Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 60 of 168
Found at i:17186053 original size:120 final size:120
Alignment explanation
Indices: 17185839--17186078 Score: 399
Period size: 120 Copynumber: 2.0 Consensus size: 120
17185829 ACTAAGATGG
* * *
17185839 TTTAATTACTATTTTGAGCCCTTGGCAATATAAAAATCTATAGCTATTAGACTTTTATGATGTAG
1 TTTAATTACTATTTTGAACCCTTAGCAATATAAAAATCTATAGCTATTAGACGTTTATGATGTAG
17185904 TCTTTATACATTAATTAACTATCACATCGACAAAATTACTGGACCAAACTTTCAT
66 TCTTTATACATTAATTAACTATCACATCGACAAAATTACTGGACCAAACTTTCAT
* *
17185959 TTTAATTACTATTTTGAACCCTTAGCAATGTAAAAATCTATAGCTATTAGACGTTTATGATTTAG
1 TTTAATTACTATTTTGAACCCTTAGCAATATAAAAATCTATAGCTATTAGACGTTTATGATGTAG
* * * *
17186024 TCTTTGTACCTTAATTAACTATCATATCGACAAAATTACTGGACCCAACTTTCAT
66 TCTTTATACATTAATTAACTATCACATCGACAAAATTACTGGACCAAACTTTCAT
17186079 AAACTTTCAT
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
120 111 1.00
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (120 bp):
TTTAATTACTATTTTGAACCCTTAGCAATATAAAAATCTATAGCTATTAGACGTTTATGATGTAG
TCTTTATACATTAATTAACTATCACATCGACAAAATTACTGGACCAAACTTTCAT
Found at i:17192174 original size:21 final size:19
Alignment explanation
Indices: 17192144--17192192 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
17192134 TTCCAAAAAG
*
17192144 TATCGGTACCCATATGATTTT
1 TATCGATACCCATAT--TTTT
17192165 TATCGATA-CCATATTTTT
1 TATCGATACCCATATTTTT
*
17192183 TATAGATACC
1 TATCGATACC
17192193 AAAATTGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 11 0.44
19 1 0.04
20 6 0.24
21 7 0.28
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.43
Consensus pattern (19 bp):
TATCGATACCCATATTTTT
Found at i:17192621 original size:17 final size:18
Alignment explanation
Indices: 17192586--17192625 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
17192576 GTCCTACAAC
*
17192586 AACAAGAAAGAATATTCA
1 AACAAGAAAGAATAATCA
*
17192604 AACAA-AAAGATTAATCA
1 AACAAGAAAGAATAATCA
17192621 AACAA
1 AACAA
17192626 CCTTTGTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.65, C:0.12, G:0.07, T:0.15
Consensus pattern (18 bp):
AACAAGAAAGAATAATCA
Found at i:17193830 original size:16 final size:16
Alignment explanation
Indices: 17193809--17193840 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17193799 AGGGGTTGAA
17193809 AAACCAAAATTAGAAG
1 AAACCAAAATTAGAAG
17193825 AAACCAAAATTAGAAG
1 AAACCAAAATTAGAAG
17193841 TAAAAGGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.12, G:0.12, T:0.12
Consensus pattern (16 bp):
AAACCAAAATTAGAAG
Found at i:17195279 original size:20 final size:22
Alignment explanation
Indices: 17195249--17195296 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
17195239 GGATCAACTT
*
17195249 GAAACAAAACA-GAAAATTTTG
1 GAAACAAAACATGAAAATTTGG
17195270 GAAA-AAAACATGAAAATTTGG
1 GAAACAAAACATGAAAATTTGG
17195291 GAAACA
1 GAAACA
17195297 GGGGTCACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
21 17 0.71
22 1 0.04
ACGTcount: A:0.58, C:0.08, G:0.17, T:0.17
Consensus pattern (22 bp):
GAAACAAAACATGAAAATTTGG
Found at i:17203720 original size:13 final size:14
Alignment explanation
Indices: 17203694--17203722 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17203684 GATCTAAACG
17203694 AAATAAATTAATTC
1 AAATAAATTAATTC
17203708 AAATAAA-TAATTC
1 AAATAAATTAATTC
17203721 AA
1 AA
17203723 CACCACTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATAAATTAATTC
Found at i:17209531 original size:12 final size:12
Alignment explanation
Indices: 17209514--17209540 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17209504 TTTATTGTTA
17209514 TAACATATAATT
1 TAACATATAATT
17209526 TAACATATAATT
1 TAACATATAATT
17209538 TAA
1 TAA
17209541 TCCAAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
TAACATATAATT
Found at i:17212545 original size:15 final size:16
Alignment explanation
Indices: 17212507--17212546 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
17212497 GGCTTATGTG
17212507 ATATATGTGATGATTT
1 ATATATGTGATGATTT
* *
17212523 AAACATGTGA-GATTT
1 ATATATGTGATGATTT
17212538 ATATATGTG
1 ATATATGTG
17212547 GTTTTTAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (16 bp):
ATATATGTGATGATTT
Found at i:17218073 original size:12 final size:12
Alignment explanation
Indices: 17218056--17218080 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17218046 ATGTAGGGTT
17218056 TGCACATGTAAG
1 TGCACATGTAAG
17218068 TGCACATGTAAG
1 TGCACATGTAAG
17218080 T
1 T
17218081 CATATGCAAT
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:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (12 bp):
TGCACATGTAAG
Found at i:17219474 original size:18 final size:17
Alignment explanation
Indices: 17219448--17219494 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
17219438 CATAAAACTT
17219448 AAAAAAATAAAAACTAA
1 AAAAAAATAAAAACTAA
*
17219465 AAATAAAAT-AAAACTGA
1 AAA-AAAATAAAAACTAA
*
17219482 AAAAAAAGAAAAA
1 AAAAAAATAAAAA
17219495 AAAGAGAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 4 0.15
17 17 0.65
18 5 0.19
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.11
Consensus pattern (17 bp):
AAAAAAATAAAAACTAA
Found at i:17219494 original size:17 final size:15
Alignment explanation
Indices: 17219441--17219494 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 15
17219431 ACATTTTCAT
*
17219441 AAAACTTAAAAAAATA
1 AAAAC-TAAAAAAAAA
17219457 AAAACTAAAAATAAAA
1 AAAACTAAAAA-AAAA
17219473 TAAAACTGAAAAAAAAGA
1 -AAAACT-AAAAAAAA-A
17219491 AAAA
1 AAAA
17219495 AAAGAGAGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
15 6 0.18
16 8 0.24
17 13 0.39
18 6 0.18
ACGTcount: A:0.78, C:0.06, G:0.04, T:0.13
Consensus pattern (15 bp):
AAAACTAAAAAAAAA
Found at i:17222367 original size:24 final size:24
Alignment explanation
Indices: 17222351--17222432 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 24
17222341 ATAATAATTC
17222351 TAAAAAAAGTACATATATATATTA
1 TAAAAAAAGTACATATATATATTA
* *
17222375 TAAAGAAAGTATAAACATATATAGATTA
1 TAAAAAAAG--T--ACATATATATATTA
* * * * *
17222403 TAAAATATGAAAATATAAATATTA
1 TAAAAAAAGTACATATATATATTA
17222427 TAAAAA
1 TAAAAA
17222433 TATAAATGTA
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
24 24 0.55
26 1 0.02
28 19 0.43
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.30
Consensus pattern (24 bp):
TAAAAAAAGTACATATATATATTA
Found at i:17222417 original size:8 final size:7
Alignment explanation
Indices: 17222401--17222484 Score: 53
Period size: 8 Copynumber: 10.6 Consensus size: 7
17222391 ATATATAGAT
17222401 TATAAAA
1 TATAAAA
17222408 TATGAAAA
1 TAT-AAAA
17222416 TATAAATA
1 TATAAA-A
17222424 TTATAAAAA
1 -TAT-AAAA
17222433 TATAAATGTA
1 TATAAA---A
17222443 TATAAAA
1 TATAAAA
17222450 TATAAAAA
1 TAT-AAAA
17222458 CTATGAAAA
1 -TAT-AAAA
*
17222467 -AGAAAA
1 TATAAAA
17222473 TAATAAAA
1 T-ATAAAA
17222481 TATA
1 TATA
17222485 TACATACTAT
Statistics
Matches: 63, Mismatches: 3, Indels: 22
0.72 0.03 0.25
Matches are distributed among these distances:
6 4 0.06
7 17 0.27
8 21 0.33
9 11 0.17
10 10 0.16
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (7 bp):
TATAAAA
Found at i:17222434 original size:17 final size:17
Alignment explanation
Indices: 17222407--17222455 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
17222397 AGATTATAAA
*
17222407 ATATGAAAATATAAATAT
1 ATAT-AAAATATAAATGT
17222425 -TATAAAAATATAAATGT
1 ATAT-AAAATATAAATGT
17222442 ATATAAAATATAAA
1 ATATAAAATATAAA
17222456 AACTATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 25 0.89
18 3 0.11
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (17 bp):
ATATAAAATATAAATGT
Found at i:17222444 original size:25 final size:25
Alignment explanation
Indices: 17222363--17222466 Score: 81
Period size: 25 Copynumber: 4.0 Consensus size: 25
17222353 AAAAAAGTAC
*
17222363 ATATATATATTATAAAGAAAGTAT-AAA
1 ATATATAAATTAT-AA-AAA-TATGAAA
*
17222390 CATATATAGATTAT-AAAATATGAAA
1 -ATATATAAATTATAAAAATATGAAA
17222415 ATATA-AATATTATAAAAATAT-AAA
1 ATATATAA-ATTATAAAAATATGAAA
* *
17222439 TGTATATAAAATATAAAAACTATGAAA
1 -ATATATAAATTATAAAAA-TATGAAA
17222466 A
1 A
17222467 AGAAAATAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
23 1 0.02
24 16 0.25
25 26 0.41
26 6 0.09
27 3 0.05
28 12 0.19
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.32
Consensus pattern (25 bp):
ATATATAAATTATAAAAATATGAAA
Found at i:17222466 original size:17 final size:16
Alignment explanation
Indices: 17222404--17222466 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 16
17222394 TATAGATTAT
17222404 AAAATATGAAAATATA
1 AAAATATGAAAATATA
* *
17222420 AATATTATAAAAATATA
1 AA-AATATGAAAATATA
*
17222437 AATGTATAT-AAAATATA
1 AA--AATATGAAAATATA
17222454 AAAACTATGAAAA
1 AAAA-TATGAAAA
17222467 AGAAAATAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
15 1 0.03
16 5 0.14
17 28 0.76
18 3 0.08
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (16 bp):
AAAATATGAAAATATA
Found at i:17224669 original size:14 final size:15
Alignment explanation
Indices: 17224650--17224683 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
17224640 TGTTTAATAC
17224650 ATATTTA-TATATAT
1 ATATTTAGTATATAT
17224664 ATATTTAGTTATATAT
1 ATATTTAG-TATATAT
17224680 ATAT
1 ATAT
17224684 CAACTTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
16 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
ATATTTAGTATATAT
Found at i:17225373 original size:17 final size:18
Alignment explanation
Indices: 17225351--17225385 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17225341 AAATTATTTT
17225351 AAATAATT-AAATTTAAA
1 AAATAATTAAAATTTAAA
17225368 AAATAATTAAAATTTAAA
1 AAATAATTAAAATTTAAA
17225386 TTCAACCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATAATTAAAATTTAAA
Found at i:17231594 original size:5 final size:5
Alignment explanation
Indices: 17231584--17231618 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
17231574 CCAAAATTAC
17231584 AAAAT AAAAT AAAAT AAAAT AAAAT ATAAA- AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT
17231619 GATCTGTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 3 0.11
5 22 0.79
6 3 0.11
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:17234036 original size:41 final size:41
Alignment explanation
Indices: 17233979--17234073 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
17233969 ATTGAAATTT
17233979 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
1 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
*
17234020 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGTCG
1 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
*
17234061 ATGATCTGAATCA
1 GTGATCTGAATCA
17234074 AAGGAACGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (41 bp):
GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
Found at i:17234300 original size:41 final size:41
Alignment explanation
Indices: 17234243--17234418 Score: 298
Period size: 41 Copynumber: 4.3 Consensus size: 41
17234233 GTTTGGAATT
17234243 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
17234284 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* *
17234325 GGTGATCTGAATCAGGCTATAAGCCTAGTAGGCTAAATGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* * *
17234366 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
*
17234407 GGTAATCTGAAT
1 GGTGATCTGAAT
17234419 ATGTTAAATT
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 126 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
Found at i:17242946 original size:25 final size:25
Alignment explanation
Indices: 17242912--17242966 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
17242902 ATTACTCTCT
*
17242912 TCTTCATCGTCTTTATCACCGTTTG
1 TCTTCATCGTCTTCATCACCGTTTG
17242937 TCTTCATCGTCTTCATCACCGTTTG
1 TCTTCATCGTCTTCATCACCGTTTG
17242962 TCTTC
1 TCTTC
17242967 CTTGTTAAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.11, C:0.31, G:0.11, T:0.47
Consensus pattern (25 bp):
TCTTCATCGTCTTCATCACCGTTTG
Found at i:17246147 original size:15 final size:16
Alignment explanation
Indices: 17246132--17246170 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
17246122 TAACAATTAA
17246132 TTAATTTTTTAATAATTT
1 TTAATTTTTTAATAA--T
17246150 TTAATTTTTTAA-AAT
1 TTAATTTTTTAATAAT
17246165 TTAATT
1 TTAATT
17246171 ACTGATGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.33
17 2 0.10
18 12 0.57
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTAATTTTTTAATAAT
Found at i:17246155 original size:18 final size:17
Alignment explanation
Indices: 17246132--17246166 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
17246122 TAACAATTAA
17246132 TTAATTTTTTAATAATTT
1 TTAATTTTTTAA-AATTT
17246150 TTAATTTTTTAAAATTT
1 TTAATTTTTTAAAATTT
17246167 AATTACTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTAATTTTTTAAAATTT
Found at i:17246522 original size:2 final size:2
Alignment explanation
Indices: 17246515--17246541 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17246505 CAGAGTTCTT
17246515 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
17246542 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:17249973 original size:2 final size:2
Alignment explanation
Indices: 17249966--17250006 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
17249956 TTGAACCTGC
17249966 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
17250007 ATCATTTAAG
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:17252027 original size:15 final size:15
Alignment explanation
Indices: 17252007--17252043 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
17251997 AAGTTATAAA
17252007 TGAACTTGACTCGAT
1 TGAACTTGACTCGAT
17252022 TGAACTTGACTCGAT
1 TGAACTTGACTCGAT
*
17252037 TAAACTT
1 TGAACTT
17252044 AAAACAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (15 bp):
TGAACTTGACTCGAT
Found at i:17254173 original size:19 final size:20
Alignment explanation
Indices: 17254136--17254175 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
17254126 CGAGACTAAA
17254136 TCAGAAACATATAGAATTTT
1 TCAGAAACATATAGAATTTT
17254156 TCAGAAA-ATA-ATGAATTTT
1 TCAGAAACATATA-GAATTTT
17254175 T
1 T
17254176 AAAACTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.05
19 11 0.58
20 7 0.37
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (20 bp):
TCAGAAACATATAGAATTTT
Found at i:17261189 original size:39 final size:39
Alignment explanation
Indices: 17261129--17261219 Score: 157
Period size: 39 Copynumber: 2.4 Consensus size: 39
17261119 AAATTAAGAA
*
17261129 ACATAATTAAA-ACACATATTAATGATGTTTAAACTAAG
1 ACATAATTAAAGACACATATTAATGATGTTCAAACTAAG
*
17261167 ACATAATTAAAGACACATATTAATGATGTTCAAACTGAG
1 ACATAATTAAAGACACATATTAATGATGTTCAAACTAAG
17261206 ACATAATTAAAGAC
1 ACATAATTAAAGAC
17261220 TCAAACTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 11 0.22
39 39 0.78
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (39 bp):
ACATAATTAAAGACACATATTAATGATGTTCAAACTAAG
Found at i:17276643 original size:51 final size:51
Alignment explanation
Indices: 17276566--17276668 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
17276556 TTCTCGGTGC
17276566 AATCTGAAAATACTCATGTAGCGACATTGGTACCAAAACATGACAAAATTA
1 AATCTGAAAATACTCATGTAGCGACATTGGTACCAAAACATGACAAAATTA
*
17276617 AATCTGAAAATACTCATGTAGTGACATTGGTACCAAAACATGACAAAATTA
1 AATCTGAAAATACTCATGTAGCGACATTGGTACCAAAACATGACAAAATTA
17276668 A
1 A
17276669 GGATAAATAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.24
Consensus pattern (51 bp):
AATCTGAAAATACTCATGTAGCGACATTGGTACCAAAACATGACAAAATTA
Found at i:17279522 original size:38 final size:38
Alignment explanation
Indices: 17279466--17279545 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
17279456 TACTATATTG
* *
17279466 TGTTAATATAAACGGACTTGAAAATGGTTATGTATCGA
1 TGTTAATATAAACAGACTTGAAAATGCTTATGTATCGA
17279504 TGTTAATATAAACAGACTTGAAAATGCTTATGTATCGA
1 TGTTAATATAAACAGACTTGAAAATGCTTATGTATCGA
17279542 TGTT
1 TGTT
17279546 TTGTGTAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (38 bp):
TGTTAATATAAACAGACTTGAAAATGCTTATGTATCGA
Found at i:17292315 original size:56 final size:50
Alignment explanation
Indices: 17292230--17292477 Score: 209
Period size: 49 Copynumber: 4.9 Consensus size: 50
17292220 GACATTAGGG
*
17292230 GATGAGA--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACTGA
*
17292281 GGTTATGAGAGGTCCCATTTAAGACCATGTCTGGGACATGGCATTGGCACTGA
1 -G--ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
* *
17292334 GATGAGAGGTCCC-TCGTAAGACCATGTCTGGGACATGGCA-TGGGACCGA
1 GATGAGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACTGA
* * ** * * * * * *
17292383 TATTAGAACTCCCATGTAAGACCATATCTGAGATATGGCATTTGTAGT-A
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
* * * ** * *
17292432 CAGGAAACATCCCATGTAAGACCATGTATGGGACATGGCTTTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
17292478 TGTTATTATC
Statistics
Matches: 160, Mismatches: 29, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
49 73 0.46
50 40 0.25
52 2 0.01
53 4 0.03
54 6 0.04
56 35 0.22
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
Found at i:17300895 original size:15 final size:15
Alignment explanation
Indices: 17300877--17300942 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 15
17300867 ATTATTAATA
17300877 ATTTTATTAAATTAT
1 ATTTTATTAAATTAT
17300892 ATTTT-TT-AATTAT
1 ATTTTATTAAATTAT
* * * *
17300905 AATATATTTAATAAT
1 ATTTTATTAAATTAT
* *
17300920 AATTATGTTAAATTAT
1 -ATTTTATTAAATTAT
17300936 ATTTTAT
1 ATTTTAT
17300943 AGTATCATAT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
13 9 0.23
14 4 0.10
15 15 0.38
16 11 0.28
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
ATTTTATTAAATTAT
Found at i:17301031 original size:16 final size:16
Alignment explanation
Indices: 17301010--17301055 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
17301000 TTATTAAATT
17301010 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
17301026 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
17301041 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
17301056 CTTTTATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:17301066 original size:120 final size:120
Alignment explanation
Indices: 17300853--17301173 Score: 588
Period size: 120 Copynumber: 2.7 Consensus size: 120
17300843 NNNNNNNATT
* *
17300853 ATATAAGAATATTAATTATTAATAATTTTATTAAATTATATTTTTTAATTATAATATATTTAATA
1 ATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATA
17300918 ATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTC
66 ATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTC
*
17300973 ATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATA
1 ATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATA
*
17301038 ATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTC
66 ATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTC
*
17301093 ATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATATTTTAATTATAATATATTTAATA
1 ATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATA
17301158 ATAATTATGTTTAAAT
66 ATAATTATG-TTAAAT
17301174 ATGATTAAAT
Statistics
Matches: 194, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
120 188 0.97
121 6 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
ATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATA
ATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTC
Found at i:17301149 original size:16 final size:16
Alignment explanation
Indices: 17301130--17301171 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
17301120 TTTTTAAATT
*
17301130 ATATATTTTAATTATA
1 ATATATTTTAATAATA
17301146 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
17301161 AT-TATGTTTAA
1 ATATAT-TTTAA
17301172 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:17301154 original size:15 final size:14
Alignment explanation
Indices: 17301121--17301162 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
17301111 TTAAGAATTT
17301121 TTTTAAATTAT-ATA
1 TTTT-AATTATAATA
17301135 TTTTAATTATAATA
1 TTTTAATTATAATA
*
17301149 TATTTAATAATAAT
1 T-TTTAATTATAAT
17301163 TATGTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 6 0.24
14 8 0.32
15 11 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTAATTATAATA
Found at i:17301397 original size:45 final size:43
Alignment explanation
Indices: 17301312--17301405 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 43
17301302 TTACACCTCT
*
17301312 ATTACATTCAACCAAATACAGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGATTACTATTACGCCTCTATTCC
*
17301355 ATTACATTCAACCAAACA-ATTGATTTGCTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACA--GA-TTACTATTACGCCTCTATTCC
17301400 ATTACA
1 ATTACA
17301406 CCTCTATTCC
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
42 1 0.02
43 17 0.37
44 2 0.04
45 26 0.57
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (43 bp):
ATTACATTCAACCAAACACAGATTACTATTACGCCTCTATTCC
Found at i:17301409 original size:16 final size:16
Alignment explanation
Indices: 17301384--17301448 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
17301374 TTGATTTGCT
17301384 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
17301400 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
*
17301416 ATTACGCCTTTATTCC
1 ATTACGCCTCTATTCC
17301432 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
17301448 A
1 A
17301449 ATACAGCGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:17306083 original size:30 final size:29
Alignment explanation
Indices: 17306048--17306126 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
17306038 CGGCTAAATA
*
17306048 AGGCCTATAGGCCGATTTTAATTTTTAATT
1 AGGCCTATAGGCCGATTTTAA-CTTTAATT
* *
17306078 AGGCCTTTAGGCCAATTTTAACTTTAATT
1 AGGCCTATAGGCCGATTTTAACTTTAATT
***
17306107 AGGGAAATAGGCCGATTTTA
1 AGGCCTATAGGCCGATTTTA
17306127 GGAGAGAAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 22 0.54
30 19 0.46
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (29 bp):
AGGCCTATAGGCCGATTTTAACTTTAATT
Found at i:17313556 original size:43 final size:43
Alignment explanation
Indices: 17313508--17313673 Score: 192
Period size: 43 Copynumber: 3.9 Consensus size: 43
17313498 CACTAAAGGT
*
17313508 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAC
1 CATGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGAC
* * *
17313551 CATGACCTTTAGCGGTGCTTTTCAGACAAACGCCGCTATAGTC
1 CATGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGAC
* ** * * *
17313594 CATGACCTTTCGCGGCGCTTTTGTCACAAACGCCGTTAAAGAA
1 CATGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGAC
* * *
17313637 CA-AATCTTTAGCGGCGCTTTTCGA-AAAAACGCCGCTA
1 CATGACCTTTAGCGGCGCTTTTC-ACACAAACGCCGCTA
17313674 AAAACATAAT
Statistics
Matches: 102, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
42 27 0.26
43 75 0.74
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (43 bp):
CATGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGAC
Found at i:17313609 original size:86 final size:85
Alignment explanation
Indices: 17313508--17313673 Score: 217
Period size: 86 Copynumber: 1.9 Consensus size: 85
17313498 CACTAAAGGT
* * * *
17313508 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCATGACCTTTAGCGGTGCTTTT
1 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACA-AACCTTTAGCGGCGCTTTT
*
17313573 C-AGACAAACGCCGCTATAGTC
65 CGA-AAAAACGCCGCTATAGTC
* ** * *
17313594 CATGACCTTTCGCGGCGCTTTTGTCACAAACGCCGTTAAAGAACAAATCTTTAGCGGCGCTTTTC
1 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACAAACCTTTAGCGGCGCTTTTC
17313659 GAAAAAACGCCGCTA
66 GAAAAAACGCCGCTA
17313674 AAAACATAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
85 29 0.42
86 40 0.58
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (85 bp):
CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACAAACCTTTAGCGGCGCTTTTC
GAAAAAACGCCGCTATAGTC
Found at i:17314616 original size:14 final size:14
Alignment explanation
Indices: 17314599--17314629 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17314589 GAAGCTTTTG
17314599 ATATAAAGCATTTA
1 ATATAAAGCATTTA
*
17314613 ATATCAAGCATTTA
1 ATATAAAGCATTTA
17314627 ATA
1 ATA
17314630 AAAACCAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (14 bp):
ATATAAAGCATTTA
Found at i:17321872 original size:12 final size:12
Alignment explanation
Indices: 17321855--17321894 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
17321845 CTTTCTCTTC
17321855 TTTTTTTTCAAA
1 TTTTTTTTCAAA
17321867 TTTTTTTTTCAAA
1 -TTTTTTTTCAAA
*
17321880 TTTTTTTTCGAA
1 TTTTTTTTCAAA
17321892 TTT
1 TTT
17321895 ACAATTTACG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 14 0.54
13 12 0.46
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (12 bp):
TTTTTTTTCAAA
Found at i:17321873 original size:13 final size:13
Alignment explanation
Indices: 17321855--17321887 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
17321845 CTTTCTCTTC
17321855 TTTTTTTTCAAAT
1 TTTTTTTTCAAAT
17321868 TTTTTTTTCAAAT
1 TTTTTTTTCAAAT
17321881 TTTTTTT
1 TTTTTTT
17321888 CGAATTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTTTTCAAAT
Found at i:17328172 original size:14 final size:14
Alignment explanation
Indices: 17328153--17328202 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
17328143 AAATAGTAAC
*
17328153 CCCTAAACCTTAAA
1 CCCTAAACCATAAA
* *
17328167 CTCTAAACCATATA
1 CCCTAAACCATAAA
*
17328181 CCCTAAACCAAAAA
1 CCCTAAACCATAAA
*
17328195 CCTTAAAC
1 CCCTAAAC
17328203 TATAGTGCTA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (14 bp):
CCCTAAACCATAAA
Found at i:17328402 original size:41 final size:41
Alignment explanation
Indices: 17328324--17328444 Score: 118
Period size: 41 Copynumber: 3.0 Consensus size: 41
17328314 TATAATAAAT
* * **
17328324 CTGAGTATTAGCGGCGCTTTTTAAAAAATC-CTGCTAAAACC
1 CTGAGCATTAGCGGCGCTTTTTCAAAAA-CGCCACTAAAACC
* *
17328365 CTGAGCATTAGCGGCGCTTTTTCATAAACGCCACTAAAGCC
1 CTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAACC
* * * ** *
17328406 CCGGGCATTATCGGTTCTTCTTCAAAAACGCCACTAAAA
1 CTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAA
17328445 ATGCCGCTAA
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
40 1 0.02
41 64 0.98
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (41 bp):
CTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAACC
Found at i:17337182 original size:100 final size:100
Alignment explanation
Indices: 17337065--17337264 Score: 373
Period size: 100 Copynumber: 2.0 Consensus size: 100
17337055 CTTGTAGAAA
*
17337065 GTAAAGGTGAAAGTATATGCAATAAGATATATTATTGTTATAATACGGAATATGATCCTATTACA
1 GTAAAGGTGAAAGTATATGCAATAAGATACATTATTGTTATAATACGGAATATGATCCTATTACA
* *
17337130 TTTGAAGAGGCAATGGAATCTCAAGACTCTTCTTT
66 TTTGAAAAGGCAATGGAATCTCAAGACTATTCTTT
17337165 GTAAAGGTGAAAGTATATGCAATAAGATACATTATTGTTATAATACGGAATATGATCCTATTACA
1 GTAAAGGTGAAAGTATATGCAATAAGATACATTATTGTTATAATACGGAATATGATCCTATTACA
17337230 TTTGAAAAGGCAATGGAATCTCAAGACTATTCTTT
66 TTTGAAAAGGCAATGGAATCTCAAGACTATTCTTT
17337265 TTGGAAAGAA
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (100 bp):
GTAAAGGTGAAAGTATATGCAATAAGATACATTATTGTTATAATACGGAATATGATCCTATTACA
TTTGAAAAGGCAATGGAATCTCAAGACTATTCTTT
Found at i:17337825 original size:160 final size:153
Alignment explanation
Indices: 17337688--17337966 Score: 497
Period size: 152 Copynumber: 1.8 Consensus size: 153
17337678 TTATATAAAC
* *
17337688 ACCAAAGCATTGACTCCAAAAGTTTGACAAGGTTGTTCTAGCTAATGGCTATAAAATAAATGAAT
1 ACCAAAGCATTGACACCAAAAGTTTGACAAGGTTGTTCTAACTAATGGCTATAAAATAAATGAAT
* *
17337753 CTGATAAGTGCATATATAA-AAATTTGAAAATGGAAAATGTGTCATAATTTTCTTATATGTAAGC
66 CTGATAAGTGCATATATAACAAATTTGAAAATGGAAAAGGTGTCATAATTTGCTTATATGTAAGC
*
17337817 TTGTTAAATCTTTATATGGGCTT
131 TTGTTAAATCTCTATATGGGCTT
*
17337840 ACCAAAGCATTGACACCAAAAGTTTTACAAGGTTGTTCTAACTAATGGCTATAAAATAAATGAAT
1 ACCAAAGCATTGACACCAAAAGTTTGACAAGGTTGTTCTAACTAATGGCTATAAAATAAATGAAT
17337905 CTGATAAGTGCATATATAACAAATTTGAAAATGGAAAAGGTGTCATAATTTGCTTATATGTA
66 CTGATAAGTGCATATATAACAAATTTGAAAATGGAAAAGGTGTCATAATTTGCTTATATGTA
17337967 GATGACATGC
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
152 81 0.67
153 40 0.33
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.33
Consensus pattern (153 bp):
ACCAAAGCATTGACACCAAAAGTTTGACAAGGTTGTTCTAACTAATGGCTATAAAATAAATGAAT
CTGATAAGTGCATATATAACAAATTTGAAAATGGAAAAGGTGTCATAATTTGCTTATATGTAAGC
TTGTTAAATCTCTATATGGGCTT
Found at i:17338027 original size:152 final size:148
Alignment explanation
Indices: 17337714--17338017 Score: 362
Period size: 152 Copynumber: 2.0 Consensus size: 148
17337704 CAAAAGTTTG
*
17337714 ACAAGGTTGTTCTAGCTAATGGCTATAAAATAAATGAATCTGATAAGTGCATATATAAAAATTTG
1 ACAAGGTTGTTCTAACTAATGGCTATAAAATAAATGAATCTGATAAGTGCATATATAAAAATTTG
* * * * * * *
17337779 AAAATGGAAAATGTGTCATAATTTTCTTATATGTAAGCTTGTTAAATCTTTATATGGGCTTACCA
66 AAAATGGAAAAGGTGTCATAATTTGCTTATATGTAAGCATGTCAAATCTTTACATGGGCTGAACA
* * *
17337844 AAGCATTGACACCAAAAGTTTT
131 AAG-ATAGAAAACAAAAG---T
17337866 ACAAGGTTGTTCTAACTAATGGCTATAAAATAAATGAATCTGATAAGTGCATATATAACAAATTT
1 ACAAGGTTGTTCTAACTAATGGCTATAAAATAAATGAATCTGATAAGTGCATATATAA-AAATTT
* *
17337931 GAAAATGGAAAAGGTGTCATAATTTGCTTATATGTAGATGACATGCTCATAT-TTTGCATGGGTC
65 GAAAATGGAAAAGGTGTCATAATTTGCTTATATGTA-A-G-CATG-TCAAATCTTTACATGGG-C
17337995 TGGAAC-AAG-TAGAAAACACAAAG
125 T-GAACAAAGATAGAAAACA-AAAG
17338018 AAATTGTTGT
Statistics
Matches: 131, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
152 57 0.44
153 40 0.31
154 1 0.01
155 7 0.05
156 15 0.11
157 9 0.07
158 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.32
Consensus pattern (148 bp):
ACAAGGTTGTTCTAACTAATGGCTATAAAATAAATGAATCTGATAAGTGCATATATAAAAATTTG
AAAATGGAAAAGGTGTCATAATTTGCTTATATGTAAGCATGTCAAATCTTTACATGGGCTGAACA
AAGATAGAAAACAAAAGT
Found at i:17343022 original size:23 final size:22
Alignment explanation
Indices: 17342946--17343022 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 22
17342936 CCAAACAATT
*
17342946 TTAAAATATAA-ATTTGATATTTA
1 TTAAAATTTAATATTT-A-ATTTA
17342969 -TAAAATTTAATATTTAATTTA
1 TTAAAATTTAATATTTAATTTA
*
17342990 TTCAACATTTAATATTTCAATTTA
1 TT-AAAATTTAATATTT-AATTTA
17343014 TTAAAATTT
1 TTAAAATTT
17343023 GACATCTCTC
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
21 5 0.11
22 11 0.23
23 23 0.49
24 8 0.17
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (22 bp):
TTAAAATTTAATATTTAATTTA
Found at i:17346480 original size:2 final size:2
Alignment explanation
Indices: 17346473--17346499 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17346463 AGCAAATGTG
17346473 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
17346500 TCAAGCACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17350119 original size:54 final size:54
Alignment explanation
Indices: 17350055--17350164 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
17350045 GCTTACTCTG
17350055 TTTCCTATATGTGAAAATAGACTCATCCAACTTCTAATTCAATTTCCACTATTT
1 TTTCCTATATGTGAAAATAGACTCATCCAACTTCTAATTCAATTTCCACTATTT
*
17350109 TTTCCTATATGTGAAAATAGACTCATCCAGCTTCTAATTCAATTTCCACTATTT
1 TTTCCTATATGTGAAAATAGACTCATCCAACTTCTAATTCAATTTCCACTATTT
17350163 TT
1 TT
17350165 AGTGATTTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.30, C:0.22, G:0.06, T:0.42
Consensus pattern (54 bp):
TTTCCTATATGTGAAAATAGACTCATCCAACTTCTAATTCAATTTCCACTATTT
Found at i:17350473 original size:45 final size:45
Alignment explanation
Indices: 17350394--17350613 Score: 282
Period size: 45 Copynumber: 4.9 Consensus size: 45
17350384 TCGTTACACA
* * **
17350394 GTGG-ATCAGCACATAGC-ACCACCCTTATAATCAATTATATTCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACCCG
* * ** ***
17350437 GTGGAATTAGCATATAGCAACCACCTTTATTTTCAATGATTTTCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACCCG
* *
17350482 GTGGAGTCAGCACATAGCAACCACCTTTATAATCAATGGTACCCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACCCG
* * *
17350527 GTAGAATCAGCACATAGCAACCACGTTTATAATCAATGGTACCCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACCCG
17350572 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATAC
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATAC
17350614 TCAGTACACG
Statistics
Matches: 153, Mismatches: 22, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
43 4 0.03
44 11 0.07
45 138 0.90
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACCCG
Found at i:17351827 original size:20 final size:20
Alignment explanation
Indices: 17351799--17351862 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
17351789 TCAAAATGCT
17351799 AACAAAGGCACCGAAGTGCA
1 AACAAAGGCACCGAAGTGCA
* *
17351819 AACAGAGGCATCGAAGTGCA
1 AACAAAGGCACCGAAGTGCA
* *
17351839 ATCAAAGGCACCAAAGTGCA
1 AACAAAGGCACCGAAGTGCA
17351859 AACA
1 AACA
17351863 GAGGGAACAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.45, C:0.23, G:0.23, T:0.08
Consensus pattern (20 bp):
AACAAAGGCACCGAAGTGCA
Found at i:17351873 original size:20 final size:20
Alignment explanation
Indices: 17351780--17351899 Score: 80
Period size: 20 Copynumber: 6.0 Consensus size: 20
17351770 CTAAACACAT
* * *
17351780 CAGAGAGCATCAAAATGCTAA
1 CAGAG-GCAACAAAGTGCAAA
* * *
17351801 CAAAGGCACCGAAGTGCAAA
1 CAGAGGCAACAAAGTGCAAA
* * *
17351821 CAGAGGCATCGAAGTGCAAT
1 CAGAGGCAACAAAGTGCAAA
* *
17351841 CAAAGGCACCAAAGTGCAAA
1 CAGAGGCAACAAAGTGCAAA
* *
17351861 CAGAGGGAACAAAGTGAAAA
1 CAGAGGCAACAAAGTGCAAA
* *
17351881 TAGAGG-AATTAAAGTGCAA
1 CAGAGGCAA-CAAAGTGCAA
17351900 TCCCATACAA
Statistics
Matches: 79, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
19 2 0.03
20 73 0.92
21 4 0.05
ACGTcount: A:0.47, C:0.17, G:0.25, T:0.11
Consensus pattern (20 bp):
CAGAGGCAACAAAGTGCAAA
Found at i:17351876 original size:40 final size:40
Alignment explanation
Indices: 17351801--17351876 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
17351791 AAAATGCTAA
* * *
17351801 CAAAGGCACCGAAGTGCAAACAGAGGCATCGAAGTGCAAT
1 CAAAGGCACCAAAGTGCAAACAGAGGCAACAAAGTGCAAT
*
17351841 CAAAGGCACCAAAGTGCAAACAGAGGGAACAAAGTG
1 CAAAGGCACCAAAGTGCAAACAGAGGCAACAAAGTG
17351877 AAAATAGAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.43, C:0.21, G:0.28, T:0.08
Consensus pattern (40 bp):
CAAAGGCACCAAAGTGCAAACAGAGGCAACAAAGTGCAAT
Found at i:17359963 original size:19 final size:19
Alignment explanation
Indices: 17359935--17359980 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
17359925 ACATGAGATT
17359935 ATAAAATATTTATCA-ATC
1 ATAAAATATTTATCACATC
*
17359953 ATAACAATATTTGTCACATC
1 ATAA-AATATTTATCACATC
*
17359973 ATATAATA
1 ATAAAATA
17359981 AAAATCAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.17
19 14 0.58
20 6 0.25
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (19 bp):
ATAAAATATTTATCACATC
Found at i:17360819 original size:33 final size:34
Alignment explanation
Indices: 17360777--17360844 Score: 86
Period size: 33 Copynumber: 2.0 Consensus size: 34
17360767 TTGTATGCTT
*
17360777 TTGATATGGTGCTGGTATGGTGG-TGTATTGGTGG
1 TTGATATGGTGCTGGTATAGTGGTTGTA-TGGTGG
* *
17360811 TTGA-ATGGTGGTGGTGTAGTGGTTGTATGGTGG
1 TTGATATGGTGCTGGTATAGTGGTTGTATGGTGG
17360844 T
1 T
17360845 GATTCGGTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
33 22 0.73
34 8 0.27
ACGTcount: A:0.12, C:0.01, G:0.46, T:0.41
Consensus pattern (34 bp):
TTGATATGGTGCTGGTATAGTGGTTGTATGGTGG
Found at i:17360854 original size:22 final size:21
Alignment explanation
Indices: 17360791--17360870 Score: 81
Period size: 22 Copynumber: 3.7 Consensus size: 21
17360781 TATGGTGCTG
17360791 GTATGGTGGTGTATTGGTGGTT
1 GTATGGTGGTG-ATTGGTGGTT
* * *
17360813 GAATGGTGGTGGTGTAGTGGTT
1 GTATGGTGGTGAT-TGGTGGTT
17360835 GTATGGTGGTGATTCGGTGG-T
1 GTATGGTGGTGATT-GGTGGTT
*
17360856 GATAGGGTGGTGATT
1 G-TATGGTGGTGATT
17360871 TGGTTTGTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
21 4 0.08
22 44 0.92
ACGTcount: A:0.12, C:0.01, G:0.47, T:0.39
Consensus pattern (21 bp):
GTATGGTGGTGATTGGTGGTT
Found at i:17363181 original size:135 final size:135
Alignment explanation
Indices: 17362842--17363230 Score: 465
Period size: 135 Copynumber: 2.9 Consensus size: 135
17362832 TAGTGAACTT
* * * * * *
17362842 CATATGTTGTCATAGCCTAGCTATGGTCTTACACCATACTATGCCATGTTTACTATCCTGGCGGG
1 CATATGTTATCATAGCCCAACTATGGTCTTACACCATACGATGCCATGTTTACTATCCAGGCGGA
* * * * * *
17362907 CTTTATATGTTACCATAGCCCAGCTATAGTCCTAAACCATACGATGCCATGTTTATTATCCTAGC
66 CTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACGATGCCATG-TTACTATCCTAGC
* *
17362972 AGATTT
130 AGACTG
* * * * * * *
17362978 CATATGTTTTCATAACCCAATTATGGTCTTACACCATATGATGCCATGTTTATTATCCTA-GAGA
1 CATATGTTATCATAGCCCAACTATGGTCTTACACCATACGATGCCATGTTTACTATCC-AGGCGG
* * * *
17363042 ACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACAATGCCATGTTACTGTCTTGGC
65 ACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACGATGCCATGTTACTATCCTAGC
*
17363107 GGACTG
130 AGACTG
* * *
17363113 CATATGTTACCATAGCCCAACTATGGTTTTACACCATACGATGCCATGTTTACTGTCCAGGCGGA
1 CATATGTTATCATAGCCCAACTATGGTCTTACACCATACGATGCCATGTTTACTATCCAGGCGGA
* * *
17363178 CTTCATATGTTGTCATAGCCCAACTATGGTCTTACACCATATGATGCCATGTT
66 CTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACGATGCCATGTT
17363231 TATTGTCCTA
Statistics
Matches: 212, Mismatches: 39, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
134 1 0.00
135 114 0.54
136 97 0.46
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (135 bp):
CATATGTTATCATAGCCCAACTATGGTCTTACACCATACGATGCCATGTTTACTATCCAGGCGGA
CTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACGATGCCATGTTACTATCCTAGCA
GACTG
Found at i:17363208 original size:203 final size:204
Alignment explanation
Indices: 17362831--17363250 Score: 603
Period size: 203 Copynumber: 2.1 Consensus size: 204
17362821 ATTCACTATT
* * * *
17362831 CTAGTGAACTTCATATGTTGTCATAGCCTAGCTATGGTCTTACACCATACTATGCCATGTTTACT
1 CTAGAGAACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACAATGCCATGTTTACT
* ** *
17362896 ATCCTGGCGGGCTTTATATGTTACCATAGCCCAGCTATAGTCCTAAACCATACGATGCCATGTTT
66 ATCCTGGCGGACTGCATATGTTACCATAGCCCAACTATAGTCCTAAACCATACGATGCCATGTTT
* * * *
17362961 ATTATCCTAGCAGATTTCATATGTTTTCATAACCCAATTATGGTCTTACACCATATGATGCCATG
131 ACTATCCTAGCAGACTTCATATGTTGTCATAACCCAACTATGGTCTTACACCATATGATGCCATG
17363026 TTTATTATC
196 TTTATTATC
17363035 CTAGAGAACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACAATGCCATG-TTACT
1 CTAGAGAACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACAATGCCATGTTTACT
* * * ** *
17363099 GTCTTGGCGGACTGCATATGTTACCATAGCCCAACTATGGTTTTACACCATACGATGCCATGTTT
66 ATCCTGGCGGACTGCATATGTTACCATAGCCCAACTATAGTCCTAAACCATACGATGCCATGTTT
* * *
17363164 ACTGTCC-AGGCGGACTTCATATGTTGTCATAGCCCAACTATGGTCTTACACCATATGATGCCAT
131 ACTATCCTA-GCAGACTTCATATGTTGTCATAACCCAACTATGGTCTTACACCATATGATGCCAT
*
17363228 GTTTATTGTC
195 GTTTATTATC
17363238 CTA-ACGAACTTCA
1 CTAGA-GAACTTCA
17363251 GATTTGAGGA
Statistics
Matches: 192, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
202 2 0.01
203 135 0.70
204 55 0.29
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (204 bp):
CTAGAGAACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACAATGCCATGTTTACT
ATCCTGGCGGACTGCATATGTTACCATAGCCCAACTATAGTCCTAAACCATACGATGCCATGTTT
ACTATCCTAGCAGACTTCATATGTTGTCATAACCCAACTATGGTCTTACACCATATGATGCCATG
TTTATTATC
Found at i:17363249 original size:68 final size:68
Alignment explanation
Indices: 17362825--17363250 Score: 453
Period size: 68 Copynumber: 6.3 Consensus size: 68
17362815 TTCCTGATTC
* * * * * *
17362825 ACTATTCTAGTGAACTTCATATGTTGTCATAGCCTAGCTATGGTCTTACACCATACTATGCCATG
1 ACTATCCTAGCGAACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCATG
17362890 TTT
66 TTT
* ** * * * * * *
17362893 ACTATCCTGGCGGGCTTTATATGTTACCATAGCCCAGCTATAGTCCTAAACCATACGATGCCATG
1 ACTATCCTAGCGAACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCATG
17362958 TTT
66 TTT
* * ** * * *
17362961 ATTATCCTAGC-AGATTTCATATGTTTTCATAACCCAATTATGGTCTTACACCATATGATGCCAT
1 ACTATCCTAGCGA-ACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCAT
17363025 GTTT
65 GTTT
* * * *
17363029 ATTATCCTAGAGAACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACAATGCCATG
1 ACTATCCTAGCGAACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCATG
17363094 -TT
66 TTT
* * * * * * *
17363096 ACTGTCTTGGCGGACTGCATATGTTACCATAGCCCAACTATGGTTTTACACCATACGATGCCATG
1 ACTATCCTAGCGAACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCATG
17363161 TTT
66 TTT
* * * *
17363164 ACTGTCC-AGGCGGACTTCATATGTTGTCATAGCCCAACTATGGTCTTACACCATATGATGCCAT
1 ACTATCCTA-GCGAACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCAT
17363228 GTTT
65 GTTT
* * *
17363232 ATTGTCCTAACGAACTTCA
1 ACTATCCTAGCGAACTTCA
17363251 GATTTGAGGA
Statistics
Matches: 295, Mismatches: 58, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
67 56 0.19
68 237 0.80
69 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (68 bp):
ACTATCCTAGCGAACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCATG
TTT
Found at i:17364377 original size:22 final size:24
Alignment explanation
Indices: 17364352--17364399 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
17364342 CCAACTACTC
17364352 GTTGTAACACCTTCAGC-T-GCTT
1 GTTGTAACACCTTCAGCATGGCTT
*
17364374 GTTGTAGCACCTTCAGCATGGCTT
1 GTTGTAACACCTTCAGCATGGCTT
17364398 GT
1 GT
17364400 GGCGCAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.70
23 1 0.04
24 6 0.26
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (24 bp):
GTTGTAACACCTTCAGCATGGCTT
Found at i:17372841 original size:68 final size:67
Alignment explanation
Indices: 17372729--17372902 Score: 201
Period size: 68 Copynumber: 2.6 Consensus size: 67
17372719 AGTGTTTCCA
* * *
17372729 ACCATACAATGTCATGTTTACTGT-TATGGCAGACTTTATTTGTTGCTACA-A-CCCAACTTTGG
1 ACCATACAATGTCATGTTTACTGTCT-TGG-AGACTTCATATGTTG-T-CATAGCCCAACTATGG
17372791 TCTTAC
62 TCTTAC
* * *
17372797 ACCATACTATGTCATGTTTGCTGTCTTGGAGGACTTCATATGTTGTCATAGCCCAGCTATGGTCT
1 ACCATACAATGTCATGTTTACTGTCTTGGA-GACTTCATATGTTGTCATAGCCCAACTATGGTCT
17372862 TAC
65 TAC
* *
17372865 ACCATACAATGTCATGTTTACTATCTTGGCTGACTTCA
1 ACCATACAATGTCATGTTTACTGTCTTGG-AGACTTCA
17372903 GATTTTGAGA
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
66 2 0.02
67 3 0.03
68 85 0.93
69 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (67 bp):
ACCATACAATGTCATGTTTACTGTCTTGGAGACTTCATATGTTGTCATAGCCCAACTATGGTCTT
AC
Found at i:17395327 original size:15 final size:16
Alignment explanation
Indices: 17395303--17395346 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 16
17395293 TAGGCTCGGG
17395303 TTTAATTTTAAATTAT
1 TTTAATTTTAAATTAT
17395319 TTT-ATTTT-AATTAT
1 TTTAATTTTAAATTAT
17395333 TTTAATTTTAAATT
1 TTTAATTTTAAATT
17395347 GCTTTCTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.35
15 10 0.38
16 7 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTAATTTTAAATTAT
Found at i:17396478 original size:15 final size:13
Alignment explanation
Indices: 17396432--17396471 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 13
17396422 AAAATCTCAA
*
17396432 TAAATAAAAATAT
1 TAAATTAAAATAT
17396445 TAAATTATTAAATAT
1 TAAATTA--AAATAT
17396460 TAAATTAAAATA
1 TAAATTAAAATA
17396472 ATATAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 11 0.46
15 13 0.54
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATTAAAATAT
Found at i:17401013 original size:138 final size:138
Alignment explanation
Indices: 17400765--17401325 Score: 917
Period size: 138 Copynumber: 4.1 Consensus size: 138
17400755 GAGAACATAG
* * * * *
17400765 ATATAATTAATATATGAATTTAATTCATACAAAATATTCATTGTATATGTTTCACAGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
17400830 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
17400895 TGGAAAGA
131 TGGAAAGA
*
17400903 ATATAATTAATATATGAATTTGATTCATACGAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* * *
17400968 AATATAAACAATTATATTAATTAATTTCGGTCAAAATGTAAAAGACATGGAAATTAGTATTCTTT
66 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
17401033 TGGAAAGA
131 TGGAAAGA
* *
17401041 ATATAATTAATATATGAATTTGATTCATACGAAATATTAATTGCATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
*
17401106 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
* *
17401171 CGAAAAGA
131 TGGAAAGA
* **
17401179 ATATAATTAATATATGAATTTGATTTATACAAAAATATTAATTGTATAGGTTTTACCGAATTTAT
1 ATATAATTAATATATGAATTTGATTCATAC-AAAATATTAATTGTATATATTTTACCGAATTTAT
** *
17401244 TAATATAAA-AAGTTATATTAATTAATTTCAATCAAAATATAAAAGACATGGAAATTAATATTCT
65 TAATATAAACAA-TTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCT
17401308 TTTGGAAAGA
129 TTTGGAAAGA
17401318 ATATAATT
1 ATATAATT
17401326 CCTTTTTCTA
Statistics
Matches: 394, Mismatches: 27, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
138 290 0.74
139 104 0.26
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
TGGAAAGA
Found at i:17401389 original size:75 final size:75
Alignment explanation
Indices: 17401301--17401448 Score: 233
Period size: 75 Copynumber: 2.0 Consensus size: 75
17401291 ATGGAAATTA
* * * * *
17401301 ATATTCTTTTGGAAAGAATATAATTCCTTTTTCTAACTTTTCATTTGCCTTCTCTATTAGTAAGG
1 ATATTCTTTTGGAAAGAAAAGAATTCATTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
17401366 GAATAATCTT
66 GAATAATCTT
* *
17401376 ATATTCTTTTGGAAATAAAAGAATTTATTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
1 ATATTCTTTTGGAAAGAAAAGAATTCATTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
17401441 GAATAATC
66 GAATAATC
17401449 CTAGTTTTCT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 66 1.00
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.45
Consensus pattern (75 bp):
ATATTCTTTTGGAAAGAAAAGAATTCATTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
GAATAATCTT
Found at i:17402577 original size:31 final size:31
Alignment explanation
Indices: 17402537--17402629 Score: 118
Period size: 31 Copynumber: 3.0 Consensus size: 31
17402527 CGATGGACTG
* *
17402537 TATC-TGTGTTTACGGTCCCAACGGACTATC
1 TATCATGTGTTTACTGTCCCAGCGGACTATC
*
17402567 TATCATGTGTTTACTGTCCCTGCGGGA-TATC
1 TATCATGTGTTTACTGTCCCAGC-GGACTATC
* *
17402598 TATCATGTGTTTATTGTCCCAGCAGACTATC
1 TATCATGTGTTTACTGTCCCAGCGGACTATC
17402629 T
1 T
17402630 GTTCTATGGA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
30 6 0.11
31 45 0.83
32 3 0.06
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (31 bp):
TATCATGTGTTTACTGTCCCAGCGGACTATC
Found at i:17406386 original size:16 final size:18
Alignment explanation
Indices: 17406360--17406392 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
17406350 TTAAATTAAC
17406360 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
17406377 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
17406393 CCTAATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:17412364 original size:19 final size:19
Alignment explanation
Indices: 17412340--17412382 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
17412330 GTTTCTAATA
*
17412340 TATATTATATTTTATACC-T
1 TATATTAT-TTATATACCTT
17412359 TATATTATTTATATACCTT
1 TATATTATTTATATACCTT
17412378 TATAT
1 TATAT
17412383 ACATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATTTATATACCTT
Found at i:17414292 original size:80 final size:80
Alignment explanation
Indices: 17414126--17414280 Score: 247
Period size: 80 Copynumber: 1.9 Consensus size: 80
17414116 GGCGTTTGGA
* * *
17414126 TAAAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTTTGAAAAACGCCGCTATAGATCGAGC
1 TAAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGACC
17414191 ATTAGCGGCGCCTCT
66 ATTAGCGGCGCCTCT
* * * *
17414206 TAAAAAACACCGCTATAGATTGAGCATTAGCGGCGCTTTTTGAAAAATGCCGCTATAGGTCTACC
1 TAAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGACC
17414271 ATTAGCGGCG
66 ATTAGCGGCG
17414281 TTTTTTTAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (80 bp):
TAAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGACC
ATTAGCGGCGCCTCT
Found at i:17414293 original size:40 final size:40
Alignment explanation
Indices: 17414128--17414292 Score: 222
Period size: 40 Copynumber: 4.1 Consensus size: 40
17414118 CGTTTGGATA
*
17414128 AAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * *
17414168 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCCTCTTA
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* *
17414208 AAAAACACCGCTATAGATTGAGCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * * * *
17414248 AAAAATGCCGCTATAGGTCTACCATTAGCGGCGTTTTTTT
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
17414288 AAAAA
1 AAAAA
17414293 TTAAGCACCA
Statistics
Matches: 108, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 108 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
Found at i:17414387 original size:40 final size:40
Alignment explanation
Indices: 17414332--17414441 Score: 175
Period size: 40 Copynumber: 2.8 Consensus size: 40
17414322 AGCTTTAGTG
*
17414332 GCATTAGCGGCACTTCTTGAAAAACGCTACTATAGATCGA
1 GCATTAGCGGCACTTCTTGAAAAACGCCACTATAGATCGA
* * *
17414372 GCATTAGTGGCACTTCTTGAAAAACGCCGCTATAGATTGA
1 GCATTAGCGGCACTTCTTGAAAAACGCCACTATAGATCGA
*
17414412 GCATTAGCGGCACTTTTTGAAAAACGCCAC
1 GCATTAGCGGCACTTCTTGAAAAACGCCAC
17414442 AAAAAAATTA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (40 bp):
GCATTAGCGGCACTTCTTGAAAAACGCCACTATAGATCGA
Found at i:17414642 original size:21 final size:20
Alignment explanation
Indices: 17414586--17414646 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 20
17414576 TTATGGGTTA
*
17414586 AGGG-TTAGTGGTTTAAGGTTT
1 AGGGTTTAG-GGTTT-AGATTT
** *
17414607 AGGGTTTTTGTTTTATGATTT
1 AGGGTTTAGGGTTTA-GATTT
17414628 AGGGTTTAGGGTTTAGATT
1 AGGGTTTAGGGTTTAGATT
17414647 AATTAGTATT
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
20 5 0.16
21 24 0.77
22 2 0.06
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (20 bp):
AGGGTTTAGGGTTTAGATTT
Found at i:17414774 original size:14 final size:14
Alignment explanation
Indices: 17414749--17414786 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
17414739 GTCTAGGGTC
17414749 TATGGTTT-AGGTA
1 TATGGTTTAAGGTA
*
17414762 TATGGTTTAAGGTT
1 TATGGTTTAAGGTA
*
17414776 TAAGGTTTAAG
1 TATGGTTTAAG
17414787 AGTTACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (14 bp):
TATGGTTTAAGGTA
Found at i:17414834 original size:14 final size:14
Alignment explanation
Indices: 17414817--17414867 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
17414807 ATAGATTATG
*
17414817 GGTTTAGGGATTAA
1 GGTTTAGGGTTTAA
**
17414831 GGTTTATTGTTTAA
1 GGTTTAGGGTTTAA
* *
17414845 GGGTTGGGGTTTAA
1 GGTTTAGGGTTTAA
17414859 GGTTTAGGG
1 GGTTTAGGG
17414868 GTTAGTGGTT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:17414863 original size:21 final size:20
Alignment explanation
Indices: 17414839--17414891 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
17414829 AAGGTTTATT
17414839 GTTTAAGGGTT-GGGGTTTAA
1 GTTTAAGGGTTAGGGG-TTAA
* *
17414859 GGTTTAGGGGTTAGTGGTTAA
1 -GTTTAAGGGTTAGGGGTTAA
17414880 GTGTTAAGGGTT
1 GT-TTAAGGGTT
17414892 TAGAGTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 2 0.07
21 22 0.81
22 3 0.11
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.40
Consensus pattern (20 bp):
GTTTAAGGGTTAGGGGTTAA
Found at i:17417744 original size:14 final size:14
Alignment explanation
Indices: 17417725--17417751 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17417715 TCCTTGTTTA
17417725 TGATTTATACATAT
1 TGATTTATACATAT
17417739 TGATTTATACATA
1 TGATTTATACATA
17417752 GTGTGTACAT
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:0.07, G:0.07, T:0.48
Consensus pattern (14 bp):
TGATTTATACATAT
Found at i:17419803 original size:80 final size:83
Alignment explanation
Indices: 17419654--17419862 Score: 219
Period size: 83 Copynumber: 2.5 Consensus size: 83
17419644 AAAGATCATG
* * * * * *
17419654 TTCTTTAGCGGCGTTTGTAATAAAAGTGTCACTAAAGGTCATGTTCTTTAGTGGCGTTTATGATA
1 TTCTTTAGCGGCGTTTGT-AGAAAAGCGCCGCTAAAGATCATG-TCTTTAGCGGCGTTTATGATA
*
17419719 AAAGCGCCGCTAAAGGT-A-
64 AAAGCACCGCTAAAGGTCAC
* * * * * *
17419737 TTTTTTAGCGGCGTTTGT-GAAAAGTGCTGTTAAAGATCATGTCTTTAGCGGCGTTTGTGGGT-A
1 TTCTTTAGCGGCGTTTGTAGAAAAGCGCCGCTAAAGATCATGTCTTTAGCGGCGTTTAT-GATAA
17419800 AAGCACCGCTAAAGGTCAC
65 AAGCACCGCTAAAGGTCAC
* *
17419819 GTTCTTTAGCGGCGTTTTTATAAAAGCGCCGCTAAAGATCATGT
1 -TTCTTTAGCGGCGTTTGTAGAAAAGCGCCGCTAAAGATCATGT
17419863 TCTATAGCAA
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
80 31 0.30
81 20 0.19
83 33 0.32
84 20 0.19
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (83 bp):
TTCTTTAGCGGCGTTTGTAGAAAAGCGCCGCTAAAGATCATGTCTTTAGCGGCGTTTATGATAAA
AGCACCGCTAAAGGTCAC
Found at i:17419851 original size:42 final size:43
Alignment explanation
Indices: 17419644--17419870 Score: 236
Period size: 43 Copynumber: 5.4 Consensus size: 43
17419634 AAAACCGTTA
* * * *
17419644 AAAGATCATGTTCTTTAGCGGCGTTTGTAATAAAAGTGTCACT
1 AAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCCGCT
* * *
17419687 AAAGGTCATGTTCTTTAGTGGCGTTTATGATAAAAGCGCCGCT
1 AAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCCGCT
* * * *
17419730 AAAGGT-AT-TT-TTTAGCGGCGTTTGTG--AAAAGTGCTGTT
1 AAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCCGCT
* *
17419768 AAAGATCATG-TCTTTAGCGGCGTTTGTGGGT-AAAGCACCGCT
1 AAAGATCATGTTCTTTAGCGGCGTTTGT-GATAAAAGCGCCGCT
* * *
17419810 AAAGGTCACGTTCTTTAGCGGCGTTT-TTATAAAAGCGCCGCT
1 AAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCCGCT
*
17419852 AAAGATCATGTTCTATAGC
1 AAAGATCATGTTCTTTAGC
17419871 AACGTTGTCT
Statistics
Matches: 151, Mismatches: 25, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
38 14 0.09
39 3 0.02
40 29 0.19
41 4 0.03
42 44 0.29
43 57 0.38
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
AAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCCGCT
Found at i:17421369 original size:4 final size:4
Alignment explanation
Indices: 17421360--17421390 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
17421350 TACAAACTTC
17421360 AATT AATT AATT AATT AATT AATT AA-T AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT
17421391 CAAAAATCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:17434552 original size:41 final size:41
Alignment explanation
Indices: 17434500--17434645 Score: 193
Period size: 41 Copynumber: 3.6 Consensus size: 41
17434490 ACAAATTCAA
* * *
17434500 CGGCACATAGCCCGCTAGACTTATAGCCTGATTCAGATCAC
1 CGGCACGTAGCCTGCTAGACTTATAACCTGATTCAGATCAC
* ** *
17434541 CAGCACGTAGCCTGCTAGGTTTATAACCTGATTTAGATCAC
1 CGGCACGTAGCCTGCTAGACTTATAACCTGATTCAGATCAC
**
17434582 CGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGATCAC
1 CGGCACGTAGCCTGCTAGACTTATAACCTGATTCAGATCAC
**
17434623 CGGCAATTAGCCTGCTAGACTTA
1 CGGCACGTAGCCTGCTAGACTTA
17434646 AAGTCTGAAA
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 92 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (41 bp):
CGGCACGTAGCCTGCTAGACTTATAACCTGATTCAGATCAC
Found at i:17435535 original size:12 final size:12
Alignment explanation
Indices: 17435484--17435538 Score: 56
Period size: 12 Copynumber: 4.2 Consensus size: 12
17435474 AATAACTTTT
*
17435484 ATATATATATGC
1 ATATATATATAC
17435496 ATATATATATTCTAGC
1 ATATATATA---TA-C
17435512 ATTATATATATAC
1 A-TATATATATAC
17435525 ATATATATATAC
1 ATATATATATAC
17435537 AT
1 AT
17435539 GCTTATTCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
12 22 0.59
13 2 0.05
14 2 0.05
15 1 0.03
16 2 0.05
17 8 0.22
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (12 bp):
ATATATATATAC
Found at i:17445516 original size:41 final size:41
Alignment explanation
Indices: 17445468--17445663 Score: 204
Period size: 41 Copynumber: 4.8 Consensus size: 41
17445458 ACCGGACTGT
*
17445468 AAACAAGGGCACATATGTGCAATTCTGGGGTACCAAAGTAC
1 AAACAAGGGCACATATGTGCAATTCTGGGGTACCGAAGTAC
* * ***
17445509 AAGCAAGGGCACGTATGTGCAATTCAT-GGGTATTTAAGTAC
1 AAACAAGGGCACATATGTGCAATTC-TGGGGTACCGAAGTAC
* *
17445550 AAACAAGGGCACGTATGTGTAATT-TAGGGGTACCGAAGTAC
1 AAACAAGGGCACATATGTGCAATTCT-GGGGTACCGAAGTAC
* * *
17445591 CAAC-AGGGCCACATATGTACAATTCAGGGGTACCGAAGTAC
1 AAACAAGGG-CACATATGTGCAATTCTGGGGTACCGAAGTAC
*
17445632 AAACAGGGGCA-AGTATGTGCAATT-TAGGGGTA
1 AAACAAGGGCACA-TATGTGCAATTCT-GGGGTA
17445664 GGGGTATAAT
Statistics
Matches: 128, Mismatches: 19, Indels: 16
0.79 0.12 0.10
Matches are distributed among these distances:
39 1 0.01
40 5 0.04
41 118 0.92
42 4 0.03
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (41 bp):
AAACAAGGGCACATATGTGCAATTCTGGGGTACCGAAGTAC
Found at i:17445608 original size:82 final size:82
Alignment explanation
Indices: 17445468--17445663 Score: 245
Period size: 82 Copynumber: 2.4 Consensus size: 82
17445458 ACCGGACTGT
* * *
17445468 AAACAAGGGCACATATGTGCAATTCT-GGGGTACCAAAGTACAAGCAAGGGCACGTATGTGCAAT
1 AAACAAGGGCACGTATGTGCAATT-TAGGGGTACCAAAGTACAAGCAAGGGCACATATGTACAAT
* ***
17445532 TCATGGGTATTTAAGTAC
65 TCAGGGGTACCGAAGTAC
* *
17445550 AAACAAGGGCACGTATGTGTAATTTAGGGGTACCGAAGTACCAA-C-AGGGCCACATATGTACAA
1 AAACAAGGGCACGTATGTGCAATTTAGGGGTACCAAAGTA-CAAGCAAGGG-CACATATGTACAA
17445613 TTCAGGGGTACCGAAGTAC
64 TTCAGGGGTACCGAAGTAC
* *
17445632 AAACAGGGGCAAGTATGTGCAATTTAGGGGTA
1 AAACAAGGGCACGTATGTGCAATTTAGGGGTA
17445664 GGGGTATAAT
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
81 5 0.05
82 91 0.92
83 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (82 bp):
AAACAAGGGCACGTATGTGCAATTTAGGGGTACCAAAGTACAAGCAAGGGCACATATGTACAATT
CAGGGGTACCGAAGTAC
Found at i:17445640 original size:20 final size:20
Alignment explanation
Indices: 17445575--17445640 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
17445565 TGTGTAATTT
*
17445575 AGGGGTACCGAAGTACCAAC
1 AGGGGTACCGAAGTACAAAC
** ** * *
17445595 AGGGCCACATATGTACAATTC
1 AGGGGTACCGAAGTACAA-AC
17445616 AGGGGTACCGAAGTACAAAC
1 AGGGGTACCGAAGTACAAAC
17445636 AGGGG
1 AGGGG
17445641 CAAGTATGTG
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
20 18 0.56
21 14 0.44
ACGTcount: A:0.35, C:0.21, G:0.30, T:0.14
Consensus pattern (20 bp):
AGGGGTACCGAAGTACAAAC
Found at i:17449097 original size:41 final size:41
Alignment explanation
Indices: 17449052--17449219 Score: 223
Period size: 41 Copynumber: 4.1 Consensus size: 41
17449042 ATCGAGTTGT
* * *
17449052 AAACAGGGGAACATATGTGTAATTCAGGGGTACTAAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACTAAAGTAC
*
17449093 AAACAGGGGCACGTATGTGCAATTCAGGGGTAC-AGAAGTAA
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACTA-AAGTAC
* * *
17449134 AAATAGGGGCACGTATCTGCAATTCAGGGGTACTGAAGTA-
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACTAAAGTAC
* * *
17449174 AAACGGGGGCACGCATGTGCAATTCAGGGGTACCAAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACTAAAGTAC
17449215 AAACA
1 AAACA
17449220 AGGAATAATC
Statistics
Matches: 110, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
40 35 0.32
41 75 0.68
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.18
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTCAGGGGTACTAAAGTAC
Found at i:17449122 original size:21 final size:21
Alignment explanation
Indices: 17449096--17449163 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
17449086 AAAGTACAAA
17449096 CAGGGGCACGTATGTGCAATT
1 CAGGGGCACGTATGTGCAATT
* * ** *
17449117 CAGGGGTACAG-AAGTAAAAAT
1 CAGGGGCAC-GTATGTGCAATT
*
17449138 -AGGGGCACGTATCTGCAATT
1 CAGGGGCACGTATGTGCAATT
17449158 CAGGGG
1 CAGGGG
17449164 TACTGAAGTA
Statistics
Matches: 33, Mismatches: 11, Indels: 6
0.66 0.22 0.12
Matches are distributed among these distances:
19 1 0.03
20 12 0.36
21 19 0.58
22 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.34, T:0.19
Consensus pattern (21 bp):
CAGGGGCACGTATGTGCAATT
Found at i:17456518 original size:26 final size:26
Alignment explanation
Indices: 17456486--17456541 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
17456476 GAAAAGAGTG
*
17456486 TTAATTTAATCTTAAAGGTCCCATGT
1 TTAATTTAATCCTAAAGGTCCCATGT
17456512 TTAATTTAATCCTAAAGGTCCCATGT
1 TTAATTTAATCCTAAAGGTCCCATGT
17456538 TTAA
1 TTAA
17456542 AACCCCCCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (26 bp):
TTAATTTAATCCTAAAGGTCCCATGT
Found at i:17466207 original size:18 final size:19
Alignment explanation
Indices: 17466184--17466219 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
17466174 TCACATGTGA
17466184 AAGTGAAAAA-TGATTTTT
1 AAGTGAAAAAGTGATTTTT
17466202 AAGTGAAAAAGTGATTTT
1 AAGTGAAAAAGTGATTTT
17466220 GGTTATATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.36
Consensus pattern (19 bp):
AAGTGAAAAAGTGATTTTT
Found at i:17472131 original size:4 final size:4
Alignment explanation
Indices: 17472122--17472221 Score: 191
Period size: 4 Copynumber: 25.0 Consensus size: 4
17472112 TGAATCTGTG
*
17472122 ATGT ATGT ATGT ATGC ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
17472170 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
17472218 ATGT
1 ATGT
17472222 TTGTTAAATA
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 94 1.00
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:17472287 original size:9 final size:9
Alignment explanation
Indices: 17472261--17472301 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
17472251 TGAAATTGAG
17472261 TGAAATATA
1 TGAAATATA
*
17472270 TG-GATATA
1 TGAAATATA
17472278 TGAAATATA
1 TGAAATATA
17472287 TGAAAT-T-
1 TGAAATATA
17472294 TGAAATAT
1 TGAAATAT
17472302 GTTTATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
7 6 0.21
8 9 0.32
9 13 0.46
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.37
Consensus pattern (9 bp):
TGAAATATA
Found at i:17472299 original size:16 final size:17
Alignment explanation
Indices: 17472261--17472301 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
17472251 TGAAATTGAG
*
17472261 TGAAATATATGGATATA
1 TGAAATATATGGAAATA
*
17472278 TGAAATATAT-GAAATT
1 TGAAATATATGGAAATA
17472294 TGAAATAT
1 TGAAATAT
17472302 GTTTATGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.37
Consensus pattern (17 bp):
TGAAATATATGGAAATA
Found at i:17478113 original size:21 final size:21
Alignment explanation
Indices: 17478074--17478114 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17478064 TGGAAACAGG
* **
17478074 AATGATCTTAATGGCAATCCA
1 AATGATCGTAATGAAAATCCA
17478095 AATGATCGTAATGAAAATCC
1 AATGATCGTAATGAAAATCC
17478115 TCCCGTTGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (21 bp):
AATGATCGTAATGAAAATCCA
Found at i:17480312 original size:33 final size:33
Alignment explanation
Indices: 17480265--17480331 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
17480255 TTGGTAAACT
*
17480265 AGATCAGGTATAGGGTGTTACAGAAAATGTGAA
1 AGATCAGGTATAGGGTATTACAGAAAATGTGAA
*
17480298 AGATTAGGTATAGGGTATTACAGAAAATGTGAA
1 AGATCAGGTATAGGGTATTACAGAAAATGTGAA
17480331 A
1 A
17480332 TTTTAAACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.04, G:0.28, T:0.25
Consensus pattern (33 bp):
AGATCAGGTATAGGGTATTACAGAAAATGTGAA
Found at i:17487764 original size:2 final size:2
Alignment explanation
Indices: 17487759--17487783 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17487749 GAATGATATA
17487759 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
17487784 TTTATGTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:17498902 original size:43 final size:43
Alignment explanation
Indices: 17498841--17498932 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 43
17498831 ATGTTCCAAA
*
17498841 ATCGATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
17498884 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
*
17498927 TTCGAT
1 ATCGAT
17498933 ACTAGATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (43 bp):
ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
Found at i:17498940 original size:43 final size:43
Alignment explanation
Indices: 17498841--17498953 Score: 156
Period size: 43 Copynumber: 2.6 Consensus size: 43
17498831 ATGTTCCAAA
* *
17498841 ATCGATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTGGC
1 ATCGATCTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
*
17498884 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
1 ATCGATCTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
* *
17498927 TTCGATACT-AGATTTTCATGTAAGACC
1 ATCGAT-CTGAGA-TTTCGTGTAAGACC
17498954 TTGTCTGGGA
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
43 50 0.78
44 14 0.22
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (43 bp):
ATCGATCTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
Found at i:17506756 original size:25 final size:26
Alignment explanation
Indices: 17506719--17506770 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
17506709 GTGGTTTTTT
* *
17506719 TTTTTTTTGTCTTTCTTGCATGT-TTC
1 TTTTTCTTGTCTTT-ATGCATGTGTTC
17506745 TTTTTCTT-TCTTTATGCATGTGTTC
1 TTTTTCTTGTCTTTATGCATGTGTTC
17506770 T
1 T
17506771 ACGCCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 7 0.30
25 9 0.39
26 7 0.30
ACGTcount: A:0.06, C:0.15, G:0.12, T:0.67
Consensus pattern (26 bp):
TTTTTCTTGTCTTTATGCATGTGTTC
Found at i:17510166 original size:51 final size:50
Alignment explanation
Indices: 17510102--17510419 Score: 252
Period size: 51 Copynumber: 6.3 Consensus size: 50
17510092 TGAAATAGAT
* *
17510102 GGCTACTACGTGTATCGATAAATAATGGTCAAATGTGTAGTACTAAGTGAA
1 GGCTACTACGTGTACCGATAAAT-ATGGTCACATGTGTAGTACTAAGTGAA
* * * * * * * **
17510153 GGCTACAATGTGTACCGAGAAGCTTTGGTCACGTTTGTAGTACTGTGTGAA
1 GGCTACTACGTGTACCGATAA-ATATGGTCACATGTGTAGTACTAAGTGAA
* * *
17510204 GGCTACTACGTGAATCGATAAATGATGGTGACATGTGTAGTACTAAGTGAA
1 GGCTACTACGTGTACCGATAAAT-ATGGTCACATGTGTAGTACTAAGTGAA
* * * *
17510255 GGCTATTATGTGTACCGA-AAAGCTTTGGTCACGTGTGTAGTACTATA-TGAA
1 GGCTACTACGTGTACCGATAAA--TATGGTCACATGTGTAGTACTA-AGTGAA
* * * *
17510306 GGCTACTACGTGAACC-ATAAA-ACTTGATCACGTGTGTAGTACTATGTGAA
1 GGCTACTACGTGTACCGATAAATA--TGGTCACATGTGTAGTACTAAGTGAA
* * * * *
17510356 GGCTACTACGTGAACCG-TAAA-ACTTGATCACGTGTGTAGTACTATGTAAA
1 GGCTACTACGTGTACCGATAAATA--TGGTCACATGTGTAGTACTAAGTGAA
*
17510406 AGCTACTACGTGTA
1 GGCTACTACGTGTA
17510420 TCGAATGATA
Statistics
Matches: 218, Mismatches: 39, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
50 88 0.40
51 127 0.58
52 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (50 bp):
GGCTACTACGTGTACCGATAAATATGGTCACATGTGTAGTACTAAGTGAA
Found at i:17510278 original size:102 final size:102
Alignment explanation
Indices: 17510102--17510423 Score: 409
Period size: 102 Copynumber: 3.2 Consensus size: 102
17510092 TGAAATAGAT
* * *
17510102 GGCTACTACGTGTATCGATAAATAATGGTCAAATGTGTAGTACTAAGTGAAGGCTACAATGTGTA
1 GGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTA
* * *
17510167 CCGAGAAGCTTTGGTCACGTTTGTAGTACTGTGTGAA
66 CCGAAAAGCTTTGGTCACGTGTGTAGTACTATGTGAA
* * *
17510204 GGCTACTACGTGAATCGATAAATGATGGTGACATGTGTAGTACTAAGTGAAGGCTATTATGTGTA
1 GGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTA
*
17510269 CCGAAAAGCTTTGGTCACGTGTGTAGTACTATATGAA
66 CCGAAAAGCTTTGGTCACGTGTGTAGTACTATGTGAA
* * * * * * *
17510306 GGCTACTACGTGAA-CCATAAA-ACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGA
1 GGCTACTACGTGAATCGATAAATA-ATGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGT
* *
17510369 ACCGTAAAA-C-TTGATCACGTGTGTAGTACTATGTAAA
65 ACCG-AAAAGCTTTGGTCACGTGTGTAGTACTATGTGAA
* *
17510406 AGCTACTACGTGTATCGA
1 GGCTACTACGTGAATCGA
17510424 ATGATAAAAG
Statistics
Matches: 191, Mismatches: 26, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
100 36 0.19
101 45 0.24
102 110 0.58
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (102 bp):
GGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTA
CCGAAAAGCTTTGGTCACGTGTGTAGTACTATGTGAA
Found at i:17510350 original size:50 final size:50
Alignment explanation
Indices: 17510135--17510417 Score: 273
Period size: 51 Copynumber: 5.6 Consensus size: 50
17510125 AATGGTCAAA
* * * * * * *
17510135 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGA-GAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACC-ATAAAAC-TTGATCACG
* * * *** * * *
17510186 TTTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTGACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAA-CCATAAAACTTGATCACG
* * * * * *
17510237 TGTGTAGTACTAAGTGAAGGCTATTATGTGTACCGA-AAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACC-ATAAAAC-TTGATCACG
*
17510288 TGTGTAGTACTATATGAAGGCTACTACGTGAACCATAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCATAAAACTTGATCACG
*
17510338 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCATAAAACTTGATCACG
* *
17510388 TGTGTAGTACTATGTAAAAGCTACTACGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
17510418 TATCGAATGA
Statistics
Matches: 191, Mismatches: 36, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
50 89 0.47
51 99 0.52
52 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCATAAAACTTGATCACG
Found at i:17514575 original size:22 final size:19
Alignment explanation
Indices: 17514535--17514572 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
17514525 ATTTGAAGTC
17514535 AAAAAATTTATTTTATTAT
1 AAAAAATTTATTTTATTAT
*
17514554 AAAAAATTTATTATATTAT
1 AAAAAATTTATTTTATTAT
17514573 TATTTTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAAAAATTTATTTTATTAT
Found at i:17515866 original size:25 final size:24
Alignment explanation
Indices: 17515811--17515883 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 24
17515801 TACTGCTTGT
* * **
17515811 GTGAGCATATTGATTTATAGCTCGT
1 GTGAGCATACTGA-TTACAGCTCAA
*
17515836 GAGAGCATACTGATCTACAGCTCAA
1 GTGAGCATACTGAT-TACAGCTCAA
*
17515861 GTGAGCATACCGATTCACAGCTC
1 GTGAGCATACTGATT-ACAGCTC
17515884 GTATGAGCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
24 2 0.05
25 37 0.95
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
GTGAGCATACTGATTACAGCTCAA
Found at i:17515890 original size:25 final size:25
Alignment explanation
Indices: 17515829--17515895 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
17515819 ATTGATTTAT
*
17515829 AGCTCGTGA-GAGCATACTGATCTAC
1 AGCTCGT-ATGAGCATACCGATCTAC
*
17515854 AGCTC-AAGTGAGCATACCGAT-TCAC
1 AGCTCGTA-TGAGCATACCGATCT-AC
17515879 AGCTCGTATGAGCATAC
1 AGCTCGTATGAGCATAC
17515896 ATGTACAAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
23 1 0.03
24 1 0.03
25 32 0.91
26 1 0.03
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCGATCTAC
Found at i:17522593 original size:50 final size:50
Alignment explanation
Indices: 17522538--17522879 Score: 314
Period size: 50 Copynumber: 6.9 Consensus size: 50
17522528 CATTTGGGTA
* * * * * *
17522538 AAGAGGTCCCTTGGAAGACCATGTTTGGGACATGACGGTGGCACGGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * *
17522588 AAGAGGTCCCATATAAGACCATGTTTGGGACAAGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*
17522638 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * *
17522688 GAGAGGTCCC-TCGTAACACCATGTCTGGGACATGGCGCTGGCACCGAGAT
1 AAGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* *** * ** * * * *
17522738 GAGAGGTCCCCCATAAAACCATGTCTGGGACATATCATGGGCACCAATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * * *
17522788 GAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACGGGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA--CCGAGAT
* * *
17522839 AACA--TCCCATGTAAGACCATGTCTGGAACATGGCTTTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
17522880 TGTTATTATT
Statistics
Matches: 242, Mismatches: 46, Indels: 9
0.81 0.15 0.03
Matches are distributed among these distances:
49 34 0.14
50 204 0.84
51 2 0.01
52 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:17522815 original size:150 final size:150
Alignment explanation
Indices: 17522539--17522822 Score: 354
Period size: 150 Copynumber: 1.9 Consensus size: 150
17522529 ATTTGGGTAA
* * * * * *
17522539 AGAGGTCCCTTGGAAGACCATGTTTGGGACATGACGGTGGCACGGAGATAAGAGGTCCCATATAA
1 AGAGGTCCCTCGGAACACCATGTCTGGGACATGACGCTGGCACCGAGATAAGAGGTCCCACATAA
* * * * * ** *
17522604 GACCATGTTTGGGACAAGGCGTTGGCACCGAGATAAGAGGTCCCATGTAAGACCATGTCTGGGAC
66 AACCATGTCTGGGACAAGGCATGGGCACCAAGATAAGAACTCCCATGTAAGACCATATCTGGGAC
17522669 ATGGTGTTGGCACCGAGATG
131 ATGGTGTTGGCACCGAGATG
* * * *
17522689 AGAGGTCCCTCGTAACACCATGTCTGGGACATGGCGCTGGCACCGAGATGAGAGGTCCCCCATAA
1 AGAGGTCCCTCGGAACACCATGTCTGGGACATGACGCTGGCACCGAGATAAGAGGTCCCACATAA
* * *
17522754 AACCATGTCTGGGACATA-TCATGGGCACCAATATGAGAACTCCCATGTAAGACCATATCTGGGA
66 AACCATGTCTGGGACA-AGGCATGGGCACCAAGATAAGAACTCCCATGTAAGACCATATCTGGGA
*
17522818 TATGG
130 CATGG
17522823 CATTGGCAGT
Statistics
Matches: 111, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
150 110 0.99
151 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.20
Consensus pattern (150 bp):
AGAGGTCCCTCGGAACACCATGTCTGGGACATGACGCTGGCACCGAGATAAGAGGTCCCACATAA
AACCATGTCTGGGACAAGGCATGGGCACCAAGATAAGAACTCCCATGTAAGACCATATCTGGGAC
ATGGTGTTGGCACCGAGATG
Found at i:17523740 original size:114 final size:113
Alignment explanation
Indices: 17523540--17523794 Score: 395
Period size: 114 Copynumber: 2.2 Consensus size: 113
17523530 AAAATAAGCA
*
17523540 TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTGGAGGAAGCGC
1 TTAGCGGCGTTTTTG-GAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTGGAGGAAGCAC
* * ***
17523605 CGCAAAAAAACCTAAGCCCAACGACGTCGTTTTGTGAGCTTTCGGGGAT
65 CGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAAAGAT
*
17523654 TTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGG-TGAAGCA
1 TTAGCGGCGTTTTT-GGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCG-TTTTGGAGGAAGCA
17523718 CCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAAAGAT
64 CCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAAAGAT
*
17523768 TTAGCGACGTTTTTGGGAAAGCGCCGC
1 TTAGCGGCGTTTTT-GGAAAGCGCCGC
17523795 AAAATCACCT
Statistics
Matches: 130, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
114 123 0.95
115 7 0.05
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (113 bp):
TTAGCGGCGTTTTTGGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTGGAGGAAGCACC
GCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAAAGAT
Found at i:17523813 original size:73 final size:73
Alignment explanation
Indices: 17523694--17523867 Score: 242
Period size: 73 Copynumber: 2.4 Consensus size: 73
17523684 TGCTCAGGGC
*
17523694 TTTAGCGGCGTTTTTGGTG-AAGCACCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
1 TTTAGCGGCGTTTTTGG-GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
17523758 TTTCAAAGA
65 TTTCAAAGA
* ** * *
17523767 TTTAGCGACGTTTTTGGGAAAGCGCCGCAAAATCACCTCAGTCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
*
17523832 TTCAAGGA
66 TTCAAAGA
* **
17523840 TTTAGTGGCGTTTTTTAGAAAGCGCCGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGC
17523868 TAATGTTCAG
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
72 1 0.01
73 88 0.99
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
TTCAAAGA
Found at i:17523832 original size:187 final size:187
Alignment explanation
Indices: 17523580--17523987 Score: 579
Period size: 187 Copynumber: 2.2 Consensus size: 187
17523570 TGCTCAGGGC
* * *
17523580 TTTAGCGGCG-TTTTGGAGGAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTGTGAGC
1 TTTAGCGGCGTTTTTGG-GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
**
17523644 TTTCGGGGATTTAGCGGCG-TTTTTAGGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTT
65 TTTCAAGGATTTAGCGGCGTTTTTTA-GAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTT
*
17523708 TGGTG-AAGCACCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAAAGA
129 TGG-GAAAGCACCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTATGAGCTTTCAAAGA
* ** * *
17523767 TTTAGCGACGTTTTTGGGAAAGCGCCGCAAAATCACCTCAGTCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* *
17523832 TTCAAGGATTTAGTGGCGTTTTTTAGAAAGCGCCGCTAATGTTCAGGGCTTTAGCGGCGTTTTTG
66 TTCAAGGATTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
** * * * *
17523897 GGAAAGCACCGCAAAATCACCTCAGTCCAACGACGCCGTTTTATGAGCTTTCGAGGA
131 GGAAAGCACCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTATGAGCTTTCAAAGA
* *
17523954 TTTAGCGGCGTTTTTCGGAAAGCGCCGCTAAAAA
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAA
17523988 TATTTTATCT
Statistics
Matches: 194, Mismatches: 24, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
186 1 0.01
187 181 0.93
188 12 0.06
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (187 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
TTCAAGGATTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
GGAAAGCACCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTATGAGCTTTCAAAGA
Found at i:17523885 original size:114 final size:114
Alignment explanation
Indices: 17523767--17523984 Score: 373
Period size: 114 Copynumber: 1.9 Consensus size: 114
17523757 CTTTCAAAGA
* *
17523767 TTTAGCGACGTTTTTGGGAAAGCGCCGCAAAATCACCTCAGTCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGACGTTTTTGGGAAAGCACCGCAAAATCACCTCAGTCCAACGACGCCGTTTTATGAGCT
* *
17523832 TTCAAGGATTTAGTGGCGTTTTTTAGAAAGCGCCGCTAATGTTCAGGGC
66 TTCAAGGATTTAGCGGCGTTTTTCAGAAAGCGCCGCTAATGTTCAGGGC
*
17523881 TTTAGCGGCGTTTTTGGGAAAGCACCGCAAAATCACCTCAGTCCAACGACGCCGTTTTATGAGCT
1 TTTAGCGACGTTTTTGGGAAAGCACCGCAAAATCACCTCAGTCCAACGACGCCGTTTTATGAGCT
* *
17523946 TTCGAGGATTTAGCGGCGTTTTTCGGAAAGCGCCGCTAA
66 TTCAAGGATTTAGCGGCGTTTTTCAGAAAGCGCCGCTAA
17523985 AAATATTTTA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 97 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (114 bp):
TTTAGCGACGTTTTTGGGAAAGCACCGCAAAATCACCTCAGTCCAACGACGCCGTTTTATGAGCT
TTCAAGGATTTAGCGGCGTTTTTCAGAAAGCGCCGCTAATGTTCAGGGC
Found at i:17524252 original size:15 final size:15
Alignment explanation
Indices: 17524232--17524261 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17524222 CATATTTTAA
17524232 GGTTTAGGGAGTATG
1 GGTTTAGGGAGTATG
*
17524247 GGTTTAGGGATTATG
1 GGTTTAGGGAGTATG
17524262 AATTAGGGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (15 bp):
GGTTTAGGGAGTATG
Found at i:17524324 original size:23 final size:23
Alignment explanation
Indices: 17524282--17524325 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
17524272 TGGTATTTAA
*
17524282 GGTTTAGGGGTTAGATGGTTATG
1 GGTTTAGGGGTTAGAGGGTTATG
17524305 GGTTTAGGGGTTTAG-GGGTTA
1 GGTTTAGGGG-TTAGAGGGTTA
17524326 GACATGCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.39
Consensus pattern (23 bp):
GGTTTAGGGGTTAGAGGGTTATG
Found at i:17524598 original size:21 final size:22
Alignment explanation
Indices: 17524556--17524637 Score: 71
Period size: 22 Copynumber: 3.8 Consensus size: 22
17524546 GGATTATGAA
17524556 TTAGGGA-TT-ATGGTTTAAGGG
1 TTAGGGATTTAAT-GTTTAAGGG
*
17524577 TT-GGGATTTAATGTTTAGGGG
1 TTAGGGATTTAATGTTTAAGGG
* * * *
17524598 TTAGGGGTTTAAGGGTTAAGAG
1 TTAGGGATTTAATGTTTAAGGG
* *
17524620 TTAGAGATTTAAGGTTTA
1 TTAGGGATTTAATGTTTA
17524638 GGGATTCAAG
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 4 0.08
21 14 0.29
22 31 0.63
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.39
Consensus pattern (22 bp):
TTAGGGATTTAATGTTTAAGGG
Found at i:17524781 original size:290 final size:290
Alignment explanation
Indices: 17524178--17524782 Score: 666
Period size: 292 Copynumber: 2.1 Consensus size: 290
17524168 GTTTTTGGTT
* * * * ** * *
17524178 TAGGGTATATGATTTATTTAATATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAG
1 TAGGGTATAT-AATTATTTAAGATTTAAGGCCAGTTTAAGAACTAATATTTTAAGATTTAGGGAG
* * * *
17524243 TATGGGTTTAGGGATTATGAATTAGGGGTTGGTATTTAAGGTTTAGGGGTTAGATGGTTATGGGT
65 TATGGATTTAAGGATTATGAATTAGGGGTTGG-ATTTAAGGGTTAGGGGTTAGATGGTTATGGGG
* * * * *
17524308 TTAGGGGTTTAGGGGTTAGACATGCTAGGGGTTAAAAGTTAGGGATCCAGGGGTCGAGTTAGGGT
129 TTAGGGGTTTAAGGGTTAGACATGCTAGAGATTAAAAGTTAGGGATCCAAGGGTCGAGTTAAGGT
* *
17524373 TTTGGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTATTATATAATTGTAAAAGA
194 TTTGAGTTTAGATTAATTATTTTTTAAATTATATTTTAAATATGTTATTATATAATTGTAAAAGA
*** * *** **
17524438 GATAATAATAAATTTGTTTAGGGTTTTTAGTT
259 GATAATAATAAATAAATATAGGGAAATTAGAG
* *
17524470 TAGGGTATATTATTAATTTAAGATTTAAGGCCAGTTTAATAACTAATATTTTAAGATTTAGGGAG
1 TAGGGTATATAATT-ATTTAAGATTTAAGGCCAGTTTAAGAACTAATATTTTAAGATTTAGGGAG
* * *
17524535 TATGGATTTAAGGATTATGAATTAGGGATTATGG-TTTAAGGGTT-GGGATTTA-ATGTTTA-GG
65 TATGGATTTAAGGATTATGAATTAGGG-GT-TGGATTTAAGGGTTAGGG-GTTAGATGGTTATGG
* * * * *
17524596 GGTTAGGGGTTTAAGGGTTA-AGA-GTTAGAGATTTAAGGTTTAGGGATTCAAGGGTCGAGTTAA
127 GGTTAGGGGTTTAAGGGTTAGACATGCTAGAGATTAAAAG-TTAGGGATCCAAGGGTCGAGTTAA
*
17524659 GGTTTTGAGTTTAGATTAATTATTTTTTTAAATTATATTTTAAATATGTTCTTATATAATTGTAA
191 GGTTTTGAGTTTAGATTAATTA-TTTTTTAAATTATATTTTAAATATGTTATTATATAATTGTAA
* **
17524724 AATAGATAATAATAAATCAAATATATTGAAATTATGAG
255 AAGAGATAATAATAAAT-AAATATAGGGAAATTA-GAG
** *
17524762 TATTGTTTA-AATTATTTAAGA
1 TAGGGTATATAATTATTTAAGA
17524783 GATATATAAT
Statistics
Matches: 259, Mismatches: 46, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
288 10 0.04
289 44 0.17
290 84 0.32
291 21 0.08
292 96 0.37
293 1 0.00
294 3 0.01
ACGTcount: A:0.31, C:0.02, G:0.25, T:0.42
Consensus pattern (290 bp):
TAGGGTATATAATTATTTAAGATTTAAGGCCAGTTTAAGAACTAATATTTTAAGATTTAGGGAGT
ATGGATTTAAGGATTATGAATTAGGGGTTGGATTTAAGGGTTAGGGGTTAGATGGTTATGGGGTT
AGGGGTTTAAGGGTTAGACATGCTAGAGATTAAAAGTTAGGGATCCAAGGGTCGAGTTAAGGTTT
TGAGTTTAGATTAATTATTTTTTAAATTATATTTTAAATATGTTATTATATAATTGTAAAAGAGA
TAATAATAAATAAATATAGGGAAATTAGAG
Found at i:17525317 original size:17 final size:18
Alignment explanation
Indices: 17525278--17525319 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
17525268 AACGCCGCAA
17525278 AAAATAAATCAAAAAAAT
1 AAAATAAATCAAAAAAAT
* *
17525296 -CAATATAT-AAAAAAAT
1 AAAATAAATCAAAAAAAT
17525312 AAAATAAA
1 AAAATAAA
17525320 AAATTTTAGC
Statistics
Matches: 19, Mismatches: 4, Indels: 3
0.73 0.15 0.12
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (18 bp):
AAAATAAATCAAAAAAAT
Found at i:17525318 original size:13 final size:13
Alignment explanation
Indices: 17525276--17525322 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 13
17525266 AAAACGCCGC
17525276 AAAAAAT-AAATCA
1 AAAAAATAAAAT-A
17525289 AAAAAATCAATATATA
1 AAAAAAT-AA-A-ATA
17525305 AAAAAATAAAATA
1 AAAAAATAAAATA
17525318 AAAAA
1 AAAAA
17525323 TTTTAGCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 15 0.50
14 1 0.03
15 3 0.10
16 9 0.30
17 2 0.07
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAAATAAAATA
Found at i:17525936 original size:148 final size:146
Alignment explanation
Indices: 17525684--17525952 Score: 371
Period size: 148 Copynumber: 1.8 Consensus size: 146
17525674 CGTTTTCGAG
* *
17525684 AAAAACGCCACTAAAGGTAAGCAATAGCGGCACTTTTATAAAAGGGCCACAAAAAGTAAATCAAT
1 AAAAACGCCACTAAAGGTAAGCAATAGCGGCACTTTTATAAAAAGGCCACAAAAAATAAATCAAT
* * * *
17525749 TTATAAAAAATTAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTTTGAAATGAA
66 TTATAAAAAAATAAAATAAAAAATTTTAAGCATAACAAAACGGCATCATTTTGTTTTGAAATGAA
17525814 AAATTTTTTGCGGTAA
131 AAATTTTTTGCGGTAA
* * * * * *
17525830 AAAAACGCCGCTAATA-GTGAGCAATAGCGGC-GTTTTATAAAAAAATGCCGCAAAAAATAAATT
1 AAAAACGCCACTAA-AGGTAAGCAATAGCGGCACTTTTAT--AAAAAGGCCACAAAAAATAAATC
*
17525893 AATTTATTAAAAAAATAAAATAAAAAATTTTAAGTATAACAAAACGGCATCATTTTGTTT
63 AATTTA-TAAAAAAATAAAATAAAAAATTTTAAGCATAACAAAACGGCATCATTTTGTTT
17525953 AAAGTGAAAT
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
145 6 0.06
146 27 0.25
147 25 0.24
148 48 0.45
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.28
Consensus pattern (146 bp):
AAAAACGCCACTAAAGGTAAGCAATAGCGGCACTTTTATAAAAAGGCCACAAAAAATAAATCAAT
TTATAAAAAAATAAAATAAAAAATTTTAAGCATAACAAAACGGCATCATTTTGTTTTGAAATGAA
AAATTTTTTGCGGTAA
Done.