Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 128 of 284
Found at i:42707526 original size:35 final size:35
Alignment explanation
Indices: 42707487--42707553 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
42707477 TTATGTAATA
*
42707487 TAATGTTATTTATATGATATGATGATTATTATCAT
1 TAATGTTATTTATATGATATGAAGATTATTATCAT
*
42707522 TAATGTTATTTATATGATATGAAGATTGTTAT
1 TAATGTTATTTATATGATATGAAGATTATTAT
42707554 TATGAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.51
Consensus pattern (35 bp):
TAATGTTATTTATATGATATGAAGATTATTATCAT
Found at i:42707945 original size:49 final size:49
Alignment explanation
Indices: 42707875--42708118 Score: 231
Period size: 49 Copynumber: 4.9 Consensus size: 49
42707865 GCTATTGTGA
* * *
42707875 GGTCACATG-GTTAGTAGTAAGTGCAGCCTACTACGTGCACCAGATTGTT
1 GGTCACATGTG-TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT
* * * * *
42707924 GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCTGATAACT-TT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT---TGTT
* * * * * *
42707975 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTTTATCAAATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT
* * * **
42708024 AGGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT
* * *
42708074 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
42708119 AGCTTCAGCT
Statistics
Matches: 156, Mismatches: 33, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
49 76 0.49
50 42 0.27
51 37 0.24
52 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT
Found at i:42708065 original size:101 final size:98
Alignment explanation
Indices: 42707877--42708106 Score: 264
Period size: 101 Copynumber: 2.3 Consensus size: 98
42707867 TATTGTGAGG
* * * * *
42707877 TCACATG-GTTAGTAGTAAGTGCAGCCTACTACGTGCACCAGATTGTTGGTCGCATGTGTAGTAC
1 TCACATGTG-TAGTACTAAGTGCAGGCTACTACGTGCACCAAATGGTTGGTCACATGTGTAGTAC
* * *
42707941 TAAGTGCAAGCTACTATGCGTACCTGATAACTTTGA
65 TAAGTACAAGCTACTACGCGTACCGGATAA--TTGA
* ** * *
42707977 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTTTATCAAATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAAATGGTT-GGTCACATGTGTAGTAC
* * *
42708042 TAAGTACAGGCTACTACGTGTACCGGATAATTGG
65 TAAGTACAAGCTACTACGCGTACCGGATAATTGA
*
42708076 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
42708107 TGCGTACCAG
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
99 32 0.29
100 37 0.34
101 41 0.37
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (98 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAAATGGTTGGTCACATGTGTAGTACT
AAGTACAAGCTACTACGCGTACCGGATAATTGA
Found at i:42719540 original size:33 final size:31
Alignment explanation
Indices: 42719501--42719578 Score: 90
Period size: 30 Copynumber: 2.5 Consensus size: 31
42719491 ACAAACATAC
*
42719501 AAAGTAATAATTAAATAATACATGATATACAAA
1 AAAGTAATAA-TAAATAATACATGACATAC-AA
*
42719534 AAAGTAAT-A-AAATAATGCATGACATACAA
1 AAAGTAATAATAAATAATACATGACATACAA
42719563 AAAG-AATAATACAATA
1 AAAGTAATAATA-AATA
42719579 TCAATGTACA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
28 3 0.08
29 7 0.17
30 17 0.43
31 4 0.10
32 1 0.03
33 8 0.20
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (31 bp):
AAAGTAATAATAAATAATACATGACATACAA
Found at i:42722564 original size:205 final size:205
Alignment explanation
Indices: 42721951--42723031 Score: 1203
Period size: 210 Copynumber: 5.2 Consensus size: 205
42721941 AAATCTGCTT
* * * * *
42721951 CTTCAATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAGCAC
* * * *
42722016 GTGAAAACTAAATCAGCTATGTCTTCAATTTGCTCCTTGT-AGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATATT
* * * * **
42722080 GGATCTTGTTTCAGTCTAATCGTCTGAAGGTCAGATCTGCTATGTGTCTGCCCTCCATCGAAGTG
131 GGATC-TGCTTCAGTGTAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCATCGAAGTG
42722145 GAGATGCCAGA
195 GAGATGCCAGA
* * *
42722156 TTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTTCTTCAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAGCAC
* * *
42722221 GTGAAAGCCAAATCAGCTATGTCTTCGAAATTGCTCCTTGTAAGCACAAGGATGCCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCG-ATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATAT
* * * * *
42722286 TGGATTTACTTCAGTATAAACATCTGAAGTTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTG
130 TGGATCTGCTTCAGTGTAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCATCGAAGTG
42722351 GAGATGCCAGA
195 GAGATGCCAGA
* * *
42722362 CTTCGATTTGTTCTCTGACAATACAGATATGCCAAATCATCTTAGACTTGTTTCAACGCAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAGCAC
* * * *
42722427 GTGAAAGCCAAATCAGCTATGTTTTTGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATTTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATATT
* * *
42722492 GGATCTACTTCAGTGTAAACATCTGAAGGTTGGATCTGCTATGTGTCTACCCTCCGTCGAAGTGG
131 GGATCTGCTTCAGTGTAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCATCGAAGTGG
42722557 AGATGCCAGA
196 AGATGCCAGA
*
42722567 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAG-CTTTGCTTCAACGTAAACA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGAC-TTGCTTCAACGTAAGCA
* * * ** * ***
42722631 CGTGAAAGTCAAATCAGCTATATCTTTG-TTCTGCTCCCCACCG-AA-TACAGAGAGATAAGATT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATT-TGCT--CC-TTGTAAGCACA-AG-GAT--GCCA
** * * *
42722693 TGTCATATTGGATCTGCTTCAGCGTAAACATCTGAAGG-TGAGATCTGCTATGCGTCTGCCTTCC
122 AATCATATTGGATCTGCTTCAGTGTAAACATCTGAAGGTTG-GATCTGCTATGTGTCTGCCCTCC
* *
42722757 ATCAAAGTGGAAATGCCAGA
186 ATCGAAGTGGAGATGCCAGA
* * * * * *
42722777 CTTCGATTTGTTTTCTGACAATACA-A-AGGCAACAAATCATCTTAGATTTACTTCATCGTAAAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGC--CAAATCATCTTAGACTTGCTTCAACGTAAGC
* * * * * * ***
42722840 ACGTGAAAGTCAAATCAGCTATATCTTCGATCTGCTTCC-CGCCGAA-TACAGAGAGATAAGATT
64 ACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGC-TCCTTG--TAAGCACA-AG-GAT--GCCA
** * * *
42722903 TGTCATATTGGATCTGCTTCAGCGTAAACATCTGAAGG-TGAGATCTGCTATGCGTCTGCCTTCC
122 AATCATATTGGATCTGCTTCAGTGTAAACATCTGAAGGTTG-GATCTGCTATGTGTCTGCCCTCC
* * *
42722967 ATCAAACTGGAAATGCCAGA
186 ATCGAAGTGGAGATGCCAGA
42722987 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAG
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAG
42723032 GAATACAGAG
Statistics
Matches: 784, Mismatches: 70, Indels: 39
0.88 0.08 0.04
Matches are distributed among these distances:
204 3 0.00
205 277 0.35
206 160 0.20
207 35 0.04
208 7 0.01
209 5 0.01
210 291 0.37
211 3 0.00
212 3 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATATT
GGATCTGCTTCAGTGTAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCATCGAAGTGG
AGATGCCAGA
Found at i:42723036 original size:27 final size:27
Alignment explanation
Indices: 42723006--42723058 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
42722996 GTTCTCTGAC
**
42723006 AATACAGAGATGCCAAATCATCTTAGG
1 AATACAGAGATAACAAATCATCTTAGG
*
42723033 AATACAGAGGTAACAAATCATCTTAG
1 AATACAGAGATAACAAATCATCTTAG
42723059 ATTTGCTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (27 bp):
AATACAGAGATAACAAATCATCTTAGG
Found at i:42723222 original size:237 final size:237
Alignment explanation
Indices: 42722796--42723268 Score: 838
Period size: 237 Copynumber: 2.0 Consensus size: 237
42722786 GTTTTCTGAC
*
42722796 AATACAAAGGCAACAAATCATCTTAGATTTACTTCATCGTAAACACGTGAAAGTCAAATCAGCTA
1 AATACAAAGGCAACAAATCATCTTAGATTTACTTCATCGTAAACACGTAAAAGTCAAATCAGCTA
* *
42722861 TATCTTCGATCTGCTTCCCGCCGAATACAGAGAGATAAGATTTGTCATATTGGATCTGCTTCAGC
66 TATCTTCAATCTGCTCCCCGCCGAATACAGAGAGATAAGATTTGTCATATTGGATCTGCTTCAGC
* *
42722926 GTAAACATCTGAAGGTGAGATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTTC
131 ATAAACATCTAAAGGTGAGATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTTC
*
42722991 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGG
196 GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGG
* * *
42723033 AATACAGAGGTAACAAATCATCTTAGATTTGCTTCATCGTAAACACGTAAAAGTCAAATCAGCTA
1 AATACAAAGGCAACAAATCATCTTAGATTTACTTCATCGTAAACACGTAAAAGTCAAATCAGCTA
*
42723098 TATCTTCAATCTGCTCCCCGCCGAATACAGAGAGATAAGATTTGTCATCTTGGATCTGCTTCAGC
66 TATCTTCAATCTGCTCCCCGCCGAATACAGAGAGATAAGATTTGTCATATTGGATCTGCTTCAGC
42723163 ATAAACATCTAAAGGTGAGATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTTC
131 ATAAACATCTAAAGGTGAGATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTTC
* *
42723228 GATTTGTTCTCTGACAATATAGAGGTGACAAATCATCTTAG
196 GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAG
42723269 ATTTGCTTCA
Statistics
Matches: 224, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
237 224 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (237 bp):
AATACAAAGGCAACAAATCATCTTAGATTTACTTCATCGTAAACACGTAAAAGTCAAATCAGCTA
TATCTTCAATCTGCTCCCCGCCGAATACAGAGAGATAAGATTTGTCATATTGGATCTGCTTCAGC
ATAAACATCTAAAGGTGAGATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTTC
GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGG
Found at i:42723409 original size:210 final size:210
Alignment explanation
Indices: 42723033--42724012 Score: 1412
Period size: 210 Copynumber: 4.8 Consensus size: 210
42723023 TCATCTTAGG
* *
42723033 AATACAGAGGTAACAAATCATCTTAGATTTGCTTCATCGTAAACACGTAAAAGTCAAATCAGCTA
1 AATACAGAGGTGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGTCAAATCAGCTA
* ** *
42723098 TATCTTCAATCTGCTCCCCGCCGAATACAGAGAGATAAGATTTGTCATCTTGGATCTGCTTCAGC
66 TATCTTCGATCTATTCCCCGCCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCTTCAGC
* *
42723163 ATAAACATCTAAAGGTGAGATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTTC
131 GTAAACATCTGAAGGTGAGATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTTC
42723228 GATTTGTTCTCTGAC
196 GATTTGTTCTCTGAC
* * * *
42723243 AATATAGAGGTGACAAATCATCTTAGATTTGCTTCATTGTAAACACGTGAAAGCCAAATCATCTA
1 AATACAGAGGTGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGTCAAATCAGCTA
** *
42723308 TATCTTCGATCTATTCCCTACCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTGCTTCAGT
66 TATCTTCGATCTATTCCCCGCCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCTTCAG-
* * * * * *
42723373 C-TAATCGTTTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCACAGTGGAAATGCCAGACTT
130 CGTAAACATCTGAAGGTGAGATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTT
*
42723437 TGATTTGTTCTCTGAC
195 CGATTTGTTCTCTGAC
42723453 AATACAGA---G-------ATCTTAGATTTGCTTCATCGTAAACACGTGAAAGTCAAATCAGCTA
1 AATACAGAGGTGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGTCAAATCAGCTA
*
42723508 TATCTTCGATCTGCTT-CCCGCCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCTTCAG
66 TATCTTCGATCT-ATTCCCCGCCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCTTCAG
42723572 CGTAAACATCTGAAGGTGAGATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTT
130 CGTAAACATCTGAAGGTGAGATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTT
42723637 CGATTTGTTCTCTGAC
195 CGATTTGTTCTCTGAC
* * * *
42723653 AATATAGAGGTGACAAATCATCTTAGATTTGCTTCATTGTAAACACGTGAAAGCCAAATCATCTA
1 AATACAGAGGTGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGTCAAATCAGCTA
** *
42723718 TATCTTCGATCTATTCCCTACCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTGCTTCAGT
66 TATCTTCGATCTATTCCCCGCCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCTTCAG-
* * * * * *
42723783 C-TAATCGTTTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCACAGTGGAAATGCCAGACTT
130 CGTAAACATCTGAAGGTGAGATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTT
*
42723847 TGATTTGTTCTCTGAC
195 CGATTTGTTCTCTGAC
42723863 AATACAGA---G-------ATCTTAGATTTGCTTCATCGTAAACACGTGAAAGTCAAATCAGCTA
1 AATACAGAGGTGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGTCAAATCAGCTA
** *
42723918 TATCTTCGATCTGCTCCCCGCCAAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCTTCAGC
66 TATCTTCGATCTATTCCCCGCCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCTTCAGC
42723983 GTAAACATCTGAAGGTGAGATCTGCTATGC
131 GTAAACATCTGAAGGTGAGATCTGCTATGC
42724013 TGCAGCTTAT
Statistics
Matches: 689, Mismatches: 65, Indels: 42
0.87 0.08 0.05
Matches are distributed among these distances:
199 2 0.00
200 305 0.44
201 2 0.00
203 1 0.00
207 2 0.00
209 2 0.00
210 373 0.54
211 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (210 bp):
AATACAGAGGTGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGTCAAATCAGCTA
TATCTTCGATCTATTCCCCGCCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCTTCAGC
GTAAACATCTGAAGGTGAGATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTTC
GATTTGTTCTCTGAC
Found at i:42723427 original size:447 final size:447
Alignment explanation
Indices: 42722599--42723463 Score: 1410
Period size: 447 Copynumber: 1.9 Consensus size: 447
42722589 ACAGAGATGC
* * ***
42722599 CAAATCATCTTAGCTTTGCTTCAACGTAAACACGTGAAAGTCAAATCAGCTATATCTTTGTTCTG
1 CAAATCATCTTAGATTTGCTTCAACGTAAACACGTAAAAGTCAAATCAGCTATATCTTCAATCTG
* *
42722664 CTCCCCACCGAATACAGAGAGATAAGATTTGTCATATTGGATCTGCTTCAGCGTAAACATCTGAA
66 CTCCCCACCGAATACAGAGAGATAAGATTTGTCATATTGGATCTGCTTCAGCATAAACATCTAAA
* *
42722729 GGTGAGATCTGCTATGCGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTCGATTTGTTTTCTG
131 GGTGAGATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTTCGATTTGTTCTCTG
*
42722794 ACAATACAAAGGCAACAAATCATCTTAGATTTACTTCATCGTAAACACGTGAAAGTCAAATCAGC
196 ACAATACAAAGGCAACAAATCATCTTAGATTTACTTCATCGTAAACACGTGAAAGCCAAATCAGC
* * * *
42722859 TATATCTTCGATCTGCTTCCCGCCGAATACAGAGAGATAAGATTTGTCATATTGGATCTGCTTCA
261 TATATCTTCGATCTGATTCCCACCGAATACAGAAAGATAAGATCTGTCATATTGGATCTGCTTCA
42722924 GCGTAAACATCTGAAGGTGAGATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACT
326 GCGTAAACATCTGAAGGTGAGATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACT
42722989 TCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGGAATACAGAGGTAA
391 TCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGGAATACAGAGGTAA
*
42723046 CAAATCATCTTAGATTTGCTTCATCGTAAACACGTAAAAGTCAAATCAGCTATATCTTCAATCTG
1 CAAATCATCTTAGATTTGCTTCAACGTAAACACGTAAAAGTCAAATCAGCTATATCTTCAATCTG
* *
42723111 CTCCCCGCCGAATACAGAGAGATAAGATTTGTCATCTTGGATCTGCTTCAGCATAAACATCTAAA
66 CTCCCCACCGAATACAGAGAGATAAGATTTGTCATATTGGATCTGCTTCAGCATAAACATCTAAA
42723176 GGTGAGATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTTCGATTTGTTCTCTG
131 GGTGAGATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTTCGATTTGTTCTCTG
* * ** * * *
42723241 ACAATATAGAGGTGACAAATCATCTTAGATTTGCTTCATTGTAAACACGTGAAAGCCAAATCATC
196 ACAATACAAAGGCAACAAATCATCTTAGATTTACTTCATCGTAAACACGTGAAAGCCAAATCAGC
*
42723306 TATATCTTCGATCT-ATTCCCTACCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTGCTTC
261 TATATCTTCGATCTGATTCCC-ACCGAATACAGAAAGATAAGATCTGTCATATTGGATCTGCTTC
* * * * * *
42723370 AGTC-TAATCGTTTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCACAGTGGAAATGCCAGA
325 AG-CGTAAACATCTGAAGGTGAGATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGA
*
42723434 CTTTGATTTGTTCTCTGACAATACAGAGAT
389 CTTCGATTTGTTCTCTGACAATACAGAGAT
42723464 CTTAGATTTG
Statistics
Matches: 384, Mismatches: 32, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
446 5 0.01
447 378 0.98
448 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (447 bp):
CAAATCATCTTAGATTTGCTTCAACGTAAACACGTAAAAGTCAAATCAGCTATATCTTCAATCTG
CTCCCCACCGAATACAGAGAGATAAGATTTGTCATATTGGATCTGCTTCAGCATAAACATCTAAA
GGTGAGATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTTCGATTTGTTCTCTG
ACAATACAAAGGCAACAAATCATCTTAGATTTACTTCATCGTAAACACGTGAAAGCCAAATCAGC
TATATCTTCGATCTGATTCCCACCGAATACAGAAAGATAAGATCTGTCATATTGGATCTGCTTCA
GCGTAAACATCTGAAGGTGAGATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACT
TCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGGAATACAGAGGTAA
Found at i:42723812 original size:410 final size:410
Alignment explanation
Indices: 42723052--42724012 Score: 1859
Period size: 410 Copynumber: 2.3 Consensus size: 410
42723042 GTAACAAATC
* *
42723052 ATCTTAGATTTGCTTCATCGTAAACACGTAAAAGTCAAATCAGCTATATCTTCAATCTGCTCCCC
1 ATCTTAGATTTGCTTCATCGTAAACACGTGAAAGTCAAATCAGCTATATCTTCGATCTGCTCCCC
* * *
42723117 GCCGAATACAGAGAGATAAGATTTGTCATCTTGGATCTGCTTCAGCATAAACATCTAAAGGTGAG
66 GCCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAG
42723182 ATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATA
131 ATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATA
42723247 TAGAGGTGACAAATCATCTTAGATTTGCTTCATTGTAAACACGTGAAAGCCAAATCATCTATATC
196 TAGAGGTGACAAATCATCTTAGATTTGCTTCATTGTAAACACGTGAAAGCCAAATCATCTATATC
42723312 TTCGATCTATTCCCTACCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTGCTTCAGTCTAA
261 TTCGATCTATTCCCTACCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTGCTTCAGTCTAA
42723377 TCGTTTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCACAGTGGAAATGCCAGACTTTGATT
326 TCGTTTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCACAGTGGAAATGCCAGACTTTGATT
42723442 TGTTCTCTGACAATACAGAG
391 TGTTCTCTGACAATACAGAG
*
42723462 ATCTTAGATTTGCTTCATCGTAAACACGTGAAAGTCAAATCAGCTATATCTTCGATCTGCTTCCC
1 ATCTTAGATTTGCTTCATCGTAAACACGTGAAAGTCAAATCAGCTATATCTTCGATCTGCTCCCC
42723527 GCCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAG
66 GCCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAG
42723592 ATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATA
131 ATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATA
42723657 TAGAGGTGACAAATCATCTTAGATTTGCTTCATTGTAAACACGTGAAAGCCAAATCATCTATATC
196 TAGAGGTGACAAATCATCTTAGATTTGCTTCATTGTAAACACGTGAAAGCCAAATCATCTATATC
42723722 TTCGATCTATTCCCTACCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTGCTTCAGTCTAA
261 TTCGATCTATTCCCTACCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTGCTTCAGTCTAA
42723787 TCGTTTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCACAGTGGAAATGCCAGACTTTGATT
326 TCGTTTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCACAGTGGAAATGCCAGACTTTGATT
42723852 TGTTCTCTGACAATACAGAG
391 TGTTCTCTGACAATACAGAG
42723872 ATCTTAGATTTGCTTCATCGTAAACACGTGAAAGTCAAATCAGCTATATCTTCGATCTGCTCCCC
1 ATCTTAGATTTGCTTCATCGTAAACACGTGAAAGTCAAATCAGCTATATCTTCGATCTGCTCCCC
*
42723937 GCCAAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAG
66 GCCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAG
42724002 ATCTGCTATGC
131 ATCTGCTATGC
42724013 TGCAGCTTAT
Statistics
Matches: 543, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
410 543 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (410 bp):
ATCTTAGATTTGCTTCATCGTAAACACGTGAAAGTCAAATCAGCTATATCTTCGATCTGCTCCCC
GCCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAG
ATCTGCTATGCGTCTGCCTTCCATCAAACTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATA
TAGAGGTGACAAATCATCTTAGATTTGCTTCATTGTAAACACGTGAAAGCCAAATCATCTATATC
TTCGATCTATTCCCTACCGAATACAGAAAGATAAGATCTGTCATCTTGGATCTGCTTCAGTCTAA
TCGTTTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCACAGTGGAAATGCCAGACTTTGATT
TGTTCTCTGACAATACAGAG
Found at i:42735513 original size:33 final size:31
Alignment explanation
Indices: 42735474--42735551 Score: 90
Period size: 30 Copynumber: 2.5 Consensus size: 31
42735464 ACAAACATAC
*
42735474 AAAGTAATAATTAAATAATACATGATATACAAA
1 AAAGTAATAA-TAAATAATACATGACATAC-AA
*
42735507 AAAGTAAT-A-AAATAATGCATGACATACAA
1 AAAGTAATAATAAATAATACATGACATACAA
42735536 AAAG-AATAATACAATA
1 AAAGTAATAATA-AATA
42735552 TCAATGTACA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
28 3 0.08
29 7 0.17
30 17 0.43
31 4 0.10
32 1 0.03
33 8 0.20
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (31 bp):
AAAGTAATAATAAATAATACATGACATACAA
Found at i:42738254 original size:43 final size:42
Alignment explanation
Indices: 42738185--42738431 Score: 264
Period size: 42 Copynumber: 5.9 Consensus size: 42
42738175 TGGACAATGC
* * *
42738185 CATACCAATGCCATATCCCAGATATGGTCTTACATG-GGATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGAAG-TCT
* * * *
42738227 CGTTTCAATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCT
1 CATATCAATGCC-ATATCCCAGATATGGTCTTACACGAAGTCT
*
42738270 CATATCAATGCCATATCCCAGATATGGTCTTACACGAAATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGAAGTCT
* * * *
42738312 CATA-CTTATTCCATATCCTAGATATGGTCTTCCACGAAGTCT
1 CATATC-AATGCCATATCCCAGATATGGTCTTACACGAAGTCT
* * * * *
42738354 CATATCAATGCCATATCCCAGATACGGGCTTACATGAAATAT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGAAGTCT
* * * *
42738396 CAGACCGATGCCATATCCTAGATATGGTCTTACACG
1 CATATCAATGCCATATCCCAGATATGGTCTTACACG
42738432 TAATCTTAAA
Statistics
Matches: 168, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
41 1 0.01
42 131 0.78
43 35 0.21
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACACGAAGTCT
Found at i:42738368 original size:84 final size:84
Alignment explanation
Indices: 42738185--42738431 Score: 309
Period size: 84 Copynumber: 2.9 Consensus size: 84
42738175 TGGACAATGC
* ** * * *
42738185 CATACCAATGCCATATCCCAGATATGGTCTTACATGGGATCTCGT--TTCAATGCCAATAGCCCA
1 CATATCAATGCCATATCCCAGATATGGTCTTACATGAAATCTCATACTT--ATGCC-ATATCCTA
*
42738248 GCTATGGTCTTACACGAAGTCT
63 GATATGGTCTTACACGAAGTCT
* *
42738270 CATATCAATGCCATATCCCAGATATGGTCTTACACGAAATCTCATACTTATTCCATATCCTAGAT
1 CATATCAATGCCATATCCCAGATATGGTCTTACATGAAATCTCATACTTATGCCATATCCTAGAT
*
42738335 ATGGTCTTCCACGAAGTCT
66 ATGGTCTTACACGAAGTCT
* * * * **
42738354 CATATCAATGCCATATCCCAGATACGGGCTTACATGAAATATCAGACCGATGCCATATCCTAGAT
1 CATATCAATGCCATATCCCAGATATGGTCTTACATGAAATCTCATACTTATGCCATATCCTAGAT
42738419 ATGGTCTTACACG
66 ATGGTCTTACACG
42738432 TAATCTTAAA
Statistics
Matches: 141, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
84 95 0.67
85 44 0.31
87 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (84 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACATGAAATCTCATACTTATGCCATATCCTAGAT
ATGGTCTTACACGAAGTCT
Found at i:42748819 original size:79 final size:81
Alignment explanation
Indices: 42748683--42748867 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
42748673 TTGAATGATG
*
42748683 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
42748747 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
42748762 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
42748824 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
42748842 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42748868 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:42748881 original size:40 final size:40
Alignment explanation
Indices: 42748684--42748867 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
42748674 TGAATGATGT
* * * *
42748684 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
42748724 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
42748764 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
42748802 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
42748843 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
42748868 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:42748889 original size:79 final size:79
Alignment explanation
Indices: 42748736--42748900 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
42748726 GGACTAAGAT
* **
42748736 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
42748801 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
42748815 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
42748878 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
42748894 CCGAAGG
1 CCGAAGG
42748901 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:42757065 original size:16 final size:15
Alignment explanation
Indices: 42757026--42757067 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
42757016 AGATGATAAT
42757026 TATTAATATATAATTA
1 TATTAAT-TATAATTA
*
42757042 TATCAATTATAATATA
1 TATTAATTATAAT-TA
42757058 TATTAATTAT
1 TATTAATTAT
42757068 TATCAACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:42757084 original size:25 final size:24
Alignment explanation
Indices: 42757023--42757073 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
42757013 TAAAGATGAT
*
42757023 AATTATTA-ATATATAATTATATC
1 AATTATAATATATATAATTATATC
42757046 AATTATAATATATATTAATTATTATC
1 AATTATAATATATA-TAATTA-TATC
42757072 AA
1 AA
42757074 CTTTATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 7 0.29
24 5 0.21
25 6 0.25
26 6 0.25
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
AATTATAATATATATAATTATATC
Found at i:42757275 original size:17 final size:18
Alignment explanation
Indices: 42757249--42757282 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
42757239 TTTTTGTTTA
42757249 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
42757266 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
42757283 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:42767520 original size:18 final size:18
Alignment explanation
Indices: 42767497--42767540 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
42767487 CAGTCTTGAT
42767497 GATGAATCTGGCTTCTAA
1 GATGAATCTGGCTTCTAA
* *
42767515 GATGAATCTGGCTTTTGA
1 GATGAATCTGGCTTCTAA
42767533 GATGAATC
1 GATGAATC
42767541 AATCGGCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (18 bp):
GATGAATCTGGCTTCTAA
Found at i:42776469 original size:35 final size:35
Alignment explanation
Indices: 42776428--42776498 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
42776418 ATCAACTAAA
42776428 GGCAAGGGTTTATTTCATAAAAATAAAACTTTCTT
1 GGCAAGGGTTTATTTCATAAAAATAAAACTTTCTT
*
42776463 GGCAAGGGTTTATTTCATAAAATTAAAACTTTCTT
1 GGCAAGGGTTTATTTCATAAAAATAAAACTTTCTT
42776498 G
1 G
42776499 CAAAAGCCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (35 bp):
GGCAAGGGTTTATTTCATAAAAATAAAACTTTCTT
Found at i:42782317 original size:42 final size:42
Alignment explanation
Indices: 42782196--42782401 Score: 236
Period size: 42 Copynumber: 4.9 Consensus size: 42
42782186 TACCATACCA
* ** *
42782196 ATGCCATATCCTAGATATGGTCTTACATGGGATCTCATTTCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * *
42782238 ATGCCAATAGCCCAGCTATGGTCTTACA-CAAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAAA-TCTCATATCG
* *
42782281 ATGCCATGTCCTAGATATGGTCTTACATGAAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* *
42782323 ATGCCATATCCCAGGTATGGTCTTACATGAAATCTCACA-CTG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATC-G
* * * *
42782365 ATTCCATATCCCAAATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCA
42782402 AAACCCTAAT
Statistics
Matches: 139, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
41 1 0.01
42 102 0.73
43 36 0.26
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:42786375 original size:43 final size:43
Alignment explanation
Indices: 42786248--42786445 Score: 174
Period size: 43 Copynumber: 4.6 Consensus size: 43
42786238 CAATTCCATA
* * * * * * *
42786248 TCCCAGATATGGTTTTACATGTTATCAC-TTATCGATGCCACTA
1 TCCCAGACATGGTCTTACACGTAATCACATAAT-GATGCCAATG
* *
42786291 TCACC-GACAGGGTCTTACACGAAAT--CATAATACGATGCCAATG
1 TC-CCAGACATGGTCTTACACGTAATCACATAAT--GATGCCAATG
*
42786334 TCCCAGACATGGTCTTACACGTAATCACATAATGATACCAATG
1 TCCCAGACATGGTCTTACACGTAATCACATAATGATGCCAATG
* *
42786377 TCCCAGACATGGTCTTACACATAATCGAAATACA--ATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATC-ACATA-ATGATGCCAATG
* *
42786420 TCCTAGACATGGTCTTACATGTAATC
1 TCCCAGACATGGTCTTACACGTAATC
42786446 TCATCTCGAT
Statistics
Matches: 129, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.01
42 5 0.04
43 110 0.85
44 6 0.05
45 7 0.05
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCACATAATGATGCCAATG
Found at i:42790026 original size:31 final size:28
Alignment explanation
Indices: 42789977--42790036 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 28
42789967 TATGTAAATA
* *
42789977 TTTTCTTTTATATTTATTACATATATATTT
1 TTTTCTTTTAAATCTATT--ATATATATTT
42790007 TTTTCTTTTTAAATCTATTATATATATTT
1 TTTTC-TTTTAAATCTATTATATATATTT
42790036 T
1 T
42790037 CATTCATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 11 0.41
30 5 0.19
31 11 0.41
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTTCTTTTAAATCTATTATATATATTT
Found at i:42795720 original size:37 final size:36
Alignment explanation
Indices: 42795656--42795733 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 36
42795646 ATTTATTACA
* *
42795656 TATATATATTCTTTTCTTTTTTTCTTTTTAAATCTAT
1 TATATATATTCTTTTC-TATTTTCCTTTTAAATCTAT
* *
42795693 TATATATATTTTTATTC-ATTTTCCTTTTAAATTTAT
1 TATATATATTCTT-TTCTATTTTCCTTTTAAATCTAT
42795729 T-TATA
1 TATATA
42795734 CATAATTTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 4 0.11
36 17 0.47
37 12 0.33
38 3 0.08
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (36 bp):
TATATATATTCTTTTCTATTTTCCTTTTAAATCTAT
Found at i:42810393 original size:21 final size:21
Alignment explanation
Indices: 42810367--42810418 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
42810357 TGTGGTCCAA
*
42810367 GGGACACGCCCGTATGACCTT
1 GGGACACGCCCGTATGACCCT
* *
42810388 GGGACATGCCCGTGTGACCCT
1 GGGACACGCCCGTATGACCCT
42810409 GGGACACGCC
1 GGGACACGCC
42810419 TGTGCCTCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.17, C:0.35, G:0.33, T:0.15
Consensus pattern (21 bp):
GGGACACGCCCGTATGACCCT
Found at i:42816232 original size:40 final size:40
Alignment explanation
Indices: 42816177--42816636 Score: 818
Period size: 40 Copynumber: 11.5 Consensus size: 40
42816167 TTCGAATGAT
*
42816177 ATCCGGGTTAGGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
42816217 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
42816257 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
42816297 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
42816337 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
42816377 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
42816417 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
42816457 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
42816497 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
42816537 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* * * *
42816578 A-CCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTAT
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAA
* *
42816617 ATCC-GGTTAAATTCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
42816637 TATGTGATTC
Statistics
Matches: 408, Mismatches: 9, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
39 15 0.04
40 391 0.96
41 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:42824589 original size:40 final size:40
Alignment explanation
Indices: 42824534--42824821 Score: 388
Period size: 40 Copynumber: 7.3 Consensus size: 40
42824524 TTCGAATGAT
*
42824534 ATCCGGGTTAGGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
42824574 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * * * *
42824614 TTCTGGGCTAAG-CCCGAAGGCACTGGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
42824653 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * * * *
42824693 TTCTGGGCTAAG-CCCGAAGGCACTGGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
42824732 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* * * *
42824773 A-CCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TACCTAT
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAA
42824812 ATCC-GGTTAA
1 ATCCGGGTTAA
42824822 ATTCCAAAGG
Statistics
Matches: 216, Mismatches: 27, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
39 75 0.35
40 139 0.64
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:42824749 original size:119 final size:120
Alignment explanation
Indices: 42824534--42824805 Score: 388
Period size: 119 Copynumber: 2.3 Consensus size: 120
42824524 TTCGAATGAT
* * *
42824534 ATCCGGGTTAGGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCACT
* * *
42824599 TGTGCGAGTTACTAATTCTGGGCTAAGCCCGAAGGCACTGGTGCGAGTTACTA-A
66 GGTGCGAGTTACTAAATCCGGGCTAAGCCCGAAGGCACTGGTGCGAGTTACTATA
* *
42824653 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAG-CCCGAAGGCACT
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCACT
* * *
42824717 GGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
66 GGTGCGAGTTACTAAATCCGGGCTAAG-CCCGAAGGCACTGGTGCGAGTTACTATA
* * *
42824773 A-CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGT
42824806 ACCTATATCC
Statistics
Matches: 137, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
118 34 0.25
119 101 0.74
120 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (120 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCACT
GGTGCGAGTTACTAAATCCGGGCTAAGCCCGAAGGCACTGGTGCGAGTTACTATA
Found at i:42824781 original size:79 final size:79
Alignment explanation
Indices: 42824547--42824770 Score: 430
Period size: 79 Copynumber: 2.8 Consensus size: 79
42824537 CGGGTTAGGT
* *
42824547 CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 CCCGAAGGCACTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
42824612 AATTCTGGGCTAAG
66 AATTCTGGGCTAAG
42824626 CCCGAAGGCACTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 CCCGAAGGCACTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
42824691 AATTCTGGGCTAAG
66 AATTCTGGGCTAAG
42824705 CCCGAAGGCACTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 CCCGAAGGCACTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
42824770 A
66 A
42824771 TAACCGGGCT
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 143 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (79 bp):
CCCGAAGGCACTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
AATTCTGGGCTAAG
Found at i:42829385 original size:48 final size:48
Alignment explanation
Indices: 42829262--42829394 Score: 203
Period size: 48 Copynumber: 2.8 Consensus size: 48
42829252 TCTCATATCG
* ** *
42829262 ATGCCATATCCCAGACATGGTCTTACACGAAATCACATATCGATGCCA
1 ATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCAATGCCA
*
42829310 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCAATGCCA
1 ATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCAATGCCA
* *
42829358 ATGCCATGTCCCAGACATGGCCTTACATGGGATCACA
1 ATGCCATATCCCAGACATGGTCTTACATGGGATCACA
42829395 CATAACCCTA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 77 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (48 bp):
ATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCAATGCCA
Found at i:42833617 original size:43 final size:43
Alignment explanation
Indices: 42833560--42833714 Score: 132
Period size: 43 Copynumber: 3.6 Consensus size: 43
42833550 CAGTGCCATA
* * * * * *
42833560 TCCCAGATATGGTCTTACATGTTATCACTTATCGATGCCACTG
1 TCCCAAATAGGGTCTTACATGTAATCAATTAACGATGCCAATG
42833603 TCCCAAATAGGGTCTTACATGTAATCAATTAACGATGCCAATG
1 TCCCAAATAGGGTCTTACATGTAATCAATTAACGATGCCAATG
* * * * * * * *
42833646 TCTCAGACATGGTCATACACGTAATC-GTATAATGATGCCAATG
1 TCCCAAATAGGGTCTTACATGTAATCAAT-TAACGATGCCAATG
* * * *
42833689 TCCCAGACATGATCTTACATGTAATC
1 TCCCAAATAGGGTCTTACATGTAATC
42833715 TCATCTCATT
Statistics
Matches: 93, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 1 0.01
43 92 0.99
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (43 bp):
TCCCAAATAGGGTCTTACATGTAATCAATTAACGATGCCAATG
Found at i:42843297 original size:44 final size:44
Alignment explanation
Indices: 42843234--42843321 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
42843224 TTGTCTAAAA
*
42843234 GCCACTTCGGATAGACAGAAATCCTACAGATTTGAAAGGGAAAG
1 GCCACTTCGGATAGACAGAAATCCTACAGATTAGAAAGGGAAAG
42843278 GCCACTTCGGATAGACAGAAATCCTACAGATTAGAAAGGGAAAG
1 GCCACTTCGGATAGACAGAAATCCTACAGATTAGAAAGGGAAAG
42843322 AGATTAAGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (44 bp):
GCCACTTCGGATAGACAGAAATCCTACAGATTAGAAAGGGAAAG
Found at i:42845348 original size:30 final size:30
Alignment explanation
Indices: 42845314--42845373 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
42845304 GTAAAGGACT
*
42845314 CGGCATT-TATGAAATATGTGGTAAAAATGC
1 CGGCATTCTATG-AACATGTGGTAAAAATGC
*
42845344 CGGCATTCTATGAACATGTGGTAAGAATGC
1 CGGCATTCTATGAACATGTGGTAAAAATGC
42845374 ATATGAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (30 bp):
CGGCATTCTATGAACATGTGGTAAAAATGC
Found at i:42847281 original size:85 final size:85
Alignment explanation
Indices: 42847190--42847991 Score: 1604
Period size: 85 Copynumber: 9.4 Consensus size: 85
42847180 TTAACATGTA
42847190 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAGCGGGGTTATATCCACTTAGAACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAGCGGGGTTATATCCACTTAGAACCA
42847255 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
42847275 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAGCGGGGTTATATCCACTTAGAACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAGCGGGGTTATATCCACTTAGAACCA
42847340 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
42847360 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAGCGGGGTTATATCCACTTAGAACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAGCGGGGTTATATCCACTTAGAACCA
42847425 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
42847445 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAGCGGGGTTATATCCACTTAGAACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAGCGGGGTTATATCCACTTAGAACCA
42847510 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
42847530 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAGCGGGGTTATATCCACTTAGAACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAGCGGGGTTATATCCACTTAGAACCA
42847595 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
42847615 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAGCGGGGTTATATCCACTTAGAACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAGCGGGGTTATATCCACTTAGAACCA
42847680 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
42847700 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAGCGGGGTTATATCCACTTAGAACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAGCGGGGTTATATCCACTTAGAACCA
42847765 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
42847785 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAGCGGGGTTATATCCACTTAGAACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAGCGGGGTTATATCCACTTAGAACCA
42847850 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
42847870 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAGCGGGGTTATATCCACTTAGAACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAGCGGGGTTATATCCACTTAGAACCA
42847935 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
42847955 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
42847992 ATCAATATGT
Statistics
Matches: 717, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 717 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAGCGGGGTTATATCCACTTAGAACCA
CGTTAATGAATCAATATATG
Found at i:42848017 original size:48 final size:48
Alignment explanation
Indices: 42847917--42848041 Score: 171
Period size: 48 Copynumber: 2.6 Consensus size: 48
42847907 TTAGCGGGGT
* * *
42847917 TATATCCACTTAGAACCACGTTA-ATGAATCAATATATGTAACCGTGG
1 TATATCCACTTAGCACCACGTTACATGTATCAATATATGTAACCATGG
* * *
42847964 CATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCATGG
1 TATATCCACTTAGCACCACGTTACATGTATCAATATATGTAACCATGG
* *
42848012 TATATCCACTAAGCACCACGTTACACGTAT
1 TATATCCACTTAGCACCACGTTACATGTAT
42848042 AGCCATAGTA
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 21 0.31
48 47 0.69
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (48 bp):
TATATCCACTTAGCACCACGTTACATGTATCAATATATGTAACCATGG
Found at i:42851760 original size:31 final size:31
Alignment explanation
Indices: 42851725--42851795 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
42851715 ATTAGTTAGT
42851725 TAAAAAAACCCCTTATTCTTAGGCTAGATAA
1 TAAAAAAACCCCTTATTCTTAGGCTAGATAA
*
42851756 TAAAAAAACCCCTTATTCTTAGGCTATATAA
1 TAAAAAAACCCCTTATTCTTAGGCTAGATAA
42851787 TAAAAAAAC
1 TAAAAAAAC
42851796 AGTCATTACT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.28
Consensus pattern (31 bp):
TAAAAAAACCCCTTATTCTTAGGCTAGATAA
Found at i:42856470 original size:79 final size:81
Alignment explanation
Indices: 42856361--42856543 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
42856351 TACTCGTTCA
* * *
42856361 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCCTAACCCGG
* *
42856424 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
42856441 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCCTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCCTAACCCGGA
*
42856504 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
42856520 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
42856544 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCCTAACCCGGA
TATAGTAACTTAGCAC
Found at i:42856543 original size:40 final size:40
Alignment explanation
Indices: 42856340--42856543 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
42856330 CGGAATTTAA
** *
42856340 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42856380 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42856420 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42856459 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCCTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
42856499 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
42856539 CCGGA
1 CCGGA
42856544 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:42865149 original size:46 final size:46
Alignment explanation
Indices: 42865082--42865411 Score: 234
Period size: 46 Copynumber: 7.1 Consensus size: 46
42865072 AACCCGCCCC
* *
42865082 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* * *
42865128 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
42865176 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* * *
42865221 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
42865269 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* * *
42865314 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
42865362 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
42865407 TAAGT
1 TAAGT
42865412 ATCGGAACCG
Statistics
Matches: 215, Mismatches: 42, Indels: 54
0.69 0.14 0.17
Matches are distributed among these distances:
42 6 0.03
43 9 0.04
44 3 0.01
45 6 0.03
46 84 0.39
47 81 0.38
48 7 0.03
49 3 0.01
50 9 0.04
51 7 0.03
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:42865191 original size:47 final size:47
Alignment explanation
Indices: 42865133--42865394 Score: 283
Period size: 47 Copynumber: 5.6 Consensus size: 47
42865123 ATCCATAAGT
*
42865133 GAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * *
42865180 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--TTCA-C
*
42865226 GAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * *
42865273 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--TTCA-C
*
42865319 GAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
42865366 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
42865395 CATTCGCATC
Statistics
Matches: 176, Mismatches: 21, Indels: 36
0.76 0.09 0.15
Matches are distributed among these distances:
42 4 0.02
43 8 0.05
44 2 0.01
45 4 0.02
46 56 0.32
47 84 0.48
48 4 0.02
49 2 0.01
50 8 0.05
51 4 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:42865195 original size:93 final size:93
Alignment explanation
Indices: 42865087--42865411 Score: 614
Period size: 93 Copynumber: 3.5 Consensus size: 93
42865077 GCCCCTAAGT
* * * *
42865087 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
42865152 TGAGTTCGGATGCCTAGTTACATTTCAC
66 TGAGTTCGGATGCCTAGTTACATTTCAC
42865180 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
42865245 TGAGTTCGGATGCCTAGTTACATTTCAC
66 TGAGTTCGGATGCCTAGTTACATTTCAC
42865273 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
42865338 TGAGTTCGGATGCCTAGTTACATTTCAC
66 TGAGTTCGGATGCCTAGTTACATTTCAC
42865366 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
42865412 ATCGGAACCG
Statistics
Matches: 228, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 228 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
TGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:42866129 original size:30 final size:30
Alignment explanation
Indices: 42866095--42866154 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
42866085 ATTTAATACG
42866095 AACTTTGGAAAAATTACACTTTTACCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
* * * *
42866125 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
42866155 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTACCCCTA
Found at i:42870414 original size:27 final size:26
Alignment explanation
Indices: 42870368--42870427 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
42870358 GCGAGGTTGC
42870368 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGTCACCAGA-A
* * *
42870395 CAGATATTGTGGCTAGGTCACCAGAA
1 CAGATATTGTGACGAAGTCACCAGAA
42870421 CAGATAT
1 CAGATAT
42870428 ATATATGTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGTCACCAGAA
Found at i:42871180 original size:17 final size:18
Alignment explanation
Indices: 42871140--42871182 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
42871130 TATTTTATGC
*
42871140 AAAAGAAAGGAAATAAAT
1 AAAAGAAAGGAAATAAAA
42871158 AAAAGAAA-G-AATAAAAA
1 AAAAGAAAGGAAAT-AAAA
42871175 AAAAGAAA
1 AAAAGAAA
42871183 AGTAATGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 3 0.13
17 12 0.52
18 8 0.35
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (18 bp):
AAAAGAAAGGAAATAAAA
Found at i:42871184 original size:18 final size:18
Alignment explanation
Indices: 42871140--42871198 Score: 50
Period size: 17 Copynumber: 3.3 Consensus size: 18
42871130 TATTTTATGC
* *
42871140 AAAAGAAAGGAA-ATAAAT
1 AAAAGAAAAGAATA-AAAA
42871158 AAAAG-AAAGAATAAAAA
1 AAAAGAAAAGAATAAAAA
*
42871175 AAAAGAAAAGTAATGAAAA
1 AAAAGAAAAG-AATAAAAA
*
42871194 CAAAG
1 AAAAG
42871199 CTTGTATCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
17 13 0.38
18 10 0.29
19 11 0.32
ACGTcount: A:0.75, C:0.02, G:0.15, T:0.08
Consensus pattern (18 bp):
AAAAGAAAAGAATAAAAA
Found at i:42872954 original size:40 final size:40
Alignment explanation
Indices: 42872880--42872995 Score: 162
Period size: 40 Copynumber: 2.9 Consensus size: 40
42872870 GATAACAGGA
* * *
42872880 CTAAGATCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCTAG-TGATTATATCCGGG
* * *
42872920 CTATGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGG
42872960 CTAAGACCCGAAGGCATTTGTGCTAGTGATTATATC
1 CTAAGACCCGAAGGCATTTGTGCTAGTGATTATATC
42872996 TTTGTGTCTG
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
39 2 0.03
40 64 0.97
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGG
Found at i:42873130 original size:40 final size:40
Alignment explanation
Indices: 42873075--42873176 Score: 156
Period size: 40 Copynumber: 2.6 Consensus size: 40
42873065 TTATTCGGAT
42873075 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGC
*
42873115 TATATCCGGGCTAAGACCC-AAGGGCATTTGTGCGAGTTGT
1 TATATCCGGGCTAAGACCCGAA-GGCATTTGTGCGAGTTGC
42873155 TATATCC-GGCTAA-ATCCCGAAG
1 TATATCCGGGCTAAGA-CCCGAAG
42873177 ATACTTGGGT
Statistics
Matches: 58, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
38 1 0.02
39 12 0.21
40 45 0.78
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGC
Found at i:42873160 original size:205 final size:204
Alignment explanation
Indices: 42872792--42873176 Score: 632
Period size: 205 Copynumber: 1.9 Consensus size: 204
42872782 GATAAGTGCC
42872792 TTGTGTCTGAGTTCTAGTAATGAAAACGAGATAAAGATGTGTTATGATTTGTGGACATATGTGCA
1 TTGTGTCTGAGTTCTAGTAATGAAAACGAGATAAAGATGTGTTATGATTTGTGGACATATGTGCA
*
42872857 TGATTATTCGGATGATAACAGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCT
66 TGATTATTCGGATGATAACAGGACTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCT
* * *
42872922 ATGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAG
131 AAGACCCGAAGGCATTTATGCGAGTGATTATATCC-GGCTAA-ATCCCGAAGGCATTTGTGCTAG
42872986 TGATTATATCT
194 TGATTATATCT
42872997 TTGTGTCTGAGTTCTAGTAATGAAAACGAGATAAAGATGTGTTATGATTTGTGGACATATGTGCA
1 TTGTGTCTGAGTTCTAGTAATGAAAACGAGATAAAGATGTGTTATGATTTGTGGACATATGTGCA
* * * *
42873062 TGATTATTCGGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCT
66 TGATTATTCGGATGATAACAGGACTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCT
*
42873127 AAGACCC-AAGGGCATTTGTGCGAGTTG-TTATATCCGGCTAAATCCCGAAG
131 AAGACCCGAA-GGCATTTATGCGAG-TGATTATATCCGGCTAAATCCCGAAG
42873177 ATACTTGGGT
Statistics
Matches: 168, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
203 1 0.01
204 15 0.09
205 150 0.89
206 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.31
Consensus pattern (204 bp):
TTGTGTCTGAGTTCTAGTAATGAAAACGAGATAAAGATGTGTTATGATTTGTGGACATATGTGCA
TGATTATTCGGATGATAACAGGACTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCT
AAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGCTAAATCCCGAAGGCATTTGTGCTAGTG
ATTATATCT
Found at i:42874871 original size:27 final size:27
Alignment explanation
Indices: 42874841--42875039 Score: 263
Period size: 27 Copynumber: 7.4 Consensus size: 27
42874831 GGGGAAAAAT
* * *
42874841 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
42874868 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
42874895 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
42874922 GGTAATTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
42874949 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** ** * *
42874976 AATAATTCTACTTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
42875003 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
42875030 GGTAATTCTA
1 GGTAATTCTA
42875040 TAACTTATCC
Statistics
Matches: 153, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 153 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:42879929 original size:27 final size:27
Alignment explanation
Indices: 42879887--42880006 Score: 141
Period size: 27 Copynumber: 4.4 Consensus size: 27
42879877 TGGATAAGTT
*
42879887 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCAAAATACCCCTGTAGG
* * *
42879914 ATAGAATTACCAAAATACCCTTGTATG
1 GTAGAATTACCAAAATACCCCTGTAGG
* *
42879941 GTAGAAATACCAAAATACCCCTATAGG
1 GTAGAATTACCAAAATACCCCTGTAGG
* * * *
42879968 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCAAAATACCCCTGTAGG
*
42879995 GTAAAATTACCA
1 GTAGAATTACCA
42880007 TTTTTCCCCA
Statistics
Matches: 76, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCAAAATACCCCTGTAGG
Found at i:42880006 original size:54 final size:55
Alignment explanation
Indices: 42879887--42880006 Score: 156
Period size: 54 Copynumber: 2.2 Consensus size: 55
42879877 TGGATAAGTT
* * *
42879887 GTAG-AATTACCGAAATACCCCTGTAGGATAGAATTACCAAAATACCCTTGTATG
1 GTAGAAATTACCAAAATACCCCTATAGGATAGAATTACCAAAATACCCTTGTAGG
* * * *
42879941 GTAGAAA-TACCAAAATACCCCTATAGGGTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAAATTACCAAAATACCCCTATAGGATAGAATTACCAAAATACCCTTGTAGG
42879995 GTA-AAATTACCA
1 GTAGAAATTACCA
42880007 TTTTTCCCCA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 3 0.05
54 52 0.91
55 2 0.04
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (55 bp):
GTAGAAATTACCAAAATACCCCTATAGGATAGAATTACCAAAATACCCTTGTAGG
Found at i:42880701 original size:27 final size:26
Alignment explanation
Indices: 42880657--42880708 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
42880647 CTCGCTGCAA
*
42880657 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
42880684 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
42880709 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:42881698 original size:48 final size:48
Alignment explanation
Indices: 42881627--42881729 Score: 127
Period size: 48 Copynumber: 2.1 Consensus size: 48
42881617 TCTCATATCG
* * *
42881627 ATGCCATGTCCCAGACATGGTCTTTCA-CGAAATCACATATCAATGGCA
1 ATGCCATATCCCAGACATGGTCTTACATCG-AATCACATATCAATGACA
* * * *
42881675 ATGCCATATCCCAGATATGGTCTTACATTGGATCACATATCGATGACA
1 ATGCCATATCCCAGACATGGTCTTACATCGAATCACATATCAATGACA
42881723 ATGCCAT
1 ATGCCAT
42881730 GTCCTAGTGA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 46 0.98
49 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGCCATATCCCAGACATGGTCTTACATCGAATCACATATCAATGACA
Found at i:42894510 original size:78 final size:78
Alignment explanation
Indices: 42894423--42894566 Score: 234
Period size: 78 Copynumber: 1.8 Consensus size: 78
42894413 CACATGGGCA
*
42894423 TGTGACTTGGCCATGTGGCATAAGTCAGTATACCCTACAGGTTTGACAAGGCTTAACACACGACC
1 TGTGACTTGGCCATGTGGCATAAGTCAGTATACCCTACAGGTTTGACAAGGCCTAACACACGACC
42894488 TAGAACACAGGCG
66 TAGAACACAGGCG
* * * * *
42894501 TGTGACTTGGCCGTGTGGCATAAGTCAGTATACCCTATAGGTTTGACACGGCCTAGCACATGACC
1 TGTGACTTGGCCATGTGGCATAAGTCAGTATACCCTACAGGTTTGACAAGGCCTAACACACGACC
42894566 T
66 T
42894567 GGCACAGGCT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.24
Consensus pattern (78 bp):
TGTGACTTGGCCATGTGGCATAAGTCAGTATACCCTACAGGTTTGACAAGGCCTAACACACGACC
TAGAACACAGGCG
Found at i:42911179 original size:30 final size:30
Alignment explanation
Indices: 42911143--42911203 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
42911133 TTCCTGAGCC
*
42911143 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
42911173 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
42911203 T
1 T
42911204 GTATTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:42918576 original size:36 final size:36
Alignment explanation
Indices: 42918536--42918604 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
42918526 ATATTTCCTA
*
42918536 CTGATTTTGTAATTTTAGATTTCGAAGCAGACACTG
1 CTGATTTTGTAATTTTAGATTTCAAAGCAGACACTG
*
42918572 CTGATTTTGTAATTTTAGATTTCAAAGTAGACA
1 CTGATTTTGTAATTTTAGATTTCAAAGCAGACA
42918605 AATAAGTACC
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:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (36 bp):
CTGATTTTGTAATTTTAGATTTCAAAGCAGACACTG
Found at i:42925945 original size:64 final size:64
Alignment explanation
Indices: 42925844--42925971 Score: 229
Period size: 64 Copynumber: 2.0 Consensus size: 64
42925834 CACAAAGTCC
*
42925844 ATTGTGACTCGGTCCCATTTCCACTCGGGTATCATGATCGACTGAAGTAACCCTGAAGGCACTT
1 ATTGTGACTCGATCCCATTTCCACTCGGGTATCATGATCGACTGAAGTAACCCTGAAGGCACTT
* *
42925908 ATTGTGACTCGATCCCATTTCCACTCGGGTATCATGATCGGCTGAAGTAATCCTGAAGGCACTT
1 ATTGTGACTCGATCCCATTTCCACTCGGGTATCATGATCGACTGAAGTAACCCTGAAGGCACTT
42925972 GATGTTCTGC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (64 bp):
ATTGTGACTCGATCCCATTTCCACTCGGGTATCATGATCGACTGAAGTAACCCTGAAGGCACTT
Found at i:42926040 original size:56 final size:56
Alignment explanation
Indices: 42925949--42926056 Score: 198
Period size: 56 Copynumber: 1.9 Consensus size: 56
42925939 TCATGATCGG
* *
42925949 CTGAAGTAATCCTGAAGGCACTTGATGTTCTGCTTTCACTTGTTGACATATTTCGA
1 CTGAAGTAACCCTGAAGGCACTTGATGTTCCGCTTTCACTTGTTGACATATTTCGA
42926005 CTGAAGTAACCCTGAAGGCACTTGATGTTCCGCTTTCACTTGTTGACATATT
1 CTGAAGTAACCCTGAAGGCACTTGATGTTCCGCTTTCACTTGTTGACATATT
42926057 AAACATCTCG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.36
Consensus pattern (56 bp):
CTGAAGTAACCCTGAAGGCACTTGATGTTCCGCTTTCACTTGTTGACATATTTCGA
Found at i:42937619 original size:100 final size:100
Alignment explanation
Indices: 42937446--42937649 Score: 390
Period size: 100 Copynumber: 2.0 Consensus size: 100
42937436 CTCTATCCAA
*
42937446 TATTCAGCCACATTAGGGGCAACTCTAGTGACACCCCTAAAGATCTCAGCCCTATTAGACTTAAG
1 TATTCAGACACATTAGGGGCAACTCTAGTGACACCCCTAAAGATCTCAGCCCTATTAGACTTAAG
*
42937511 TCGTTCCGTTACTGACCTGCGGCCCATAGTACCAG
66 TCGTTCCGTTACTGACCTGCAGCCCATAGTACCAG
42937546 TATTCAGACACATTAGGGGCAACTCTAGTGACACCCCTAAAGATCTCAGCCCTATTAGACTTAAG
1 TATTCAGACACATTAGGGGCAACTCTAGTGACACCCCTAAAGATCTCAGCCCTATTAGACTTAAG
42937611 TCGTTCCGTTACTGACCTGCAGCCCATAGTACCAG
66 TCGTTCCGTTACTGACCTGCAGCCCATAGTACCAG
42937646 TATT
1 TATT
42937650 GGGCCTAGCG
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 102 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (100 bp):
TATTCAGACACATTAGGGGCAACTCTAGTGACACCCCTAAAGATCTCAGCCCTATTAGACTTAAG
TCGTTCCGTTACTGACCTGCAGCCCATAGTACCAG
Found at i:42941340 original size:24 final size:26
Alignment explanation
Indices: 42941303--42941353 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
42941293 CTGGAGGCCT
42941303 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCCTCTTTTAATAAACTGGGGCAAA
42941328 AGCC-CTTTTAATAAACTGGGGCAAA
1 AGCCTCTTTTAATAAACTGGGGCAAA
42941353 A
1 A
42941354 CCATTTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (26 bp):
AGCCTCTTTTAATAAACTGGGGCAAA
Found at i:42941360 original size:24 final size:24
Alignment explanation
Indices: 42941309--42941360 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
42941299 GCCTAGCCTC
*
42941309 TTTTAATAACTGGGGCAAAAGCCC
1 TTTTAATAACTGGGGCAAAAGCCA
42941333 TTTTAATAAACTGGGGCAAAA-CCA
1 TTTTAAT-AACTGGGGCAAAAGCCA
42941357 TTTT
1 TTTT
42941361 TGGTAAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (24 bp):
TTTTAATAACTGGGGCAAAAGCCA
Found at i:42941387 original size:25 final size:25
Alignment explanation
Indices: 42941316--42941375 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
42941306 CTCTTTTAAT
* **
42941316 AACTGGGGCAAAAGCC-CTTTTAATA
1 AACTGGGGCAAAA-CCATTTTTGGTA
42941341 AACTGGGGCAAAACCATTTTTGGTA
1 AACTGGGGCAAAACCATTTTTGGTA
*
42941366 AATTGGGGCA
1 AACTGGGGCA
42941376 TAGCCCTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 2 0.07
25 28 0.93
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAACCATTTTTGGTA
Found at i:42941456 original size:20 final size:20
Alignment explanation
Indices: 42941433--42941479 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
42941423 TTATGAATAC
42941433 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
42941452 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
42941473 ATCATGT
1 ATCATGT
42941480 ATATCAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:42948765 original size:26 final size:25
Alignment explanation
Indices: 42948723--42948806 Score: 91
Period size: 26 Copynumber: 3.4 Consensus size: 25
42948713 TTGGAGGCCT
*
42948723 AGCCTCTTCTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
**
42948748 AGCCCTTTTCGGTAAACTGGGGCAAA
1 AGCCCTTTT-AATAAACTGGGGCAAA
* *
42948774 AGCCCTATTAATAAACTGGGGC-AT
1 AGCCCTTTTAATAAACTGGGGCAAA
42948798 AGCCCTTTT
1 AGCCCTTTT
42948807 TGCACTTCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
24 13 0.27
25 16 0.33
26 20 0.41
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:42948872 original size:5 final size:5
Alignment explanation
Indices: 42948862--42948903 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
42948852 ACATCATGTG
*
42948862 CATAT CATAT CATAT -ATAT CATGT GCATAT CATAT CA-AT CAT
1 CATAT CATAT CATAT CATAT CATAT -CATAT CATAT CATAT CAT
42948904 GTAGATCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 8 0.25
5 20 0.62
6 4 0.12
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (5 bp):
CATAT
Found at i:42948882 original size:9 final size:10
Alignment explanation
Indices: 42948862--42948903 Score: 52
Period size: 9 Copynumber: 4.3 Consensus size: 10
42948852 ACATCATGTG
42948862 CATATCATAT
1 CATATCATAT
42948872 CATAT-ATAT
1 CATATCATAT
*
42948881 CATGTGCATAT
1 CATAT-CATAT
42948892 CATATCA-AT
1 CATATCATAT
42948901 CAT
1 CAT
42948904 GTAGATCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 13 0.46
10 7 0.25
11 8 0.29
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (10 bp):
CATATCATAT
Found at i:42948892 original size:20 final size:20
Alignment explanation
Indices: 42948867--42948905 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
42948857 ATGTGCATAT
42948867 CATATCATAT-ATATCATGTG
1 CATATCATATCA-ATCATGTG
42948887 CATATCATATCAATCATGT
1 CATATCATATCAATCATGT
42948906 AGATCAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (20 bp):
CATATCATATCAATCATGTG
Found at i:42951252 original size:27 final size:27
Alignment explanation
Indices: 42951222--42951345 Score: 151
Period size: 27 Copynumber: 4.6 Consensus size: 27
42951212 TGTAGGGTAG
* *
42951222 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTGTAA
42951249 AATTACCAAAATA-CCTCTGGTTTGTAA
1 AATTACCAAAATACCCT-TGGTTTGTAA
* *
42951276 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
****
42951303 AATTACCAAAATACCCTCAACTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
*
42951330 AATTACCAAAGTACCC
1 AATTACCAAAATACCC
42951346 CCGATTTAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
26 3 0.03
27 81 0.94
28 2 0.02
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTGTAA
Found at i:42951304 original size:54 final size:54
Alignment explanation
Indices: 42951222--42951363 Score: 162
Period size: 54 Copynumber: 2.6 Consensus size: 54
42951212 TGTAGGGTAG
* * * ***
42951222 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATA-CCTCTGGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTC-AACTTGTAA
*
42951276 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCAACTTGTAA
1 AATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTCAACTTGTAA
* * *
42951330 AATTACCAAAGTACCCC-CGATTTAAAAAATTACC
1 AATTACCAAAATACCCCTAG-TTTATAAAATTACC
42951364 GTTTTACCCT
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
53 1 0.01
54 70 0.93
55 4 0.05
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTCAACTTGTAA
Found at i:42951358 original size:27 final size:27
Alignment explanation
Indices: 42951222--42951363 Score: 133
Period size: 27 Copynumber: 5.3 Consensus size: 27
42951212 TGTAGGGTAG
* ** * *
42951222 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCCGATTTGTAA
* * *
42951249 AATTACCAAAATACCTCTGGTTTGTAA
1 AATTACCAAAATACCCCCGATTTGTAA
*
42951276 AATTACCAAAATA-CCCCTAGTTTGTAA
1 AATTACCAAAATACCCCCGA-TTTGTAA
* * *
42951303 AATTACCAAAATACCCTCAACTTGTAA
1 AATTACCAAAATACCCCCGATTTGTAA
* **
42951330 AATTACCAAAGTACCCCCGATTTAAAA
1 AATTACCAAAATACCCCCGATTTGTAA
42951357 AATTACC
1 AATTACC
42951364 GTTTTACCCT
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.02
27 90 0.94
28 4 0.04
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCCGATTTGTAA
Found at i:42951414 original size:27 final size:27
Alignment explanation
Indices: 42951384--42951523 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
42951374 TGATTTACAA
* *
42951384 AATTATTGAAATATCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
42951411 AATTA-CTGAAATACCCCTGTACGGTAG
1 AATTATC-GAAATACCCCTGTAGGGTAG
*
42951438 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
42951465 AAATATCGAAATGCCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* * * * *
42951492 AATTACCGAGATACCCTTGTTGGGTAA
1 AATTATCGAAATACCCCTGTAGGGTAG
42951519 AATTA
1 AATTA
42951524 CAATTTTGCC
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
27 95 0.99
28 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAGGGTAG
Found at i:42951965 original size:22 final size:22
Alignment explanation
Indices: 42951913--42951977 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
42951903 GCCAATTATT
*
42951913 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
42951935 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
42951957 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
42951978 ACGTATTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 35 0.95
23 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:42952204 original size:27 final size:26
Alignment explanation
Indices: 42952177--42952243 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
42952167 CTATGCTACA
*
42952177 AATATCTGTTCTGGTGGCTCTACCAC
1 AATATCTGTTCTGGTGACTCTACCAC
**
42952203 AATATCTGTATCTGGTGACTCTGTCAC
1 AATATCTGT-TCTGGTGACTCTACCAC
*
42952230 AATATCTATTCTGG
1 AATATCTGTTCTGG
42952244 CAGCCATGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 14 0.39
27 22 0.61
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.37
Consensus pattern (26 bp):
AATATCTGTTCTGGTGACTCTACCAC
Found at i:42953946 original size:34 final size:34
Alignment explanation
Indices: 42953893--42953979 Score: 86
Period size: 34 Copynumber: 2.6 Consensus size: 34
42953883 CAGTGTTGAA
* * * * *
42953893 CAGTCTGGGCCTAAACCCA-TATCAGTCGGATTAT
1 CAGTCTGGGCCTTAGCCCATTA-CAGTAGCAATAT
*
42953927 CAGTGTGGGCCTTAGCCCATTACAGTAGCAATAT
1 CAGTCTGGGCCTTAGCCCATTACAGTAGCAATAT
* *
42953961 CAGTTTGAGCCTTAGCCCA
1 CAGTCTGGGCCTTAGCCCA
42953980 ACTCAATACA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
34 42 0.95
35 2 0.05
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (34 bp):
CAGTCTGGGCCTTAGCCCATTACAGTAGCAATAT
Found at i:42972801 original size:48 final size:49
Alignment explanation
Indices: 42972717--42972830 Score: 133
Period size: 48 Copynumber: 2.4 Consensus size: 49
42972707 TTTGGATTTG
*** *
42972717 GGCCATGGTATAGGTA-TTTTGGAGATGAGTTACCTTGATTAGGCTACA
1 GGCCATGGTATAGGTACTCCAGGAGATAAGTTACCTTGATTAGGCTACA
* * ***
42972765 GGCCATGGTATAGGTACTCCAGG-GATAAGTTGCCTTGATTTGGCTTTG
1 GGCCATGGTATAGGTACTCCAGGAGATAAGTTACCTTGATTAGGCTACA
42972813 GGCCATGGTATAGGTACT
1 GGCCATGGTATAGGTACT
42972831 TAACGATAGG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
48 53 0.95
49 3 0.05
ACGTcount: A:0.22, C:0.15, G:0.31, T:0.32
Consensus pattern (49 bp):
GGCCATGGTATAGGTACTCCAGGAGATAAGTTACCTTGATTAGGCTACA
Found at i:42975881 original size:25 final size:25
Alignment explanation
Indices: 42975808--42975887 Score: 106
Period size: 25 Copynumber: 3.2 Consensus size: 25
42975798 TACCTATTTG
* * **
42975808 TAGCTCGTAAGAGCATACTGATTTG
1 TAGCTCATAAGAGCATACCGATTCA
*
42975833 TAGCTCATAAGAGCATATCGATTCA
1 TAGCTCATAAGAGCATACCGATTCA
*
42975858 TAGCTCATAAGAGCATACCAATTCA
1 TAGCTCATAAGAGCATACCGATTCA
42975883 TAGCT
1 TAGCT
42975888 TGTATGAGCA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (25 bp):
TAGCTCATAAGAGCATACCGATTCA
Found at i:42978930 original size:16 final size:16
Alignment explanation
Indices: 42978909--42978940 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
42978899 TGCCTAAGGG
42978909 CATATTGGTTGTATGT
1 CATATTGGTTGTATGT
42978925 CATATTGGTTGTATGT
1 CATATTGGTTGTATGT
42978941 GATCATACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (16 bp):
CATATTGGTTGTATGT
Found at i:42979990 original size:34 final size:34
Alignment explanation
Indices: 42979947--42980015 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
42979937 TTACCTGTGA
42979947 TAGTGTGGTATCTCTTGACTTTTAAAAACATGTT
1 TAGTGTGGTATCTCTTGACTTTTAAAAACATGTT
*
42979981 TAGTGTGGTATCTCTTGACTTTTTAAAACATGTT
1 TAGTGTGGTATCTCTTGACTTTTAAAAACATGTT
42980015 T
1 T
42980016 TCATAAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (34 bp):
TAGTGTGGTATCTCTTGACTTTTAAAAACATGTT
Found at i:42985938 original size:25 final size:25
Alignment explanation
Indices: 42985904--42985985 Score: 92
Period size: 25 Copynumber: 3.3 Consensus size: 25
42985894 TTACCAATTT
* * *
42985904 ATAGCCCGTAAGAGCATACTGATTT
1 ATAGCTCGTAAGAGAATACTGATTC
* **
42985929 ATAGCTCGTAAGAGTATACAAATTC
1 ATAGCTCGTAAGAGAATACTGATTC
* *
42985954 ATAGCTCGTGAGAGAATTCTGATTC
1 ATAGCTCGTAAGAGAATACTGATTC
42985979 ATAGCTC
1 ATAGCTC
42985986 ATATGAACAT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (25 bp):
ATAGCTCGTAAGAGAATACTGATTC
Found at i:42985998 original size:50 final size:50
Alignment explanation
Indices: 42985899--42985998 Score: 110
Period size: 50 Copynumber: 2.0 Consensus size: 50
42985889 TAGTGTTACC
* * * * **
42985899 AATTTATAGCCCGTAAGAGCATACTGATTTATAGCTCGTAAGAGTATACA
1 AATTCATAGCCCGTAAGAGAATACTGATTCATAGCTCATAAGAACATACA
* * * *
42985949 AATTCATAGCTCGTGAGAGAATTCTGATTCATAGCTCATATGAACATACA
1 AATTCATAGCCCGTAAGAGAATACTGATTCATAGCTCATAAGAACATACA
42985999 TGTACATGAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (50 bp):
AATTCATAGCCCGTAAGAGAATACTGATTCATAGCTCATAAGAACATACA
Found at i:42991448 original size:29 final size:29
Alignment explanation
Indices: 42991413--42991489 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
42991403 CATGAGATTG
* *
42991413 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGGGTTTAAAGTGCACA
* * **
42991442 GCACTAAGTGTGTGAGTTTAAAGTGCATG
1 GCACTAAGTGTGCGGGTTTAAAGTGCACA
42991471 GCACTAAGTGTGCGCGGTT
1 GCACTAAGTGTGCG-GGTT
42991490 GATTATTGAG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 36 0.92
30 3 0.08
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTTAAAGTGCACA
Found at i:42991707 original size:174 final size:174
Alignment explanation
Indices: 42991442--42991769 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
42991432 AAATTGTACA
* *
42991442 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
42991507 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
42991572 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
42991616 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
42991681 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
42991746 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
42991770 ACCTTGAGTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:42995180 original size:23 final size:23
Alignment explanation
Indices: 42995150--42995224 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
42995140 CTGATGAATA
42995150 GTAAGCTCTAATGAGCTGAAACG
1 GTAAGCTCTAATGAGCTGAAACG
* *
42995173 GTAAGCTCT-ATCAAGCTGAAA-A
1 GTAAGCTCTAAT-GAGCTGAAACG
* **
42995195 GTAAGC-CTATTGATATGAAACG
1 GTAAGCTCTAATGAGCTGAAACG
42995217 GTAAGCTC
1 GTAAGCTC
42995225 CAGTGAGTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
21 8 0.20
22 15 0.37
23 18 0.44
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (23 bp):
GTAAGCTCTAATGAGCTGAAACG
Found at i:42997676 original size:100 final size:100
Alignment explanation
Indices: 42997503--42998248 Score: 1474
Period size: 100 Copynumber: 7.5 Consensus size: 100
42997493 TCTATTGTGA
42997503 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATTACGTGTGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATTACGTGTGTAG
42997568 TACTAAGTGTAGGCTACTACGTGTACCGGATAATT
66 TACTAAGTGTAGGCTACTACGTGTACCGGATAATT
42997603 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATTACGTGTGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATTACGTGTGTAG
42997668 TACTAAGTGTAGGCTACTACGTGTACCGGATAATT
66 TACTAAGTGTAGGCTACTACGTGTACCGGATAATT
42997703 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATTACGTGTGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATTACGTGTGTAG
42997768 TACTAAGTGTAGGCTACTACGTGTACCGGATAATT
66 TACTAAGTGTAGGCTACTACGTGTACCGGATAATT
42997803 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATTACGTGTGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATTACGTGTGTAG
42997868 TACTAAGTGTAGGCTACTACGTGTACCGGATAATT
66 TACTAAGTGTAGGCTACTACGTGTACCGGATAATT
42997903 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATTACGTGTGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATTACGTGTGTAG
42997968 TACTAAGTGTAGGCTACTACGTGTACCGGATAATT
66 TACTAAGTGTAGGCTACTACGTGTACCGGATAATT
42998003 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATTACGTGTGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATTACGTGTGTAG
42998068 TACTAAGTGTAGGCTACTACGTGTACCGGATAATT
66 TACTAAGTGTAGGCTACTACGTGTACCGGATAATT
42998103 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATTACGTGTGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATTACGTGTGTAG
42998168 TACTAAGTGTAGGCTACTACGTGTACCGGATAATT
66 TACTAAGTGTAGGCTACTACGTGTACCGGATAATT
* *
42998203 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATA
42998249 GCTTTGGCTA
Statistics
Matches: 644, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 644 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (100 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATTACGTGTGTAG
TACTAAGTGTAGGCTACTACGTGTACCGGATAATT
Found at i:43002748 original size:27 final size:27
Alignment explanation
Indices: 43002710--43002769 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
43002700 TAATGCTTGT
*
43002710 TGTTACATGAATTGATTGTTAAATTAC
1 TGTTACATGAATTGAGTGTTAAATTAC
43002737 TGTTACATGAATTGAGTGTTAAATTAC
1 TGTTACATGAATTGAGTGTTAAATTAC
43002764 TGTTAC
1 TGTTAC
43002770 CTGGGTTGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (27 bp):
TGTTACATGAATTGAGTGTTAAATTAC
Found at i:43003147 original size:50 final size:50
Alignment explanation
Indices: 43003018--43003215 Score: 236
Period size: 50 Copynumber: 4.0 Consensus size: 50
43003008 ATCTCTTGTG
* * *
43003018 AGGTCACATTTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT
* * * ** *
43003069 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATTAGATGATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * *
43003119 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
** * *
43003169 -GGTTGCATGTGTAGTACTAAGTGCAGGCTAGTATGCGTACCAGATAA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA
43003216 CTTTGGCTAT
Statistics
Matches: 124, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
49 40 0.32
50 45 0.36
51 39 0.31
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:43009872 original size:20 final size:20
Alignment explanation
Indices: 43009834--43009874 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
43009824 TTTATCCAAA
43009834 AACATCTTATTACAGTCAAT
1 AACATCTTATTACAGTCAAT
*
43009854 AACAT-TTATTCACATTCAAT
1 AACATCTTATT-ACAGTCAAT
43009874 A
1 A
43009875 TGTACTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (20 bp):
AACATCTTATTACAGTCAAT
Found at i:43011275 original size:45 final size:47
Alignment explanation
Indices: 43011217--43011321 Score: 137
Period size: 45 Copynumber: 2.3 Consensus size: 47
43011207 TGAGCTGATG
*
43011217 AATAGTAAGCTCTAATGAGT-TGAAACGGTAAGCTCTA-TCAAGCT-AA
1 AATAGTAAGCTCTAATGA-TATGAAACGGTAAGATCTAGT-AAGCTAAA
* *
43011263 AA-AGTAAGCTCTATTGATATGAAACGGTAAGATCTAGTGAGCTAAA
1 AATAGTAAGCTCTAATGATATGAAACGGTAAGATCTAGTAAGCTAAA
43011309 AATAGTAAGCTCT
1 AATAGTAAGCTCT
43011322 TACGAGCTGA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
44 1 0.02
45 34 0.65
46 7 0.13
47 10 0.19
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (47 bp):
AATAGTAAGCTCTAATGATATGAAACGGTAAGATCTAGTAAGCTAAA
Found at i:43013068 original size:19 final size:21
Alignment explanation
Indices: 43013027--43013074 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
43013017 TTAAAATTTT
43013027 AACTAAAAATATTAAAATAAA
1 AACTAAAAATATTAAAATAAA
* *
43013048 AA-TAAAAAT-TTAGAATCAA
1 AACTAAAAATATTAAAATAAA
43013067 AACTAAAA
1 AACTAAAA
43013075 TAAATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (21 bp):
AACTAAAAATATTAAAATAAA
Found at i:43016785 original size:8 final size:8
Alignment explanation
Indices: 43016772--43016890 Score: 102
Period size: 8 Copynumber: 16.5 Consensus size: 8
43016762 TATTGATTAA
43016772 TTTTAATT
1 TTTTAATT
*
43016780 TTTTAAGT
1 TTTTAATT
*
43016788 TTTTCATT
1 TTTTAATT
43016796 TTTTAA-T
1 TTTTAATT
*
43016803 TTTTAAGT
1 TTTTAATT
* *
43016811 TTCTCA-T
1 TTTTAATT
43016818 TTTTAA--
1 TTTTAATT
43016824 TTTT-ATT
1 TTTTAATT
43016831 TTTTAA--
1 TTTTAATT
43016837 TTTT-ATT
1 TTTTAATT
43016844 TTTTAA--
1 TTTTAATT
43016850 TTTT-ATT
1 TTTTAATT
43016857 TTTTAATT
1 TTTTAATT
43016865 TTTTAATT
1 TTTTAATT
43016873 TTTTAA--
1 TTTTAATT
43016879 TTTTAATT
1 TTTTAATT
43016887 TTTT
1 TTTT
43016891 GAGTTTATTT
Statistics
Matches: 91, Mismatches: 8, Indels: 24
0.74 0.07 0.20
Matches are distributed among these distances:
5 3 0.03
6 18 0.20
7 24 0.26
8 46 0.51
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.73
Consensus pattern (8 bp):
TTTTAATT
Found at i:43016805 original size:14 final size:13
Alignment explanation
Indices: 43016796--43016904 Score: 121
Period size: 13 Copynumber: 7.9 Consensus size: 13
43016786 GTTTTTCATT
*
43016796 TTTTAATTTTTAA
1 TTTTATTTTTTAA
43016809 GTTTCTCAT-TTTTAA
1 -TTT-T-ATTTTTTAA
43016824 TTTTATTTTTTAA
1 TTTTATTTTTTAA
43016837 TTTTATTTTTTAA
1 TTTTATTTTTTAA
43016850 TTTTATTTTTTAA
1 TTTTATTTTTTAA
43016863 TTTTTTAATTTTTTAA
1 --TTTT-ATTTTTTAA
*
43016879 TTTTAATTTTTTGA
1 TTTT-ATTTTTTAA
*
43016893 GTTTATTTTTTA
1 TTTTATTTTTTA
43016905 TTTCGGTTAA
Statistics
Matches: 85, Mismatches: 4, Indels: 13
0.83 0.04 0.13
Matches are distributed among these distances:
12 2 0.02
13 40 0.47
14 22 0.26
15 11 0.13
16 10 0.12
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTTATTTTTTAA
Found at i:43016835 original size:13 final size:13
Alignment explanation
Indices: 43016817--43016904 Score: 122
Period size: 13 Copynumber: 6.5 Consensus size: 13
43016807 AAGTTTCTCA
43016817 TTTTTAATTTTAT
1 TTTTTAATTTTAT
43016830 TTTTTAATTTTAT
1 TTTTTAATTTTAT
43016843 TTTTTAATTTTAT
1 TTTTTAATTTTAT
43016856 TTTTTAATTTTTTAAT
1 TTTTTAA--TTTT-AT
43016872 TTTTTAATTTTAAT
1 TTTTTAATTTT-AT
* *
43016886 TTTTTGAGTTTAT
1 TTTTTAATTTTAT
43016899 TTTTTA
1 TTTTTA
43016905 TTTCGGTTAA
Statistics
Matches: 69, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
13 40 0.58
14 16 0.23
15 4 0.06
16 9 0.13
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (13 bp):
TTTTTAATTTTAT
Found at i:43017458 original size:15 final size:15
Alignment explanation
Indices: 43017435--43017485 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
43017425 ATACCCATGG
*
43017435 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
43017450 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
* *
43017465 CTAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
43017479 CCTTAAA
1 CCATAAA
43017486 TATTAAACCG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:43017785 original size:41 final size:41
Alignment explanation
Indices: 43017739--43018024 Score: 349
Period size: 41 Copynumber: 7.0 Consensus size: 41
43017729 GGGGTTATAT
* * *
43017739 GACTTTTAGCAGTGTTTTACTAGAAGCGCCGCTATTGCTCC
1 GACTTTTAGCGGCGTTTTACCAGAAGCGCCGCTATTGCTCC
* * *
43017780 GACTTTTAGCGGCGTTTTACTAGAAGCGCCACTATTGCTTC
1 GACTTTTAGCGGCGTTTTACCAGAAGCGCCGCTATTGCTCC
*
43017821 GACTTTTAGTGGCGTTTTACCAGAAGCGCCGCTATTGCTCC
1 GACTTTTAGCGGCGTTTTACCAGAAGCGCCGCTATTGCTCC
*
43017862 GACTTTTAGCGGCGTTTTACCAGAAGTGCCGCTATTGCTCC
1 GACTTTTAGCGGCGTTTTACCAGAAGCGCCGCTATTGCTCC
* * *
43017903 GACTTTTCGCGGTGTTTTACCAGAAGCGCCGCTATTGCTCT
1 GACTTTTAGCGGCGTTTTACCAGAAGCGCCGCTATTGCTCC
* * * ** *
43017944 GACTTTTAGTGGCGTTTTAACAAAAAATGCCGCTATTGCTCT
1 GACTTTTAGCGGCGTTTT-ACCAGAAGCGCCGCTATTGCTCC
* * * * **
43017986 G-TTTTTGGCTGCGTTTTACCAAAAATGCCGCTATTGCTC
1 GACTTTTAGCGGCGTTTTACCAGAAGCGCCGCTATTGCTC
43018025 TATGTTTTAC
Statistics
Matches: 218, Mismatches: 26, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
40 21 0.10
41 177 0.81
42 20 0.09
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.34
Consensus pattern (41 bp):
GACTTTTAGCGGCGTTTTACCAGAAGCGCCGCTATTGCTCC
Found at i:43023859 original size:92 final size:92
Alignment explanation
Indices: 43023744--43023925 Score: 301
Period size: 92 Copynumber: 2.0 Consensus size: 92
43023734 TTGGCCAAGT
* * * * *
43023744 CTAAAATTCTGAAAATTTTATGGATGGAAGATGTATGAGTCTATATTCAGGGAAAATTAACGGCA
1 CTAAAATTCTGAAAATTTTATGGATGGAAGATATACGAGTCTATATTCAGGAAAAATTAACAGAA
*
43023809 AGTGATTTGGAGTTTTGTAGCTCCAAC
66 AGTGATTTGGACTTTTGTAGCTCCAAC
*
43023836 CTAAAATTCTGTAAATTTTATGGATGGAAGATATACGAGTCTATATTCAGGAAAAATTAACAGAA
1 CTAAAATTCTGAAAATTTTATGGATGGAAGATATACGAGTCTATATTCAGGAAAAATTAACAGAA
43023901 AGTGATTTGGACTTTTGTAGCTCCA
66 AGTGATTTGGACTTTTGTAGCTCCA
43023926 GTTATAAATA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 83 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (92 bp):
CTAAAATTCTGAAAATTTTATGGATGGAAGATATACGAGTCTATATTCAGGAAAAATTAACAGAA
AGTGATTTGGACTTTTGTAGCTCCAAC
Found at i:43024167 original size:47 final size:47
Alignment explanation
Indices: 43024101--43024205 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
43024091 GAAATGATAG
43024101 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
43024148 TAAGGCATAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
43024195 TAAGGCCTAAT
1 TAAGGCCTAAT
43024206 AGCCTCTAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:43024526 original size:375 final size:374
Alignment explanation
Indices: 43023836--43024568 Score: 1367
Period size: 375 Copynumber: 2.0 Consensus size: 374
43023826 TAGCTCCAAC
*
43023836 CTAAAATTCTGTAAATTTTATGGATGGAAGATATACGAGTCTATATTCAGGAAAAATTAACAGAA
1 CTAAAATTCTGAAAATTTTATGGATGGAAGATATACGAGTCTATATTCAGGAAAAATTAACAGAA
43023901 AGTGATTTGGACTTTTGTAGCTCCAGTTATAAATAATTTAGTGACTATTGCTCAGGAAAAACAGC
66 AGTGATTTGGACTTTTGTAGCTCCAGTTATAAATAATTTAGTGACTATTGCTCAGGAAAAACAGC
43023966 TTGTGCTGAATTTGAGATTATGTTGTGAACCTTGATAAACTTGTTTTAGTTGCTCATAAGCTATT
131 TTGTGCTGAATTTGAGATTATGTTGTGAACCTTGATAAACTTGTTTTAGTTGCTCATAAGCTATT
43024031 GATTAAACCCATACTTGAATTCTAAATCATGATATTGTAAGTTTATGAGTATTCGAATATGAAAT
196 GATTAAACCCATACTTGAATTCTAAATCATGATATTGTAAGTTTATGAGTATTCGAATATGAAAT
*
43024096 GATAGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCATAATGG
261 GATAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCATAATGG
*
43024161 CCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCT
326 CCGATGTG-TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCT
* * * * *
43024211 CTAAAATTCTGAAAATTTTATGGATGGAAGATGTATGAGTCTATATTCAGGGAAAATTAACGGCA
1 CTAAAATTCTGAAAATTTTATGGATGGAAGATATACGAGTCTATATTCAGGAAAAATTAACAGAA
*
43024276 AGTGATTTGGAGTTTTGTAGCTCCAGTTATAAATAATTTAGTGACTATTGCTCAGGAAAAACAGC
66 AGTGATTTGGACTTTTGTAGCTCCAGTTATAAATAATTTAGTGACTATTGCTCAGGAAAAACAGC
43024341 TTGTGCTGAATTTGAGATTATGTTGTGAACCTTGATAAACTTGTTTTAGTTGCTCATAAGCTATT
131 TTGTGCTGAATTTGAGATTATGTTGTGAACCTTGATAAACTTGTTTTAGTTGCTCATAAGCTATT
43024406 GATTAAACCCATACTTGAATTCTAAATCATGATATTGTAAGTTTATGAGTATTCGAATATGAAAT
196 GATTAAACCCATACTTGAATTCTAAATCATGATATTGTAAGTTTATGAGTATTCGAATATGAAAT
*
43024471 GATAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
261 GATAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCATAATGG
43024536 CCGATGTGTGAATGTGAAAGTGTATATATGTGA
326 CCGATGTGTGAATGTGAAAGTGTATATATGTGA
43024569 CAGGGCCGAG
Statistics
Matches: 348, Mismatches: 10, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
374 24 0.07
375 324 0.93
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (374 bp):
CTAAAATTCTGAAAATTTTATGGATGGAAGATATACGAGTCTATATTCAGGAAAAATTAACAGAA
AGTGATTTGGACTTTTGTAGCTCCAGTTATAAATAATTTAGTGACTATTGCTCAGGAAAAACAGC
TTGTGCTGAATTTGAGATTATGTTGTGAACCTTGATAAACTTGTTTTAGTTGCTCATAAGCTATT
GATTAAACCCATACTTGAATTCTAAATCATGATATTGTAAGTTTATGAGTATTCGAATATGAAAT
GATAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCATAATGG
CCGATGTGTGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCT
Found at i:43024565 original size:46 final size:47
Alignment explanation
Indices: 43024475--43024619 Score: 202
Period size: 47 Copynumber: 3.1 Consensus size: 47
43024465 TGAAATGATA
43024475 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
1 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
43024522 ATAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTG
1 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
* * * * * * * * *
43024568 ACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTG
1 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
43024615 ATAAG
1 ATAAG
43024620 TCCCGAAGGG
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 40 0.47
47 46 0.53
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.26
Consensus pattern (47 bp):
ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
Found at i:43024794 original size:37 final size:37
Alignment explanation
Indices: 43024738--43024816 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
43024728 CCGAGCTCTA
* *
43024738 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
43024775 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
43024812 AAGAC
1 AAGAC
43024817 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43027485 original size:18 final size:17
Alignment explanation
Indices: 43027459--43027492 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
43027449 ACTCAACAAG
43027459 TAAACTCTTACTAGACAC
1 TAAACTCTTAC-AGACAC
*
43027477 TAAATTCTTACAGACA
1 TAAACTCTTACAGACA
43027493 TATGAATGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (17 bp):
TAAACTCTTACAGACAC
Found at i:43058620 original size:68 final size:66
Alignment explanation
Indices: 43058548--43058719 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
43058538 CATCATGTGT
* * * *
43058548 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
43058611 TGTAG
62 TGTAG
** * *
43058616 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
43058681 AG
65 AG
* * * *
43058683 ACAAGAGAGCTACGAGATA-ATTTGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
43058720 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 19 0.21
67 30 0.34
68 13 0.15
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:43058653 original size:64 final size:63
Alignment explanation
Indices: 43058572--43058755 Score: 201
Period size: 67 Copynumber: 2.9 Consensus size: 63
43058562 AGACATTATG
* *
43058572 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * *
43058635 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 -ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
43058700 TA
62 TA
* * * *
43058702 ATTTGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
43058756 CAAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 23 0.23
67 31 0.31
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:43062181 original size:100 final size:101
Alignment explanation
Indices: 43062055--43062257 Score: 381
Period size: 101 Copynumber: 2.0 Consensus size: 101
43062045 AGGCAATTGG
* *
43062055 ACAATTTGTTGGGATGCATGTTATTTACATGATTACTTAAA-TTGAATATAAATGGTAAGTTAAA
1 ACAATTTGTTGGGATGCATGTTATTTACATGATTACTTAAATTTCAATATAAACGGTAAGTTAAA
43062119 TTCCTGTTATGCAAACTTACTAAGCATTAAATGCTT
66 TTCCTGTTATGCAAACTTACTAAGCATTAAATGCTT
43062155 ACAATTTGTTGGGATGCATGTTATTTACATGATTACTTAAATTTCAATATAAACGGTAAGTTAAA
1 ACAATTTGTTGGGATGCATGTTATTTACATGATTACTTAAATTTCAATATAAACGGTAAGTTAAA
43062220 TTCCTGTTATGCAAACTTACTAAGCATTAAATGCTT
66 TTCCTGTTATGCAAACTTACTAAGCATTAAATGCTT
43062256 AC
1 AC
43062258 TTTGTTTTAT
Statistics
Matches: 100, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
100 41 0.41
101 59 0.59
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.38
Consensus pattern (101 bp):
ACAATTTGTTGGGATGCATGTTATTTACATGATTACTTAAATTTCAATATAAACGGTAAGTTAAA
TTCCTGTTATGCAAACTTACTAAGCATTAAATGCTT
Found at i:43066649 original size:82 final size:82
Alignment explanation
Indices: 43066512--43066674 Score: 317
Period size: 82 Copynumber: 2.0 Consensus size: 82
43066502 AAGTTCTGAC
43066512 ATGATTAAACTGAACTTAAGATGATTTTTCATGAAAATGCACATGTTAAACAAAAATATGATATG
1 ATGATTAAACTGAACTTAAGATGATTTTTCATGAAAATGCACATGTTAAACAAAAATATGATATG
43066577 AAAAGTATATGTATATT
66 AAAAGTATATGTATATT
*
43066594 ATGATTAAACTGAGCTTAAGATGATTTTTCATGAAAATGCACATGTTAAACAAAAATATGATATG
1 ATGATTAAACTGAACTTAAGATGATTTTTCATGAAAATGCACATGTTAAACAAAAATATGATATG
43066659 AAAAGTATATGTATAT
66 AAAAGTATATGTATAT
43066675 GAAAGTTATT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (82 bp):
ATGATTAAACTGAACTTAAGATGATTTTTCATGAAAATGCACATGTTAAACAAAAATATGATATG
AAAAGTATATGTATATT
Found at i:43067169 original size:34 final size:34
Alignment explanation
Indices: 43067131--43067197 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
43067121 ATATGTATGC
43067131 TTGATATGGTTAGATTGAATTATGGTAAACATAA
1 TTGATATGGTTAGATTGAATTATGGTAAACATAA
*
43067165 TTGATATGGTTAGGTTGAATTATGGTAAACATA
1 TTGATATGGTTAGATTGAATTATGGTAAACATA
43067198 TGTGTCTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.39
Consensus pattern (34 bp):
TTGATATGGTTAGATTGAATTATGGTAAACATAA
Found at i:43070553 original size:50 final size:50
Alignment explanation
Indices: 43070495--43070593 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
43070485 AGCCATATCG
*
43070495 TTACTCAGGGATGAGGCTTATCAGTGGTGGCTCACGGTGAGAGATGGAAT
1 TTACTCAGGGATGAGGCTTATCAATGGTGGCTCACGGTGAGAGATGGAAT
*
43070545 TTACTCAGGGATGAGGCTTATCAATGGTGGCTCATGGTGAGAGATGGAA
1 TTACTCAGGGATGAGGCTTATCAATGGTGGCTCACGGTGAGAGATGGAA
43070594 CTCTTGCTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.25, C:0.13, G:0.35, T:0.26
Consensus pattern (50 bp):
TTACTCAGGGATGAGGCTTATCAATGGTGGCTCACGGTGAGAGATGGAAT
Found at i:43076284 original size:26 final size:27
Alignment explanation
Indices: 43076255--43076314 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
43076245 CCACATATAT
*
43076255 ATATCTG-TTCTGGTGGCCTAGCCACA
1 ATATCTGTTTCTGGTGACCTAGCCACA
* * *
43076281 ATATCTGTTTCTGGTGACTTCGTCACA
1 ATATCTGTTTCTGGTGACCTAGCCACA
43076308 ATATCTG
1 ATATCTG
43076315 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (27 bp):
ATATCTGTTTCTGGTGACCTAGCCACA
Found at i:43080360 original size:9 final size:9
Alignment explanation
Indices: 43080346--43080378 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
43080336 TATAGACACC
43080346 TATTATTTT
1 TATTATTTT
43080355 TATTATTTT
1 TATTATTTT
43080364 TATTA-TTT
1 TATTATTTT
43080372 TATTATT
1 TATTATT
43080379 ATCCTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TATTATTTT
Found at i:43086776 original size:40 final size:40
Alignment explanation
Indices: 43086721--43087175 Score: 716
Period size: 40 Copynumber: 11.4 Consensus size: 40
43086711 NNNNNNNNNN
43086721 TAAGACCTGAAGGCATTTGTGCGAATTGATATATCCGGGC
1 TAAGACCTGAAGGCATTTGTGCGAATTGATATATCCGGGC
43086761 TAAGACCTGAAGGCATTTGTGCGAATTGATATATCCGGGC
1 TAAGACCTGAAGGCATTTGTGCGAATTGATATATCCGGGC
43086801 TAAGACCTGAAGGCATTTGTGCGAATTGATATATCCGGGC
1 TAAGACCTGAAGGCATTTGTGCGAATTGATATATCCGGGC
43086841 TAAGACCTGAAGGCATTTGTGCGAATTGATATATCCGGGC
1 TAAGACCTGAAGGCATTTGTGCGAATTGATATATCCGGGC
43086881 TAAGACCTGAAGGCATTTGTGCGAATTGATATATCCGGGC
1 TAAGACCTGAAGGCATTTGTGCGAATTGATATATCCGGGC
43086921 TAAGACCTGAAGGCATTTGTGCGAATTGATATATCCGGGC
1 TAAGACCTGAAGGCATTTGTGCGAATTGATATATCCGGGC
* * *
43086961 TAAGACCCGAAGGCATTTGTGCGATTTGATATATCCGGGA
1 TAAGACCTGAAGGCATTTGTGCGAATTGATATATCCGGGC
* *
43087001 TAAGACCCGAAGGCATTTGTGCGAACTGATATATCCGGGC
1 TAAGACCTGAAGGCATTTGTGCGAATTGATATATCCGGGC
* *
43087041 TAAGATCC-GACGGCGTTTGTGCGAATTGATATATCCGGGC
1 TAAGA-CCTGAAGGCATTTGTGCGAATTGATATATCCGGGC
* * * *
43087081 TAAAACCCGAAGGTAATTGTGC-AAGTTGATATATCCGGGC
1 TAAGACCTGAAGGCATTTGTGCGAA-TTGATATATCCGGGC
* * * * * *
43087121 TAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGT
1 TAAGACCTGAAGGCATTTGTGCGAATTGATATATCCGGGC
*
43087161 TAAGACCCGAAGGCA
1 TAAGACCTGAAGGCA
43087176 ATTGAGCTTG
Statistics
Matches: 389, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
39 4 0.01
40 382 0.98
41 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (40 bp):
TAAGACCTGAAGGCATTTGTGCGAATTGATATATCCGGGC
Found at i:43121431 original size:17 final size:17
Alignment explanation
Indices: 43121405--43121446 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
43121395 TGTTGATAGA
*
43121405 GTTAGTTTAGAAAAATC
1 GTTAGCTTAGAAAAATC
43121422 GTTAGCTTAGAAAAATC
1 GTTAGCTTAGAAAAATC
*
43121439 GTTGGCTT
1 GTTAGCTT
43121447 GTCACTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (17 bp):
GTTAGCTTAGAAAAATC
Found at i:43132019 original size:16 final size:16
Alignment explanation
Indices: 43131998--43132030 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
43131988 AAGTCTACAA
43131998 GTTCCCATACAAAGTT
1 GTTCCCATACAAAGTT
43132014 GTTCCCATACAAAGTT
1 GTTCCCATACAAAGTT
43132030 G
1 G
43132031 GAATACATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (16 bp):
GTTCCCATACAAAGTT
Found at i:43133648 original size:20 final size:20
Alignment explanation
Indices: 43133580--43133652 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
43133570 ATCACTTTAA
*
43133580 TATTAAATTAATA--AAATAC
1 TATTAAAATAATATTAAAT-C
*
43133599 TATTAAGATAAATATTAAA-C
1 TATTAAAAT-AATATTAAATC
**
43133619 --TTAATTTAATATTAAATC
1 TATTAAAATAATATTAAATC
43133637 TATTAAAATAATATTA
1 TATTAAAATAATATTA
43133653 TTTTTGGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
17 9 0.21
18 6 0.14
19 7 0.17
20 17 0.40
22 3 0.07
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (20 bp):
TATTAAAATAATATTAAATC
Found at i:43135457 original size:17 final size:17
Alignment explanation
Indices: 43135435--43135470 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
43135425 TGCGTAGACT
*
43135435 TTCCCTAGAAGTCTGGC
1 TTCCCTACAAGTCTGGC
43135452 TTCCCTACAAGTCTGGC
1 TTCCCTACAAGTCTGGC
43135469 TT
1 TT
43135471 TATGTGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.31, G:0.19, T:0.33
Consensus pattern (17 bp):
TTCCCTACAAGTCTGGC
Found at i:43144106 original size:40 final size:40
Alignment explanation
Indices: 43144044--43144264 Score: 258
Period size: 40 Copynumber: 5.5 Consensus size: 40
43144034 TATTCGAATG
*
43144044 ATATCCGGGCTAAG-TCCTGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGATCC-GAAGGCATTTGTGCTAGTGACT
*
43144084 ATATCCGGACTAAGATCCGAAGGCATTTGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCT-AG-TGACT
* *
43144124 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
43144164 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTAACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* * *
43144204 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
43144244 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGAT-CCGAAG
43144265 ATACTTGGGT
Statistics
Matches: 157, Mismatches: 15, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
38 1 0.01
39 14 0.09
40 135 0.86
41 7 0.04
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:43144247 original size:80 final size:80
Alignment explanation
Indices: 43144044--43144264 Score: 288
Period size: 80 Copynumber: 2.8 Consensus size: 80
43144034 TATTCGAATG
* * * *
43144044 ATATCCGGGCTAAGTCCTGAAGGCTTTTGTGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAG-TCCCGAAGGC
* **
43144108 ATTTGTGTGAGTTGCT
65 ATTTATGTGAGTAACT
*
43144124 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
43144189 TTTATGCT-AGTAACT
66 TTTATG-TGAGTAACT
* * *
43144204 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAG
43144265 ATACTTGGGT
Statistics
Matches: 126, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
79 15 0.12
80 109 0.87
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTTATGTGAGTAACT
Found at i:43144532 original size:22 final size:22
Alignment explanation
Indices: 43144492--43144533 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
43144482 GAATGTGCAT
*
43144492 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
43144514 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
43144534 TCGAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:43149375 original size:474 final size:474
Alignment explanation
Indices: 43148488--43149436 Score: 1763
Period size: 474 Copynumber: 2.0 Consensus size: 474
43148478 GCCTCTCTCT
43148488 TTGCTTGCTTTCTTTCATTATTGAACTCCTCGGCCATCTTGGCCCGATCAGCTAATGCGGCGAAC
1 TTGCTTGCTTTCTTTCATTATTGAACTCCTCGGCCATCTTGGCCCGATCAGCTAATGCGGCGAAC
43148553 TCCCGTATCTCAAGAATCCCAATCAACAGCTTGATTTCCTCCTTTAGACATTCCTCAAAATGTTT
66 TCCCGTATCTCAAGAATCCCAATCAACAGCTTGATTTCCTCCTTTAGACATTCCTCAAAATGTTT
43148618 GCACATTTCTGACTCAGTTTGAACCCATTAGTGGCATACTGACTTAGCCTTACAAACTCCTTTCA
131 GCACATTTCTGACTCAGTTTGAACCCATTAGTGGCATACTGACTTAGCCTTACAAACTCCTTTCA
43148683 TATTCTGCTACAGTCTTATTTCCTTGCTTGAGTTGCAGGAACTCCTTCCATTTCGAGTCTAAGAA
196 TATTCTGCTACAGTCTTATTTCCTTGCTTGAGTTGCAGGAACTCCTTCCATTTCGAGTCTAAGAA
*
43148748 CCTTTGACTAATGTATTTCTTTTTAAACTCTGCTTGAAAGAATTCCCAATTGATGTTTTCCTTTG
261 CCTTTGACTAATGTATTTCTTTTTAAACTCTACTTGAAAGAATTCCCAATTGATGTTTTCCTTTG
*
43148813 GCATCACGAAAGATACAATATTCCACCAGTGGTATGTAGTATCCTTCAGGAGAGACACGACACAC
326 GCATCACGAAAGATACAATATTCCACCAGTGGTATGCAGTATCCTTCAGGAGAGACACGACACAC
* *
43148878 TTTAAGCACTCCTCATGTGTGTACGATAATTCATCTAATACTCGAGTATTATTCTCGAGCCAGAA
391 TTTAAGCACTCCTCATGTGTGTACGATAATTCATCTAATACCCGAGTAGTATTCTCGAGCCAGAA
43148943 CTCAGCTTTTTCAGCATAG
456 CTCAGCTTTTTCAGCATAG
* * *
43148962 TTGCTTGCTTTCTTTCATTATTGAACTCGTCGGCCTTCTTGGCTCGATCAGCTAATGCGGCGAAC
1 TTGCTTGCTTTCTTTCATTATTGAACTCCTCGGCCATCTTGGCCCGATCAGCTAATGCGGCGAAC
*
43149027 TCCCGTATCTCAAGAATCCCAATGAACAGCTTGATTTCCTCCTTTAGACATTCCTCAAAATGTTT
66 TCCCGTATCTCAAGAATCCCAATCAACAGCTTGATTTCCTCCTTTAGACATTCCTCAAAATGTTT
* *
43149092 GCACATTTTTGACTCAGTTTGAACCCATTAGTGGCATACTGACTTAGCCTTACAAACTCCTTTCG
131 GCACATTTCTGACTCAGTTTGAACCCATTAGTGGCATACTGACTTAGCCTTACAAACTCCTTTCA
*
43149157 TATTCTGCTACAGTCTTATTTCCTTGCTTGAGTTGCAGGAACTCCTTCCATTTTGAGTCTAAGAA
196 TATTCTGCTACAGTCTTATTTCCTTGCTTGAGTTGCAGGAACTCCTTCCATTTCGAGTCTAAGAA
*
43149222 CCTTTGACTAATGTATTTCTTTTTAAACTCTACTTGGAAGAATTCCCAATTGATGTTTTCCTTTG
261 CCTTTGACTAATGTATTTCTTTTTAAACTCTACTTGAAAGAATTCCCAATTGATGTTTTCCTTTG
* **
43149287 GCATCACGAAAGATACACTATTCCACCAGTGGTATGCAGTATCCTTCAGGAGAGACACGGTACAC
326 GCATCACGAAAGATACAATATTCCACCAGTGGTATGCAGTATCCTTCAGGAGAGACACGACACAC
43149352 TTTAAGCACTCCTCATGTGTGTACGATAATTCATCTAATACCCGAGTAGTATTCTCGAGCCAGAA
391 TTTAAGCACTCCTCATGTGTGTACGATAATTCATCTAATACCCGAGTAGTATTCTCGAGCCAGAA
43149417 CTCAGCTTTTTCAGCATAG
456 CTCAGCTTTTTCAGCATAG
43149436 T
1 T
43149437 CGTCAATCTT
Statistics
Matches: 460, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
474 460 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (474 bp):
TTGCTTGCTTTCTTTCATTATTGAACTCCTCGGCCATCTTGGCCCGATCAGCTAATGCGGCGAAC
TCCCGTATCTCAAGAATCCCAATCAACAGCTTGATTTCCTCCTTTAGACATTCCTCAAAATGTTT
GCACATTTCTGACTCAGTTTGAACCCATTAGTGGCATACTGACTTAGCCTTACAAACTCCTTTCA
TATTCTGCTACAGTCTTATTTCCTTGCTTGAGTTGCAGGAACTCCTTCCATTTCGAGTCTAAGAA
CCTTTGACTAATGTATTTCTTTTTAAACTCTACTTGAAAGAATTCCCAATTGATGTTTTCCTTTG
GCATCACGAAAGATACAATATTCCACCAGTGGTATGCAGTATCCTTCAGGAGAGACACGACACAC
TTTAAGCACTCCTCATGTGTGTACGATAATTCATCTAATACCCGAGTAGTATTCTCGAGCCAGAA
CTCAGCTTTTTCAGCATAG
Found at i:43150494 original size:21 final size:21
Alignment explanation
Indices: 43150470--43150509 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
43150460 TATATTTTAT
43150470 AGCATA-AGTAATAAAATAAAG
1 AGCATAGA-TAATAAAATAAAG
*
43150491 AGCATGGATAATAAAATAA
1 AGCATAGATAATAAAATAA
43150510 TAGTGGTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.60, C:0.05, G:0.15, T:0.20
Consensus pattern (21 bp):
AGCATAGATAATAAAATAAAG
Found at i:43152453 original size:40 final size:40
Alignment explanation
Indices: 43152398--43152545 Score: 183
Period size: 40 Copynumber: 3.7 Consensus size: 40
43152388 TATTCGAATG
** *
43152398 ATATCCGGATTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
43152438 ATATCCGGGCTAAGTCCTGAAGGCTTTTGTGCTATTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
43152478 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
43152518 ATATCC-GGCTAAATCCCGAAGGTATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
43152546 GGTTTGGAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
39 19 0.21
40 72 0.78
41 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Done.