT
*
7407429 AATGATAAG
1 AATGATAAT
*
7407438 AATAATAAT
1 AATGATAAT
*
7407447 AAGGATAAT
1 AATGATAAT
7407456 GAAATGATAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.56, C:0.02, G:0.13, T:0.29
Consensus pattern (9 bp):
AATGATAAT
Found at i:7408113 original size:36 final size:36
Alignment explanation
Indices: 7408067--7408136 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
7408057 AAAATATGGA
*
7408067 TTTGAAATGATCTGATTTCGAAA-AGAAAAGTACAAT
1 TTTGAAATGATCTGAATT-GAAATAGAAAAGTACAAT
* *
7408103 TTTGCAATGATGTGAATTGAAATAGAAAAGTACA
1 TTTGAAATGATCTGAATTGAAATAGAAAAGTACA
7408137 GATCTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 4 0.13
36 26 0.87
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (36 bp):
TTTGAAATGATCTGAATTGAAATAGAAAAGTACAAT
Found at i:7416093 original size:14 final size:15
Alignment explanation
Indices: 7416064--7416093 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7416054 AACATTTAGC
7416064 AGATAAACTAATATG
1 AGATAAACTAATATG
7416079 AGATAAACT-ATATG
1 AGATAAACTAATATG
7416093 A
1 A
7416094 TTTACTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (15 bp):
AGATAAACTAATATG
Found at i:7416958 original size:2 final size:2
Alignment explanation
Indices: 7416953--7416978 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7416943 AATATTTAAG
7416953 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7416979 GATTAATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7422545 original size:24 final size:24
Alignment explanation
Indices: 7422500--7422547 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
7422490 TTTATTTTTT
* *
7422500 TAAAATTTTCTTTTTTTAAAAAAA
1 TAAAATTTTCTATTATTAAAAAAA
*
7422524 TAAAATTTT-TATTATTAGAAAAA
1 TAAAATTTTCTATTATTAAAAAAA
7422547 T
1 T
7422548 TTAAAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
TAAAATTTTCTATTATTAAAAAAA
Found at i:7422552 original size:25 final size:25
Alignment explanation
Indices: 7422498--7422553 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
7422488 GGTTTATTTT
* *
7422498 TTTAAAATTTTCTTTTTTTAAAAAA
1 TTTAAAATTTTCTATTATTAAAAAA
*
7422523 -ATAAAATTTT-TATTATTAGAAAAA
1 TTTAAAATTTTCTATTATTA-AAAAA
7422547 TTTAAAA
1 TTTAAAA
7422554 AAAAAACATT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
TTTAAAATTTTCTATTATTAAAAAA
Found at i:7422633 original size:31 final size:29
Alignment explanation
Indices: 7422551--7422634 Score: 73
Period size: 31 Copynumber: 2.8 Consensus size: 29
7422541 GAAAAATTTA
*
7422551 AAAAAAAAACATTATG-CACCTAAAAGTAT
1 AAAAGAAAACATTA-GACACCTAAAAGTAT
* *
7422580 AATAGAAAAAATT-GTAAGCACCTAAAAGTAT
1 AAAAGAAAACATTAG--A-CACCTAAAAGTAT
7422611 AACGAAGAAAACATTAGACACCTA
1 AA--AAGAAAACATTAGACACCTA
7422635 TTGTTAGCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
27 1 0.02
29 10 0.23
31 21 0.49
32 1 0.02
33 9 0.21
34 1 0.02
ACGTcount: A:0.56, C:0.14, G:0.11, T:0.19
Consensus pattern (29 bp):
AAAAGAAAACATTAGACACCTAAAAGTAT
Found at i:7424339 original size:17 final size:17
Alignment explanation
Indices: 7424317--7424349 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7424307 GACTTTTTGG
*
7424317 TCAAAGTCAACGTCAAA
1 TCAAAGTCAAAGTCAAA
7424334 TCAAAGTCAAAGTCAA
1 TCAAAGTCAAAGTCAA
7424350 CGTCAACTGG
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:0.48, C:0.21, G:0.12, T:0.18
Consensus pattern (17 bp):
TCAAAGTCAAAGTCAAA
Found at i:7424356 original size:6 final size:6
Alignment explanation
Indices: 7424316--7424355 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
7424306 TGACTTTTTG
* *
7424316 GTCAAA GTCAAC GTCAAA -TCAAA GTCAAA GTCAAC GTCAA
1 GTCAAA GTCAAA GTCAAA GTCAAA GTCAAA GTCAAA GTCAA
7424356 CTGGTTTGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.45, C:0.23, G:0.15, T:0.17
Consensus pattern (6 bp):
GTCAAA
Found at i:7426429 original size:16 final size:17
Alignment explanation
Indices: 7426392--7426430 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
7426382 GATCACTAAT
7426392 TATTTTTAATTTGGTAC
1 TATTTTTAATTTGGTAC
* *
7426409 TATTTTTATTTTGTTAC
1 TATTTTTAATTTGGTAC
7426426 -ATTTT
1 TATTTT
7426431 AGTCCTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.67
Consensus pattern (17 bp):
TATTTTTAATTTGGTAC
Found at i:7430606 original size:36 final size:36
Alignment explanation
Indices: 7430539--7430608 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
7430529 TCTTAGGTCC
***
7430539 ATAAGGAATTACCAGCTTGATCGGTGGTGAACCTAT
1 ATAAGGAATTACCAGCTTGATCAAAGGTGAACCTAT
** *
7430575 ATAAGGAATTATTAGCTTGATCAAAGTTGAACCT
1 ATAAGGAATTACCAGCTTGATCAAAGGTGAACCT
7430609 GCAGAGACTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (36 bp):
ATAAGGAATTACCAGCTTGATCAAAGGTGAACCTAT
Found at i:7439208 original size:38 final size:38
Alignment explanation
Indices: 7439157--7439243 Score: 147
Period size: 38 Copynumber: 2.3 Consensus size: 38
7439147 CCCATCCCAT
* * *
7439157 TTAAAAATTTTATATTGTTAATATATGTGTGTCTACCC
1 TTAAAAATATTATATTGTTAACATATGTGTGCCTACCC
7439195 TTAAAAATATTATATTGTTAACATATGTGTGCCTACCC
1 TTAAAAATATTATATTGTTAACATATGTGTGCCTACCC
7439233 TTAAAAATATT
1 TTAAAAATATT
7439244 TTTGGATCCG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (38 bp):
TTAAAAATATTATATTGTTAACATATGTGTGCCTACCC
Found at i:7440075 original size:21 final size:21
Alignment explanation
Indices: 7440049--7440091 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
7440039 ATTTTTTTTT
* *
7440049 ATATTATTTTAATAATAAAAA
1 ATATTATTTTAAAAAGAAAAA
7440070 ATATTATTTTAAAAAGAAAAA
1 ATATTATTTTAAAAAGAAAAA
7440091 A
1 A
7440092 CAAATTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATTATTTTAAAAAGAAAAA
Found at i:7443786 original size:17 final size:17
Alignment explanation
Indices: 7443757--7443789 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7443747 GAGTTAAGTG
7443757 TATTTCAATTAAAATAC
1 TATTTCAATTAAAATAC
7443774 TATTT-AATATAAAATA
1 TATTTCAAT-TAAAATA
7443790 TTTATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
TATTTCAATTAAAATAC
Found at i:7444651 original size:3 final size:3
Alignment explanation
Indices: 7444638--7445007 Score: 208
Period size: 3 Copynumber: 123.3 Consensus size: 3
7444628 TTTTTATCCA
*
7444638 TAT TA- TAT TAT TAT TAA TAT TAT TAT TAT TAT TA- TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
*
7444682 TAT TA- TAT TAT TAT CAT TAT TAT TAT ATAT TAT TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TA-T TAT
*
7444728 TAT TAT TA- TAT TATT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
* * * * *
7444774 TA- TAT TA- AAT ATAT TA- AAT ACAT ATAA TATT TACCG T-T TA- TAT
1 TAT TAT TAT TAT -TAT TAT TAT -TAT -TAT TA-T TA--T TAT TAT TAT
* * * * * * * *
7444817 CAT TGAACT T-T TAAT T-T TGT CAAT TA- TAGCT GAA GA- TAC TA- AAT
1 TAT T--A-T TAT T-AT TAT TAT -TAT TAT TA--T TAT TAT TAT TAT TAT
*
7444861 T-T T-T TAT CCA- TATT TAT TAT TAT TAT TAT TATT TAT TA- TAT TAT
1 TAT TAT TAT -TAT TA-T TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* *
7444905 TAT TAT TAT TAT TAT TA- TAT TAT TAT CAT TAT TAA TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
7444952 TAT TAT TAT TAT TAT TAT TAT T-T CAT ATAT TAT TA- TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
7444995 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
7445008 TATATTAAAT
Statistics
Matches: 292, Mismatches: 34, Indels: 82
0.72 0.08 0.20
Matches are distributed among these distances:
2 37 0.13
3 217 0.74
4 33 0.11
5 3 0.01
6 2 0.01
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:7447044 original size:18 final size:18
Alignment explanation
Indices: 7447002--7447045 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
7446992 TTTCAAATTT
7447002 TTTTATTTATTATTTTTA
1 TTTTATTTATTATTTTTA
**
7447020 TAATATTTA-TATGTTTTA
1 TTTTATTTATTAT-TTTTA
7447038 TTTTATTT
1 TTTTATTT
7447046 GCAAGTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTATTTATTATTTTTA
Found at i:7451446 original size:64 final size:61
Alignment explanation
Indices: 7451367--7451493 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 61
7451357 AACAACACTA
7451367 ATCGAGCAGAGTCCAGAGGATCTCGAAAG-AAATGAAAGGTTATCTTTTACACCTTTACCAGTAC
1 ATCGAGCAGAGTCCAGAGGATCTCGAAAGAAAATGAAAGGTTA--TTTTACA-CTTTA-CAGTAC
7451431 ATCGAGCAGAGTCCAGAGGATCTCGAAAGAAAATGAAAGGTTATTTTACACTTTACAGTAC
1 ATCGAGCAGAGTCCAGAGGATCTCGAAAGAAAATGAAAGGTTATTTTACACTTTACAGTAC
7451492 AT
1 AT
7451494 ATGCAGAGAT
Statistics
Matches: 62, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
61 8 0.13
62 5 0.08
63 7 0.11
64 29 0.47
65 13 0.21
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (61 bp):
ATCGAGCAGAGTCCAGAGGATCTCGAAAGAAAATGAAAGGTTATTTTACACTTTACAGTAC
Found at i:7457288 original size:1 final size:1
Alignment explanation
Indices: 7457282--7457349 Score: 55
Period size: 1 Copynumber: 68.0 Consensus size: 1
7457272 ATGCTTGAAG
* * * * * * * * *
7457282 AAAAAAAAAAGAAAAAAAAAAGAAAAAAAAAGAAAAGAAAATAATAGAAAATAAAAAATAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
7457347 AAA
1 AAA
7457350 GGGGGGTCAA
Statistics
Matches: 49, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.87, C:0.00, G:0.07, T:0.06
Consensus pattern (1 bp):
A
Found at i:7457295 original size:11 final size:11
Alignment explanation
Indices: 7457279--7457349 Score: 81
Period size: 11 Copynumber: 6.1 Consensus size: 11
7457269 ATTATGCTTG
7457279 AAGAAAAAAAA
1 AAGAAAAAAAA
7457290 AAGAAAAAAAA
1 AAGAAAAAAAA
7457301 AAG-AAAAAAA
1 AAGAAAAAAAA
7457311 AAGAAAAGAAAATA
1 AAG-AAA-AAAA-A
7457325 ATAGAAAATAAAA
1 A-AGAAAA-AAAA
*
7457338 AATAAAAAAAA
1 AAGAAAAAAAA
7457349 A
1 A
7457350 GGGGGGTCAA
Statistics
Matches: 53, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
10 10 0.19
11 19 0.36
12 7 0.13
13 7 0.13
14 8 0.15
15 2 0.04
ACGTcount: A:0.86, C:0.00, G:0.08, T:0.06
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:7457298 original size:10 final size:10
Alignment explanation
Indices: 7457283--7457349 Score: 64
Period size: 10 Copynumber: 6.7 Consensus size: 10
7457273 TGCTTGAAGA
7457283 AAAAAAAAAG
1 AAAAAAAAAG
7457293 AAAAAAAAAAG
1 -AAAAAAAAAG
7457304 AAAAAAAAAG
1 AAAAAAAAAG
* *
7457314 AAAAGAAAAT
1 AAAAAAAAAG
* * *
7457324 AATAGAAAAT
1 AAAAAAAAAG
*
7457334 AAAAAATAA-
1 AAAAAAAAAG
7457343 AAAAAAA
1 AAAAAAA
7457350 GGGGGGTCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
9 6 0.12
10 33 0.67
11 10 0.20
ACGTcount: A:0.87, C:0.00, G:0.07, T:0.06
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:7457302 original size:15 final size:15
Alignment explanation
Indices: 7457282--7457348 Score: 64
Period size: 15 Copynumber: 4.5 Consensus size: 15
7457272 ATGCTTGAAG
*
7457282 AAAAAAA-AAAGAAA
1 AAAAAAAGAAAAAAA
7457296 AAAAAAAGAAAAAAA
1 AAAAAAAGAAAAAAA
* *
7457311 AAGAAAAGAAAATAA
1 AAAAAAAGAAAAAAA
* * *
7457326 TAGAAAATAAAAAATA
1 AAAAAAAGAAAAAA-A
7457342 AAAAAAA
1 AAAAAAA
7457349 AGGGGGGTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
14 7 0.16
15 30 0.70
16 6 0.14
ACGTcount: A:0.87, C:0.00, G:0.07, T:0.06
Consensus pattern (15 bp):
AAAAAAAGAAAAAAA
Found at i:7458602 original size:52 final size:52
Alignment explanation
Indices: 7458482--7458931 Score: 815
Period size: 52 Copynumber: 8.8 Consensus size: 52
7458472 TGAATGTGCT
7458482 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
7458533 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
7458585 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
7458637 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
7458689 CATAGCATCTTCTGGAAGTG-TC-TTGAGTTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
7458739 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
*
7458791 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA--TGGTT-GATCATAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAA
7458841 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
* *
7458893 CATAGCATTTTCTGGAAGTGTTC-TTGAGATATCTGATCT
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
7458932 AATGGATAGA
Statistics
Matches: 388, Mismatches: 4, Indels: 14
0.96 0.01 0.03
Matches are distributed among these distances:
49 2 0.01
50 94 0.24
51 61 0.16
52 229 0.59
53 2 0.01
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.37
Consensus pattern (52 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
Found at i:7458763 original size:154 final size:156
Alignment explanation
Indices: 7458482--7458931 Score: 815
Period size: 154 Copynumber: 2.9 Consensus size: 156
7458472 TGAATGTGCT
7458482 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TGGACAGAACATAGCATCTTCT
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCT
7458546 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTT
66 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTT
7458611 GAGTTATCTGATCTGGTTGGACAGAA
131 GAGTTATCTGATCTGGTTGGACAGAA
7458637 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCT
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCT
7458702 GGAAGTG-TC-TTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTT
66 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTT
7458765 GAGTTATCTGATCTGGTTGGACAGAA
131 GAGTTATCTGATCTGGTTGGACAGAA
*
7458791 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA--TGGTT-GATCATAACATAGCATCTTC
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAACATAGCATCTTC
*
7458853 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATTTTCTGGAAGTGTTC-T
65 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTT
*
7458917 TGAGATATCTGATCT
130 TGAGTTATCTGATCT
7458932 AATGGATAGA
Statistics
Matches: 288, Mismatches: 3, Indels: 10
0.96 0.01 0.03
Matches are distributed among these distances:
151 2 0.01
152 29 0.10
153 17 0.06
154 167 0.58
155 44 0.15
156 29 0.10
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.37
Consensus pattern (156 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCT
GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTT
GAGTTATCTGATCTGGTTGGACAGAA
Found at i:7458785 original size:102 final size:104
Alignment explanation
Indices: 7458482--7458931 Score: 815
Period size: 102 Copynumber: 4.4 Consensus size: 104
7458472 TGAATGTGCT
7458482 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TGGACAGAACATAGCATCTTCT
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCT
7458546 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
66 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
7458585 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCT
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCT
7458650 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
66 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
7458689 CATAGCATCTTCTGGAAGTG-TC-TTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCT
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCT
7458752 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
66 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
*
7458791 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA--TGGTT-GATCATAACATAGCATCTTC
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAACATAGCATCTTC
7458853 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
65 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
* *
7458893 CATAGCATTTTCTGGAAGTGTTC-TTGAGATATCTGATCT
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
7458932 AATGGATAGA
Statistics
Matches: 338, Mismatches: 3, Indels: 12
0.96 0.01 0.03
Matches are distributed among these distances:
101 14 0.04
102 183 0.54
103 47 0.14
104 94 0.28
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.37
Consensus pattern (104 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCT
GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
Found at i:7459810 original size:112 final size:113
Alignment explanation
Indices: 7459557--7459983 Score: 717
Period size: 112 Copynumber: 3.8 Consensus size: 113
7459547 TTAGCAAAGA
7459557 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
7459622 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
*
7459670 TGAATCCATCATTTGGTGGATC-TTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
7459734 GAAGGAAGAAGAAG-TCATAATGAGAAGAATTTGTTCAACCTTTTACC
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
7459781 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
* *
7459846 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
* * * * *
7459894 TGAAT---TCA-TTGATGGATCAACATTGCCAG-GTAAGTTCATAATGAGAAGAACTCATCTGAA
1 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
7459954 GAAGGAAG-AGAAAGTTCATAATGAGAAGAA
66 GAAGGAAGAAG-AAGTTCATAATGAGAAGAA
7459984 CTCATCAAGA
Statistics
Matches: 302, Mismatches: 9, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
107 2 0.01
108 57 0.19
109 17 0.06
110 3 0.01
111 55 0.18
112 110 0.36
113 58 0.19
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (113 bp):
TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
Found at i:7460241 original size:3 final size:3
Alignment explanation
Indices: 7460233--7460359 Score: 193
Period size: 3 Copynumber: 42.0 Consensus size: 3
7460223 TTTTTATCCA
*
7460233 TAT TAT TAT TAT TAT TAA TA- TAT TAT TAT TAT TAT TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* *
7460278 CAT TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
7460324 TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7460360 AATTTATATT
Statistics
Matches: 114, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
2 2 0.02
3 106 0.93
4 6 0.05
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:7462512 original size:29 final size:30
Alignment explanation
Indices: 7462434--7462513 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 30
7462424 TGTTAACGAT
*
7462434 TTAAAGGTTCATTGGTATAATTGAAACAAAA
1 TTAAAAGTTCATTGGTATAATTG-AACAAAA
** * * *
7462465 AAAAAAGTTCAATGTTATAATTG-ATAAAA
1 TTAAAAGTTCATTGGTATAATTGAACAAAA
*
7462494 TTAAAAGTTTATTGGTATAA
1 TTAAAAGTTCATTGGTATAA
7462514 ACAATACAAC
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
29 20 0.53
31 18 0.47
ACGTcount: A:0.47, C:0.04, G:0.14, T:0.35
Consensus pattern (30 bp):
TTAAAAGTTCATTGGTATAATTGAACAAAA
Found at i:7464201 original size:16 final size:17
Alignment explanation
Indices: 7464182--7464213 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7464172 TACTACCATA
7464182 ATATTAT-TTTTATATT
1 ATATTATATTTTATATT
7464198 ATATTATATTTTATAT
1 ATATTATATTTTATAT
7464214 AAATAAATAT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:7464528 original size:16 final size:17
Alignment explanation
Indices: 7464506--7464554 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
7464496 AATATTCTTA
*
7464506 TAGTAATGTTACATTCC
1 TAGTAATATTACATTCC
7464523 -AGTAATATT--ATTCC
1 TAGTAATATTACATTCC
*
7464537 TAGATAATCTTACATTCC
1 TAG-TAATATTACATTCC
7464555 GTTAATCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
14 5 0.19
15 2 0.08
16 14 0.54
18 5 0.19
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (17 bp):
TAGTAATATTACATTCC
Found at i:7466402 original size:20 final size:20
Alignment explanation
Indices: 7466377--7466445 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
7466367 ACTTTATTGT
7466377 TAAAAAGATTAAAATATATA
1 TAAAAAGATTAAAATATATA
* ** * * *
7466397 TAAAAAAAAGACAACTTTATTGT
1 TAAAAAGATTA-AAATATA-T-A
7466420 TAAAAAGATTAAAATATATA
1 TAAAAAGATTAAAATATATA
7466440 TAAAAA
1 TAAAAA
7466446 AAAGACAACT
Statistics
Matches: 34, Mismatches: 12, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
20 14 0.41
21 6 0.18
22 6 0.18
23 8 0.24
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (20 bp):
TAAAAAGATTAAAATATATA
Found at i:7466406 original size:23 final size:23
Alignment explanation
Indices: 7466378--7466450 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
7466368 CTTTATTGTT
7466378 AAAAAGATTAAAATATATATAAA
1 AAAAAGATTAAAATATATATAAA
* * * ***
7466401 AAAAAGA--CAACTTTAT-TGTT
1 AAAAAGATTAAAATATATATAAA
7466421 AAAAAGATTAAAATATATATAAA
1 AAAAAGATTAAAATATATATAAA
7466444 AAAAAGA
1 AAAAAGA
7466451 CAACTTTATT
Statistics
Matches: 35, Mismatches: 12, Indels: 6
0.66 0.23 0.11
Matches are distributed among these distances:
20 8 0.23
21 6 0.17
22 6 0.17
23 15 0.43
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.26
Consensus pattern (23 bp):
AAAAAGATTAAAATATATATAAA
Done.