Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 124 of 345
Found at i:33141560 original size:28 final size:28
Alignment explanation
Indices: 33141426--33141552 Score: 118
Period size: 28 Copynumber: 4.5 Consensus size: 28
33141416 TACATACATG
33141426 CATATGGCCCA-CTAGGCCCAATCTCACTT
1 CATATGGCCCATC-AGGCCCAATCTCA-TT
*
33141455 -ATATTGCCCATTC-GGCCCAAT-TCACGTT
1 CATATGGCCCA-TCAGGCCCAATCTCA--TT
* * *
33141483 CATATGGCCTATCAAGCCCAATTCACATT
1 CATATGGCCCATCAGGCCCAA-TCTCATT
*
33141512 CATATGGCCCATTAGGCCCAATCTCATT
1 CATATGGCCCATCAGGCCCAATCTCATT
*
33141540 TATATGGCCCATC
1 CATATGGCCCATC
33141553 CTGCCCAAAT
Statistics
Matches: 79, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
27 3 0.04
28 38 0.48
29 34 0.43
30 2 0.03
31 2 0.03
ACGTcount: A:0.25, C:0.33, G:0.13, T:0.28
Consensus pattern (28 bp):
CATATGGCCCATCAGGCCCAATCTCATT
Found at i:33141570 original size:28 final size:28
Alignment explanation
Indices: 33141427--33141572 Score: 111
Period size: 29 Copynumber: 5.1 Consensus size: 28
33141417 ACATACATGC
*
33141427 ATATGGCCCA-CTAGGCCC-AATCTCACTT
1 ATATGGCCCATC-AGGCCCAAATCACA-TT
* * *
33141455 ATATTGCCCATTC-GGCCCAATTCACGTT
1 ATATGGCCCA-TCAGGCCCAAATCACATT
* * *
33141483 CATATGGCCTATCAAGCCCAATTCACATT
1 -ATATGGCCCATCAGGCCCAAATCACATT
* *
33141512 CATATGGCCCATTAGGCCC-AATCTCATTT
1 -ATATGGCCCATCAGGCCCAAATCACA-TT
**
33141541 ATATGGCCCATCCTGCCCAAATCACATT
1 ATATGGCCCATCAGGCCCAAATCACATT
33141569 ATAT
1 ATAT
33141573 TCATGCTCAC
Statistics
Matches: 94, Mismatches: 17, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
28 44 0.47
29 49 0.52
30 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.12, T:0.29
Consensus pattern (28 bp):
ATATGGCCCATCAGGCCCAAATCACATT
Found at i:33142493 original size:19 final size:20
Alignment explanation
Indices: 33142471--33142558 Score: 67
Period size: 21 Copynumber: 4.3 Consensus size: 20
33142461 TAATAATAAT
33142471 ATAAAATAATA-ATATGTAC
1 ATAAAATAATATATATGTAC
*
33142490 ATAAAAATACATATATATATATGC
1 AT-AAAATA-ATATATATGTA--C
*
33142514 ATATAATAA-ATATATGTA-
1 ATAAAATAATATATATGTAC
*
33142532 ATAATAATAATA-ATATCTAC
1 ATAA-AATAATATATATGTAC
33142552 AATAAAA
1 -ATAAAA
33142559 GAAAATATTA
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
18 3 0.05
19 13 0.24
20 9 0.16
21 15 0.27
22 7 0.13
23 5 0.09
24 3 0.05
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (20 bp):
ATAAAATAATATATATGTAC
Found at i:33142641 original size:17 final size:19
Alignment explanation
Indices: 33142619--33142662 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
33142609 ACAATAATAT
33142619 AAAATA-AT-GATATGTAC
1 AAAATATATAGATATGTAC
*
33142636 AAAATATATATATATGTAC
1 AAAATATATAGATATGTAC
*
33142655 ATAATATA
1 AAAATATA
33142663 GTTATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 6 0.26
18 2 0.09
19 15 0.65
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (19 bp):
AAAATATATAGATATGTAC
Found at i:33143462 original size:13 final size:14
Alignment explanation
Indices: 33143434--33143468 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
33143424 TTTTGTTGTT
33143434 TTTTTTTGCTGGAAA
1 TTTTTTTGCT-GAAA
33143449 TTTTTTTGCT-AAA
1 TTTTTTTGCTGAAA
33143462 TTTTTTT
1 TTTTTTT
33143469 TTTTGCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.50
15 10 0.50
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.66
Consensus pattern (14 bp):
TTTTTTTGCTGAAA
Found at i:33143755 original size:30 final size:30
Alignment explanation
Indices: 33143703--33143813 Score: 127
Period size: 30 Copynumber: 3.7 Consensus size: 30
33143693 TTTTACAAAA
* *
33143703 TTTAA-GGTTAAAATGTAATTTAAAGAAAG
1 TTTAAGGGTCAAAATGAAATTTAAAGAAAG
* *
33143732 TTTAAGGGTCTAAGTGAAATTTAAAGAAAG
1 TTTAAGGGTCAAAATGAAATTTAAAGAAAG
*
33143762 TTTAAGGGTCAAAATGAAATTT-AGGAAAAG
1 TTTAAGGGTCAAAATGAAATTTAAAG-AAAG
* * *
33143792 TTTAGGGGTAAAAATGCAATTT
1 TTTAAGGGTCAAAATGAAATTT
33143814 TTATTTTTTA
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
29 7 0.10
30 63 0.90
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.32
Consensus pattern (30 bp):
TTTAAGGGTCAAAATGAAATTTAAAGAAAG
Found at i:33144212 original size:75 final size:77
Alignment explanation
Indices: 33144007--33144326 Score: 271
Period size: 80 Copynumber: 4.2 Consensus size: 77
33143997 GAAAAACAAA
* ** * * * *
33144007 AAAAAATTGAAAATAGCTCGGATGCGACCCGAAGTTCAACTCACCTCTCG-AATTATGAGTTGAT
1 AAAAAATTGAAAATACCTCACATGTGACCTGAGGCTCAACTCACCTCTCGCAA-TATGAGTTGAT
*
33144071 CTTTTGAAAAAGC
65 TTTTTGAAAAAGC
* *
33144084 AAAAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGAT
1 AAAAAATTGAAAATACCTCA-CATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
*
33144149 TTTTTTGAAAGA-C
64 TTTTTTGAAAAAGC
* * * **
33144162 -AGAAATTGAAAATACCTCA-ATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGACT
1 AAAAAATTGAAAATACCTCACATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
* **
33144225 TTTTTAAAAAAAAA
65 TTTTT-GAAAAAGC
* * * * * *
33144239 AAAAGGAATTGAAATTACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTAGTAATATGAATTG
1 AAAA--AATTGAAAATACCTCA-CATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
33144302 A-TTTTTGAAAAA-C
63 ATTTTTTGAAAAAGC
*
33144315 -ATAAATTGAAAA
1 AAAAAATTGAAAA
33144327 ACGGAAATCG
Statistics
Matches: 198, Mismatches: 35, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
73 8 0.04
75 44 0.22
76 4 0.02
77 41 0.21
78 41 0.21
79 12 0.06
80 48 0.24
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (77 bp):
AAAAAATTGAAAATACCTCACATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTGAAAAAGC
Found at i:33144382 original size:87 final size:87
Alignment explanation
Indices: 33144153--33144653 Score: 607
Period size: 87 Copynumber: 5.9 Consensus size: 87
33144143 GTTGATTTTT
* ** * **
33144153 TTGAAAGACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
33144218 GTTGACTTTTT--TAAA-A-AAA
66 GTTGA-TTTTTGAAAAACATAAA
* * * * *
33144237 ---AAAAA-AGGAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGTAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
33144298 ATTGATTTTTGAAAAACATAAA
66 GTTGATTTTTGAAAAACATAAA
* * * *
33144320 TTGAAAAACGGAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
33144385 GTTGATTTTTGAAAAATATAGA
66 GTTGATTTTTGAAAAACATAAA
33144407 TTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TT-G-AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*
33144472 GAGTTGA--TTT-AAAAACAGT-CA
64 GAGTTGATTTTTGAAAAACA-TAAA
* *
33144493 TT-AAGAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
33144557 ATTGATTTTTGCAAAATATAAA
66 GTTGATTTTTGAAAAACATAAA
* * *
33144579 CTGAAAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
33144644 G-TGACTTTTT
66 GTTGA-TTTTT
33144654 TTTTTTGACA
Statistics
Matches: 357, Mismatches: 43, Indels: 31
0.83 0.10 0.07
Matches are distributed among these distances:
79 5 0.01
80 50 0.14
81 7 0.02
82 1 0.00
83 67 0.19
85 4 0.01
86 24 0.07
87 135 0.38
88 1 0.00
89 63 0.18
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (87 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAAACATAAA
Found at i:33144566 original size:172 final size:167
Alignment explanation
Indices: 33144087--33144736 Score: 649
Period size: 172 Copynumber: 3.9 Consensus size: 167
33144077 AAAAAGCAAA
*
33144087 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTT-
1 AAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTA
*** * * * **
33144151 ---TTTTGA--AAG-ACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCG
64 AAAACATAATTAAGAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
*
33144210 CAATATGAGTTGACTTTTT-TAAA-A-AA--AAAAAA-AG
129 CAATATGAGTTGA-TTTTTGAAAATATAATGAAAAAACAG
* * * * * *
33144244 GAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGTAATATGAATTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT-
* * * *
33144309 AAAAACATAAATTGAAAAACGGAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAATTCACCTC
63 AAAAACAT-AATT-AAGAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTC
33144374 TCGCAATATGAGTTGATTTTTGAAAAATATAGATTGGAAAAAACAG
126 TCGCAATATGAGTTGATTTTTG-AAAATATA-A-T-GAAAAAACAG
33144420 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAA
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAA
* * *
33144485 AACAGTCATTAAGAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 AACA-TAATTAAGAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGC
* *
33144550 AATATGAATTGATTTTTGCAAAATATAAACTG-AAAAACAT
130 AATATGAGTTGATTTTTG-AAAATAT-AA-TGAAAAAACAG
*
33144590 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG-TGACTTT--
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTAA
*** ** * * * *
33144652 --TTTTTTTTGACA-AACAGTAATTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACTTCTC
65 AAACATAATT-A-AGAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
* *
33144713 GCAATATGAGTTGAATTTTAAAAA
128 GCAATATGAGTTGATTTTTGAAAA
33144737 CAGAAAAAAC
Statistics
Matches: 416, Mismatches: 50, Indels: 47
0.81 0.10 0.09
Matches are distributed among these distances:
155 31 0.07
157 24 0.06
162 1 0.00
163 1 0.00
164 4 0.01
165 40 0.10
166 33 0.08
167 57 0.14
168 3 0.01
169 4 0.01
170 65 0.16
171 2 0.00
172 75 0.18
173 11 0.03
174 4 0.01
175 6 0.01
176 55 0.13
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (167 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAA
AACATAATTAAGAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTGAAAATATAATGAAAAAACAG
Found at i:33144616 original size:259 final size:245
Alignment explanation
Indices: 33144087--33144745 Score: 771
Period size: 259 Copynumber: 2.6 Consensus size: 245
33144077 AAAAAGCAAA
* * *
33144087 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGA---T
1 AAATCGAAAATACCTCAACGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAG-TGACTTT
* ** * *
33144149 TTTT-TT-GAAAGACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCA
63 TTTTATTGGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCA
* * *
33144212 ATATGAGTTGACTTTTTTAAAAA-A-AAAAAAAGGAATTGAAATTACCTCAGCGTGTCCCGAGGC
128 ATATGAGTTGA---TTTTAAAAACAGAAAAAAAGAAATTAAAAATACCTCAGCGTGTCCCGAGGC
* * *
33144275 TCAACTCACCTCTAGTAATATGAATTGATTTTTGAAAAACATAAATTGAAAAACGG
190 TCAACTCACCTCTAGCAATATGAATTGATTTTTGAAAAACATAAACTGAAAAACAG
*
33144331 AAATCGAAAATACCTCAACGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGAGTTGA-TTTTT
1 AAATCGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG-TGACTTTTT
33144395 GAAAAATATAGATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAC
65 ------T-T--ATTGG-AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAC
* *
33144460 CTCTCGCAATATGAGTTGA-TTTAAAAACAGTCATTAAGAACAGAAATTAAAAATACCTCAGCGT
120 TTCTCGCAATATGAGTTGATTTTAAAAACAG--A--AA-AAAAGAAATTAAAAATACCTCAGCGT
* * * *
33144524 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGCAAAATATAAACTGAAAAACA
180 GTCCCGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGAAAAACATAAACTGAAAAACA
*
33144589 T
245 G
* * *
33144590 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTGACTTTTTT
1 AAATCGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTGACTTTTTT
* * * * *
33144655 TTTTTGACAAACAGTAATTGAAAATACCTCAGCGTG-CCCGAGGCTCAACTCACTTCTCGCAATA
66 TATTGGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATA
33144719 TGAGTTGAATTTTAAAAACAGAAAAAA
131 TGAGTTG-ATTTTAAAAACAGAAAAAA
33144746 CATCAAAATA
Statistics
Matches: 358, Mismatches: 33, Indels: 47
0.82 0.08 0.11
Matches are distributed among these distances:
242 34 0.09
244 24 0.07
245 2 0.01
246 2 0.01
248 34 0.09
249 29 0.08
250 15 0.04
251 1 0.00
252 9 0.03
253 2 0.01
254 2 0.01
255 1 0.00
256 62 0.17
258 5 0.01
259 136 0.38
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (245 bp):
AAATCGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTGACTTTTTT
TATTGGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATA
TGAGTTGATTTTAAAAACAGAAAAAAAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACT
CACCTCTAGCAATATGAATTGATTTTTGAAAAACATAAACTGAAAAACAG
Found at i:33156458 original size:16 final size:16
Alignment explanation
Indices: 33156437--33156479 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
33156427 CATAAAAATA
33156437 CATAT-ATATATATATG
1 CATATAATA-ATATATG
33156453 CATATAATAATATATG
1 CATATAATAATATATG
*
33156469 TA-ATAATAATA
1 CATATAATAATA
33156480 ATAATAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 9 0.36
16 13 0.52
17 3 0.12
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.40
Consensus pattern (16 bp):
CATATAATAATATATG
Found at i:33156472 original size:12 final size:13
Alignment explanation
Indices: 33156399--33156488 Score: 67
Period size: 12 Copynumber: 6.6 Consensus size: 13
33156389 ATATATTTGG
33156399 TAATAATAATATA
1 TAATAATAATATA
* *
33156412 AAATAATAATATG
1 TAATAATAATATA
* *
33156425 TACATAAAAATACA
1 TA-ATAATAATATA
33156439 TATATATATATATGCATA
1 TA-ATA-ATA-AT--ATA
*
33156457 TAATAAT-ATATG
1 TAATAATAATATA
33156469 TAATAATAATA-A
1 TAATAATAATATA
33156481 TAATAATA
1 TAATAATA
33156489 TCTACAATAA
Statistics
Matches: 60, Mismatches: 11, Indels: 13
0.71 0.13 0.15
Matches are distributed among these distances:
12 17 0.28
13 15 0.25
14 15 0.25
15 2 0.03
16 4 0.07
17 3 0.05
18 4 0.07
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (13 bp):
TAATAATAATATA
Found at i:33156582 original size:17 final size:17
Alignment explanation
Indices: 33156560--33156620 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
33156550 ACAATAATAT
33156560 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
33156577 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
33156594 ATAATATAGT-TA--TA-
1 AAAATATA-TATATGTAC
33156608 AAAATATATATAT
1 AAAATATATATAT
33156621 TAAATTCGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 9 0.24
15 2 0.05
17 23 0.61
18 3 0.08
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:33157714 original size:30 final size:30
Alignment explanation
Indices: 33157629--33157715 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
33157619 TGTAATTTTT
* * *
33157629 AGAAAATTT-AGGGTTAAAATGCAATTTAA
1 AGAAAGTTTAAGGGTCAAAATGAAATTTAA
* * * *
33157658 GGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAGTTTAAGGGTCAAAATGAAATTTAA
*
33157688 AGAAAGTTTAAGGGTCAAAATTAAATTT
1 AGAAAGTTTAAGGGTCAAAATGAAATTT
33157716 GGGAAAAGTT
Statistics
Matches: 45, Mismatches: 12, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
29 7 0.16
30 38 0.84
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (30 bp):
AGAAAGTTTAAGGGTCAAAATGAAATTTAA
Found at i:33157881 original size:16 final size:16
Alignment explanation
Indices: 33157852--33157898 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
33157842 GCAGCCAAAC
* *
33157852 TTTCGGCCTTTCGGTA
1 TTTCGGCTTTTCGGCA
*
33157868 TTTTGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
33157884 TTTCGGCTTTTCGGC
1 TTTCGGCTTTTCGGC
33157899 TTTTTCCGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.04, C:0.23, G:0.26, T:0.47
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:33157882 original size:24 final size:24
Alignment explanation
Indices: 33157852--33157902 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
33157842 GCAGCCAAAC
* *
33157852 TTTCGGCCTTTCGG-TATTTTGGCT
1 TTTCGGCATTTCGGCT-TTTCGGCT
33157876 TTTCGGCATTTCGGCTTTTCGGCT
1 TTTCGGCATTTCGGCTTTTCGGCT
33157900 TTT
1 TTT
33157903 TCCGATCTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.04, C:0.22, G:0.24, T:0.51
Consensus pattern (24 bp):
TTTCGGCATTTCGGCTTTTCGGCT
Found at i:33157899 original size:8 final size:8
Alignment explanation
Indices: 33157852--33157902 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
33157842 GCAGCCAAAC
*
33157852 TTTCGGCC
1 TTTCGGCT
33157860 TTTCGG-T
1 TTTCGGCT
*
33157867 ATTTTGGCT
1 -TTTCGGCT
*
33157876 TTTCGGCA
1 TTTCGGCT
33157884 TTTCGGCT
1 TTTCGGCT
33157892 TTTCGGCT
1 TTTCGGCT
33157900 TTT
1 TTT
33157903 TCCGATCTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
8 35 0.97
9 1 0.03
ACGTcount: A:0.04, C:0.22, G:0.24, T:0.51
Consensus pattern (8 bp):
TTTCGGCT
Found at i:33160237 original size:14 final size:14
Alignment explanation
Indices: 33160218--33160244 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33160208 TTTTTTAACA
33160218 TATATTTATATATG
1 TATATTTATATATG
33160232 TATATTTATATAT
1 TATATTTATATAT
33160245 ATGTTTATAT
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:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
TATATTTATATATG
Found at i:33160257 original size:6 final size:6
Alignment explanation
Indices: 33160218--33160262 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
33160208 TTTTTTAACA
* *
33160218 TATATT TATATAT GTATATT TATATA TATGTT TATATT TATATT T
1 TATATT TATAT-T -TATATT TATATT TATATT TATATT TATATT T
33160263 CTTTTGGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 26 0.79
7 2 0.06
8 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (6 bp):
TATATT
Found at i:33162995 original size:2 final size:2
Alignment explanation
Indices: 33162925--33162984 Score: 95
Period size: 2 Copynumber: 30.0 Consensus size: 2
33162915 CAAATAGCTT
33162925 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
33162967 TA TT TA CTA TA TA -A TA TA
1 TA TA TA -TA TA TA TA TA TA
33162985 ATAAGTATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
1 1 0.02
2 51 0.94
3 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33164124 original size:18 final size:18
Alignment explanation
Indices: 33164093--33164132 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
33164083 TCATATTTGA
*
33164093 TTTT-TTTAAGATTAATT
1 TTTTATTTAAAATTAATT
33164110 TTTTATTTAAAATTAATT
1 TTTTATTTAAAATTAATT
33164128 TTTTA
1 TTTTA
33164133 ATAATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTTATTTAAAATTAATT
Found at i:33164271 original size:39 final size:41
Alignment explanation
Indices: 33164198--33164287 Score: 121
Period size: 39 Copynumber: 2.2 Consensus size: 41
33164188 TTAAAAATAT
* *
33164198 TTATATTAAAAAATACTACCATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
**
33164239 TTATATTAAAAAACAC-A-AATAAATATTGTAAATATTTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
*
33164278 TTGTATTAAA
1 TTATATTAAA
33164288 TATAAATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 28 0.64
40 1 0.02
41 15 0.34
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (41 bp):
TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
Found at i:33164439 original size:29 final size:30
Alignment explanation
Indices: 33164395--33164454 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
33164385 TTTAATATAA
33164395 ATATAAATATATATAATTATTATT-TAACAT
1 ATATAAATATATATAA-TATTATTATAACAT
* *
33164425 ATATAATTA-ATATAATATTTTTATAACAT
1 ATATAAATATATATAATATTATTATAACAT
33164454 A
1 A
33164455 ATATTTGGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 6 0.22
29 13 0.48
30 8 0.30
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (30 bp):
ATATAAATATATATAATATTATTATAACAT
Found at i:33171789 original size:18 final size:17
Alignment explanation
Indices: 33171751--33171793 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
33171741 AGATGGATTT
*
33171751 ACTAAA-TGTTTTTAGT
1 ACTAAATTGTTTTTAGG
33171767 A-TAAATTGATTTTTAGG
1 ACTAAATTG-TTTTTAGG
33171784 ACTAAATTGT
1 ACTAAATTGT
33171794 GAAAAAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 4 0.17
16 3 0.13
17 9 0.39
18 7 0.30
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (17 bp):
ACTAAATTGTTTTTAGG
Found at i:33175538 original size:23 final size:23
Alignment explanation
Indices: 33175512--33175556 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
33175502 TGGGTATGTG
33175512 ATGAAGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
33175535 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
33175557 TTGAATTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:33183270 original size:23 final size:23
Alignment explanation
Indices: 33183244--33183288 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
33183234 TGGGTATGTG
*
33183244 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
33183267 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
33183289 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:33186738 original size:69 final size:70
Alignment explanation
Indices: 33186607--33186738 Score: 212
Period size: 69 Copynumber: 1.9 Consensus size: 70
33186597 AGTTTATTAC
* * * * *
33186607 TAATTAATTTGCTGTTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTAC
1 TAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTAC
33186672 TTAGT
66 TTAGT
33186677 TAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
1 TAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
33186739 GTTATGTGCT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
69 36 0.63
70 21 0.37
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (70 bp):
TAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTAC
TTAGT
Found at i:33187564 original size:39 final size:39
Alignment explanation
Indices: 33187495--33187641 Score: 170
Period size: 39 Copynumber: 3.7 Consensus size: 39
33187485 ATATTTGATG
* * *
33187495 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
1 TATATCCGGACTT-AAGATCCGCAGGCTTCGTGCTGGAAC
* *
33187535 TGTATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGTAC
1 TATATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAAC
* ** *
33187574 TATATCCGGACTTAAGGTCCGCAGGCTTCGTATTGGTAC
1 TATATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAAC
*
33187613 TATATCCGGGCTTAA-AGTCCCGCAGGCTT
1 TATATCCGGACTTAAGA-T-CCGCAGGCTT
33187642 TGTGTTGGTG
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 73 0.78
40 21 0.22
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAGATCCGCAGGCTTCGTGCTGGAAC
Found at i:33190325 original size:26 final size:26
Alignment explanation
Indices: 33190295--33190344 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
33190285 CGGGGCATTC
33190295 TATGTGTAC-GTTT-ATCTTCAGAAGTA
1 TATGTG-ACGGTTTAAT-TTCAGAAGTA
33190321 TATGTGACGGTTTAATTTCAGAAG
1 TATGTGACGGTTTAATTTCAGAAG
33190345 GAATTTTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 2 0.09
26 18 0.82
27 2 0.09
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (26 bp):
TATGTGACGGTTTAATTTCAGAAGTA
Found at i:33203030 original size:16 final size:16
Alignment explanation
Indices: 33203009--33203039 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
33202999 ATAAAAGTCT
33203009 GAAAATATCTGATGAG
1 GAAAATATCTGATGAG
33203025 GAAAATATCTGATGA
1 GAAAATATCTGATGA
33203040 CATAGAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.26
Consensus pattern (16 bp):
GAAAATATCTGATGAG
Found at i:33204780 original size:29 final size:29
Alignment explanation
Indices: 33204730--33204836 Score: 153
Period size: 29 Copynumber: 3.7 Consensus size: 29
33204720 ATGAGATCGT
*
33204730 ACACTTAGTGCTCGATAGTTTTACTTCGC
1 ACACTTAGTGCTCGATAATTTTACTTCGC
* *
33204759 ACACTTAGTGCTCAATAATTTTACTCCGC
1 ACACTTAGTGCTCGATAATTTTACTTCGC
* *
33204788 ACACTTAGTGCTCGTTAATCTTT-CTTCTC
1 ACACTTAGTGCTCGATAAT-TTTACTTCGC
33204817 ACACTTAGTGCTCGATAATT
1 ACACTTAGTGCTCGATAATT
33204837 CATATATATA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
28 1 0.01
29 65 0.94
30 3 0.04
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.38
Consensus pattern (29 bp):
ACACTTAGTGCTCGATAATTTTACTTCGC
Found at i:33212484 original size:29 final size:29
Alignment explanation
Indices: 33212442--33212522 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
33212432 TGCAATGAGA
*
33212442 TCGCACACTTAGTGCTCGATAGT-TTTACT
1 TCGCACACTTAGTGCTCGATAATCTTT-CT
*
33212471 TCGCACACTTAGTGCTCGTTAATCTTTCT
1 TCGCACACTTAGTGCTCGATAATCTTTCT
33212500 TCGCACACTTAGTGCTCGATAAT
1 TCGCACACTTAGTGCTCGATAAT
33212523 TCACATATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
29 45 0.94
30 3 0.06
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (29 bp):
TCGCACACTTAGTGCTCGATAATCTTTCT
Found at i:33219432 original size:12 final size:12
Alignment explanation
Indices: 33219417--33219441 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33219407 TTTTAATTTA
33219417 ATTAAATAAAAT
1 ATTAAATAAAAT
33219429 ATTAAATAAAAT
1 ATTAAATAAAAT
33219441 A
1 A
33219442 GGTTCAATTA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTAAATAAAAT
Found at i:33224930 original size:12 final size:12
Alignment explanation
Indices: 33224913--33224945 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
33224903 CCAGCCCACC
33224913 ATATTAATTTTT
1 ATATTAATTTTT
*
33224925 ATATTATTTTTT
1 ATATTAATTTTT
33224937 ATA-TAATTT
1 ATATTAATTT
33224946 AAAATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:33225105 original size:30 final size:30
Alignment explanation
Indices: 33225069--33225131 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
33225059 ACTTAACAAT
*
33225069 CAAATGTATCTAAAATGATAACAAAATTAA
1 CAAATGTATCTAAAATAATAACAAAATTAA
* *
33225099 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTATCTAAAATAATAACAAAATTAA
33225129 CAA
1 CAA
33225132 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATGTATCTAAAATAATAACAAAATTAA
Found at i:33226708 original size:36 final size:35
Alignment explanation
Indices: 33226639--33226708 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
33226629 TATTTATTTT
*
33226639 TATTTTTTAAATAATTTCATTATTAATTTTAATTA
1 TATTTTTTAAATAATTTCATAATTAATTTTAATTA
* *
33226674 TATTTTTTATATAATATTTATAATT-ATTTATAATT
1 TATTTTTTAAATAAT-TTCATAATTAATTT-TAATT
33226709 CCTTTTCAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 18 0.60
36 12 0.40
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (35 bp):
TATTTTTTAAATAATTTCATAATTAATTTTAATTA
Found at i:33233919 original size:22 final size:22
Alignment explanation
Indices: 33233877--33233921 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
33233867 TTATTTTTGA
*
33233877 AATATGATGTGTTATACATATT
1 AATATGATGTGTAATACATATT
*
33233899 AATAT-ATGTGTAATGCTATATT
1 AATATGATGTGTAATAC-ATATT
33233921 A
1 A
33233922 GCTTGTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (22 bp):
AATATGATGTGTAATACATATT
Found at i:33237612 original size:4 final size:4
Alignment explanation
Indices: 33237603--33237675 Score: 56
Period size: 4 Copynumber: 16.2 Consensus size: 4
33237593 GTAAATGAAT
*
33237603 AAAG AAAG AAAG AAACA AAATG AAACAG AAATG AAAG AAAG AAAAG AAAG
1 AAAG AAAG AAAG AAA-G AAA-G -AA-AG AAA-G AAAG AAAG -AAAG AAAG
*
33237653 AAAG AAAA AAGAG AAAG ACAAG A
1 AAAG AAAG AA-AG AAAG A-AAG A
33237676 CTAGGGTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
4 33 0.58
5 20 0.35
6 3 0.05
7 1 0.02
ACGTcount: A:0.73, C:0.04, G:0.21, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:33237625 original size:25 final size:24
Alignment explanation
Indices: 33237595--33237659 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 24
33237585 ACAAATAAGT
33237595 AAATGAATAAAGAAAGAAAGAAACA
1 AAATGAA-AAAGAAAGAAAGAAACA
* *
33237620 AAATGAAACAGAAATGAAAGAAAGA
1 AAATGAAAAAGAAA-GAAAGAAACA
33237645 AAA-G--AAAGAAAGAAA
1 AAATGAAAAAGAAAGAAA
33237660 AAAGAGAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 4 0.11
22 6 0.17
24 7 0.19
25 19 0.53
ACGTcount: A:0.72, C:0.03, G:0.18, T:0.06
Consensus pattern (24 bp):
AAATGAAAAAGAAAGAAAGAAACA
Found at i:33237648 original size:9 final size:9
Alignment explanation
Indices: 33237603--33237675 Score: 57
Period size: 9 Copynumber: 8.1 Consensus size: 9
33237593 GTAAATGAAT
33237603 AAAG-AAAG
1 AAAGAAAAG
33237611 AAAGAAACA-
1 AAAGAAA-AG
33237620 AAATGAAACAG
1 AAA-GAAA-AG
33237631 AAATG-AAAG
1 AAA-GAAAAG
33237640 AAAGAAAAG
1 AAAGAAAAG
33237649 AAAG-AAAG
1 AAAGAAAAG
33237657 AAA-AAAGAG
1 AAAGAAA-AG
*
33237666 AAAGACAAG
1 AAAGAAAAG
33237675 A
1 A
33237676 CTAGGGTTTT
Statistics
Matches: 56, Mismatches: 1, Indels: 15
0.78 0.01 0.21
Matches are distributed among these distances:
8 14 0.25
9 26 0.46
10 11 0.20
11 5 0.09
ACGTcount: A:0.73, C:0.04, G:0.21, T:0.03
Consensus pattern (9 bp):
AAAGAAAAG
Found at i:33237651 original size:13 final size:13
Alignment explanation
Indices: 33237603--33237675 Score: 69
Period size: 13 Copynumber: 5.4 Consensus size: 13
33237593 GTAAATGAAT
33237603 AAAGAAAGAAAGA
1 AAAGAAAGAAAGA
33237616 AACA-AAATGAAACAGA
1 AA-AGAAA-G-AA-AGA
*
33237632 AATGAAAGAAAGA
1 AAAGAAAGAAAGA
33237645 AAAGAAAGAAAGA
1 AAAGAAAGAAAGA
33237658 AAA-AAGAGAAAGA
1 AAAGAA-AGAAAGA
*
33237671 CAAGA
1 AAAGA
33237676 CTAGGGTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
12 2 0.04
13 32 0.64
14 5 0.10
15 3 0.06
16 8 0.16
ACGTcount: A:0.73, C:0.04, G:0.21, T:0.03
Consensus pattern (13 bp):
AAAGAAAGAAAGA
Found at i:33238402 original size:2 final size:2
Alignment explanation
Indices: 33238359--33238391 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
33238349 GGATTGAATT
*
33238359 TA TA TA TA TA GA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33238392 TATGAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:33238652 original size:41 final size:40
Alignment explanation
Indices: 33238604--33238699 Score: 138
Period size: 41 Copynumber: 2.4 Consensus size: 40
33238594 GGTTTAACCG
* * *
33238604 ATGAGACACTAGGTGTCAATTTACTACTTCGGATTTATTCA
1 ATGAGACACTAGGTGTCAATTTACTACTTC-AAATTATCCA
*
33238645 ATGAGACACTGGGTGTCAATTTACTACTTCAAATTATCCA
1 ATGAGACACTAGGTGTCAATTTACTACTTCAAATTATCCA
*
33238685 ATGAGGCACTAGGTG
1 ATGAGACACTAGGTG
33238700 CCAAACTGGT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
40 20 0.41
41 29 0.59
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (40 bp):
ATGAGACACTAGGTGTCAATTTACTACTTCAAATTATCCA
Found at i:33247240 original size:30 final size:29
Alignment explanation
Indices: 33247141--33247240 Score: 78
Period size: 30 Copynumber: 3.3 Consensus size: 29
33247131 CATTAAAACG
*
33247141 TTTGAAAATTCTCATTAATCTCATAAAA-A
1 TTTGAAAATTCTCATTAAACTC-TAAAATA
* * * *
33247170 CTTT-AAAATTTTCAATTAGACTCTCAAATTT
1 -TTTGAAAATTCTC-ATTAAACTCT-AAAATA
**
33247201 TTTTTAAATTCTCATTAAACTTCTAAAATA
1 TTTGAAAATTCTCATTAAAC-TCTAAAATA
33247231 TTTGAAAATT
1 TTTGAAAATT
33247241 TTACTAAACC
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
29 9 0.17
30 34 0.64
31 10 0.19
ACGTcount: A:0.40, C:0.13, G:0.03, T:0.44
Consensus pattern (29 bp):
TTTGAAAATTCTCATTAAACTCTAAAATA
Found at i:33250591 original size:20 final size:20
Alignment explanation
Indices: 33250563--33250601 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
33250553 ATAAAATTTA
33250563 TTTAGAATATATAAACTATAT
1 TTTAGAATATATAAA-TATAT
*
33250584 TTTA-AATATTTAAATATA
1 TTTAGAATATATAAATATA
33250602 ACCATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (20 bp):
TTTAGAATATATAAATATAT
Found at i:33271019 original size:21 final size:20
Alignment explanation
Indices: 33270995--33271040 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
33270985 AATATGATAA
* *
33270995 TTTATGTATATTTTATATTTT
1 TTTAAGTAT-TTTTATAATTT
*
33271016 TTTAAGTATTTTTCTAATTT
1 TTTAAGTATTTTTATAATTT
33271036 TTTAA
1 TTTAA
33271041 TTTTTTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTAAGTATTTTTATAATTT
Found at i:33271844 original size:13 final size:13
Alignment explanation
Indices: 33271810--33271861 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
33271800 TTCTTATTTT
33271810 AAATATTAAA-AA
1 AAATATTAAATAA
33271822 CTAAAT-TTAAATAA
1 --AAATATTAAATAA
**
33271836 AAATATTAAATTT
1 AAATATTAAATAA
33271849 AAATATTAAATAA
1 AAATATTAAATAA
33271862 TATATTAACC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
12 4 0.12
13 22 0.69
14 6 0.19
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (13 bp):
AAATATTAAATAA
Found at i:33271857 original size:7 final size:7
Alignment explanation
Indices: 33271808--33271860 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
33271798 TATTCTTATT
33271808 TTAAATA
1 TTAAATA
*
33271815 TTAAAAA
1 TTAAATA
*
33271822 CTAAAT-
1 TTAAATA
33271828 TTAAATA
1 TTAAATA
*
33271835 -AAAATA
1 TTAAATA
33271841 TTAAAT-
1 TTAAATA
33271847 TTAAATA
1 TTAAATA
33271854 TTAAATA
1 TTAAATA
33271861 ATATATTAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
6 16 0.43
7 21 0.57
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (7 bp):
TTAAATA
Found at i:33271869 original size:19 final size:20
Alignment explanation
Indices: 33271807--33271863 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
33271797 ATATTCTTAT
33271807 TTTAAATATTAAA-AACTAAA
1 TTTAAATATTAAATAA-TAAA
* *
33271827 TTTAAATA-AAAATATTAAA
1 TTTAAATATTAAATAATAAA
33271846 TTTAAATATTAAATAATA
1 TTTAAATATTAAATAATA
33271864 TATTAACCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
TTTAAATATTAAATAATAAA
Found at i:33271875 original size:25 final size:25
Alignment explanation
Indices: 33271810--33271876 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 25
33271800 TTCTTATTTT
33271810 AAATATTAAAAAC-TAAATTTAAATAA
1 AAATATT--AAACTTAAATTTAAATAA
*
33271836 AAATATTAAATTTAAATATTAAAT-A
1 AAATATTAAACTTAAAT-TTAAATAA
* *
33271861 ATATATTAACCTTAAA
1 AAATATTAAACTTAAA
33271877 ATAACTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 3 0.09
25 19 0.54
26 13 0.37
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (25 bp):
AAATATTAAACTTAAATTTAAATAA
Found at i:33275238 original size:3 final size:3
Alignment explanation
Indices: 33275111--33275219 Score: 87
Period size: 3 Copynumber: 36.3 Consensus size: 3
33275101 TCTCAACCTC
* * * * * * * *
33275111 TAT TAT T-T TAT TAC TAT CAG TAT TAT TTT TAC TAT TAC GAT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
33275158 CTAT AAT TAT TAT TTT TACC T-T TAT TAT TAT TAT TAT TAT TAT TAT
1 -TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
33275204 TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
33275220 TCTGTTATAG
Statistics
Matches: 80, Mismatches: 22, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
2 3 0.04
3 74 0.93
4 3 0.04
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:33276487 original size:30 final size:30
Alignment explanation
Indices: 33276451--33276508 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
33276441 GGAAAATAAG
33276451 AGAGTCAAGCCGTAAAATTGATTATTTTTT
1 AGAGTCAAGCCGTAAAATTGATTATTTTTT
33276481 AGAGTCAAGCCGTAAAATTGATTATTTT
1 AGAGTCAAGCCGTAAAATTGATTATTTT
33276509 CTATCCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.38
Consensus pattern (30 bp):
AGAGTCAAGCCGTAAAATTGATTATTTTTT
Found at i:33282258 original size:64 final size:64
Alignment explanation
Indices: 33282157--33282283 Score: 227
Period size: 64 Copynumber: 2.0 Consensus size: 64
33282147 AGTAACGAGC
* * *
33282157 CGTACATCGAGAATGATGATGAAGTAATTGAGTGTTCCTTTCGGTCATTGGAATTTGTCAATGT
1 CGTACATCGAGAATGATGATGAAGCAATTGAGTGTTCCTTTCGGTAATTAGAATTTGTCAATGT
33282221 CGTACATCGAGAATGATGATGAAGCAATTGAGTGTTCCTTTCGGTAATTAGAATTTGTCAATG
1 CGTACATCGAGAATGATGATGAAGCAATTGAGTGTTCCTTTCGGTAATTAGAATTTGTCAATG
33282284 CGACTTTCAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (64 bp):
CGTACATCGAGAATGATGATGAAGCAATTGAGTGTTCCTTTCGGTAATTAGAATTTGTCAATGT
Found at i:33287617 original size:19 final size:20
Alignment explanation
Indices: 33287592--33287636 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
33287582 GATTTATAAT
33287592 GATATTTATCATATTA-ATC
1 GATATTTATCATATTATATC
* * *
33287611 TATATTTTTCATGTTATATC
1 GATATTTATCATATTATATC
33287631 GATATT
1 GATATT
33287637 GATAATCACA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (20 bp):
GATATTTATCATATTATATC
Found at i:33296732 original size:64 final size:64
Alignment explanation
Indices: 33296626--33296752 Score: 173
Period size: 64 Copynumber: 2.0 Consensus size: 64
33296616 CATTCGTAGT
* * * * * *
33296626 ACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCATC
1 ACATCTAGCTAGGAGCATTTGACTCATTTCGATCATAACATCCTAAATACTTGACATAAGCATC
* * *
33296690 ACATCTAGCTAGGAGCGTTTTACTCATTTCGATCATAACATCCTAAATACTTGGCATAAGCAT
1 ACATCTAGCTAGGAGCATTTGACTCATTTCGATCATAACATCCTAAATACTTGACATAAGCAT
33296753 AGATACATGA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (64 bp):
ACATCTAGCTAGGAGCATTTGACTCATTTCGATCATAACATCCTAAATACTTGACATAAGCATC
Found at i:33297323 original size:178 final size:178
Alignment explanation
Indices: 33296857--33297884 Score: 1560
Period size: 178 Copynumber: 5.8 Consensus size: 178
33296847 AACAAGCTGT
* * * * *
33296857 AAATTAT-GAATCTTATCTCCATGTATCAGCTATGGAGTAGATCAGAAATAGTGAGTCTTATCTC
1 AAATTATAG-ATCTTATCTCCATGTATCGGCTATGGAGCAGATAAGAAATGGCGAGTCTTATCTC
* * * * *
33296921 CGTGTATCGGGTATGAAGCGGATTTTAGCCACCAGCCTTATCTCTTTGAGGTAGCAAGAGAGCAG
65 CATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAG
* *
33296986 GTTGAAGATACGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTAC
130 GTTGAAGATACGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGC
* * *
33297035 AAATTATAGAT-TT-TCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGTGAGTCTTATCTCT
1 AAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAGAAATGGCGAGTCTTATCTCC
* * * *
33297098 ATGTATCGACTATGGAGCAGATTTTAGCTACCAGTCTTATCTCTCTGAGGTAGCAAGAGAGTAGG
66 ATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGG
* *
33297163 TTGAAGATACGAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTAC
131 TTGAAGATACGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGC
*
33297211 AAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAGAAATGGCGAGTCTTATCTTC
1 AAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAGAAATGGCGAGTCTTATCTCC
* * * * * *
33297276 ATGTATCAGCTGTGGAGTAGATTTTAGCCACCATCCTTATCTCTCTGAGGCAGCAAAAGAGCAGG
66 ATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGG
* * *
33297341 TTGAAGATACGAGTCTTATCCTCCTGAGGTAGCAAGGAAGCATAATGC
131 TTGAAGATACGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGC
* *
33297389 AAATTATAGATCTTATCTCCATGTATTGTCTATGGAGCAGATCAA-AAATGGCGAGTCTTATCTC
1 AAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT-AAGAAATGGCGAGTCTTATCTC
* *
33297453 CATGTATCGGCTATGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAG
65 CATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAG
*
33297518 GTTGAAGATACGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCATACTGC
130 GTTGAAGATACGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGC
* * * *
33297567 AAATTATAGATCTTATCTCCATGTATTGGCTATGGAGTAGATAAAAAATGGCAAGTCTTATCTCC
1 AAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAGAAATGGCGAGTCTTATCTCC
*
33297632 ATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGG
66 ATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGG
33297697 TTGAAGATACGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGC
131 TTGAAGATACGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGC
* * *
33297745 AAATTATAGATCTTATCTCCATGTATCGGCTATGGAGTAGATCAGAAATGGCGAGTCTTATCTCT
1 AAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAGAAATGGCGAGTCTTATCTCC
* * * * * *
33297810 ACGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTCAGATAGTAGGAGAGCAAG
66 ATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGG
33297875 TTGAAGATAC
131 TTGAAGATAC
33297885 AAGCTTTAAC
Statistics
Matches: 784, Mismatches: 61, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
176 159 0.20
177 6 0.01
178 616 0.79
179 3 0.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (178 bp):
AAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAGAAATGGCGAGTCTTATCTCC
ATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGG
TTGAAGATACGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGC
Found at i:33299580 original size:3 final size:3
Alignment explanation
Indices: 33299520--33299654 Score: 80
Period size: 3 Copynumber: 45.3 Consensus size: 3
33299510 TCTCAACCTC
* * * * * * * *
33299520 TAT TAT T-T TAT TAC TAT CAG TAT TAT TTT TAC TAT TAC GAT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
33299567 CTAT AAT TAT TAT TTT TACC T-T TAT TAT TAT TAT TAT TAT TAT TAT
1 -TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
33299613 TAT TAT TAT T-T CTGT TA- TAG TAT TAT TAT CAT CAT TAT TAT T
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
33299655 TTTGCTATTT
Statistics
Matches: 99, Mismatches: 26, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
2 6 0.06
3 89 0.90
4 4 0.04
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:33300265 original size:126 final size:126
Alignment explanation
Indices: 33300036--33300355 Score: 306
Period size: 126 Copynumber: 2.5 Consensus size: 126
33300026 TAAAAAAAGC
* *
33300036 TAAAACGAGGCAATATTTCGTGTTTGGGGAGTTTGAGAGACCATGCCCAATCGTGCTGGGTTTCG
1 TAAAACGAGGCAATATTTCGTGTTTGGGGAGTTTGAGAGACCATGCCCAATCGTGCTGGCTTTCA
* * * * *
33300101 ATTTCTCAATCGACTAGAATACAAAATATCATTGTGAAATTTCGTCTATGTTTTCTTAAAT
66 ATTTCTCAATCGACTAAAATACAAAATATCATTGTGAAATTTCATCCATGTGTTCTCAAAT
* * * ** *
33300162 TAAAACGAGGTAATATCTT-GTGTTTGGGGGGTTTGGGAGGTCGTGCCCAATCGTGCTAGGCTTT
1 TAAAACGAGGCAATAT-TTCGTGTTTGGGGAGTTTGAGAGACCATGCCCAATCGTGCT-GGCTTT
* * * * *
33300226 -AATTT-TCTATTCGACTAAAATCCAGAATATCCTTTTGAAATTTCATCCATGTGTTCTCAAAT
64 CAATTTCTC-AATCGACTAAAATACAAAATATCATTGTGAAATTTCATCCATGTGTTCTCAAAT
** * * * * * * * * * * *
33300288 TAAAATTAGGCAATGTTTTGTATTT-GGAAATTCGACAAATCGTGCCCAATCGTGCTGGGTTTCA
1 TAAAACGAGGCAATATTTCGTGTTTGGGGAGTTTGAGAGACCATGCCCAATCGTGCTGGCTTTCA
33300352 ATTT
66 ATTT
33300356 ACCGTTTGGA
Statistics
Matches: 157, Mismatches: 32, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
124 5 0.03
125 32 0.20
126 113 0.72
127 7 0.04
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (126 bp):
TAAAACGAGGCAATATTTCGTGTTTGGGGAGTTTGAGAGACCATGCCCAATCGTGCTGGCTTTCA
ATTTCTCAATCGACTAAAATACAAAATATCATTGTGAAATTTCATCCATGTGTTCTCAAAT
Found at i:33302592 original size:46 final size:48
Alignment explanation
Indices: 33302379--33302631 Score: 180
Period size: 49 Copynumber: 5.3 Consensus size: 48
33302369 AGATGTCGAC
* * ** * *
33302379 GCCATG-CCTAGACATGGTCTTACACTGGCTAGCA-CATCAAAGTCGAT
1 GCCATGTCCCAGACAT-GTCTTACATTGGCTCTCATCATCAATGCCGAT
* * * * * * * *
33302426 GCCATGTCTCAGAAAGGTCTTACACTGACTTTCAT-ATATAGAGGCCGAT
1 GCCATGTCCCAGACATGTCTTACATTGGCTCTCATCAT-CA-ATGCCGAT
* * * *
33302475 GCCATATCCCAGACAAGTCTTACATTGGCTCTCATCTATCAGTGTCGAT
1 GCCATGTCCCAGACATGTCTTACATTGGCTCTCATC-ATCAATGCCGAT
* * *
33302524 GCCATGTTCCAGACATGTCTTACATTAGCTCTCGTC-TCAATGCCGAT
1 GCCATGTCCCAGACATGTCTTACATTGGCTCTCATCATCAATGCCGAT
* * * *
33302571 G-CATGTCCCAAACATGTCTTACACTGGCTCTCATAAT--GTGGCCGAT
1 GCCATGTCCCAGACATGTCTTACATTGGCTCTCATCATCAAT-GCCGAT
33302617 G-CATGTCCCAGACAT
1 GCCATGTCCCAGACAT
33302632 TTCCTATACT
Statistics
Matches: 162, Mismatches: 36, Indels: 17
0.75 0.17 0.08
Matches are distributed among these distances:
45 1 0.01
46 48 0.30
47 34 0.21
48 6 0.04
49 70 0.43
50 1 0.01
51 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCATGTCCCAGACATGTCTTACATTGGCTCTCATCATCAATGCCGAT
Found at i:33303230 original size:20 final size:20
Alignment explanation
Indices: 33303205--33303243 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
33303195 AAAATTTCAA
33303205 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
33303225 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
33303244 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:33305824 original size:24 final size:24
Alignment explanation
Indices: 33305805--33305860 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
33305795 TCTTTCAGTT
*
33305805 AAACTTTGTTTATTTGTTTCAACC
1 AAACTCTGTTTATTTGTTTCAACC
*
33305829 AAACTCTGTTTATTTGTTTCAATC
1 AAACTCTGTTTATTTGTTTCAACC
33305853 AAACTCTG
1 AAACTCTG
33305861 ATTAGTCTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.27, C:0.18, G:0.09, T:0.46
Consensus pattern (24 bp):
AAACTCTGTTTATTTGTTTCAACC
Found at i:33308710 original size:23 final size:23
Alignment explanation
Indices: 33308668--33308711 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
33308658 ATTATTTTTT
*
33308668 TATATATATACCTATTTATCTAA
1 TATATATATACCTATGTATCTAA
**
33308691 TATATATATATGTATGTATCT
1 TATATATATACCTATGTATCT
33308712 TAGTTTATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (23 bp):
TATATATATACCTATGTATCTAA
Found at i:33311968 original size:5 final size:5
Alignment explanation
Indices: 33311958--33312006 Score: 89
Period size: 5 Copynumber: 9.8 Consensus size: 5
33311948 TTTTTTCTAT
*
33311958 TATTA TATTA TATTA TATCA TATTA TATTA TATTA TATTA TATTA TATT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATT
33312007 TACATTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:33313917 original size:2 final size:2
Alignment explanation
Indices: 33313910--33313950 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
33313900 ACTTGAATGC
33313910 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33313951 AAGTTACCAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:33317578 original size:82 final size:81
Alignment explanation
Indices: 33317455--33317613 Score: 198
Period size: 83 Copynumber: 2.0 Consensus size: 81
33317445 CAAACATTTG
* *
33317455 TTATCAATTAAAATTTTAACATTAAACATTTGAATATTAGAATGACACATGCTTAAA-TTAATAA
1 TTATCAATTAAAATTTTAACAATAAACATTTGAATATTAGAATGACACATACTTAAATTTAATAA
33317519 AAAATCATTAATGATA
66 AAAATCATTAATGATA
* * *
33317535 TTATCAATTTAAAACTTTTTAACACAT-AAC-TTTGAATATTAGAATGCCATATATTTAAATTTA
1 TTATCAA-TTAAAA--TTTTAACA-ATAAACATTTGAATATTAGAATGACACATACTTAAATTTA
* *
33317598 ATAGAAAATTATTAAT
62 ATAAAAAATCATTAAT
33317614 TTTATTGTCG
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
80 7 0.10
81 6 0.09
82 25 0.37
83 28 0.42
84 1 0.01
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.39
Consensus pattern (81 bp):
TTATCAATTAAAATTTTAACAATAAACATTTGAATATTAGAATGACACATACTTAAATTTAATAA
AAAATCATTAATGATA
Found at i:33319811 original size:31 final size:32
Alignment explanation
Indices: 33319776--33319844 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 32
33319766 TATAATTTGA
* *
33319776 TCATTGAATTATTCGAAAGTTTTCATTTAA-T
1 TCATTGAACTATTCAAAAGTTTTCATTTAAGT
*
33319807 TCATTGAACTATTCAAAAGTTTTTATTTAAGT
1 TCATTGAACTATTCAAAAGTTTTCATTTAAGT
33319839 T-ATTGA
1 TCATTGA
33319845 GTTTGGGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 32 0.94
32 2 0.06
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.48
Consensus pattern (32 bp):
TCATTGAACTATTCAAAAGTTTTCATTTAAGT
Found at i:33320751 original size:23 final size:25
Alignment explanation
Indices: 33320710--33320763 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 25
33320700 TACTTTCTTT
33320710 TATATGAAACATCAATTGGTACTA-A
1 TATATGAAACATCAATTGGTA-TATA
*
33320735 TATATGAAA-ATC-TTTGGTATATA
1 TATATGAAACATCAATTGGTATATA
33320758 TATATG
1 TATATG
33320764 TGAGGATTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 2 0.07
23 13 0.48
24 3 0.11
25 9 0.33
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (25 bp):
TATATGAAACATCAATTGGTATATA
Found at i:33327911 original size:50 final size:50
Alignment explanation
Indices: 33327841--33327942 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
33327831 TGATAGATTG
33327841 TTTTAGATTATCTTAAGCATTTAAGTGATATGTAAATTTATTATGGTTTT
1 TTTTAGATTATCTTAAGCATTTAAGTGATATGTAAATTTATTATGGTTTT
33327891 TTTTAGATTATCTTAAGCATTTAAGTGATATGTAAATTTATTATGGTTTT
1 TTTTAGATTATCTTAAGCATTTAAGTGATATGTAAATTTATTATGGTTTT
33327941 TT
1 TT
33327943 AAGTGATATG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.29, C:0.04, G:0.14, T:0.53
Consensus pattern (50 bp):
TTTTAGATTATCTTAAGCATTTAAGTGATATGTAAATTTATTATGGTTTT
Found at i:33327946 original size:30 final size:30
Alignment explanation
Indices: 33327910--33327971 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
33327900 ATCTTAAGCA
33327910 TTTAAGTGATATGTAAATTTATTATGGTTT
1 TTTAAGTGATATGTAAATTTATTATGGTTT
33327940 TTTAAGTGATATGTAAATTTATTATGGTTT
1 TTTAAGTGATATGTAAATTTATTATGGTTT
33327970 TT
1 TT
33327972 ACTGAATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (30 bp):
TTTAAGTGATATGTAAATTTATTATGGTTT
Found at i:33328366 original size:5 final size:5
Alignment explanation
Indices: 33328356--33328387 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
33328346 TTGTGTGTTC
33328356 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
33328388 TTCACAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:33328370 original size:9 final size:9
Alignment explanation
Indices: 33328356--33328386 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
33328346 TTGTGTGTTC
33328356 TTTATTTTA
1 TTTATTTTA
33328365 TTTATTTTA
1 TTTATTTTA
33328374 TTTTATTTTA
1 -TTTATTTTA
33328384 TTT
1 TTT
33328387 TTTCACAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:33332804 original size:5 final size:5
Alignment explanation
Indices: 33332794--33332825 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
33332784 TTGTGTGTTC
33332794 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
33332826 TTTCACAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:33334634 original size:46 final size:46
Alignment explanation
Indices: 33334561--33334829 Score: 248
Period size: 46 Copynumber: 5.8 Consensus size: 46
33334551 TATTTGGGCA
33334561 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
33334607 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
33334652 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
33334700 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
33334745 CATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
33334793 CCCGAGCTCATTGAGTTGAGCCCGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33334830 GCAGGTTACA
Statistics
Matches: 180, Mismatches: 25, Indels: 36
0.75 0.10 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.06
45 6 0.03
46 87 0.48
47 54 0.30
48 6 0.03
50 9 0.05
51 4 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:33334682 original size:47 final size:47
Alignment explanation
Indices: 33334613--33334775 Score: 210
Period size: 47 Copynumber: 3.5 Consensus size: 47
33334603 AATGTCTGAA
33334613 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
* * * *
33334660 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAG
*
33334706 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATTCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
33334753 CTCGTTGAGTTGAGTCCGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
33334776 ACTTATGGAT
Statistics
Matches: 98, Mismatches: 9, Indels: 18
0.78 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 28 0.29
47 50 0.51
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
Found at i:33334716 original size:93 final size:93
Alignment explanation
Indices: 33334557--33334822 Score: 460
Period size: 93 Copynumber: 2.9 Consensus size: 93
33334547 AGGATATTTG
*
33334557 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
33334622 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
33334650 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
33334715 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * * * *
33334743 GGCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
*
33334808 TTGAGCCCGAGTTCG
66 TTGAGTCCGAGTTCG
33334823 CTTATGGGCA
Statistics
Matches: 165, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 165 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:33336402 original size:20 final size:20
Alignment explanation
Indices: 33336369--33336407 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
33336359 TCCCACGATC
*
33336369 TTTTTTTTTGTTTTGTTTTG
1 TTTTTTTTTGTTTTATTTTG
33336389 TTTTTTTATT-TTTTATTTT
1 TTTTTTT-TTGTTTTATTTT
33336408 TTTGGCTGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.05, C:0.00, G:0.08, T:0.87
Consensus pattern (20 bp):
TTTTTTTTTGTTTTATTTTG
Found at i:33350601 original size:45 final size:45
Alignment explanation
Indices: 33350537--33350630 Score: 179
Period size: 45 Copynumber: 2.1 Consensus size: 45
33350527 AGCAACAGAG
33350537 AATGACAAAAGGACATTGAGAAGGCTAGCCTATGATTATGTCTTA
1 AATGACAAAAGGACATTGAGAAGGCTAGCCTATGATTATGTCTTA
*
33350582 AATGACAAAAGGACGTTGAGAAGGCTAGCCTATGATTATGTCTTA
1 AATGACAAAAGGACATTGAGAAGGCTAGCCTATGATTATGTCTTA
33350627 AATG
1 AATG
33350631 GTGAGATCTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (45 bp):
AATGACAAAAGGACATTGAGAAGGCTAGCCTATGATTATGTCTTA
Found at i:33351889 original size:55 final size:54
Alignment explanation
Indices: 33351783--33351891 Score: 139
Period size: 55 Copynumber: 2.0 Consensus size: 54
33351773 AGGGGAAGAA
* * *
33351783 GCCAAAGTGAAAACCTGCAAATGGTGCTTTGAGATTTTCTTAAAAAAAAAAAGGG
1 GCCAAAGTGAAAACCCGCAAAGGGTGCTTTGAGA-TCTCTTAAAAAAAAAAAGGG
*
33351838 GCCAAAGTGAAAACCCGTAAAGGGTGCTTTGAGA-CTCATTAAAAATGAAAAAAG
1 GCCAAAGTGAAAACCCGCAAAGGGTGCTTTGAGATCTC-TTAAAAA--AAAAAAG
33351892 AAAAAGAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
53 2 0.04
54 7 0.15
55 31 0.66
56 7 0.15
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (54 bp):
GCCAAAGTGAAAACCCGCAAAGGGTGCTTTGAGATCTCTTAAAAAAAAAAAGGG
Found at i:33353185 original size:43 final size:45
Alignment explanation
Indices: 33353107--33353207 Score: 111
Period size: 43 Copynumber: 2.3 Consensus size: 45
33353097 TACCGCCAGC
* **
33353107 CTTATC-TCTCTGAGGTAGCAAGAGAGTAGGTTGAAGAATG-AG-T
1 CTTATCTTC-CTGAGGTAGCAAGAGAGCAGACTGAAGAATGAAGAT
*
33353150 CTTATCTTCCTGAGGTAGCAAG-GAAGCAGACTGAAGATTGAAGAT
1 CTTATCTTCCTGAGGTAGCAAGAG-AGCAGACTGAAGAATGAAGAT
*
33353195 CTTATCTCCCTGA
1 CTTATCTTCCTGA
33353208 AGTTGCACCG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
42 1 0.02
43 31 0.63
44 4 0.08
45 13 0.27
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (45 bp):
CTTATCTTCCTGAGGTAGCAAGAGAGCAGACTGAAGAATGAAGAT
Found at i:33353352 original size:177 final size:175
Alignment explanation
Indices: 33353015--33353655 Score: 812
Period size: 176 Copynumber: 3.7 Consensus size: 175
33353005 TGATAAAGTC
* * * * *
33353015 AGATTTTATCTCCCTAAAGTTGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATC
1 AGATCTTATCTCCCTGAAGTTGTAGCGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATC
* *
33353080 GGCAATGGAGCAGATTTTA-CCGCCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAGA
66 GGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAA-A
*
33353144 ATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
130 ATGAGTCTTATCTTCCTGAGGTAGAAAGGAAGCAGACTGAAG-TTGA
* * * *
33353191 AGATCTTATCTCCCTGAAGTTGCACCGGAGCAGATCGAAGATGGAGAATCTTATCTCCATGTATC
1 AGATCTTATCTCCCTGAAGTTGTAGCGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATC
* *
33353256 GGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTAAATA
66 GGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAA-A
*
33353321 ATGAGTCTTATCTTCCTGAGGTAGTAAGGAAGCAGACTGAAGTTTGA
130 ATGAGTCTTATCTTCCTGAGGTAGAAAGGAAGCAGACTGAAG-TTGA
* ** * * * * *
33353368 AGGTCTTAT-TCCCCT-AAGCAGTAGTGGAACAGACCAAAGATGGCGAATCTTATCTTCATATAT
1 AGATCTTATCT-CCCTGAAGTTGTAGCGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTAT
* * * *
33353431 CGGCAATAGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGT----AGA-A--A-GTTGAAG
65 CGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAA
33353488 ATGAGTCTTATCTTCCTGAGGTAGAAAGGAAGCAGAC------TGA
130 ATGAGTCTTATCTTCCTGAGGTAGAAAGGAAGCAGACTGAAGTTGA
* * ** *
33353528 AGATCTTATTTCCCTGAAGTTGTAGCGCAGTGGATCAAAGATGGCGAATCTTATCACCATGTATC
1 AGATCTTATCTCCCTGAAGTTGTAGCGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATC
* *
33353593 GGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGATGAA
66 GGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAA
33353656 GAATTATCTT
Statistics
Matches: 407, Mismatches: 46, Indels: 31
0.84 0.10 0.06
Matches are distributed among these distances:
160 15 0.04
161 80 0.20
165 3 0.01
166 1 0.00
167 36 0.09
168 6 0.01
169 6 0.01
171 1 0.00
172 3 0.01
176 158 0.39
177 98 0.24
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (175 bp):
AGATCTTATCTCCCTGAAGTTGTAGCGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATC
GGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAAA
TGAGTCTTATCTTCCTGAGGTAGAAAGGAAGCAGACTGAAGTTGA
Found at i:33357363 original size:19 final size:19
Alignment explanation
Indices: 33357339--33357384 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
33357329 TATGAAATCT
*
33357339 AATGCATATG-ATGCGATG
1 AATGCAAATGCATGCGATG
*
33357357 CAATGCAAATGCATGGGATG
1 -AATGCAAATGCATGCGATG
33357377 AATGCAAA
1 AATGCAAA
33357385 CAGAGGCGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (19 bp):
AATGCAAATGCATGCGATG
Found at i:33362142 original size:2 final size:2
Alignment explanation
Indices: 33362135--33362164 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
33362125 TAAGAGATGA
33362135 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33362165 TATGTAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33362326 original size:31 final size:33
Alignment explanation
Indices: 33362291--33362352 Score: 92
Period size: 31 Copynumber: 1.9 Consensus size: 33
33362281 TATATAAAAA
*
33362291 ATAATGTATAA-TATAGATTTT-AAAACAATAT
1 ATAATGTATAAGTATAAATTTTGAAAACAATAT
33362322 ATAATGTATAATGTATAAATTTTGAAAACAA
1 ATAATGTATAA-GTATAAATTTTGAAAACAA
33362353 AAGTATAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 11 0.41
33 9 0.33
34 7 0.26
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.37
Consensus pattern (33 bp):
ATAATGTATAAGTATAAATTTTGAAAACAATAT
Found at i:33362383 original size:14 final size:16
Alignment explanation
Indices: 33362364--33362395 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
33362354 AGTATAAAGA
33362364 AAATTTTA-A-AATAG
1 AAATTTTACATAATAG
33362378 AAATTTTACATAATAG
1 AAATTTTACATAATAG
33362394 AA
1 AA
33362396 CAATTTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.34
Consensus pattern (16 bp):
AAATTTTACATAATAG
Found at i:33369146 original size:80 final size:80
Alignment explanation
Indices: 33369062--33369210 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
33369052 TATGGTAACC
* * * *
33369062 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
33369126 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
33369142 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
33369207 CCGG
66 CCGG
33369211 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:33369152 original size:40 final size:38
Alignment explanation
Indices: 33369103--33369210 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
33369093 ATCACGATTT
*
33369103 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
33369143 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
33369183 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
33369211 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:33377212 original size:80 final size:80
Alignment explanation
Indices: 33377128--33377276 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
33377118 TATGGTAACC
* * * *
33377128 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
33377192 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
33377208 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
33377273 CCGG
66 CCGG
33377277 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:33377218 original size:40 final size:38
Alignment explanation
Indices: 33377169--33377276 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
33377159 ATCACGATTT
*
33377169 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
33377209 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
33377249 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
33377277 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:33388629 original size:40 final size:40
Alignment explanation
Indices: 33388584--33388751 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
33388574 CGGAATACAA
33388584 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
33388624 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
33388664 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
33388704 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
33388744 CCGGATAT
1 CCGGATAT
33388752 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:33391197 original size:29 final size:29
Alignment explanation
Indices: 33391106--33391266 Score: 182
Period size: 29 Copynumber: 5.6 Consensus size: 29
33391096 TACTCGATTT
* * *
33391106 TGCACACTTAGTGCCATGTGATTT-AAGCC
1 TGCACACTTAGTGCCATAT-ATTTCCAGCA
* * *** *
33391135 CGCACACATAGTGCCATACCCTTCGAGC-
1 TGCACACTTAGTGCCATATATTTCCAGCA
** *
33391163 TCGCACACCCAGTGCCGTATATTTCCAGCA
1 T-GCACACTTAGTGCCATATATTTCCAGCA
33391193 TGCACACTTAGTGCCATATATTTCCAGCA
1 TGCACACTTAGTGCCATATATTTCCAGCA
33391222 TGCACACTTAGTGCCATATATTTCCAGCA
1 TGCACACTTAGTGCCATATATTTCCAGCA
33391251 TGCACACTTAGTGCCA
1 TGCACACTTAGTGCCA
33391267 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (29 bp):
TGCACACTTAGTGCCATATATTTCCAGCA
Found at i:33393433 original size:27 final size:28
Alignment explanation
Indices: 33393376--33393445 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
33393366 AAATTTGTAC
**
33393376 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
33393404 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
33393431 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
33393446 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:33398103 original size:21 final size:21
Alignment explanation
Indices: 33398079--33398139 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
33398069 GACACATAAA
*
33398079 GTGCCTAAAACGATACACGAG
1 GTGCCTAAAACGACACACGAG
* * *
33398100 GTGCCTGATACAACACACGAG
1 GTGCCTAAAACGACACACGAG
33398121 GTGCCTGAAATACGACACA
1 GTGCCT-AAA-ACGACACA
33398140 TAAAGTGCCT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
21 23 0.74
22 1 0.03
23 7 0.23
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (21 bp):
GTGCCTAAAACGACACACGAG
Found at i:33398852 original size:52 final size:52
Alignment explanation
Indices: 33398795--33398900 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
33398785 AACAATTTAC
33398795 ATTATTAATTACAGCATTAATTTAAATAATTAATAAAATTTCTACTCAATTT
1 ATTATTAATTACAGCATTAATTTAAATAATTAATAAAATTTCTACTCAATTT
*
33398847 ATTATTAATTACAGCATTAATTTAAATAATTAATTAAATTTCTACTCAATTT
1 ATTATTAATTACAGCATTAATTTAAATAATTAATAAAATTTCTACTCAATTT
33398899 AT
1 AT
33398901 GCCTAATGTC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.45
Consensus pattern (52 bp):
ATTATTAATTACAGCATTAATTTAAATAATTAATAAAATTTCTACTCAATTT
Found at i:33399012 original size:51 final size:52
Alignment explanation
Indices: 33398944--33399057 Score: 153
Period size: 51 Copynumber: 2.2 Consensus size: 52
33398934 TTCTTCATGC
* * *
33398944 TTCATCCGGA-ATTATTACTTTGTTATTCTGGCTTT-AACAAGAACTTCATAT
1 TTCATCCGGATATTATTACTTTATTACTCTAG-TTTCAACAAGAACTTCATAT
* *
33398995 TTCATCCGGATA-TATTACTTTATTGCTCTAGTTTCAACAAGAGCTTCATAT
1 TTCATCCGGATATTATTACTTTATTACTCTAGTTTCAACAAGAACTTCATAT
33399046 TTCATCCGGATA
1 TTCATCCGGATA
33399058 ACTTAGTTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
50 3 0.05
51 52 0.93
52 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.41
Consensus pattern (52 bp):
TTCATCCGGATATTATTACTTTATTACTCTAGTTTCAACAAGAACTTCATAT
Found at i:33399492 original size:2 final size:2
Alignment explanation
Indices: 33399485--33399517 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
33399475 TTTGTTTTGT
33399485 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33399518 ATAAGTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33401268 original size:29 final size:29
Alignment explanation
Indices: 33401193--33401301 Score: 80
Period size: 29 Copynumber: 3.8 Consensus size: 29
33401183 CATGCATATG
* *
33401193 GCCCACTAGGCCCAA-TCTTATTCA-AATG
1 GCCCACTAGGCCCAATTCATATTCATAA-A
* * *
33401221 GCCCATCT-GGTCCAGTTCATATTCTTAAA
1 GCCCA-CTAGGCCCAATTCATATTCATAAA
* * **
33401250 GCCCACTAGGCCCGATTCACATTCATATG
1 GCCCACTAGGCCCAATTCATATTCATAAA
* *
33401279 GCCCATTAGGCCCAAATCATATT
1 GCCCACTAGGCCCAATTCATATT
33401302 ATATTCATGC
Statistics
Matches: 61, Mismatches: 16, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
28 12 0.20
29 47 0.77
30 2 0.03
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.28
Consensus pattern (29 bp):
GCCCACTAGGCCCAATTCATATTCATAAA
Found at i:33401299 original size:58 final size:57
Alignment explanation
Indices: 33401193--33401301 Score: 130
Period size: 58 Copynumber: 1.9 Consensus size: 57
33401183 CATGCATATG
** * **
33401193 GCCCACTAGGCCCAATCTTATTCAAATGGCCCATCTGGTCCAGTTCATATTCTTAAA
1 GCCCACTAGGCCCAATCACATTCAAATGGCCCATCTGGCCCAAATCATATTCTTAAA
* *
33401250 GCCCACTAGGCCCGATTCACATTCATATGGCCCAT-TAGGCCCAAATCATATT
1 GCCCACTAGGCCC-AATCACATTCAAATGGCCCATCT-GGCCCAAATCATATT
33401302 ATATTCATGC
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
57 14 0.33
58 29 0.67
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.28
Consensus pattern (57 bp):
GCCCACTAGGCCCAATCACATTCAAATGGCCCATCTGGCCCAAATCATATTCTTAAA
Found at i:33406254 original size:124 final size:124
Alignment explanation
Indices: 33406032--33406256 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
33406022 GAATTATGTG
* * ** * * *
33406032 AAATGAAATATGGATGTATATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
33406097 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
* *
33406156 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
33406221 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
33406257 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 86 0.99
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:33406378 original size:40 final size:40
Alignment explanation
Indices: 33406251--33406380 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
33406241 ATGCTGGAAA
* *
33406251 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
33406291 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
33406331 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
33406371 TTATATCCGG
1 TTATATCCGG
33406381 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:33406379 original size:80 final size:80
Alignment explanation
Indices: 33406213--33406380 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
33406203 CAATTGAATG
* * *
33406213 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
33406278 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
33406293 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
33406357 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
33406373 ATATCCGG
1 ATATCCGG
33406381 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:33414302 original size:124 final size:124
Alignment explanation
Indices: 33414080--33414304 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
33414070 GAATTATGTG
* * ** * * *
33414080 AAATGAAATATGGATGTATATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
33414145 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
* *
33414204 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
33414269 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
33414305 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 86 0.99
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:33414426 original size:40 final size:40
Alignment explanation
Indices: 33414299--33414428 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
33414289 ATGCTGGAAA
* *
33414299 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
33414339 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
33414379 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
33414419 TTATATCCGG
1 TTATATCCGG
33414429 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:33414427 original size:80 final size:80
Alignment explanation
Indices: 33414261--33414428 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
33414251 CAATTGAATG
* * *
33414261 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
33414326 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
33414341 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
33414405 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
33414421 ATATCCGG
1 ATATCCGG
33414429 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:33429782 original size:17 final size:18
Alignment explanation
Indices: 33429752--33429793 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
33429742 CGGAAAATAC
*
33429752 AAATAAACAGAAAATTAA
1 AAATAAACAGAAAATAAA
*
33429770 AAATAAA-ATAAAATAAA
1 AAATAAACAGAAAATAAA
33429787 AAATAAA
1 AAATAAA
33429794 TGGAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (18 bp):
AAATAAACAGAAAATAAA
Found at i:33429788 original size:23 final size:24
Alignment explanation
Indices: 33429745--33429793 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
33429735 AAAGTCTCGG
* *
33429745 AAAATACAAATAAACAGAAAATTA
1 AAAATACAAATAAACAAAAAAATA
33429769 AAAATA-AAATAAA-ATAAAAAATA
1 AAAATACAAATAAACA-AAAAAATA
33429792 AA
1 AA
33429794 TGGAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 1 0.05
23 15 0.68
24 6 0.27
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (24 bp):
AAAATACAAATAAACAAAAAAATA
Found at i:33436393 original size:37 final size:37
Alignment explanation
Indices: 33436340--33436430 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
33436330 TTATTACGAA
33436340 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
33436377 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
33436414 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
33436431 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:33436581 original size:49 final size:49
Alignment explanation
Indices: 33436526--33436745 Score: 336
Period size: 49 Copynumber: 4.5 Consensus size: 49
33436516 TTTTACATTA
33436526 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
*
33436575 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* *
33436624 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
** * * *
33436673 GCCATTAGGCCTTATCAC--ACGTATGCACTTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* *
33436720 GCCATTCGGCCTTATCACACATATAT
1 GCCATTAGGCCTTATCACATATATAT
33436746 GTATATCATA
Statistics
Matches: 159, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 41 0.26
49 118 0.74
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.30
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
Found at i:33461509 original size:27 final size:29
Alignment explanation
Indices: 33461479--33461594 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
33461469 AACGCAAGAG
*
33461479 TATATA-GTGAATC-CGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
33461506 TATATATTTTCAGCTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
33461535 TATATAATTTTCAGCTCGCACACTTAGTGC
1 TATAT-ATGTGAAGCTCGCACACTTAGTGC
* ** *
33461565 TATATATTTTCAGTTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
33461594 T
1 T
33461595 GTACAATTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 6 0.07
28 3 0.04
29 43 0.53
30 29 0.36
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (29 bp):
TATATATGTGAAGCTCGCACACTTAGTGC
Found at i:33461547 original size:30 final size:29
Alignment explanation
Indices: 33461492--33461594 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
33461482 ATAGTGAATC
33461492 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
33461521 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
33461551 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
33461580 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33461595 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:33461568 original size:59 final size:60
Alignment explanation
Indices: 33461491--33461624 Score: 207
Period size: 59 Copynumber: 2.2 Consensus size: 60
33461481 TATAGTGAAT
* * *
33461491 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * *
33461550 TCGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
33461610 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
33461625 CAATCTTGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 47 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:33469039 original size:27 final size:29
Alignment explanation
Indices: 33469009--33469124 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
33468999 AACGCAAGAG
*
33469009 TATATA-GTGAATC-CGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
33469036 TATATATTTTCAGCTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
33469065 TATATAATTTTCAGCTCGCACACTTAGTGC
1 TATAT-ATGTGAAGCTCGCACACTTAGTGC
* ** *
33469095 TATATATTTTCAGTTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
33469124 T
1 T
33469125 GTACAATTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 6 0.07
28 3 0.04
29 43 0.53
30 29 0.36
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (29 bp):
TATATATGTGAAGCTCGCACACTTAGTGC
Found at i:33469077 original size:30 final size:29
Alignment explanation
Indices: 33469022--33469124 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
33469012 ATAGTGAATC
33469022 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
33469051 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
33469081 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
33469110 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33469125 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:33469098 original size:59 final size:60
Alignment explanation
Indices: 33469021--33469154 Score: 207
Period size: 59 Copynumber: 2.2 Consensus size: 60
33469011 TATAGTGAAT
* * *
33469021 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * *
33469080 TCGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
33469140 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
33469155 CAATCTTGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 47 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:33472847 original size:21 final size:21
Alignment explanation
Indices: 33472823--33472876 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
33472813 AAAACAGGGC
*
33472823 ACACATCCGTGTGGAAGGGTA
1 ACACACCCGTGTGGAAGGGTA
* *
33472844 ACACGCCCGTGTTGAAGGGTA
1 ACACACCCGTGTGGAAGGGTA
**
33472865 ACATGCCCGTGT
1 ACACACCCGTGT
33472877 CCCACACCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.20
Consensus pattern (21 bp):
ACACACCCGTGTGGAAGGGTA
Found at i:33473914 original size:24 final size:24
Alignment explanation
Indices: 33473869--33473915 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
33473859 AGAATGGTAT
*
33473869 TGGAAATATATACATGGGATAATA
1 TGGAAATATATACATAGGATAATA
* *
33473893 TGGAAATATGTACATAGTATAAT
1 TGGAAATATATACATAGGATAAT
33473916 GTTAAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (24 bp):
TGGAAATATATACATAGGATAATA
Found at i:33474639 original size:3 final size:3
Alignment explanation
Indices: 33474625--33474715 Score: 146
Period size: 3 Copynumber: 29.7 Consensus size: 3
33474615 AAACATAAGC
*
33474625 TAA TACA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
*
33474672 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAC TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
33474716 TTATAAAAAT
Statistics
Matches: 82, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
3 76 0.93
4 6 0.07
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:33476672 original size:55 final size:55
Alignment explanation
Indices: 33476589--33476764 Score: 255
Period size: 59 Copynumber: 3.1 Consensus size: 55
33476579 TAAAAGCAGA
*
33476589 TTTTGAAAAACA-GAAATTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 TTTTGAAAAACATGAATTTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
33476643 TTTTGAAAAACATGAATTTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 TTTTGAAAAACATGAATTTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGA----T
* * * *
33476702 TTTTTAAAAACATAAATTGAAAGGGCTCAACTAACCTCTCGCAATATGAGTTGAT
1 TTTTGAAAAACATGAATTTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
33476757 TTTTGAAA
1 TTTTGAAA
33476765 GGTAGAAATT
Statistics
Matches: 109, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
54 12 0.11
55 47 0.43
59 50 0.46
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (55 bp):
TTTTGAAAAACATGAATTTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
Found at i:33476933 original size:82 final size:85
Alignment explanation
Indices: 33476797--33477015 Score: 216
Period size: 82 Copynumber: 2.6 Consensus size: 85
33476787 GCGTGTCCTG
* *** ** ** **
33476797 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGAAACTTAATTTGAAAAGTAGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAACTGAAAA-TAGAAATT
33476862 GAAAA-A-CAGAAAT-T-A-AA
65 GAAAATACCAG-AATGTGACAA
* *
33476879 AGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAACAGAAACTGAAAATAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAACTGAAAATAGAAATTG
**
33476944 AAAATACCTCAGCGTGTGAGCCAA
66 AAAATA-C-CAGAATGTGA--CAA
33476968 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAA
33477016 TTAAAAAGCT
Statistics
Matches: 113, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
81 11 0.10
82 48 0.42
84 1 0.01
85 4 0.04
86 1 0.01
88 45 0.40
89 3 0.03
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (85 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAACTGAAAATAGAAATTG
AAAATACCAGAATGTGACAA
Found at i:33477048 original size:54 final size:54
Alignment explanation
Indices: 33476966--33477076 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 54
33476956 CGTGTGAGCC
33476966 AAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAA
1 AAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAA
* * *
33477020 AAAGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTGAAAAACATAAATTAA
1 AAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAA
33477074 AAA
1 AAA
33477077 CAGAAATTGA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (54 bp):
AAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAA
Found at i:33477313 original size:79 final size:79
Alignment explanation
Indices: 33477177--33477326 Score: 273
Period size: 79 Copynumber: 1.9 Consensus size: 79
33477167 TTGGAAGAAT
* *
33477177 AGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
33477242 TGAAAAGCAGAAAC
66 TGAAAAGCAGAAAC
*
33477256 AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
33477321 TGAAAA
66 TGAAAA
33477327 CATGAATTAA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 68 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (79 bp):
AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TGAAAAGCAGAAAC
Done.