Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 310 of 373
Found at i:104813223 original size:54 final size:53
Alignment explanation
Indices: 104813137--104813277 Score: 174
Period size: 54 Copynumber: 2.6 Consensus size: 53
104813127 AGGAAGCGTC
* * * *
104813137 CTGGTGGCTATGCCATAATTATCTGATTTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTATGCCA-CATTATCTGATCTGGTGGCTCTGCCACATAAATCTGTT
* *
104813191 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTTTGCCACATAAATCTTTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATAAATCTGTT
* * *
104813245 GTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
104813278 ACTTCGTCAC
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
53 7 0.09
54 69 0.91
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.38
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATAAATCTGTT
Found at i:104813233 original size:27 final size:26
Alignment explanation
Indices: 104813137--104813277 Score: 129
Period size: 27 Copynumber: 5.2 Consensus size: 26
104813127 AGGAAGCGTC
*
104813137 CTGGTGGCTATGCCATAATTATCTGAT
1 CTGGTGGCTATGCCA-CATTATCTGAT
* * * *
104813164 TTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
104813191 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* * **
104813218 CTGGTGGCTTTGCCACATAAATCTTTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
* * *
104813245 GTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTATGCCACATTATCTG-AT
104813272 CTGGTG
1 CTGGTG
104813278 ACTTCGTCAC
Statistics
Matches: 91, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
26 8 0.09
27 81 0.89
28 2 0.02
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTATGCCACATTATCTGAT
Found at i:104823434 original size:16 final size:15
Alignment explanation
Indices: 104823402--104823440 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
104823392 ATTTTTAATT
* *
104823402 AAATAATAATTTGAA
1 AAATAAAAAATTGAA
104823417 AAATAAAAAATTGAA
1 AAATAAAAAATTGAA
104823432 AAATTAAAA
1 AAA-TAAAA
104823441 GTAATTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (15 bp):
AAATAAAAAATTGAA
Found at i:104825711 original size:15 final size:15
Alignment explanation
Indices: 104825691--104825719 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
104825681 ATATTGTTAC
104825691 TTGATAACACGGTGA
1 TTGATAACACGGTGA
104825706 TTGATAACACGGTG
1 TTGATAACACGGTG
104825720 TGTGAGGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:104832061 original size:20 final size:20
Alignment explanation
Indices: 104832020--104832061 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
104832010 AGCACGTGTA
* *
104832020 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
104832040 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
104832060 TT
1 TT
104832062 AATTTTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:104835312 original size:43 final size:43
Alignment explanation
Indices: 104835246--104835404 Score: 200
Period size: 43 Copynumber: 3.7 Consensus size: 43
104835236 AGCTCGTACA
*
104835246 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATAG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATAG
*
104835289 ATGCC-ACTGTCCCAGACAGGGTCTTACACGTAATC--ATATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCAAATATA-G
*
104835331 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCACAA-ATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AATCA-AATATAG
* * *
104835375 ATGCCAACGTCCCAAACGTGGTTTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
104835405 ATATCACACC
Statistics
Matches: 102, Mismatches: 7, Indels: 13
0.84 0.06 0.11
Matches are distributed among these distances:
41 5 0.05
42 30 0.29
43 36 0.35
44 28 0.27
45 2 0.02
46 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATAG
Found at i:104839048 original size:19 final size:19
Alignment explanation
Indices: 104839024--104839067 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
104839014 AAGGACACAC
104839024 GGCCAAACCACATGCCCAT
1 GGCCAAACCACATGCCCAT
104839043 GGCCAAACCACATGCCCAT
1 GGCCAAACCACATGCCCAT
104839062 GTGCCA
1 G-GCCA
104839068 GGCCGTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.30, C:0.41, G:0.18, T:0.11
Consensus pattern (19 bp):
GGCCAAACCACATGCCCAT
Found at i:104844506 original size:16 final size:14
Alignment explanation
Indices: 104844493--104844551 Score: 73
Period size: 15 Copynumber: 4.0 Consensus size: 14
104844483 TAATATAATT
104844493 AATGATATATATAA
1 AATGATATATATAA
104844507 AATGATATATACTAA
1 AATGATATATA-TAA
*
104844522 AATCATATAATATATA
1 AATGATAT-ATATA-A
*
104844538 AATAATATATATAA
1 AATGATATATATAA
104844552 CGAATATATG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
14 12 0.30
15 17 0.43
16 11 0.28
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (14 bp):
AATGATATATATAA
Found at i:104844649 original size:17 final size:17
Alignment explanation
Indices: 104844584--104844651 Score: 52
Period size: 17 Copynumber: 3.9 Consensus size: 17
104844574 AATGTATAGT
104844584 AAAATAAATAATAT-A-
1 AAAATAAATAATATAAC
*
104844599 AAAATACATATAACATATAGC
1 AAAATA-A-AT-A-ATATAAC
*
104844620 AAAAATACA-AATATAAC
1 -AAAATAAATAATATAAC
104844637 AAAATAAATAATATA
1 AAAATAAATAATATA
104844652 TATAATGCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
15 6 0.15
16 8 0.20
17 14 0.34
18 2 0.05
19 4 0.10
20 1 0.02
22 6 0.15
ACGTcount: A:0.68, C:0.07, G:0.01, T:0.24
Consensus pattern (17 bp):
AAAATAAATAATATAAC
Found at i:104853275 original size:11 final size:12
Alignment explanation
Indices: 104853254--104853340 Score: 130
Period size: 11 Copynumber: 7.7 Consensus size: 12
104853244 GTCCATCTCA
104853254 TTTA-TTTTA-T
1 TTTATTTTTATT
*
104853264 TTTATCTTTA-T
1 TTTATTTTTATT
104853275 TTTATTTTTATT
1 TTTATTTTTATT
104853287 TTTA-TTTTATT
1 TTTATTTTTATT
104853298 TTTATTTTTA-T
1 TTTATTTTTATT
104853309 TTTATTTTTATT
1 TTTATTTTTATT
104853321 TTTATTTTTATT
1 TTTATTTTTATT
104853333 TTTATTTT
1 TTTATTTT
104853341 ATTAAACTTC
Statistics
Matches: 71, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
10 4 0.06
11 36 0.51
12 31 0.44
ACGTcount: A:0.17, C:0.01, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTATTTTTATT
Found at i:104853283 original size:6 final size:6
Alignment explanation
Indices: 104853254--104853340 Score: 130
Period size: 6 Copynumber: 15.3 Consensus size: 6
104853244 GTCCATCTCA
*
104853254 TTTA-T TTTA-T TTTATC TTTA-T TTTATT TTTATT TTTA-T TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
104853298 TTTATT TTTA-T TTTATT TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
104853341 ATTAAACTTC
Statistics
Matches: 76, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
5 23 0.30
6 53 0.70
ACGTcount: A:0.17, C:0.01, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:104853343 original size:17 final size:17
Alignment explanation
Indices: 104853254--104853340 Score: 149
Period size: 17 Copynumber: 5.1 Consensus size: 17
104853244 GTCCATCTCA
*
104853254 TTTATTTTA-TTTTATC
1 TTTATTTTATTTTTATT
104853270 TTTATTTTATTTTTATT
1 TTTATTTTATTTTTATT
104853287 TTTATTTTATTTTTATT
1 TTTATTTTATTTTTATT
104853304 TTTATTTTATTTTTATT
1 TTTATTTTATTTTTATT
104853321 TTTATTTTTATTTTTATT
1 TTTA-TTTTATTTTTATT
104853339 TT
1 TT
104853341 ATTAAACTTC
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
16 9 0.13
17 44 0.65
18 15 0.22
ACGTcount: A:0.17, C:0.01, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTATTTTATTTTTATT
Found at i:104855507 original size:26 final size:26
Alignment explanation
Indices: 104855478--104855585 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
104855468 TGGTACAAAT
104855478 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
104855504 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
104855530 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
104855556 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
104855582 TGAT
1 TGAT
104855586 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:104857222 original size:27 final size:27
Alignment explanation
Indices: 104857182--104857322 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
104857172 AGGAAGCGTC
*
104857182 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
104857209 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
104857235 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
104857263 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
**
104857290 CTGGTGGCTCTATCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
104857317 CTGGTG
1 CTGGTG
104857323 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
26 11 0.11
27 85 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:104857261 original size:54 final size:54
Alignment explanation
Indices: 104857179--104857322 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
104857169 TGGAGGAAGC
104857179 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
104857233 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * **
104857287 GTTCTGGTGGCTCTATCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
104857323 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:104857332 original size:27 final size:27
Alignment explanation
Indices: 104857182--104857339 Score: 155
Period size: 27 Copynumber: 5.9 Consensus size: 27
104857172 AGGAAGCGTC
* *
104857182 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGTCACAA-TATCTGTAT
* *
104857209 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGTCACA-ATATCTGTAT
* *
104857236 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGTCACAA-TATCTGTAT
*
104857263 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGTCACA-ATATCTGTAT
*
104857290 CTGGTGGCTCTATCACAATATCTGTAT
1 CTGGTGGCTCTGTCACAATATCTGTAT
*
104857317 CTGGTGACT-TCGTCACAATATCT
1 CTGGTGGCTCT-GTCACAATATCT
104857340 AGCAGCCTTG
Statistics
Matches: 114, Mismatches: 9, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
26 10 0.09
27 102 0.89
28 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGTCACAATATCTGTAT
Found at i:104857334 original size:81 final size:80
Alignment explanation
Indices: 104857182--104857339 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 80
104857172 AGGAAGCGTC
* *
104857182 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTCCTGGTGACTAT
104857247 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * * *
104857263 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTATCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTACCACATATATCTGT-CCTGGTGACT
*
104857326 -TCGTCACAATATCT
64 AT-GCCACAATATCT
104857340 AGCAGCCTTG
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
80 16 0.24
81 51 0.76
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:104860779 original size:17 final size:16
Alignment explanation
Indices: 104860757--104860859 Score: 53
Period size: 17 Copynumber: 6.6 Consensus size: 16
104860747 AGTGGTTATC
104860757 TTAATATTAAATTTAAT
1 TTAATATT-AATTTAAT
*
104860774 TTAATA-T-ATTTTA-
1 TTAATATTAATTTAAT
104860787 TTAAT-TTAA--TAGAT
1 TTAATATTAATTTA-AT
104860801 TTAATATTAAATTTAAT
1 TTAATATT-AATTTAAT
* * *
104860818 CTAATATTTATCTTGA-
1 TTAATATTAAT-TTAAT
104860834 -TAAGTATT-ATATTAAT
1 TTAA-TATTAAT-TTAAT
104860850 TTAATATTAA
1 TTAATATTAA
104860860 AGTGATTAAG
Statistics
Matches: 66, Mismatches: 7, Indels: 26
0.67 0.07 0.26
Matches are distributed among these distances:
12 1 0.02
13 7 0.11
14 11 0.17
15 10 0.15
16 13 0.20
17 22 0.33
18 2 0.03
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (16 bp):
TTAATATTAATTTAAT
Found at i:104860792 original size:18 final size:19
Alignment explanation
Indices: 104860769--104860817 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 19
104860759 AATATTAAAT
*
104860769 TTAATTTAATATATTT-TA
1 TTAATTTAATAGATTTATA
104860787 TTAATTTAATAGATTTAATA
1 TTAATTTAATAGATTT-ATA
104860807 TTAAATTTAAT
1 TT-AATTTAAT
104860818 CTAATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 15 0.56
20 4 0.15
21 8 0.30
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTAATTTAATAGATTTATA
Found at i:104863232 original size:28 final size:28
Alignment explanation
Indices: 104863170--104863231 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
104863160 ACTTTCATAA
*
104863170 ATTATAAA-TTTTATAAAAAATCAAAAT
1 ATTAAAAACTTTTATAAAAAATCAAAAT
*
104863197 ATTGAAAACTTTT-TAAAAAATCAAAAT
1 ATTAAAAACTTTTATAAAAAATCAAAAT
104863224 -TTCAAAAA
1 ATT-AAAAA
104863232 ATAACATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 2 0.07
27 24 0.80
28 4 0.13
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (28 bp):
ATTAAAAACTTTTATAAAAAATCAAAAT
Found at i:104869914 original size:26 final size:26
Alignment explanation
Indices: 104869885--104869940 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
104869875 TGATAAAAAT
104869885 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
104869911 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
104869937 TGAT
1 TGAT
104869941 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:104871450 original size:26 final size:26
Alignment explanation
Indices: 104871421--104871473 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
104871411 TTTACAGTTT
104871421 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
104871447 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
104871473 T
1 T
104871474 GCATGTTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:104875885 original size:44 final size:44
Alignment explanation
Indices: 104875834--104876309 Score: 397
Period size: 44 Copynumber: 10.8 Consensus size: 44
104875824 TCTATTATTC
* * *
104875834 TCGATCTGTTCTCTGCCAATACAGAGACGCCAAATCTGCTAACT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCT
*
104875878 TCGATCTGCTCTCTGCCAATACAGAGACGCCAAA--T-C-ATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCT
* * ** * * * *
104875918 TAGATTTGCT-TCAACGTAA-ACACATGAAAGCCAAATCAGCTATGTCT
1 TCGATCTGCTCTCTGC-CAATACAGA-G-ATGCCAAATCTGCTA--TCT
* *
104875965 TCGATCTGTTCTCCGCCGAATACAGAGATGCCAAATCTG-TCATCT
1 TCGATCTGCTCTCTGCC-AATACAGAGATGCCAAATCTGCT-ATCT
* * *
104876010 TTGATTTGCTCTCTGCCAATACAGAGATACCAAATCTGCTATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCT
104876054 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAA--T-C-ATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCT
* * * * **
104876094 TAGA-CTTGCT-TCAGTG-TAA-ACACGTGGAAGCCAAATCAACTATGTCT
1 TCGATC-TGCTCTC--TGCCAATACA-G-AGATGCCAAATCTGCTA--TCT
* *
104876141 TCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTACTATCT
1 TCGATCTGCTCTCTGCC-AATACAGAGATGCCAAATCTGCTATCT
* * *
104876186 TTGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTGTCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCT
* * * *
104876230 TTGATCTGCTCTCTGCCAATACAGAGATGTCAAATCTGGTATAT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCT
* * *
104876274 TCGATCTGCTCTCCGCCAATATAGAGATGTCAAATC
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATC
104876310 ATCTTAGATT
Statistics
Matches: 352, Mismatches: 50, Indels: 60
0.76 0.11 0.13
Matches are distributed among these distances:
39 13 0.04
40 28 0.08
41 19 0.05
42 2 0.01
44 187 0.53
45 37 0.11
46 2 0.01
47 45 0.13
48 12 0.03
49 7 0.02
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (44 bp):
TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCT
Found at i:104876139 original size:176 final size:176
Alignment explanation
Indices: 104875836--104876265 Score: 682
Period size: 176 Copynumber: 2.4 Consensus size: 176
104875826 TATTATTCTC
* * *
104875836 GATCTGTTCTCTGCCAATACAGAGACGCCAAATCTGCTAACTTCGATCTGCTCTCTGCCAATACA
1 GATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACA
* * *
104875901 GAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACATGAAAGCCAAATCAGCTATGTCTT
66 GAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACATGAAAGCCAAATCAACTATGTCTT
* *
104875966 CGATCTGTTCTCCGCCGAATACAGAGATGCCAAATCT-GTCATCTTT
131 CGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTACT-ATCTTT
* *
104876012 GATTTGCTCTCTGCCAATACAGAGATACCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACA
1 GATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACA
** * *
104876077 GAGATGCCAAATCATCTTAGACTTGCTTCAGTGTAAACACGTGGAAGCCAAATCAACTATGTCTT
66 GAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACATGAAAGCCAAATCAACTATGTCTT
104876142 CGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTACTATCTTT
131 CGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTACTATCTTT
* * *
104876188 GATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTGTCTTTGATCTGCTCTCTGCCAATACA
1 GATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACA
*
104876253 GAGATGTCAAATC
66 GAGATGCCAAATC
104876266 TGGTATATTC
Statistics
Matches: 233, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
176 232 1.00
177 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (176 bp):
GATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACA
GAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACATGAAAGCCAAATCAACTATGTCTT
CGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTACTATCTTT
Found at i:104876216 original size:220 final size:220
Alignment explanation
Indices: 104875962--104876397 Score: 642
Period size: 220 Copynumber: 2.0 Consensus size: 220
104875952 ATCAGCTATG
* *
104875962 TCTTCGATCTGTTCTCCGCCGAATACAGAGATGCCAAATCTGTCATCTTTGATTTGCTCTCTGCC
1 TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATCTTTGATCTGCTCTCTGCC
* *
104876027 AATACAGAGATACCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCAT
66 AATACAGAGATACCAAATCTGCTATATTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCAT
** * *
104876092 CTTAGACTTGCTTCAGTGTAAACACGTGGAAGCCAAATCAACTATGTCTTCGATCTGCTCTCC-G
131 CTTAGACTTGCTTCAACGTAAACACATGAAAGCCAAATCAACTATGTCTTCGATCTGCTC-CCTG
104876156 CCGAATACAGAGATGCCAAATCTACTA
195 CC-AATACAGAGATGCCAAATCTACTA
* * **
104876183 TCTTTGATCTGCTCTCTGCC-AATACAGAGATGCCAAATCTGTTGTCTTTGATCTGCTCTCTGCC
1 TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATCTTTGATCTGCTCTCTGCC
** * * *
104876247 AATACAGAGATGTCAAATCTGGTATATTCGATCTGCTCTCCGCCAATATAGAGATGTCAAATCAT
66 AATACAGAGATACCAAATCTGCTATATTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCAT
* * * * *
104876312 CTTAGATTTGCTTTAACGTAAACGCATGAAAGCCAAATCAGCTATGTCTTCGATCTGTTCCCTGC
131 CTTAGACTTGCTTCAACGTAAACACATGAAAGCCAAATCAACTATGTCTTCGATCTGCTCCCTGC
104876377 CAATACAGAGATGCCAAATCT
196 CAATACAGAGATGCCAAATCT
104876398 GTTGTCTTGG
Statistics
Matches: 192, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
219 22 0.11
220 153 0.80
221 17 0.09
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (220 bp):
TCTTCGATCTGCTCTCCGCCGAATACAGAGATGCCAAATCTGTCATCTTTGATCTGCTCTCTGCC
AATACAGAGATACCAAATCTGCTATATTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCAT
CTTAGACTTGCTTCAACGTAAACACATGAAAGCCAAATCAACTATGTCTTCGATCTGCTCCCTGC
CAATACAGAGATGCCAAATCTACTA
Found at i:104877365 original size:7 final size:7
Alignment explanation
Indices: 104877353--104877399 Score: 60
Period size: 7 Copynumber: 6.4 Consensus size: 7
104877343 GGCCTCTCCA
104877353 TTTTTCT
1 TTTTTCT
104877360 TTTTTCT
1 TTTTTCT
104877367 TTTTTCTT
1 TTTTTC-T
104877375 TTTTTCT
1 TTTTTCT
104877382 TTTCTT-T
1 TTT-TTCT
104877389 TCTTTTCT
1 T-TTTTCT
104877397 TTT
1 TTT
104877400 GAAATCTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
7 23 0.64
8 13 0.36
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTCT
Found at i:104877369 original size:5 final size:5
Alignment explanation
Indices: 104877354--104877399 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
104877344 GCCTCTCCAT
104877354 TTTTC TTTT- TTCTT- TTTTC -TTT- TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
104877400 GAAATCTCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 10 0.27
5 27 0.73
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTTC
Found at i:104877377 original size:15 final size:15
Alignment explanation
Indices: 104877353--104877399 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
104877343 GGCCTCTCCA
104877353 TTTTTC-TTTTTTCT
1 TTTTTCTTTTTTTCT
104877367 TTTTTCTTTTTTTCT
1 TTTTTCTTTTTTTCT
*
104877382 TTTCTT-TTCTTTTCT
1 TTT-TTCTTTTTTTCT
104877397 TTT
1 TTT
104877400 GAAATCTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 6 0.20
15 22 0.73
16 2 0.07
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTCTTTTTTTCT
Found at i:104890343 original size:19 final size:19
Alignment explanation
Indices: 104890319--104890409 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
104890309 ATAATCTTCA
104890319 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
104890338 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
104890357 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
104890374 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
104890392 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
104890410 ATATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:104890390 original size:35 final size:37
Alignment explanation
Indices: 104890319--104890416 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
104890309 ATAATCTTCA
104890319 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
104890357 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
104890392 ATGATATGCAATCTTAGA-AT-ATATG
1 ATGATA-GCAATCTTAGATATGATATG
104890417 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 21 0.37
36 20 0.35
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:104890646 original size:18 final size:20
Alignment explanation
Indices: 104890608--104890649 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
104890598 TCCCTCTTAC
*
104890608 GTTCTTATTTTCTATTGTTT
1 GTTCTTATTTTCTATTCTTT
104890628 GTTCTTA-TTT-TATTCTTT
1 GTTCTTATTTTCTATTCTTT
104890646 GTTC
1 GTTC
104890650 ATCTTCGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
19 3 0.14
20 7 0.33
ACGTcount: A:0.10, C:0.12, G:0.10, T:0.69
Consensus pattern (20 bp):
GTTCTTATTTTCTATTCTTT
Found at i:104902596 original size:220 final size:220
Alignment explanation
Indices: 104902193--104902780 Score: 899
Period size: 220 Copynumber: 2.7 Consensus size: 220
104902183 GGGCTAAAGT
* * * ** *
104902193 ATAGCAGATTTGACCTTCA-GATGTTTACGCTGAAGCGGATCCAAGATGATTTAACATCTCTGTA
1 ATAGCAGATTTGGCTTTCACG-TGTTTACACTGAAGCAAATCTAAGATGATTTAACATCTCTGTA
* * **
104902257 TTGTCAGAAAACAAATCGAAGAAACAGATTTGGCATCTCCCTATTCGACAAAGAGCAGATCGAAG
65 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
* *
104902322 ACATAGCAGATCTAACCTTCGTATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTT
130 ACATAGCAGATCTAACCTTCGGATGTCTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTT
* * *
104902387 GCGTTAACAAGGAGCAAATTGAAGAC
195 ACGTTAACAAGGAGAAAATCGAAGAC
* *
104902413 ATAGCATATTTGGCTTTCACGTGTTTACACTGAATCAAATCTAAGATGATTTAACATCTCTGTAT
1 ATAGCAGATTTGGCTTTCACGTGTTTACACTGAAGCAAATCTAAGATGATTTAACATCTCTGTAT
* *
104902478 TGTCAGGGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATTGAAGA
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGA
* *
104902543 CATAGCAAATCTAACCTTCGGATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTA
131 CATAGCAGATCTAACCTTCGGATGTCTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTA
*
104902608 CGTTGACAAGGAGAAAATCGAAGAC
196 CGTTAACAAGGAGAAAATCGAAGAC
* * * ** *
104902633 ATAGTAGATTTGGCTTTCACGTGTTTACACTGAAGCAGATCTAAGATGATATGGCATCTCTGTAC
1 ATAGCAGATTTGGCTTTCACGTGTTTACACTGAAGCAAATCTAAGATGATTTAACATCTCTGTAT
104902698 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGA
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGA
*
104902763 CATAGCAGATCTGACCTT
131 CATAGCAGATCTAACCTT
104902781 TATTGAAGCA
Statistics
Matches: 333, Mismatches: 34, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
220 332 1.00
221 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (220 bp):
ATAGCAGATTTGGCTTTCACGTGTTTACACTGAAGCAAATCTAAGATGATTTAACATCTCTGTAT
TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGA
CATAGCAGATCTAACCTTCGGATGTCTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTA
CGTTAACAAGGAGAAAATCGAAGAC
Found at i:104902831 original size:78 final size:78
Alignment explanation
Indices: 104902723--104903010 Score: 344
Period size: 78 Copynumber: 3.5 Consensus size: 78
104902713 CGAAGAAACA
** * *
104902723 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTTATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTTATTGAA
104902788 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
104902801 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGAT-TGGATCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTTATTGA
*
104902865 AGCAGATCTAAGAT
65 AGCAGATCCAAGAT
104902879 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGA-C--C-----T
104902944 TTACATTGAAGCAGATCCAAGAT
58 TT--ATTGAAGCAGATCCAAGAT
* *
104902967 GACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAGA
1 ----GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGA
104903011 TAACAGATTT
Statistics
Matches: 180, Mismatches: 14, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
77 1 0.01
78 119 0.66
79 1 0.01
81 1 0.01
86 2 0.01
88 18 0.10
92 38 0.21
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTTATTGAA
GCAGATCCAAGAT
Found at i:104903017 original size:45 final size:45
Alignment explanation
Indices: 104902879--104903152 Score: 241
Period size: 45 Copynumber: 6.1 Consensus size: 45
104902869 GATCTAAGAT
* * *
104902879 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATC-AA-AGATAACA
* * * * * * * *
104902926 GATCTGACCT-TCATGTGTT-TAC-ATTGAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGTATTAGACGA--GGAGCAGATCAAAGATAACA
* *
104902971 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCAAAGATAACA
* * ** *
104903016 GATTTGGCATCTTTGTATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCAAAGATAACA
** * * *
104903060 GATTTGGCGCCTCTGTATTAAACGAGGAGCAGATCGAAGATAATA
1 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCAAAGATAACA
* * *
104903105 GATTTGGCGTCTCTGTATTAGACGAGAAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCAAAGATAACA
104903150 GAT
1 GAT
104903153 ATCGCCTTCT
Statistics
Matches: 180, Mismatches: 40, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
44 37 0.21
45 113 0.63
46 9 0.05
47 21 0.12
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCAAAGATAACA
Found at i:104903100 original size:89 final size:90
Alignment explanation
Indices: 104902951--104903152 Score: 255
Period size: 89 Copynumber: 2.3 Consensus size: 90
104902941 TGTTTACATT
* * * *
104902951 GAAGCAGATCCAAGAT-GACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAGATAAC
1 GAAGCAGATCAAAGATAG-CAGATTTGGCACCTCTGTATTAAACGAGGAGCAAATCAAAGATAAC
* *
104903015 AGATTTGGCATCTTTGTATTAGACGG
65 AGATTTGGCATCTCTGTATTAGACGA
* ** * * * *
104903041 GGAGCAGATTGAAGA-AGCAGATTTGGCGCCTCTGTATTAAACGAGGAGCAGATCGAAGATAATA
1 GAAGCAGATCAAAGATAGCAGATTTGGCACCTCTGTATTAAACGAGGAGCAAATCAAAGATAACA
*
104903105 GATTTGGCGTCTCTGTATTAGACGA
66 GATTTGGCATCTCTGTATTAGACGA
104903130 GAAGCAGATCAAAGATAGCAGAT
1 GAAGCAGATCAAAGATAGCAGAT
104903153 ATCGCCTTCT
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
89 74 0.79
90 20 0.21
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (90 bp):
GAAGCAGATCAAAGATAGCAGATTTGGCACCTCTGTATTAAACGAGGAGCAAATCAAAGATAACA
GATTTGGCATCTCTGTATTAGACGA
Found at i:104903122 original size:134 final size:135
Alignment explanation
Indices: 104902879--104903152 Score: 331
Period size: 134 Copynumber: 2.0 Consensus size: 135
104902869 GATCTAAGAT
* *
104902879 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGA-ATAGCAGATCTGACCCTCATGTAT
* * * *
104902944 TTACATTGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAA
65 TAACA-TGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGAGAAGCAAATCAAA
104903009 GATAACA
129 GATAACA
* * * *
104903016 GATTTGGCATCTTTGTATTAGACGGGGAGCAGATTGAAG-A-AGCAGATTTGGCGCCTC-TGTAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGAATAGCAGATCTGAC-CCTCATGTAT
* * * * *
104903078 TAAACGA-GGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTATTAGACGAGAAGCAGATCAA
65 T-AAC-ATGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGAGAAGCAAATCAA
*
104903142 AGATAGCA
128 AGATAACA
104903150 GAT
1 GAT
104903153 ATCGCCTTCT
Statistics
Matches: 118, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
134 74 0.63
135 6 0.05
136 1 0.01
137 37 0.31
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.26
Consensus pattern (135 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGAATAGCAGATCTGACCCTCATGTATT
AACATGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGAGAAGCAAATCAAAGA
TAACA
Found at i:104903575 original size:35 final size:37
Alignment explanation
Indices: 104903504--104903601 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
104903494 ATAATCTTCA
104903504 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
104903542 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
104903577 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
104903602 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:104903601 original size:17 final size:19
Alignment explanation
Indices: 104903504--104903594 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
104903494 ATAATCTTCA
104903504 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
104903523 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
104903542 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
104903559 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
104903577 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
104903595 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:104903620 original size:22 final size:22
Alignment explanation
Indices: 104903504--104903617 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
104903494 ATAATCTTCA
104903504 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
104903523 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
104903542 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
104903559 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
104903577 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
104903599 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
104903618 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:104909980 original size:39 final size:39
Alignment explanation
Indices: 104909926--104910005 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
104909916 TTCAATTTGA
104909926 GATCTTGAGTATCGAATTCAACATCCAACCAGAATCTTG
1 GATCTTGAGTATCGAATTCAACATCCAACCAGAATCTTG
*
104909965 GATCTTGAGTATCGAATTCAACATCCAATCAGAATCTTG
1 GATCTTGAGTATCGAATTCAACATCCAACCAGAATCTTG
104910004 GA
1 GA
104910006 CTCAACAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (39 bp):
GATCTTGAGTATCGAATTCAACATCCAACCAGAATCTTG
Found at i:104915367 original size:16 final size:16
Alignment explanation
Indices: 104915346--104915379 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
104915336 ACATTTTTTT
104915346 TTATAAATGTTATATA
1 TTATAAATGTTATATA
*
104915362 TTATAAATTTTATATA
1 TTATAAATGTTATATA
104915378 TT
1 TT
104915380 TTTGGCTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TTATAAATGTTATATA
Found at i:104916059 original size:25 final size:25
Alignment explanation
Indices: 104916020--104916095 Score: 64
Period size: 26 Copynumber: 2.9 Consensus size: 25
104916010 TTAAAAGTCT
* *
104916020 AAAATTTTTTAAAAAATAAAAATATGA
1 AAAATATTTT-AAAAATAAAAATA-AA
* *
104916047 AAAATA-TTTAAAATTCATAAATAAA
1 AAAATATTTTAAAAAT-AAAAATAAA
104916072 AAAATATTTTATAAATATAAAAAT
1 AAAATATTTTA-AAA-ATAAAAAT
104916096 TTCAAGATTC
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
25 12 0.31
26 13 0.33
27 13 0.33
28 1 0.03
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (25 bp):
AAAATATTTTAAAAATAAAAATAAA
Found at i:104916294 original size:26 final size:25
Alignment explanation
Indices: 104916276--104916338 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
104916266 TTAAAGATTT
104916276 TTTTATTTTTATAATTTTAAAGAGC
1 TTTTATTTTTATAATTTTAAAGAGC
* *
104916301 TTTTATTTTTCTATTTTTAAA-A-C
1 TTTTATTTTTATAATTTTAAAGAGC
104916324 TTTTACTTTTT-TAAT
1 TTTTA-TTTTTATAAT
104916339 ATGATTTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.26
24 6 0.18
25 19 0.56
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.63
Consensus pattern (25 bp):
TTTTATTTTTATAATTTTAAAGAGC
Found at i:104917750 original size:12 final size:12
Alignment explanation
Indices: 104917733--104917757 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
104917723 TAAAAAATAA
104917733 AAAAAATCATTT
1 AAAAAATCATTT
104917745 AAAAAATCATTT
1 AAAAAATCATTT
104917757 A
1 A
104917758 TGATAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAAATCATTT
Found at i:104922807 original size:9 final size:9
Alignment explanation
Indices: 104922782--104922819 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
104922772 TTGAGTTTTT
104922782 TAATTCGAA
1 TAATTCGAA
* *
104922791 CAACTCGAA
1 TAATTCGAA
104922800 TAATTCGAA
1 TAATTCGAA
104922809 TAATTCGAA
1 TAATTCGAA
104922818 TA
1 TA
104922820 TTAAACTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (9 bp):
TAATTCGAA
Found at i:104923199 original size:20 final size:22
Alignment explanation
Indices: 104923162--104923201 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
104923152 TCCCTCAAAC
104923162 TTTTATCCCCTAAAATTTTTTA
1 TTTTATCCCCTAAAATTTTTTA
104923184 TTTT-TCCCCT-AAATTTTT
1 TTTTATCCCCTAAAATTTTT
104923202 ACTTCTCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 6 0.33
22 4 0.22
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTATCCCCTAAAATTTTTTA
Found at i:104923333 original size:9 final size:9
Alignment explanation
Indices: 104923319--104923347 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
104923309 AATTTCACAT
104923319 TTTATATTA
1 TTTATATTA
104923328 TTTATATTA
1 TTTATATTA
104923337 TTTATATTA
1 TTTATATTA
104923346 TT
1 TT
104923348 AAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:104934014 original size:21 final size:21
Alignment explanation
Indices: 104933972--104934026 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 21
104933962 AACCCATAAA
*
104933972 TTTTTTAATTTTTTTATCTTT
1 TTTTTTAATTTTTTGATCTTT
104933993 TTTTTTAATTTTCTTGA---TT
1 TTTTTTAATTTT-TTGATCTTT
*
104934012 TTTGTTAATTTTTTG
1 TTTTTTAATTTTTTG
104934027 TGGGAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 3 0.10
19 13 0.42
21 12 0.39
22 3 0.10
ACGTcount: A:0.15, C:0.04, G:0.05, T:0.76
Consensus pattern (21 bp):
TTTTTTAATTTTTTGATCTTT
Found at i:104936841 original size:24 final size:25
Alignment explanation
Indices: 104936813--104936870 Score: 100
Period size: 24 Copynumber: 2.3 Consensus size: 25
104936803 AAATGAAATT
104936813 TAAAATTTCGTTATTTTTAACTATG
1 TAAAATTTCGTTATTTTTAACTATG
104936838 -AAAATTTCGTTATTTTTAACTATG
1 TAAAATTTCGTTATTTTTAACTATG
104936862 TTAAAATTT
1 -TAAAATTT
104936871 ATTTCTTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 24 0.77
26 7 0.23
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (25 bp):
TAAAATTTCGTTATTTTTAACTATG
Found at i:104938190 original size:26 final size:26
Alignment explanation
Indices: 104938161--104938213 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
104938151 TCAAACATGC
104938161 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
104938187 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
104938213 A
1 A
104938214 ACACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:104939732 original size:26 final size:26
Alignment explanation
Indices: 104939702--104939757 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
104939692 TGAAATGCCC
104939702 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
104939728 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
104939754 ATCA
1 ATCA
104939758 ATTTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:104944986 original size:10 final size:10
Alignment explanation
Indices: 104944959--104945017 Score: 84
Period size: 10 Copynumber: 5.9 Consensus size: 10
104944949 TTAAATTCTA
104944959 AAAGATAAAT
1 AAAGATAAAT
104944969 ACAA-ATAAAT
1 A-AAGATAAAT
*
104944979 AAAGATAATT
1 AAAGATAAAT
104944989 AAAGATAAAT
1 AAAGATAAAT
*
104944999 AAGGATAAAT
1 AAAGATAAAT
104945009 AAAGATAAA
1 AAAGATAAA
104945018 AGCTAAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 2 0.05
10 39 0.91
11 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.10, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:104945651 original size:7 final size:8
Alignment explanation
Indices: 104945638--104945668 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
104945628 AATACATTAT
104945638 TTTTTTTC
1 TTTTTTTC
104945646 TTTTTTTC
1 TTTTTTTC
104945654 TTTTTTTC
1 TTTTTTTC
104945662 TTTTTTT
1 TTTTTTT
104945669 TCTATTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTC
Found at i:104945651 original size:9 final size:9
Alignment explanation
Indices: 104945637--104945671 Score: 56
Period size: 8 Copynumber: 4.1 Consensus size: 9
104945627 TAATACATTA
104945637 TTTTTTTTC
1 TTTTTTTTC
104945646 -TTTTTTTC
1 TTTTTTTTC
104945654 -TTTTTTTC
1 TTTTTTTTC
104945662 TTTTTTTTC
1 TTTTTTTTC
104945671 T
1 T
104945672 ATTTATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 16 0.64
9 9 0.36
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:104945845 original size:99 final size:100
Alignment explanation
Indices: 104945672--104945871 Score: 287
Period size: 99 Copynumber: 2.0 Consensus size: 100
104945662 TTTTTTTTCT
* * * **
104945672 ATTTATTATTATTATTGCTTAAGAATACATTGAATATTTTGACGTGAAGAGAGATGACAGCCAAG
1 ATTTATTATTATTATTGCTTAAGAACACATCGAACATTTTGACGCAAAGAGAGATGACAGCCAAG
*
104945737 CATCCCACCCCGGTTACTCAGCCCAACATACTCCTA
66 CACCCCACCCCGGTT-CTCAGCCCAACATACTCCTA
* * *
104945773 ATTTATTA-TATT-TTTCTTAAGAACATATCGAACCTTTTGACGCAAAGAGAGATGACAGCCAAG
1 ATTTATTATTATTATTGCTTAAGAACACATCGAACATTTTGACGCAAAGAGAGATGACAGCCAAG
*
104945836 CACCCCACCCCGGTTCTCAGCCCAACATATTCCTA
66 CACCCCACCCCGGTTCTCAGCCCAACATACTCCTA
104945871 A
1 A
104945872 AAAAATTATT
Statistics
Matches: 89, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
98 20 0.22
99 57 0.64
100 4 0.04
101 8 0.09
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (100 bp):
ATTTATTATTATTATTGCTTAAGAACACATCGAACATTTTGACGCAAAGAGAGATGACAGCCAAG
CACCCCACCCCGGTTCTCAGCCCAACATACTCCTA
Found at i:104947001 original size:15 final size:15
Alignment explanation
Indices: 104946981--104947026 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
104946971 ATCCAAACAA
*
104946981 AATAAAGTAATAAAT
1 AATAAAATAATAAAT
104946996 AATAAAATAATAAAAT
1 AATAAAATAAT-AAAT
*
104947012 AAAATAAATAATAAA
1 AATA-AAATAATAAA
104947027 AGAAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 10 0.37
16 10 0.37
17 7 0.26
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (15 bp):
AATAAAATAATAAAT
Found at i:104947035 original size:28 final size:28
Alignment explanation
Indices: 104946979--104947038 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
104946969 ATATCCAAAC
* *
104946979 AAAATAAAGTAATAAATAATAAAATAAT
1 AAAATAAAATAATAAATAATAAAAAAAT
104947007 AAAATAAAATAA-ATAATAA-AAGAAAAAT
1 AAAATAAAATAATA-AATAATAA-AAAAAT
104947035 AAAA
1 AAAA
104947039 ATTGGGTTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (28 bp):
AAAATAAAATAATAAATAATAAAAAAAT
Found at i:104950763 original size:15 final size:17
Alignment explanation
Indices: 104950733--104950764 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
104950723 TTGACACTTG
104950733 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
104950750 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
104950765 AAACATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:104951548 original size:33 final size:33
Alignment explanation
Indices: 104951506--104951572 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
104951496 AAGGGGTGTT
* *
104951506 ACAGTTTGTCGTAGTATTTGCTGTTGGAAATCA
1 ACAGTTTGTCGTAGTATCTACTGTTGGAAATCA
*
104951539 ACAGTTTGTCGTTGTATCTACTGTTGGAAATCA
1 ACAGTTTGTCGTAGTATCTACTGTTGGAAATCA
104951572 A
1 A
104951573 GCACATTAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.39
Consensus pattern (33 bp):
ACAGTTTGTCGTAGTATCTACTGTTGGAAATCA
Found at i:104951684 original size:63 final size:63
Alignment explanation
Indices: 104951585--104951710 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
104951575 ACATTAGCTG
104951585 CTAATTATTGACCATAGTTTCTAGAGAGGTACCTGAATCTTGCGTTTGTTGTGGAAACCGATT
1 CTAATTATTGACCATAGTTTCTAGAGAGGTACCTGAATCTTGCGTTTGTTGTGGAAACCGATT
*
104951648 CTAATTATTGACCATGGTTTCTAGAGAGGTACCTGAATCTTGCGTTTGTTGTGGAAACCGATT
1 CTAATTATTGACCATAGTTTCTAGAGAGGTACCTGAATCTTGCGTTTGTTGTGGAAACCGATT
104951711 TTGGTATGGC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.37
Consensus pattern (63 bp):
CTAATTATTGACCATAGTTTCTAGAGAGGTACCTGAATCTTGCGTTTGTTGTGGAAACCGATT
Found at i:104953951 original size:10 final size:10
Alignment explanation
Indices: 104953932--104953990 Score: 68
Period size: 10 Copynumber: 5.9 Consensus size: 10
104953922 TTAAATTCTA
104953932 AAAGATAAAT
1 AAAGATAAAT
104953942 ACAA-ATAAAT
1 A-AAGATAAAT
*
104953952 AAAGATAATT
1 AAAGATAAAT
104953962 AAAGATAAAT
1 AAAGATAAAT
*
104953972 -ACGAATAAAT
1 AAAG-ATAAAT
104953982 AAAGATAAA
1 AAAGATAAA
104953991 AGCTAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 4 0.10
10 33 0.80
11 4 0.10
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:104953966 original size:30 final size:30
Alignment explanation
Indices: 104953932--104953989 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
104953922 TTAAATTCTA
104953932 AAAGATAAATACAAATAAATAAAGATAATT
1 AAAGATAAATACAAATAAATAAAGATAATT
*
104953962 AAAGATAAATACGAATAAATAAAGATAA
1 AAAGATAAATACAAATAAATAAAGATAA
104953990 AAGCTAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.67, C:0.03, G:0.09, T:0.21
Consensus pattern (30 bp):
AAAGATAAATACAAATAAATAAAGATAATT
Found at i:104957701 original size:22 final size:22
Alignment explanation
Indices: 104957673--104957733 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
104957663 TAATGAACGG
*
104957673 AGAGCACTGAA-GTGCTATACAA
1 AGAGCAC-GAATGTGCTAAACAA
*
104957695 AGAGCACGAATGTGCTAAACAG
1 AGAGCACGAATGTGCTAAACAA
**
104957717 AGAGCATTAATGTGCTA
1 AGAGCACGAATGTGCTA
104957734 GTAATCGAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 3 0.09
22 31 0.91
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (22 bp):
AGAGCACGAATGTGCTAAACAA
Found at i:104958745 original size:5 final size:5
Alignment explanation
Indices: 104958719--104958780 Score: 85
Period size: 5 Copynumber: 12.8 Consensus size: 5
104958709 TTACCAATTT
*
104958719 ATATA ATAT- ATATA ACAT- ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
104958767 ATAT- ATAATA ATAT
1 ATATA AT-ATA ATAT
104958781 TCTTATTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
4 9 0.18
5 40 0.78
6 2 0.04
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:104974916 original size:27 final size:27
Alignment explanation
Indices: 104974878--104974937 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
104974868 TGTTGTTGTA
*
104974878 TCCTAAGAGACAGATGACCAACGTTTC
1 TCCTAAGAGACAGACGACCAACGTTTC
104974905 TCCTAAGAGACAGACGACCAACGTTTC
1 TCCTAAGAGACAGACGACCAACGTTTC
104974932 T-CTAAG
1 TCCTAAG
104974938 TACCATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 5 0.16
27 27 0.84
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (27 bp):
TCCTAAGAGACAGACGACCAACGTTTC
Found at i:104978906 original size:13 final size:13
Alignment explanation
Indices: 104978888--104978912 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104978878 GGTTTGTTTA
104978888 TTAAACTAATTAT
1 TTAAACTAATTAT
104978901 TTAAACTAATTA
1 TTAAACTAATTA
104978913 ACAGATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:104986602 original size:23 final size:24
Alignment explanation
Indices: 104986572--104986629 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
104986562 GCGTTTAACG
**
104986572 AACATGTTTGTTTA-ACGTTCGCA
1 AACATGTTCATTTAGACGTTCGCA
*
104986595 AACATGTTCATTTAGACGTTCGCG
1 AACATGTTCATTTAGACGTTCGCA
104986619 AACATGTTCAT
1 AACATGTTCAT
104986630 ATATATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (24 bp):
AACATGTTCATTTAGACGTTCGCA
Found at i:104991142 original size:32 final size:33
Alignment explanation
Indices: 104991100--104991162 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
104991090 CCACATGTTT
*
104991100 GTGTGGGCCCACATGCCCAGATTGACCTTGCTC
1 GTGTGGGCCCACACGCCCAGATTGACCTTGCTC
*
104991133 GTGT-GGCCCACACGCCCAGATTGGCCTTGC
1 GTGTGGGCCCACACGCCCAGATTGACCTTGC
104991163 CCATATAGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 24 0.86
33 4 0.14
ACGTcount: A:0.14, C:0.35, G:0.29, T:0.22
Consensus pattern (33 bp):
GTGTGGGCCCACACGCCCAGATTGACCTTGCTC
Found at i:104993101 original size:11 final size:12
Alignment explanation
Indices: 104993084--104993128 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
104993074 ATCATTAATA
104993084 AATAAATGAGTC
1 AATAAATGAGTC
104993096 -ATAAATGAGTC
1 AATAAATGAGTC
*
104993107 AATAAACGAG-C
1 AATAAATGAGTC
104993118 AAATAAATGAG
1 -AATAAATGAG
104993129 CTTTTAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 12 0.41
12 17 0.59
ACGTcount: A:0.53, C:0.09, G:0.18, T:0.20
Consensus pattern (12 bp):
AATAAATGAGTC
Found at i:104993969 original size:30 final size:31
Alignment explanation
Indices: 104993927--104993985 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
104993917 GTGTTTGGGG
*
104993927 GATGGTTTAATGGTAAAGTGATTTAATTTGA
1 GATGGTTTAATGGTAAAGTGATTGAATTTGA
*
104993958 GATGG-TTAATGGTAAATTGATTGAATTT
1 GATGGTTTAATGGTAAAGTGATTGAATTT
104993986 ACACTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.42
Consensus pattern (31 bp):
GATGGTTTAATGGTAAAGTGATTGAATTTGA
Found at i:104994768 original size:23 final size:23
Alignment explanation
Indices: 104994725--104994768 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
104994715 GTGATTTATC
* *
104994725 GCATTTTTACTGGTAACTTTTCT
1 GCATTTTTACTGGCAAATTTTCT
104994748 GCATTTTTACTGGCAAATTTT
1 GCATTTTTACTGGCAAATTTT
104994769 TTTGTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (23 bp):
GCATTTTTACTGGCAAATTTTCT
Found at i:105006971 original size:16 final size:17
Alignment explanation
Indices: 105006939--105006971 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
105006929 ATGCATTAAA
*
105006939 CTAGCCTGTACATGCAC
1 CTAGCCTGTAAATGCAC
105006956 CTAGCCT-TAAATGCAC
1 CTAGCCTGTAAATGCAC
105006972 ATCCAGATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.24
Consensus pattern (17 bp):
CTAGCCTGTAAATGCAC
Found at i:105009112 original size:30 final size:30
Alignment explanation
Indices: 105009064--105009121 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
105009054 ATTTGGTTGG
* *
105009064 TTTGGTTGTGTATAAAATGGTGCATATGGT
1 TTTGGTTATGTATAAAATGATGCATATGGT
* * *
105009094 TTTGGTTATGTGTTAAATGATGGATATG
1 TTTGGTTATGTATAAAATGATGCATATG
105009122 TGATGCTTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.45
Consensus pattern (30 bp):
TTTGGTTATGTATAAAATGATGCATATGGT
Found at i:105013287 original size:39 final size:39
Alignment explanation
Indices: 105013233--105013373 Score: 185
Period size: 39 Copynumber: 3.6 Consensus size: 39
105013223 CATATTCATT
* * *
105013233 TTTAAGCATGTATCACATTA-TACATATAATCACATAGCA
1 TTTAAGCATATATCACAATACT-CATATAATCACATAACA
* * * *
105013272 TTCAATCATATATCACAATACTCATAAAATCACATAACG
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
105013311 TTTAAGCATATATCACAAGACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
105013350 TTTAAGCATATATCAAAATACTCA
1 TTTAAGCATATATCACAATACTCA
105013374 AAAACATGTT
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 86 0.99
40 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:105016332 original size:26 final size:26
Alignment explanation
Indices: 105016301--105016408 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
105016291 TGAAGTGCCC
*
105016301 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
105016327 ATCATGGAACATTTACCTAGCCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
105016353 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
105016379 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
105016405 ATCA
1 ATCA
105016409 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:105019342 original size:26 final size:26
Alignment explanation
Indices: 105019313--105019420 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
105019303 TGATACAAGT
*
105019313 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105019339 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105019365 TCATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
105019391 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
105019417 TGAT
1 TGAT
105019421 TGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:105026410 original size:26 final size:26
Alignment explanation
Indices: 105026373--105026480 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
105026363 TGATACAAGT
* *
105026373 TGATAATAGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105026399 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105026425 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
105026451 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
105026477 TGAT
1 TGAT
105026481 TGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:105027111 original size:30 final size:30
Alignment explanation
Indices: 105027075--105027145 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
105027065 GGAAAATCAC
* *
105027075 CATAAATTGTGGGAGATGAGTTAGAAGCTG
1 CATAAATTATGGAAGATGAGTTAGAAGCTG
*
105027105 CATAAATTATGTAAGATGAGTTAGAAGCTG
1 CATAAATTATGGAAGATGAGTTAGAAGCTG
105027135 CATAAATTATG
1 CATAAATTATG
105027146 TTATTAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
CATAAATTATGGAAGATGAGTTAGAAGCTG
Found at i:105027146 original size:30 final size:30
Alignment explanation
Indices: 105027088--105027146 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
105027078 AAATTGTGGG
105027088 AGATGAGTTAGAAGCTGCATAAATTATGTA
1 AGATGAGTTAGAAGCTGCATAAATTATGTA
105027118 AGATGAGTTAGAAGCTGCATAAATTATGT
1 AGATGAGTTAGAAGCTGCATAAATTATGT
105027147 TATTAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.31
Consensus pattern (30 bp):
AGATGAGTTAGAAGCTGCATAAATTATGTA
Found at i:105030479 original size:23 final size:22
Alignment explanation
Indices: 105030429--105030480 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
105030419 AAATCTCAGG
* **
105030429 CATGAATAGTAAAGATTCTTTG
1 CATGAATAGTAAAAATTCTTAA
105030451 CGATGAATAGTAAAAATTCTCTAA
1 C-ATGAATAGTAAAAATTCT-TAA
105030475 CATGAA
1 CATGAA
105030481 CTATGAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 1 0.04
23 22 0.88
24 2 0.08
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (22 bp):
CATGAATAGTAAAAATTCTTAA
Found at i:105042863 original size:22 final size:21
Alignment explanation
Indices: 105042833--105042879 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
105042823 TACAAATTAA
105042833 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
105042855 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
105042876 ATCT
1 ATCT
105042880 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:105042885 original size:19 final size:19
Alignment explanation
Indices: 105042850--105042947 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
105042840 AGATTACAAG
105042850 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
105042871 ATCATATCTAAGATTGTAT
1 ATCATATCTAAGATTGCAT
105042890 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
105042907 ATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGCAT
105042926 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
105042945 ATC
1 ATC
105042948 CTTAAAGATT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.22
19 47 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:105042914 original size:36 final size:37
Alignment explanation
Indices: 105042850--105042947 Score: 135
Period size: 36 Copynumber: 2.6 Consensus size: 37
105042840 AGATTACAAG
*
105042850 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGTAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
*
105042890 ATCATATCTAAGATTG-TATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
105042926 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
105042948 CTTAAAGATT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
36 34 0.63
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:105043708 original size:206 final size:206
Alignment explanation
Indices: 105043343--105044694 Score: 2096
Period size: 206 Copynumber: 6.6 Consensus size: 206
105043333 ATCTTCGATC
* * * *
105043343 TGTTTTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGAGAAAAC
1 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
* * * * * * *
105043408 CAAATCAACTATGTCTTGGATTTGCTCCTTGTAAGGACAAGGATACCAAACCATCTTGGATCTGC
66 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGC
* * * *
105043473 TTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCT
131 TTCAGTATAAACATATGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCC
*
105043538 AAACTTCGATT
196 AAACTTTGATT
105043549 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
1 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
* *
105043614 CAAATCAGCTATATCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTAGATCTGC
66 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGC
* ** *
105043679 TTCAGTATAAACAAATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCC
131 TTCAGTATAAACATATGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCC
*
105043744 AAATTTTGATT
196 AAACTTTGATT
* *
105043755 TGTTCTTTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCATGTGAAAGC
1 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
* * * *
105043820 CAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGC
66 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGC
* * * * * *
105043885 TTCAATCTAATCATTTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTTGAATATGGAGACACC
131 TTCAGTATAAACATATGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCC
105043950 AAACTTTGATT
196 AAACTTTGATT
* *
105043961 TGTTCTCTAACAATACAGAGATGGCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
1 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
*
105044026 CAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGC
66 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGC
* * * *
105044091 TTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTTCGTCGAATATGGAGACGCC
131 TTCAGTATAAACATATGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCC
*
105044156 AAACTTCGATT
196 AAACTTTGATT
*
105044167 TGTTCTCTGACAATATAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
1 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
* * * * *
105044232 CAAATCAGCTATGTCTTCAATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGC
66 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGC
* * *
105044297 TTCAGTCTAATCATTTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCC
131 TTCAGTATAAACATATGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCC
105044362 AAACTTTGATT
196 AAACTTTGATT
* *
105044373 TGTTCTCTGACAATATAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAATCACGTTG-AAG
1 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACG-TGAAAG
105044437 CCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTG
65 CCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTG
* ** * *
105044502 ATTCAGTATAAACATATGAAGGCCAGATCTACTATGTGTCTGCTCTCCGTCGAATATGGAGACGC
130 CTTCAGTATAAACATATGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGC
105044567 CAAACTTTGATT
195 CAAACTTTGATT
* * * * *
105044579 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTATATTTGCTTCAGCATAAAC-CGTGGAAGC
1 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
*
105044643 CAAATTAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
66 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
105044695 TGCTATCTTC
Statistics
Matches: 1047, Mismatches: 97, Indels: 5
0.91 0.08 0.00
Matches are distributed among these distances:
204 2 0.00
205 57 0.05
206 986 0.94
207 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGC
TTCAGTATAAACATATGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCC
AAACTTTGATT
Found at i:105044714 original size:44 final size:44
Alignment explanation
Indices: 105044664--105045134 Score: 372
Period size: 44 Copynumber: 10.7 Consensus size: 44
105044654 TGTCTTCGAT
* * * *
105044664 TTGTTCCTTGTAAGCACAAGGATGCCAAATCTGCTATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
* ** *
105044708 TTGTTCCCTATAAACACAGGGATACC--ATGCTGAAATCTTCGA-
1 TTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTATCTTCAAC
* * * * * * * * *
105044750 TCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATATTCGAT
1 T-TG-TTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
*
105044796 TTGTTCCCTATAAACACAGGGATACCAAATCTGCTATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
** *
105044840 TTGTTCCCTATAAACACAGGGATGCC--ATGCTGAAATCTTCGA-
1 TTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTATCTTCAAC
* * * * ** * * *
105044882 TCTGCTTCACTGTAAGCACAGGAATGTTAGATCTGCTATCTTCGAT
1 T-TG-TTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
105044928 TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
* ** **
105044972 TTGTTCCCTATAAACACATGGATGCCATGT-TGAAATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
*
105045015 TTGTTCCCTATAAACACAGGGATGCC--ATGCTG-AACTCTTCAA-
1 TTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTA-TCTTCAAC
* * * * * * *
105045057 TCTGCTTCGCTGTAAGCACA-AGAGTGTCAAATCTGCTATCTTCGAT
1 T-TG-TTCCCTATAAACACAGGGA-TGCCAAATCTGCTATCTTCAAC
105045103 TTGTTCCCTATAAACACAGGGATGCCAAATCT
1 TTGTTCCCTATAAACACAGGGATGCCAAATCT
105045135 TGTTTCTTTG
Statistics
Matches: 337, Mismatches: 67, Indels: 46
0.75 0.15 0.10
Matches are distributed among these distances:
41 1 0.00
42 9 0.03
43 73 0.22
44 206 0.61
45 38 0.11
46 10 0.03
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
Found at i:105044829 original size:132 final size:132
Alignment explanation
Indices: 105044658--105045011 Score: 609
Period size: 132 Copynumber: 2.7 Consensus size: 132
105044648 TAGCTATGTC
* * * *
105044658 TTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAAC
1 TTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAAC
* *
105044723 ACAGGGATACCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTA
66 ACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTA
105044788 TA
131 TA
*
105044790 TTCGATTTGTTCCCTATAAACACAGGGATACCAAATCTGCTATCTTCAACTTGTTCCCTATAAAC
1 TTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAAC
*
105044855 ACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTTAGATCTGCTA
66 ACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTA
*
105044920 TC
131 TA
105044922 TTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAAC
1 TTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAAC
* *
105044987 ACATGGATGCCATGTTGAAATCTTC
66 ACAGGGATGCCATGCTGAAATCTTC
105045012 AACTTGTTCC
Statistics
Matches: 210, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 210 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (132 bp):
TTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAAC
ACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTA
TA
Found at i:105045040 original size:175 final size:176
Alignment explanation
Indices: 105044742--105045134 Score: 563
Period size: 175 Copynumber: 2.2 Consensus size: 176
105044732 CCATGCTGAA
* * * * * * * * *
105044742 ATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATATTCGATTTGTTCCCTAT
1 ATCTTCGATTTG-TTCCCTATAAACACAGGGATGCCAAATCTGCTATATTCAACTTGTTCCCTAT
**
105044807 AAACACAGGGATACCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTG
65 AAACACAGGGATACCAAATCTGAAATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTG
* * * *
105044872 AAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTTAGATCTGCT
130 AAATCTTCAATCTGCTTCACTGTAAGCACAAGAATGTCAAATCTGCT
*
105044919 ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATA
1 ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATATTCAACTTGTTCCCTATA
* * **
105044984 AACACATGGATGCCATGT-TGAAATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGA
66 AACACAGGGATACCAAATCTGAAATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGA
* * *
105045048 ACTCTTCAATCTGCTTCGCTGTAAGCACAAGAGTGTCAAATCTGCT
131 AATCTTCAATCTGCTTCACTGTAAGCACAAGAATGTCAAATCTGCT
105045094 ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCT
1 ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCT
105045135 TGTTTCTTTG
Statistics
Matches: 193, Mismatches: 23, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
175 124 0.64
176 58 0.30
177 11 0.06
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (176 bp):
ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATATTCAACTTGTTCCCTATA
AACACAGGGATACCAAATCTGAAATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGA
AATCTTCAATCTGCTTCACTGTAAGCACAAGAATGTCAAATCTGCT
Found at i:105046000 original size:7 final size:7
Alignment explanation
Indices: 105045988--105046054 Score: 62
Period size: 7 Copynumber: 8.7 Consensus size: 7
105045978 GGCCTCTCCA
105045988 TTTTTCT
1 TTTTTCT
105045995 TTTTTCAT
1 TTTTTC-T
*
105046003 ATTTCTCT
1 -TTTTTCT
105046011 TTTTTCT
1 TTTTTCT
*
105046018 TTTTATTT
1 TTTT-TCT
105046026 TTTTTCTTT
1 TTTTTC--T
105046035 TTTTTCT
1 TTTTTCT
105046042 TTTTTCCT
1 TTTTT-CT
105046050 TTTTT
1 TTTTT
105046055 TTTGAAATAG
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
7 23 0.46
8 15 0.30
9 12 0.24
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:105046029 original size:9 final size:9
Alignment explanation
Indices: 105046017--105046056 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
105046007 CTCTTTTTTC
*
105046017 TTTTTATTT
1 TTTTTCTTT
105046026 TTTTTCTTT
1 TTTTTCTTT
105046035 TTTTTC-TT
1 TTTTTCTTT
*
105046043 TTTTCCTTT
1 TTTTTCTTT
105046052 TTTTT
1 TTTTT
105046057 TGAAATAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:105046043 original size:31 final size:30
Alignment explanation
Indices: 105045988--105046057 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
105045978 GGCCTCTCCA
* *
105045988 TTTTTCTTTTTTCATATTTCTCTTTTTTCT
1 TTTTTTTTTTTTCATATTTCTCTTTTTTCC
* * *
105046018 TTTTATTTTTTTTCTTTTTTTTCTTTTTTCC
1 TTTT-TTTTTTTTCATATTTCTCTTTTTTCC
105046049 TTTTTTTTT
1 TTTTTTTTT
105046058 GAAATAGAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 9 0.26
31 25 0.74
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (30 bp):
TTTTTTTTTTTTCATATTTCTCTTTTTTCC
Found at i:105046052 original size:16 final size:16
Alignment explanation
Indices: 105045988--105046055 Score: 77
Period size: 16 Copynumber: 4.3 Consensus size: 16
105045978 GGCCTCTCCA
* *
105045988 TTTTTCTTTTTTCATA
1 TTTTTCTTTTTTCCTT
*
105046004 TTTCTCTTTTTT-CTT
1 TTTTTCTTTTTTCCTT
*
105046019 TTTATT-TTTTTTCTTT
1 TTT-TTCTTTTTTCCTT
105046035 TTTTTCTTTTTTCCTT
1 TTTTTCTTTTTTCCTT
105046051 TTTTT
1 TTTTT
105046056 TTGAAATAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
15 12 0.28
16 31 0.72
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTCTTTTTTCCTT
Found at i:105047031 original size:11 final size:11
Alignment explanation
Indices: 105047015--105047046 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
105047005 GCAAGCCTCA
105047015 AAAACTTGATC
1 AAAACTTGATC
105047026 AAAACTTGATC
1 AAAACTTGATC
105047037 AAAACTTGAT
1 AAAACTTGAT
105047047 TGAATTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (11 bp):
AAAACTTGATC
Found at i:105052363 original size:22 final size:21
Alignment explanation
Indices: 105052333--105052398 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
105052323 TACAAATTAA
105052333 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
105052355 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
105052376 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
105052395 ATCT
1 ATCT
105052399 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:105052385 original size:19 final size:19
Alignment explanation
Indices: 105052350--105052447 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
105052340 AGATTACAAG
105052350 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
105052371 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
105052390 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
105052407 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
105052426 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
105052445 ATC
1 ATC
105052448 CTTAAAGATT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:105052414 original size:36 final size:37
Alignment explanation
Indices: 105052350--105052447 Score: 153
Period size: 36 Copynumber: 2.6 Consensus size: 37
105052340 AGATTACAAG
105052350 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
105052390 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
105052426 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
105052448 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
36 36 0.64
38 11 0.20
39 1 0.02
40 8 0.14
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:105054511 original size:26 final size:24
Alignment explanation
Indices: 105054474--105054524 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 24
105054464 ATACTCAGAT
105054474 AACTCCCCACTAATTCTCAGATTTCCA
1 AACTCCCCACT-A--CTCAGATTTCCA
105054501 AACT-CCCACTACTCAGATTTCCA
1 AACTCCCCACTACTCAGATTTCCA
105054524 A
1 A
105054525 TACAACTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 13 0.54
25 1 0.04
26 6 0.25
27 4 0.17
ACGTcount: A:0.31, C:0.37, G:0.04, T:0.27
Consensus pattern (24 bp):
AACTCCCCACTACTCAGATTTCCA
Found at i:105057118 original size:5 final size:5
Alignment explanation
Indices: 105057108--105057158 Score: 102
Period size: 5 Copynumber: 10.2 Consensus size: 5
105057098 ACTTTATGTT
105057108 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
105057158 T
1 T
105057159 ATAAACTAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:105058763 original size:45 final size:45
Alignment explanation
Indices: 105058712--105058905 Score: 327
Period size: 45 Copynumber: 4.3 Consensus size: 45
105058702 CTGTTACCGC
*
105058712 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
105058757 TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
*
105058802 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
* * *
105058847 TACTGTTACCGTTGCCGATTCGACACTTTGTGTGTCGGATATTGT
1 TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
*
105058892 TACT-ATACTGTTAC
1 TACTGTTACTGTTAC
105058906 TGTTACTGTT
Statistics
Matches: 140, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
44 7 0.05
45 133 0.95
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
Found at i:105059168 original size:18 final size:18
Alignment explanation
Indices: 105059079--105059173 Score: 70
Period size: 18 Copynumber: 5.3 Consensus size: 18
105059069 AAAGGTATAA
* * *
105059079 AATAACTGATTGTCACTG
1 AATAATTGACTGTTACTG
*
105059097 AATGAA-TGACTGTTACTA
1 AAT-AATTGACTGTTACTG
* *
105059115 AATAACTTAATTGTTACTG
1 AATAA-TTGACTGTTACTG
*
105059134 AAT-ATCTGA-TTTTACTG
1 AATAAT-TGACTGTTACTG
105059151 AATAATTGACTGTTACTG
1 AATAATTGACTGTTACTG
*
105059169 GATAA
1 AATAA
105059174 CCGATCAATT
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
17 16 0.26
18 31 0.51
19 14 0.23
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
AATAATTGACTGTTACTG
Found at i:105061626 original size:45 final size:44
Alignment explanation
Indices: 105061576--105061673 Score: 151
Period size: 45 Copynumber: 2.2 Consensus size: 44
105061566 TGAAAACTGG
105061576 AACACATATATCGATGCCAACGTCCCAGACGTGGTCGTACACGAA
1 AACACATATATCGATGCCAACGTCCCAGACGT-GTCGTACACGAA
* * *
105061621 AACACATATATCGATGCGAACGTCCCAGATGTGTCTTACACGAA
1 AACACATATATCGATGCCAACGTCCCAGACGTGTCGTACACGAA
*
105061665 AATACATAT
1 AACACATAT
105061674 CATAATCCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 19 0.39
45 30 0.61
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (44 bp):
AACACATATATCGATGCCAACGTCCCAGACGTGTCGTACACGAA
Found at i:105061819 original size:301 final size:302
Alignment explanation
Indices: 105061276--105061872 Score: 1016
Period size: 301 Copynumber: 2.0 Consensus size: 302
105061266 TACACATAAC
* * * *
105061276 CACATATATCGATGCCAGCGTCTCAAACATGGTCTTACACGAAAACACATATATCAATGCCAATG
1 CACATATATCGATGCCAACGTCCCAAACATGGTCGTACACGAAAACACATATATCAATGCCAACG
105061341 TCCCAGATGCGGTCTTACACGAAAATACATATCATAATCCTATGGTTCGTATGGGGCTTTTGGAC
66 TCCCAGATGCGGTCTTACACGAAAATACATATCATAATCCTATGGTTCGTATGGGGCTTTTGGAC
*
105061406 GTCATAACTCAGTCGAAACAAATTCGTTAACATAGTTCCCAAGCTTATTTACATTCGGCTAACAT
131 GTCATAACTCAGTCGAAACAAATTCATTAACATAGTTCCCAAGCTTATTTACATTCGGCTAACAT
105061471 ATATATAAATTTTCAAATAATTCATTTCAGCAGATAGAACTCATATTTATTTAAAATTAACAATA
196 ATATATAAATTTTCAAATAATTCATTTCAGCAGATAGAACTCATATTTATTTAAAATTAACAATA
* *
105061536 TATATTTACTTATAAACTTGCCTCGGACGATGAAAACTGGAA
261 TATATTTACTTATAAACTTACCTCGGACAATGAAAACTGGAA
* * * *
105061578 CACATATATCGATGCCAACGTCCCAGACGTGGTCGTACACGAAAACACATATATCGATGCGAACG
1 CACATATATCGATGCCAACGTCCCAAACATGGTCGTACACGAAAACACATATATCAATGCCAACG
* *
105061643 TCCCAGATG-TGTCTTACACGAAAATACATATCATAATCCTATGGTTCGTATGGGGCTTTTGGGC
66 TCCCAGATGCGGTCTTACACGAAAATACATATCATAATCCTATGGTTCGTATGGGGCTTTTGGAC
* *
105061707 GTCATTACTGAGTCGAAACAAATTCATTAACATAGTTCCCAAGCTTATTTACATTCGGCTAACAT
131 GTCATAACTCAGTCGAAACAAATTCATTAACATAGTTCCCAAGCTTATTTACATTCGGCTAACAT
* *
105061772 ATATATATATTTTCAAATAATTCATTTCAGCATATAGAACTCATATTTATTTAAAATTAACAATA
196 ATATATAAATTTTCAAATAATTCATTTCAGCAGATAGAACTCATATTTATTTAAAATTAACAATA
* *
105061837 TCTATTTACTTATAAACTTACCTTGGACAATGAAAA
261 TATATTTACTTATAAACTTACCTCGGACAATGAAAA
105061873 TCGGAATGGG
Statistics
Matches: 276, Mismatches: 19, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
301 210 0.76
302 66 0.24
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (302 bp):
CACATATATCGATGCCAACGTCCCAAACATGGTCGTACACGAAAACACATATATCAATGCCAACG
TCCCAGATGCGGTCTTACACGAAAATACATATCATAATCCTATGGTTCGTATGGGGCTTTTGGAC
GTCATAACTCAGTCGAAACAAATTCATTAACATAGTTCCCAAGCTTATTTACATTCGGCTAACAT
ATATATAAATTTTCAAATAATTCATTTCAGCAGATAGAACTCATATTTATTTAAAATTAACAATA
TATATTTACTTATAAACTTACCTCGGACAATGAAAACTGGAA
Found at i:105073086 original size:5 final size:5
Alignment explanation
Indices: 105073076--105073178 Score: 84
Period size: 5 Copynumber: 19.2 Consensus size: 5
105073066 TGAATCCTCC
*
105073076 TATTT TATTT TATTT T-TTCT TATTTT TATTT TATTT T-CTT TATTT TATTTT
1 TATTT TATTT TATTT TATT-T TA-TTT TATTT TATTT TATTT TATTT TA-TTT
* *
105073127 TATTTT TCTTT TGATTTT TATTT TCATTT CAATTT TATTAT TATTT TATTT
1 TA-TTT TATTT T-A-TTT TATTT T-ATTT -TATTT TATT-T TATTT TATTT
105073178 T
1 T
105073179 GAAAGACATC
Statistics
Matches: 82, Mismatches: 6, Indels: 20
0.76 0.06 0.19
Matches are distributed among these distances:
4 5 0.06
5 44 0.54
6 27 0.33
7 6 0.07
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:105073117 original size:14 final size:14
Alignment explanation
Indices: 105073100--105073126 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
105073090 TTTTCTTATT
105073100 TTTATTTTATTTTC
1 TTTATTTTATTTTC
105073114 TTTATTTTATTTT
1 TTTATTTTATTTT
105073127 TATTTTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTTC
Found at i:105073138 original size:11 final size:11
Alignment explanation
Indices: 105073078--105073178 Score: 93
Period size: 11 Copynumber: 9.3 Consensus size: 11
105073068 AATCCTCCTA
105073078 TTTTATTTTAT
1 TTTTATTTTAT
*
105073089 TTTT-TCTTAT
1 TTTTATTTTAT
105073099 TTTTATTTTA-
1 TTTTATTTTAT
*
105073109 TTTT-CTTTA-
1 TTTTATTTTAT
105073118 TTTTATTTTTAT
1 TTTTA-TTTTAT
*
105073130 TTTTCTTTTGAT
1 TTTTATTTT-AT
105073142 TTTTATTTTCAT
1 TTTTATTTT-AT
**
105073154 TTCAATTTTAT
1 TTTTATTTTAT
*
105073165 TATTATTTTAT
1 TTTTATTTTAT
105073176 TTT
1 TTT
105073179 GAAAGACATC
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
9 8 0.11
10 13 0.18
11 28 0.39
12 23 0.32
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:105073145 original size:7 final size:6
Alignment explanation
Indices: 105073078--105073178 Score: 70
Period size: 6 Copynumber: 17.5 Consensus size: 6
105073068 AATCCTCCTA
* *
105073078 TTTTA- TTTTA- TTTT-T TCTTAT TTTTA- TTTTAT TTTCTTT ATTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT -TTTTAT
* * * * * *
105073124 TTTTAT TTTTCT TTTGAT TTTTAT TTTCA- TTTCAA TTTTAT TATTA-
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
105073170 TTTTAT TTT
1 TTTTAT TTT
105073179 GAAAGACATC
Statistics
Matches: 76, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
5 26 0.34
6 43 0.57
7 4 0.05
8 3 0.04
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:105073151 original size:17 final size:16
Alignment explanation
Indices: 105073078--105073178 Score: 64
Period size: 17 Copynumber: 6.2 Consensus size: 16
105073068 AATCCTCCTA
*
105073078 TTTTATTTTATTTT-T
1 TTTTATTTTCTTTTAT
* *
105073093 TCTTATTTTTATTTTA-
1 TTTTA-TTTTCTTTTAT
* *
105073109 TTTT-CTTTATTTTAT
1 TTTTATTTTCTTTTAT
105073124 TTTTATTTTTCTTTTGAT
1 TTTTA-TTTTCTTTT-AT
* *
105073142 TTTTATTTTCATTTCAA
1 TTTTATTTTC-TTTTAT
*
105073159 TTTTATTATTATTTTAT
1 TTTTATT-TTCTTTTAT
105073176 TTT
1 TTT
105073179 GAAAGACATC
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
14 9 0.13
15 8 0.12
16 12 0.18
17 27 0.40
18 12 0.18
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (16 bp):
TTTTATTTTCTTTTAT
Found at i:105079260 original size:45 final size:45
Alignment explanation
Indices: 105079195--105079307 Score: 154
Period size: 45 Copynumber: 2.5 Consensus size: 45
105079185 GTCCTAGACA
* * * *
105079195 TGGTCTTACACGTAACCACATATATCGATGCCAACGTCCCTGATG
1 TGGTCTTACACGAAAACACATATATCGATGCCAACATCCCAGATG
* *
105079240 TGGTCTTACACGAAAACACATATATCGATGCCAGCATTCCAGATG
1 TGGTCTTACACGAAAACACATATATCGATGCCAACATCCCAGATG
* *
105079285 TGGTCTTGCATGAAAACACATAT
1 TGGTCTTACACGAAAACACATAT
105079308 CAAAATTCTA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (45 bp):
TGGTCTTACACGAAAACACATATATCGATGCCAACATCCCAGATG
Found at i:105091616 original size:6 final size:6
Alignment explanation
Indices: 105091605--105091633 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
105091595 AAGATAAACC
105091605 AGAAAA AGAAAA AGAAAA AGAAAA AGAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAA
105091634 TTATCCCTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:105093014 original size:14 final size:14
Alignment explanation
Indices: 105092980--105093024 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
105092970 GAACACTTGC
105092980 ATGTGAACCCCTTAT
1 ATGTGAACCCC-TAT
*
105092995 AGGTGAACCCCTAT
1 ATGTGAACCCCTAT
*
105093009 ATGTGAACCCCCAT
1 ATGTGAACCCCTAT
105093023 AT
1 AT
105093025 ATGCAAACCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (14 bp):
ATGTGAACCCCTAT
Found at i:105093161 original size:22 final size:22
Alignment explanation
Indices: 105093127--105093211 Score: 91
Period size: 22 Copynumber: 3.8 Consensus size: 22
105093117 TCTATTGAAA
*
105093127 TATGCAAATCCTATATGTTATT
1 TATGCAAACCCTATATGTTATT
* * *
105093149 TATGCGAACCCTACATG-TACTAA
1 TATGCAAACCCTATATGTTA-T-T
*
105093172 TATGCAAACCCTATAAGTTATT
1 TATGCAAACCCTATATGTTATT
*
105093194 TATGCAAACCCTACATGT
1 TATGCAAACCCTATATGT
105093212 GGTAATATAC
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
21 2 0.04
22 31 0.62
23 15 0.30
24 2 0.04
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (22 bp):
TATGCAAACCCTATATGTTATT
Found at i:105093176 original size:45 final size:45
Alignment explanation
Indices: 105093125--105093251 Score: 155
Period size: 45 Copynumber: 2.8 Consensus size: 45
105093115 TATCTATTGA
*
105093125 AATATGCAAATCCTATATGTTATTTATGCGAACCCTACATGTACT
1 AATATGCAAACCCTATATGTTATTTATGCGAACCCTACATGTACT
* * **
105093170 AATATGCAAACCCTATAAGTTATTTATGCAAACCCTACATGTGGT
1 AATATGCAAACCCTATATGTTATTTATGCGAACCCTACATGTACT
* * * * * *
105093215 AATATACGAGCCTTATATGTCATTTATGTGAACCCTA
1 AATATGCAAACCCTATATGTTATTTATGCGAACCCTA
105093252 ATTGTTTATC
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.34
Consensus pattern (45 bp):
AATATGCAAACCCTATATGTTATTTATGCGAACCCTACATGTACT
Found at i:105097326 original size:14 final size:13
Alignment explanation
Indices: 105097306--105097342 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
105097296 AATATTTGAC
105097306 TTGTTCTTAATTA
1 TTGTTCTTAATTA
105097319 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
105097333 TTGTT-TTAAT
1 TTGTTCTTAAT
105097343 ATTCCAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:105099908 original size:13 final size:13
Alignment explanation
Indices: 105099876--105099916 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
105099866 ATATATTAAT
*
105099876 CCAAGTACCCAAC
1 CCAATTACCCAAC
105099889 CC-A--ACCCAAC
1 CCAATTACCCAAC
105099899 CCAATTACCCAAC
1 CCAATTACCCAAC
105099912 CCAAT
1 CCAAT
105099917 CATAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.36
11 1 0.04
12 1 0.04
13 14 0.56
ACGTcount: A:0.39, C:0.49, G:0.02, T:0.10
Consensus pattern (13 bp):
CCAATTACCCAAC
Found at i:105099982 original size:7 final size:6
Alignment explanation
Indices: 105099941--105099981 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
105099931 ATAATTTAAT
*
105099941 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
105099982 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:105099982 original size:20 final size:20
Alignment explanation
Indices: 105099944--105099983 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
105099934 ATTTAATAAA
**
105099944 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
105099964 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
105099984 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:105100019 original size:9 final size:9
Alignment explanation
Indices: 105100001--105100059 Score: 73
Period size: 9 Copynumber: 6.6 Consensus size: 9
105099991 TTTATACAAA
*
105100001 TAATTTGGT
1 TAATTCGGT
105100010 TAATTCGGT
1 TAATTCGGT
* *
105100019 TAATTTGGG
1 TAATTCGGT
*
105100028 TAATTCAGT
1 TAATTCGGT
*
105100037 TAATTCGAT
1 TAATTCGGT
105100046 TAATTCGGT
1 TAATTCGGT
105100055 TAATT
1 TAATT
105100060 TGATTAATTT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.27, C:0.07, G:0.19, T:0.47
Consensus pattern (9 bp):
TAATTCGGT
Found at i:105100024 original size:18 final size:18
Alignment explanation
Indices: 105100001--105100068 Score: 91
Period size: 18 Copynumber: 3.8 Consensus size: 18
105099991 TTTATACAAA
*
105100001 TAATTTGGTTAATTCGGT
1 TAATTTGATTAATTCGGT
** *
105100019 TAATTTGGGTAATTCAGT
1 TAATTTGATTAATTCGGT
*
105100037 TAATTCGATTAATTCGGT
1 TAATTTGATTAATTCGGT
105100055 TAATTTGATTAATT
1 TAATTTGATTAATT
105100069 TTATATTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.28, C:0.06, G:0.18, T:0.49
Consensus pattern (18 bp):
TAATTTGATTAATTCGGT
Found at i:105100066 original size:27 final size:27
Alignment explanation
Indices: 105100001--105100068 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
105099991 TTTATACAAA
* * *
105100001 TAATTTGGTTAATTCGGTTAATTTGGG
1 TAATTTGATTAATTCGATTAATTCGGG
* *
105100028 TAA-TTCAGTTAATTCGATTAATTCGGT
1 TAATTTGA-TTAATTCGATTAATTCGGG
105100055 TAATTTGATTAATT
1 TAATTTGATTAATT
105100069 TTATATTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
26 2 0.06
27 28 0.85
28 3 0.09
ACGTcount: A:0.28, C:0.06, G:0.18, T:0.49
Consensus pattern (27 bp):
TAATTTGATTAATTCGATTAATTCGGG
Found at i:105100069 original size:9 final size:9
Alignment explanation
Indices: 105100009--105100068 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
105099999 AATAATTTGG
*
105100009 TTAATTCGG
1 TTAATTCGA
* *
105100018 TTAATTTGG
1 TTAATTCGA
*
105100027 GTAATTC-A
1 TTAATTCGA
105100035 GTTAATTCGA
1 -TTAATTCGA
*
105100045 TTAATTCGG
1 TTAATTCGA
*
105100054 TTAATTTGA
1 TTAATTCGA
105100063 TTAATT
1 TTAATT
105100069 TTATATTTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
9 40 0.98
10 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (9 bp):
TTAATTCGA
Found at i:105101531 original size:20 final size:20
Alignment explanation
Indices: 105101506--105101549 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
105101496 CACTTAGTGC
*
105101506 ATAAATGATTAGCTGAAGCT
1 ATAAATGATTAGCCGAAGCT
*
105101526 ATAAATGATTAGCCGGAGCT
1 ATAAATGATTAGCCGAAGCT
105101546 ATAA
1 ATAA
105101550 CGACAGTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
ATAAATGATTAGCCGAAGCT
Done.