Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 92 of 127
Found at i:17329576 original size:22 final size:22
Alignment explanation
Indices: 17329358--17329615 Score: 102
Period size: 22 Copynumber: 11.6 Consensus size: 22
17329348 TACTAAATTA
* *
17329358 TATTAAATTATCCA-TGATTTAT
1 TATTAAGTTAT-CATTGATTTAC
*
17329380 TATTAAGTTATCACTT-ATTAAC
1 TATTAAGTTATCA-TTGATTTAC
* *
17329402 GATTAAGTTATTGA-TGATTCACTAC
1 TATTAAGTTA-TCATTGATT---TAC
* *
17329427 TACTAAGTTGT-ATTGATTTA-
1 TATTAAGTTATCATTGATTTAC
* * *
17329447 TTTTAAAGTT-TCCAATGA-TTAA
1 TATT-AAGTTAT-CATTGATTTAC
* * *
17329469 TCACTAAATTATTATTGATTTAC
1 T-ATTAAGTTATCATTGATTTAC
* * * *
17329492 TACTAAATTAT-TTATAATTTAC
1 TATTAAGTTATCAT-TGATTTAC
*
17329514 TATTAAGTTTATCAATT-AATTAC
1 TATTAAG-TTATC-ATTGATTTAC
** ** *
17329537 TATTAAACTAAAACTGATTTAC
1 TATTAAGTTATCATTGATTTAC
*
17329559 TATTAAGTTATCATTGATTTAT
1 TATTAAGTTATCATTGATTTAC
* *
17329581 TATTAAGTTATCAATGATTAAC
1 TATTAAGTTATCATTGATTTAC
*
17329603 TATTAATTTATCA
1 TATTAAGTTATCA
17329616 CTTATTTTTT
Statistics
Matches: 176, Mismatches: 40, Indels: 40
0.69 0.16 0.16
Matches are distributed among these distances:
20 3 0.02
21 16 0.09
22 115 0.65
23 25 0.14
24 7 0.04
25 10 0.06
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (22 bp):
TATTAAGTTATCATTGATTTAC
Found at i:17329586 original size:44 final size:43
Alignment explanation
Indices: 17329508--17329630 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 43
17329498 ATTATTTATA
* *
17329508 ATTTACTATTAAGTTTATCAATTAATTACTATTAAACTA-AAACTG
1 ATTTACTATTAAG-TTATC-ATTATTTATTATTAAACTATAAA-TG
** *
17329553 ATTTACTATTAAGTTATCATTGATTTATTATTAAGTTATCAATG
1 ATTTACTATTAAGTTATCATT-ATTTATTATTAAACTATAAATG
* * *
17329597 ATTAACTATTAATTTATCACTTATTTTTTATTAA
1 ATTTACTATTAAGTTATCA-TTATTTATTATTAA
17329631 TCGATCAATA
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
43 3 0.04
44 47 0.70
45 17 0.25
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (43 bp):
ATTTACTATTAAGTTATCATTATTTATTATTAAACTATAAATG
Found at i:17329631 original size:22 final size:21
Alignment explanation
Indices: 17329553--17329630 Score: 75
Period size: 22 Copynumber: 3.6 Consensus size: 21
17329543 ACTAAAACTG
*
17329553 ATTTACTATTAAGTTATCATT
1 ATTTATTATTAAGTTATCATT
*
17329574 GATTTATTATTAAGTTATCAATG
1 -ATTTATTATTAAGTTATC-ATT
* * *
17329597 ATTAACTATTAATTTATCACTT
1 ATTTATTATTAAGTTATCA-TT
*
17329619 ATTTTTTATTAA
1 ATTTATTATTAA
17329631 TCGATCAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
21 1 0.02
22 42 0.93
23 2 0.04
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.53
Consensus pattern (21 bp):
ATTTATTATTAAGTTATCATT
Found at i:17329638 original size:44 final size:44
Alignment explanation
Indices: 17329551--17329639 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
17329541 AAACTAAAAC
* *
17329551 TGATTTACTATTAAGTTATCATTGATTTATTATTAAGTTATCAA
1 TGATTAACTATTAAGTTATCATTGATTTATTATTAAGTGATCAA
* *
17329595 TGATTAACTATTAATTTATCACTT-ATTTTTTATTAA-TCGATCAA
1 TGATTAACTATTAAGTTATCA-TTGATTTATTATTAAGT-GATCAA
17329639 T
1 T
17329640 AATTTATCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 1 0.03
44 36 0.92
45 2 0.05
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.51
Consensus pattern (44 bp):
TGATTAACTATTAAGTTATCATTGATTTATTATTAAGTGATCAA
Found at i:17330391 original size:193 final size:193
Alignment explanation
Indices: 17330062--17330453 Score: 730
Period size: 193 Copynumber: 2.0 Consensus size: 193
17330052 AATGGCTATG
*
17330062 AATTATGATATCTCTTTCAAATGAAATGTTTGAATTATTTCTAGAACCTATATAGTAGCTGCTTA
1 AATTATGATATCTCTTTCAAATGAAATGTTTGAATTATTTCTAGAACCCATATAGTAGCTGCTTA
17330127 ATCAACAAATGAACGATTATAAAATCATTGATTTAGAATAGCATTTCTACAATACAAATTTCAAA
66 ATCAACAAATGAACGATTATAAAATCATTGATTTAGAATAGCATTTCTACAATACAAATTTCAAA
* *
17330192 ATCCTCAAAAGAAGATATATCTTTTAATCTCTGTAAGACTTAAGCATAAGGATTTTTTTCTAC
131 ATCCTCAAAAGAAGACATATCTTTTAATCTCTGTAAAACTTAAGCATAAGGATTTTTTTCTAC
* *
17330255 AATTATGATATCTTTTTCAAATGAAATGTTTGAATTATTTTTAGAACCCATATAGTAGCTGCTTA
1 AATTATGATATCTCTTTCAAATGAAATGTTTGAATTATTTCTAGAACCCATATAGTAGCTGCTTA
17330320 ATCAACAAATGAACGATTATAAAATCATTGATTTAGAATAGCATTTCTACAATACAAATTTCAAA
66 ATCAACAAATGAACGATTATAAAATCATTGATTTAGAATAGCATTTCTACAATACAAATTTCAAA
*
17330385 ATCCTCAAAAGAAGACATATCTTTTAATCTCTGTAAAACTTAGGCATAAGGATTTTTTTCTAC
131 ATCCTCAAAAGAAGACATATCTTTTAATCTCTGTAAAACTTAAGCATAAGGATTTTTTTCTAC
17330448 AATTAT
1 AATTAT
17330454 CATTTGTATC
Statistics
Matches: 193, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
193 193 1.00
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (193 bp):
AATTATGATATCTCTTTCAAATGAAATGTTTGAATTATTTCTAGAACCCATATAGTAGCTGCTTA
ATCAACAAATGAACGATTATAAAATCATTGATTTAGAATAGCATTTCTACAATACAAATTTCAAA
ATCCTCAAAAGAAGACATATCTTTTAATCTCTGTAAAACTTAAGCATAAGGATTTTTTTCTAC
Found at i:17331239 original size:11 final size:11
Alignment explanation
Indices: 17331223--17331256 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
17331213 TTGAAGAATG
17331223 AAATTCATGCA
1 AAATTCATGCA
17331234 AAATTCATGCA
1 AAATTCATGCA
*
17331245 AAATCCATGCA
1 AAATTCATGCA
17331256 A
1 A
17331257 GATTAGCACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.24
Consensus pattern (11 bp):
AAATTCATGCA
Found at i:17334221 original size:21 final size:21
Alignment explanation
Indices: 17334157--17334222 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
17334147 AGGAGTTTGA
* *
17334157 AATAAAAGAA-GATCCTGAGG
1 AATATAAGAAGGATCTTGAGG
* *
17334177 AATATAAGAAGGATCTTAAAG
1 AATATAAGAAGGATCTTGAGG
* *
17334198 AATATGAGGAGGATCTTGAGG
1 AATATAAGAAGGATCTTGAGG
17334219 AATA
1 AATA
17334223 CTTTGAGAAG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 9 0.24
21 28 0.76
ACGTcount: A:0.47, C:0.06, G:0.26, T:0.21
Consensus pattern (21 bp):
AATATAAGAAGGATCTTGAGG
Found at i:17336158 original size:16 final size:17
Alignment explanation
Indices: 17336139--17336171 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17336129 AAGCATGGCA
17336139 AAAGA-AAAAAAAAAAG
1 AAAGAGAAAAAAAAAAG
*
17336155 AAAGAGAAAAATAAAAG
1 AAAGAGAAAAAAAAAAG
17336172 CCAAAATGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (17 bp):
AAAGAGAAAAAAAAAAG
Found at i:17338022 original size:36 final size:36
Alignment explanation
Indices: 17337970--17338040 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
17337960 TCAATCCAAC
*
17337970 TAATCTTTCCATTAGTTTAGATATAAGATAATACCT
1 TAATCTTTCCACTAGTTTAGATATAAGATAATACCT
*
17338006 TAATCTTTCCACTAGTTTAGATATAAGATAGTACC
1 TAATCTTTCCACTAGTTTAGATATAAGATAATACC
17338041 ATATCACATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (36 bp):
TAATCTTTCCACTAGTTTAGATATAAGATAATACCT
Found at i:17338763 original size:17 final size:17
Alignment explanation
Indices: 17338725--17338763 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
17338715 CTTTTATTTG
17338725 AAAATTTTTATTATACA
1 AAAATTTTTATTATACA
* *
17338742 TAAATTTTTATTATATA
1 AAAATTTTTATTATACA
17338759 AAAAT
1 AAAAT
17338764 ATTAAAATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
AAAATTTTTATTATACA
Found at i:17340556 original size:17 final size:17
Alignment explanation
Indices: 17340522--17340556 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17340512 TATTTGAAAT
*
17340522 TTTTTATTATACATAAA
1 TTTTTATTATACAAAAA
*
17340539 TTTTTATTATATAAAAA
1 TTTTTATTATACAAAAA
17340556 T
1 T
17340557 ATTAAAATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTTATTATACAAAAA
Found at i:17341698 original size:17 final size:17
Alignment explanation
Indices: 17341678--17341742 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 17
17341668 GAAATGCCTT
*
17341678 GAAAAAAAAAAGATAGA
1 GAAAAAAAAAAGAAAGA
*
17341695 GAAAAAAAAAAGAAAAAA
1 GAAAAAAAAAAG-AAAGA
*
17341713 GAAAGAAAAAGAGAAAGA
1 GAAA-AAAAAAAGAAAGA
17341731 GAAAAAATAAAA
1 GAAAAAA-AAAA
17341743 AAAAAAGTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
17 15 0.38
18 18 0.45
19 7 0.17
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (17 bp):
GAAAAAAAAAAGAAAGA
Found at i:17341722 original size:36 final size:35
Alignment explanation
Indices: 17341678--17341749 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 35
17341668 GAAATGCCTT
*
17341678 GAAAAAAAAAAGATAGAGAAAAAA-AAAAGAAAAAA
1 GAAAAAAAAAAGAAAGAGAAAAAATAAAA-AAAAAA
*
17341713 GAAAGAAAAAGAGAAAGAGAAAAAATAAAAAAAAAA
1 GAAA-AAAAAAAGAAAGAGAAAAAATAAAAAAAAAA
17341749 G
1 G
17341750 TTTTGTGAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 4 0.12
36 25 0.76
37 4 0.12
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (35 bp):
GAAAAAAAAAAGAAAGAGAAAAAATAAAAAAAAAA
Found at i:17342432 original size:22 final size:21
Alignment explanation
Indices: 17342404--17342483 Score: 83
Period size: 21 Copynumber: 3.7 Consensus size: 21
17342394 GAGACATGTA
* *
17342404 AAAAAAGGACACAAAGAAAGAG
1 AAAAAAGGAAAAAAAGAAA-AG
17342426 AAAAAA-GAAAAACAAGAAAA-
1 AAAAAAGGAAAAA-AAGAAAAG
17342446 AAAAAAGGAAAAAAAGAGAAAG
1 AAAAAAGGAAAAAAAGA-AAAG
*
17342468 AAAAAAAAGAAAAAAA
1 -AAAAAAGGAAAAAAA
17342484 TGACTATGAC
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
20 10 0.20
21 14 0.28
22 12 0.24
23 14 0.28
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (21 bp):
AAAAAAGGAAAAAAAGAAAAG
Found at i:17342460 original size:15 final size:14
Alignment explanation
Indices: 17342426--17342483 Score: 55
Period size: 15 Copynumber: 4.0 Consensus size: 14
17342416 AAAGAAAGAG
17342426 AAAAAAGAAAAACAA
1 AAAAAAGAAAAA-AA
**
17342441 GAAAAAA-AAAAGGA
1 -AAAAAAGAAAAAAA
*
17342455 AAAAAAGAGAAAGAA
1 AAAAAAGA-AAAAAA
17342470 AAAAAAGAAAAAAA
1 AAAAAAGAAAAAAA
17342484 TGACTATGAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 6 0.17
14 7 0.19
15 17 0.47
16 6 0.17
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAAA
Found at i:17342483 original size:9 final size:9
Alignment explanation
Indices: 17342420--17342483 Score: 60
Period size: 9 Copynumber: 7.2 Consensus size: 9
17342410 GGACACAAAG
*
17342420 AAAGAGAAA
1 AAAGAAAAA
17342429 AAAGAAAAA
1 AAAGAAAAA
*
17342438 CAAGAAAAA
1 AAAGAAAAA
*
17342447 AAA-AAGGAA
1 AAAGAA-AAA
* *
17342456 AAA-AAGAG
1 AAAGAAAAA
17342464 AAAGAAAAA
1 AAAGAAAAA
17342473 AAAGAAAAA
1 AAAGAAAAA
17342482 AA
1 AA
17342484 TGACTATGAC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
8 7 0.15
9 39 0.85
ACGTcount: A:0.83, C:0.02, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:17342958 original size:5 final size:5
Alignment explanation
Indices: 17342948--17343091 Score: 59
Period size: 5 Copynumber: 28.4 Consensus size: 5
17342938 GAATCCATTC
* * * *
17342948 AAAGA AAAGAA AAAGA AAATGTA AAA-A AATGA AATGA AAAGGT GAAGA
1 AAAGA AAAG-A AAAGA AAA-G-A AAAGA AAAGA AAAGA AAA-GA AAAGA
* ** *
17342996 AAA-A TAAGGAA AAAGA AGAAGA AAA-A AGTGA AAGAAA AAAGA AAAG-
1 AAAGA -AAAG-A AAAGA A-AAGA AAAGA AAAGA AA-AGA AAAGA AAAGA
* * *
17343042 AAAG- AATGT AAAGCA AAAGA AAAG- AAAGA AAA-A TAAGA AAAGA AAAGA
1 AAAGA AAAGA AAAG-A AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
17343090 AA
1 AA
17343092 TGAATGGGTG
Statistics
Matches: 105, Mismatches: 19, Indels: 30
0.68 0.12 0.19
Matches are distributed among these distances:
4 20 0.19
5 56 0.53
6 24 0.23
7 5 0.05
ACGTcount: A:0.72, C:0.01, G:0.20, T:0.07
Consensus pattern (5 bp):
AAAGA
Found at i:17343022 original size:24 final size:23
Alignment explanation
Indices: 17342995--17343091 Score: 72
Period size: 24 Copynumber: 4.0 Consensus size: 23
17342985 AAAGGTGAAG
17342995 AAAAATAAGGAAAAAGAAGAAGAA
1 AAAAATAAGGAAAAAGAA-AAGAA
* *
17343019 AAAAGTGAAAGAAAAAAGAAAAGAA
1 AAAAAT--AAGGAAAAAGAAAAGAA
** * *
17343044 AGAATGTAAAGCAAAAGAAAAGAAA
1 A-AAAATAAGGAAAAAGAAAAG-AA
17343069 GAAAAATAA-G-AAAAGAAAAGAA
1 -AAAAATAAGGAAAAAGAAAAGAA
17343091 A
1 A
17343092 TGAATGGGTG
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
21 1 0.02
22 2 0.03
23 10 0.17
24 18 0.30
25 13 0.22
26 16 0.27
ACGTcount: A:0.74, C:0.01, G:0.20, T:0.05
Consensus pattern (23 bp):
AAAAATAAGGAAAAAGAAAAGAA
Found at i:17343042 original size:25 final size:24
Alignment explanation
Indices: 17342953--17343091 Score: 85
Period size: 23 Copynumber: 5.8 Consensus size: 24
17342943 CATTCAAAGA
17342953 AAAGAAAAAGAAAATGTAAAAAAATG-
1 AAAGAAAAAGAAAA-G--AAAAAATGT
* **
17342979 AAATGAAAAGGTGAAG-AAAAA--T
1 AAA-GAAAAAGAAAAGAAAAAATGT
*
17343001 AAGGAAAAAGAAGAAGAAAAAA-GT
1 AAAGAAAAAGAA-AAGAAAAAATGT
*
17343025 GAAAGAAAAAAGAAAAGAAAGAATGT
1 -AAAG-AAAAAGAAAAGAAAAAATGT
* **
17343051 AAAGCAAAAGAAAAGAAAGAAAAAT
1 AAAGAAAAAGAAAAGAAA-AAATGT
17343076 -AAG-AAAAGAAAAGAAA
1 AAAGAAAAAGAAAAGAAA
17343092 TGAATGGGTG
Statistics
Matches: 91, Mismatches: 13, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
21 6 0.07
22 5 0.05
23 23 0.25
24 17 0.19
25 18 0.20
26 14 0.15
27 8 0.09
ACGTcount: A:0.72, C:0.01, G:0.20, T:0.07
Consensus pattern (24 bp):
AAAGAAAAAGAAAAGAAAAAATGT
Found at i:17344319 original size:33 final size:32
Alignment explanation
Indices: 17344151--17344379 Score: 179
Period size: 32 Copynumber: 7.2 Consensus size: 32
17344141 GCACTTAGGT
* * *
17344151 TTTAAGCCTAGTTTAG-TTGACACCCATAAAAA
1 TTTAAGCCTAGATTAGCTAG-CACCCATGAAAA
* ** * *
17344183 TTTAAGCCCACTTTAGTTAGCACTCATGAAAA
1 TTTAAGCCTAGATTAGCTAGCACCCATGAAAA
* ** *
17344215 TTTAAACCTAGATTAGCTAGCACTTA-CAAATA
1 TTTAAGCCTAGATTAGCTAGCACCCATGAAA-A
* * *
17344247 TTTAAGCTTAGTTTAGCTAGCACCCA-G-GAA
1 TTTAAGCCTAGATTAGCTAGCACCCATGAAAA
*
17344277 -TTAAGCCTAGCA-TA-CTGGCACCCATGAAAAGA
1 TTTAAGCCTAG-ATTAGCTAGCACCCATG-AAA-A
17344309 TTTAAGCCTAGATTAGCTAGCACCCATGAAAA
1 TTTAAGCCTAGATTAGCTAGCACCCATGAAAA
* *
17344341 TTTAAGCC-A-ATTTAGCTATCACACATGAAAA
1 TTTAAGCCTAGA-TTAGCTAGCACCCATGAAAA
17344372 TTTAAGCC
1 TTTAAGCC
17344380 CAATCTAGCT
Statistics
Matches: 160, Mismatches: 26, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
28 9 0.06
29 12 0.08
30 2 0.01
31 32 0.20
32 77 0.48
33 17 0.11
34 11 0.07
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (32 bp):
TTTAAGCCTAGATTAGCTAGCACCCATGAAAA
Found at i:17344375 original size:125 final size:124
Alignment explanation
Indices: 17344117--17344378 Score: 273
Period size: 125 Copynumber: 2.1 Consensus size: 124
17344107 TGGCATTCAT
** ** ** *
17344117 AAAAATTTAAGCTTAGGTTAGTAGGCACTTAGGTTTTAAGCCTAGTTTAGTTGACACCCATAAAA
1 AAAAATTTAAGCTTAGGTTAGTAGGCACCCAGGAATTAAGCCTAGCATAGCTGACACCCATAAAA
* * *
17344182 ATTTAAGCCCACTTTAGTTAGCACTCATGAAAATTTAAACCTAGATTAGCTAGCACTTAC
66 ATTTAAGCCCACATTAGCTAGCACCCATGAAAATTTAAACCTAGATTAGCTAGCAC-TAC
* * *
17344242 AAATATTTAAGCTTAGTTTAGCTA-GCACCCAGGAATTAAGCCTAGCATA-CTGGCACCCATGAA
1 AAAAATTTAAGCTTAGGTTAG-TAGGCACCCAGGAATTAAGCCTAGCATAGCTGACACCCAT-AA
* * * *
17344305 AAGATTTAAGCCTAGATTAGCTAGCACCCATGAAAATTTAAGCC-A-ATTTAGCTATCAC-AC
64 AA-ATTTAAGCCCACATTAGCTAGCACCCATGAAAATTTAAACCTAGA-TTAGCTAGCACTAC
17344365 ATGAAAATTTAAGC
1 A--AAAATTTAAGC
17344379 CCAATCTAGC
Statistics
Matches: 113, Mismatches: 18, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
123 3 0.03
124 10 0.09
125 63 0.56
126 37 0.33
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (124 bp):
AAAAATTTAAGCTTAGGTTAGTAGGCACCCAGGAATTAAGCCTAGCATAGCTGACACCCATAAAA
ATTTAAGCCCACATTAGCTAGCACCCATGAAAATTTAAACCTAGATTAGCTAGCACTAC
Found at i:17344447 original size:32 final size:31
Alignment explanation
Indices: 17344365--17344487 Score: 88
Period size: 32 Copynumber: 3.8 Consensus size: 31
17344355 GCTATCACAC
* * *
17344365 ATGAAAATTT-AAGCCCAATCTAGCTGGCGCCA
1 ATGAAAATTTGAA--CCAGTCTAGCTGACACCA
* * * * * *
17344397 ATGGATATTTTAAGCCAGTTTAGCTGATATCTA
1 ATGAAAATTTGAA-CCAGTCTAGCTGACA-CCA
17344430 ATGAAAATTTGAACCAGTCTAGCTGACACCA
1 ATGAAAATTTGAACCAGTCTAGCTGACACCA
*
17344461 ATGAAAATTT-AAGCCCAATCTAGCTGA
1 ATGAAAATTTGAA--CCAGTCTAGCTGA
17344488 TACTAATAGA
Statistics
Matches: 71, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
30 2 0.03
31 12 0.17
32 43 0.61
33 14 0.20
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (31 bp):
ATGAAAATTTGAACCAGTCTAGCTGACACCA
Found at i:17344451 original size:64 final size:62
Alignment explanation
Indices: 17344329--17344494 Score: 176
Period size: 64 Copynumber: 2.6 Consensus size: 62
17344319 GATTAGCTAG
* *
17344329 CACCCATGAAAATTTAAGCCAATTTAGCT-ATCAC-ACATGAAAATTTAAGCCCAATCTAGCTGG
1 CACCAATGAAAATTTAAGCCAATTTAGCTGAT-ACTA-ATGAAAATTTAA-CCCAATCTAGCTGA
* * * * *
17344392 CGCCAATGGATATTTTAAGCCAGTTTAGCTGATATCTAATGAAAATTTGAA-CCAGTCTAGCTGA
1 CACCAAT-GAAAATTTAAGCCAATTTAGCTGATA-CTAATGAAAATTT-AACCCAATCTAGCTGA
*
17344456 CACCAATGAAAATTTAAGCCCAATCTAGCTGATACTAAT
1 CACCAATGAAAATTTAAG-CCAATTTAGCTGATACTAAT
17344495 AGAGATTTTA
Statistics
Matches: 85, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
63 19 0.22
64 50 0.59
65 13 0.15
66 3 0.04
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (62 bp):
CACCAATGAAAATTTAAGCCAATTTAGCTGATACTAATGAAAATTTAACCCAATCTAGCTGA
Found at i:17348363 original size:9 final size:9
Alignment explanation
Indices: 17348351--17348419 Score: 54
Period size: 9 Copynumber: 7.8 Consensus size: 9
17348341 TATTTTCCTT
17348351 AAAAAATGA
1 AAAAAATGA
17348360 AAAAAA--A
1 AAAAAATGA
**
17348367 AAAAGCTGA
1 AAAAAATGA
*
17348376 AAAGAAT-A
1 AAAAAATGA
*
17348384 AAAAAATTA
1 AAAAAATGA
*
17348393 AAAAAATTAA
1 AAAAAA-TGA
17348403 AAAAAATGA
1 AAAAAATGA
17348412 AGAAAAAT
1 A-AAAAAT
17348420 TTTGATTTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
7 5 0.11
8 7 0.15
9 21 0.45
10 14 0.30
ACGTcount: A:0.77, C:0.01, G:0.09, T:0.13
Consensus pattern (9 bp):
AAAAAATGA
Found at i:17348407 original size:10 final size:10
Alignment explanation
Indices: 17348383--17348420 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
17348373 TGAAAAGAAT
17348383 AAAAAAATT-
1 AAAAAAATTA
17348392 AAAAAAATTA
1 AAAAAAATTA
*
17348402 AAAAAAATGA
1 AAAAAAATTA
*
17348412 AGAAAAATT
1 AAAAAAATT
17348421 TTGATTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (10 bp):
AAAAAAATTA
Found at i:17348417 original size:20 final size:19
Alignment explanation
Indices: 17348351--17348420 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 19
17348341 TATTTTCCTT
17348351 AAAAAATG-AAAAAA--AA
1 AAAAAATGAAAAAAATTAA
** *
17348367 AAAAGCTGAAAAGAA-T-A
1 AAAAAATGAAAAAAATTAA
*
17348384 AAAAAATTAAAAAAATTAA
1 AAAAAATGAAAAAAATTAA
17348403 AAAAAATGAAGAAAAATT
1 AAAAAATGAA-AAAAATT
17348421 TTGATTTTCT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
16 6 0.15
17 17 0.41
18 1 0.02
19 10 0.24
20 7 0.17
ACGTcount: A:0.76, C:0.01, G:0.09, T:0.14
Consensus pattern (19 bp):
AAAAAATGAAAAAAATTAA
Found at i:17353681 original size:8 final size:8
Alignment explanation
Indices: 17353668--17353740 Score: 56
Period size: 8 Copynumber: 8.9 Consensus size: 8
17353658 TTACACCAAA
17353668 AAAAAAAT
1 AAAAAAAT
*
17353676 AAAAAATT
1 AAAAAAAT
*
17353684 AATAAAAT
1 AAAAAAAT
*
17353692 TAAAAAAT
1 AAAAAAAT
* *
17353700 TAAAAACT
1 AAAAAAAT
*
17353708 TAAAAAAT
1 AAAAAAAT
* *
17353716 AATAATAGT
1 AA-AAAAAT
17353725 ATAAAAAAT
1 A-AAAAAAT
17353734 AAAAAAA
1 AAAAAAA
17353741 AAACCAAAAC
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
8 40 0.78
9 10 0.20
10 1 0.02
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.22
Consensus pattern (8 bp):
AAAAAAAT
Found at i:17353690 original size:9 final size:8
Alignment explanation
Indices: 17353668--17353715 Score: 69
Period size: 8 Copynumber: 5.9 Consensus size: 8
17353658 TTACACCAAA
*
17353668 AAAAAAAT
1 AAAAAATT
17353676 AAAAAATT
1 AAAAAATT
17353684 AATAAAATT
1 AA-AAAATT
17353693 AAAAAATT
1 AAAAAATT
*
17353701 AAAAACTT
1 AAAAAATT
17353709 AAAAAAT
1 AAAAAAT
17353716 AATAATAGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
8 28 0.78
9 8 0.22
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAAAATT
Found at i:17353695 original size:17 final size:17
Alignment explanation
Indices: 17353670--17353720 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
17353660 ACACCAAAAA
*
17353670 AAAAATAAAAAATTAAT
1 AAAATTAAAAAATTAAT
17353687 AAAATTAAAAAATTAA-
1 AAAATTAAAAAATTAAT
*
17353703 AAACTTAAAAAA-TAAT
1 AAAATTAAAAAATTAAT
17353719 AA
1 AA
17353721 TAGTATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
15 3 0.10
16 13 0.42
17 15 0.48
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATTAAAAAATTAAT
Found at i:17353713 original size:32 final size:34
Alignment explanation
Indices: 17353675--17353739 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
17353665 AAAAAAAAAA
*
17353675 TAAAAAATTAATAA-AAT-TAAAAAATTAAAAACT
1 TAAAAAA-TAATAATAATATAAAAAATAAAAAACT
*
17353708 TAAAAAATAATAATAGTATAAAAAATAAAAAA
1 TAAAAAATAATAATAATATAAAAAATAAAAAA
17353740 AAAACCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 6 0.21
33 9 0.32
34 13 0.46
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (34 bp):
TAAAAAATAATAATAATATAAAAAATAAAAAACT
Found at i:17354177 original size:19 final size:20
Alignment explanation
Indices: 17354134--17354182 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
17354124 CTAGGTAGAA
17354134 AAAAAAG-AAAAAACTAAAC
1 AAAAAAGAAAAAAACTAAAC
*
17354153 AAAAAAGAAAAAAAC-AAAT
1 AAAAAAGAAAAAAACTAAAC
*
17354172 AGAAAAGAAAA
1 AAAAAAGAAAA
17354183 CGAAGAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 20 0.74
20 7 0.26
ACGTcount: A:0.82, C:0.06, G:0.08, T:0.04
Consensus pattern (20 bp):
AAAAAAGAAAAAAACTAAAC
Found at i:17357767 original size:20 final size:20
Alignment explanation
Indices: 17357744--17357783 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
17357734 AGTTAAATAA
17357744 AGTCAAAATT-AGTCAAACTT
1 AGTCAAAATTGA-TCAAACTT
*
17357764 AGTCATAATTGATCAAACTT
1 AGTCAAAATTGATCAAACTT
17357784 GATAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (20 bp):
AGTCAAAATTGATCAAACTT
Found at i:17359061 original size:34 final size:34
Alignment explanation
Indices: 17359014--17359113 Score: 112
Period size: 34 Copynumber: 2.9 Consensus size: 34
17359004 GAATATAGAG
** * * *
17359014 TAATTCTCAAAAATGGATTTCTGTGAATACAACA
1 TAATTCTTGAAAATAGATTTTTGAGAATACAACA
* *
17359048 TAATTCTTGAAAATATG-TTTTTGAGAATGCAATA
1 TAATTCTTGAAAATA-GATTTTTGAGAATACAACA
*
17359082 TAATTCTTGAAAATAAATTTTTGAGAATACAA
1 TAATTCTTGAAAATAGATTTTTGAGAATACAA
17359114 TGTAGTTGTC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
34 54 0.98
35 1 0.02
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (34 bp):
TAATTCTTGAAAATAGATTTTTGAGAATACAACA
Found at i:17359128 original size:34 final size:34
Alignment explanation
Indices: 17359014--17359129 Score: 106
Period size: 34 Copynumber: 3.4 Consensus size: 34
17359004 GAATATAGAG
* ** * * *
17359014 TAATTCTCAAAAATGGATTTCTGTGAATACAACA
1 TAATTCTCGAAAATAAATTTTTGAGAATACAATA
* ** *
17359048 TAATTCTTGAAAATATGTTTTTGAGAATGCAATA
1 TAATTCTCGAAAATAAATTTTTGAGAATACAATA
* *
17359082 TAATTCTTGAAAATAAATTTTTGAGAATACAATG
1 TAATTCTCGAAAATAAATTTTTGAGAATACAATA
* *
17359116 TAGTTGTCGAAAAT
1 TAATTCTCGAAAAT
17359130 CCGTTTCTAA
Statistics
Matches: 66, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 66 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.37
Consensus pattern (34 bp):
TAATTCTCGAAAATAAATTTTTGAGAATACAATA
Found at i:17359217 original size:24 final size:24
Alignment explanation
Indices: 17359185--17359232 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
17359175 AATTATGTTG
*
17359185 TATTCTTGAAAATTTGTTTTCAAA
1 TATTCTTGAAAATTTGTTTCCAAA
17359209 TATTCTTGAAAATTTGTTTCCAAA
1 TATTCTTGAAAATTTGTTTCCAAA
17359233 AATGCCATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.48
Consensus pattern (24 bp):
TATTCTTGAAAATTTGTTTCCAAA
Found at i:17362269 original size:17 final size:17
Alignment explanation
Indices: 17362249--17362282 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
17362239 TTTGTATTAG
17362249 TGTTTATTG-TTTATATT
1 TGTTTA-TGCTTTATATT
17362266 TGTTTATGCTTTATATT
1 TGTTTATGCTTTATATT
17362283 ATATTATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.18, C:0.03, G:0.12, T:0.68
Consensus pattern (17 bp):
TGTTTATGCTTTATATT
Found at i:17363184 original size:90 final size:89
Alignment explanation
Indices: 17363027--17363195 Score: 284
Period size: 90 Copynumber: 1.9 Consensus size: 89
17363017 ACCAATTAAT
*
17363027 AAAAAAAACCTTTAATGATCAAATTTATAACTTACTGAGTCACTAGTATGTATGGTATGAACCGA
1 AAAAAAAACCTTTAATGATAAAATTTATAACTTACTGAGTCACTAGTATGTATGGTATGAACCGA
17363092 CTGAGGTTGGAATCCTGATCGATAC
66 CTGAGGTT-GAATCCTGATCGATAC
* * * *
17363117 AAAAAAAACCTTTAATGATAAAATTTATAATTTACTGAGTCTCTAGTATGTGTGGTATGAACTGA
1 AAAAAAAACCTTTAATGATAAAATTTATAACTTACTGAGTCACTAGTATGTATGGTATGAACCGA
17363182 CTGAGGTTGAATCC
66 CTGAGGTTGAATCC
17363196 CAATTGATAC
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 6 0.08
90 68 0.92
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (89 bp):
AAAAAAAACCTTTAATGATAAAATTTATAACTTACTGAGTCACTAGTATGTATGGTATGAACCGA
CTGAGGTTGAATCCTGATCGATAC
Found at i:17365227 original size:34 final size:34
Alignment explanation
Indices: 17365179--17365272 Score: 125
Period size: 34 Copynumber: 2.8 Consensus size: 34
17365169 TTCGGACATC
* * *
17365179 CATTTTTGAAAAGACTTGAAAACTCTCGAAAATA
1 CATTTTTGAGAAGACTTGAGAACTCTCAAAAATA
* * *
17365213 CATTTTTGAGAAGACTTTAGGACTCTCAAAAATG
1 CATTTTTGAGAAGACTTGAGAACTCTCAAAAATA
*
17365247 CATTTTTGAGAATACTTGAGAACTCT
1 CATTTTTGAGAAGACTTGAGAACTCT
17365273 TGGAACTACT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 51 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (34 bp):
CATTTTTGAGAAGACTTGAGAACTCTCAAAAATA
Found at i:17367090 original size:21 final size:21
Alignment explanation
Indices: 17367043--17367090 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
17367033 AATCTTCCAT
*
17367043 CAAACCCTAAAATCCTAAACC
1 CAAAACCTAAAATCCTAAACC
* *
17367064 CTAAACCT-AAATCCTTAAATC
1 CAAAACCTAAAATCC-TAAACC
17367085 CAAAAC
1 CAAAAC
17367091 TAATCATGCA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (21 bp):
CAAAACCTAAAATCCTAAACC
Found at i:17367093 original size:20 final size:20
Alignment explanation
Indices: 17367052--17367093 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
17367042 TCAAACCCTA
*
17367052 AAATCCTAAACCCTAAACCT
1 AAATCCTAAACCCTAAAACT
*
17367072 AAATCCTTAAATCC-AAAACT
1 AAATCC-TAAACCCTAAAACT
17367092 AA
1 AA
17367094 TCATGCATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (20 bp):
AAATCCTAAACCCTAAAACT
Found at i:17373554 original size:36 final size:36
Alignment explanation
Indices: 17373507--17373580 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
17373497 ATGAGGTCAG
*
17373507 TCCTAAAGATAATTTCCTATTGCTTTATATTGATAC
1 TCCTAAAGATAATTTCCTATTACTTTATATTGATAC
17373543 TCCTAAAGATAATTTCCTATTACTTTATATTGATAC
1 TCCTAAAGATAATTTCCTATTACTTTATATTGATAC
17373579 TC
1 TC
17373581 TAGTTGACAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.45
Consensus pattern (36 bp):
TCCTAAAGATAATTTCCTATTACTTTATATTGATAC
Found at i:17376446 original size:9 final size:8
Alignment explanation
Indices: 17376432--17376499 Score: 61
Period size: 9 Copynumber: 8.4 Consensus size: 8
17376422 TACTATGCTT
17376432 AAAAAAAGG
1 AAAAAAA-G
*
17376441 AAAAAAAT
1 AAAAAAAG
17376449 AAAAAAA-
1 AAAAAAAG
*
17376456 AAGAAAAG
1 AAAAAAAG
17376464 AAAAAGAAG
1 AAAAA-AAG
17376473 AAAAAGAATG
1 AAAAA-AA-G
17376483 -AAAAAA-
1 AAAAAAAG
17376489 AAAAAAAG
1 AAAAAAAG
17376497 AAA
1 AAA
17376500 TAGAGGATCA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
7 12 0.24
8 16 0.31
9 22 0.43
10 1 0.02
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:17376462 original size:24 final size:23
Alignment explanation
Indices: 17376435--17376499 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
17376425 TATGCTTAAA
*
17376435 AAAAGGAAAAAAATAAAAAAAAAG
1 AAAA-GAAAAAAAGAAAAAAAAAG
* *
17376459 AAAAGAAAAAGAAGAAAAAGAATG
1 AAAAGAAAAA-AAGAAAAAAAAAG
*
17376483 AAAAAAAAAAAAAGAAA
1 -AAAAGAAAAAAAGAAA
17376500 TAGAGGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 6 0.17
24 20 0.57
25 9 0.26
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (23 bp):
AAAAGAAAAAAAGAAAAAAAAAG
Found at i:17376519 original size:33 final size:34
Alignment explanation
Indices: 17376432--17376499 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
17376422 TACTATGCTT
17376432 AAAAA-AAGGAAAAA-AAT-AAAAAAAAAGAAAAG
1 AAAAAGAA-GAAAAAGAATGAAAAAAAAAGAAAAG
17376464 AAAAAGAAGAAAAAGAATGAAAAAAAAA-AAAAG
1 AAAAAGAAGAAAAAGAATGAAAAAAAAAGAAAAG
17376497 AAA
1 AAA
17376500 TAGAGGATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
32 11 0.33
33 13 0.39
34 9 0.27
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (34 bp):
AAAAAGAAGAAAAAGAATGAAAAAAAAAGAAAAG
Found at i:17377733 original size:97 final size:93
Alignment explanation
Indices: 17377596--17377827 Score: 223
Period size: 98 Copynumber: 2.4 Consensus size: 93
17377586 AACTTTTCCA
* ** * * * *
17377596 AAATTTTAAAAGTTTGTTACCTATTTTCGTAGGAACCCTTTCCAAACAGATTTTGTAAAATTTGT
1 AAATTTTTAAAGTTCATTGCCTATTTTCATA-TAAGCCTTTCCAAACAGATTTT-TAAAATTTGT
* * *
17377661 TGCCTATTTTCATACGAGCCATTTTTCAGAT
64 TGCCCATTTTCATAAGAGCCATTTCT-AGAT
* * * **
17377692 AAATTTTTTTAAAGCTT-ATTGCCTTTTTTCATATCAGCCTTTTCCAAATAGATTTTTTTAATTT
1 AAA--TTTTTAAAG-TTCATTGCCTATTTTCATATAAGCC-TTTCCAAACAGATTTTTAAAATTT
* *
17377756 GTTGCCCATTTTCATAATAGCCCTTTCTAGAT
62 GTTGCCCATTTTCATAAGAGCCATTTCTAGAT
* *
17377788 AGATTTTTAAAGTTCATTGTCTATTTTCATATAAGCCTTT
1 AAATTTTTAAAGTTCATTGCCTATTTTCATATAAGCCTTT
17377828 TCCATATGGA
Statistics
Matches: 111, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
93 5 0.05
94 28 0.25
96 9 0.08
97 32 0.29
98 35 0.32
99 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.46
Consensus pattern (93 bp):
AAATTTTTAAAGTTCATTGCCTATTTTCATATAAGCCTTTCCAAACAGATTTTTAAAATTTGTTG
CCCATTTTCATAAGAGCCATTTCTAGAT
Found at i:17377768 original size:47 final size:48
Alignment explanation
Indices: 17377634--17377896 Score: 196
Period size: 47 Copynumber: 5.5 Consensus size: 48
17377624 GTAGGAACCC
* * * *
17377634 TTTCCAAACAGATTTTGTAAAATTTGTTGCCTATTTTCATA-CGAGCCAT
1 TTTCCAAATAGATTTTTTAAAGTTTATTGCCTATTTTCATATC-AGCC-T
* * * * *
17377683 TTTTCAGATAAATTTTTTTAAAGCTTATTGCCTTTTTTCATATCAGCCT
1 TTTCCAAATAGA-TTTTTTAAAGTTTATTGCCTATTTTCATATCAGCCT
* * * *
17377732 TTTCCAAATAGATTTTTTTAA-TTTGTTGCCCATTTTCATAAT-AGCCC
1 TTTCCAAATAGATTTTTTAAAGTTTATTGCCTATTTTCAT-ATCAGCCT
* * * * *
17377779 TTTCTAGATAGA-TTTTTAAAGTTCATTGTCTATTTTCATATAAGCCT
1 TTTCCAAATAGATTTTTTAAAGTTTATTGCCTATTTTCATATCAGCCT
* * * * * * **
17377826 TTTCCATATGGA-TGTTCAAAGTTTCTTGCCTATGTTCATAAAAGCCT
1 TTTCCAAATAGATTTTTTAAAGTTTATTGCCTATTTTCATATCAGCCT
*
17377873 TTACCAGAA-AGATTTTTTAAAGTT
1 TTTCCA-AATAGATTTTTTAAAGTT
17377897 ATCTACCTAC
Statistics
Matches: 166, Mismatches: 41, Indels: 15
0.75 0.18 0.07
Matches are distributed among these distances:
46 9 0.05
47 90 0.54
48 20 0.12
49 18 0.11
50 28 0.17
51 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.45
Consensus pattern (48 bp):
TTTCCAAATAGATTTTTTAAAGTTTATTGCCTATTTTCATATCAGCCT
Found at i:17377827 original size:94 final size:97
Alignment explanation
Indices: 17377634--17377831 Score: 242
Period size: 94 Copynumber: 2.1 Consensus size: 97
17377624 GTAGGAACCC
* * *
17377634 TTTCCAAACAGATTTTGTAAAATTTGTTGCCTATTTTCATACGAGCCATTTTTCAGATAAATTTT
1 TTTCCAAACAGATTTTGTAAAATTTGTTGCCCATTTTCATAAGAGCCATTTCTCAGATAAA-TTT
* *
17377699 TTTAAAGCTTATTGCCTTTTTTCATATCAGCCT
65 TTTAAAGCTTATTGCCTATTTTCATATAAGCCT
* ** * * *
17377732 TTTCCAAATAGATTTT-TTTAATTTGTTGCCCATTTTCATAATAGCCCTTTCT-AGATAGA-TTT
1 TTTCCAAACAGATTTTGTAAAATTTGTTGCCCATTTTCATAAGAGCCATTTCTCAGATAAATTTT
*
17377794 TTAAAG-TTCATTGTCTATTTTCATATAAGCCT
66 TTAAAGCTT-ATTGCCTATTTTCATATAAGCCT
17377826 TTTCCA
1 TTTCCA
17377832 TATGGATGTT
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
93 2 0.02
94 35 0.40
96 6 0.07
97 29 0.33
98 15 0.17
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.47
Consensus pattern (97 bp):
TTTCCAAACAGATTTTGTAAAATTTGTTGCCCATTTTCATAAGAGCCATTTCTCAGATAAATTTT
TTAAAGCTTATTGCCTATTTTCATATAAGCCT
Found at i:17377855 original size:94 final size:94
Alignment explanation
Indices: 17377696--17377898 Score: 223
Period size: 94 Copynumber: 2.1 Consensus size: 94
17377686 TCAGATAAAT
* * * ** *
17377696 TTTTTTAAAGCTTATTGCCTTTTTTCATATCAGCCTTTTCCAAATAGATTTTTTTAATTTGTTGC
1 TTTTTTAAAG-TTATTGCCTATTTTCATATAAGCCTTTTCCAAATAGATTGTTCAAATTTCTTGC
* * * *
17377761 CCATTTTCATAATAGCCCTTT-CTAGATAGA
65 CCATGTTCATAAAAG-CCTTTACCAGAAAGA
* * *
17377791 -TTTTTAAAGTTCATTGTCTATTTTCATATAAGCCTTTTCCATATGGA-TGTTCAAAGTTTCTTG
1 TTTTTTAAAGTT-ATTGCCTATTTTCATATAAGCCTTTTCCAAATAGATTGTTCAAA-TTTCTTG
*
17377854 CCTATGTTCATAAAAGCCTTTACCAGAAAGA
64 CCCATGTTCATAAAAGCCTTTACCAGAAAGA
17377885 TTTTTTAAAGTTAT
1 TTTTTTAAAGTTAT
17377899 CTACCTACAT
Statistics
Matches: 90, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
93 12 0.13
94 67 0.74
95 11 0.12
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (94 bp):
TTTTTTAAAGTTATTGCCTATTTTCATATAAGCCTTTTCCAAATAGATTGTTCAAATTTCTTGCC
CATGTTCATAAAAGCCTTTACCAGAAAGA
Found at i:17378146 original size:22 final size:22
Alignment explanation
Indices: 17378118--17378159 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
17378108 TATAGAAACA
*
17378118 TAATTTTGTTCAAGCAAAATCC
1 TAATTTTGTCCAAGCAAAATCC
17378140 TAATTTTGTCCAAGCAAAAT
1 TAATTTTGTCCAAGCAAAAT
17378160 TTCAACCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (22 bp):
TAATTTTGTCCAAGCAAAATCC
Found at i:17378296 original size:10 final size:10
Alignment explanation
Indices: 17378283--17378340 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
17378273 GTCAACTTTG
17378283 GTCAAACTTA
1 GTCAAACTTA
*
17378293 GTCAAA-TAAA
1 GTCAAACT-TA
*
17378303 GTC-AATTTA
1 GTCAAACTTA
17378312 GTCAAACTTA
1 GTCAAACTTA
* *
17378322 GTCAAAATTG
1 GTCAAACTTA
17378332 GTCAAACTT
1 GTCAAACTT
17378341 CATAAAAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 7 0.18
10 32 0.82
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (10 bp):
GTCAAACTTA
Found at i:17378336 original size:29 final size:30
Alignment explanation
Indices: 17378270--17378327 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
17378260 AAAATGCCCC
*
17378270 AAAGTCAACTTTGGTCAAACTTAGTCAAAT
1 AAAGTCAACTTTAGTCAAACTTAGTCAAAT
17378300 AAAGTCAA-TTTAGTCAAACTTAGTCAAA
1 AAAGTCAACTTTAGTCAAACTTAGTCAAA
17378328 ATTGGTCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (30 bp):
AAAGTCAACTTTAGTCAAACTTAGTCAAAT
Found at i:17378348 original size:20 final size:20
Alignment explanation
Indices: 17378312--17378349 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17378302 AGTCAATTTA
*
17378312 GTCAAACTTAGTCAAAATTG
1 GTCAAACTTAGTAAAAATTG
17378332 GTCAAACTTCA-TAAAAAT
1 GTCAAACTT-AGTAAAAAT
17378350 GGATAGAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (20 bp):
GTCAAACTTAGTAAAAATTG
Found at i:17380401 original size:14 final size:14
Alignment explanation
Indices: 17380382--17380412 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17380372 AAAAAAAAAA
*
17380382 AAACTTGAAATCCC
1 AAACTTGAAACCCC
17380396 AAACTTGAAACCCC
1 AAACTTGAAACCCC
17380410 AAA
1 AAA
17380413 TCTCCCATCA
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:0.29, G:0.06, T:0.16
Consensus pattern (14 bp):
AAACTTGAAACCCC
Found at i:17380448 original size:21 final size:21
Alignment explanation
Indices: 17380422--17380461 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17380412 ATCTCCCATC
*
17380422 AAACCCTAAAACCCTAAACGT
1 AAACCCCAAAACCCTAAACGT
*
17380443 AAACCCCCAAACCCTAAAC
1 AAACCCCAAAACCCTAAAC
17380462 TAATCATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.40, G:0.03, T:0.10
Consensus pattern (21 bp):
AAACCCCAAAACCCTAAACGT
Found at i:17380969 original size:310 final size:312
Alignment explanation
Indices: 17380400--17380996 Score: 925
Period size: 310 Copynumber: 1.9 Consensus size: 312
17380390 AATCCCAAAC
*
17380400 TTGAAACCCCAAATCTCCCATCAAACCCTAAAACCCTAAACGTAAACCCCCAAACCCTAAACTAA
1 TTGAAACCCCAAATCTCCCATCAAACCCTAAAACCCTAAACCTAAA--CCC-AA--CTAAACTAA
* * *
17380465 TCATACATTTGTATTTCATTTTATCTTGTCATCACATGCATTTTTATATTATTAGACATTCATAC
61 TCATACAATTGTATTTCATTTTATCTTATCATCACATGCATTTTTATATTATTAGACATTAATAC
*
17380530 TTTGTCATTCATATTATATTGTCATACATTCATCATATTTTACTATGTTCATACGTCTCATGCAT
126 TTTGTCATTCATATTATATTGTCATACATTCATCATATTTTACTATGTTCATACATCTCATGCAT
*
17380595 TTGTCTTCAAATTTTGGTTTTTAATGTAAAATGTTTTAAAATAAGATAATATCTCAAGTAAATAT
191 TTGTCTTCAAATTTTGGTTTTTAATGTAAAATGTTTTAAAATAAGATAATATCTCAAATAAATAT
*
17380660 AGTTAT-TAAGATTTTGCCTAACTATAGTCCATTTCCCAAAAAATAAAAAATAAAAAA
256 AGTTATCT-AGATCTTGCCTAACTATAGTCCATTTCCCAAAAAATAAAAAATAAAAAA
** *
17380717 TTGAAACCCCAAATCTCTTATCAAACCCTAAAACCCTAAACCTAAA-CC-A-TAAACTAATCATG
1 TTGAAACCCCAAATCTCCCATCAAACCCTAAAACCCTAAACCTAAACCCAACTAAACTAATCATA
* *
17380779 CAATTGTATTTCATTTTATCTTATCATCACATGTATTTTTATATTATTAGACATTAATACTTTTT
66 CAATTGTATTTCATTTTATCTTATCATCACATGCATTTTTATATTATTAGACATTAATAC-TTTG
* * * *
17380844 TCATTCATATTATATTGTCATGCATTCATCATATTTTATTATGTTCATGCATTTCATGCATTTGT
130 TCATTCATATTATATTGTCATACATTCATCATATTTTACTATGTTCATACATCTCATGCATTTGT
*
17380909 CTTGAAATTTTGGTTTTTTAA-GTAAAATGTTTTAAAATAAGATAATATCTCAAATAAATATAGT
195 CTTCAAATTTTGG-TTTTTAATGTAAAATGTTTTAAAATAAGATAATATCTCAAATAAATATAGT
*
17380973 TATCTAGATCTTGTCTAACTATAG
259 TATCTAGATCTTGCCTAACTATAG
17380997 AGGGACTTTC
Statistics
Matches: 259, Mismatches: 18, Indels: 13
0.89 0.06 0.04
Matches are distributed among these distances:
309 68 0.26
310 137 0.53
311 8 0.03
312 1 0.00
314 2 0.01
317 43 0.17
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.40
Consensus pattern (312 bp):
TTGAAACCCCAAATCTCCCATCAAACCCTAAAACCCTAAACCTAAACCCAACTAAACTAATCATA
CAATTGTATTTCATTTTATCTTATCATCACATGCATTTTTATATTATTAGACATTAATACTTTGT
CATTCATATTATATTGTCATACATTCATCATATTTTACTATGTTCATACATCTCATGCATTTGTC
TTCAAATTTTGGTTTTTAATGTAAAATGTTTTAAAATAAGATAATATCTCAAATAAATATAGTTA
TCTAGATCTTGCCTAACTATAGTCCATTTCCCAAAAAATAAAAAATAAAAAA
Found at i:17381876 original size:12 final size:12
Alignment explanation
Indices: 17381859--17381883 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17381849 AATTGATCTC
17381859 AATCATAAAGAT
1 AATCATAAAGAT
17381871 AATCATAAAGAT
1 AATCATAAAGAT
17381883 A
1 A
17381884 CCTAAAGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
AATCATAAAGAT
Found at i:17385363 original size:144 final size:143
Alignment explanation
Indices: 17384964--17385368 Score: 431
Period size: 144 Copynumber: 2.8 Consensus size: 143
17384954 TCATTTTTGG
* *
17384964 GATTTTAAA-GCACCAAAAATCATAAAATAATATGAAATTAAGATCTAAAAAGTTTCATGAAAAT
1 GATTTTAAATGTACCAAAAATCATGAAATAATATGAAATTAAGATCT-AAAAGTTTCATGAAAAT
* * * * * * * * * * *
17385028 CCAAGCTCGAGAAGGCTAAATTGCTAAAATACCCCTAAAAGATATTTTGATAATTTCACACTTCT
65 TCGAGCTCGAGAAGGCCAAATTACGAAAATACTCCTAAATGGTATTTTGGTAACTTCACACCTCT
*** *
17385093 TGGGGTATTGCTGT
130 CAAGGTATTACTGT
* * * *
17385107 GATTTGAAATGTACCAAAAATCATGAAATACTATGAAATTAAGATCTTAAAAGTTTTATAAAAAT
1 GATTTTAAATGTACCAAAAATCATGAAATAATATGAAATTAAGATC-TAAAAGTTTCATGAAAAT
** * **
17385172 AT-GAGCTTAAGAAGGTCAAATTACGAAAATACT--TTTATGAGATATTTTGGTAACTTCACACC
65 -TCGAGCTCGAGAAGGCCAAATTACGAAAATACTCCTAAATG-G-TATTTTGGTAACTTCACACC
17385234 TCTCAAGGTATTACTGT
127 TCTCAAGGTATTACTGT
* *
17385251 GGTTTTAAATGTACCAAAAATCATGAAATATTATGAAATTAAGATCTAAGAAGTTTCATGAAAAT
1 GATTTTAAATGTACCAAAAATCATGAAATAATATGAAATTAAGATCTAA-AAGTTTCATGAAAAT
* * * * *
17385316 TCGAGCTCGGGAAAGCCAAAGTACGAAAATACTCCTAAATGGCATTTTAGTAA
65 TCGAGCTCGAGAAGGCCAAATTACGAAAATACTCCTAAATGGTATTTTGGTAA
17385369 TTTTGTAATT
Statistics
Matches: 212, Mismatches: 41, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
142 3 0.01
143 12 0.06
144 191 0.90
145 2 0.01
146 4 0.02
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (143 bp):
GATTTTAAATGTACCAAAAATCATGAAATAATATGAAATTAAGATCTAAAAGTTTCATGAAAATT
CGAGCTCGAGAAGGCCAAATTACGAAAATACTCCTAAATGGTATTTTGGTAACTTCACACCTCTC
AAGGTATTACTGT
Found at i:17385879 original size:12 final size:12
Alignment explanation
Indices: 17385858--17386058 Score: 64
Period size: 12 Copynumber: 17.3 Consensus size: 12
17385848 TTTCTTTTTC
17385858 TTTT-TTTGTTG
1 TTTTGTTTGTTG
17385869 TTTTG--T-TTG
1 TTTTGTTTGTTG
*
17385878 -TTTGGTTGTT-
1 TTTTGTTTGTTG
*
17385888 TATTTGTTTGTTCAT
1 T-TTTGTTTGTT--G
17385903 TTTTGTTT-TTG
1 TTTTGTTTGTTG
17385914 TTTTTGTTTGTT-
1 -TTTTGTTTGTTG
17385926 TTTAT-TTTGTT-
1 TTT-TGTTTGTTG
*
17385937 TTTTGTTTTTTG
1 TTTTGTTTGTTG
17385949 TTTTTCGTTT-TTG
1 -TTTT-GTTTGTTG
*
17385962 TATTTGTAT-TTG
1 T-TTTGTTTGTTG
*
17385974 TATTT-TTTTTTG
1 T-TTTGTTTGTTG
*
17385986 GTTTGTTTCGTT-
1 TTTTGTTT-GTTG
*
17385998 TTGTT-TTATTTTG
1 TT-TTGTT-TGTTG
17386011 TTTTG-TTGTT-
1 TTTTGTTTGTTG
*
17386021 TGTTGTTTGTTG
1 TTTTGTTTGTTG
17386033 TTTT-TTT-TT-
1 TTTTGTTTGTTG
*
17386042 TCTTTGTTTTTTG
1 T-TTTGTTTGTTG
17386055 TTTT
1 TTTT
17386059 AGAAAATAAA
Statistics
Matches: 148, Mismatches: 12, Indels: 59
0.68 0.05 0.27
Matches are distributed among these distances:
8 4 0.03
9 4 0.03
10 12 0.08
11 42 0.28
12 52 0.35
13 22 0.15
14 11 0.07
15 1 0.01
ACGTcount: A:0.03, C:0.02, G:0.17, T:0.78
Consensus pattern (12 bp):
TTTTGTTTGTTG
Found at i:17385913 original size:6 final size:6
Alignment explanation
Indices: 17385902--17386058 Score: 95
Period size: 6 Copynumber: 26.7 Consensus size: 6
17385892 TGTTTGTTCA
*
17385902 TTTTTG TTTTTG TTTTTG --TTTG TTTTT- ATTTTG TTTTTTG TTTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG -TTTTTG -TTTTTG
* * * *
17385949 TTTTTCG TTTTTG TATTTG TATTTG TATTTT- TTTTTG -GTTTG -TTTCG
1 TTTTT-G TTTTTG TTTTTG TTTTTG T-TTTTG TTTTTG TTTTTG TTTTTG
*
17385996 -TTTTG -TTTT- ATTTTG -TTTTG TTGTTTG TTGTTTG TTGTTT- TTTTT-
1 TTTTTG TTTTTG TTTTTG TTTTTG TT-TTTG TT-TTTG TT-TTTG TTTTTG
17386041 TTCTTTG TTTTTTG TTTT
1 TT-TTTG -TTTTTG TTTT
17386059 AGAAAATAAA
Statistics
Matches: 129, Mismatches: 8, Indels: 28
0.78 0.05 0.17
Matches are distributed among these distances:
4 4 0.03
5 37 0.29
6 44 0.34
7 42 0.33
8 2 0.02
ACGTcount: A:0.03, C:0.02, G:0.16, T:0.79
Consensus pattern (6 bp):
TTTTTG
Found at i:17385918 original size:7 final size:7
Alignment explanation
Indices: 17385859--17386058 Score: 119
Period size: 7 Copynumber: 27.6 Consensus size: 7
17385849 TTCTTTTTCT
17385859 TTTTTTG
1 TTTTTTG
17385866 TTGTTTTG
1 TT-TTTTG
17385874 TTTGTTTGG
1 TTT-TTT-G
* *
17385883 TTGTTTA
1 TTTTTTG
17385890 TTTGTTTG
1 TTT-TTTG
17385898 TTCATTTT-
1 TT--TTTTG
17385906 TGTTTTTG
1 T-TTTTTG
17385914 -TTTTTG
1 TTTTTTG
17385920 TTTGTTT-
1 TTT-TTTG
17385927 TTATTTTG
1 TT-TTTTG
17385935 TTTTTTG
1 TTTTTTG
17385942 TTTTTTG
1 TTTTTTG
*
17385949 TTTTTCG
1 TTTTTTG
17385956 -TTTTTG
1 TTTTTTG
*
17385962 -TATTTG
1 TTTTTTG
*
17385968 -TATTTG
1 TTTTTTG
*
17385974 TATTTT-
1 TTTTTTG
*
17385980 TTTTTGG
1 TTTTTTG
17385987 TTTGTTTCG
1 TTT-TTT-G
17385996 TTTTGTT-
1 TTTT-TTG
17386003 TTATTTTG
1 TT-TTTTG
17386011 TTTTGTTG
1 TTTT-TTG
*
17386019 TTTGTTG
1 TTTTTTG
*
17386026 TTTGTTG
1 TTTTTTG
*
17386033 TTTTTTT
1 TTTTTTG
17386040 TTTCTTTG
1 TTT-TTTG
17386048 TTTTTTG
1 TTTTTTG
17386055 TTTT
1 TTTT
17386059 AGAAAATAAA
Statistics
Matches: 156, Mismatches: 16, Indels: 42
0.73 0.07 0.20
Matches are distributed among these distances:
6 26 0.17
7 72 0.46
8 44 0.28
9 13 0.08
10 1 0.01
ACGTcount: A:0.04, C:0.02, G:0.17, T:0.78
Consensus pattern (7 bp):
TTTTTTG
Found at i:17385919 original size:22 final size:20
Alignment explanation
Indices: 17385852--17386058 Score: 101
Period size: 20 Copynumber: 9.9 Consensus size: 20
17385842 CCTTCCTTTC
*
17385852 TTTTTCTTTTTTTGTTGTTT-
1 TTTTTGTTTTTTTGTT-TTTG
* **
17385872 TGTTTGTTTGGTTGTTTATT-
1 TTTTTGTTTTTTTGTTT-TTG
*
17385892 TGTTTGTTCATTTTTGTTTTTG
1 TTTTTGTT--TTTTTGTTTTTG
17385914 TTTTTGTTTGTTTT-TATTTTG
1 TTTTTGTTT-TTTTGT-TTTTG
17385935 TTTTT-TGTTTTTTGTTTTTCG
1 TTTTTGT-TTTTTTGTTTTT-G
17385956 TTTTTGTATTTGTATTTGTATTTT-
1 TTTTTG--TTT-T-TTTGT-TTTTG
*
17385980 TTTTTGGTTTGTTTCG-TTTTG
1 TTTTT-GTTT-TTTTGTTTTTG
17386001 TTTTAT-TTTGTTTTGTTGTTTG
1 TTTT-TGTTT-TTTTGTT-TTTG
*
17386023 TTGTTTGTTGTTTT-TTTTT-
1 TT-TTTGTTTTTTTGTTTTTG
*
17386042 TCTTTG-TTTTTTGTTTT
1 TTTTTGTTTTTTTGTTTT
17386059 AGAAAATAAA
Statistics
Matches: 152, Mismatches: 12, Indels: 48
0.72 0.06 0.23
Matches are distributed among these distances:
17 5 0.03
18 8 0.05
19 2 0.01
20 48 0.32
21 32 0.21
22 29 0.19
23 11 0.07
24 7 0.05
25 6 0.04
26 4 0.03
ACGTcount: A:0.03, C:0.02, G:0.16, T:0.78
Consensus pattern (20 bp):
TTTTTGTTTTTTTGTTTTTG
Found at i:17386291 original size:36 final size:36
Alignment explanation
Indices: 17386251--17386321 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
17386241 TGACCAAAAA
* *
17386251 AACATTGTAAATCAAAAAAATAAATATGATCGAGAC
1 AACATTATAAATCAAAAAAATAAAGATGATCGAGAC
** * *
17386287 AACATTATAGGTCAGAAAAATAAAGATGATTGAGA
1 AACATTATAAATCAAAAAAATAAAGATGATCGAGA
17386322 TAATAGTGCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (36 bp):
AACATTATAAATCAAAAAAATAAAGATGATCGAGAC
Found at i:17386518 original size:36 final size:34
Alignment explanation
Indices: 17386331--17386561 Score: 146
Period size: 35 Copynumber: 6.6 Consensus size: 34
17386321 ATAATAGTGC
* * * *
17386331 AAGTTGAAAAAGTAAAAATGATC-AGACAACACCA
1 AAGTT-AAAAAATAAAGATGACCAAGACAACATCA
* *
17386365 CAAGTCT-AAAAATAAAGATGACCAGGACAACAACA
1 -AAGT-TAAAAAATAAAGATGACCAAGACAACATCA
* *** *
17386400 CAAGTTAAAAAATAAATATGACTGGGACAACACCGA
1 -AAGTTAAAAAATAAAGATGACCAAGACAACATC-A
* * *
17386436 ATGTTAAAAAATAAAGATGATCAAAACAACACTGC-
1 AAGTTAAAAAATAAAGATGACCAAGACAACA-T-CA
*
17386471 AGGTTGAAAAAATAAAGATGACCAAGACAACATCA
1 AAGTT-AAAAAATAAAGATGACCAAGACAACATCA
* * *
17386506 AATGGTTGAAAAAA-AAATATGAACAAGACAACATCG
1 AA--GTT-AAAAAATAAAGATGACCAAGACAACATCA
* * *
17386542 TAGGTAAAAAAAAAAGATGA
1 AAGTTAAAAAATAAAGATGA
17386562 TTGGGATAAC
Statistics
Matches: 158, Mismatches: 27, Indels: 23
0.76 0.13 0.11
Matches are distributed among these distances:
33 6 0.04
34 24 0.15
35 71 0.45
36 46 0.29
37 11 0.07
ACGTcount: A:0.55, C:0.14, G:0.16, T:0.16
Consensus pattern (34 bp):
AAGTTAAAAAATAAAGATGACCAAGACAACATCA
Found at i:17386712 original size:107 final size:107
Alignment explanation
Indices: 17386514--17386776 Score: 286
Period size: 107 Copynumber: 2.5 Consensus size: 107
17386504 CAAATGGTTG
* * * *
17386514 AAAAAAAAATATGAACAAGACAACATCGTAGGT-AAAAAAA-AAAGATGATTGGGATAACATTGC
1 AAAAAAAAATAGGACCAAGACAACATCATAGGTCAAAAAAATAAAGATGATTGAGATAACATTGC
* * *
17386577 AAGTTGGAAAAATAAAGGTGAACAGACAACACTAACAATC-A
66 AAGTTGGAAAAACAAAGATGAACAGACAACACCAACAATCGA
* *
17386618 AAAAAACAAATAGGGCCAAGACAACACCATAGGTCAAAAAAATAAAGATGATTGAGATAACATTG
1 AAAAAA-AAATAGGACCAAGACAACATCATAGGTCAAAAAAATAAAGATGATTGAGATAACATTG
* * * *
17386683 TAGGTT-GAAAAACAAAGATG-ACTAAGACAACACCAATAGTCGA
65 CAAGTTGGAAAAACAAAGATGAAC--AGACAACACCAACAATCGA
* * * * * *
17386726 AAGAAAGAATATGACCAGGACAACATCAAATGTC-AAAAAATAAAGATGATT
1 AAAAAAAAATAGGACCAAGACAACATCATAGGTCAAAAAAATAAAGATGATT
17386777 AGGACAACAC
Statistics
Matches: 132, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
104 6 0.05
105 24 0.18
106 36 0.27
107 60 0.45
108 6 0.05
ACGTcount: A:0.54, C:0.13, G:0.17, T:0.16
Consensus pattern (107 bp):
AAAAAAAAATAGGACCAAGACAACATCATAGGTCAAAAAAATAAAGATGATTGAGATAACATTGC
AAGTTGGAAAAACAAAGATGAACAGACAACACCAACAATCGA
Found at i:17386783 original size:35 final size:35
Alignment explanation
Indices: 17386742--17386809 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
17386732 GAATATGACC
17386742 AGGACAACATCAAATG-TCAAAAAATAAAGATGATT
1 AGGACAACA-CAAATGATCAAAAAATAAAGATGATT
*
17386777 AGGACAACACCAATGATCAAAAAATAAAGATGA
1 AGGACAACACAAATGATCAAAAAATAAAGATGA
17386810 CCAACATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 5 0.16
35 26 0.84
ACGTcount: A:0.56, C:0.13, G:0.15, T:0.16
Consensus pattern (35 bp):
AGGACAACACAAATGATCAAAAAATAAAGATGATT
Found at i:17386865 original size:36 final size:36
Alignment explanation
Indices: 17386760--17386865 Score: 92
Period size: 36 Copynumber: 3.0 Consensus size: 36
17386750 ATCAAATGTC
* * * * *
17386760 AAAAAATAAAGATGAT-TAGGACAACACCAATGAT-C
1 AAAAAATAAAGATGATCCA-AAAAACACCAATGGTAA
* * *
17386795 AAAAAATAAAGATGA-CCAACATAATACCATTGGTAA
1 AAAAAATAAAGATGATCCAA-AAAACACCAATGGTAA
*
17386831 AAAAAATAAAGATGATCGAAAAAACACCAATGGTA
1 AAAAAATAAAGATGATCCAAAAAACACCAATGGTA
17386866 GGAAGGATGA
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
35 26 0.46
36 27 0.48
37 3 0.05
ACGTcount: A:0.57, C:0.13, G:0.13, T:0.17
Consensus pattern (36 bp):
AAAAAATAAAGATGATCCAAAAAACACCAATGGTAA
Found at i:17386930 original size:35 final size:35
Alignment explanation
Indices: 17386889--17387165 Score: 166
Period size: 36 Copynumber: 7.8 Consensus size: 35
17386879 TGATCGAAAT
*
17386889 AACACC-ATAGGTTAGAAAATAAAGATGACTAGGAC
1 AACACCAAT-GGTTAGAAAATAAAGATGACTGGGAC
** ** * ** *
17386924 AACACCAACAGTCGGGAGGTAAAGATGATTGGGAC
1 AACACCAATGGTTAGAAAATAAAGATGACTGGGAC
* * * * *
17386959 AACACCAATGGTCAAAAAAATAAAAATGATTGGGAT
1 AACACCAATGGT-TAGAAAATAAAGATGACTGGGAC
** * * *
17386995 AGTACCAATGGTCAAAAAATAAAGATGACTAGGAC
1 AACACCAATGGTTAGAAAATAAAGATGACTGGGAC
* * * *
17387030 AATATC-ATAGGTCTAAAAAATAAAGATGACTGGGAT
1 AACACCAAT-GGT-TAGAAAATAAAGATGACTGGGAC
*** * *
17387066 AATTTCAATGGTTTGAAAGATAAAGATGATTGGGAC
1 AACACCAATGGTTAGAAA-ATAAAGATGACTGGGAC
* * *
17387102 AACACCAACGATTAGGAAAATAAAGAT-AATCGGGAC
1 AACACCAATGGTTA-GAAAATAAAGATGACT-GGGAC
*
17387138 AACACTAATGGTTTA-AAAATAAAGATGA
1 AACACCAATGG-TTAGAAAATAAAGATGA
17387166 TCGAGATAAC
Statistics
Matches: 186, Mismatches: 46, Indels: 19
0.74 0.18 0.08
Matches are distributed among these distances:
34 2 0.01
35 76 0.41
36 99 0.53
37 9 0.05
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.20
Consensus pattern (35 bp):
AACACCAATGGTTAGAAAATAAAGATGACTGGGAC
Found at i:17387018 original size:71 final size:73
Alignment explanation
Indices: 17386943--17387109 Score: 196
Period size: 71 Copynumber: 2.3 Consensus size: 73
17386933 AGTCGGGAGG
* *
17386943 TAAAGATGATTGGGACAACACCAAT-GGTCAAAAAAATAAAAATGATTGGGATAGTACCAATGG-
1 TAAAGATGATTGGGACAACACCAATAGGTCAAAAAAATAAAAATGACTGGGATAATACCAATGGT
17387006 TCAAAAAA
66 TCAAAAAA
* * * * * * **
17387014 TAAAGATGACTAGGACAATATC-ATAGGTCTAAAAAATAAAGATGACTGGGATAATTTCAATGGT
1 TAAAGATGATTGGGACAACACCAATAGGTCAAAAAAATAAAAATGACTGGGATAATACCAATGGT
** *
17387078 TTGAAAGA
66 TCAAAAAA
17387086 TAAAGATGATTGGGACAACACCAA
1 TAAAGATGATTGGGACAACACCAA
17387110 CGATTAGGAA
Statistics
Matches: 76, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
70 2 0.03
71 50 0.66
72 23 0.30
73 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (73 bp):
TAAAGATGATTGGGACAACACCAATAGGTCAAAAAAATAAAAATGACTGGGATAATACCAATGGT
TCAAAAAA
Found at i:17387451 original size:36 final size:36
Alignment explanation
Indices: 17387365--17387502 Score: 134
Period size: 36 Copynumber: 3.9 Consensus size: 36
17387355 TTGCAGGTAA
* * * * *
17387365 AGAAAATAAAGATAATCGAGATAACACCAACAATT-
1 AGAAGATAAAGATGACCGAGACAACACCAACGATTG
* * *
17387400 AGAAGGTAAATATGACTGAGACAACACCAACGATTG
1 AGAAGATAAAGATGACCGAGACAACACCAACGATTG
* * * *
17387436 AGAAGATAAAGATGACCGAGATAATACCAATGATCG
1 AGAAGATAAAGATGACCGAGACAACACCAACGATTG
* * *
17387472 AGAAGATAGAGATGACCAAGACAATACCAAC
1 AGAAGATAAAGATGACCGAGACAACACCAAC
17387503 AGTAAAAAAA
Statistics
Matches: 83, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
35 27 0.33
36 56 0.67
ACGTcount: A:0.50, C:0.16, G:0.19, T:0.15
Consensus pattern (36 bp):
AGAAGATAAAGATGACCGAGACAACACCAACGATTG
Found at i:17387677 original size:35 final size:35
Alignment explanation
Indices: 17387638--17387764 Score: 109
Period size: 35 Copynumber: 3.6 Consensus size: 35
17387628 ACTAGGAAAT
* *
17387638 ACCAATGATCAAAAAAATAAAATGATCAGGACAAC
1 ACCAATGGTCAAAAAAATAAAATGATAAGGACAAC
* * ** *
17387673 ACCAATGGTCAAAAAAATCAGATGATTGGGATAAC
1 ACCAATGGTCAAAAAAATAAAATGATAAGGACAAC
*
17387708 ATCACAA--GT-AAAAAAATAAAGATGATAATGACAAC
1 A-C-CAATGGTCAAAAAAATAAA-ATGATAAGGACAAC
*
17387743 ATC-ATAGGTCAAAAAAATAAAA
1 ACCAAT-GGTCAAAAAAATAAAA
17387765 AAAAAACTAG
Statistics
Matches: 72, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
32 1 0.01
33 1 0.01
34 9 0.12
35 46 0.64
36 12 0.17
37 3 0.04
ACGTcount: A:0.56, C:0.13, G:0.13, T:0.17
Consensus pattern (35 bp):
ACCAATGGTCAAAAAAATAAAATGATAAGGACAAC
Found at i:17387758 original size:106 final size:105
Alignment explanation
Indices: 17387648--17388144 Score: 351
Period size: 106 Copynumber: 4.7 Consensus size: 105
17387638 ACCAATGATC
* * * *
17387648 AAAAAAATAAAATGATCAGGACAACA-C-CAATGGTCAAAAAA-ATCAGATGATTGGGATAACAT
1 AAAAAAATAAAATGATCAGGATAACATCACAA--GTCAAAAAATA-AAGATGACTGGGACAACAT
17387710 CACAAGTAAAAAAATAAAGATGAT-AATGACAACATCATAGGTCA
63 CACAAGTAAAAAAATAAAGATGATCAA-GACAACA-CATAGGTCA
* ** * * * * *
17387754 AAAAAATAAAAAAAAAACTAGGATAACA-C-CAATGGTTAATAAAACAAATATGATCGGGGACAA
1 AAAAAA-ATAAAATGATC-AGGATAACATCACAA--GTCAA-AAAATAAAGATGA-CTGGGACAA
* * * * *
17387817 CACCTCAAGTAAATAAAA-AAAGATGATCGAGACAACACTGTAGGTAA
60 CATCACAAGTAAA-AAAATAAAGATGATCAAGACAACAC-ATAGGTCA
* * *
17387864 AAAAAAATAAATATGAT-TGGCATAACATCACAAGTCAAAAAATAAAGATAACCGGGACAACA-C
1 AAAAAAATAAA-ATGATCAGG-ATAACATCACAAGTCAAAAAATAAAGATGACTGGGACAACATC
* * * *
17387927 ATAAGTCAAAAAATAAAGATGA-CCAGAGCAAAACCATAGGTCA
64 ACAAGTAAAAAAATAAAGATGATCAAGA-CAACA-CATAGGTCA
* * * * *
17387970 GAAAAAATAAATATGACCAGGATAACATCGCAAGTCAAAAAATAAAGATGACTAGGATAACATCA
1 AAAAAAATAAA-ATGATCAGGATAACATCACAAGTCAAAAAATAAAGATGACTGGGACAACATCA
* *
17388035 CATGTCAAAAAATAAAGATGATCAAGACAACAC-TA-GT-A
65 CAAGTAAAAAAATAAAGATGATCAAGACAACACATAGGTCA
** * * * * * * *
17388073 ATTAAAA-AAAATGATCGGGACAACATCATAGGT-AAAAAAAAAAAATGACCGGGACAACATCA-
1 AAAAAAATAAAATGATCAGGATAACATCACAAGTCAAAAAATAAAGATGACTGGGACAACATCAC
17388135 ATAGTAAAAA
66 A-AGTAAAAA
17388145 TAAATAAATA
Statistics
Matches: 311, Mismatches: 61, Indels: 44
0.75 0.15 0.11
Matches are distributed among these distances:
99 1 0.00
100 30 0.10
101 17 0.05
102 3 0.01
103 5 0.02
104 2 0.01
105 10 0.03
106 83 0.27
107 45 0.14
108 34 0.11
109 24 0.08
110 49 0.16
111 8 0.03
ACGTcount: A:0.55, C:0.14, G:0.15, T:0.16
Consensus pattern (105 bp):
AAAAAAATAAAATGATCAGGATAACATCACAAGTCAAAAAATAAAGATGACTGGGACAACATCAC
AAGTAAAAAAATAAAGATGATCAAGACAACACATAGGTCA
Found at i:17387933 original size:34 final size:35
Alignment explanation
Indices: 17387887--17388261 Score: 220
Period size: 35 Copynumber: 10.8 Consensus size: 35
17387877 TGATTGGCAT
* * *
17387887 AACATCACAAGTCAAAAAATAAAGATAACCGGGAC
1 AACATCATAAGTCAAAAAATAAAGATGACCAGGAC
17387922 AACA-CATAAGTCAAAAAATAAAGATGACCA-GAGC
1 AACATCATAAGTCAAAAAATAAAGATGACCAGGA-C
* * * * *
17387956 AAAACCATAGGTCAGAAAAAATAAATATGACCAGGAT
1 AACATCATAAGTC--AAAAAATAAAGATGACCAGGAC
** * *
17387993 AACATCGCAAGTCAAAAAATAAAGATGACTAGGAT
1 AACATCATAAGTCAAAAAATAAAGATGACCAGGAC
* * * *
17388028 AACATCACATGTCAAAAAATAAAGATGATCAAGAC
1 AACATCATAAGTCAAAAAATAAAGATGACCAGGAC
* *
17388063 AACA-C-T-AGT-AATTAAAA-AAA-ATGATCGGGAC
1 AACATCATAAGTCAA--AAAATAAAGATGACCAGGAC
* * * *
17388094 AACATCATAGGT-AAAAAAAAAAAATGACCGGGAC
1 AACATCATAAGTCAAAAAATAAAGATGACCAGGAC
* * * *
17388128 AACATCA-ATAGTAAAAATAAATAAATATCACCAGGAT
1 AACATCATA-AGT-CAAA-AAATAAAGATGACCAGGAC
* * * * *
17388165 AATACCATAAGTCAAAAAATAAATATGACAAAGAC
1 AACATCATAAGTCAAAAAATAAAGATGACCAGGAC
* * *
17388200 AACA-CTGTAGGT-AAAAAA-AAAGTATGACTAGGAC
1 AACATC-ATAAGTCAAAAAATAAAG-ATGACCAGGAC
* * *
17388234 AACA-CTGTAAGTTAAAAAGTAAAGATGA
1 AACATC-ATAAGTCAAAAAATAAAGATGA
17388262 TCGAGACAAC
Statistics
Matches: 272, Mismatches: 47, Indels: 42
0.75 0.13 0.12
Matches are distributed among these distances:
31 15 0.06
32 10 0.04
33 14 0.05
34 78 0.29
35 95 0.35
36 10 0.04
37 47 0.17
38 3 0.01
ACGTcount: A:0.54, C:0.14, G:0.15, T:0.17
Consensus pattern (35 bp):
AACATCATAAGTCAAAAAATAAAGATGACCAGGAC
Found at i:17388082 original size:72 final size:72
Alignment explanation
Indices: 17387822--17388231 Score: 198
Period size: 72 Copynumber: 5.9 Consensus size: 72
17387812 GACAACACCT
* * * * * *
17387822 CAAGT-AAATAAAAAAAGATGATCGAGACAACACT-GTAGGTAAAAAAAAATAAATATGA-TTGG
1 CAAGTCAAA-AAATAAAGATGACCAAGACAACACTAGTAAGT--AAAAAAATAAAGATGACTAGG
17387884 CATAACATCA
63 CATAACATCA
* ** * *
17387894 CAAGTCAAAAAATAAAGATAACCGGGACAACAC-A-TAAGTCAAAAAATAAAGATGACCAGAGCA
1 CAAGTCAAAAAATAAAGATGACCAAGACAACACTAGTAAGTAAAAAAATAAAGATGACTAG-GCA
*
17387957 -AA-ACCA
65 TAACATCA
* * * * * * * *
17387963 TAGGTCAGAAAAAATAAATATGACCAGGATAACA-TCGCAAGTCAAAAAATAAAGATGACTAGG-
1 CAAGTC--AAAAAATAAAGATGACCAAGACAACACTAGTAAGTAAAAAAATAAAGATGACTAGGC
17388026 ATAACATCA
64 ATAACATCA
* * * * * *
17388035 CATGTCAAAAAATAAAGATGATCAAGACAACACTAGTAA-T--TAAAA-AAA-ATGA-TCGGGAC
1 CAAGTCAAAAAATAAAGATGACCAAGACAACACTAGTAAGTAAAAAAATAAAGATGACTAGGCAT
17388094 AACATCA
66 AACATCA
* * * * ** * * * *
17388101 TAGGT-AAAAAAAAAAAATGACCGGGACAACATCAATAGTAA--AAATAAATAAATATCACCAGG
1 CAAGTCAAAAAATAAAGATGACCAAGACAACA-C--TAGTAAGTAAAAAAATAAAGATGACTAGG
* *
17388163 -ATAATACCA
63 CATAACATCA
* * * *
17388172 TAAGTCAAAAAATAAATATGACAAAGACAACACT-GTAGGT-AAAAAA-AAAGTATGACTAGG
1 CAAGTCAAAAAATAAAGATGACCAAGACAACACTAGTAAGTAAAAAAATAAAG-ATGACTAGG
17388232 ACAACACTGT
Statistics
Matches: 257, Mismatches: 57, Indels: 51
0.70 0.16 0.14
Matches are distributed among these distances:
65 24 0.09
66 16 0.06
67 3 0.01
68 16 0.06
69 37 0.14
70 30 0.12
71 50 0.19
72 78 0.30
73 3 0.01
ACGTcount: A:0.54, C:0.14, G:0.15, T:0.17
Consensus pattern (72 bp):
CAAGTCAAAAAATAAAGATGACCAAGACAACACTAGTAAGTAAAAAAATAAAGATGACTAGGCAT
AACATCA
Found at i:17388095 original size:31 final size:34
Alignment explanation
Indices: 17388076--17388153 Score: 113
Period size: 34 Copynumber: 2.3 Consensus size: 34
17388066 ACTAGTAATT
*
17388076 AAAAAAAATGATCGGGACAACATCATAGGTAAAA
1 AAAAAAAATGACCGGGACAACATCATAGGTAAAA
17388110 AAAAAAAATGACCGGGACAACATCAATA-GTAAAA
1 AAAAAAAATGACCGGGACAACATC-ATAGGTAAAA
*
17388144 ATAAATAAAT
1 A-AAAAAAAT
17388154 ATCACCAGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
34 30 0.75
35 10 0.25
ACGTcount: A:0.59, C:0.12, G:0.14, T:0.15
Consensus pattern (34 bp):
AAAAAAAATGACCGGGACAACATCATAGGTAAAA
Found at i:17388115 original size:35 final size:35
Alignment explanation
Indices: 17387794--17388144 Score: 132
Period size: 35 Copynumber: 10.1 Consensus size: 35
17387784 AATGGTTAAT
* *
17387794 AAAACAAATATGATCGGGGACAACACCTCA-A-GTAAA
1 AAAAAAAAGATGATC-GGGACAACA--TCATAGGTAAA
* * *
17387830 TAAAAAAAGATGATCGAGACAACA-CTGTAGGTAAAA
1 AAAAAAAAGATGATCGGGACAACATC-ATAGGT-AAA
* * * * * * *
17387866 AAAAATAAATATGATTGGCATAACATCACAAGTCAA
1 AAAAA-AAAGATGATCGGGACAACATCATAGGTAAA
* * * * *
17387902 AAAATAAAGATAACCGGGACAACA-CATAAGTCAA
1 AAAAAAAAGATGATCGGGACAACATCATAGGTAAA
* ** * *
17387936 AAAATAAAGATGA-CCAGAGCAAAACCATAGGTCAGAA
1 AAAAAAAAGATGATCGGGA-CAACATCATAGGT-A-AA
* * * * * ** * *
17387973 AAAATAAATATGACCAGGATAACATCGCAAGTCAA
1 AAAAAAAAGATGATCGGGACAACATCATAGGTAAA
* * * * * *
17388008 AAAATAAAGATGA-CTAGGATAACATCACATGTCAA
1 AAAAAAAAGATGATC-GGGACAACATCATAGGTAAA
* ** *
17388043 AAAATAAAGATGATCAAGACAACA-C-TA-GTAAT
1 AAAAAAAAGATGATCGGGACAACATCATAGGTAAA
*
17388075 TAAAAAAA-ATGATCGGGACAACATCATAGGTAAA
1 AAAAAAAAGATGATCGGGACAACATCATAGGTAAA
*
17388109 AAAAAAAA-ATGACCGGGACAACATCAATA-GTAAA
1 AAAAAAAAGATGATCGGGACAACATC-ATAGGTAAA
17388143 AA
1 AA
17388145 TAAATAAATA
Statistics
Matches: 244, Mismatches: 54, Indels: 36
0.73 0.16 0.11
Matches are distributed among these distances:
31 13 0.05
32 11 0.05
33 6 0.02
34 62 0.25
35 84 0.34
36 26 0.11
37 38 0.16
38 4 0.02
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.16
Consensus pattern (35 bp):
AAAAAAAAGATGATCGGGACAACATCATAGGTAAA
Found at i:17388217 original size:35 final size:34
Alignment explanation
Indices: 17388178--17388562 Score: 106
Period size: 35 Copynumber: 11.2 Consensus size: 34
17388168 ACCATAAGTC
17388178 AAAAAATAAATATGACAAAGACAACACTGTAGGTA
1 AAAAAATAAATATGAC-AAGACAACACTGTAGGTA
* * * *
17388213 AAAAAA-AAGTATGACTAGGACAACACTGTAAGTT
1 AAAAAATAAATATGAC-AAGACAACACTGTAGGTA
* * * * *
17388247 AAAAAGTAAAGATGATCGAGACAACACCGCAGGTTA
1 AAAAAATAAATATGA-CAAGACAACACTGTAGG-TA
* * ** * ** *
17388283 GAAAAAACAAATATAATTAGTACAATACTACAAGTA
1 -AAAAAATAAATATGACAAG-ACAACACTGTAGGTA
* * ** * * **
17388319 AAAAAATAAAGATAATTGAGACAACCCT-AACAATCA
1 AAAAAATAAATATGA-CAAGACAACACTGTA-GGT-A
* ** ** *
17388355 AAAAAATAAATATGATCAAGAAAACACCATAAATC
1 AAAAAATAAATATGA-CAAGACAACACTGTAGGTA
* *
17388390 AAAAAATAAAGATAACCAAGACAACACTGTAGGTCA
1 AAAAAATAAATATGA-CAAGACAACACTGTAGGT-A
* *
17388426 GAAAAAATAAATATGATC--GA-GACA----A-GTC
1 -AAAAAATAAATATGA-CAAGACAACACTGTAGGTA
* * ** * * *
17388454 AAATAATAAAAATGACTGGACAACACTGCAAGTC
1 AAAAAATAAATATGACAAGACAACACTGTAGGTA
* * * * *
17388488 AAAAAATAAAGATGATTAGGACAACACTGCAGGTC
1 AAAAAATAAATATGA-CAAGACAACACTGTAGGTA
* * * *
17388523 AAAAAATAAATATGACCAGACAACACCGCAAGTA
1 AAAAAATAAATATGACAAGACAACACTGTAGGTA
17388557 AAAAAA
1 AAAAAA
17388563 AATCAAAAAA
Statistics
Matches: 261, Mismatches: 69, Indels: 41
0.70 0.19 0.11
Matches are distributed among these distances:
26 1 0.00
27 13 0.05
28 2 0.01
29 5 0.02
30 1 0.00
33 1 0.00
34 67 0.26
35 102 0.39
36 34 0.13
37 35 0.13
ACGTcount: A:0.55, C:0.15, G:0.14, T:0.17
Consensus pattern (34 bp):
AAAAAATAAATATGACAAGACAACACTGTAGGTA
Found at i:17388563 original size:35 final size:34
Alignment explanation
Indices: 17388448--17388562 Score: 140
Period size: 34 Copynumber: 3.4 Consensus size: 34
17388438 ATGATCGAGA
* *
17388448 CAAGTCAAATAATAAAAATGACTGGACAACACTG
1 CAAGTCAAAAAATAAAAATGACTAGACAACACTG
* *
17388482 CAAGTCAAAAAATAAAGATGATTAGGACAACACTG
1 CAAGTCAAAAAATAAAAATGACTA-GACAACACTG
* * * *
17388517 CAGGTCAAAAAATAAATATGACCAGACAACACCG
1 CAAGTCAAAAAATAAAAATGACTAGACAACACTG
*
17388551 CAAGTAAAAAAA
1 CAAGTCAAAAAA
17388563 AATCAAAAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
34 39 0.57
35 30 0.43
ACGTcount: A:0.53, C:0.17, G:0.15, T:0.15
Consensus pattern (34 bp):
CAAGTCAAAAAATAAAAATGACTAGACAACACTG
Found at i:17388623 original size:79 final size:79
Alignment explanation
Indices: 17388486--17388642 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
17388476 ACACTGCAAG
* * ** * *
17388486 TCAAAAAATAAAGATGATTAGGACAACACTGCAGGTCAAAAAATAAATATGACCAGACAACACCG
1 TCAAAAAATAAAGATGATCAAGACAACACCACAGGTCAAAAAATAAAGATAACCAGACAACACCG
17388551 CAAGTAAAAAAAAA
66 CAAGTAAAAAAAAA
* * * **
17388565 TCAAAAAATAAAGATGATCAAGACAACACCATAGG-CTAAAAATAAAGATAATCGAGACAACATT
1 TCAAAAAATAAAGATGATCAAGACAACACCACAGGTCAAAAAATAAAGATAA-CCAGACAACACC
*
17388629 GCAAGTTAAAAAAA
65 GCAAGTAAAAAAAA
17388643 TAAAGATGAC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
78 13 0.20
79 52 0.80
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (79 bp):
TCAAAAAATAAAGATGATCAAGACAACACCACAGGTCAAAAAATAAAGATAACCAGACAACACCG
CAAGTAAAAAAAAA
Found at i:17388676 original size:36 final size:35
Alignment explanation
Indices: 17388636--17388743 Score: 101
Period size: 37 Copynumber: 3.0 Consensus size: 35
17388626 ATTGCAAGTT
17388636 AAAAAAATAAAGATGACTAGGATAACACCAATGGTA
1 AAAAAAATAAAGATGA-TAGGATAACACCAATGGTA
* * * * * *
17388672 AAAAAAAAAAATTATGATTGGGACAACATC-ATAGGTC
1 AAAAAAATAAA-GATGA-TAGGATAACACCAAT-GGTA
*
17388709 AAAAAAATAAAGATGATCGAGATAACACCAATGGT
1 AAAAAAATAAAGATGATAG-GATAACACCAATGGT
17388744 CGAAAGGATA
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
35 2 0.04
36 26 0.46
37 28 0.50
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.19
Consensus pattern (35 bp):
AAAAAAATAAAGATGATAGGATAACACCAATGGTA
Found at i:17389415 original size:80 final size:80
Alignment explanation
Indices: 17389331--17389512 Score: 215
Period size: 80 Copynumber: 2.3 Consensus size: 80
17389321 CAACATATAG
17389331 ATCAAATGT-TTTTTTAATGATGCACACGTAAACAAT-AGTGATGCAAATGCAAAGACTCTTTTT
1 ATCAAATGTCTTTTTT-ATGATGCACACG-AAACAATAAGTGATGCAAATGCAAAGACTCTTTTT
*
17389394 GTTTTTACAATATGCAA
64 ATTTTTACAATATGCAA
* * * * * *** * *
17389411 ATCAAATATCTTTTTTATAACGCACATGCAAGTGTAAGTTATGCAAATGCAAAGACTTTTTTTAT
1 ATCAAATGTCTTTTTTATGATGCACACGAAACAATAAGTGATGCAAATGCAAAGACTCTTTTTAT
*
17389476 TTTTGCAATATGCAA
66 TTTTACAATATGCAA
*
17389491 ATCAAATGTCTTTCTTATGATG
1 ATCAAATGTCTTTTTTATGATG
17389513 TAAATGTAAT
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
79 3 0.04
80 75 0.89
81 6 0.07
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (80 bp):
ATCAAATGTCTTTTTTATGATGCACACGAAACAATAAGTGATGCAAATGCAAAGACTCTTTTTAT
TTTTACAATATGCAA
Found at i:17397931 original size:144 final size:144
Alignment explanation
Indices: 17397659--17398034 Score: 470
Period size: 144 Copynumber: 2.6 Consensus size: 144
17397649 GATTTTAAAG
* * * ** *
17397659 CACCAAAAATCATGAAATATTATGAAATTAAGATATGAAAAGTTTAATGAAAATCTGAGCTTAGG
1 CACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATGAAAATCCAAGC-TCGG
* * ** * *
17397724 -AATGCCAAATTATGAAAATACCCCTGAGGGGTATTTTGGTGATTTCACACTTCTAAAGGTATTG
65 AAAGGCCAAATTATGAAAATACCCCTAAGGGGTATTTTCATAATTTCACACCTCTAAAGGTATTG
17397788 CTATGATTTCAAATA
130 CTATGATTTCAAATA
* * * *
17397803 CACTAAAAATCATGGAATACTATAAAATTAAGATCTGAAAGGTTTCATGAAAATCCAAGCTCGGA
1 CACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATGAAAATCCAAGCTCGGA
* **
17397868 AAGGCCAAATTATGAAAATACTCCTAAGGGGTATTTTCATAATTTCACACCTCT-CGGGATATTG
66 AAGGCCAAATTATGAAAATACCCCTAAGGGGTATTTTCATAATTTCACACCTCTAAAGG-TATTG
*
17397932 CTGTGATTTCAAATA
130 CTATGATTTCAAATA
* * * *
17397947 CACCAAAAATTATAAAATATTAAAAAATTATGATCTGAAAAGTTTCATGAAAATCCAAGCTC-GA
1 CACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATGAAAATCCAAGCTCGGA
**
17398011 GAAGGCCAAATTACAAAAATACCC
66 -AAGGCCAAATTATGAAAATACCC
17398035 ATAAAGGCAT
Statistics
Matches: 198, Mismatches: 31, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
143 7 0.04
144 191 0.96
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (144 bp):
CACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATGAAAATCCAAGCTCGGA
AAGGCCAAATTATGAAAATACCCCTAAGGGGTATTTTCATAATTTCACACCTCTAAAGGTATTGC
TATGATTTCAAATA
Found at i:17403850 original size:19 final size:19
Alignment explanation
Indices: 17403796--17403924 Score: 91
Period size: 19 Copynumber: 6.6 Consensus size: 19
17403786 CATAAATTTT
*
17403796 TAAAATCCTAAATGAAACCC
1 TAAAACCCTAAATGAAA-CC
**
17403816 TAAAACCCTACGTGAAA-C
1 TAAAACCCTAAATGAAACC
17403834 TCAAAACCCTAAATGAAACC
1 T-AAAACCCTAAATGAAACC
* * * *
17403854 TTAAATCTTATATGAATACCC
1 TAAAACCCTAAATGAA-A-CC
* **
17403875 TAAAATCCTAGGTGAAA-C
1 TAAAACCCTAAATGAAACC
*
17403893 TCAAATCCCTAAATGAAACC
1 T-AAAACCCTAAATGAAACC
*
17403913 TTAAACCCTAAA
1 TAAAACCCTAAA
17403925 ATATAAATCC
Statistics
Matches: 84, Mismatches: 19, Indels: 13
0.72 0.16 0.11
Matches are distributed among these distances:
18 4 0.05
19 46 0.55
20 20 0.24
21 14 0.17
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.22
Consensus pattern (19 bp):
TAAAACCCTAAATGAAACC
Found at i:17403876 original size:59 final size:58
Alignment explanation
Indices: 17403798--17403924 Score: 191
Period size: 59 Copynumber: 2.2 Consensus size: 58
17403788 TAAATTTTTA
17403798 AAATCCTAAATGAAACCCTAAAACCCTACGTGAAACTCAAAACCCTAAATGAAACCTT
1 AAATCCTAAATGAAACCCTAAAACCCTACGTGAAACTCAAAACCCTAAATGAAACCTT
* * * * *
17403856 AAATCTTATATGAATACCCTAAAATCCTAGGTGAAACTCAAATCCCTAAATGAAACCTT
1 AAATCCTAAATGAA-ACCCTAAAACCCTACGTGAAACTCAAAACCCTAAATGAAACCTT
*
17403915 AAACCCTAAA
1 AAATCCTAAA
17403925 ATATAAATCC
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
58 12 0.20
59 48 0.80
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.22
Consensus pattern (58 bp):
AAATCCTAAATGAAACCCTAAAACCCTACGTGAAACTCAAAACCCTAAATGAAACCTT
Found at i:17405467 original size:13 final size:14
Alignment explanation
Indices: 17405449--17405480 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
17405439 CACTATTCTC
17405449 TTTTTTC-TTTAGT
1 TTTTTTCTTTTAGT
17405462 TTTTTTCTTTTAGT
1 TTTTTTCTTTTAGT
17405476 TTTTT
1 TTTTT
17405481 AGCTCACAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.81
Consensus pattern (14 bp):
TTTTTTCTTTTAGT
Found at i:17407916 original size:15 final size:15
Alignment explanation
Indices: 17407896--17407927 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17407886 CCAATGTCTA
17407896 AACTAAAGAGAAAAG
1 AACTAAAGAGAAAAG
*
17407911 AACTAAAGAGACAAG
1 AACTAAAGAGAAAAG
17407926 AA
1 AA
17407928 AAGTGATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.09, G:0.19, T:0.06
Consensus pattern (15 bp):
AACTAAAGAGAAAAG
Found at i:17413229 original size:195 final size:194
Alignment explanation
Indices: 17412897--17413276 Score: 645
Period size: 195 Copynumber: 2.0 Consensus size: 194
17412887 ACAAGAATTG
* *
17412897 AAAACTTGAAAACAAGACAGAGTGCTTGCCAAATGCTTGTAAAGAAAAAAAAGATTGCATAAAAG
1 AAAACTTGAAAACAAGAAAGAGTGCTTGCCAAATGCTTGTAAAGAAAAAAAAGATTACATAAAAG
* *
17412962 TAAACCTGTAGAACATCAAGGACTAATGGCCAAAACTTGTAAAGAGAAATAGGAATGATTGAATC
66 TAAACCTCTAGAACATCAAAGACTAATGGCCAAAACTTGTAAAGAGAAATAGGAATGATTGAATC
* *
17413027 AAACTTTAAAATAAAAAGGATGCTTTTGCCAAAATTAAAAAAATAAAAACAAGATTGCCAAAGTA
131 AAACTTTAAAATAAAAAAGATACTTTTGCCAAAATTAAAAAAAT-AAAACAAGATTGCCAAAGTA
*
17413092 AAAACTTGAAAACAAGAAAGAGTGCTTGCCAAATGCTTGTAAAGAAAAGAAAGATTACATAAAAG
1 AAAACTTGAAAACAAGAAAGAGTGCTTGCCAAATGCTTGTAAAGAAAAAAAAGATTACATAAAAG
*
17413157 TAAACGC-CTAGAACATCAAAGACTAATGGCCAAAACTTGTAGAGAGAAATAGGAATGATTGAAT
66 TAAAC-CTCTAGAACATCAAAGACTAATGGCCAAAACTTGTAAAGAGAAATAGGAATGATTGAAT
* *
17413221 TAAACTTTAAAATAAAAAAGATACTTTTGCCAAAATTAAAAAAGTAAAACAAGATT
130 CAAACTTTAAAATAAAAAAGATACTTTTGCCAAAATTAAAAAAATAAAACAAGATT
17413277 TAAAACTTAG
Statistics
Matches: 174, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
194 11 0.06
195 162 0.93
196 1 0.01
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (194 bp):
AAAACTTGAAAACAAGAAAGAGTGCTTGCCAAATGCTTGTAAAGAAAAAAAAGATTACATAAAAG
TAAACCTCTAGAACATCAAAGACTAATGGCCAAAACTTGTAAAGAGAAATAGGAATGATTGAATC
AAACTTTAAAATAAAAAAGATACTTTTGCCAAAATTAAAAAAATAAAACAAGATTGCCAAAGTA
Found at i:17419904 original size:16 final size:16
Alignment explanation
Indices: 17419883--17419917 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
17419873 ATACAAGCTC
*
17419883 ATACCAATTGTTAAGG
1 ATACCAATTGTTAAAG
17419899 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
17419915 ATA
1 ATA
17419918 TGTCATCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:17428271 original size:42 final size:41
Alignment explanation
Indices: 17428186--17428271 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 41
17428176 ATAAAGGTTG
* **
17428186 TTAATAATAATAGGTTCGATATAAGTTATTATACTTGTCTT
1 TTAATAATAATAGGTTCGATATAAGTCATTATACTTAACTT
*
17428227 TTAATAGATAATAGGTTCGATATAAGTCA-TATTACTTAAGTT
1 TTAATA-ATAATAGGTTCGATATAAGTCATTA-TACTTAACTT
17428269 TTA
1 TTA
17428272 TAAAAGTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 8 0.21
42 31 0.79
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (41 bp):
TTAATAATAATAGGTTCGATATAAGTCATTATACTTAACTT
Found at i:17428378 original size:3 final size:3
Alignment explanation
Indices: 17428364--17428393 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
17428354 CATAGCTTAA
*
17428364 ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
17428394 GATGCAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:17428451 original size:3 final size:3
Alignment explanation
Indices: 17428443--17428514 Score: 135
Period size: 3 Copynumber: 24.0 Consensus size: 3
17428433 AAAAGAAAAG
*
17428443 TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17428491 TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
17428515 ATGAAAATTT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:17434918 original size:129 final size:131
Alignment explanation
Indices: 17434699--17435008 Score: 366
Period size: 129 Copynumber: 2.4 Consensus size: 131
17434689 TGCACTTTGG
* * * * *
17434699 AGATGAGCATTTGGGGCAAAAAGTGAATGAGACTTCAATTAGAATCCCAAAAATTCAAGAAAGTA
1 AGATGAGGATCTGGGGCAAAAAGTGAATAAGACTTCAGTTAGAATCCCAAAAATTCAAGAAAGCA
* * *
17434764 GGTTGTTAAAGATGTAGTTAAATG-TTAAAAAAAAAG-AGCA-AAA-AAAAAAAGACATGCA-CT
66 GATTGTTAAAGATGAAGTTAAATGTTTAAAAAAAAAGAAACAGAAAGAAAAAAAGACATGCACCT
17434824 T
131 T
* * * *
17434825 AAAAGATGAGGATCTGGGGTAAAAAGTGAATAAGGACTT-AGTTAGAATCCTAAGAATTTAAGAA
1 ---AGATGAGGATCTGGGGCAAAAAGTGAATAA-GACTTCAGTTAGAATCCCAAAAATTCAAGAA
* *
17434889 AGCATATTGTTAAAGATGAAGTTAAATGTTTAAAAAAAAAGAAACAGTAAAGAAAGAAAGACATG
62 AGCAGATTGTTAAAGATGAAGTTAAATGTTTAAAAAAAAAGAAACAG-AAAGAAAAAAAGACATG
17434954 CACCTT
126 CACCTT
* *
17434960 -GAAGAGGATCTGAGGCAAAAAGTGAATAA-AGCTTCAGTTAGAATCCCAA
1 AGATGAGGATCTGGGGCAAAAAGTGAATAAGA-CTTCAGTTAGAATCCCAA
17435009 GGAAAAAAAT
Statistics
Matches: 154, Mismatches: 18, Indels: 16
0.82 0.10 0.09
Matches are distributed among these distances:
129 72 0.47
130 20 0.13
131 42 0.27
133 3 0.02
134 14 0.09
135 3 0.02
ACGTcount: A:0.48, C:0.09, G:0.21, T:0.22
Consensus pattern (131 bp):
AGATGAGGATCTGGGGCAAAAAGTGAATAAGACTTCAGTTAGAATCCCAAAAATTCAAGAAAGCA
GATTGTTAAAGATGAAGTTAAATGTTTAAAAAAAAAGAAACAGAAAGAAAAAAAGACATGCACCT
T
Found at i:17435209 original size:141 final size:135
Alignment explanation
Indices: 17434907--17435210 Score: 284
Period size: 141 Copynumber: 2.2 Consensus size: 135
17434897 GTTAAAGATG
* * * **
17434907 AAGTTAAATGTTTAAAAAAAAAGAAACAGTAAAGAAAGAAAGACATGCACCTTGAAGAGGATCTG
1 AAGTTAAA-GTTAAAAAAAAAAGAAACAGTAAAGAAAGAAAGACATGCACATTGAAGAGAATCCA
* * * *
17434972 AGGCAAAAAGTGAATAAAGCTTCAGTTAGAATCCCAAGGAAAAAAATAGAATTCAAGAAAGTATA
65 AAGCAAAAAGTGAATAAAGCATCAGTTAGAATCCCAAGAAAAAAAATAGAATTCAAGAAAGTAGA
*
17435037 TTGCTA
130 ATGCTA
* * * * * * *
17435043 AAGATGAAGTCAAATGTTTCTAAAAAAGAAAGAGTAAAGAAAGAAAGACATGCATATTGGAGATG
1 AAGTTAAAGTTAAA------AAAAAAAGAAACAGTAAAGAAAGAAAGACATGCACATTGAAGA-G
* * * ** *
17435108 AAAGTCCAAAGTAAAATGTGAATGAAGCATCAGTTAGAATCTTAAGTTAAAAAAAGATAGAATTT
59 -AA-TCCAAAGCAAAAAGTGAATAAAGCATCAGTTAGAATCCCAAG--AAAAAAA-ATAGAATTC
17435173 AAGAAAGTAGAATGCTA
119 AAGAAAGTAGAATGCTA
17435190 AAGTTAAAGTTAAAAAAAAAA
1 AAGTTAAAGTTAAAAAAAAAA
17435211 AAAAAGATAG
Statistics
Matches: 129, Mismatches: 27, Indels: 19
0.74 0.15 0.11
Matches are distributed among these distances:
135 4 0.03
136 6 0.05
141 44 0.34
142 1 0.01
143 1 0.01
144 33 0.26
146 6 0.05
147 34 0.26
ACGTcount: A:0.52, C:0.08, G:0.19, T:0.21
Consensus pattern (135 bp):
AAGTTAAAGTTAAAAAAAAAAGAAACAGTAAAGAAAGAAAGACATGCACATTGAAGAGAATCCAA
AGCAAAAAGTGAATAAAGCATCAGTTAGAATCCCAAGAAAAAAAATAGAATTCAAGAAAGTAGAA
TGCTA
Found at i:17437172 original size:64 final size:64
Alignment explanation
Indices: 17437083--17437213 Score: 181
Period size: 64 Copynumber: 2.0 Consensus size: 64
17437073 TATTTAAGCT
* * **
17437083 TAGTCAAGTTGGCACCCAAATCAAACCAAGCCCAGTCTAGCTAGCATTTAGATCAAACTAAACC
1 TAGTCAAGTTGACACCCAAATCAAACCAAGCCCAGTCAAGCTAGCACCTAGATCAAACTAAACC
* * * * *
17437147 TAGTTAAGTTGACACCTAAATCAAACTAAGCCCATTCAAGCTAGCACCTAGATCAAACTAAGCC
1 TAGTCAAGTTGACACCCAAATCAAACCAAGCCCAGTCAAGCTAGCACCTAGATCAAACTAAACC
17437211 TAG
1 TAG
17437214 ATTAGCTGGC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.21
Consensus pattern (64 bp):
TAGTCAAGTTGACACCCAAATCAAACCAAGCCCAGTCAAGCTAGCACCTAGATCAAACTAAACC
Found at i:17437195 original size:32 final size:32
Alignment explanation
Indices: 17437094--17437210 Score: 103
Period size: 32 Copynumber: 3.7 Consensus size: 32
17437084 AGTCAAGTTG
* * * *
17437094 GCACCCAAATCAAACCAAGCCCAGTCTAGCTA
1 GCACCTAAATCAAACTAAGCCCATTCAAGCTA
** * * * *
17437126 GCATTTAGATCAAACTAAACCTAGTT-AAG-TT
1 GCACCTAAATCAAACTAAGCCCA-TTCAAGCTA
17437157 GACACCTAAATCAAACTAAGCCCATTCAAGCTA
1 G-CACCTAAATCAAACTAAGCCCATTCAAGCTA
*
17437190 GCACCTAGATCAAACTAAGCC
1 GCACCTAAATCAAACTAAGCC
17437211 TAGATTAGCT
Statistics
Matches: 64, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
31 4 0.06
32 57 0.89
33 3 0.05
ACGTcount: A:0.39, C:0.29, G:0.12, T:0.20
Consensus pattern (32 bp):
GCACCTAAATCAAACTAAGCCCATTCAAGCTA
Found at i:17437231 original size:23 final size:23
Alignment explanation
Indices: 17437205--17437248 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
17437195 TAGATCAAAC
*
17437205 TAAGCCTAGATTAGCTGGCATTT
1 TAAGCCTAGATTAGCTAGCATTT
*
17437228 TAAGCCTAGTTTAGCTAGCAT
1 TAAGCCTAGATTAGCTAGCAT
17437249 AGTTGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (23 bp):
TAAGCCTAGATTAGCTAGCATTT
Found at i:17437347 original size:23 final size:23
Alignment explanation
Indices: 17437321--17437426 Score: 97
Period size: 23 Copynumber: 4.7 Consensus size: 23
17437311 CACCCAAGTT
17437321 CAGATTAGTTGGCACTTTAAGCC
1 CAGATTAGTTGGCACTTTAAGCC
* * *
17437344 CAGATTAGCTAGCAC-TTATGCC
1 CAGATTAGTTGGCACTTTAAGCC
* *
17437366 CAAATTAGTTGGCACTTTAAGTC
1 CAGATTAGTTGGCACTTTAAGCC
* ** ** *
17437389 AAGATTAACTAACACCTTAAGCC
1 CAGATTAGTTGGCACTTTAAGCC
*
17437412 CAAATTAGTTGGCAC
1 CAGATTAGTTGGCAC
17437427 CGACAAGATG
Statistics
Matches: 60, Mismatches: 22, Indels: 2
0.71 0.26 0.02
Matches are distributed among these distances:
22 18 0.30
23 42 0.70
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (23 bp):
CAGATTAGTTGGCACTTTAAGCC
Found at i:17437373 original size:45 final size:46
Alignment explanation
Indices: 17437324--17437426 Score: 154
Period size: 45 Copynumber: 2.3 Consensus size: 46
17437314 CCAAGTTCAG
* * * *
17437324 ATTAGTTGGCACTTTAAGCCCAGATTAGCTAGCA-CTTATGCCCAA
1 ATTAGTTGGCACTTTAAGCCAAGATTAACTAACACCTTAAGCCCAA
*
17437369 ATTAGTTGGCACTTTAAGTCAAGATTAACTAACACCTTAAGCCCAA
1 ATTAGTTGGCACTTTAAGCCAAGATTAACTAACACCTTAAGCCCAA
17437415 ATTAGTTGGCAC
1 ATTAGTTGGCAC
17437427 CGACAAGATG
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
45 30 0.58
46 22 0.42
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (46 bp):
ATTAGTTGGCACTTTAAGCCAAGATTAACTAACACCTTAAGCCCAA
Found at i:17437850 original size:17 final size:17
Alignment explanation
Indices: 17437816--17437901 Score: 74
Period size: 17 Copynumber: 5.2 Consensus size: 17
17437806 TTTTATGAAG
*
17437816 AAAAATAAAAAAA-AA-
1 AAAAACAAAAAAACAAC
*
17437831 AAAAA-AAAACAACAAC
1 AAAAACAAAAAAACAAC
17437847 -AAAACAATAAAAACAAC
1 AAAAACAA-AAAAACAAC
17437864 AAAAACAACAAAAA-AAC
1 AAAAACAA-AAAAACAAC
* *
17437881 AAAAATAAAAACAAAAAC
1 AAAAACAAAAA-AACAAC
17437899 AAA
1 AAA
17437902 GCAAAGCAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
14 6 0.10
15 11 0.18
16 5 0.08
17 20 0.33
18 18 0.30
ACGTcount: A:0.84, C:0.13, G:0.00, T:0.03
Consensus pattern (17 bp):
AAAAACAAAAAAACAAC
Found at i:17437850 original size:20 final size:19
Alignment explanation
Indices: 17437825--17437900 Score: 82
Period size: 20 Copynumber: 3.9 Consensus size: 19
17437815 GAAAAATAAA
17437825 AAAAAAAAAAAAAAACAAC
1 AAAAAAAAAAAAAAACAAC
* *
17437844 AACAAAACAATAAAAACAAC
1 AA-AAAAAAAAAAAAACAAC
*
17437864 AAAAACAACAAAAAAACAA-
1 AAAAA-AAAAAAAAAACAAC
* *
17437883 AAATAAAAACAAAAACAA
1 AAAAAAAAAAAAAAACAA
17437901 AGCAAAGCAA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
18 11 0.23
19 9 0.19
20 27 0.57
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (19 bp):
AAAAAAAAAAAAAAACAAC
Found at i:17437898 original size:6 final size:6
Alignment explanation
Indices: 17437823--17437901 Score: 74
Period size: 6 Copynumber: 13.5 Consensus size: 6
17437813 AAGAAAAATA
* * * *
17437823 AAAAAA AAAAAA AAAAAC AACAAC -AAAAC AATAAA- AACAAC AAAAAC
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AA-AAAC AAAAAC AAAAAC
* *
17437870 AACAA- AAAAAC AAAAAT AAAAAC AAAAAC AAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAA
17437902 GCAAAGCAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
5 10 0.17
6 47 0.78
7 3 0.05
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.03
Consensus pattern (6 bp):
AAAAAC
Found at i:17437913 original size:29 final size:29
Alignment explanation
Indices: 17437823--17437913 Score: 112
Period size: 29 Copynumber: 3.2 Consensus size: 29
17437813 AAGAAAAATA
*
17437823 AAAAAAAAAAAAAAAAACAACAACAAAAC
1 AAAAAAAAAAACAAAAACAACAACAAAAC
* * *
17437852 AATAAAAACAACAAAAACAACAAAAAAAC
1 AAAAAAAAAAACAAAAACAACAACAAAAC
* * *
17437881 AAAAATAAAAACAAAAACAA-AGCAAAGC
1 AAAAAAAAAAACAAAAACAACAACAAAAC
17437909 AAAAA
1 AAAAA
17437914 CAAGAGTGCT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
28 10 0.19
29 42 0.81
ACGTcount: A:0.81, C:0.14, G:0.02, T:0.02
Consensus pattern (29 bp):
AAAAAAAAAAACAAAAACAACAACAAAAC
Found at i:17440580 original size:3 final size:3
Alignment explanation
Indices: 17440572--17440602 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
17440562 AAAGAAAAGA
17440572 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
17440603 GAAATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17447935 original size:25 final size:24
Alignment explanation
Indices: 17447888--17447935 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
17447878 AGCTAAAAGG
*
17447888 TAATATGTTTTTTTAAAATATGTA
1 TAATATGTTTTTTTAAAACATGTA
* *
17447912 TAATATGGTTTTTTTTATACATGT
1 TAATAT-GTTTTTTTAAAACATGT
17447936 TGCACATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.56
Consensus pattern (24 bp):
TAATATGTTTTTTTAAAACATGTA
Found at i:17458329 original size:13 final size:11
Alignment explanation
Indices: 17458306--17458347 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
17458296 TATTTTGCTT
*
17458306 GAAAAAAAAAG
1 GAAAAAAAAAA
17458317 GAAAAAAACAAA
1 GAAAAAAA-AAA
17458329 GAAAAAAAATAA
1 GAAAAAAAA-AA
17458341 -AAAAAAA
1 GAAAAAAA
17458348 GATGATTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 16 0.57
12 12 0.43
ACGTcount: A:0.86, C:0.02, G:0.10, T:0.02
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:17460061 original size:4 final size:4
Alignment explanation
Indices: 17460052--17460109 Score: 55
Period size: 4 Copynumber: 13.8 Consensus size: 4
17460042 AACAAAAACC
* *
17460052 AAAT AAAT AAAT ATAT AAAA ATAAT AAA- AAATT AAAAT ATAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAA-T -AAAT A-AAT AAAT
17460099 AAAT AAAT AAA
1 AAAT AAAT AAA
17460110 AGTCAAAACA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
3 3 0.07
4 31 0.69
5 8 0.18
6 3 0.07
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:17460075 original size:18 final size:18
Alignment explanation
Indices: 17460052--17460105 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
17460042 AACAAAAACC
*
17460052 AAATAAATAAATATATAA
1 AAATAAATAAATAAATAA
*
17460070 AAAT-AATAAA-AAATTA
1 AAATAAATAAATAAATAA
17460086 AAATATAATAAATAAATAA
1 AAATA-AATAAATAAATAA
17460105 A
1 A
17460106 TAAAAGTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 8 0.27
17 6 0.20
18 10 0.33
19 6 0.20
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATAAATAAATAAATAA
Found at i:17462172 original size:20 final size:19
Alignment explanation
Indices: 17462144--17462331 Score: 83
Period size: 19 Copynumber: 9.6 Consensus size: 19
17462134 ATAAATTTTT
*
17462144 AAAATCCTAAATGAAATCCC
1 AAAACCCTAAATGAAA-CCC
**
17462164 AAAACCCTAGGTGAAACCC
1 AAAACCCTAAATGAAACCC
*
17462183 AAAACCCTAAATAAAACCC
1 AAAACCCTAAATGAAACCC
* * * *
17462202 TAAATCCTATATGAAAACCTT
1 AAAACCCTAAATG-AAACC-C
* * ** **
17462223 AAAATCATAGGTGAAACTT
1 AAAACCCTAAATGAAACCC
** *
17462242 GTAACCCTAAATGAAACCT
1 AAAACCCTAAATGAAACCC
* * *
17462261 TAAGCCCTAAATTTAAACCC
1 AAAACCCTAAA-TGAAACCC
* *
17462281 TAAACCCTATAGAT-AAACTC
1 AAAACCCTA-A-ATGAAACCC
* *
17462301 -AAACTCTAAATGAAACTCT
1 AAAACCCTAAATGAAAC-CC
17462320 AAAACCCTAAAT
1 AAAACCCTAAAT
17462332 TCACCCAAAG
Statistics
Matches: 126, Mismatches: 34, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
17 2 0.02
18 5 0.04
19 56 0.44
20 51 0.40
21 11 0.09
22 1 0.01
ACGTcount: A:0.47, C:0.24, G:0.07, T:0.22
Consensus pattern (19 bp):
AAAACCCTAAATGAAACCC
Found at i:17470261 original size:48 final size:49
Alignment explanation
Indices: 17470084--17470295 Score: 178
Period size: 49 Copynumber: 4.3 Consensus size: 49
17470074 TCAAATTAAG
* * ** * * *
17470084 ATTTTTAAAATTCGTTGCTTATCTTCATA-ATAACCCTTTTTAAAAAGAA
1 ATTTTTAAAGTTTGTTGCCCATCTTCATAGA-AGCCCATTTCAAAAAGAA
* *
17470133 GTTTTTAAAGTTTGTTGCCCATCTTTATAGAAGCCCATTTCAAAAAGAA
1 ATTTTTAAAGTTTGTTGCCCATCTTCATAGAAGCCCATTTCAAAAAGAA
* ** * * *
17470182 ATTTTTAAAGTTTGTTACCCATCTTTGTAGGAGTCC-TTTCAAAAATAA
1 ATTTTTAAAGTTTGTTGCCCATCTTCATAGAAGCCCATTTCAAAAAGAA
* ** * * *
17470230 ATTTTTAAAGTTTATTGCTTATCTCCATAGGAAACCCTTTTCAAAAA-AA
1 ATTTTTAAAGTTTGTTGCCCATCTTCATA-GAAGCCCATTTCAAAAAGAA
* *
17470279 ATTTTAAAAGTTCGTTG
1 ATTTTTAAAGTTTGTTG
17470296 ATTATCTTCA
Statistics
Matches: 132, Mismatches: 28, Indels: 6
0.80 0.17 0.04
Matches are distributed among these distances:
48 33 0.25
49 89 0.67
50 10 0.08
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.41
Consensus pattern (49 bp):
ATTTTTAAAGTTTGTTGCCCATCTTCATAGAAGCCCATTTCAAAAAGAA
Found at i:17470314 original size:97 final size:97
Alignment explanation
Indices: 17470086--17470334 Score: 227
Period size: 97 Copynumber: 2.5 Consensus size: 97
17470076 AAATTAAGAT
* * * * * *
17470086 TTTTAAAA-TTCGTTGCTTATCTTCATAATAA-CCCTTTTTAAAAAGAAGTTTTTAAAGTTTGTT
1 TTTTAAAAGTTCGTTGATTATCTTCATAA-AAGTCC-TTTCAAAAATAAATTTTTAAAGTTTATT
** *
17470149 GCCCATCTTTATAGAAGCCCATTTCAAAAAGAAA
64 GCCCATCTCCATAGAAACCCATTTCAAAAAGAAA
* * ** ** **
17470183 TTTTTAAAGTTTGTT-ACCCATCTTTGTAGGAGTCCTTTCAAAAATAAATTTTTAAAGTTTATTG
1 TTTTAAAAGTTCGTTGA-TTATCTTCATAAAAGTCCTTTCAAAAATAAATTTTTAAAGTTTATTG
** *
17470247 CTTATCTCCATAGGAAACCCTTTTCAAAAA-AAA
65 CCCATCTCCATA-GAAACCCATTTCAAAAAGAAA
*
17470280 TTTTAAAAGTTCGTTGATTATCTTCATAAAAGTCCTTTCCAAAATGAAAATTTTT
1 TTTTAAAAGTTCGTTGATTATCTTCATAAAAGTCCTTTCAAAAAT--AAATTTTT
17470335 GTAAAATAAA
Statistics
Matches: 116, Mismatches: 29, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
97 78 0.67
98 30 0.26
99 8 0.07
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.41
Consensus pattern (97 bp):
TTTTAAAAGTTCGTTGATTATCTTCATAAAAGTCCTTTCAAAAATAAATTTTTAAAGTTTATTGC
CCATCTCCATAGAAACCCATTTCAAAAAGAAA
Found at i:17470323 original size:48 final size:48
Alignment explanation
Indices: 17470213--17470333 Score: 120
Period size: 49 Copynumber: 2.4 Consensus size: 48
17470203 TCTTTGTAGG
* * *
17470213 AGTCCTTTCAAAAATAAATTTTTAAAGTTTATTGCTTATCTCCATAGGAA
1 AGTCCTTTCAAAAA-AAATTTTAAAAGTTCATTGATTATCTCCATA-GAA
* * *
17470263 A-CCCTTTTCAAAAAAAATTTTAAAAGTTCGTTGATTATCTTCATA-AA
1 AGTCC-TTTCAAAAAAAATTTTAAAAGTTCATTGATTATCTCCATAGAA
17470310 AGTCCTTTCCAAAATGAAAATTTT
1 AGTCCTTT-CAAAA--AAAATTTT
17470334 TGTAAAATAA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
47 6 0.10
48 7 0.12
49 28 0.47
50 18 0.31
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (48 bp):
AGTCCTTTCAAAAAAAATTTTAAAAGTTCATTGATTATCTCCATAGAA
Found at i:17477145 original size:15 final size:15
Alignment explanation
Indices: 17477125--17477154 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17477115 AAAATAGAAT
*
17477125 AATAATAATTTTAAA
1 AATAATAATATTAAA
17477140 AATAATAATATTAAA
1 AATAATAATATTAAA
17477155 CAAAAAAGAA
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATAATAATATTAAA
Found at i:17479191 original size:18 final size:18
Alignment explanation
Indices: 17479168--17479205 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
17479158 ATTCAACCCT
17479168 AAATCTTTTCTCTATTTC
1 AAATCTTTTCTCTATTTC
*
17479186 AAATCTTTTTTCTATTTC
1 AAATCTTTTCTCTATTTC
17479204 AA
1 AA
17479206 TCACCGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.18, G:0.00, T:0.55
Consensus pattern (18 bp):
AAATCTTTTCTCTATTTC
Found at i:17490534 original size:20 final size:20
Alignment explanation
Indices: 17490501--17490542 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
17490491 TTGAAATAAT
17490501 GATTGAGTAATACTATAAGA
1 GATTGAGTAATACTATAAGA
* * *
17490521 GATTGTGTATTACTTTAAGA
1 GATTGAGTAATACTATAAGA
17490541 GA
1 GA
17490543 ATTAAAAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (20 bp):
GATTGAGTAATACTATAAGA
Found at i:17491428 original size:3 final size:3
Alignment explanation
Indices: 17491420--17491594 Score: 172
Period size: 3 Copynumber: 60.3 Consensus size: 3
17491410 TTACTGTTAC
* * *
17491420 TAT TAT TAT TCT T-G TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
17491467 TAT TAT TAT TAT TAT TAT TAT TA- TAA TAG TA- TAG TAT GGTA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT TAT
*
17491511 TGT TAT TA- TAT TAT TA- TAT TA- TAT TAT TAT T-T CTAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
*
17491552 T-T TCAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
17491595 GGTATTGTTA
Statistics
Matches: 147, Mismatches: 11, Indels: 28
0.79 0.06 0.15
Matches are distributed among these distances:
2 18 0.12
3 125 0.85
4 2 0.01
5 2 0.01
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:17491642 original size:106 final size:105
Alignment explanation
Indices: 17491452--17491660 Score: 255
Period size: 106 Copynumber: 2.0 Consensus size: 105
17491442 TTATTATTGT
* * *
17491452 TATTATTATTATTATTATTATTATTATTATTATTATTATAATAGTATAGTATGGTATATTGTTAT
1 TATTATTATTATTATTATTATTATTATTATTATTATTATAATAGTATAGTAT-GTATATAGATAA
*
17491517 TATATTATTATATTATATTATTATTTCTA-TTTTATTTTCAC
65 TATATTACTATATTATATTATT-TTTCTACTTTTATTTTCAC
* * * *
17491558 TATTATTATTATTATTATTATTATTATTATTATTATTGGT-ATTGT-TATTTAT-TCTATAGCAT
1 TATTATTATTATTATTATTATTATTATTATTATTATT-ATAATAGTATA-GTATGTATATAG-AT
*
17491620 AATATATTACTATATTATTATTATTTTTTTACTTTTATTTT
63 AATATATTACTATATTA-TATTATTTTTCTACTTTTATTTT
17491661 TCTAGTTCTT
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
104 5 0.06
105 23 0.26
106 60 0.67
107 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (105 bp):
TATTATTATTATTATTATTATTATTATTATTATTATTATAATAGTATAGTATGTATATAGATAAT
ATATTACTATATTATATTATTTTTCTACTTTTATTTTCAC
Found at i:17491650 original size:100 final size:102
Alignment explanation
Indices: 17491455--17491655 Score: 234
Period size: 103 Copynumber: 2.0 Consensus size: 102
17491445 TTATTGTTAT
* **
17491455 TATTATTATTATTATTATTATTATTATTATTATTATAATAGTATAGTATGGTATATTGTTATTAT
1 TATTATTATTATTATTATTATTATTATTATTATTAT-ATAGTATAGTAT-GTATATTCTTAGCAT
* *
17491520 ATTATTATATTATATTATTATTTCTATTTTA-TTTTCAC
64 AATATTATACTATATTATTATTTCTATTTTACTTTTCAC
* *
17491558 TATTATTATTATTATTATTATTATTATTATTATTAT-TGGTATTGTTAT-T-TATTCTATAGCAT
1 TATTATTATTATTATTATTATTATTATTATTATTATATAGTATAG-TATGTATATTCT-TAGCAT
*
17491620 AATA-TATTACTATATTATTATTAT-TTTTTTACTTTT
64 AATATTA-TACTATATTATTATT-TCTATTTTACTTTT
17491656 ATTTTTCTAG
Statistics
Matches: 85, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
99 7 0.08
100 28 0.33
101 11 0.13
102 3 0.04
103 36 0.42
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.61
Consensus pattern (102 bp):
TATTATTATTATTATTATTATTATTATTATTATTATATAGTATAGTATGTATATTCTTAGCATAA
TATTATACTATATTATTATTTCTATTTTACTTTTCAC
Found at i:17492510 original size:13 final size:12
Alignment explanation
Indices: 17492494--17492577 Score: 62
Period size: 13 Copynumber: 6.4 Consensus size: 12
17492484 TCTTTTTCTA
17492494 TTTTAATTTTAT
1 TTTTAATTTTAT
*
17492506 CTTTTGATTTTATT
1 -TTTTAATTTTA-T
17492520 TTTTATATTTTGAT
1 TTTTA-ATTTT-AT
*
17492534 TTTTAGTTTT-T
1 TTTTAATTTTAT
*
17492545 TTATTTATTTTAT
1 TT-TTAATTTTAT
17492558 TTTACTAATTTTAT
1 TTT--TAATTTTAT
17492572 TATTTA
1 T-TTTA
17492578 TTTATTTATA
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
11 3 0.05
12 7 0.12
13 23 0.40
14 21 0.37
15 3 0.05
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (12 bp):
TTTTAATTTTAT
Found at i:17492543 original size:20 final size:19
Alignment explanation
Indices: 17492493--17492536 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
17492483 TTCTTTTTCT
*
17492493 ATTTTAATTTTATCTTTTG
1 ATTTTAATTTTATATTTTG
*
17492512 ATTTTATTTTTTATATTTTG
1 ATTTTA-ATTTTATATTTTG
17492532 ATTTT
1 ATTTT
17492537 TAGTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (19 bp):
ATTTTAATTTTATATTTTG
Found at i:17492543 original size:21 final size:20
Alignment explanation
Indices: 17492500--17492550 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
17492490 TCTATTTTAA
* *
17492500 TTTTATCTTTTGATTTTATT
1 TTTTATATTTTGATTTTAGT
17492520 TTTTATATTTTGATTTTTAGT
1 TTTTATATTTTGA-TTTTAGT
*
17492541 TTTTTTATTT
1 TTTTATATTT
17492551 ATTTTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.16, C:0.02, G:0.06, T:0.76
Consensus pattern (20 bp):
TTTTATATTTTGATTTTAGT
Found at i:17492560 original size:14 final size:14
Alignment explanation
Indices: 17492492--17492589 Score: 58
Period size: 14 Copynumber: 6.6 Consensus size: 14
17492482 TTTCTTTTTC
*
17492492 TATTTTAATTTTATC
1 TATTTT-ATTTTATT
*
17492507 T-TTTGATTTTATT
1 TATTTTATTTTATT
17492520 T-TTTATATTTTGATT
1 TATTT-TATTTT-ATT
*
17492535 T-TTAGTTTTTTTATT
1 TATT--TTATTTTATT
*
17492550 TATTTTATTTTACT
1 TATTTTATTTTATT
*
17492564 AATTTTATTATTTATT
1 TATTTTA-T-TTTATT
17492580 TATTTATATT
1 TATTT-TATT
17492590 GAGTAATTCA
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
13 11 0.17
14 22 0.33
15 13 0.20
16 17 0.26
17 3 0.05
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.72
Consensus pattern (14 bp):
TATTTTATTTTATT
Done.