Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 142 of 195
Found at i:23969890 original size:19 final size:19
Alignment explanation
Indices: 23969852--23969890 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
23969842 ATTTGTTTTT
* **
23969852 AGCCCAGCAACTTGTTTTC
1 AGCCCAGCAACCTGGATTC
23969871 AGCCCAGCAACCTGGATTC
1 AGCCCAGCAACCTGGATTC
23969890 A
1 A
23969891 TTGGGCTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (19 bp):
AGCCCAGCAACCTGGATTC
Found at i:23970538 original size:8 final size:8
Alignment explanation
Indices: 23970511--23970562 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
23970501 GTTTTTCTGA
*
23970511 TAAACCCT
1 TAAAACCT
* *
23970519 TGAAACCC
1 TAAAACCT
*
23970527 TAAAACTT
1 TAAAACCT
*
23970535 TAAAACCC
1 TAAAACCT
23970543 TAAAACCT
1 TAAAACCT
*
23970551 TAAAACCC
1 TAAAACCT
23970559 TAAA
1 TAAA
23970563 TCTTGCACCC
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.21
Consensus pattern (8 bp):
TAAAACCT
Found at i:23970540 original size:16 final size:16
Alignment explanation
Indices: 23970511--23970562 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
23970501 GTTTTTCTGA
* *
23970511 TAAACCCTTGAAACCC
1 TAAAACCTTAAAACCC
*
23970527 TAAAACTTTAAAACCC
1 TAAAACCTTAAAACCC
23970543 TAAAACCTTAAAACCC
1 TAAAACCTTAAAACCC
23970559 TAAA
1 TAAA
23970563 TCTTGCACCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.21
Consensus pattern (16 bp):
TAAAACCTTAAAACCC
Found at i:23970614 original size:19 final size:19
Alignment explanation
Indices: 23970590--23970639 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
23970580 TTAAACCTTA
23970590 GAACCCTAAACTCTAATCC
1 GAACCCTAAACTCTAATCC
23970609 GAACCCTAAACTCTAATCC
1 GAACCCTAAACTCTAATCC
*
23970628 AAACCCTAAACT
1 GAACCCTAAACT
23970640 AATACTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.40, C:0.36, G:0.04, T:0.20
Consensus pattern (19 bp):
GAACCCTAAACTCTAATCC
Found at i:23972145 original size:21 final size:21
Alignment explanation
Indices: 23972073--23972146 Score: 53
Period size: 21 Copynumber: 3.5 Consensus size: 21
23972063 ATTCAATTTT
* *
23972073 CCATAAAAGGGATCGATCTCC
1 CCATTAAAGGGATCGATCACC
*
23972094 CCA-TATAGGAGATCGATCACC
1 CCATTAAAGG-GATCGATCACC
** * *
23972115 TAAGGT-AAGGGATCGATCCCC
1 CCA-TTAAAGGGATCGATCACC
23972136 CCATTAAAGGG
1 CCATTAAAGGG
23972147 TTTGATCGGT
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
20 5 0.13
21 30 0.77
22 3 0.08
23 1 0.03
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (21 bp):
CCATTAAAGGGATCGATCACC
Found at i:23972221 original size:20 final size:20
Alignment explanation
Indices: 23972198--23972247 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
23972188 CAAGTAAAAT
23972198 AGATCGATCATCTAAAGAAA
1 AGATCGATCATCTAAAGAAA
*
23972218 AGATCGATCATCTAAAGAAC
1 AGATCGATCATCTAAAGAAA
23972238 AGATCGATCA
1 AGATCGATCA
23972248 AGTGGATTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.20
Consensus pattern (20 bp):
AGATCGATCATCTAAAGAAA
Found at i:23976847 original size:19 final size:19
Alignment explanation
Indices: 23976823--23976864 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
23976813 CAAATCATGT
23976823 TTATAAATTGATAAAAGCA
1 TTATAAATTGATAAAAGCA
23976842 TTAT-AATTGATAAAAGCA
1 TTATAAATTGATAAAAGCA
23976860 TTATA
1 TTATA
23976865 TGGTTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.36
Consensus pattern (19 bp):
TTATAAATTGATAAAAGCA
Found at i:23977568 original size:237 final size:236
Alignment explanation
Indices: 23977119--23977593 Score: 851
Period size: 237 Copynumber: 2.0 Consensus size: 236
23977109 TTCTTGGGAC
* * *
23977119 TACAAGTAAAGTAAACAAAAGATAGCACATTTATTAATCAAGCCAAATACATCAAGGATTTGTTC
1 TACAAGTAAAGTAAACAAAAGATAGCACATTCATCAATCAAGCCAAATACATCAAGGATTTGCTC
*
23977184 ATAAGGTTTGGATTGGAAAAATCAAAGCCTTGCTTAACACCATGAGCACTTCAACAAAACATGAC
66 ATAAGGTTTGGATTGAAAAAATCAAAGCCTTGCTTAACACCATGAGCACTTCAACAAAACATGAC
23977249 AAGGATGAATAAGGTAAATATGTTGACTCTAAACTATATAGGTCTATGATTAGCTCATTGCTATA
131 AAGGATGAATAAGGTAAATATGTTGACTCTAAACTATATAGGTCTATGATTAGCTCATTGCTATA
23977314 TCTTACTGCAAGTAGACTCGATATAATGTTTAGTGTATGTT
196 TCTTACTGCAAGTAGACTCGATATAATGTTTAGTGTATGTT
23977355 TACAAGTAAAGTAAACAAAAGATAGCACATTCATCAATCAAGCCAAATACATCAAGGATTTGCTC
1 TACAAGTAAAGTAAACAAAAGATAGCACATTCATCAATCAAGCCAAATACATCAAGGATTTGCTC
**
23977420 ATAAGGTTTGGATTGAAAAAATCAAAGCCTTGCTTAACACCAATGAGCACTTCAACAAAATTTGA
66 ATAAGGTTTGGATTGAAAAAATCAAAGCCTTGCTTAACACC-ATGAGCACTTCAACAAAACATGA
* * * *
23977485 CAAGGATGAATGAGGTAAATGTGTTGACTTTAAACTATATAGGTCTATGATTGGCTCATTGCTAT
130 CAAGGATGAATAAGGTAAATATGTTGACTCTAAACTATATAGGTCTATGATTAGCTCATTGCTAT
23977550 ATCTTACTGCAAGTAGACTCGATATAATGTTTAGTGTATGTT
195 ATCTTACTGCAAGTAGACTCGATATAATGTTTAGTGTATGTT
23977592 TA
1 TA
23977594 TGTGCTAGAT
Statistics
Matches: 228, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
236 102 0.45
237 126 0.55
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (236 bp):
TACAAGTAAAGTAAACAAAAGATAGCACATTCATCAATCAAGCCAAATACATCAAGGATTTGCTC
ATAAGGTTTGGATTGAAAAAATCAAAGCCTTGCTTAACACCATGAGCACTTCAACAAAACATGAC
AAGGATGAATAAGGTAAATATGTTGACTCTAAACTATATAGGTCTATGATTAGCTCATTGCTATA
TCTTACTGCAAGTAGACTCGATATAATGTTTAGTGTATGTT
Found at i:23985426 original size:10 final size:9
Alignment explanation
Indices: 23985412--23985494 Score: 71
Period size: 9 Copynumber: 8.9 Consensus size: 9
23985402 TGAGAAAATA
23985412 AAAAAAAAG
1 AAAAAAAAG
*
23985421 AGAAAAAATG
1 A-AAAAAAAG
23985431 AAGAAAAGAAG
1 AA-AAAA-AAG
* *
23985442 AAGAAGAA-
1 AAAAAAAAG
23985450 AAAAAAAAG
1 AAAAAAAAG
23985459 AAAAAAAAAG
1 -AAAAAAAAG
23985469 AAAAAAAA-
1 AAAAAAAAG
*
23985477 AGAACAAAAG
1 A-AAAAAAAG
23985487 AAAAAAAA
1 AAAAAAAA
23985495 AAGGAAAAAG
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
8 7 0.12
9 24 0.41
10 24 0.41
11 4 0.07
ACGTcount: A:0.83, C:0.01, G:0.14, T:0.01
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:23985428 original size:11 final size:11
Alignment explanation
Indices: 23985412--23985503 Score: 77
Period size: 11 Copynumber: 8.5 Consensus size: 11
23985402 TGAGAAAATA
23985412 AAAAAAAAGAG
1 AAAAAAAAGAG
23985423 AAAAAATGAAGA-
1 AAAAAA--AAGAG
*
23985435 AAAGAAGAAGAAG
1 AAA-AAAAAG-AG
*
23985448 AAAAAAAAAAG
1 AAAAAAAAGAG
23985459 AAAAAAAA-AG
1 AAAAAAAAGAG
23985469 AAAAAAAA-AG
1 AAAAAAAAGAG
* *
23985479 -AACAAAAGAA
1 AAAAAAAAGAG
23985489 AAAAAAAAG-G
1 AAAAAAAAGAG
23985499 AAAAA
1 AAAAA
23985504 GAACTGAATG
Statistics
Matches: 67, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
9 6 0.09
10 18 0.27
11 26 0.39
12 8 0.12
13 9 0.13
ACGTcount: A:0.83, C:0.01, G:0.15, T:0.01
Consensus pattern (11 bp):
AAAAAAAAGAG
Found at i:23985447 original size:14 final size:14
Alignment explanation
Indices: 23985430--23985493 Score: 64
Period size: 14 Copynumber: 4.8 Consensus size: 14
23985420 GAGAAAAAAT
*
23985430 GAAGAAAAGAAGAA
1 GAAGAAAAAAAGAA
*
23985444 GAAGAAAAAAAAAA
1 GAAGAAAAAAAGAA
23985458 GAA-AAAAAAAGAA
1 GAAGAAAAAAAGAA
*
23985471 -AA-AAAAAGAACAA
1 GAAGAAAAA-AAGAA
23985484 -AAGAAAAAAA
1 GAAGAAAAAAA
23985494 AAAGGAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
12 7 0.16
13 17 0.39
14 20 0.45
ACGTcount: A:0.83, C:0.02, G:0.16, T:0.00
Consensus pattern (14 bp):
GAAGAAAAAAAGAA
Found at i:23985466 original size:39 final size:38
Alignment explanation
Indices: 23985411--23985503 Score: 109
Period size: 38 Copynumber: 2.4 Consensus size: 38
23985401 GTGAGAAAAT
* * *
23985411 AAAAAAAAAGAGAAAAAATGAAGAAAAGAAG-A-AGAAGA
1 AAAAAAAAAGA-AAAAAAAGAA-AAAAAAAGAACAAAAGA
23985449 AAAAAAAAAGAAAAAAAAAGAAAAAAAAAGAACAAAAGA
1 AAAAAAAAAG-AAAAAAAAGAAAAAAAAAGAACAAAAGA
*
23985488 AAAAAAAAAGGAAAAA
1 AAAAAAAAAGAAAAAA
23985504 GAACTGAATG
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
37 7 0.15
38 25 0.52
39 16 0.33
ACGTcount: A:0.83, C:0.01, G:0.15, T:0.01
Consensus pattern (38 bp):
AAAAAAAAAGAAAAAAAAGAAAAAAAAAGAACAAAAGA
Found at i:23985495 original size:10 final size:10
Alignment explanation
Indices: 23985406--23985503 Score: 81
Period size: 10 Copynumber: 9.0 Consensus size: 10
23985396 ATAGAGTGAG
*
23985406 AAAATAAAAA
1 AAAAGAAAAA
23985416 AAAAGAGAAAA
1 AAAAGA-AAAA
23985427 AATGAAGAAAAGAA
1 AA--AAG-AAA-AA
23985441 GAAGAAGAAAAAA
1 -AA-AAG-AAAAA
23985454 AAAAGAAAAA
1 AAAAGAAAAA
23985464 AAAAGAAAAA
1 AAAAGAAAAA
23985474 AAAAGAACAAA
1 AAAAGAA-AAA
*
23985485 AGAA-AAAAA
1 AAAAGAAAAA
*
23985494 AAAGGAAAAA
1 AAAAGAAAAA
23985504 GAACTGAATG
Statistics
Matches: 76, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
9 5 0.07
10 34 0.45
11 15 0.20
12 2 0.03
13 7 0.09
14 11 0.14
15 2 0.03
ACGTcount: A:0.83, C:0.01, G:0.14, T:0.02
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:23985503 original size:1 final size:1
Alignment explanation
Indices: 23985448--23985496 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
23985438 GAAGAAGAAG
* * * * *
23985448 AAAAAAAAAAGAAAAAAAAAGAAAAAAAAAGAACAAAAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
23985497 GGAAAAAGAA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.90, C:0.02, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:23985503 original size:48 final size:48
Alignment explanation
Indices: 23985406--23985506 Score: 125
Period size: 48 Copynumber: 2.1 Consensus size: 48
23985396 ATAGAGTGAG
* * * * *
23985406 AAAATAAAAAAAAAGAGAAAAAATGAAGAAAAGAAGAAGAAGAAAAAA
1 AAAAGAAAAAAAAAGAAAAAAAAAGAACAAAAGAAGAAGAAAAAAAAA
**
23985454 AAAAGAAAAAAAAAGAAAAAAAAAGAACAAAAGAA-AA-AAAAAAGGA
1 AAAAGAAAAAAAAAGAAAAAAAAAGAACAAAAGAAGAAGAAAAAAAAA
23985500 AAAAGAA
1 AAAAGAA
23985507 CTGAATGATT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
46 13 0.28
47 2 0.04
48 31 0.67
ACGTcount: A:0.82, C:0.01, G:0.15, T:0.02
Consensus pattern (48 bp):
AAAAGAAAAAAAAAGAAAAAAAAAGAACAAAAGAAGAAGAAAAAAAAA
Found at i:23987454 original size:17 final size:17
Alignment explanation
Indices: 23987428--23987466 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
23987418 TTAAAAAGAG
23987428 AGAAAAAAAAAAGAAAA
1 AGAAAAAAAAAAGAAAA
* *
23987445 AGAAAGAAAAAAGATAA
1 AGAAAAAAAAAAGAAAA
23987462 AGAAA
1 AGAAA
23987467 TCTTCAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (17 bp):
AGAAAAAAAAAAGAAAA
Found at i:23988241 original size:31 final size:31
Alignment explanation
Indices: 23988160--23988273 Score: 113
Period size: 31 Copynumber: 3.7 Consensus size: 31
23988150 GTTACAGATT
* * * * *
23988160 TAAGCCCAATTTAGCTGGCACAAATAAAAAT
1 TAAGCCTAGTTTAGCTGGCACCAATAAGAAC
* * * * **
23988191 TAAGCCTAGCTAAGTTGGCACCGATAAGATTT
1 TAAGCCTAGTTTAGCTGGCACCAATAAGA-AC
23988223 TAAG-CTAGTTTAGCTGGCACCAATAAGAAC
1 TAAGCCTAGTTTAGCTGGCACCAATAAGAAC
23988253 TAAGCCTAGTTTAGCTGGCAC
1 TAAGCCTAGTTTAGCTGGCAC
23988274 TGAATGAAAT
Statistics
Matches: 66, Mismatches: 15, Indels: 4
0.78 0.18 0.05
Matches are distributed among these distances:
30 4 0.06
31 57 0.86
32 5 0.08
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (31 bp):
TAAGCCTAGTTTAGCTGGCACCAATAAGAAC
Found at i:23988331 original size:33 final size:33
Alignment explanation
Indices: 23988257--23988344 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 33
23988247 AAGAACTAAG
* * *
23988257 CCTAGTTTAGCTGGCACTGA-ATGAAATTTAAG
1 CCTAGTTTAGCTGACACTTAGATGAAATTTAAA
* * *
23988289 CTTAATTTAGATGACACTTAGATGAAATTTAAA
1 CCTAGTTTAGCTGACACTTAGATGAAATTTAAA
23988322 CCTAGTTTAGCT-AGCACTTAGAT
1 CCTAGTTTAGCTGA-CACTTAGAT
23988345 AAGATCTAAG
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
32 16 0.36
33 29 0.64
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (33 bp):
CCTAGTTTAGCTGACACTTAGATGAAATTTAAA
Found at i:23988881 original size:35 final size:34
Alignment explanation
Indices: 23988818--23988923 Score: 99
Period size: 35 Copynumber: 3.0 Consensus size: 34
23988808 ATATCATCTC
*
23988818 TTTAGACTTGTAGTTCAATC-CCAGTCATTCTTATTT
1 TTTA-ACTT-TAGTTCAATCTCGA-TCATTCTTATTT
23988854 TTTAACTTATAGTTCAATCTCGATCATT-TCTATTT
1 TTTAACTT-TAGTTCAATCTCGATCATTCT-TATTT
* * * *
23988889 TTTTACTTGAGTTTCAATTTCGATTATTCTTATTT
1 TTTAACTTTAG-TTCAATCTCGATCATTCTTATTT
23988924 CCTAACTAGC
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
34 3 0.05
35 50 0.83
36 7 0.12
ACGTcount: A:0.23, C:0.16, G:0.08, T:0.53
Consensus pattern (34 bp):
TTTAACTTTAGTTCAATCTCGATCATTCTTATTT
Found at i:23989033 original size:33 final size:33
Alignment explanation
Indices: 23988994--23989133 Score: 129
Period size: 33 Copynumber: 4.2 Consensus size: 33
23988984 CTTATTTTTT
* *
23988994 GACTTACAGTTTAGTCCCGGTCATCCTTATTTA
1 GACTTACAGTTTAATCCTGGTCATCCTTATTTA
*
23989027 GACTTACAGTTTAAT-CTGAGTCATTCTTATTTA
1 GACTTACAGTTTAATCCTG-GTCATCCTTATTTA
* * * *
23989060 GATTTACAGTTCAATCTTGGTCATCCTTATTTCTT
1 GACTTACAGTTTAATCCTGGTCATCCTTA-TT-TA
* * * * * *
23989095 GACTTACAATTCAATCTTGATTATCCTTATTTT
1 GACTTACAGTTTAATCCTGGTCATCCTTATTTA
23989128 GACTTA
1 GACTTA
23989134 TGATTCATTC
Statistics
Matches: 91, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
32 2 0.02
33 57 0.63
34 6 0.07
35 26 0.29
ACGTcount: A:0.24, C:0.19, G:0.11, T:0.45
Consensus pattern (33 bp):
GACTTACAGTTTAATCCTGGTCATCCTTATTTA
Found at i:23989306 original size:33 final size:33
Alignment explanation
Indices: 23989282--23989360 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
23989272 TTTAGTCCCA
*
23989282 GTCATCCTTATTTAGACTTGCAGTTCAATCTAG
1 GTCATCCTTATTTAGACTTGCAGTTCAATCCAG
* **
23989315 GTCATCCTTATTTAGATTTGCAGTTCAATCTTG
1 GTCATCCTTATTTAGACTTGCAGTTCAATCCAG
23989348 GTCATCCTTATTT
1 GTCATCCTTATTT
23989361 CTTAACTTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (33 bp):
GTCATCCTTATTTAGACTTGCAGTTCAATCCAG
Found at i:23989396 original size:269 final size:269
Alignment explanation
Indices: 23988946--23989475 Score: 855
Period size: 269 Copynumber: 2.0 Consensus size: 269
23988936 TTCAATCCTG
* * *
23988946 ATCATCTTTATTTGATTTGTGGTTCAATCCTAATTATTCTTATTTTTTGACTTACAGTTTAGTCC
1 ATCATCCTTATTCGATTTGTAGTTCAATCCTAATTATTCTTATTTTTTGACTTACAGTTTAGTCC
* * *
23989011 CGGTCATCCTTATTTAGACTTACAGTTTAATCTGAGTCATTCTTATTTAGATTTACAGTTCAATC
66 CAGTCATCCTTATTTAGACTTACAGTTCAATCTGAGTCATCCTTATTTAGATTTACAGTTCAATC
* * *
23989076 TTGGTCATCCTTATTTCTTGACTTACAATTCAATCTTGATTATCCTTATTTTGACTTATGATTCA
131 TTGGTCATCCTTATTTCTTAACTTACAATTCAACCTTGATCATCCTTATTTTGACTTATGATTCA
* * *
23989141 TTCCCAATCATCCATATTTCAACTTGTGTTTTAGTCTCGATCATCCTTATTTCTCAACTCACAGT
196 TACCCAATCATCCATATTTCAACTTGTGTTTCAGTCTCAATCATCCTTATTTCTCAACTCACAGT
23989206 TCAGTCTCA
261 TCAGTCTCA
*
23989215 ATCATCCTTATTCGATTTGTAGTTCAATCCTGATTATTCTTATTTTTTGACTTACAGTTTAGTCC
1 ATCATCCTTATTCGATTTGTAGTTCAATCCTAATTATTCTTATTTTTTGACTTACAGTTTAGTCC
* *
23989280 CAGTCATCCTTATTTAGACTTGCAGTTCAATCT-AGGTCATCCTTATTTAGATTTGCAGTTCAAT
66 CAGTCATCCTTATTTAGACTTACAGTTCAATCTGA-GTCATCCTTATTTAGATTTACAGTTCAAT
** *
23989344 CTTGGTCATCCTTATTTCTTAACTTGTAATTCAGCCTTGATCATCCTTATTTTGACTTATGATTC
130 CTTGGTCATCCTTATTTCTTAACTTACAATTCAACCTTGATCATCCTTATTTTGACTTATGATTC
* * *
23989409 ATACCCAATCATCTATATTTCAACTTGTGTTTCAGTCTCAATCATCTTTATTTCTTAACTCACAG
195 ATACCCAATCATCCATATTTCAACTTGTGTTTCAGTCTCAATCATCCTTATTTCTCAACTCACAG
23989474 TT
260 TT
23989476 TAGTTTTGAT
Statistics
Matches: 239, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
268 1 0.00
269 238 1.00
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (269 bp):
ATCATCCTTATTCGATTTGTAGTTCAATCCTAATTATTCTTATTTTTTGACTTACAGTTTAGTCC
CAGTCATCCTTATTTAGACTTACAGTTCAATCTGAGTCATCCTTATTTAGATTTACAGTTCAATC
TTGGTCATCCTTATTTCTTAACTTACAATTCAACCTTGATCATCCTTATTTTGACTTATGATTCA
TACCCAATCATCCATATTTCAACTTGTGTTTCAGTCTCAATCATCCTTATTTCTCAACTCACAGT
TCAGTCTCA
Found at i:23989518 original size:33 final size:33
Alignment explanation
Indices: 23989382--23989807 Score: 143
Period size: 33 Copynumber: 12.6 Consensus size: 33
23989372 ATTCAGCCTT
* * * *
23989382 GATCATCCTTATTTTGACTTATGATTCA-TACCC
1 GATCATCTTTATTTTGACTTGTGATTTAGT-CTC
* * **
23989415 AATCATCTATATTTCAACTTGTG-TTTCAGTCTC
1 GATCATCTTTATTTTGACTTGTGATTT-AGTCTC
* * *** * *
23989448 AATCATCTTTATTTCTTAAC-TCACAGTTTAGTTTT
1 GATCATCTTTA-TT-TTGACTTGTGA-TTTAGTCTC
*
23989483 GATCATCTTTATTTTGACTTGTGATTTAGTCTT
1 GATCATCTTTATTTTGACTTGTGATTTAGTCTC
* *** * *
23989516 GATCATTTTTACTTTTCGACTTACAATTCAATC-C
1 GATCATCTTTA-TTTT-GACTTGTGATTTAGTCTC
*
23989550 TGATCATCTTTATTTCT-ACTTGTGGTTTAGTCTC
1 -GATCATCTTTATTT-TGACTTGTGATTTAGTCTC
* * ** * * * *
23989584 GGTCATCCTTATTCTCAACTCGAGGTTTAGTCCC
1 GATCATCTTTATT-TTGACTTGTGATTTAGTCTC
* * * *
23989618 AATCATCCTTATTTTGACTTATGATTTAGTCTT
1 GATCATCTTTATTTTGACTTGTGATTTAGTCTC
* * * * *
23989651 GATAATCCTTATTTTCTAGCATGCGATTTAGTC-C
1 GATCATCTTTATTTT-GA-CTTGTGATTTAGTCTC
* * * *
23989685 CAGTCATCTTTATTTCGACTTGTGGTTCAGTC-C
1 GA-TCATCTTTATTTTGACTTGTGATTTAGTCTC
* ** *
23989718 TGATCATTTTTTATTTTTGACTT-ACAGTTCAGTCTC
1 -GATCA-TCTTTA-TTTTGACTTGTGA-TTTAGTCTC
** * *
23989754 GATCAT-TCTTATTTCAACTTGTGATTCAATCTC
1 GATCATCT-TTATTTTGACTTGTGATTTAGTCTC
23989787 GATCAATC-TTATTTTGACTTG
1 GATC-ATCTTTATTTTGACTTG
23989808 GAGTTCAATT
Statistics
Matches: 287, Mismatches: 80, Indels: 52
0.68 0.19 0.12
Matches are distributed among these distances:
32 2 0.01
33 142 0.49
34 58 0.20
35 81 0.28
36 4 0.01
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.47
Consensus pattern (33 bp):
GATCATCTTTATTTTGACTTGTGATTTAGTCTC
Found at i:23989661 original size:269 final size:269
Alignment explanation
Indices: 23988946--23989665 Score: 689
Period size: 269 Copynumber: 2.7 Consensus size: 269
23988936 TTCAATCCTG
* * * * * * * * * * *
23988946 ATCATCTTTATTTGATTTGTGGTTCAATCCTAATTATTCTTATTTTTTGACTTACAGTTTAGTCC
1 ATCATCCTTATTCGACTTGTAGTTCAATCCTGATCATTCTTACTTTTCGACTTACAATTCAATCC
* * * * * **
23989011 CGGTCATCCTTATTTAGACTTACAGTTTAATCT-GAGTCATTCTTATTTAGATTTACAGTTCAAT
66 CAGTCATCCTTATTTAGACTTGCAGTTCAATCTAG-GTCATCCTTATTTAGACTCGCAGTTCAAT
**** * * *
23989075 CTTGGTCATCCTTATTTCTTGACTTACAATTCAATCTTGATTATCCTTATTTTGACTTATGATTC
130 CCCAATCATCCTTATTTCTTGACTTATAATTCAGTCTTGATAATCCTTATTTTGACTTATGATTC
* * *
23989140 ATTCCCAATCATCCATATTTCAACTTGTGTTTTAGTCTCGATCATCCTTATTTCTCAACTCACAG
195 ATACCCAATCATCCATATTTCAACTTGTGTTTCAGTCTCAATCATCCTTATTTCTCAACTCACAG
23989205 TTCAGTCTCA
260 TTCAGTCTCA
* * * * * * *
23989215 ATCATCCTTATTCGATTTGTAGTTCAATCCTGATTATTCTTATTTTTTGACTTACAGTTTAGTCC
1 ATCATCCTTATTCGACTTGTAGTTCAATCCTGATCATTCTTACTTTTCGACTTACAATTCAATCC
* *
23989280 CAGTCATCCTTATTTAGACTTGCAGTTCAATCTAGGTCATCCTTATTTAGATTTGCAGTTCAATC
66 CAGTCATCCTTATTTAGACTTGCAGTTCAATCTAGGTCATCCTTATTTAGACTCGCAGTTCAATC
**** * * * *
23989345 TTGGTCATCCTTATTTCTTAACTTGTAATTCAGCCTTGATCATCCTTATTTTGACTTATGATTCA
131 CCAATCATCCTTATTTCTTGACTTATAATTCAGTCTTGATAATCCTTATTTTGACTTATGATTCA
* * *
23989410 TACCCAATCATCTATATTTCAACTTGTGTTTCAGTCTCAATCATCTTTATTTCTTAACTCACAGT
196 TACCCAATCATCCATATTTCAACTTGTGTTTCAGTCTCAATCATCCTTATTTCTCAACTCACAGT
* * **
23989475 TTAGTTTTG
261 TCAGTCTCA
* * * * * *
23989484 ATCATCTTTATTTTGACTTGT-GATTTAGTCTTGATCATTTTTACTTTTCGACTTACAATTCAAT
1 ATCATCCTTA-TTCGACTTGTAG-TTCAATCCTGATCATTCTTACTTTTCGACTTACAATTCAAT
* * ** ** * * *
23989548 -CCTGATCATCTTTATTTCTACTTGTGGTTTAGTCTCGGTCATCCTTATTCTCA-ACTCG-AGGT
64 CCCAG-TCATCCTTATTTAGACTTGCAGTTCAATCTAGGTCATCCTTATT-T-AGACTCGCA-GT
* * * *
23989610 TTAGTCCCAATCATCCTTA-TT-TTGACTTATGATTTAGTCTTGATAATCCTTATTTT
125 TCAATCCCAATCATCCTTATTTCTTGACTTATAATTCAGTCTTGATAATCCTTATTTT
23989666 CTAGCATGCG
Statistics
Matches: 383, Mismatches: 61, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
269 284 0.74
270 79 0.21
271 19 0.05
272 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.47
Consensus pattern (269 bp):
ATCATCCTTATTCGACTTGTAGTTCAATCCTGATCATTCTTACTTTTCGACTTACAATTCAATCC
CAGTCATCCTTATTTAGACTTGCAGTTCAATCTAGGTCATCCTTATTTAGACTCGCAGTTCAATC
CCAATCATCCTTATTTCTTGACTTATAATTCAGTCTTGATAATCCTTATTTTGACTTATGATTCA
TACCCAATCATCCATATTTCAACTTGTGTTTCAGTCTCAATCATCCTTATTTCTCAACTCACAGT
TCAGTCTCA
Found at i:23989815 original size:33 final size:33
Alignment explanation
Indices: 23989732--23989816 Score: 100
Period size: 33 Copynumber: 2.6 Consensus size: 33
23989722 CATTTTTTAT
** * *
23989732 TTTTGACTTACAGTTCAGTCTCGATCATTCTTA
1 TTTTGACTTGGAGTTCAATCTCGATCAATCTTA
**
23989765 TTTCAACTTGTGA-TTCAATCTCGATCAATCTTA
1 TTTTGACTTG-GAGTTCAATCTCGATCAATCTTA
23989798 TTTTGACTTGGAGTTCAAT
1 TTTTGACTTGGAGTTCAAT
23989817 TCTGGTCATC
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
32 2 0.05
33 39 0.93
34 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.45
Consensus pattern (33 bp):
TTTTGACTTGGAGTTCAATCTCGATCAATCTTA
Found at i:23989841 original size:136 final size:135
Alignment explanation
Indices: 23989701--23989992 Score: 322
Period size: 136 Copynumber: 2.2 Consensus size: 135
23989691 TCTTTATTTC
** * * * *
23989701 GACTTGTGGTTCAGTCCTGATCATTTTTTA-TTTTTGACTTACAGTTCAGTCTC-GATCATTCTT
1 GACTTGTGGTTCAGTCCTGATCA-CCTTTACTTCTCGACTTACAGTTCAATCTCAG-TCATCCTT
* * * * * * *
23989764 ATTTCAACTTGTGATTCAATCTCGATCAATCTTATTTTGACTT-GGAGTTCAATTCTGGTCATCG
64 ATTTCAACTTATGATTCAATCTCGATCAACCTTAGTTCGACTTACG-GTTCAA-TCTAGTCATCC
*
23989828 TTATTTTTT
127 TTAGTTTTT
**
23989837 GACTTGTGGTTCAGTCCT-AGTCACCTTTACTTCTCGACTTATGGTTCAATCTCAGTCATCCTTA
1 GACTTGTGGTTCAGTCCTGA-TCACCTTTACTTCTCGACTTACAGTTCAATCTCAGTCATCCTTA
* * * *
23989901 TTTCAACTTATGGTTTAGTCTCGGTCAACCTTAGTTCGACTTACGGTTCAATCTAGTCATCCTTA
65 TTTCAACTTATGATTCAATCTCGATCAACCTTAGTTCGACTTACGGTTCAATCTAGTCATCCTTA
23989966 GTTTTT
130 GTTTTT
*
23989972 GACTTGTGGTTCAGTCATGAT
1 GACTTGTGGTTCAGTCCTGAT
23989993 TATCCTTATT
Statistics
Matches: 130, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
135 40 0.31
136 88 0.68
137 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (135 bp):
GACTTGTGGTTCAGTCCTGATCACCTTTACTTCTCGACTTACAGTTCAATCTCAGTCATCCTTAT
TTCAACTTATGATTCAATCTCGATCAACCTTAGTTCGACTTACGGTTCAATCTAGTCATCCTTAG
TTTTT
Found at i:23989894 original size:35 final size:33
Alignment explanation
Indices: 23989870--23990017 Score: 138
Period size: 33 Copynumber: 4.5 Consensus size: 33
23989860 CCTTTACTTC
23989870 TCGACTTATGGTTCAATCTCAGTCATCCTTATT
1 TCGACTTATGGTTCAATCTCAGTCATCCTTATT
* * * * * *
23989903 TCAACTTATGGTTTAGTCTCGGTCAACCTTAGT
1 TCGACTTATGGTTCAATCTCAGTCATCCTTATT
*
23989936 TCGACTTACGGTTCAATCT-AGTCATCCTTAGTTT
1 TCGACTTATGGTTCAATCTCAGTCATCCTTA--TT
* * * * *
23989970 TTGACTTGTGGTTCAGTCATGA-TTATCCTTATT
1 TCGACTTATGGTTCAATC-TCAGTCATCCTTATT
*
23990003 TTGACTTATGGTTCA
1 TCGACTTATGGTTCA
23990018 GTACTACACA
Statistics
Matches: 92, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
32 9 0.10
33 58 0.63
34 15 0.16
35 9 0.10
36 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.43
Consensus pattern (33 bp):
TCGACTTATGGTTCAATCTCAGTCATCCTTATT
Found at i:23990169 original size:35 final size:34
Alignment explanation
Indices: 23990130--23990458 Score: 143
Period size: 35 Copynumber: 9.5 Consensus size: 34
23990120 AATCCTGGTT
*
23990130 ATCCTTACTTTCTGACTTGTGATTTAGTCTCGATC
1 ATCCTTA-TTTCTGACTTGTGATTTAATCTCGATC
* * * *
23990165 ATCCTTATTTTCTAATTTGTGATTTAATCTTGGTC
1 ATCCTTA-TTTCTGACTTGTGATTTAATCTCGATC
** * *
23990200 ATCCTTATTT-TGACTAATGGTTTAATCTTGATC
1 ATCCTTATTTCTGACTTGTGATTTAATCTCGATC
** * * * *
23990233 ATTTTTATTTC-AACTTGCGA-TTAAGTCCCAATC
1 ATCCTTATTTCTGACTTGTGATTTAA-TCTCGATC
* * * * *
23990266 ATCCTTATTTCTTGACTTG-CAGTTCAATTTTGGTC
1 ATCCTTATTTC-TGACTTGTGA-TTTAATCTCGATC
* ** *
23990301 ATCTTTATTTCTTGACTTACGATTTAAT-TCTGGTC
1 ATCCTTATTTC-TGACTTGTGATTTAATCTC-GATC
* * * *
23990336 ATCCTTATTTCATGACTTGTGGTTCAGTGCT-AATC
1 ATCCTTATTTC-TGACTTGTGATTTAAT-CTCGATC
* * *
23990371 ATCCTTATTTTTTGACTTGCT-TTTTAATATCGATC
1 ATCCTTA-TTTCTGACTTG-TGATTTAATCTCGATC
* ** * * *
23990406 GTTTTTAATTTACTTGACTTGTGATTTAGTCTTGGTC
1 ATCCTT-ATTT-C-TGACTTGTGATTTAATCTCGATC
23990443 ATCCTTATTT-TGACTT
1 ATCCTTATTTCTGACTT
23990459 ATGGTTTAGT
Statistics
Matches: 213, Mismatches: 64, Indels: 36
0.68 0.20 0.12
Matches are distributed among these distances:
32 4 0.02
33 49 0.23
34 6 0.03
35 120 0.56
36 14 0.07
37 20 0.09
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.50
Consensus pattern (34 bp):
ATCCTTATTTCTGACTTGTGATTTAATCTCGATC
Found at i:23990457 original size:105 final size:104
Alignment explanation
Indices: 23990262--23990530 Score: 240
Period size: 105 Copynumber: 2.6 Consensus size: 104
23990252 ATTAAGTCCC
* * *
23990262 AATCATCCTTATTTCTTGACTTGCAGTTCAATTTTGGTCATCTTTATTTCTTGACTTACGATTTA
1 AATCATCCTTATTTCTTGACTTGCAGTTCAATATCGATCATCTTTATTTCTTGACTTACGATTTA
*
23990327 ATTCTGGTCATCCTTATTTCATGACTTGTGGTTCAGTGCT
66 ATTCTGGTCATCCTTATTT-ATGACTTATGGTTCAGTGCT
* ** * * * **
23990367 AATCATCCTTATTTTTTGACTTGCTTTTTAATATCGATCGTTTTTAATTTACTTGACTTGTGATT
1 AATCATCCTTATTTCTTGACTTGCAGTTCAATATCGATCATCTTT-ATTT-CTTGACTTACGATT
* * *
23990432 T-AGTCTTGGTCATCCTTATTT-TGACTTATGGTTTAGT-TT
64 TAATTC-TGGTCATCCTTATTTATGACTTATGGTTCAGTGCT
** * * * ** *
23990471 CAGA-CAAAACTTATCTCTTGACGTGTAGTTCAATCCCGACCATCTTTATTTCTTGACTTA
1 -A-ATC-ATCCTTATTTCTTGACTTGCAGTTCAATATCGATCATCTTTATTTCTTGACTTA
23990531 TGGTTTATTC
Statistics
Matches: 128, Mismatches: 30, Indels: 13
0.75 0.18 0.08
Matches are distributed among these distances:
104 9 0.07
105 56 0.44
106 35 0.27
107 28 0.22
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (104 bp):
AATCATCCTTATTTCTTGACTTGCAGTTCAATATCGATCATCTTTATTTCTTGACTTACGATTTA
ATTCTGGTCATCCTTATTTATGACTTATGGTTCAGTGCT
Found at i:23995060 original size:10 final size:10
Alignment explanation
Indices: 23995047--23995081 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
23995037 GCTCTTGCTC
23995047 TCTTGATTCA
1 TCTTGATTCA
23995057 TCTTGATTCA
1 TCTTGATTCA
*
23995067 TCTTGATTCC
1 TCTTGATTCA
23995077 TCTTG
1 TCTTG
23995082 TTTCCTCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.14, C:0.23, G:0.11, T:0.51
Consensus pattern (10 bp):
TCTTGATTCA
Found at i:23995086 original size:10 final size:10
Alignment explanation
Indices: 23995046--23995088 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
23995036 CGCTCTTGCT
23995046 CTCTTGATTC
1 CTCTTGATTC
*
23995056 ATCTTGATTC
1 CTCTTGATTC
*
23995066 ATCTTGATTC
1 CTCTTGATTC
*
23995076 CTCTTGTTTC
1 CTCTTGATTC
23995086 CTC
1 CTC
23995089 ATACTTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.12, C:0.28, G:0.09, T:0.51
Consensus pattern (10 bp):
CTCTTGATTC
Found at i:23999049 original size:20 final size:20
Alignment explanation
Indices: 23999020--23999057 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23999010 TGATTTATAG
* *
23999020 AGGTTTGATCATTTTCCATA
1 AGGTTCGATCATTCTCCATA
23999040 AGGTTCGATCATTCTCCA
1 AGGTTCGATCATTCTCCA
23999058 CAAAGGCACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (20 bp):
AGGTTCGATCATTCTCCATA
Found at i:24000788 original size:70 final size:69
Alignment explanation
Indices: 24000633--24000821 Score: 166
Period size: 70 Copynumber: 2.7 Consensus size: 69
24000623 GTCATTCTTA
* * * * * * * *
24000633 TTTGACTTACAATTCAGTGTTAGTCAACCTTATCTCTTGATTTACGATTCAGTTCTAGTCATCCT
1 TTTGACTTACAGTTCAATCTTAGTCAACCTTATATCCTGACTTACGATTCAGTCCTAGCCATCCT
24000698 TATT
66 TATT
** * * *
24000702 TTCAAACTTGCGGTTCAATCTTAGTCAACCTTATATCCTGACTTACGGTTCAGTCCT-GACCATC
1 TT-TGACTTACAGTTCAATCTTAGTCAACCTTATATCCTGACTTACGATTCAGTCCTAG-CCATC
24000766 CTTATT
64 CTTATT
* * * * *
24000772 TCTTGACTTACAGTTCAAT-TTTGATCATCTTTATTTCTTGACTTACGATT
1 T-TTGACTTACAGTTCAATCTTAG-TCAACCTTATATCCTGACTTACGATT
24000822 TAATTTTGGT
Statistics
Matches: 93, Mismatches: 23, Indels: 7
0.76 0.19 0.06
Matches are distributed among these distances:
69 6 0.06
70 86 0.92
71 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.43
Consensus pattern (69 bp):
TTTGACTTACAGTTCAATCTTAGTCAACCTTATATCCTGACTTACGATTCAGTCCTAGCCATCCT
TATT
Found at i:24000806 original size:35 final size:35
Alignment explanation
Indices: 24000634--24000850 Score: 122
Period size: 35 Copynumber: 6.2 Consensus size: 35
24000624 TCATTCTTAT
* * * * *
24000634 TTGACTTACAATTCAGTGTT-AGTCAACCTTATCTC
1 TTGACTTACGATTCAATTTTGA-TCATCCTTATTTC
* * *
24000669 TTGATTTACGATTCAGTTCT-AGTCATCCTTATTT-
1 TTGACTTACGATTCAATTTTGA-TCATCCTTATTTC
** * * * * *
24000703 TCAAACTTGCGGTTCAATCTT-AGTCAACCTTATATC
1 T-TGACTTACGATTCAATTTTGA-TCATCCTTATTTC
* * * ** *
24000739 CTGACTTACGGTTCAGTCCTGACCATCCTTATTTC
1 TTGACTTACGATTCAATTTTGATCATCCTTATTTC
*
24000774 TTGACTTAC-AGTTCAATTTTGATCATCTTTATTTC
1 TTGACTTACGA-TTCAATTTTGATCATCCTTATTTC
* *
24000809 TTGACTTACGATTTAATTTTGGTCATCCTTATTT-
1 TTGACTTACGATTCAATTTTGATCATCCTTATTTC
24000843 TGTGACTT
1 T-TGACTT
24000851 GTGGTTCAAT
Statistics
Matches: 141, Mismatches: 35, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
34 2 0.01
35 137 0.97
36 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (35 bp):
TTGACTTACGATTCAATTTTGATCATCCTTATTTC
Found at i:24000849 original size:105 final size:107
Alignment explanation
Indices: 24000715--24000951 Score: 235
Period size: 105 Copynumber: 2.2 Consensus size: 107
24000705 AAACTTGCGG
* * * ** * ** *
24000715 TTCAATCTTAGTCAACCTTATATCCTGACTTACGGTTCAGTCCTGACCATCCTTATTTCTTGACT
1 TTCAATCTTGGTCATCCTTATTTTGTGACTTACGGTTCAATCCCAACCATCCCTATTTCTTGACT
* * *
24000780 TACAGTTCAATTTTGATCATCTTT-ATTT-CTTGACTTACGA
66 TACAGTTCAATATCGATCATCTTTAATTTACTTGACTTACAA
* * ** * *
24000820 TTTAATTTTGGTCATCCTTATTTTGTGACTTGTGGTTCAATCCCAATCATCCCTATTTTTTGACT
1 TTCAATCTTGGTCATCCTTATTTTGTGACTTACGGTTCAATCCCAACCATCCCTATTTCTTGACT
* * * * * *
24000885 TGCTGTTTAATATCGATCGTTTTTAATTTACTTGACTTGCAA
66 TACAGTTCAATATCGATCATCTTTAATTTACTTGACTTACAA
*
24000927 TTCAGTCTTGGTCATCCTTATTTTG
1 TTCAATCTTGGTCATCCTTATTTTG
24000952 ACTTATGGTT
Statistics
Matches: 103, Mismatches: 27, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
105 67 0.65
106 4 0.04
107 32 0.31
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (107 bp):
TTCAATCTTGGTCATCCTTATTTTGTGACTTACGGTTCAATCCCAACCATCCCTATTTCTTGACT
TACAGTTCAATATCGATCATCTTTAATTTACTTGACTTACAA
Found at i:24002766 original size:2 final size:2
Alignment explanation
Indices: 24002759--24002785 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24002749 AGCACATTAG
24002759 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
24002786 AAGCAACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24004010 original size:15 final size:15
Alignment explanation
Indices: 24003974--24004062 Score: 76
Period size: 15 Copynumber: 6.1 Consensus size: 15
24003964 TAAAACCCTA
*
24003974 AAACTCTAAACCTTG
1 AAACCCTAAACCTTG
* *
24003989 -CACCCTAAACCTTC
1 AAACCCTAAACCTTG
24004003 AAACCCTAAATCC-TG
1 AAACCCTAAA-CCTTG
* *
24004018 AAACCTTAAACCCT-
1 AAACCCTAAACCTTG
* *
24004032 AAATCCTAAATCTTG
1 AAACCCTAAACCTTG
*
24004047 AAACCTTAAACCTTG
1 AAACCCTAAACCTTG
24004062 A
1 A
24004063 CACATTCAAA
Statistics
Matches: 57, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
14 23 0.40
15 32 0.56
16 2 0.04
ACGTcount: A:0.39, C:0.31, G:0.04, T:0.25
Consensus pattern (15 bp):
AAACCCTAAACCTTG
Found at i:24004028 original size:22 final size:22
Alignment explanation
Indices: 24003992--24004056 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
24003982 AACCTTGCAC
24003992 CCTAAACCTTCAAACCCTAAAT
1 CCTAAACCTTCAAACCCTAAAT
24004014 CCTGAAACCTT-AAACCCTAAAT
1 CCT-AAACCTTCAAACCCTAAAT
* * *
24004036 CCTAAATCTTGAAACCTTAAA
1 CCTAAACCTTCAAACCCTAAA
24004057 CCTTGACACA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.15
22 26 0.67
23 7 0.18
ACGTcount: A:0.42, C:0.31, G:0.03, T:0.25
Consensus pattern (22 bp):
CCTAAACCTTCAAACCCTAAAT
Found at i:24004057 original size:7 final size:7
Alignment explanation
Indices: 24003966--24004093 Score: 62
Period size: 7 Copynumber: 17.3 Consensus size: 7
24003956 TTTTCTCATA
*
24003966 AAACCCT
1 AAACCTT
*
24003973 AAAACTCT
1 AAACCT-T
24003981 AAACCTT
1 AAACCTT
** *
24003988 GCACCCT
1 AAACCTT
24003995 AAACCTT
1 AAACCTT
*
24004002 CAAACCCT
1 -AAACCTT
*
24004010 AAATCCTG
1 AAA-CCTT
24004018 AAACCTT
1 AAACCTT
*
24004025 AAACCCT
1 AAACCTT
24004032 AAATCC-T
1 AAA-CCTT
*
24004039 AAATCTT
1 AAACCTT
24004046 GAAACCTT
1 -AAACCTT
24004054 AAACCTT
1 AAACCTT
* *
24004061 GACACATT
1 -AAACCTT
24004069 CAAATCC-T
1 -AAA-CCTT
24004077 AAACCTT
1 AAACCTT
24004084 AAAACCTT
1 -AAACCTT
24004092 AA
1 AA
24004094 TCCAAACCGA
Statistics
Matches: 90, Mismatches: 21, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
6 3 0.03
7 46 0.51
8 40 0.44
9 1 0.01
ACGTcount: A:0.41, C:0.31, G:0.03, T:0.24
Consensus pattern (7 bp):
AAACCTT
Found at i:24004058 original size:59 final size:58
Alignment explanation
Indices: 24003966--24004101 Score: 141
Period size: 59 Copynumber: 2.3 Consensus size: 58
24003956 TTTTCTCATA
* * *
24003966 AAACCCTAAAACTCTAAACCTTGCACCCTAAACCTTCAAACCCT-AAATCCTGAAACCTT
1 AAACCCTAAATC-CTAAACCTTGAACCCTAAACCTTCAAACACTCAAATCCT-AAACCTT
* * * * *
24004025 AAACCCTAAATCCTAAATCTTGAAACCTTAAACCTTGACACATTCAAATCCTAAACCTT
1 AAACCCTAAATCCTAAACCTTG-AACCCTAAACCTTCAAACACTCAAATCCTAAACCTT
* *
24004084 AAAACCTTAATCC-AAACC
1 AAACCCTAAATCCTAAACC
24004102 GAAATTAACC
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
58 13 0.20
59 44 0.69
60 7 0.11
ACGTcount: A:0.41, C:0.32, G:0.03, T:0.24
Consensus pattern (58 bp):
AAACCCTAAATCCTAAACCTTGAACCCTAAACCTTCAAACACTCAAATCCTAAACCTT
Found at i:24005461 original size:22 final size:22
Alignment explanation
Indices: 24005307--24005467 Score: 117
Period size: 22 Copynumber: 7.3 Consensus size: 22
24005297 AAATATAAAA
* *
24005307 AAGTTATCAATGATTAACAATT
1 AAGTTATCAATGATTTACTATT
* * * *
24005329 ACGTTATCATTGATTTATTACT
1 AAGTTATCAATGATTTACTATT
* **
24005351 ATGTTATCAATGATTTGTTATT
1 AAGTTATCAATGATTTACTATT
* * *
24005373 AAGCTATCAATGATTTATTAGT
1 AAGTTATCAATGATTTACTATT
* **
24005395 AAATTATCAATGATTTACTGCT
1 AAGTTATCAATGATTTACTATT
* * * *
24005417 AATTTATGAATTA-TTAATCATT
1 AAGTTATCAATGATTTACT-ATT
*
24005439 AAGTTATAAATGATTTACTATT
1 AAGTTATCAATGATTTACTATT
*
24005461 AAATTAT
1 AAGTTAT
24005468 TGTGATTTAC
Statistics
Matches: 107, Mismatches: 30, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
21 4 0.04
22 99 0.93
23 4 0.04
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.45
Consensus pattern (22 bp):
AAGTTATCAATGATTTACTATT
Found at i:24005475 original size:21 final size:21
Alignment explanation
Indices: 24005449--24005489 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
24005439 AAGTTATAAA
*
24005449 TGATTTACTATTAAATTATTG
1 TGATTTACTACTAAATTATTG
24005470 TGATTTACTACTAAATTATT
1 TGATTTACTACTAAATTATT
24005490 TTTTGACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.51
Consensus pattern (21 bp):
TGATTTACTACTAAATTATTG
Found at i:24005575 original size:44 final size:43
Alignment explanation
Indices: 24005500--24005598 Score: 100
Period size: 44 Copynumber: 2.3 Consensus size: 43
24005490 TTTTGACCAA
* * * *
24005500 TATTAC-AAGTTATTGATGATTTTTTATAAAATTAT-AACTGATT
1 TATTACTAATTTACTGATGATTTTTTACAAAATCATCAA-TGA-T
24005543 TATTACTAATTTACTGATGATTTATTT-CAAAATCATCAATGAT
1 TATTACTAATTTACTGATGATTT-TTTACAAAATCATCAATGAT
24005586 TA--ACTAATTTACT
1 TATTACTAATTTACT
24005599 ACTAAATATC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
41 11 0.22
43 9 0.18
44 24 0.49
45 5 0.10
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.46
Consensus pattern (43 bp):
TATTACTAATTTACTGATGATTTTTTACAAAATCATCAATGAT
Found at i:24005673 original size:24 final size:22
Alignment explanation
Indices: 24005626--24005715 Score: 82
Period size: 22 Copynumber: 4.3 Consensus size: 22
24005616 TATAGTTAAG
*
24005626 TTATTAGTAATTTACTAATATA
1 TTATTAATAATTTACTAATATA
* *
24005648 TTATTAATAAGTT-CTACTA-A
1 TTATTAATAATTTACTAATATA
24005668 GTTATTAATAATTTACT-A-A-A
1 -TTATTAATAATTTACTAATATA
* **
24005688 TTATCAATAATTTACTCTTATA
1 TTATTAATAATTTACTAATATA
24005710 TTATTA
1 TTATTA
24005716 TGTTTTTTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
19 15 0.27
20 3 0.05
21 18 0.33
22 19 0.35
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (22 bp):
TTATTAATAATTTACTAATATA
Found at i:24005686 original size:19 final size:19
Alignment explanation
Indices: 24005626--24005703 Score: 84
Period size: 19 Copynumber: 3.8 Consensus size: 19
24005616 TATAGTTAAG
*
24005626 TTATTAGTAATTTACTAATATA
1 TTATTAATAATTTACT-A-A-A
*
24005648 TTATTAATAAGTTCTACTAAG
1 TTATTAATAA-TT-TACTAAA
24005669 TTATTAATAATTTACTAAA
1 TTATTAATAATTTACTAAA
*
24005688 TTATCAATAATTTACT
1 TTATTAATAATTTACT
24005704 CTTATATTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
19 21 0.42
20 2 0.04
21 10 0.20
22 10 0.20
23 3 0.06
24 4 0.08
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (19 bp):
TTATTAATAATTTACTAAA
Found at i:24005895 original size:22 final size:22
Alignment explanation
Indices: 24005852--24005896 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
24005842 TTTATAATTT
* *
24005852 ACTATTAAGTTATTACTGACTA
1 ACTATTAAATTATTACTCACTA
24005874 ACTATTAAATTATTTAC-CACTA
1 ACTATTAAATTA-TTACTCACTA
24005896 A
1 A
24005897 ATTATACTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (22 bp):
ACTATTAAATTATTACTCACTA
Found at i:24005966 original size:22 final size:22
Alignment explanation
Indices: 24005906--24005976 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
24005896 AATTATACTA
* *
24005906 ATTTATTTCTAAATTT-TCAATG
1 ATTTATTACT-AATTTATCAATT
* * * *
24005928 ATTAACTATTAAATTATCAATT
1 ATTTATTACTAATTTATCAATT
24005950 ATTTATTACTAATTTATC-ATT
1 ATTTATTACTAATTTATCAATT
24005971 AATTTA
1 -ATTTA
24005977 CCATTAAATT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
21 7 0.19
22 30 0.81
ACGTcount: A:0.38, C:0.08, G:0.01, T:0.52
Consensus pattern (22 bp):
ATTTATTACTAATTTATCAATT
Found at i:24005983 original size:44 final size:44
Alignment explanation
Indices: 24005906--24006383 Score: 176
Period size: 44 Copynumber: 11.2 Consensus size: 44
24005896 AATTATACTA
* * * *
24005906 ATTTATTTCTAAATTT-TCAATGATTAACTATTAAATTATCAATT
1 ATTTATTACT-AATTTATCATTAATTTACTATTAAATTATCAATT
* ** *
24005950 ATTTATTACTAATTTATCATTAATTTACCATTAAATTATTTATG
1 ATTTATTACTAATTTATCATTAATTTACTATTAAATTATCAATT
* * *
24005994 ATTTATTACT-A-TCA--ATTAA-TTATTATTAAATTA-AAATT
1 ATTTATTACTAATTTATCATTAATTTACTATTAAATTATCAATT
* * * *
24006032 AATTTACTATTAAATTATCATTAATTTACTATTAAGTTATC-ATT
1 -ATTTATTACTAATTTATCATTAATTTACTATTAAATTATCAATT
* * * * * * * * *
24006076 GATTTATTACTAAGTTATTGA-CAACTAACTACTAAATTGTTACTT
1 -ATTTATTACTAATTTA-TCATTAATTTACTATTAAATTATCAATT
* * * * *
24006121 -TTT-TTATTCAA-TTATCTTTAATTTA-TCATTATATTAT-TATAC
1 ATTTATTACT-AATTTATCATTAATTTACT-ATTAAATTATCAAT-T
** * * * *
24006163 ATTTACAACT-ATATTATAATTGATTTACTACTAAATTAT-TATAT
1 ATTTATTACTAAT-TTATCATTAATTTACTATTAAATTATCAAT-T
* * * * *
24006207 ATTTATTATTATTTTATTATTAATTTACTATTAACTTATTAATT
1 ATTTATTACTAATTTATCATTAATTTACTATTAAATTATCAATT
* * * * * *
24006251 GTTGATTAC-AAATTATCATCAATTTATTATTAAATTATCACA-A
1 ATTTATTACTAATTTATCATTAATTTACTATTAAATTATCA-ATT
* ** * * * *
24006294 ATTTACTGTTAAATTATAATTAATTAACTATTAAATTATCGA-T
1 ATTTATTACTAATTTATCATTAATTTACTATTAAATTATCAATT
* * * * *
24006337 AATTACTATTAAATTAT-AATAA--T--TATTAAATTATCAATT
1 ATTTATTACTAATTTATCATTAATTTACTATTAAATTATCAATT
24006376 ATTTATTA
1 ATTTATTA
24006384 TTATATCGTT
Statistics
Matches: 318, Mismatches: 92, Indels: 53
0.69 0.20 0.11
Matches are distributed among these distances:
38 15 0.05
39 27 0.08
40 6 0.02
41 5 0.02
42 25 0.08
43 63 0.20
44 169 0.53
45 8 0.03
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (44 bp):
ATTTATTACTAATTTATCATTAATTTACTATTAAATTATCAATT
Found at i:24005988 original size:22 final size:22
Alignment explanation
Indices: 24005932--24006353 Score: 164
Period size: 22 Copynumber: 19.6 Consensus size: 22
24005922 TCAATGATTA
24005932 ACTATTAAATTATCAATT-ATTT
1 ACTATTAAATTATC-ATTAATTT
* * *
24005954 ATTACTAATTTATCATTAATTT
1 ACTATTAAATTATCATTAATTT
*
24005976 ACCATTAAATTAT--TT-ATGATT
1 ACTATTAAATTATCATTAAT--TT
*
24005997 --TATT--ACTATCAATTAA-TT
1 ACTATTAAATTATC-ATTAATTT
* **
24006015 ATTATTAAATTAAAATTAATTT
1 ACTATTAAATTATCATTAATTT
24006037 ACTATTAAATTATCATTAATTT
1 ACTATTAAATTATCATTAATTT
* *
24006059 ACTATTAAGTTATCATTGATTT
1 ACTATTAAATTATCATTAATTT
* * * * * * *
24006081 ATTACTAAGTTATTGA-CAACTA
1 ACTATTAAATTA-TCATTAATTT
* * *
24006103 ACTACTAAATTGTTACTT--TTT
1 ACTATTAAATTATCA-TTAATTT
* * *
24006124 -TTATTCAATTATCTTTAATTT
1 ACTATTAAATTATCATTAATTT
* *
24006145 A-TCATTATATTATTA-TACATTT
1 ACT-ATTAAATTATCATTA-ATTT
* * * * *
24006167 ACAACTATATTATAATTGATTT
1 ACTATTAAATTATCATTAATTT
* *
24006189 ACTACTAAATTATTA-TATATTT
1 ACTATTAAATTATCATTA-ATTT
* ** *
24006211 ATTATTATTTTATTATTAATTT
1 ACTATTAAATTATCATTAATTT
* * * *
24006233 ACTATTAACTTATTAATT-GTTG
1 ACTATTAAATTA-TCATTAATTT
* * *
24006255 ATTA-CAAATTATCATCAATTT
1 ACTATTAAATTATCATTAATTT
* **
24006276 ATTATTAAATTATCACAAATTT
1 ACTATTAAATTATCATTAATTT
* * *
24006298 ACTGTTAAATTATAATTAATTA
1 ACTATTAAATTATCATTAATTT
24006320 ACTATTAAATTATCGA-TAA-TT
1 ACTATTAAATTATC-ATTAATTT
24006341 ACTATTAAATTAT
1 ACTATTAAATTAT
24006354 AATAATTATT
Statistics
Matches: 294, Mismatches: 78, Indels: 57
0.69 0.18 0.13
Matches are distributed among these distances:
17 4 0.01
18 2 0.01
19 7 0.02
20 19 0.06
21 46 0.16
22 206 0.70
23 10 0.03
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.50
Consensus pattern (22 bp):
ACTATTAAATTATCATTAATTT
Found at i:24006050 original size:83 final size:83
Alignment explanation
Indices: 24005934--24006087 Score: 213
Period size: 83 Copynumber: 1.9 Consensus size: 83
24005924 AATGATTAAC
* * * *
24005934 TATTAAATTATCAATTATTTATTACTAATTTATCATTAATTTACCATTAAATTAT-TTATGATTT
1 TATTAAATTATAAATTATTTACTACTAAATTATCATTAATTTACCATTAAATTATCAT-TGATTT
24005998 ATTACTATCAATTAATTAT
65 ATTACTATCAATTAATTAT
* * *
24006017 TATTAAATTA-AAATTAATTTACTATTAAATTATCATTAATTTACTATTAAGTTATCATTGATTT
1 TATTAAATTATAAATT-ATTTACTACTAAATTATCATTAATTTACCATTAAATTATCATTGATTT
24006081 ATTACTA
65 ATTACTA
24006088 AGTTATTGAC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
82 4 0.06
83 57 0.92
84 1 0.02
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.51
Consensus pattern (83 bp):
TATTAAATTATAAATTATTTACTACTAAATTATCATTAATTTACCATTAAATTATCATTGATTTA
TTACTATCAATTAATTAT
Found at i:24006082 original size:11 final size:11
Alignment explanation
Indices: 24005935--24006082 Score: 61
Period size: 11 Copynumber: 12.9 Consensus size: 11
24005925 ATGATTAACT
*
24005935 ATTAAATTATC
1 ATTAATTTATC
*
24005946 AATT-ATTTATT
1 -ATTAATTTATC
*
24005957 ACTAATTTATC
1 ATTAATTTATC
*
24005968 ATTAATTTACC
1 ATTAATTTATC
*
24005979 ATTAAATTATTTATG
1 ATT--A--ATTTATC
*
24005994 ATTTATTACTATC
1 ATTAATT--TATC
*
24006007 AATTAA-TTATT
1 -ATTAATTTATC
* **
24006018 ATTAAATTAAA
1 ATTAATTTATC
24006029 ATTAATTTA-C
1 ATTAATTTATC
*
24006039 TATTAAATTATC
1 -ATTAATTTATC
24006051 ATTAATTTA-C
1 ATTAATTTATC
*
24006061 TATTAAGTTATC
1 -ATTAATTTATC
*
24006073 ATTGATTTAT
1 ATTAATTTAT
24006083 TACTAAGTTA
Statistics
Matches: 102, Mismatches: 21, Indels: 27
0.68 0.14 0.18
Matches are distributed among these distances:
10 8 0.08
11 72 0.71
12 5 0.05
13 5 0.05
14 4 0.04
15 8 0.08
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (11 bp):
ATTAATTTATC
Found at i:24006240 original size:11 final size:11
Alignment explanation
Indices: 24006198--24006247 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
24006188 TACTACTAAA
24006198 TTATTA-TATAT
1 TTATTATTA-AT
*
24006209 TTATTATTATT
1 TTATTATTAAT
24006220 TTATTATTAAT
1 TTATTATTAAT
* *
24006231 TTACTATTAAC
1 TTATTATTAAT
24006242 TTATTA
1 TTATTA
24006248 ATTGTTGATT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
11 31 0.94
12 2 0.06
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATTATTAAT
Found at i:24007641 original size:2 final size:2
Alignment explanation
Indices: 24007634--24007666 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
24007624 AAATTTTTGT
24007634 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24007667 GATAAAAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24007711 original size:13 final size:14
Alignment explanation
Indices: 24007677--24007712 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
24007667 GATAAAAGTA
24007677 AAAAAAAATTTACT
1 AAAAAAAATTTACT
*
24007691 AAATAAAATTTA-T
1 AAAAAAAATTTACT
24007704 AAAAAAAAT
1 AAAAAAAAT
24007713 AACCAGACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAAAAATTTACT
Found at i:24009025 original size:16 final size:15
Alignment explanation
Indices: 24009006--24009045 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
24008996 TTTTTTTTTG
24009006 TATAATTATTATAAAA
1 TATAATTATTAT-AAA
* *
24009022 TATAATAATTATAAT
1 TATAATTATTATAAA
24009037 TATAATTAT
1 TATAATTAT
24009046 AAAAATTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAATTATTATAAA
Found at i:24009635 original size:26 final size:26
Alignment explanation
Indices: 24009586--24009634 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
24009576 TTTCAAAAAT
*
24009586 TAAAAGTTTTCAAACTTATATTTTAA
1 TAAAAGTTTTCAAACCTATATTTTAA
24009612 TAAAA-TTTTCAAACCTATATTTT
1 TAAAAGTTTTCAAACCTATATTTT
24009635 TTATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (26 bp):
TAAAAGTTTTCAAACCTATATTTTAA
Found at i:24010209 original size:39 final size:39
Alignment explanation
Indices: 24010155--24010249 Score: 120
Period size: 39 Copynumber: 2.4 Consensus size: 39
24010145 CCACCCCCAT
** * *
24010155 CCAATCCCTTTCCACCTTCCCCCCAACATCC-CATCACAC
1 CCAATCCCTCCCCACCTTCCCCCCAAC-GCCTCACCACAC
*
24010194 CCAATCCCTCCCCACCTTCCCTCCAACGCCTCACCACAC
1 CCAATCCCTCCCCACCTTCCCCCCAACGCCTCACCACAC
*
24010233 CCAATCCATCCCCACCT
1 CCAATCCCTCCCCACCT
24010250 CATCCAATCT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
38 2 0.04
39 47 0.96
ACGTcount: A:0.22, C:0.59, G:0.01, T:0.18
Consensus pattern (39 bp):
CCAATCCCTCCCCACCTTCCCCCCAACGCCTCACCACAC
Found at i:24011527 original size:27 final size:27
Alignment explanation
Indices: 24011496--24011604 Score: 209
Period size: 27 Copynumber: 4.0 Consensus size: 27
24011486 AATGAGTACG
24011496 AATGAAATGTTTGAAATGTTTCATTCA
1 AATGAAATGTTTGAAATGTTTCATTCA
24011523 AATGAAATGTTTGAAATGTTTCATTCA
1 AATGAAATGTTTGAAATGTTTCATTCA
24011550 AATGAAATGTTTGAAATGTTTCATTCA
1 AATGAAATGTTTGAAATGTTTCATTCA
*
24011577 AATGAAATGTTTGAAATGTTTCTTTCA
1 AATGAAATGTTTGAAATGTTTCATTCA
24011604 A
1 A
24011605 CCCATATAAC
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
27 81 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (27 bp):
AATGAAATGTTTGAAATGTTTCATTCA
Found at i:24013377 original size:2 final size:2
Alignment explanation
Indices: 24013372--24013414 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
24013362 TATATATATA
*
24013372 TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
24013414 T
1 T
24013415 ATACACATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.02, C:0.00, G:0.47, T:0.51
Consensus pattern (2 bp):
TG
Found at i:24024641 original size:22 final size:22
Alignment explanation
Indices: 24024616--24024661 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
24024606 CACCTCTACC
24024616 ATGTGCAAATTTGCACTCTTTT
1 ATGTGCAAATTTGCACTCTTTT
24024638 ATGTGCAAATTTGCACTCTTTT
1 ATGTGCAAATTTGCACTCTTTT
24024660 AT
1 AT
24024662 TAAACATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.24, C:0.17, G:0.13, T:0.46
Consensus pattern (22 bp):
ATGTGCAAATTTGCACTCTTTT
Found at i:24025484 original size:145 final size:146
Alignment explanation
Indices: 24025182--24025516 Score: 414
Period size: 145 Copynumber: 2.3 Consensus size: 146
24025172 CCAAGAATAG
*
24025182 CAAAATTATCAAAATA-CCCTAATAAGGATATTTTCATAATTTGACTTTTTCAAGCTTGAATTTT
1 CAAAATTATCAAAATACCCCT-ATAAGGATATTTTCATAATTTGACTTTTTCAAGATTGAATTTT
* * * *
24025246 CATCAAAATTTTTTAGATTTTAATTTCATAATATTTCATTATTTTTAGTGCATTTGAAATCACAG
65 CATCAAAAATTTTTAGATCTTAATTTCATAATATTTCATAATTTTTAGTACATTTGAAATCACAG
* *
24025311 CCATACTTTGAAAAGTA
130 CCATACCTCGAAAAGTA
* * *
24025328 TAAAATTATCAAAATACCCCTATAAGGGTGTTTTCATAATTTGA-TCTTTTCGAA-ATTGAATTT
1 CAAAATTATCAAAATACCCCTATAAGGATATTTTCATAATTTGACT-TTTTC-AAGATTGAATTT
* *
24025391 TCA-CAAAAATTTTTAGATCTTAATTTCATATTATTTCATAATTTTTTA-TACATTTGAAATCAT
64 TCATCAAAAATTTTTAGATCTTAATTTCATAATATTTCATAA-TTTTTAGTACATTTGAAATCAC
*
24025454 AG-TAGTACCTCGAAAAGTA
128 AGCCA-TACCTCGAAAAGTA
* * * *
24025473 CGAAATTATCAAAATACCCTTATAAGTAT-TTTTTATACATTTGA
1 CAAAATTATCAAAATACCCCTATAAGGATATTTTCATA-ATTTGA
24025517 AAATATACCT
Statistics
Matches: 164, Mismatches: 19, Indels: 13
0.84 0.10 0.07
Matches are distributed among these distances:
144 8 0.05
145 92 0.56
146 58 0.35
147 6 0.04
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (146 bp):
CAAAATTATCAAAATACCCCTATAAGGATATTTTCATAATTTGACTTTTTCAAGATTGAATTTTC
ATCAAAAATTTTTAGATCTTAATTTCATAATATTTCATAATTTTTAGTACATTTGAAATCACAGC
CATACCTCGAAAAGTA
Found at i:24026251 original size:20 final size:20
Alignment explanation
Indices: 24026226--24026264 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
24026216 GCTTGGAAGG
24026226 AAAAAAGGTGA-AAGCTTTGT
1 AAAAAAGG-GATAAGCTTTGT
24026246 AAAAAAGGGATAAGCTTTG
1 AAAAAAGGGATAAGCTTTG
24026265 CAAGGAATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.46, C:0.05, G:0.26, T:0.23
Consensus pattern (20 bp):
AAAAAAGGGATAAGCTTTGT
Found at i:24029725 original size:27 final size:28
Alignment explanation
Indices: 24029667--24029726 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
24029657 AAAATTAAAA
24029667 TTTT-GAAAAAAAATAAAAAAAGCATTTT
1 TTTTAGAAAAAAAATAAAAAAA-CATTTT
*
24029695 TTTTAGAAAAAAAA-AAAGAAA-ATTTT
1 TTTTAGAAAAAAAATAAAAAAACATTTT
24029721 CTTTTA
1 -TTTTA
24029727 ACATAAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.17
27 5 0.17
28 10 0.34
29 9 0.31
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (28 bp):
TTTTAGAAAAAAAATAAAAAAACATTTT
Found at i:24033229 original size:15 final size:15
Alignment explanation
Indices: 24033217--24033253 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
24033207 AATAAAAAGT
*
24033217 AAAAAAGACAAAAAC
1 AAAAAACACAAAAAC
24033232 AAAAAACACAAAAACC
1 AAAAAACACAAAAA-C
24033248 AAAAAA
1 AAAAAA
24033254 ATGAAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.81, C:0.16, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAAAACACAAAAAC
Found at i:24034132 original size:11 final size:11
Alignment explanation
Indices: 24034101--24034138 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
24034091 ACCCAAAAAT
*
24034101 AAAAAAAAAATG
1 AAAAAAAAGA-G
24034113 AAAAAAAAGAG
1 AAAAAAAAGAG
24034124 AAAAAAAAGA-
1 AAAAAAAAGAG
24034134 AAAAA
1 AAAAA
24034139 TGGTTATGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 5 0.20
11 11 0.44
12 9 0.36
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.03
Consensus pattern (11 bp):
AAAAAAAAGAG
Found at i:24034655 original size:17 final size:16
Alignment explanation
Indices: 24034613--24034665 Score: 63
Period size: 17 Copynumber: 3.3 Consensus size: 16
24034603 GACAGGATCC
*
24034613 AAAAGTAAAA-AAAAA
1 AAAAATAAAAGAAAAA
*
24034628 AAAAATGAAAGAAAAGA
1 AAAAATAAAAGAAAA-A
*
24034645 AAGAATAAAAGAAAAA
1 AAAAATAAAAGAAAAA
24034661 AAAAA
1 AAAAA
24034666 GAAATTAGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 8 0.26
16 9 0.29
17 14 0.45
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (16 bp):
AAAAATAAAAGAAAAA
Found at i:24035680 original size:67 final size:66
Alignment explanation
Indices: 24035533--24035788 Score: 263
Period size: 65 Copynumber: 3.8 Consensus size: 66
24035523 ATTTAGCTAT
* * * * **
24035533 CCTTCAAAGAAATATTTAAGTCCAGATTAGCTGGCCTCTAATG-AAT-GTAAGCCTAGTTTAGTT
1 CCTTCAAAGAAAGATTTAAG-CCAGATTAGCTGGCCCCTAATGAAATATTAAGCCCAAATTAGTT
24035596 GG
65 GG
* *
24035598 CCTTCAAAGAAAGATTTAAGCTC-GAATTAACTGGCCCCCAATGAAATATTAAGCCCAAATTAGT
1 CCTTCAAAGAAAGATTTAAGC-CAG-ATTAGCTGGCCCCTAATGAAATATTAAGCCCAAATTAGT
*
24035662 TAG
64 TGG
* * * * * *
24035665 CTTTCAAA-AACAGATTTAAACCCAGATTAGCTGGCCTCTAATG-AATA-TAAGTCCAATTTAGC
1 CCTTCAAAGAA-AGATTT-AAGCCAGATTAGCTGGCCCCTAATGAAATATTAAGCCCAAATTAGT
24035727 TGG
64 TGG
24035730 CCTTCAAAGAAAGATTTAAGCCAGATTAGCTGGTCTCCTCTAATGAAATATTAAGCCCA
1 CCTTCAAAGAAAGATTTAAGCCAGATTAGCTGG-C-CC-CTAATGAAATATTAAGCCCA
24035789 GTGCATCTGC
Statistics
Matches: 156, Mismatches: 22, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
64 17 0.11
65 63 0.40
66 12 0.08
67 49 0.31
68 8 0.05
69 7 0.04
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (66 bp):
CCTTCAAAGAAAGATTTAAGCCAGATTAGCTGGCCCCTAATGAAATATTAAGCCCAAATTAGTTG
G
Found at i:24035985 original size:73 final size:73
Alignment explanation
Indices: 24035902--24036077 Score: 226
Period size: 73 Copynumber: 2.4 Consensus size: 73
24035892 AAGGCATTTG
* * * *
24035902 CATTTGCATCATGAAAAAGATATTTGCATTCAACTTTGCATTAATAAAAAGACACTTGCACTTAC
1 CATTTGCATCATGAAAAAGACATTTGCATTCAACTCTGCATCAATAAAAAGACACTTACACTTAC
24035967 ATCACTTA
66 ATCACTTA
* * * * * * *
24035975 CATTTACATCATGAAAAAGACATTTGGATTCAGCTCTGCATCAATAAAAAGACATTTATATTTGC
1 CATTTGCATCATGAAAAAGACATTTGCATTCAACTCTGCATCAATAAAAAGACACTTACACTTAC
*
24036040 ATCACTTG
66 ATCACTTA
* *
24036048 TATTTGTATCATGAAAAAGACATTTGCATT
1 CATTTGCATCATGAAAAAGACATTTGCATT
24036078 TGCGTCACTT
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
73 87 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (73 bp):
CATTTGCATCATGAAAAAGACATTTGCATTCAACTCTGCATCAATAAAAAGACACTTACACTTAC
ATCACTTA
Found at i:24036094 original size:21 final size:21
Alignment explanation
Indices: 24036068--24036118 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
24036058 ATGAAAAAGA
* *
24036068 CATTTGCATTTGCGTCACTTG
1 CATTTGCATTTGCATCACTAG
24036089 CATTTGCATTTGCATCACTAG
1 CATTTGCATTTGCATCACTAG
*
24036110 TATTTGCAT
1 CATTTGCAT
24036119 CATAAAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.43
Consensus pattern (21 bp):
CATTTGCATTTGCATCACTAG
Found at i:24036100 original size:62 final size:62
Alignment explanation
Indices: 24036034--24036153 Score: 179
Period size: 62 Copynumber: 1.9 Consensus size: 62
24036024 AGACATTTAT
* * * *
24036034 ATTTGCATCACTTGTATTTGTATCATGAAAAAGACATTTG-CATTTGCGTCACTTGCATTTGC
1 ATTTGCATCACTAGTATTTGCATCATAAAAAAGACA-TTGACATTTGCATCACTTGCATTTGC
*
24036096 ATTTGCATCACTAGTATTTGCATCATAAAAAAGACATTGACATTTGCATCGCTTGCAT
1 ATTTGCATCACTAGTATTTGCATCATAAAAAAGACATTGACATTTGCATCACTTGCAT
24036154 CTTCATCTCA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
61 3 0.06
62 49 0.94
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (62 bp):
ATTTGCATCACTAGTATTTGCATCATAAAAAAGACATTGACATTTGCATCACTTGCATTTGC
Found at i:24036127 original size:103 final size:103
Alignment explanation
Indices: 24036011--24036199 Score: 249
Period size: 103 Copynumber: 1.8 Consensus size: 103
24036001 GATTCAGCTC
* * * * *
24036011 TGCATCAATAAAAAGACATTTATATTTGCATCACTTGTAT-TTGTATCATGAA-AAAGACATTTG
1 TGCATCAATAAAAAGACATTGACATTTGCATCACTTGCATCTT-CATC-TCAAGAAAGACATTTG
*
24036074 CATTTGCGTCACTTGCATTTGCATTTGCATCACTAGTATT
64 CATTTGCATCACTTGCATTTGCATTTGCATCACTAGTATT
*
24036114 TGCATC-ATAAAAAAGACATTGACATTTGCATCGCTTGCATCTTCATCTCAAGAAAGACATTTGC
1 TGCATCAAT-AAAAAGACATTGACATTTGCATCACTTGCATCTTCATCTCAAGAAAGACATTTGC
* *
24036178 ATTTGTATCACTTGTATTTGCA
65 ATTTGCATCACTTGCATTTGCA
24036200 CTTGTATCTA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
102 5 0.07
103 67 0.91
104 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (103 bp):
TGCATCAATAAAAAGACATTGACATTTGCATCACTTGCATCTTCATCTCAAGAAAGACATTTGCA
TTTGCATCACTTGCATTTGCATTTGCATCACTAGTATT
Found at i:24036143 original size:41 final size:41
Alignment explanation
Indices: 24036089--24036199 Score: 129
Period size: 41 Copynumber: 2.7 Consensus size: 41
24036079 GCGTCACTTG
*
24036089 CATTTGCATTTGCATCACTAGTATTTGCATCAT-AAAAAAGA
1 CATTTGCATTTGCATCACTTGTATTTGCATC-TCAAAAAAGA
* * *
24036130 CA-TTGACATTTGCATCGCTTGCATCTT-CATCTCAAGAAAGA
1 CATTTG-CATTTGCATCACTTGTAT-TTGCATCTCAAAAAAGA
*
24036171 CATTTGCATTTGTATCACTTGTATTTGCA
1 CATTTGCATTTGCATCACTTGTATTTGCA
24036200 CTTGTATCTA
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
40 6 0.10
41 47 0.81
42 5 0.09
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (41 bp):
CATTTGCATTTGCATCACTTGTATTTGCATCTCAAAAAAGA
Found at i:24037093 original size:69 final size:69
Alignment explanation
Indices: 24036980--24037235 Score: 336
Period size: 69 Copynumber: 3.7 Consensus size: 69
24036970 CATTGAAAGA
* * * * *
24036980 TAAAGTTTCATGGCCTCTAATTGGATGAGCATTCAAAAGTTTTAAGATTTGTAAAATATTTTAAA
1 TAAAGTTTCATGGCCTCTGATTGGAGGAGCATTCAAAAATTTTAAGATTTGCAAAACATTTTAAA
24037045 TTTT
66 TTTT
* * * * *
24037049 TAAAGTTTCATGGCCTCTGATTGAAGGAGTACTAAAAAATTTTAAAATTTGCAAAACATTTTAAA
1 TAAAGTTTCATGGCCTCTGATTGGAGGAGCATTCAAAAATTTTAAGATTTGCAAAACATTTTAAA
*
24037114 -ATT
66 TTTT
* * * *
24037117 T-GAGTTTGATGGCCTCTGATTGGAGGAGCATTCAAAGATTTTGAGATTTGCAAAACATTTTAAA
1 TAAAGTTTCATGGCCTCTGATTGGAGGAGCATTCAAAAATTTTAAGATTTGCAAAACATTTTAAA
24037181 TTTT
66 TTTT
* * *
24037185 TAAAGTTTCATGGCCTTTGATTGGAGGAGCATTCAAAAGTTTTGAGATTTG
1 TAAAGTTTCATGGCCTCTGATTGGAGGAGCATTCAAAAATTTTAAGATTTG
24037236 ATTGGAGGAG
Statistics
Matches: 159, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
67 54 0.34
68 6 0.04
69 99 0.62
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (69 bp):
TAAAGTTTCATGGCCTCTGATTGGAGGAGCATTCAAAAATTTTAAGATTTGCAAAACATTTTAAA
TTTT
Found at i:24037109 original size:19 final size:19
Alignment explanation
Indices: 24037082--24037118 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
24037072 AAGGAGTACT
24037082 AAAAAATTTTAAAATTTGC
1 AAAAAATTTTAAAATTTGC
*
24037101 AAAACATTTTAAAATTTG
1 AAAAAATTTTAAAATTTG
24037119 AGTTTGATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
AAAAAATTTTAAAATTTGC
Found at i:24037238 original size:32 final size:32
Alignment explanation
Indices: 24037200--24037267 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
24037190 TTTCATGGCC
24037200 TTTGATTGGAGGAGCATTCAAAAGTTTTGAGA
1 TTTGATTGGAGGAGCATTCAAAAGTTTTGAGA
24037232 TTTGATTGGAGGAGCATTCAAAAGTTTTGAGA
1 TTTGATTGGAGGAGCATTCAAAAGTTTTGAGA
24037264 TTTG
1 TTTG
24037268 CAAAACATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.29, C:0.06, G:0.28, T:0.37
Consensus pattern (32 bp):
TTTGATTGGAGGAGCATTCAAAAGTTTTGAGA
Found at i:24037309 original size:67 final size:67
Alignment explanation
Indices: 24037234--24037393 Score: 275
Period size: 67 Copynumber: 2.4 Consensus size: 67
24037224 TTTTGAGATT
24037234 TGATTGGAGGAGCATTCAAAAGTTTTGAGATTTGCAAAACATTTTAAATTTAAAGTTTCATGGCC
1 TGATTGGAGGAGCATTCAAAAGTTTTGAGATTTGCAAAACATTTTAAATTTAAAGTTTCATGGCC
*
24037299 TC
66 TA
* *
24037301 TGATTGGAGGAGCATTCAAAAGTTTTGAGATTTGTAAAATATTTTAAATTTAAAGTTTCATGGCC
1 TGATTGGAGGAGCATTCAAAAGTTTTGAGATTTGCAAAACATTTTAAATTTAAAGTTTCATGGCC
24037366 TA
66 TA
* *
24037368 TGATTGGAGAAGCATTCAAAATTTTT
1 TGATTGGAGGAGCATTCAAAAGTTTT
24037394 TTAGATTTAA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 88 1.00
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (67 bp):
TGATTGGAGGAGCATTCAAAAGTTTTGAGATTTGCAAAACATTTTAAATTTAAAGTTTCATGGCC
TA
Found at i:24037331 original size:99 final size:100
Alignment explanation
Indices: 24037133--24037334 Score: 363
Period size: 99 Copynumber: 2.0 Consensus size: 100
24037123 TGATGGCCTC
24037133 TGATTGGAGGAGCATTCAAAGATTTTGAGATTTGCAAAACATTTTAAATTTTTAAAGTTTCATGG
1 TGATTGGAGGAGCATTCAAAGATTTTGAGATTTGCAAAACATTTTAAA-TTTTAAAGTTTCATGG
*
24037198 CCTTTGATTGGAGGAGCATTCAAAAGTTTTGAGATT
65 CCTCTGATTGGAGGAGCATTCAAAAGTTTTGAGATT
24037234 TGATTGGAGGAGCATTCAAA-AGTTTTGAGATTTGCAAAACATTTTAAA-TTTAAAGTTTCATGG
1 TGATTGGAGGAGCATTCAAAGA-TTTTGAGATTTGCAAAACATTTTAAATTTTAAAGTTTCATGG
24037297 CCTCTGATTGGAGGAGCATTCAAAAGTTTTGAGATT
65 CCTCTGATTGGAGGAGCATTCAAAAGTTTTGAGATT
24037333 TG
1 TG
24037335 TAAAATATTT
Statistics
Matches: 99, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
99 52 0.53
100 1 0.01
101 46 0.46
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (100 bp):
TGATTGGAGGAGCATTCAAAGATTTTGAGATTTGCAAAACATTTTAAATTTTAAAGTTTCATGGC
CTCTGATTGGAGGAGCATTCAAAAGTTTTGAGATT
Found at i:24038629 original size:27 final size:27
Alignment explanation
Indices: 24038600--24038651 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
24038590 GGCAATGTAA
24038600 AAAAAAAAAAAAAAAAACT-GCCAAAG
1 AAAAAAAAAAAAAAAAACTAGCCAAAG
*
24038626 AAAAAAATAAAAAAAAACTAGCCAAA
1 AAAAAAAAAAAAAAAAACTAGCCAAA
24038652 TGGAGAAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.77, C:0.12, G:0.06, T:0.06
Consensus pattern (27 bp):
AAAAAAAAAAAAAAAAACTAGCCAAAG
Found at i:24042989 original size:13 final size:13
Alignment explanation
Indices: 24042971--24042999 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
24042961 AGCTATTTCA
24042971 TAATGGAGCAAAG
1 TAATGGAGCAAAG
24042984 TAATGGAGCAAAG
1 TAATGGAGCAAAG
24042997 TAA
1 TAA
24043000 CCACATTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.07, G:0.28, T:0.17
Consensus pattern (13 bp):
TAATGGAGCAAAG
Found at i:24047167 original size:42 final size:43
Alignment explanation
Indices: 24047121--24047220 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
24047111 AATCATGACT
24047121 TTTATGAATAATAATTTATTTATATTC-AA-ATAATTATGATAA
1 TTTATGAATAATAATTTATTTATATTCAAATATAATTAT-ATAA
* * *
24047163 TTTATCATATAATAA-TTATTTCTATTCAAATATAATTATTTAA
1 TTTATGA-ATAATAATTTATTTATATTCAAATATAATTATATAA
*
24047206 ATTATGAATAA-AATT
1 TTTATGAATAATAATT
24047221 AATATAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
41 2 0.04
42 22 0.45
43 17 0.35
44 8 0.16
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (43 bp):
TTTATGAATAATAATTTATTTATATTCAAATATAATTATATAA
Found at i:24047872 original size:25 final size:23
Alignment explanation
Indices: 24047824--24047889 Score: 60
Period size: 26 Copynumber: 2.7 Consensus size: 23
24047814 ATGGAAAAAC
*
24047824 TATTAAATATTAAAAAATACTTTTCA
1 TATTAAAT-TT-AAATATA-TTTTCA
**
24047850 TATTAATATTTTAAATATATTTTGT
1 TATTAA-A-TTTAAATATATTTTCA
24047875 TATTAAATTTAAATA
1 TATTAAATTTAAATA
24047890 AAGAGAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
23 8 0.23
24 1 0.03
25 10 0.29
26 12 0.34
27 3 0.09
28 1 0.03
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (23 bp):
TATTAAATTTAAATATATTTTCA
Found at i:24053544 original size:13 final size:13
Alignment explanation
Indices: 24053528--24053561 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
24053518 ATTAAAAAGC
24053528 AAAGTAAATGATG
1 AAAGTAAATGATG
24053541 AAAGTATAAATGATG
1 AAAG--TAAATGATG
24053556 AAAGTA
1 AAAGTA
24053562 TAACACGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.32
15 13 0.68
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.24
Consensus pattern (13 bp):
AAAGTAAATGATG
Found at i:24053550 original size:15 final size:15
Alignment explanation
Indices: 24053532--24053564 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
24053522 AAAAGCAAAG
24053532 TAAATGATGAAAGTA
1 TAAATGATGAAAGTA
24053547 TAAATGATGAAAGTA
1 TAAATGATGAAAGTA
24053562 TAA
1 TAA
24053565 CACGATTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (15 bp):
TAAATGATGAAAGTA
Found at i:24056315 original size:9 final size:9
Alignment explanation
Indices: 24056316--24056676 Score: 161
Period size: 9 Copynumber: 37.6 Consensus size: 9
24056306 AAATTTTAAA
24056316 AAAAATTTT
1 AAAAATTTT
* *
24056325 AAAAAATCT
1 AAAAATTTT
*
24056334 AAAATTTTTTT
1 AAAA--ATTTT
* *
24056345 ATAATTTTT
1 AAAAATTTT
**
24056354 AAACAATTCA
1 AAA-AATTTT
*
24056364 AAAAATTAT
1 AAAAATTTT
*
24056373 -AAAATATT
1 AAAAATTTT
*
24056381 AAGAAATTCT
1 AA-AAATTTT
*
24056391 ACAAAATTCT
1 A-AAAATTTT
24056401 AAAAATTTTCT
1 AAAAA-TTT-T
* *
24056412 AAACATTCTA
1 AAAAATT-TT
24056422 AAATAATTTTT
1 AAA-AA-TTTT
24056433 AAAAATTTTTT
1 AAAAA--TTTT
* *
24056444 GAAAA-TTC
1 AAAAATTTT
24056452 AAAAATTTT
1 AAAAATTTT
24056461 AAAAACTTTT
1 AAAAA-TTTT
*
24056471 AAAAATTAT
1 AAAAATTTT
*
24056480 GAAAATTTT
1 AAAAATTTT
*
24056489 AAAAGACTTT
1 AAAA-ATTTT
24056499 AACAAATTTT
1 AA-AAATTTT
* *
24056509 CAAAATTAT
1 AAAAATTTT
*
24056518 AAAAATTCTA
1 AAAAATT-TT
*
24056528 AAATAATTTCA
1 AAA-AATTT-T
24056539 AAAAATTTT
1 AAAAATTTT
*
24056548 AAGAAAATTT
1 AA-AAATTTT
*
24056558 AAAAATATT
1 AAAAATTTT
24056567 AAAATATTTT
1 AAAA-ATTTT
*
24056577 GAAAAAATTTAA
1 --AAAAATTT-T
*
24056589 AAAAATTAT
1 AAAAATTTT
*
24056598 AAAATCTTTT
1 AAAA-ATTTT
24056608 AAAAATTTTT
1 AAAAA-TTTT
* *
24056618 AAAAAGTTC
1 AAAAATTTT
24056627 AAAAA-TTT
1 AAAAATTTT
*
24056635 AAAAATTTA
1 AAAAATTTT
* *
24056644 AAAAAATCT
1 AAAAATTTT
*
24056653 AAAAGCTTTT
1 AAAA-ATTTT
*
24056663 AAAAATTTC
1 AAAAATTTT
24056672 AAAAA
1 AAAAA
24056677 GAATTAAGGA
Statistics
Matches: 265, Mismatches: 59, Indels: 56
0.70 0.16 0.15
Matches are distributed among these distances:
8 19 0.07
9 101 0.38
10 99 0.37
11 40 0.15
12 6 0.02
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (9 bp):
AAAAATTTT
Found at i:24056317 original size:10 final size:10
Alignment explanation
Indices: 24056304--24056676 Score: 136
Period size: 10 Copynumber: 38.4 Consensus size: 10
24056294 TCAAAAATCT
24056304 AAAAATTTTAAA
1 AAAAATTTT--A
24056316 AAAAATTTTA
1 AAAAATTTTA
*
24056326 AAAAA-TCTA
1 AAAAATTTTA
** *
24056335 AAATTTTTTT
1 AAAAATTTTA
* *
24056345 ATAATTTTTA
1 AAAAATTTTA
* *
24056355 AACAA-TTCA
1 AAAAATTTTA
24056364 AAAAA--TTA
1 AAAAATTTTA
* *
24056372 TAAAATATTA
1 AAAAATTTTA
* *
24056382 AGAAATTCTA
1 AAAAATTTTA
* *
24056392 CAAAATTCT-
1 AAAAATTTTA
*
24056401 AAAAATTTTCT
1 AAAAATTTT-A
* *
24056412 AAACATTCTA
1 AAAAATTTTA
24056422 AAATAATTTTTA
1 AAA-AA-TTTTA
* *
24056434 AAAATTTTTT
1 AAAAATTTTA
* *
24056444 GAAAA--TTC
1 AAAAATTTTA
24056452 AAAAATTTTA
1 AAAAATTTTA
*
24056462 AAAACTTTT-
1 AAAAATTTTA
*
24056471 AAAAATTAT-
1 AAAAATTTTA
*
24056480 GAAAATTTTA
1 AAAAATTTTA
* *
24056490 AAAGACTTTA
1 AAAAATTTTA
*
24056500 ACAAATTTT-
1 AAAAATTTTA
* *
24056509 CAAAATTAT-
1 AAAAATTTTA
*
24056518 AAAAATTCTA
1 AAAAATTTTA
*
24056528 AAATAATTTCA
1 AAA-AATTTTA
24056539 AAAAATTTTA
1 AAAAATTTTA
24056549 AGAAAA-TTT-
1 A-AAAATTTTA
*
24056558 AAAAATATTA
1 AAAAATTTTA
*
24056568 AAATATTTTGA
1 AAAAATTTT-A
*
24056579 AAAAATTTAA
1 AAAAATTTTA
*
24056589 AAAAATTATA
1 AAAAATTTTA
**
24056599 AAATCTTTT-
1 AAAAATTTTA
*
24056608 AAAAATTTTT
1 AAAAATTTTA
* *
24056618 AAAAA-GTTC
1 AAAAATTTTA
24056627 AAAAA-TTT-
1 AAAAATTTTA
24056635 AAAAA-TTTA
1 AAAAATTTTA
* *
24056644 AAAAAATCTA
1 AAAAATTTTA
**
24056654 AAAGCTTTT-
1 AAAAATTTTA
*
24056663 AAAAATTTCA
1 AAAAATTTTA
24056673 AAAA
1 AAAA
24056677 GAATTAAGGA
Statistics
Matches: 264, Mismatches: 77, Indels: 42
0.69 0.20 0.11
Matches are distributed among these distances:
8 24 0.09
9 77 0.29
10 118 0.45
11 29 0.11
12 16 0.06
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (10 bp):
AAAAATTTTA
Found at i:24056328 original size:11 final size:12
Alignment explanation
Indices: 24056304--24056330 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24056294 TCAAAAATCT
24056304 AAAAATTTTAAA
1 AAAAATTTTAAA
24056316 AAAAATTTTAAA
1 AAAAATTTTAAA
24056328 AAA
1 AAA
24056331 TCTAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAAATTTTAAA
Found at i:24056370 original size:20 final size:19
Alignment explanation
Indices: 24056347--24056439 Score: 66
Period size: 19 Copynumber: 4.7 Consensus size: 19
24056337 ATTTTTTTAT
24056347 AATTTTTAAACAATTCAAAA
1 AATTTTTAAA-AATTCAAAA
* *
24056367 AA-TTATAAAATATT-AAGA
1 AATTTTTAAAA-ATTCAAAA
* *
24056385 AA-TTCTACAAAATTCTAAA
1 AATTTTTA-AAAATTCAAAA
*
24056404 AATTTTCTAAACATTCTAAAA
1 AATTTT-TAAAAATTC-AAAA
24056425 TAATTTTTAAAAATT
1 -AATTTTTAAAAATT
24056440 TTTTGAAAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 13
0.72 0.11 0.16
Matches are distributed among these distances:
18 13 0.23
19 16 0.28
20 10 0.18
21 12 0.21
22 6 0.11
ACGTcount: A:0.53, C:0.09, G:0.01, T:0.38
Consensus pattern (19 bp):
AATTTTTAAAAATTCAAAA
Found at i:24056484 original size:29 final size:27
Alignment explanation
Indices: 24056316--24056676 Score: 161
Period size: 29 Copynumber: 12.5 Consensus size: 27
24056306 AAATTTTAAA
* * *
24056316 AAAAATTTTAAAAAATCTAAAATTTTTTT
1 AAAAATTTTAAAAATTTTAAAA--ATTTT
* * ** *
24056345 ATAATTTTTAAACAATTCAAAAAATTAT
1 AAAAATTTTAAA-AATTTTAAAAATTTT
* * *
24056373 -AAAATATTAAGAAATTCTACAAAATTCT
1 AAAAATTTTAA-AAATTTTA-AAAATTTT
* *
24056401 AAAAATTTTCTAAACATTCTAAAATAATTTTT
1 AAAAA-TTT-TAAAAATT-TTAAA-AA-TTTT
* *
24056433 AAAAATTTTTTGAAAA-TTCAAAAATTTT
1 AAAAA--TTTTAAAAATTTTAAAAATTTT
* *
24056461 AAAAACTTTTAAAAATTATGAAAATTTT
1 AAAAA-TTTTAAAAATTTTAAAAATTTT
* * *
24056489 AAAAGACTTTAACAAATTTTCAAAATTAT
1 AAAA-ATTTTAA-AAATTTTAAAAATTTT
* *
24056518 AAAAATTCTAAAATAATTTCAAAAAATTTT
1 AAAAATT-TTAAA-AATTT-TAAAAATTTT
* *
24056548 AAGAAAATTTAAAAATATTAAAATATTTT
1 AA-AAATTTTAAAAATTTTAAAA-ATTTT
* * *
24056577 GAAAAAATTTAAAAAAATTATAAAATCTTTT
1 --AAAAATTT-TAAAAATTTTAAAA-ATTTT
* *
24056608 AAAAATTTTTAAAAAGTTCAAAAA-TTT
1 AAAAA-TTTTAAAAATTTTAAAAATTTT
* * * *
24056635 AAAAATTTAAAAAAATCTAAAAGCTTTT
1 AAAAATTTTAAAAATTTTAAAA-ATTTT
*
24056663 AAAAATTTCAAAAA
1 AAAAATTTTAAAAA
24056677 GAATTAAGGA
Statistics
Matches: 255, Mismatches: 53, Indels: 49
0.71 0.15 0.14
Matches are distributed among these distances:
26 13 0.05
27 29 0.11
28 61 0.24
29 66 0.26
30 41 0.16
31 29 0.11
32 12 0.05
33 4 0.02
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (27 bp):
AAAAATTTTAAAAATTTTAAAAATTTT
Found at i:24056544 original size:21 final size:19
Alignment explanation
Indices: 24056445--24056656 Score: 82
Period size: 19 Copynumber: 11.1 Consensus size: 19
24056435 AAATTTTTTG
* *
24056445 AAAATTCAAAA-ATTTTAA
1 AAAATTTAAAATAATTTAA
* * *
24056463 AAACTTTTAAA-AATTATGA
1 AAAATTTAAAATAATT-TAA
* * *
24056482 AAATTTTAAAAGACTTTAA
1 AAAATTTAAAATAATTTAA
* **
24056501 CAAATTTTCAA-AA-TTATA
1 AAAATTTAAAATAATTTA-A
24056519 AAAATTCTAAAATAATTTCAA
1 AAAATT-TAAAATAATTT-AA
24056540 AAAATTTTAAGAA-AATTT-A
1 AAAA-TTTAA-AATAATTTAA
*
24056559 AAAATATTAAAATATTTTGAA
1 AAAAT-TTAAAATAATTT-AA
*
24056580 AAAATTTAAAAAAATTATAA
1 AAAATTTAAAATAATT-TAA
** * *
24056600 AATCTTTTAAAA-ATTTTTA
1 AA-AATTTAAAATAATTTAA
* *
24056619 AAAAGTTCAAA-AATTT-A
1 AAAATTTAAAATAATTTAA
* *
24056636 AAAATTTAAAAAAATCTAA
1 AAAATTTAAAATAATTTAA
24056655 AA
1 AA
24056657 GCTTTTAAAA
Statistics
Matches: 145, Mismatches: 32, Indels: 33
0.69 0.15 0.16
Matches are distributed among these distances:
17 13 0.09
18 34 0.23
19 43 0.30
20 21 0.14
21 29 0.20
22 5 0.03
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAATTTAAAATAATTTAA
Found at i:24059399 original size:30 final size:30
Alignment explanation
Indices: 24059341--24059399 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
24059331 ATCCCAATCA
* * *
24059341 AATATAAGCCTGATGGATCAGCAGTTGCAT
1 AATATAAACCTCATGGATCAGCAATTGCAT
**
24059371 AATATAAACCTCATGGATTGGCAATTGCA
1 AATATAAACCTCATGGATCAGCAATTGCA
24059400 ACACCAATCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (30 bp):
AATATAAACCTCATGGATCAGCAATTGCAT
Found at i:24059469 original size:39 final size:39
Alignment explanation
Indices: 24059426--24059622 Score: 263
Period size: 39 Copynumber: 5.1 Consensus size: 39
24059416 AATCTGATGG
24059426 ATCAGCAGTTGCAGCC-CGAATTGAATACCTTTGGGGATA
1 ATCAGCAGTTGCAGCCTC-AATTGAATACCTTTGGGGATA
*
24059465 ATCAGCAGTTGCAGCCCCAATTGAATACCTTTGGGGATA
1 ATCAGCAGTTGCAGCCTCAATTGAATACCTTTGGGGATA
* * *
24059504 ATCAGCAGTTGCAGCCTCAACTGAATGCCTATGGGGA-A
1 ATCAGCAGTTGCAGCCTCAATTGAATACCTTTGGGGATA
* * * *
24059542 ACTGAGCAGTTGCAGCCTCAATTGAATATCATTGGTGATA
1 A-TCAGCAGTTGCAGCCTCAATTGAATACCTTTGGGGATA
* * *
24059582 CTCAGCAGTTGCAGCCTCAATTGAATGCCTTCGGGGATA
1 ATCAGCAGTTGCAGCCTCAATTGAATACCTTTGGGGATA
24059621 AT
1 AT
24059623 ATGTTAAATC
Statistics
Matches: 136, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
38 2 0.01
39 132 0.97
40 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (39 bp):
ATCAGCAGTTGCAGCCTCAATTGAATACCTTTGGGGATA
Found at i:24061095 original size:34 final size:35
Alignment explanation
Indices: 24061054--24061130 Score: 104
Period size: 34 Copynumber: 2.2 Consensus size: 35
24061044 TTTGCAATTT
24061054 TTTAAAATTAGGTACATTGTTAT-TCATT-AAAGAA
1 TTTAAAATTAGGTACATTGTTATAT-ATTGAAAGAA
* * *
24061088 TTTAAAATTAGTTATATTGTTATATATTGAAATAA
1 TTTAAAATTAGGTACATTGTTATATATTGAAAGAA
24061123 TTTAAAAT
1 TTTAAAAT
24061131 ATATTGGCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 24 0.63
35 14 0.37
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (35 bp):
TTTAAAATTAGGTACATTGTTATATATTGAAAGAA
Found at i:24061302 original size:36 final size:37
Alignment explanation
Indices: 24061209--24061302 Score: 93
Period size: 36 Copynumber: 2.6 Consensus size: 37
24061199 ATGCATCATT
* *
24061209 TTTTTATTTTTAGATTTTTTTAAATGCTTTTTAAAAC
1 TTTTTATTTTTAAATTTTTTTTAATGCTTTTTAAAAC
* ** * **
24061246 TTTTGATTTTTAAA-CATTTTTATTGCTTTTT-TTAC
1 TTTTTATTTTTAAATTTTTTTTAATGCTTTTTAAAAC
*
24061281 TTTTTCTTTTTAAATTTTTTTT
1 TTTTTATTTTTAAATTTTTTTT
24061303 GATTTTTTAT
Statistics
Matches: 44, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
35 14 0.32
36 18 0.41
37 12 0.27
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.68
Consensus pattern (37 bp):
TTTTTATTTTTAAATTTTTTTTAATGCTTTTTAAAAC
Found at i:24061412 original size:18 final size:18
Alignment explanation
Indices: 24061391--24061431 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
24061381 TCTCTTTTTG
24061391 TTTTTTAAAGTAATAAAT
1 TTTTTTAAAGTAATAAAT
* **
24061409 TTTTTTAAGGTTTTAAAT
1 TTTTTTAAAGTAATAAAT
24061427 TTTTT
1 TTTTT
24061432 GTGTGGTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (18 bp):
TTTTTTAAAGTAATAAAT
Found at i:24061745 original size:26 final size:27
Alignment explanation
Indices: 24061706--24061765 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
24061696 ATTTTTTTTG
* * *
24061706 TTATTTTTCCTTTTA-ATTTGATATTTA
1 TTATATTTCATTTTATATTT-ATATATA
24061733 TT-TATTTCATTTTATATTTATATATA
1 TTATATTTCATTTTATATTTATATATA
24061759 TTATATT
1 TTATATT
24061766 AATAAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.67
Consensus pattern (27 bp):
TTATATTTCATTTTATATTTATATATA
Found at i:24061805 original size:28 final size:30
Alignment explanation
Indices: 24061747--24061807 Score: 83
Period size: 28 Copynumber: 2.1 Consensus size: 30
24061737 TTTCATTTTA
*
24061747 TATTTATATATATTATATTAATAAAATTAT
1 TATTTATATATATTATATTAATAAAAATAT
24061777 TATTT-TATAT-TTA-ATTTAATAAAAATAT
1 TATTTATATATATTATA-TTAATAAAAATAT
24061805 TAT
1 TAT
24061808 AATTATACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 1 0.03
28 18 0.62
29 5 0.17
30 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
TATTTATATATATTATATTAATAAAAATAT
Found at i:24061820 original size:29 final size:28
Alignment explanation
Indices: 24061764--24061821 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
24061754 ATATATTATA
* * **
24061764 TTAATAAAATTATTATTTTATATTTAAT
1 TTAATAAAAATATTATATTATACATAAT
24061792 TTAATAAAAATATTATAATTATACATAAT
1 TTAATAAAAATATTAT-ATTATACATAAT
24061821 T
1 T
24061822 AAGATGTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (28 bp):
TTAATAAAAATATTATATTATACATAAT
Found at i:24061965 original size:15 final size:15
Alignment explanation
Indices: 24061937--24061967 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24061927 TCCTTTTTAA
*
24061937 AATTTTTTATTTTTT
1 AATTTTTAATTTTTT
24061952 AATTTTTAATTTTTT
1 AATTTTTAATTTTTT
24061967 A
1 A
24061968 CTTAATAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
AATTTTTAATTTTTT
Found at i:24065718 original size:25 final size:25
Alignment explanation
Indices: 24065674--24065733 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
24065664 AAATAAATTA
* *
24065674 GAAAATCA-AGCTGCATTAATATAG
1 GAAAATCAGATCTGCACTAATATAG
*
24065698 GAAAATCAGATCTGCACTAATGTAG
1 GAAAATCAGATCTGCACTAATATAG
* *
24065723 GAGAATTAGAT
1 GAAAATCAGAT
24065734 TTTTACACTC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 8 0.27
25 22 0.73
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.25
Consensus pattern (25 bp):
GAAAATCAGATCTGCACTAATATAG
Found at i:24070214 original size:25 final size:25
Alignment explanation
Indices: 24070185--24070232 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
24070175 ATCAAGCTAT
24070185 ACTAATGTAAGAGAATCAGATTTGC
1 ACTAATGTAAGAGAATCAGATTTGC
*
24070210 ACTAATGTAGGAGAATCAGATTT
1 ACTAATGTAAGAGAATCAGATTT
24070233 CTACAAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (25 bp):
ACTAATGTAAGAGAATCAGATTTGC
Found at i:24078358 original size:174 final size:174
Alignment explanation
Indices: 24078068--24078417 Score: 691
Period size: 174 Copynumber: 2.0 Consensus size: 174
24078058 TAAATTTATT
24078068 AAATAACTTAATCTTTTTGATACACTAATTGATATAAATTTTTTTATCACAAGTAACTTTCAATA
1 AAATAACTTAATCTTTTTGATACACTAATTGATATAAATTTTTTTATCACAAGTAACTTTCAATA
*
24078133 ATTATATAATAAATACAATCTTCAATAATTACACAAAAATAATAAGAATAAATCTAATATCAAAA
66 ATTATATAATAAATACAATCTTCAATAATTACACAAAAATAATAAGAATAAATCTAATATAAAAA
24078198 GAATTGACAAAAATATAAAATATCAAAACAACAAAAAAAATTAA
131 GAATTGACAAAAATATAAAATATCAAAACAACAAAAAAAATTAA
24078242 AAATAACTTAATCTTTTTGATACACTAATTGATATAAATTTTTTTATCACAAGTAACTTTCAATA
1 AAATAACTTAATCTTTTTGATACACTAATTGATATAAATTTTTTTATCACAAGTAACTTTCAATA
24078307 ATTATATAATAAATACAATCTTCAATAATTACACAAAAATAATAAGAATAAATCTAATATAAAAA
66 ATTATATAATAAATACAATCTTCAATAATTACACAAAAATAATAAGAATAAATCTAATATAAAAA
24078372 GAATTGACAAAAATATAAAATATCAAAACAACAAAAAAAATTAA
131 GAATTGACAAAAATATAAAATATCAAAACAACAAAAAAAATTAA
24078416 AA
1 AA
24078418 TTCAGATACA
Statistics
Matches: 175, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 175 1.00
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (174 bp):
AAATAACTTAATCTTTTTGATACACTAATTGATATAAATTTTTTTATCACAAGTAACTTTCAATA
ATTATATAATAAATACAATCTTCAATAATTACACAAAAATAATAAGAATAAATCTAATATAAAAA
GAATTGACAAAAATATAAAATATCAAAACAACAAAAAAAATTAA
Found at i:24082919 original size:23 final size:25
Alignment explanation
Indices: 24082893--24082963 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
24082883 CAAAATAAAT
*
24082893 TAGGA-AATCA-AGCTGCACTAATG
1 TAGGAGAATCAGAGCTACACTAATG
* *
24082916 TAGGAGAATCAGATCTACGCTAATG
1 TAGGAGAATCAGAGCTACACTAATG
*
24082941 TAGGAGAGTCAGAGTTCTACACT
1 TAGGAGAATCAGAG--CTACACT
24082964 CCCCCTCAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
23 5 0.13
24 5 0.13
25 22 0.58
27 6 0.16
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (25 bp):
TAGGAGAATCAGAGCTACACTAATG
Found at i:24085645 original size:203 final size:201
Alignment explanation
Indices: 24085248--24086031 Score: 700
Period size: 203 Copynumber: 3.8 Consensus size: 201
24085238 AACATTACAT
* * * * * ** *
24085248 TAATTATGTCA-TCAATACTGTAACGATTTACTTTTCATCACTAATATA-TCAAATTTATCATTT
1 TAATTGTGTCACT-AATATTGTGACGATTTACCTTTCGTCACTAATATATTTGATTTTATCATTT
** * * * ** *
24085311 ATTTTGCAACGATTATAGCCTTTAATGACATT-TT-TTCATAAATAGTTAATGAAAACTAACGTC
65 ATTTTGTGACAATTATAGCCTTTAATGAC-TTCTTCTTTATAAATAGTTGACAAAAACTAATGTC
* **
24085374 ACAAAAAATAAAGCATAAAGCATAATGTGCCATTTGATTTTATTGTCACATTTGATGTTATCTTA
129 ACAAAAAA-AAAGCAT-AAG----A--TGACATTTGATTTTATTGTCACATTTGACATTATCTTA
*
24085439 TAATCATTTGTGACGA
186 TAATCATTCGTGACGA
* * * * * * *
24085455 TAATTGTGTTACTAATACTATGATGATTTACCTTTTGTCATTAATATATATGATTTTATCATTTT
1 TAATTGTGTCACTAATATTGTGACGATTTACCTTTCGTCACTAATATATTTGATTTTATCA-TTT
* * *
24085520 ATTTTGTGACGATTATAACCTTCAATGACATTCTTCTTTATAAATAGTTGACAAAAACTAATGTC
65 ATTTTGTGACAATTATAGCCTTTAATGAC-TTCTTCTTTATAAATAGTTGACAAAAACTAATGTC
* ** * ** *
24085585 ATAAAAAAAAAGGGTAAGGTGATGTTTGATTTTATTGTCACATTTGACATTATTTTATAATCATT
129 ACAAAAAAAAAGCATAAGATGACATTTGATTTTATTGTCACATTTGACATTATCTTATAATCATT
*
24085650 CATGACGA
194 CGTGACGA
* * *
24085658 TAATTGTATCACTAATATTGTGACGATTTATCTTTCATCACTAATATATTTGATTTTATCATTTA
1 TAATTGTGTCACTAATATTGTGACGATTTACCTTTCGTCACTAATATATTTGATTTTATCATTTA
* * * * * ** **
24085723 TTTTGTGACAATTACAGCCTTTAATGAGGTTGC-TGTTTATAACTAGCTGATTAAAACTAACATC
66 TTTTGTGACAATTATAGCCTTTAATGA-CTT-CTTCTTTATAAATAGTTGACAAAAACTAATGTC
* *** * *
24085787 ACAAAAATTAAAGCATAAGATGACATTTGATTTTATTGTCATGGTAGACATTATCTTACAATCAT
129 ACAAAAA-AAAAGCATAAGATGACATTTGATTTTATTGTCACATTTGACATTATCTTATAATCAT
* *
24085852 TGGTGACAA
193 TCGTGACGA
* * *
24085861 TAATTTTGTCACTAATATTGTGACGATTTACCTTTCGTCACTAATAT-TTTAAATTTTCTCATTT
1 TAATTGTGTCACTAATATTGTGACGATTTACCTTTCGTCACTAATATATTT-GATTTTATCATTT
* * * * * *
24085925 -TTTTGTGACAACTATAGCTTTTAATGACTTTTTTTTTCATAAATAGTTGACGAAAACTAGTGTC
65 ATTTTGTGACAATTATAGCCTTTAATGACTTCTTCTTT-ATAAATAGTTGACAAAAACTAATGTC
* * * *
24085989 ACAAAAAATAAAAAACATAAGTTAACATTTTATTTTATTGTCA
129 AC--AAAA-AAAAAGCATAAGATGACATTTGATTTTATTGTCA
24086032 TGGTAAATTC
Statistics
Matches: 467, Mismatches: 96, Indels: 31
0.79 0.16 0.05
Matches are distributed among these distances:
201 6 0.01
202 107 0.23
203 203 0.43
204 32 0.07
205 1 0.00
207 37 0.08
208 9 0.02
209 34 0.07
210 7 0.01
211 31 0.07
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (201 bp):
TAATTGTGTCACTAATATTGTGACGATTTACCTTTCGTCACTAATATATTTGATTTTATCATTTA
TTTTGTGACAATTATAGCCTTTAATGACTTCTTCTTTATAAATAGTTGACAAAAACTAATGTCAC
AAAAAAAAAGCATAAGATGACATTTGATTTTATTGTCACATTTGACATTATCTTATAATCATTCG
TGACGA
Found at i:24085852 original size:406 final size:404
Alignment explanation
Indices: 24085261--24085996 Score: 883
Period size: 406 Copynumber: 1.8 Consensus size: 404
24085251 TTATGTCATC
*
24085261 AATACTGTAACGATTTACTTTTCATCACTAATATATCAAATTTATCATTTATTTTGCAACGATTA
1 AATACTGTAACGATTTACTTTTCATCACTAATATATCAAATTTATCATTTATTTTGCAACAATTA
* * *
24085326 TAGCCTTTAATGACATTTTTTCATAAATAGTTAATGAAAACTAACGTCACAAAAAATAAAGCATA
66 CAGCCTTTAATGACATTTTTTCATAAATAGCTAATGAAAACTAACATCACAAAAAATAAAGCATA
* * * ** * * *
24085391 AAGCATAATGTGCCATTTGATTTTATTGTCACATTTGATGTTATCTTATAATCATTTGTGACGAT
131 AAG---AA-GTGACATTTGATTTTATTGTCACAGTAGACATTATCTTACAATCATTGGTGACAAT
* * * * *
24085456 AATTGTGTTACTAATACTATGATGATTTACCTTTTGTCATTAATA-TATATGATTTTATCATTTT
192 AATTGTGTCACTAATACTATGACGATTTACCTTTCGTCACTAATATTATA-AATTTTATCA-TTT
* *
24085520 ATTTTGTGACGATTATAACCTTCAATGACATTCTTCTTT-ATAAATAGTTGACAAAAACTAATGT
255 -TTTTGTGACAACTATAACCTTCAATGAC-TTCTTCTTTCATAAATAGTTGACAAAAACTAATGT
*
24085584 CATAAAAAAAAAGGGTAAGGTGATGTTTGATTTTATTGTCACATTTGACATTATTTTATAATCAT
318 CACAAAAAAAAAGGGTAAGGTGATGTTTGATTTTATTGTCACATTTGACATTATTTTATAATCAT
24085649 TCATGACGATAATTGTATCACT
383 TCATGACGATAATTGTATCACT
* * ** * **
24085671 AATATTGTGACGATTTA-TCTTTCATCACTAATATATTTGATTTTATCATTTATTTTGTGACAAT
1 AATACTGTAACGATTTACT-TTTCATCACTAATATA-TCAAATTTATCATTTATTTTGCAACAAT
** * * * *
24085735 TACAGCCTTTAATGAGGTTGCTGTTT-ATAACTAGCTGATTAAAACTAACATCACAAAAATTAAA
64 TACAGCCTTTAATGACATT--T-TTTCATAAATAGCTAATGAAAACTAACATCACAAAAAATAAA
**
24085799 GCAT-AAG-A-TGACATTTGATTTTATTGTCATGGTAGACATTATCTTACAATCATTGGTGACAA
126 GCATAAAGAAGTGACATTTGATTTTATTGTCACAGTAGACATTATCTTACAATCATTGGTGACAA
* * * * *
24085861 TAATTTTGTCACTAATATTGTGACGATTTACCTTTCGTCACTAATATTTTAAATTTTCTCATTTT
191 TAATTGTGTCACTAATACTATGACGATTTACCTTTCGTCACTAATATTATAAATTTTATCATTTT
* * * * * * *
24085926 TTTGTGACAACTATAGCTTTTAATGACTTTTTTTTTCATAAATAGTTGACGAAAACTAGTGTCAC
256 TTTGTGACAACTATAACCTTCAATGACTTCTTCTTTCATAAATAGTTGACAAAAACTAATGTCAC
24085991 AAAAAA
321 AAAAAA
24085997 TAAAAAACAT
Statistics
Matches: 272, Mismatches: 47, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
403 7 0.03
404 54 0.20
405 3 0.01
406 91 0.33
407 3 0.01
408 1 0.00
409 1 0.00
410 31 0.11
411 38 0.14
412 3 0.01
413 37 0.14
414 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (404 bp):
AATACTGTAACGATTTACTTTTCATCACTAATATATCAAATTTATCATTTATTTTGCAACAATTA
CAGCCTTTAATGACATTTTTTCATAAATAGCTAATGAAAACTAACATCACAAAAAATAAAGCATA
AAGAAGTGACATTTGATTTTATTGTCACAGTAGACATTATCTTACAATCATTGGTGACAATAATT
GTGTCACTAATACTATGACGATTTACCTTTCGTCACTAATATTATAAATTTTATCATTTTTTTGT
GACAACTATAACCTTCAATGACTTCTTCTTTCATAAATAGTTGACAAAAACTAATGTCACAAAAA
AAAAGGGTAAGGTGATGTTTGATTTTATTGTCACATTTGACATTATTTTATAATCATTCATGACG
ATAATTGTATCACT
Found at i:24086086 original size:19 final size:19
Alignment explanation
Indices: 24086062--24086102 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
24086052 ATGATATTTG
24086062 TTATCGTCATATTAGACCT
1 TTATCGTCATATTAGACCT
*
24086081 TTATCGTTATATTAGACCT
1 TTATCGTCATATTAGACCT
24086100 TTA
1 TTA
24086103 GCGACGGTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (19 bp):
TTATCGTCATATTAGACCT
Found at i:24087556 original size:8 final size:8
Alignment explanation
Indices: 24087543--24087568 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
24087533 GAGTAATATT
24087543 TAATCACA
1 TAATCACA
24087551 TAATCACA
1 TAATCACA
24087559 TAATCACA
1 TAATCACA
24087567 TA
1 TA
24087569 TACGAGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (8 bp):
TAATCACA
Found at i:24092159 original size:22 final size:21
Alignment explanation
Indices: 24092112--24092173 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
24092102 AAAACTACGC
*
24092112 AAAAAT-ATCATGCAATAAATA
1 AAAAATAAACATGCAA-AAATA
* *
24092133 TAAAAA-CACCATGCAAAATATA
1 -AAAAATAAACATGCAAAA-ATA
24092155 AAAAATAAACATGCAAAAA
1 AAAAATAAACATGCAAAAA
24092174 ATTATCTTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 8 0.24
22 26 0.76
ACGTcount: A:0.65, C:0.13, G:0.05, T:0.18
Consensus pattern (21 bp):
AAAAATAAACATGCAAAAATA
Found at i:24092318 original size:20 final size:19
Alignment explanation
Indices: 24092241--24092409 Score: 127
Period size: 20 Copynumber: 8.8 Consensus size: 19
24092231 GCAAAAATAC
24092241 CATGCAAATAT-TTAATAAGT
1 CATGCAAATATATT-ATAA-T
* *
24092261 TATGCAAATA-A-CA-AAT
1 CATGCAAATATATTATAAT
*
24092277 CATGCAAATA-ATAATGAAT
1 CATGCAAATATATTAT-AAT
*
24092296 CATGCAAATATATTATGAGT
1 CATGCAAATATATTAT-AAT
*
24092316 CATGCAAATA-ATAAATAAT
1 CATGCAAATATAT-TATAAT
* *
24092335 TATGCAAATATATTATTATT
1 CATGCAAATATATTA-TAAT
*
24092355 CATGCAAATA-ATAAATAAT
1 CATGCAAATATAT-TATAAT
*
24092374 CATGCAAATATATTATTAGT
1 CATGCAAATATATTA-TAAT
*
24092394 CATGCATATATATTAT
1 CATGCAAATATATTAT
24092410 TAATAATAAA
Statistics
Matches: 121, Mismatches: 17, Indels: 23
0.75 0.11 0.14
Matches are distributed among these distances:
16 11 0.09
17 3 0.02
18 1 0.01
19 44 0.36
20 62 0.51
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.34
Consensus pattern (19 bp):
CATGCAAATATATTATAAT
Found at i:24092323 original size:39 final size:39
Alignment explanation
Indices: 24092276--24092399 Score: 205
Period size: 39 Copynumber: 3.2 Consensus size: 39
24092266 AAATAACAAA
*
24092276 TCATGCAAATAAT-AATGAATCATGCAAATATATTATGAG
1 TCATGCAAATAATAAAT-AATCATGCAAATATATTATTAG
* *
24092315 TCATGCAAATAATAAATAATTATGCAAATATATTATTAT
1 TCATGCAAATAATAAATAATCATGCAAATATATTATTAG
24092354 TCATGCAAATAATAAATAATCATGCAAATATATTATTAG
1 TCATGCAAATAATAAATAATCATGCAAATATATTATTAG
24092393 TCATGCA
1 TCATGCA
24092400 TATATATTAT
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 76 0.96
40 3 0.04
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (39 bp):
TCATGCAAATAATAAATAATCATGCAAATATATTATTAG
Found at i:24092410 original size:20 final size:20
Alignment explanation
Indices: 24092274--24092413 Score: 151
Period size: 20 Copynumber: 7.2 Consensus size: 20
24092264 GCAAATAACA
* *
24092274 AATCATGCAAATA-ATAATG
1 AATCATGCAAATATATTATT
*
24092293 AATCATGCAAATATATTATG
1 AATCATGCAAATATATTATT
* * *
24092313 AGTCATGCAAATA-ATAAAT
1 AATCATGCAAATATATTATT
*
24092332 AATTATGCAAATATATTATT
1 AATCATGCAAATATATTATT
* * *
24092352 ATTCATGCAAATA-ATAAAT
1 AATCATGCAAATATATTATT
24092371 AATCATGCAAATATATTATT
1 AATCATGCAAATATATTATT
* *
24092391 AGTCATGCATATATATTATT
1 AATCATGCAAATATATTATT
24092411 AAT
1 AAT
24092414 AATAAATAAT
Statistics
Matches: 99, Mismatches: 19, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
19 43 0.43
20 56 0.57
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (20 bp):
AATCATGCAAATATATTATT
Found at i:24092446 original size:78 final size:77
Alignment explanation
Indices: 24092276--24092452 Score: 218
Period size: 78 Copynumber: 2.3 Consensus size: 77
24092266 AAATAACAAA
*
24092276 TCATGCAAATAAT-AATGAATCATGCAAATATATTATGAGTCATGCAAATAATAAATAATTATGC
1 TCATGCAAATAATAAAT-AATCATGCAAATATATTATGAGTCATGCAAATAATAAATAATAAT-C
*
24092340 AAATATATTATTAT
64 AAATATATAATTAT
* * * *
24092354 TCATGCAAATAATAAATAATCATGCAAATATATTATTAGTCATGCATATATATTATTAATAAT-A
1 TCATGCAAATAATAAATAATCATGCAAATATATTATGAGTCATGCAAATA-ATAAATAATAATCA
*
24092418 AATAATCATAATTGT
65 AAT-AT-ATAATTAT
24092433 TCATGCAAA-AATAAA-AATCA
1 TCATGCAAATAATAAATAATCA
24092453 AACAGAAAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
77 9 0.10
78 52 0.59
79 27 0.31
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (77 bp):
TCATGCAAATAATAAATAATCATGCAAATATATTATGAGTCATGCAAATAATAAATAATAATCAA
ATATATAATTAT
Found at i:24092578 original size:20 final size:20
Alignment explanation
Indices: 24092536--24092606 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
24092526 ATTAAACAAG
*
24092536 AAAATAAGAAAAAATAAA-TA
1 AAAATAA-AAAACATAAAGTA
* *
24092556 AAAA-ATAAAGCATAAAGTA
1 AAAATAAAAAACATAAAGTA
24092575 AAAATAAAAAACATAAAGATCA
1 AAAATAAAAAACATAAAG-T-A
24092597 AAAATCAAAA
1 AAAAT-AAAA
24092607 TGGAAAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
18 8 0.20
19 7 0.17
20 15 0.37
21 1 0.02
22 6 0.15
23 4 0.10
ACGTcount: A:0.75, C:0.06, G:0.06, T:0.14
Consensus pattern (20 bp):
AAAATAAAAAACATAAAGTA
Found at i:24093749 original size:6 final size:6
Alignment explanation
Indices: 24093734--24093854 Score: 65
Period size: 6 Copynumber: 21.0 Consensus size: 6
24093724 TTTTTTTGAC
* * * *
24093734 TAAAAC TAAAAT T-AAAC CAAAAA TAAAA- TAAAA- T-AAA- TAAAAT
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
* * * * * * *
24093777 CAAAAT CAAAAT TCAAAT CACAA- TAAACAT TAAAAT CAAAAT TCAAAT
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAA-AT TAAAAT TAAAAT TAAAAT
* * *
24093825 CAAAAT TAAAAT TAAAAT CAGAAT TAAAAT
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
24093855 ATTTGGCTTT
Statistics
Matches: 87, Mismatches: 23, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
4 4 0.05
5 14 0.16
6 65 0.75
7 4 0.05
ACGTcount: A:0.65, C:0.11, G:0.01, T:0.23
Consensus pattern (6 bp):
TAAAAT
Found at i:24093773 original size:14 final size:15
Alignment explanation
Indices: 24093754--24093782 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24093744 ATTAAACCAA
24093754 AAATAAAAT-AAAAT
1 AAATAAAATCAAAAT
24093768 AAATAAAATCAAAAT
1 AAATAAAATCAAAAT
24093783 CAAAATTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAAAATCAAAAT
Found at i:24093813 original size:30 final size:29
Alignment explanation
Indices: 24093768--24093854 Score: 120
Period size: 30 Copynumber: 2.9 Consensus size: 29
24093758 AAAATAAAAT
*
24093768 AAATAAAATCAAAATCAAAATTCAAATCA
1 AAATAAAATTAAAATCAAAATTCAAATCA
*
24093797 CAATAAACATTAAAATCAAAATTCAAATCA
1 AAATAAA-ATTAAAATCAAAATTCAAATCA
* *
24093827 AAATTAAAATTAAAATCAGAATTAAAAT
1 AAA-TAAAATTAAAATCAAAATTCAAAT
24093855 ATTTGGCTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
29 6 0.12
30 41 0.80
31 4 0.08
ACGTcount: A:0.63, C:0.11, G:0.01, T:0.24
Consensus pattern (29 bp):
AAATAAAATTAAAATCAAAATTCAAATCA
Found at i:24094190 original size:38 final size:38
Alignment explanation
Indices: 24094104--24094432 Score: 237
Period size: 38 Copynumber: 8.5 Consensus size: 38
24094094 CTAGCTTGAA
* * * * *
24094104 AACTTTTAAAAAATAAAATACTCCTCTAACAAGGCTTC
1 AACTTTTGAAAAATAAAGTACTCCTCCACCGAGGCTTC
** * * *
24094142 GAACTTTTGAAAAATAAAGTACTTGTCCACCAAGACTTT
1 -AACTTTTGAAAAATAAAGTACTCCTCCACCGAGGCTTC
* * * *
24094181 GACTTTTGAAAAAAATAAAGTTCTCCTTCA-CGAGGCTTT
1 AACTTTTG--AAAAATAAAGTACTCCTCCACCGAGGCTTC
* ** ***
24094220 AACTTTTGAAAAATAAAGTATTTTTCCATTTAGGCTTC
1 AACTTTTGAAAAATAAAGTACTCCTCCACCGAGGCTTC
* *
24094258 GAACTTTGGAAAAATAAAAGTGCTCCTCCACCGAGGCTTC
1 -AACTTTTGAAAAAT-AAAGTACTCCTCCACCGAGGCTTC
** ** *
24094298 AAGCTTTAAATAAAATAAAGTACTCCTTAATCGAGGCTTC
1 AA-CTTTTGA-AAAATAAAGTACTCCTCCACCGAGGCTTC
* * * * *
24094338 AACTTTTGAAAAATAAAATACTCCTCTATCAAGACTTC
1 AACTTTTGAAAAATAAAGTACTCCTCCACCGAGGCTTC
* * ** * * *
24094376 GACTTTTGAAAAATAAAGTATTGTTCTACCGAGACTTT
1 AACTTTTGAAAAATAAAGTACTCCTCCACCGAGGCTTC
24094414 AACTTTTGAAAAATAAAGT
1 AACTTTTGAAAAATAAAGT
24094433 GGATATCTAA
Statistics
Matches: 229, Mismatches: 54, Indels: 15
0.77 0.18 0.05
Matches are distributed among these distances:
37 15 0.07
38 85 0.37
39 64 0.28
40 60 0.26
41 5 0.02
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (38 bp):
AACTTTTGAAAAATAAAGTACTCCTCCACCGAGGCTTC
Found at i:24094295 original size:40 final size:40
Alignment explanation
Indices: 24094104--24094392 Score: 213
Period size: 39 Copynumber: 7.4 Consensus size: 40
24094094 CTAGCTTGAA
* * *
24094104 AACTTTTAAAAAATAAAA-TACTCCTCTAACAAGGCTTCG
1 AACTTTTGAAAAATAAAAGTACTCCTCCATCAAGGCTTCG
** * * *
24094143 AACTTTTGAAAAAT-AAAGTACTTGTCCACCAAGACTTTG
1 AACTTTTGAAAAATAAAAGTACTCCTCCATCAAGGCTTCG
* * * * *
24094182 -ACTTTTGAAAAAAATAAAGTTCTCCTTCA-CGAGGCTT-T
1 AACTTTTGAAAAATA-AAAGTACTCCTCCATCAAGGCTTCG
* ** **
24094220 AACTTTTGAAAAAT-AAAGTATTTTTCCATTTAGGCTTCG
1 AACTTTTGAAAAATAAAAGTACTCCTCCATCAAGGCTTCG
* * * *
24094259 AACTTTGGAAAAATAAAAGTGCTCCTCCACCGAGGCTTC-
1 AACTTTTGAAAAATAAAAGTACTCCTCCATCAAGGCTTCG
** ** *
24094298 AAGCTTTAAATAAAAT-AAAGTACTCCTTAATCGAGGCTTC-
1 AA-CTTTTGA-AAAATAAAAGTACTCCTCCATCAAGGCTTCG
* *
24094338 AACTTTTGAAAAATAAAA-TACTCCTCTATCAAGACTTCG
1 AACTTTTGAAAAATAAAAGTACTCCTCCATCAAGGCTTCG
24094377 -ACTTTTGAAAAATAAA
1 AACTTTTGAAAAATAAA
24094393 GTATTGTTCT
Statistics
Matches: 195, Mismatches: 44, Indels: 23
0.74 0.17 0.09
Matches are distributed among these distances:
37 9 0.05
38 58 0.30
39 69 0.35
40 54 0.28
41 5 0.03
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (40 bp):
AACTTTTGAAAAATAAAAGTACTCCTCCATCAAGGCTTCG
Found at i:24094776 original size:23 final size:23
Alignment explanation
Indices: 24094720--24094795 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 23
24094710 CCCTTCTAAC
*
24094720 ATGCATATGAATTCAATGAATGAA
1 ATGCA-ATGAATTCAATGAATGCA
* * * *
24094744 ATACAGTGAATGCAGTGAATGCA
1 ATGCAATGAATTCAATGAATGCA
* *
24094767 ATGCAATGAATTTAATGAATGCC
1 ATGCAATGAATTCAATGAATGCA
24094790 ATGCAA
1 ATGCAA
24094796 AAGGTTTAAG
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
23 37 0.90
24 4 0.10
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (23 bp):
ATGCAATGAATTCAATGAATGCA
Found at i:24094859 original size:35 final size:36
Alignment explanation
Indices: 24094820--24094893 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 36
24094810 GCAAAGATTC
*
24094820 AAAAA-TCGCAAGATTCGCAAAGGT-TCAAAATTCAT
1 AAAAATTC-CAAGATTCGCAAAGGTCCCAAAATTCAT
*
24094855 AAAAATTCCAAGATTTGCAAAGGTCCCAAAATTCAT
1 AAAAATTCCAAGATTCGCAAAGGTCCCAAAATTCAT
24094891 AAA
1 AAA
24094894 GGTTCAAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
35 20 0.57
36 15 0.43
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (36 bp):
AAAAATTCCAAGATTCGCAAAGGTCCCAAAATTCAT
Found at i:24094896 original size:53 final size:53
Alignment explanation
Indices: 24094832--24094971 Score: 156
Period size: 53 Copynumber: 2.6 Consensus size: 53
24094822 AAATCGCAAG
* *
24094832 ATTCGCAAAGGTTCAAAATTCATAAAAATTCCAAGATTTGCAAAGGTCCCAAA
1 ATTCACAAAGGTTCAAAATTCATAAAAATTCCAAGATTTGCAAAGATCCCAAA
* * * * * *
24094885 ATTCATAAAGGTTCAAAGATTCATAAAAATT-CTAGATTTGCATAGATTCTAAG
1 ATTCACAAAGGTTCAAA-ATTCATAAAAATTCCAAGATTTGCAAAGATCCCAAA
* * *
24094938 ATTCACAAAGGTTCCAAGATTCACAAAATTTCCA
1 ATTCACAAAGGTT-CAAAATTCATAAAAATTCCA
24094972 CAAATAGTTT
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
53 54 0.76
54 17 0.24
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (53 bp):
ATTCACAAAGGTTCAAAATTCATAAAAATTCCAAGATTTGCAAAGATCCCAAA
Done.