Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 79 of 144
Found at i:23867489 original size:6 final size:6
Alignment explanation
Indices: 23867473--23867528 Score: 69
Period size: 6 Copynumber: 9.3 Consensus size: 6
23867463 TATCGTTCCT
* * *
23867473 CCTCATC CCTCTC CCTCTC TCTCTC CCTC-C CTTTTC CCTCTC CCTCTC
1 CCTC-TC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC
23867521 CCTCTC CC
1 CCTCTC CC
23867529 CACTTATATA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
5 3 0.07
6 35 0.83
7 4 0.10
ACGTcount: A:0.02, C:0.62, G:0.00, T:0.36
Consensus pattern (6 bp):
CCTCTC
Found at i:23879121 original size:10 final size:9
Alignment explanation
Indices: 23879089--23879130 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
23879079 ACATGAAATG
23879089 TAAATTTTAT
1 TAAATTTT-T
23879099 T-AATTTTT
1 TAAATTTTT
*
23879107 AAAATTTCTT
1 TAAATTT-TT
23879117 TAAATTTTT
1 TAAATTTTT
23879126 TAAAT
1 TAAAT
23879131 ATTAATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 1 0.04
9 18 0.64
10 9 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (9 bp):
TAAATTTTT
Found at i:23893577 original size:31 final size:30
Alignment explanation
Indices: 23893542--23893606 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
23893532 TATTTTTTAA
* *
23893542 ATGTGTATAATTGA-ACTATAATCAAAATTT
1 ATGTGTACAATT-ACACTAAAATCAAAATTT
23893572 CATGTGTACAATTACACTAAAATCAAAATTT
1 -ATGTGTACAATTACACTAAAATCAAAATTT
23893603 ATGT
1 ATGT
23893607 ATCAAATTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 5 0.16
31 26 0.84
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (30 bp):
ATGTGTACAATTACACTAAAATCAAAATTT
Found at i:23897516 original size:26 final size:27
Alignment explanation
Indices: 23897486--23897551 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 27
23897476 TTTTAAATTT
* *
23897486 TAAATAATATTCTTAATATATTATTAA
1 TAAATAATATTATTAATATATTAATAA
*
23897513 -AAAT-ATTTATATTAATATATTAATAA
1 TAAATAATAT-TATTAATATATTAATAA
23897539 TAAATATATATTA
1 TAAATA-ATATTA
23897552 GAATTTATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
25 3 0.10
26 19 0.61
27 4 0.13
28 2 0.06
29 3 0.10
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
TAAATAATATTATTAATATATTAATAA
Found at i:23898948 original size:15 final size:15
Alignment explanation
Indices: 23898928--23898958 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23898918 CTACGAATGA
23898928 AGTTATAAAGTATGC
1 AGTTATAAAGTATGC
23898943 AGTTATAAAGTATGC
1 AGTTATAAAGTATGC
23898958 A
1 A
23898959 AAATGCTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.32
Consensus pattern (15 bp):
AGTTATAAAGTATGC
Found at i:23901057 original size:21 final size:22
Alignment explanation
Indices: 23901012--23901058 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
23901002 ATAAGGTCTA
* * *
23901012 TAGGCCGTTTTTATTTTTTATT
1 TAGGCCGATTTTATATTTTAAT
23901034 TAGGCCGATTTTA-ATTTTAAT
1 TAGGCCGATTTTATATTTTAAT
23901055 TAGG
1 TAGG
23901059 GAAATAGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.21, C:0.09, G:0.17, T:0.53
Consensus pattern (22 bp):
TAGGCCGATTTTATATTTTAAT
Found at i:23907981 original size:63 final size:63
Alignment explanation
Indices: 23907914--23908048 Score: 153
Period size: 63 Copynumber: 2.1 Consensus size: 63
23907904 AATAACTCTC
* * * * *
23907914 ACACGACCTGGACACACACCCGTGTCTATGACCTGTGTGACATTAATTCAGAAATAGTGAGTT
1 ACACGACCTGGACACACACCCGTGTCCATGACCCGTGTGACATTAAATCACAAAAAGTGAGTT
* * ** * * * *
23907977 ACACGACATGGACACACTCTTGTTTCCCTGGCCCGTGTGACCTTAAATCACAAAAAGTGAGTT
1 ACACGACCTGGACACACACCCGTGTCCATGACCCGTGTGACATTAAATCACAAAAAGTGAGTT
23908040 ACACGACCT
1 ACACGACCT
23908049 ATCATACGAC
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (63 bp):
ACACGACCTGGACACACACCCGTGTCCATGACCCGTGTGACATTAAATCACAAAAAGTGAGTT
Found at i:23908616 original size:16 final size:16
Alignment explanation
Indices: 23908598--23908628 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
23908588 AAAAGGAGAA
23908598 AAAAGAAAAA-AAATG
1 AAAAGAAAAAGAAATG
23908613 AAAAGAAAAAGAAATG
1 AAAAGAAAAAGAAATG
23908629 TTTGTTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.06
Consensus pattern (16 bp):
AAAAGAAAAAGAAATG
Found at i:23918582 original size:42 final size:45
Alignment explanation
Indices: 23918509--23918594 Score: 133
Period size: 42 Copynumber: 2.0 Consensus size: 45
23918499 CCAAATTAAA
23918509 TTTATAATATAAATTATTATTTATATAAAATAAAAATAAAAATAG
1 TTTATAATATAAATTATTATTTATATAAAATAAAAATAAAAATAG
* *
23918554 TTTATAATGTTAATTA-T-TTTA-ATAAAATAAAAATAAAAATA
1 TTTATAATATAAATTATTATTTATATAAAATAAAAATAAAAATA
23918595 TAATCAATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
42 20 0.51
43 4 0.10
44 1 0.03
45 14 0.36
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (45 bp):
TTTATAATATAAATTATTATTTATATAAAATAAAAATAAAAATAG
Found at i:23919372 original size:28 final size:28
Alignment explanation
Indices: 23919332--23919388 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
23919322 AATATGAAGA
23919332 TAGTTAATAAGTTTTCCTCTTAACTTTT
1 TAGTTAATAAGTTTTCCTCTTAACTTTT
*
23919360 TAGTTAATAAGTTTTTCTCTTAACTTTT
1 TAGTTAATAAGTTTTCCTCTTAACTTTT
23919388 T
1 T
23919389 CGTGAAACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.56
Consensus pattern (28 bp):
TAGTTAATAAGTTTTCCTCTTAACTTTT
Found at i:23930057 original size:17 final size:18
Alignment explanation
Indices: 23930017--23930051 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23930007 TATTATTAAA
*
23930017 TATATTTTAATTAAAATT
1 TATAATTTAATTAAAATT
23930035 TATAATTTAA-TAAAATT
1 TATAATTTAATTAAAATT
23930052 CTTAATAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATAATTTAATTAAAATT
Found at i:23930141 original size:18 final size:17
Alignment explanation
Indices: 23930118--23930154 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
23930108 AAATATTATT
23930118 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
23930134 AAATATATGATTTAATA
1 AAATATATGATTTAATA
23930151 AAAT
1 AAAT
23930155 TTACAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:23930246 original size:44 final size:43
Alignment explanation
Indices: 23930196--23930338 Score: 139
Period size: 44 Copynumber: 3.2 Consensus size: 43
23930186 TATGAATTTG
23930196 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
* * * *
23930240 TATAATTTCATAA-AATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-AT--TAAATATAAT-TTA-AT-AATATA
*
23930287 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
23930331 TATAATTT
1 TATAATTT
23930339 CATAAAATTC
Statistics
Matches: 79, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
43 3 0.04
44 31 0.39
45 10 0.13
46 10 0.13
47 22 0.28
48 3 0.04
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (43 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATAATATA
Found at i:23930254 original size:47 final size:45
Alignment explanation
Indices: 23930203--23930346 Score: 136
Period size: 47 Copynumber: 3.1 Consensus size: 45
23930193 TTGTATAATT
23930203 TAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTA-TATTAAATATAATTTAATAAT-ATATATAATTTCA
** * * *
23930250 TAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTATATAA-TT--
1 TAAAATAATT-ATATTAAATATAAT-TTA-AT-AATATATATAATTTCA
23930294 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATT-ATATTAAATATAATTTAATAAT-ATATATAATTTCA
23930341 TAAAAT
1 TAAAAT
23930347 TCTTAATAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
43 3 0.04
44 25 0.33
45 7 0.09
46 7 0.09
47 30 0.39
48 4 0.05
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (45 bp):
TAAAATAATTATATTAAATATAATTTAATAATATATATAATTTCA
Found at i:23930273 original size:91 final size:91
Alignment explanation
Indices: 23930162--23930377 Score: 369
Period size: 91 Copynumber: 2.4 Consensus size: 91
23930152 AATTTACAAT
* * * *
23930162 AATTATTACTAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
23930227 TTTAATAATAATATATAATTTCATAA
66 TTTAATAATAATATATAATTTCATAA
*
23930253 AATTCTTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
*
23930318 TTTAATAATGATATATAATTTCATAA
66 TTTAATAATAATATATAATTTCATAA
*
23930344 AATTCTTAATAATAAATATTCTTATATGAATTTA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTA
23930378 CTAAAATCAT
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 117 1.00
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
TTTAATAATAATATATAATTTCATAA
Found at i:23930360 original size:47 final size:46
Alignment explanation
Indices: 23930218--23930362 Score: 156
Period size: 47 Copynumber: 3.2 Consensus size: 46
23930208 TAATTATTAT
*
23930218 TAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAATAAT-ATATATAATTTCATAAAATTCTTAATAA
* * ** *
23930265 TAAAT-T-TTCTTATATGAATTTATATAA-TT--TAAAATAATTAATAT
1 TAAATATAAT-TTA-AT-AATATATATAATTTCATAAAATTCTTAATAA
23930309 TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAA
1 TAAATATAATTTAATAAT-ATATATAATTTCATAAAATTCTTAATAA
23930356 TAAATAT
1 TAAATAT
23930363 TCTTATATGA
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
43 3 0.04
44 25 0.32
45 7 0.09
46 7 0.09
47 33 0.42
48 3 0.04
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (46 bp):
TAAATATAATTTAATAATATATATAATTTCATAAAATTCTTAATAA
Found at i:23935157 original size:16 final size:16
Alignment explanation
Indices: 23935136--23935168 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
23935126 GATACAATAT
*
23935136 AACAAAGGATAAGCAA
1 AACAAAGGATAACCAA
23935152 AACAAAGGATAACCAA
1 AACAAAGGATAACCAA
23935168 A
1 A
23935169 GTAACATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.64, C:0.15, G:0.15, T:0.06
Consensus pattern (16 bp):
AACAAAGGATAACCAA
Found at i:23959744 original size:16 final size:18
Alignment explanation
Indices: 23959709--23959750 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
23959699 GTAAAAAAAT
23959709 TATTTTAGTTTTCATTTAA
1 TATTTTAGTTTT-ATTTAA
23959728 TATTTTA-TTTT-TTTAA
1 TATTTTAGTTTTATTTAA
*
23959744 TCTTTTA
1 TATTTTA
23959751 AACTTACCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 11 0.50
18 4 0.18
19 7 0.32
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (18 bp):
TATTTTAGTTTTATTTAA
Found at i:23959882 original size:23 final size:23
Alignment explanation
Indices: 23959828--23959883 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
23959818 ATTAATTAAA
*
23959828 TTTAAAATTTTTAAATTATTCTT
1 TTTAAAATTTTTAAATTATTATT
** * * *
23959851 TTTGTAATTTTTTATTTTTTATT
1 TTTAAAATTTTTAAATTATTATT
23959874 TTTAAAATTT
1 TTTAAAATTT
23959884 AAAAAATTCA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTAAAATTTTTAAATTATTATT
Found at i:23961111 original size:18 final size:18
Alignment explanation
Indices: 23961090--23961124 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23961080 GAATTGGATT
23961090 TTTTTAAAAAATTTTAAC
1 TTTTTAAAAAATTTTAAC
* *
23961108 TTTTTAATAAGTTTTAA
1 TTTTTAAAAAATTTTAA
23961125 TTGAATTGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTTTAAAAAATTTTAAC
Found at i:23964151 original size:31 final size:31
Alignment explanation
Indices: 23964115--23964173 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
23964105 CTCAACACTA
* * *
23964115 TTGTTATATACTTTTATTATTTTAGTCATTG
1 TTGTTACATACATTTATCATTTTAGTCATTG
23964146 TTGTTACATACATTTATCATTTTAGTCA
1 TTGTTACATACATTTATCATTTTAGTCA
23964174 CCCGTCATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.25, C:0.10, G:0.08, T:0.56
Consensus pattern (31 bp):
TTGTTACATACATTTATCATTTTAGTCATTG
Found at i:23964504 original size:12 final size:12
Alignment explanation
Indices: 23964487--23964516 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23964477 TCCTGTTACC
*
23964487 AGAAAAAGGAAA
1 AGAAAAAAGAAA
23964499 AGAAAAAAGAAA
1 AGAAAAAAGAAA
23964511 AGAAAA
1 AGAAAA
23964517 GATAAATTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AGAAAAAAGAAA
Found at i:23976268 original size:25 final size:25
Alignment explanation
Indices: 23976231--23976297 Score: 107
Period size: 25 Copynumber: 2.6 Consensus size: 25
23976221 TGAGTGAAAA
23976231 TTCTCTTTGAGTTTTCTCCAAGAATT
1 TTCTC-TTGAGTTTTCTCCAAGAATT
*
23976257 TTCTCTTGAGTTTTCTCCGAGAATT
1 TTCTCTTGAGTTTTCTCCAAGAATT
*
23976282 TTCTGTTGAGTTTTCT
1 TTCTCTTGAGTTTTCT
23976298 TTTGAAGTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 34 0.87
26 5 0.13
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.52
Consensus pattern (25 bp):
TTCTCTTGAGTTTTCTCCAAGAATT
Found at i:23978438 original size:27 final size:27
Alignment explanation
Indices: 23978404--23978581 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23978394 TAAATTGTAC
23978404 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
23978431 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
23978457 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
23978485 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
23978513 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
23978540 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
23978567 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23978582 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:23978518 original size:82 final size:81
Alignment explanation
Indices: 23978405--23978560 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23978395 AAATTGTACA
* *
23978405 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
23978469 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
23978486 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
23978551 TGCGAGTTGA
65 TGCGAATTGA
23978561 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:23978572 original size:82 final size:81
Alignment explanation
Indices: 23978401--23978581 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
23978391 GACTAAATTG
* *
23978401 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
23978466 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
23978482 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
23978546 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
23978564 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
23978582 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:23981923 original size:24 final size:23
Alignment explanation
Indices: 23981869--23981924 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
23981859 GGATAACTAA
* *
23981869 GAAAGGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGATTTGGTAC
***
23981892 GTTTTGGTATTTGGGATTTGGTAC
1 GAAATGGTATTT-GGATTTGGTAC
23981916 GAAATGGTA
1 GAAATGGTA
23981925 ATGGTTCAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.21, C:0.04, G:0.34, T:0.41
Consensus pattern (23 bp):
GAAATGGTATTTGGATTTGGTAC
Found at i:23995246 original size:54 final size:54
Alignment explanation
Indices: 23995164--23995274 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
23995154 TCTTAATACT
23995164 TGATTGAAAACTATTGTTGTAAGCGAATTCAATCAATGGTAAATACCGTTCCCA
1 TGATTGAAAACTATTGTTGTAAGCGAATTCAATCAATGGTAAATACCGTTCCCA
23995218 TGATTGAAAACTATTGTTGTAAGCGAATTCAATCAATGGTAAATACCGTTCCCA
1 TGATTGAAAACTATTGTTGTAAGCGAATTCAATCAATGGTAAATACCGTTCCCA
23995272 TGA
1 TGA
23995275 ACCACTAAAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (54 bp):
TGATTGAAAACTATTGTTGTAAGCGAATTCAATCAATGGTAAATACCGTTCCCA
Found at i:24000740 original size:39 final size:40
Alignment explanation
Indices: 24000697--24000864 Score: 112
Period size: 40 Copynumber: 4.2 Consensus size: 40
24000687 CTCGTTCAAG
* * *
24000697 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACATAACCCGGATTATA-AAACTCACACGAA
* * *
24000736 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACATAACCCGGATTATAAAACTCACACGAA
* * * * * *
24000776 TGCCTTCGGGACTTAATCCAGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACATAA-CCCGGATTA-TAAAACTCACACGAA
* * * * *
24000816 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACATAACCCGG-ATTATAAAACTCACACGAA
24000856 TGCCTTCGG
1 TGCCTTCGG
24000865 ATCTTAGTCC
Statistics
Matches: 106, Mismatches: 16, Indels: 13
0.79 0.12 0.10
Matches are distributed among these distances:
39 29 0.27
40 70 0.66
41 6 0.06
42 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACATAACCCGGATTATAAAACTCACACGAA
Found at i:24000837 original size:80 final size:80
Alignment explanation
Indices: 24000732--24000917 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
24000722 AGTAACTCAT
* * *
24000732 ACAATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGGA-CTTAATCC
1 ACAAAGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTTAATCC
*
24000795 AGAAT-TAGT-A-TCTCGC
64 -GAATATAGTCACT-TAGC
*
24000811 ACAAAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 ACAAA-GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAATCCG
*
24000876 GATATAGTCACTTAGC
65 AATATAGTCACTTAGC
*
24000892 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
24000918 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 14 0.15
80 70 0.74
81 9 0.10
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAATCCGA
ATATAGTCACTTAGC
Found at i:24000877 original size:40 final size:40
Alignment explanation
Indices: 24000734--24000917 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
24000724 TAACTCATAC
* *
24000734 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* * * *
24000774 AATGCCTTCGGGACTTAATCCAGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
24000814 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
24000854 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
24000895 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
24000918 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
39 8 0.07
40 101 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:24012122 original size:21 final size:21
Alignment explanation
Indices: 24012098--24012138 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24012088 AGGAAAACCC
*
24012098 TAAGATGTAGGGTTTAGGGTA
1 TAAGATATAGGGTTTAGGGTA
*
24012119 TAAGGTATAGGGTTTAGGGT
1 TAAGATATAGGGTTTAGGGT
24012139 TTAATTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.39, T:0.34
Consensus pattern (21 bp):
TAAGATATAGGGTTTAGGGTA
Found at i:24014133 original size:322 final size:322
Alignment explanation
Indices: 24013548--24014184 Score: 1148
Period size: 322 Copynumber: 2.0 Consensus size: 322
24013538 GAGAAAATTG
24013548 TAAATCACGCAAGCGATGGAGTTATTTACACAATGATTTAAAATTTTAGACCGAAGTTGTACCTC
1 TAAATCACGCAAGCGATGGAGTTATTTACACAATGATTTAAAATTTTAGACCGAAGTTGTACCTC
24013613 ATAATAATAGAGACTCCACATAATCTTTTATAGAAATCCACACTTGTATATACATACCCTACCCT
66 ATAATAATAGAGACTCCACATAATCTTTTATAGAAATCCACACTTGTATATACATACCCTACCCT
* **
24013678 GCATACACAACAACATCAATATAGTAATTCATGATTGTTTCCAACTTGCTATCGTCCGTAGCATA
131 ACATACACAACAACATCAATATAGTAATTCATGATTGTTTCCAACTTGAAATCGTCCGTAGCATA
* ** *
24013743 ACAATCTATTTGTTTGTGCAAACACTTAAAAGGACTACCAGCACAGGCTTTAGTTTAAATACAAT
196 AAAATCTATTTGTTTGTGCAAACACACAAAAGGACTACCAACACAGGCTTTAGTTTAAATACAAT
24013808 GACAACTTCCTTAAAGGTTGAGCATTTAAACAACTTCATTTTATGATAATCGAGCTTTAGTT
261 GACAACTTCCTTAAAGGTTGAGCATTTAAACAACTTCATTTTATGATAATCGAGCTTTAGTT
** * *
24013870 TAAATCACGCAAGCGATGGAGTTATTTACACAATGATTTAAGGTTTTAGACTGGAGTTGTACCTC
1 TAAATCACGCAAGCGATGGAGTTATTTACACAATGATTTAAAATTTTAGACCGAAGTTGTACCTC
24013935 ATAATAATAGAGACTCCACATAATCTTTTATAGAAATCCACACTTGTATATACATACCCTACCCT
66 ATAATAATAGAGACTCCACATAATCTTTTATAGAAATCCACACTTGTATATACATACCCTACCCT
* * *
24014000 ACATACAGAACAATATCAATATAGTAATTCATGATTGTTTCTAACTTGAAATCGTCCGTAGCATA
131 ACATACACAACAACATCAATATAGTAATTCATGATTGTTTCCAACTTGAAATCGTCCGTAGCATA
24014065 AAAATCTATTTGTTTGTGCAAACACACAAAAGGACTACCAACACAGGCTTTAGTTTAAATACAAT
196 AAAATCTATTTGTTTGTGCAAACACACAAAAGGACTACCAACACAGGCTTTAGTTTAAATACAAT
24014130 GACAACTTCCTTAAAGGTTGAGCATTTAAACAACTTCATTTTATGATAATCGAGC
261 GACAACTTCCTTAAAGGTTGAGCATTTAAACAACTTCATTTTATGATAATCGAGC
24014185 CTAATGTGGA
Statistics
Matches: 301, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
322 301 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (322 bp):
TAAATCACGCAAGCGATGGAGTTATTTACACAATGATTTAAAATTTTAGACCGAAGTTGTACCTC
ATAATAATAGAGACTCCACATAATCTTTTATAGAAATCCACACTTGTATATACATACCCTACCCT
ACATACACAACAACATCAATATAGTAATTCATGATTGTTTCCAACTTGAAATCGTCCGTAGCATA
AAAATCTATTTGTTTGTGCAAACACACAAAAGGACTACCAACACAGGCTTTAGTTTAAATACAAT
GACAACTTCCTTAAAGGTTGAGCATTTAAACAACTTCATTTTATGATAATCGAGCTTTAGTT
Found at i:24019517 original size:42 final size:42
Alignment explanation
Indices: 24019435--24019517 Score: 94
Period size: 42 Copynumber: 2.0 Consensus size: 42
24019425 CTGGTAAACC
* * * * * *
24019435 GGCGTGTGGGTTTACTTCGAAGGGTATATGGCCTGCCACATA
1 GGCGTCTGGGGTTAATTCGAAGGGTACACGACCTGCCACATA
* *
24019477 GGCGTCTGGGGTTAATTCGAAGGGTACACGATCTGGCACAT
1 GGCGTCTGGGGTTAATTCGAAGGGTACACGACCTGCCACAT
24019518 GGGCATGTGA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.20, C:0.19, G:0.34, T:0.27
Consensus pattern (42 bp):
GGCGTCTGGGGTTAATTCGAAGGGTACACGACCTGCCACATA
Found at i:24021707 original size:10 final size:9
Alignment explanation
Indices: 24021665--24021712 Score: 51
Period size: 10 Copynumber: 5.0 Consensus size: 9
24021655 AAAATAAAAC
24021665 AAATTAATT
1 AAATTAATT
*
24021674 AAATCAATT
1 AAATTAATT
*
24021683 ACAATTAATGA
1 A-AATTAAT-T
24021694 AAATTAAATT
1 AAATT-AATT
24021704 AAATTAATT
1 AAATTAATT
24021713 CTAAATATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
9 13 0.41
10 15 0.47
11 4 0.12
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (9 bp):
AAATTAATT
Found at i:24024187 original size:16 final size:15
Alignment explanation
Indices: 24024159--24024188 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
24024149 ATGATAAATT
24024159 TTTAAAAAATAATAA
1 TTTAAAAAATAATAA
24024174 TTTAAAATAATAATA
1 TTTAAAA-AATAATA
24024189 TATCACATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTAAAAAATAATAA
Found at i:24024336 original size:3 final size:3
Alignment explanation
Indices: 24024328--24024356 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
24024318 TGAATACAGA
24024328 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24024357 ATGTTTAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:24029296 original size:125 final size:125
Alignment explanation
Indices: 24028947--24029344 Score: 580
Period size: 127 Copynumber: 3.2 Consensus size: 125
24028937 AAGAAGGATT
* * * *
24028947 TTTTTCTACAGTAGTTTCTGAAAAATTAATTTTCAGAAGACGGTTTTGAAAAAATAGTGACAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAA-TAATTTTAAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
*
24029012 ACACTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTC
65 ACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
24029073 TTTTTCTACAGTAGTTCCTTCAAAAAATAATTTTGAGAAGACGTTTCTGAAAAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTCC-T-GAAAAATAATTTTAAGAAGACGGTTCTGAAAAAATAGTGTCAAA
* * * * * *
24029138 AACACTTCGAGCAAGATGCACTGCCAGTAAAATTACTAAAAAAAGCTCTCACGTGGACGCTC
64 AACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
24029200 TTTTTCTACAGTAGTTCCTGAAAAATAATTTTAAGACGACGGTTCTGAAAAAATAGTGTCAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAATAATTTTAAGAAGACGGTTCTGAAAAAATAGTGTCAAAAA
** * *
24029265 TGCTTCAAGTAGGATGCACTGTCAGCCAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
66 CACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
24029325 TTTTTTTTACAGTAGTTCCT
1 -TTTTTCTACAGTAGTTCCT
24029345 ACTTGGCCTT
Statistics
Matches: 241, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
125 92 0.38
126 36 0.15
127 108 0.45
128 5 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCCTGAAAAATAATTTTAAGAAGACGGTTCTGAAAAAATAGTGTCAAAAA
CACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:24044961 original size:40 final size:40
Alignment explanation
Indices: 24044887--24044962 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
24044877 CCTTTTATTT
* *
24044887 CTTTAGTGGCGCTTTTTAAAAAACGTCGTGATAGATTGGG
1 CTTTAGCGGCGCTTTTTAAAAAACGCCGTGATAGATTGGG
*
24044927 CTTTAGCGGCGCTTATTT-AGAAACGCCGCT-ATAGAT
1 CTTTAGCGGCGCTT-TTTAAAAAACGCCG-TGATAGAT
24044963 CAAGAATTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
40 27 0.87
41 4 0.13
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (40 bp):
CTTTAGCGGCGCTTTTTAAAAAACGCCGTGATAGATTGGG
Found at i:24045015 original size:9 final size:9
Alignment explanation
Indices: 24044985--24046168 Score: 1853
Period size: 9 Copynumber: 135.0 Consensus size: 9
24044975 ACGCTTCTTG
24044985 CATAACTTA
1 CATAACTTA
24044994 CATAA--TA
1 CATAACTTA
*
24045001 CTTAACTTA
1 CATAACTTA
24045010 CATAACTTA
1 CATAACTTA
*
24045019 CATTA--TA
1 CATAACTTA
*
24045026 CACAACTTA
1 CATAACTTA
*
24045035 CACAACTTA
1 CATAACTTA
* *
24045044 CATTA-TATG
1 CATAACT-TA
24045053 C--AACTTA
1 CATAACTTA
24045060 CATAA--TA
1 CATAACTTA
24045067 CATAACTTA
1 CATAACTTA
*
24045076 CATAACGTA
1 CATAACTTA
24045085 CATAA--T-
1 CATAACTTA
*
24045091 CACAACTTA
1 CATAACTTA
24045100 CATAACTTA
1 CATAACTTA
24045109 CATAA--TA
1 CATAACTTA
24045116 CATAACTTA
1 CATAACTTA
*
24045125 CATAACTTT
1 CATAACTTA
*
24045134 TATAA--TA
1 CATAACTTA
*
24045141 CATATCTTA
1 CATAACTTA
24045150 CATAACTTA
1 CATAACTTA
24045159 CATAACTTA
1 CATAACTTA
24045168 CATAA--TA
1 CATAACTTA
*
24045175 CACAACTTA
1 CATAACTTA
24045184 CATAACTTACA
1 CATAACTT--A
24045195 CATAACTTA
1 CATAACTTA
24045204 CATAACTTA
1 CATAACTTA
24045213 CATAACTTA
1 CATAACTTA
24045222 CATAACTTA
1 CATAACTTA
24045231 CATAACTTA
1 CATAACTTA
24045240 CATAACTTA
1 CATAACTTA
24045249 CATAACTTA
1 CATAACTTA
24045258 CATAACTTA
1 CATAACTTA
24045267 CATAACTTA
1 CATAACTTA
24045276 CATAACTTA
1 CATAACTTA
24045285 CATAACTTA
1 CATAACTTA
24045294 CATAACTTA
1 CATAACTTA
24045303 CATAACTTA
1 CATAACTTA
24045312 CATAACTTA
1 CATAACTTA
24045321 CATAACTTA
1 CATAACTTA
24045330 CATAACTTA
1 CATAACTTA
24045339 CATAACTTA
1 CATAACTTA
24045348 CATAACTTA
1 CATAACTTA
24045357 CATAACTTA
1 CATAACTTA
24045366 CATAACTTA
1 CATAACTTA
24045375 CATAACTTA
1 CATAACTTA
24045384 CATAACTTA
1 CATAACTTA
24045393 CATAACTTA
1 CATAACTTA
24045402 CATAACTTA
1 CATAACTTA
24045411 CATAACTTA
1 CATAACTTA
24045420 CATAACTTA
1 CATAACTTA
24045429 CATAACTTA
1 CATAACTTA
24045438 CATAACTTA
1 CATAACTTA
24045447 CATAACTTA
1 CATAACTTA
24045456 CATAACTTA
1 CATAACTTA
24045465 CATAACTTA
1 CATAACTTA
24045474 CATAACTTA
1 CATAACTTA
24045483 CATAACTTA
1 CATAACTTA
24045492 CATAACTTA
1 CATAACTTA
24045501 CATAACTTA
1 CATAACTTA
24045510 CATAACTTA
1 CATAACTTA
24045519 CATAACTTA
1 CATAACTTA
24045528 CATAACTTA
1 CATAACTTA
24045537 CATAACTTA
1 CATAACTTA
24045546 CATAACTTA
1 CATAACTTA
24045555 CATAACTTA
1 CATAACTTA
24045564 CATAACTTA
1 CATAACTTA
24045573 CATAACTTA
1 CATAACTTA
24045582 CATAACTTA
1 CATAACTTA
24045591 CATAACTTA
1 CATAACTTA
24045600 CATAACTTA
1 CATAACTTA
24045609 CATAACTTA
1 CATAACTTA
24045618 CATAACTTA
1 CATAACTTA
24045627 CATAACTTA
1 CATAACTTA
24045636 CATAACTTA
1 CATAACTTA
24045645 CATAACTTA
1 CATAACTTA
24045654 CATAACTTA
1 CATAACTTA
24045663 CATAACTTA
1 CATAACTTA
24045672 CATAACTTA
1 CATAACTTA
24045681 CATAACTTA
1 CATAACTTA
24045690 CATAACTTA
1 CATAACTTA
24045699 CATAACTTA
1 CATAACTTA
24045708 CATAACTTA
1 CATAACTTA
24045717 CATAACTTA
1 CATAACTTA
24045726 CATAACTTA
1 CATAACTTA
24045735 CATAACTTA
1 CATAACTTA
24045744 CATAACTTA
1 CATAACTTA
24045753 CATAACTTA
1 CATAACTTA
24045762 CATAACTTA
1 CATAACTTA
24045771 CATAACTTA
1 CATAACTTA
24045780 CATAACTTA
1 CATAACTTA
24045789 CATAACTTA
1 CATAACTTA
24045798 CATAACTTA
1 CATAACTTA
24045807 CATAACTTA
1 CATAACTTA
24045816 CATAACTTA
1 CATAACTTA
24045825 CATAACTTA
1 CATAACTTA
24045834 CATAACTTA
1 CATAACTTA
24045843 CATAACTTA
1 CATAACTTA
24045852 CATAACTTA
1 CATAACTTA
24045861 CATAACTTA
1 CATAACTTA
24045870 CATAACTTA
1 CATAACTTA
24045879 CATAACTTA
1 CATAACTTA
24045888 CATAACTTA
1 CATAACTTA
24045897 CATAACTTA
1 CATAACTTA
24045906 CATAACTTA
1 CATAACTTA
24045915 CATAACTTA
1 CATAACTTA
24045924 CATAACTTA
1 CATAACTTA
24045933 CATAA--TA
1 CATAACTTA
*
24045940 CACAACTTA
1 CATAACTTA
*
24045949 CATAACTTT
1 CATAACTTA
*
24045958 TATAA--TA
1 CATAACTTA
*
24045965 CATATCTTA
1 CATAACTTA
24045974 CATAACTTA
1 CATAACTTA
24045983 CATAACTTA
1 CATAACTTA
24045992 CATAA--TA
1 CATAACTTA
*
24045999 CACAACTTA
1 CATAACTTA
*
24046008 CATAACTTT
1 CATAACTTA
24046017 CATAA--TA
1 CATAACTTA
24046024 CATAACTTA
1 CATAACTTA
24046033 CATAACTTA
1 CATAACTTA
*
24046042 CATAA-AT-
1 CATAACTTA
24046049 CATAACTTA
1 CATAACTTA
24046058 CATAACTTA
1 CATAACTTA
24046067 CATAA--TA
1 CATAACTTA
*
24046074 CACAACTTA
1 CATAACTTA
*
24046083 CATAACTTT
1 CATAACTTA
24046092 CATAA--TA
1 CATAACTTA
24046099 CATAACTTA
1 CATAACTTA
24046108 CATAACTTA
1 CATAACTTA
*
24046117 CATAATTTA
1 CATAACTTA
24046126 CATAA--TA
1 CATAACTTA
*
24046133 CATAA-ATA
1 CATAACTTA
* * *
24046141 TATATCATA
1 CATAACTTA
24046150 TCATAACTTA
1 -CATAACTTA
24046160 CATAACTTA
1 CATAACTTA
24046169 TTTATACTTA
Statistics
Matches: 1092, Mismatches: 45, Indels: 76
0.90 0.04 0.06
Matches are distributed among these distances:
6 4 0.00
7 85 0.08
8 10 0.01
9 978 0.90
10 6 0.01
11 9 0.01
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:24051685 original size:21 final size:21
Alignment explanation
Indices: 24051661--24051705 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
24051651 CTACAACTTA
*
24051661 AAGTAAAGGCAGCAGCGAGGG
1 AAGTAAAGGCAACAGCGAGGG
*
24051682 AAGTAGAGGCAACAGCGAGGG
1 AAGTAAAGGCAACAGCGAGGG
24051703 AAG
1 AAG
24051706 CAGCGGTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.13, G:0.42, T:0.04
Consensus pattern (21 bp):
AAGTAAAGGCAACAGCGAGGG
Found at i:24051744 original size:21 final size:21
Alignment explanation
Indices: 24051667--24051752 Score: 100
Period size: 21 Copynumber: 4.1 Consensus size: 21
24051657 CTTAAAGTAA
*
24051667 AGGCAGCAGCGAGGGAAGTAG
1 AGGCAGCAGCGAGGGAAGCAG
*
24051688 AGGCAACAGCGAGGGAAGCAG
1 AGGCAGCAGCGAGGGAAGCAG
* * * *
24051709 CGGTAGTAGTGAGGGAAGCAG
1 AGGCAGCAGCGAGGGAAGCAG
* *
24051730 AGACAGCAGCTAGGGAAGCAG
1 AGGCAGCAGCGAGGGAAGCAG
24051751 AG
1 AG
24051753 CAGAGCAGAA
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.35, C:0.15, G:0.44, T:0.06
Consensus pattern (21 bp):
AGGCAGCAGCGAGGGAAGCAG
Found at i:24052123 original size:43 final size:43
Alignment explanation
Indices: 24052053--24052326 Score: 277
Period size: 43 Copynumber: 6.4 Consensus size: 43
24052043 CATTTTTATT
* ** **
24052053 AAAGTGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGATA
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATA
* *
24052096 AAAGCGCCGCTAAAGGTCATGTTCTTTAGTGGCGTTTGTGGTA
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATA
* ** * *
24052139 AAAGCGTCGCTAAAGGTCATGTTCTTTAGCTTCGTTTTTGGTA
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATA
* * *
24052182 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCATTTGTAATA
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATA
* * ** * *
24052225 AAAGAGCCACTAAAGAACATG-ACATTTAGCGGTGTTTGTGA-A
1 AAAGCGCCGCTAAAGGTCATGTTC-TTTAGCGGCGTTTGTGATA
**
24052267 AAAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTT-T-ATAGA
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAT--A
*
24052310 AAAGCGCCACTAAAGGT
1 AAAGCGCCGCTAAAGGT
24052327 GTTTATGTGA
Statistics
Matches: 188, Mismatches: 38, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 30 0.16
43 156 0.83
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATA
Found at i:24052774 original size:12 final size:12
Alignment explanation
Indices: 24052759--24052798 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
24052749 TTAAACCACT
24052759 TCCAACACTACC
1 TCCAACACTACC
*
24052771 TCCAGCACTACC
1 TCCAACACTACC
24052783 TCCAACACTACC
1 TCCAACACTACC
24052795 TCCA
1 TCCA
24052799 CCTCCACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.30, C:0.50, G:0.03, T:0.17
Consensus pattern (12 bp):
TCCAACACTACC
Found at i:24052810 original size:21 final size:24
Alignment explanation
Indices: 24052760--24052810 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
24052750 TAAACCACTT
*
24052760 CCAACACTACCTCCAGCACTACCT
1 CCAACACTACCTCCAGCACTACCA
24052784 CCAACACTACCTCCA-C-CT-CCA
1 CCAACACTACCTCCAGCACTACCA
24052805 CCAACA
1 CCAACA
24052811 GCAGCACCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 8 0.31
22 2 0.08
23 1 0.04
24 15 0.58
ACGTcount: A:0.31, C:0.53, G:0.02, T:0.14
Consensus pattern (24 bp):
CCAACACTACCTCCAGCACTACCA
Found at i:24052844 original size:66 final size:66
Alignment explanation
Indices: 24052774--24053070 Score: 531
Period size: 66 Copynumber: 4.5 Consensus size: 66
24052764 CACTACCTCC
* * * * *
24052774 AGCACTACCTCCAACACTACCTCCACCTCCACCAACAGCAGCACCACGTCCACTAAGGGAACCGG
1 AGCACTACCTCCAACACTGCTTCCACCTCCACCAACGGCAGCACCACGCCCACTGAGGGAACCGG
24052839 T
66 T
24052840 AGCACTACCTCCAACACTGCTTCCACCTCCACCAACGGCAGCACCACGCCCACTGAGGGAACCGG
1 AGCACTACCTCCAACACTGCTTCCACCTCCACCAACGGCAGCACCACGCCCACTGAGGGAACCGG
24052905 T
66 T
24052906 AGCACTACCTCCAACACTGCTTCCACCTCCACCAACGGCAGCACCACGCCCACTGAGGGAACCGG
1 AGCACTACCTCCAACACTGCTTCCACCTCCACCAACGGCAGCACCACGCCCACTGAGGGAACCGG
24052971 T
66 T
*
24052972 AGCACTACCTCCAACACTGCTTCCCCCTCCACCAACGGCAGCACCACGCCCACTGAGGGAACCGG
1 AGCACTACCTCCAACACTGCTTCCACCTCCACCAACGGCAGCACCACGCCCACTGAGGGAACCGG
24053037 T
66 T
*
24053038 AGCACTACCTCCAACACTGCTTCTACCTCCACC
1 AGCACTACCTCCAACACTGCTTCCACCTCCACC
24053071 TATTAAACTG
Statistics
Matches: 223, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 223 1.00
ACGTcount: A:0.26, C:0.45, G:0.16, T:0.13
Consensus pattern (66 bp):
AGCACTACCTCCAACACTGCTTCCACCTCCACCAACGGCAGCACCACGCCCACTGAGGGAACCGG
T
Found at i:24053080 original size:24 final size:24
Alignment explanation
Indices: 24053063--24053109 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
24053053 ACTGCTTCTA
24053063 CCTCCACCTATTAAACTGCCTCCT
1 CCTCCACCTATTAAACTGCCTCCT
* *
24053087 CCTCCACCTGTTAAACTACCTCC
1 CCTCCACCTATTAAACTGCCTCC
24053110 ACCAATGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.21, C:0.47, G:0.04, T:0.28
Consensus pattern (24 bp):
CCTCCACCTATTAAACTGCCTCCT
Found at i:24053231 original size:57 final size:57
Alignment explanation
Indices: 24053163--24053284 Score: 172
Period size: 57 Copynumber: 2.1 Consensus size: 57
24053153 TCAGAGGCAA
* * * *
24053163 CTTGTGAAGCTGCTTTACGAAAAGCAGATTGGGCAGCAGCTGTTCCATCAGCAGCAG
1 CTTGTGCAGCTGCTTTACGAAAAGCAGAATGGACAGCAGCTGCTCCATCAGCAGCAG
* * *
24053220 CTTGTGCAGCTGCTTTATGAAAAGCAGAATGGACAGCAGCTGCTCTATCAGCAGTAG
1 CTTGTGCAGCTGCTTTACGAAAAGCAGAATGGACAGCAGCTGCTCCATCAGCAGCAG
*
24053277 CATGTGCA
1 CTTGTGCA
24053285 ATTGCTCCAC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (57 bp):
CTTGTGCAGCTGCTTTACGAAAAGCAGAATGGACAGCAGCTGCTCCATCAGCAGCAG
Found at i:24053245 original size:27 final size:27
Alignment explanation
Indices: 24053163--24053246 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
24053153 TCAGAGGCAA
* *
24053163 CTTGTGAAGCTGCTTTACGAAAAGCAG
1 CTTGTGCAGCTGCTTTATGAAAAGCAG
* * * * **
24053190 ATTGGGCAGCAGCTGTTCCATCAGCAGCAG
1 CTTGTGCAGCTGCT-TT--ATGAAAAGCAG
24053220 CTTGTGCAGCTGCTTTATGAAAAGCAG
1 CTTGTGCAGCTGCTTTATGAAAAGCAG
24053247 AATGGACAGC
Statistics
Matches: 40, Mismatches: 14, Indels: 6
0.67 0.23 0.10
Matches are distributed among these distances:
27 18 0.45
28 2 0.05
29 2 0.05
30 18 0.45
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (27 bp):
CTTGTGCAGCTGCTTTATGAAAAGCAG
Found at i:24067249 original size:19 final size:19
Alignment explanation
Indices: 24067225--24067271 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
24067215 AATGATAACA
24067225 AAAAATTAATAAAATTT-AT
1 AAAAA-TAATAAAATTTAAT
* *
24067244 AAAAATATTAAATTTTAAT
1 AAAAATAATAAAATTTAAT
24067263 AAAAA-AATA
1 AAAAATAATA
24067272 TAAAAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATAATAAAATTTAAT
Found at i:24067306 original size:30 final size:29
Alignment explanation
Indices: 24067233--24067312 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
24067223 CAAAAAATTA
24067233 ATAAAATTTATAAAAATATTAAATTTTAAT
1 ATAAAA-TTATAAAAATATTAAATTTTAAT
* *
24067263 AAAAAAATATAAAAATATTTAAATTTT-AT
1 ATAAAATTATAAAAATA-TTAAATTTTAAT
* *
24067292 TTAAAATTAGTAAAAAAATTA
1 ATAAAATTA-TAAAAATATTA
24067313 CAAAAATCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
29 21 0.50
30 21 0.50
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (29 bp):
ATAAAATTATAAAAATATTAAATTTTAAT
Found at i:24067317 original size:20 final size:21
Alignment explanation
Indices: 24067294--24067344 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
24067284 AATTTTATTT
24067294 AAAATTAGTAAAAAAATTACA
1 AAAATTAGTAAAAAAATTACA
* *
24067315 AAAATCA-TAAAAAAATTA-T
1 AAAATTAGTAAAAAAATTACA
24067334 AAAATT-GTAAA
1 AAAATTAGTAAA
24067345 GTTTTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 9 0.35
20 11 0.42
21 6 0.23
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (21 bp):
AAAATTAGTAAAAAAATTACA
Found at i:24067659 original size:9 final size:9
Alignment explanation
Indices: 24067621--24067766 Score: 73
Period size: 9 Copynumber: 15.3 Consensus size: 9
24067611 TTTTATGCAC
*
24067621 TTTATTATT
1 TTTATAATT
*
24067630 TTTATAAAAT
1 TTTAT-AATT
* *
24067640 TGTACAATT
1 TTTATAATT
24067649 TTTATAATTT
1 TTTATAA-TT
*
24067659 TTTATGATT
1 TTTATAATT
24067668 TTTATAACTTATT
1 TTTAT-A---ATT
*
24067681 TTTAATAAAT
1 TTT-ATAATT
*
24067691 TTTAAATATT
1 TTTATA-ATT
24067701 TTTAT-ATT
1 TTTATAATT
*
24067709 TTTATTATAAT
1 TTTA-TA-ATT
*
24067720 TTAATAATT
1 TTTATAATT
*
24067729 GTTATAATT
1 TTTATAATT
*
24067738 TTTATTGATT
1 TTTA-TAATT
24067748 TTTAT--TT
1 TTTATAATT
24067755 TTTATAATT
1 TTTATAATT
24067764 TTT
1 TTT
24067767 TGCCACATGT
Statistics
Matches: 103, Mismatches: 20, Indels: 28
0.68 0.13 0.19
Matches are distributed among these distances:
7 7 0.07
8 7 0.07
9 41 0.40
10 34 0.33
11 5 0.05
13 7 0.07
14 2 0.02
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTATAATT
Found at i:24067668 original size:19 final size:20
Alignment explanation
Indices: 24067621--24067740 Score: 88
Period size: 19 Copynumber: 6.1 Consensus size: 20
24067611 TTTTATGCAC
* *
24067621 TTTATTATTTTTATAA-AAT
1 TTTATAATTTTTATAATATT
* *
24067640 TGTACAATTTTTATAAT-TT
1 TTTATAATTTTTATAATATT
*
24067659 TTTATGATTTTTATAACTTATT
1 TTTATAATTTTTATAA--TATT
*
24067681 TTTAATAAATTTTA-AATATT
1 TTT-ATAATTTTTATAATATT
* *
24067701 TTTAT-ATTTTTATTATAAT
1 TTTATAATTTTTATAATATT
* *
24067720 TTAATAATTGTTATAAT-TT
1 TTTATAATTTTTATAATATT
24067739 TT
1 TT
24067741 ATTGATTTTT
Statistics
Matches: 78, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
18 6 0.08
19 40 0.51
20 16 0.21
21 1 0.01
22 7 0.09
23 8 0.10
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTATAATTTTTATAATATT
Found at i:24067722 original size:28 final size:28
Alignment explanation
Indices: 24067677--24067743 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
24067667 TTTTATAACT
* *
24067677 TATTTTTAATAAATTTTAA-ATATTTTTA
1 TATTTTTATTAAATTTTAATA-ATTGTTA
24067705 TATTTTTATTATAA-TTTAATAATTGTTA
1 TATTTTTATTA-AATTTTAATAATTGTTA
24067733 TAATTTTTATT
1 T-ATTTTTATT
24067744 GATTTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 22 0.65
29 12 0.35
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (28 bp):
TATTTTTATTAAATTTTAATAATTGTTA
Found at i:24067752 original size:19 final size:19
Alignment explanation
Indices: 24067645--24067766 Score: 60
Period size: 19 Copynumber: 6.4 Consensus size: 19
24067635 AAAATTGTAC
24067645 AATTTTTATAATTTTT-TAT
1 AATTTTTATAATTTTTAT-T
*
24067664 GATTTTTATAACTTATTT-TT
1 AATTTTTATAA-TT-TTTATT
*
24067684 AATAAATTTTA-AATATTT-TT
1 AAT---TTTTATAATTTTTATT
* * *
24067704 ATATTTTTATTATAATTTAAT
1 A-ATTTTTATAAT-TTTTATT
*
24067725 AATTGTTATAATTTTTATT
1 AATTTTTATAATTTTTATT
*
24067744 GATTTTTAT--TTTTTA-T
1 AATTTTTATAATTTTTATT
24067760 AATTTTT
1 AATTTTT
24067767 TGCCACATGT
Statistics
Matches: 82, Mismatches: 12, Indels: 21
0.71 0.10 0.18
Matches are distributed among these distances:
16 7 0.09
17 6 0.07
18 5 0.06
19 24 0.29
20 24 0.29
21 9 0.11
22 2 0.02
23 5 0.06
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (19 bp):
AATTTTTATAATTTTTATT
Found at i:24067993 original size:90 final size:89
Alignment explanation
Indices: 24067882--24068054 Score: 233
Period size: 90 Copynumber: 1.9 Consensus size: 89
24067872 TTTTTATGCA
* * * *
24067882 TTTGATAGTTCAAGTAACCAATTGAGTGCA-AAAAAAAAATCTGAGACTTAATTGATTTTTTTGA
1 TTTGAAAGTTCAAATAACCAATTGAGTGCACAAAAAAAAAGC-AAGACTTAATTGATTTTTTTGA
24067946 AAA-GTTTGAGGGTCTTTTTTTATAT
65 AAAGGTTTGAGGG-CTTTTTTTATAT
* * * *
24067971 TTTGAAAGTTTCAAATACCCAATTGAGTGCACCAAAAAAAAGCAAGGCTTAATTGCTTTTTTTGA
1 TTTGAAAG-TTCAAATAACCAATTGAGTGCACAAAAAAAAAGCAAGACTTAATTGATTTTTTTGA
24068036 AAAGGTTTGAGGGCTTTTT
65 AAAGGTTTGAGGGCTTTTT
24068055 ACACCCTTAA
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
89 7 0.10
90 48 0.66
91 18 0.25
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (89 bp):
TTTGAAAGTTCAAATAACCAATTGAGTGCACAAAAAAAAAGCAAGACTTAATTGATTTTTTTGAA
AAGGTTTGAGGGCTTTTTTTATAT
Found at i:24068617 original size:48 final size:47
Alignment explanation
Indices: 24068530--24068620 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 47
24068520 TTTGGTTTAG
*
24068530 GGTTTTTAGGGTTAAGGTTAGGGTTTTGTTAAAATAATTTAGGCTTA
1 GGTTTGTAGGGTTAAGGTTAGGGTTTTGTTAAAATAATTTAGGCTTA
*
24068577 GGTTTGTAGGGTTTAGGGTTTAGGGTTTTGTT-AAATAATTTAGG
1 GGTTTGTAGGG-TTAAGG-TTAGGGTTTTGTTAAAATAATTTAGG
24068621 GTTCTGGGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
47 10 0.25
48 17 0.43
49 13 0.32
ACGTcount: A:0.23, C:0.01, G:0.31, T:0.45
Consensus pattern (47 bp):
GGTTTGTAGGGTTAAGGTTAGGGTTTTGTTAAAATAATTTAGGCTTA
Found at i:24068740 original size:34 final size:34
Alignment explanation
Indices: 24068693--24068778 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
24068683 TAAGTTATTT
* *
24068693 GTTTAGGGGTTTTAAATAAATTAAGGAAATTAAG
1 GTTTAGTGTTTTTAAATAAATTAAGGAAATTAAG
** *
24068727 GTTTAGTGTTTTTAAGA-AAATTAATTAAATTAGG
1 GTTTAGTGTTTTTAA-ATAAATTAAGGAAATTAAG
*
24068761 GTTTAGTTTTTTTTAAAT
1 GTTTAG-TGTTTTTAAAT
24068779 TAATATTGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
34 34 0.79
35 9 0.21
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.45
Consensus pattern (34 bp):
GTTTAGTGTTTTTAAATAAATTAAGGAAATTAAG
Found at i:24069063 original size:126 final size:126
Alignment explanation
Indices: 24068838--24069106 Score: 403
Period size: 126 Copynumber: 2.1 Consensus size: 126
24068828 GGATTTTGTT
* * * *
24068838 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGGTTCTGAACAAATAGTGTGAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTAAAAAAATAGTGTCAAAA
* * * * *
24068903 AGGCTTCAAGCAGGATCCACTGTCAGCAAAATTACTAAAAAAATCTTACACGTAGACGTTC
66 ACGCTTCAAGCAAGATCCACTGTCAGCAAAATTACTAAAAAAAGCTCACACGTAGACGCTC
* *
24068964 TTTTTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAAACGTTTCTAAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTAAAAAAATAGTGTCAAAA
* * * *
24069029 ACGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCAAGATCCACTGTCAGCAAAATTACTAAAAAAAGCTCACACGTAGACGCTC
24069090 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
24069107 ATGTTTGGCC
Statistics
Matches: 127, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
126 127 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTAAAAAAATAGTGTCAAAA
ACGCTTCAAGCAAGATCCACTGTCAGCAAAATTACTAAAAAAAGCTCACACGTAGACGCTC
Found at i:24071612 original size:36 final size:36
Alignment explanation
Indices: 24071565--24071640 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
24071555 CGATTGCAAC
*
24071565 AACCTATGGTTTCGTGTAACGGAGTTTGACAGGCTG
1 AACCTATGGTTTCGTGTAACGGAGTTTGACAGACTG
* *
24071601 AACCTATGGTTTCGTGTGATGGAGTTTGACAGACTG
1 AACCTATGGTTTCGTGTAACGGAGTTTGACAGACTG
24071637 AACC
1 AACC
24071641 AATGTAATAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (36 bp):
AACCTATGGTTTCGTGTAACGGAGTTTGACAGACTG
Found at i:24072164 original size:24 final size:23
Alignment explanation
Indices: 24072108--24072164 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 23
24072098 AAGAACTTCT
24072108 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAATA
24072131 ATTTACTATT-AAAATATTAAAAATA
1 ATTT--TATTAAAAATA-TAAAAATA
24072156 ACTTTTATT
1 A-TTTTATT
24072165 TTATTAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 4 0.13
24 10 0.33
25 13 0.43
26 3 0.10
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAATA
Found at i:24072591 original size:24 final size:23
Alignment explanation
Indices: 24072535--24072591 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
24072525 AAGAACTTAT
*
24072535 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAACA
24072558 ATTTACTATT-AAAATATTAAAAACA
1 ATTT--TATTAAAAATA-TAAAAACA
24072583 ACTTTTATT
1 A-TTTTATT
24072592 TTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 12 0.41
26 3 0.10
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAACA
Found at i:24072925 original size:427 final size:427
Alignment explanation
Indices: 24072095--24072950 Score: 1339
Period size: 428 Copynumber: 2.0 Consensus size: 427
24072085 TTGCCTTATT
* *
24072095 CAAAAGAACTTCTATTTTATTAAAAATATAAAAATAATTTACTATTAAAATATTAAAAATAACTT
1 CAAAAGAACTTATATTTTATTAAAAATATAAAAATAATTTACTATTAAAATATTAAAAACAACTT
24072160 TTATTTTATTAAATGAAAAAATATAAAAATAGTTTGTACAAATATATTAAAAAATCAATATATGT
66 TTATTTTATTAAATGAAAAAATATAAAAATAGTTTGTACAAATATATTAAAAAATCAATATATGT
** **
24072225 GCTGGTCAGAATCAGTGCCACATGGAGGTGGTCGACGATTACGCGTTGGATTCCTCTTTGGTTCA
131 GCTGGTCAGAATCAGTGCCACATGGAGGTGGTCGACGATTACGCACTAAATTCCTCTTTGGTTCA
* *
24072290 GCTTTCGGCGGGGATTATGGTTGCTCCGGTTGTGGATGTTGAAAGTATGACCCACCTTGATAGAA
196 GCTTTCGGCGGGGATTATGGTTGCTCCGGTTATGGATGTTGAAAGGATGACCCACCTTGATAGAA
*
24072355 TAAAGAATGTGGAGGTGTTTGCATCACCCATGGCAGAGGTGTTTGAATCCTATAAAGTGATGGGG
261 TAAAGAATGTGGAGGTGTTTGCATCACCCATGGCAGAGGTGTTTGAATCCCATAAAGTGATGGGG
* * *
24072420 ATTGGTAATGAGATGGGCTCCTCGACAGTGCCTCGTGCGATCCCTCCGGTGACGATGGCCTATAT
326 ATTGGTAATGAGATGAGCTCCTCGACAGTGCCTAGTGCGATCCCTCCGGCGACGATGGCCTATAT
* * *
24072485 ATCTCCAGTTGAGTTAGAGTTATCGGGAAAGGATATG
391 ATCTCCAGTTGAGTCAGAATTATCGGGAAAGGAGATG
24072522 CAAAAGAACTTATATTTTATTAAAAATATAAAAATAATTTACTATTAAAATATTAAAAACAACTT
1 CAAAAGAACTTATATTTTATTAAAAATATAAAAATAATTTACTATTAAAATATTAAAAACAACTT
*
24072587 TTATTTTATTAAATGAAACAATATAAAAATAGTTTGTACAAATATATTAAAAAAATCAATGTATA
66 TTATTTTATTAAATGAAAAAATATAAAAATAGTTTGTACAAATATATT-AAAAAATCAA--TATA
* *
24072652 TGT-C-GGTCAGAATCAGTGCCACATGGGGGTGGTCGATGATTACGCACTAAATTCCTCTTTGGT
128 TGTGCTGGTCAGAATCAGTGCCACATGGAGGTGGTCGACGATTACGCACTAAATTCCTCTTTGGT
* * *
24072715 TCAGCTTTCGGCGGGTG-TTGTGGTTGTTCCGGTTATAGG-TGTTGAAAGGATGACCCATCTTGA
193 TCAGCTTTCGGCGGG-GATTATGGTTGCTCCGGTTAT-GGATGTTGAAAGGATGACCCACCTTGA
* * *
24072778 TAGAATAAAGAATGTTGAGGTGTTTGCATCACCCATGGTAGAGGTGTTTGAATCCCATAAGGTGA
256 TAGAATAAAGAATGTGGAGGTGTTTGCATCACCCATGGCAGAGGTGTTTGAATCCCATAAAGTGA
** * *
24072843 TGGGGATTGGTAATGAGAT-AGCTCC-CAGATGGTGTCTAGTGCGATCCCTCTGGCGACGATGGC
321 TGGGGATTGGTAATGAGATGAGCTCCTC-GACAGTGCCTAGTGCGATCCCTCCGGCGACGATGGC
*
24072906 CTATATATCAT-CGGTTGAGTCAGAATTATCGGGAAAGGAGATG
385 CTATATATC-TCCAGTTGAGTCAGAATTATCGGGAAAGGAGATG
24072949 CA
1 CA
24072951 CCGGGCCATG
Statistics
Matches: 393, Mismatches: 29, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
426 1 0.00
427 184 0.47
428 197 0.50
429 4 0.01
430 7 0.02
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (427 bp):
CAAAAGAACTTATATTTTATTAAAAATATAAAAATAATTTACTATTAAAATATTAAAAACAACTT
TTATTTTATTAAATGAAAAAATATAAAAATAGTTTGTACAAATATATTAAAAAATCAATATATGT
GCTGGTCAGAATCAGTGCCACATGGAGGTGGTCGACGATTACGCACTAAATTCCTCTTTGGTTCA
GCTTTCGGCGGGGATTATGGTTGCTCCGGTTATGGATGTTGAAAGGATGACCCACCTTGATAGAA
TAAAGAATGTGGAGGTGTTTGCATCACCCATGGCAGAGGTGTTTGAATCCCATAAAGTGATGGGG
ATTGGTAATGAGATGAGCTCCTCGACAGTGCCTAGTGCGATCCCTCCGGCGACGATGGCCTATAT
ATCTCCAGTTGAGTCAGAATTATCGGGAAAGGAGATG
Found at i:24074803 original size:30 final size:30
Alignment explanation
Indices: 24074769--24074833 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
24074759 ATTAATTAAA
* *
24074769 GAGAGCTTTGAGAAATTTAATGAGAAATTT
1 GAGAGCTTTAAGAAATTTAAGGAGAAATTT
*
24074799 GAGAGCTTTAAGAAATTTAGGGAGAAATTT
1 GAGAGCTTTAAGAAATTTAAGGAGAAATTT
24074829 GAGAG
1 GAGAG
24074834 TTTTTTGCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.03, G:0.28, T:0.29
Consensus pattern (30 bp):
GAGAGCTTTAAGAAATTTAAGGAGAAATTT
Found at i:24078388 original size:26 final size:26
Alignment explanation
Indices: 24078357--24078408 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
24078347 ATATTAAAAA
24078357 TATTTAGTTAAATTCAGGTTCATTAC
1 TATTTAGTTAAATTCAGGTTCATTAC
24078383 TATTTAGTTAAATTCAGGTTCATTAC
1 TATTTAGTTAAATTCAGGTTCATTAC
24078409 AACATCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (26 bp):
TATTTAGTTAAATTCAGGTTCATTAC
Found at i:24080630 original size:20 final size:20
Alignment explanation
Indices: 24080580--24080624 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
24080570 TTGTAGCAGC
* *
24080580 AATATCGATACCTTAGGAAA
1 AATATCAATACCTTAAGAAA
*
24080600 TATATCAATACCTTAAGAAA
1 AATATCAATACCTTAAGAAA
24080620 AATAT
1 AATAT
24080625 TTATACTGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (20 bp):
AATATCAATACCTTAAGAAA
Found at i:24081284 original size:42 final size:42
Alignment explanation
Indices: 24081160--24082186 Score: 1594
Period size: 42 Copynumber: 24.4 Consensus size: 42
24081150 ACGTCGCTAA
* *
24081160 CTTTTGCGGCGCTTATAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGC-T-TAGGAAAAAACGCCGCTAAAGATCATGTT
* *
24081204 CTTTAGCGGCACTAAGGAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAA-AAACGCCGCTAAAGATCATGTT
* *
24081247 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
*
24081289 CTTTAGCGGCGCTTAGGAAAAAACGCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* *
24081331 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
*
24081373 CTTTAGCGGCGCTTAGGAAAAAACGCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* *
24081415 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
*
24081457 CTTTAGCGGCGCTTAGGAAAAAACGCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* *
24081499 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
*
24081541 CTTTAGCGGCGCTTAGGAAAAAACGCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* *
24081583 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
*
24081625 CTTTAGCGGCGCTTAGGAAAAAACGCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* *
24081667 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
*
24081709 CTTTAGCGGCGCTTAGGAAAAAACGCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* *
24081751 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
*
24081793 CTTTAGCGGCGCTTAGGAAAAAACGCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* *
24081835 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
*
24081877 CTTTAGCGGCGCTTAGGAAAAAACGCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* *
24081919 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
*
24081961 CTTTAGCGGCGCTTAGGAAAAAACGCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* *
24082003 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
*
24082045 CTTTAGCGGCGCTTAGGAAAAAACGCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* * *
24082087 CTTTAGCGGCGCTTAGGAAGAAAATGCTGCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAGA-TCATGTT
* *
24082130 CTATAGCGGCGCTT-GGTCAAAAACGCCGCTAACAG-T-AGTGTT
1 CTTTAGCGGCGCTTAGG-AAAAAACGCCGCTAA-AGATCA-TGTT
*
24082172 CTTTAGCGGTGCTTA
1 CTTTAGCGGCGCTTA
24082187 TTTCACAAAC
Statistics
Matches: 902, Mismatches: 73, Indels: 17
0.91 0.07 0.02
Matches are distributed among these distances:
41 1 0.00
42 817 0.91
43 74 0.08
44 10 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
Found at i:24081335 original size:84 final size:84
Alignment explanation
Indices: 24081160--24082187 Score: 1830
Period size: 84 Copynumber: 12.2 Consensus size: 84
24081150 ACGTCGCTAA
* * * *
24081160 CTTTTGCGGCGCTTATAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTAAGGAAAT
1 CTTTAGCGGCGCTTAT-G-AAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAA-
*
24081225 AAACGCCGCTAAAGATCATGTT
63 AAACGCTGCTAAAGATCATGTT
24081247 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
24081312 CGCTGCTAAAGATCATGTT
66 CGCTGCTAAAGATCATGTT
24081331 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
24081396 CGCTGCTAAAGATCATGTT
66 CGCTGCTAAAGATCATGTT
24081415 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
24081480 CGCTGCTAAAGATCATGTT
66 CGCTGCTAAAGATCATGTT
24081499 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
24081564 CGCTGCTAAAGATCATGTT
66 CGCTGCTAAAGATCATGTT
24081583 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
24081648 CGCTGCTAAAGATCATGTT
66 CGCTGCTAAAGATCATGTT
24081667 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
24081732 CGCTGCTAAAGATCATGTT
66 CGCTGCTAAAGATCATGTT
24081751 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
24081816 CGCTGCTAAAGATCATGTT
66 CGCTGCTAAAGATCATGTT
24081835 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
24081900 CGCTGCTAAAGATCATGTT
66 CGCTGCTAAAGATCATGTT
24081919 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
24081984 CGCTGCTAAAGATCATGTT
66 CGCTGCTAAAGATCATGTT
24082003 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
24082068 CGCTGCTAAAGATCATGTT
66 CGCTGCTAAAGATCATGTT
* * * * * * *
24082087 CTTTAGCGGCGCTTAGGAAGAAAATGCTGCTA-AAAGTAATGTTCTATAGCGGCGCTT-GGTCAA
1 CTTTAGCGGCGCTTATGAA-AAAACGCCGCTACAGA-TCATGTTCTTTAGCGGCGCTTAGG-AAA
*
24082150 AAACGCCGCTAACAG-T-AGTGTT
63 AAACGCTGCTAA-AGATCA-TGTT
*
24082172 CTTTAGCGGTGCTTAT
1 CTTTAGCGGCGCTTAT
24082188 TTCACAAACG
Statistics
Matches: 921, Mismatches: 15, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
84 800 0.87
85 103 0.11
86 3 0.00
87 15 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (84 bp):
CTTTAGCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAA
CGCTGCTAAAGATCATGTT
Found at i:24082658 original size:21 final size:21
Alignment explanation
Indices: 24082634--24082691 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
24082624 GCTTCTATCG
* *
24082634 CTGCTTCTGTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
24082655 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
24082676 CTGCTTCCCTCGCTGC
1 CTGCTTCTCTCGCTGC
24082692 CGCCCCTACT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.02, C:0.41, G:0.22, T:0.34
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:24088165 original size:9 final size:9
Alignment explanation
Indices: 24088151--24088486 Score: 162
Period size: 9 Copynumber: 39.6 Consensus size: 9
24088141 TTATACATTG
24088151 TGTAAGTTA
1 TGTAAGTTA
*
24088160 TGTAAGTTG
1 TGTAAGTTA
* *
24088169 CGTAAGTTG
1 TGTAAGTTA
24088178 TGT-A-TTA
1 TGTAAGTTA
* *
24088185 TGAAACTTA
1 TGTAAGTTA
24088194 TGTAAGTTA
1 TGTAAGTTA
*
24088203 TGT--CTTA
1 TGTAAGTTA
24088210 TGTAAGTTA
1 TGTAAGTTA
* *
24088219 TGCAAATTA
1 TGTAAGTTA
24088228 TGT-A-TTA
1 TGTAAGTTA
*
24088235 TGTAACTTA
1 TGTAAGTTA
*
24088244 TGTAAGTTG
1 TGTAAGTTA
24088253 TGT-A-TTA
1 TGTAAGTTA
*
24088260 TATAAGTTA
1 TGTAAGTTA
*
24088269 TGTAAGTTG
1 TGTAAGTTA
24088278 TGT-A-TTA
1 TGTAAGTTA
24088285 TGTAAGTTA
1 TGTAAGTTA
*
24088294 TGTAAGTTTT
1 TGTAAG-TTA
** *
24088304 TGT-TTTTG
1 TGTAAGTTA
24088312 TGT-A-TTA
1 TGTAAGTTA
*
24088319 TGTAACTTA
1 TGTAAGTTA
* *
24088328 TTTAATTTA
1 TGTAAGTTA
* *
24088337 TGTAGGGTA
1 TGTAAGTTA
24088346 TGTATTA-TTA
1 TGTA--AGTTA
*
24088356 TGTAACTTA
1 TGTAAGTTA
* *
24088365 TTTAATTTA
1 TGTAAGTTA
* *
24088374 TGTAGGGTA
1 TGTAAGTTA
24088383 TGTAAGTTA
1 TGTAAGTTA
*
24088392 TGTAAGTTG
1 TGTAAGTTA
24088401 TGT-A-TTA
1 TGTAAGTTA
* *
24088408 TTTACA--CA
1 TGTA-AGTTA
*
24088416 TGTAAGTTG
1 TGTAAGTTA
24088425 TGT-A-TTA
1 TGTAAGTTA
24088432 TGTAAGTTA
1 TGTAAGTTA
*
24088441 TGCAAGTTA
1 TGTAAGTTA
24088450 TGT-A-TTA
1 TGTAAGTTA
* *
24088457 AGTAGGTTA
1 TGTAAGTTA
24088466 TGTAAGTTA
1 TGTAAGTTA
*
24088475 CGT-A-TTA
1 TGTAAGTTA
24088482 TGTAA
1 TGTAA
24088487 ATTAATATAT
Statistics
Matches: 245, Mismatches: 57, Indels: 51
0.69 0.16 0.14
Matches are distributed among these distances:
7 50 0.20
8 25 0.10
9 159 0.65
10 11 0.04
ACGTcount: A:0.29, C:0.03, G:0.20, T:0.47
Consensus pattern (9 bp):
TGTAAGTTA
Found at i:24088228 original size:25 final size:25
Alignment explanation
Indices: 24088157--24088301 Score: 182
Period size: 25 Copynumber: 5.8 Consensus size: 25
24088147 ATTGTGTAAG
** *
24088157 TTATGTAAGTTGCGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTATGTA
* * *
24088182 TTATGAAACTTATGTAAGTTATGTC
1 TTATGTAAGTTATGTAAGTTATGTA
* *
24088207 TTATGTAAGTTATGCAAATTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
* *
24088232 TTATGTAACTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTATGTA
* *
24088257 TTATATAAGTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTATGTA
24088282 TTATGTAAGTTATGTAAGTT
1 TTATGTAAGTTATGTAAGTT
24088302 TTTGTTTTTG
Statistics
Matches: 102, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 102 1.00
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.46
Consensus pattern (25 bp):
TTATGTAAGTTATGTAAGTTATGTA
Found at i:24088300 original size:34 final size:34
Alignment explanation
Indices: 24088151--24088453 Score: 152
Period size: 34 Copynumber: 8.6 Consensus size: 34
24088141 TTATACATTG
**
24088151 TGTAAGTTATGTAAGTTGCGTAAGTTGTGTATTA
1 TGTAAGTTATGTAAGTTATGTAAGTTGTGTATTA
* * * *
24088185 TGAAACTTATGTAAGTTATGT--CTTATGTAAGTTA
1 TGTAAGTTATGTAAGTTATGTAAGTTGTGT-A-TTA
* * * * *
24088219 TGCAAATTATGT-A-TTATGTAACTTATGTAAGTTG
1 TGTAAGTTATGTAAGTTATGTAAGTTGTGT-A-TTA
*
24088253 TGT-A-TTATATAAGTTATGTAAGTTGTGTATTA
1 TGTAAGTTATGTAAGTTATGTAAGTTGTGTATTA
* **
24088285 TGTAAGTTATGTAAGTTTTTGT-TTTTGTGTATTA
1 TGTAAGTTATGTAAG-TTATGTAAGTTGTGTATTA
* * * * *
24088319 TGTAACTTATTTAATTTATGTAGGGTATGTATTATTA
1 TGTAAGTTATGTAAGTTATGTA-AGT-TGT-GTATTA
* * * * * *
24088356 TGTAACTTATTTAATTTATGTAGGGTATGTAAGTTA
1 TGTAAGTTATGTAAGTTATGTAAGTTGTGT-A-TTA
* *
24088392 TGTAAGTTGTGTATTATTTACACATGTAAGTTGTGTATTA
1 TGTAAGTTATGTA--AGTT----ATGTAAGTTGTGTATTA
*
24088432 TGTAAGTTATGCAAGTTATGTA
1 TGTAAGTTATGTAAGTTATGTA
24088454 TTAAGTAGGT
Statistics
Matches: 211, Mismatches: 37, Indels: 42
0.73 0.13 0.14
Matches are distributed among these distances:
32 21 0.10
33 11 0.05
34 93 0.44
35 9 0.04
36 18 0.09
37 27 0.13
38 7 0.03
40 14 0.07
41 1 0.00
42 10 0.05
ACGTcount: A:0.29, C:0.03, G:0.20, T:0.48
Consensus pattern (34 bp):
TGTAAGTTATGTAAGTTATGTAAGTTGTGTATTA
Found at i:24088320 original size:50 final size:50
Alignment explanation
Indices: 24088157--24088486 Score: 223
Period size: 50 Copynumber: 6.7 Consensus size: 50
24088147 ATTGTGTAAG
** * *
24088157 TTATGTAAGTTGCGTAAGTTGTGTATTATGAAACTTATGTAAGTTATGTC
1 TTATGTAAGTTATGTAAGTTGTGTATTATGTAACTTATGTAAGTTATGTA
* * * *
24088207 TTATGTAAGTTATGCAAATTATGTATTATGTAACTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTGTGTATTATGTAACTTATGTAAGTTATGTA
* * *
24088257 TTATATAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTTTTTGT-
1 TTATGTAAGTTATGTAAGTTGTGTATTATGTAACTTATGTAAG-TTATGTA
* * * * * *
24088307 TTTTGT--G-TAT-T-A--TGT-AACTTATTTAATTTATGTAGGGTATGTATTA
1 TTATGTAAGTTATGTAAGTTGTGTA-TTATGTAACTTATGTAAGTTATG---TA
* * * * * * *
24088353 TTATGTAACTTATTTAATTTATGTAGGGTATGTAAGTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTGTGTA--TTATGTAACTTATGTAAGTTATGTA
* * * *
24088405 TTATTTACA--CATGTAAGTTGTGTATTATGTAAGTTATGCAAGTTATGTA
1 TTATGTA-AGTTATGTAAGTTGTGTATTATGTAACTTATGTAAGTTATGTA
* * **
24088454 TTAAGTAGGTTATGTAAGTTACGTATTATGTAA
1 TTATGTAAGTTATGTAAGTTGTGTATTATGTAA
24088487 ATTAATATAT
Statistics
Matches: 215, Mismatches: 47, Indels: 36
0.72 0.16 0.12
Matches are distributed among these distances:
42 4 0.02
43 18 0.08
45 2 0.01
46 6 0.03
47 3 0.01
48 1 0.00
49 30 0.14
50 105 0.49
51 17 0.08
52 8 0.04
53 3 0.01
54 1 0.00
55 17 0.08
ACGTcount: A:0.29, C:0.03, G:0.20, T:0.48
Consensus pattern (50 bp):
TTATGTAAGTTATGTAAGTTGTGTATTATGTAACTTATGTAAGTTATGTA
Found at i:24088359 original size:37 final size:37
Alignment explanation
Indices: 24088314--24088386 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
24088304 TGTTTTTGTG
24088314 TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
1 TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
24088351 TATTATGTAACTTATTTAATTTATGTAGGGTATGTA
1 TATTATGTAACTTATTTAATTTATGTAGGGTATGTA
24088387 AGTTATGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.51
Consensus pattern (37 bp):
TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
Found at i:24088465 original size:25 final size:25
Alignment explanation
Indices: 24088419--24088486 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
24088409 TTACACATGT
* *
24088419 AAGTTGTGTATTATGTAAGTTATGC
1 AAGTTATGTATTAAGTAAGTTATGC
* *
24088444 AAGTTATGTATTAAGTAGGTTATGT
1 AAGTTATGTATTAAGTAAGTTATGC
* *
24088469 AAGTTACGTATTATGTAA
1 AAGTTATGTATTAAGTAA
24088487 ATTAATATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.32, C:0.03, G:0.22, T:0.43
Consensus pattern (25 bp):
AAGTTATGTATTAAGTAAGTTATGC
Found at i:24088482 original size:16 final size:17
Alignment explanation
Indices: 24088191--24088486 Score: 109
Period size: 16 Copynumber: 17.5 Consensus size: 17
24088181 ATTATGAAAC
*
24088191 TTATGTAAGTTATGT-C
1 TTATGTAAGTTATGTAG
* *
24088207 TTATGTAAGTTATGCAAA
1 TTATGTAAGTTATG-TAG
*
24088225 TTATGT-A-TTATGTAAC
1 TTATGTAAGTTATGT-AG
*
24088241 TTATGTAAGTTGTGTA-
1 TTATGTAAGTTATGTAG
*
24088257 TTATATAAGTTATGTAAG
1 TTATGTAAGTTATGT-AG
*
24088275 TTGTGT-A-TTATGTAAG
1 TTATGTAAGTTATGT-AG
* **
24088291 TTATGTAAGTTTTTGTTT
1 TTATGTAAG-TTATGTAG
* *
24088309 TTGTGT-A-TTATGTAAC
1 TTATGTAAGTTATGT-AG
* *
24088325 TTATTTAATTTATGTAGG
1 TTATGTAAGTTATGTA-G
* *
24088343 GTATGTATTA-TTATGTAAC
1 TTATGTA--AGTTATGT-AG
* *
24088362 TTATTTAATTTATGTAGG
1 TTATGTAAGTTATGTA-G
*
24088380 GTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGT-AG
* * *
24088398 TTGTGT-A-TTATTTAC
1 TTATGTAAGTTATGTAG
** *
24088413 ACATGTAAGTTGTGTA-
1 TTATGTAAGTTATGTAG
*
24088429 TTATGTAAGTTATGCAAG
1 TTATGTAAGTTATG-TAG
*
24088447 TTATGT-A-TTAAGTAGG
1 TTATGTAAGTTATGTA-G
*
24088463 TTATGTAAGTTACGTA-
1 TTATGTAAGTTATGTAG
24088479 TTATGTAA
1 TTATGTAA
24088487 ATTAATATAT
Statistics
Matches: 208, Mismatches: 45, Indels: 54
0.68 0.15 0.18
Matches are distributed among these distances:
15 10 0.05
16 93 0.45
17 20 0.10
18 66 0.32
19 17 0.08
20 2 0.01
ACGTcount: A:0.29, C:0.03, G:0.19, T:0.48
Consensus pattern (17 bp):
TTATGTAAGTTATGTAG
Found at i:24091699 original size:115 final size:117
Alignment explanation
Indices: 24091559--24091805 Score: 266
Period size: 115 Copynumber: 2.1 Consensus size: 117
24091549 GCGTTTTTAT
* * * *
24091559 AAAAAACGCCGCTAATATCAATAAACAGT-ATAAAAACGATGTCGTTTTGTCTAAC-TTTCAACC
1 AAAAACCGCCGCTAATACCAATAAACA-TCATAAAAACGACGTCGTTTTGTCGAACTTTTCAACC
* * * * * *
24091622 AAATAATAAAAGTAAACAACGTCGTATTACAGAAATTTTTGCGGC-ATTTATG
65 AAAGAAGAAAACTAAACAACGTCGTATTAAAGAAATATTTGCGGCGATTTAGG
* ** * * *
24091674 TAAAACCGCCGCTAATACCGGTAAACATCATCAAAGCGACGTCGTTTTGTCGAACTTTTCGACCA
1 AAAAACCGCCGCTAATACCAATAAACATCATAAAAACGACGTCGTTTTGTCGAACTTTTCAACCA
* * * * * *
24091739 GAGCAGAACACTAAACGATGTCGTATTAAAGAAATATTTGCGGCGTTTTAGG
66 AAGAAGAAAACTAAACAACGTCGTATTAAAGAAATATTTGCGGCGATTTAGG
24091791 AAAAACCGCCGCTAA
1 AAAAACCGCCGCTAA
24091806 ATCCCCAAGC
Statistics
Matches: 106, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
114 1 0.01
115 44 0.42
116 42 0.40
117 19 0.18
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (117 bp):
AAAAACCGCCGCTAATACCAATAAACATCATAAAAACGACGTCGTTTTGTCGAACTTTTCAACCA
AAGAAGAAAACTAAACAACGTCGTATTAAAGAAATATTTGCGGCGATTTAGG
Found at i:24092139 original size:23 final size:23
Alignment explanation
Indices: 24092116--24092161 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
24092106 TAATATGTAT
24092116 AATT-TAAATATAATCAACATTATA
1 AATTATAAAT-TAATCAA-ATTATA
*
24092140 AATTATAAATTATTCAAATTAT
1 AATTATAAATTAATCAAATTAT
24092162 TCAAATAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 10 0.50
25 5 0.25
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (23 bp):
AATTATAAATTAATCAAATTATA
Found at i:24092277 original size:27 final size:28
Alignment explanation
Indices: 24092233--24092292 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
24092223 TAACTAATAC
* * *
24092233 AATAT-TAATATATTTATAT-GTTTCAT
1 AATATATAACATATATATATCGTTGCAT
24092259 AATATATAACATATATATATCGTTGCAT
1 AATATATAACATATATATATCGTTGCAT
24092287 -ATATAT
1 AATATAT
24092293 CTTTTTCTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 5 0.17
27 18 0.62
28 6 0.21
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (28 bp):
AATATATAACATATATATATCGTTGCAT
Found at i:24093374 original size:41 final size:40
Alignment explanation
Indices: 24093329--24093512 Score: 199
Period size: 41 Copynumber: 4.5 Consensus size: 40
24093319 GTGCTTTTCC
* * * *
24093329 AAAAACGCCGCTAATGACCAGATCATTAGTGGCGCTTATTA
1 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTA-TA
24093370 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTATA
1 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTATA
*
24093410 AGAAAACGCCGCTAAAGGCTAGAGCATTAGCGGCGCTT-TA
1 A-AAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTATA
* ** * * * *
24093450 CGAAAATCGCCGCTAAAAGGTTAGAGAATTAGCGGCGATTTGTC
1 --AAAAACGCCGCT-AAAGGCCAGAGCATTAGCGGCG-CTTATA
24093494 AAAAACGCCGCTAAAGGCC
1 AAAAACGCCGCTAAAGGCC
24093513 CAAAAAATAT
Statistics
Matches: 124, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
40 5 0.04
41 84 0.68
42 32 0.26
43 2 0.02
44 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTATA
Found at i:24100691 original size:17 final size:18
Alignment explanation
Indices: 24100658--24100690 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24100648 AATTTATAAT
24100658 AAAAATTATATTATTTTC
1 AAAAATTATATTATTTTC
24100676 AAAAA-TATATT-TTTT
1 AAAAATTATATTATTTT
24100691 TATCTTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (18 bp):
AAAAATTATATTATTTTC
Found at i:24106988 original size:33 final size:33
Alignment explanation
Indices: 24106942--24107004 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
24106932 TATTTCCATA
24106942 TGAATAGGCCATCTACAAATACTTCAGATAAGT
1 TGAATAGGCCATCTACAAATACTTCAGATAAGT
*
24106975 TGAATAGGTCATCTACAAATACTTCAGATA
1 TGAATAGGCCATCTACAAATACTTCAGATA
24107005 GGCAAGCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (33 bp):
TGAATAGGCCATCTACAAATACTTCAGATAAGT
Found at i:24113514 original size:3 final size:3
Alignment explanation
Indices: 24113506--24113531 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24113496 TAGCCAATCT
24113506 TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TC
24113532 AATATCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
TCC
Found at i:24113748 original size:6 final size:6
Alignment explanation
Indices: 24113737--24113762 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
24113727 AGGGAGCGGA
24113737 ATGTCC ATGTCC ATGTCC ATGTCC AT
1 ATGTCC ATGTCC ATGTCC ATGTCC AT
24113763 AGGAAGGAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.35
Consensus pattern (6 bp):
ATGTCC
Found at i:24116267 original size:173 final size:174
Alignment explanation
Indices: 24116080--24116424 Score: 665
Period size: 173 Copynumber: 2.0 Consensus size: 174
24116070 AGTTTGATTT
24116080 ATTTATTCAGTCAATATTAAAAAAAATTGAATAAATAGTTTTTAATTTAATTTGAATTAATTATA
1 ATTTATTCAGTCAATATTAAAAAAAATTGAATAAATAGTTTTTAATTTAATTTGAATTAATTATA
*
24116145 TATTAAAATATTTTTATTTAATTTTATTTATAAATCTATATATAGCATATTAGTAT-GAAAATTC
66 TATTAAAATATTTTTATTTAATTTTATTTATAAATCTATATATAGCATATTAGTATAAAAAATTC
24116209 TTAAATATTGATACAAACTTTGAATCGATTCAAGTAAAAAAAAG
131 TTAAATATTGATACAAACTTTGAATCGATTCAAGTAAAAAAAAG
24116253 ATTTATTCAGTCAATATTAAAAAAAATTGAATAAATAGTTTTTAATTTAATTTGAATTAATTATA
1 ATTTATTCAGTCAATATTAAAAAAAATTGAATAAATAGTTTTTAATTTAATTTGAATTAATTATA
*
24116318 TATTAAAATATTTTTGTTTAATTTTATTTATAAATCTATATATAGCATATTAGTATAAAAAATTC
66 TATTAAAATATTTTTATTTAATTTTATTTATAAATCTATATATAGCATATTAGTATAAAAAATTC
24116383 TTAAATATTGATACAAACTTTGAATCGATTCAAGTAAAAAAA
131 TTAAATATTGATACAAACTTTGAATCGATTCAAGTAAAAAAA
24116425 TACTTATTCA
Statistics
Matches: 169, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
173 120 0.71
174 49 0.29
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (174 bp):
ATTTATTCAGTCAATATTAAAAAAAATTGAATAAATAGTTTTTAATTTAATTTGAATTAATTATA
TATTAAAATATTTTTATTTAATTTTATTTATAAATCTATATATAGCATATTAGTATAAAAAATTC
TTAAATATTGATACAAACTTTGAATCGATTCAAGTAAAAAAAAG
Found at i:24116667 original size:16 final size:15
Alignment explanation
Indices: 24116629--24116669 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
24116619 TTTCACCAAA
24116629 AAAATTTTAATTTTG
1 AAAATTTTAATTTTG
* *
24116644 AAAGTTTTATATTTTT
1 AAAATTTTA-ATTTTG
24116660 AAAATTTTAA
1 AAAATTTTAA
24116670 ATAAATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
AAAATTTTAATTTTG
Found at i:24118314 original size:68 final size:68
Alignment explanation
Indices: 24118161--24118316 Score: 169
Period size: 68 Copynumber: 2.3 Consensus size: 68
24118151 TTTTTTTATG
* * *
24118161 TTTCATCAAAAAGTTAATTTTAATCTCATATTGATAAGAGAATACTCTCATGTACACTTATTCAT
1 TTTCATTAAAAAGTTAATTTTAATCTCATATTAATAAGAGAATACTCTCATGTACACTTATTCAC
*
24118226 TAT
66 TAA
* * *
24118229 TTTTATTAAAAAGTTAATTTTAATCAT-ATATTAACT-AGAGAATACT-TCTATGCCT-TACTTC
1 TTTCATTAAAAAGTTAATTTTAATC-TCATATTAA-TAAGAGAATACTCTC-ATG--TACACTTA
24118290 TTCACTAA
61 TTCACTAA
24118298 TTTCATTAAAAA-TTAATTT
1 TTTCATTAAAAAGTTAATTT
24118317 AGTTCTTTTA
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
67 2 0.03
68 49 0.65
69 23 0.31
70 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (68 bp):
TTTCATTAAAAAGTTAATTTTAATCTCATATTAATAAGAGAATACTCTCATGTACACTTATTCAC
TAA
Found at i:24118535 original size:84 final size:82
Alignment explanation
Indices: 24118378--24118536 Score: 230
Period size: 84 Copynumber: 1.9 Consensus size: 82
24118368 ATGCTCATGC
* *
24118378 TTATCCTATAAAAAAGTGTCAATTTCTTTATTTTCATTAAAAAGTTAATTTTAATCTCACATTAC
1 TTATCCTATAAAAAAGTGTCAATTTCTTTATTTTCATTAAAAAGTTAATTTTAATCCCACATTAA
*
24118443 CTATAAAACATTCACAT
66 CTAGAAAACATTCACAT
* *
24118460 TTATCTTATAAATAAGTGAT-AATTTCTTCATATTTTCATTAAAAAGTTAATTTTAATCCCACAT
1 TTATCCTATAAAAAAGTG-TCAATTTCTT--TATTTTCATTAAAAAGTTAATTTTAATCCCACAT
*
24118524 TAATTAGAAAACA
63 TAACTAGAAAACA
24118537 CTCTCATATC
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
82 24 0.35
83 1 0.01
84 43 0.63
ACGTcount: A:0.40, C:0.14, G:0.04, T:0.42
Consensus pattern (82 bp):
TTATCCTATAAAAAAGTGTCAATTTCTTTATTTTCATTAAAAAGTTAATTTTAATCCCACATTAA
CTAGAAAACATTCACAT
Found at i:24118686 original size:21 final size:22
Alignment explanation
Indices: 24118660--24118702 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
24118650 ACTATTTTTA
*
24118660 TTAAAAA-TTACTTTTAATCCC
1 TTAAAAATTTAATTTTAATCCC
24118681 TTAAAAATTTAATTTTAATCCC
1 TTAAAAATTTAATTTTAATCCC
24118703 ACATTGACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAAAAATTTAATTTTAATCCC
Found at i:24119324 original size:87 final size:89
Alignment explanation
Indices: 24119226--24119391 Score: 212
Period size: 87 Copynumber: 1.8 Consensus size: 89
24119216 GTGCTTACAC
* * *
24119226 TTACCCTATAAATAAGTG-TCAATTTCTTCACTATTTTC-AAA-TTAATTTTAATTGCACATTGA
1 TTACCCTATAAATAAATGAT-AAATTCTTCACTATTTTCAAAAGTTAATTTTAATCGCACATTGA
24119288 TTAGAGAACACCCCATATCTCACAT
65 TTAGAGAACACCCCATATCTCACAT
* *
24119313 TTACCTTATAAATAAATGATAAATTCTTTACTATTTTCATTAAAAAGTTAATTTTAATCGCACAT
1 TTACCCTATAAATAAATGATAAATTCTTCACTATTTTC----AAAAGTTAATTTTAATCGCACAT
*
24119378 TTATTAGAGAACAC
62 TGATTAGAGAACAC
24119392 TCTTATAGTT
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
87 32 0.48
88 1 0.02
92 3 0.05
93 30 0.45
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (89 bp):
TTACCCTATAAATAAATGATAAATTCTTCACTATTTTCAAAAGTTAATTTTAATCGCACATTGAT
TAGAGAACACCCCATATCTCACAT
Found at i:24121926 original size:44 final size:45
Alignment explanation
Indices: 24121861--24121992 Score: 187
Period size: 45 Copynumber: 3.0 Consensus size: 45
24121851 TTGATGTGCT
* * *
24121861 TTTA-CATGATGCCATAACATCTTTCAATTATGGTCTTACTTAT-
1 TTTATCATGATGCCATAGCATCTTTCAGTTATGGTCTTACTCATC
* *
24121904 TTTATCTTGATGCCATAGCATCTTTCAGTTGTGGTCTTACTCATC
1 TTTATCATGATGCCATAGCATCTTTCAGTTATGGTCTTACTCATC
* *
24121949 TTTATCATGATGCCATAGCATCTTTTAGCTATGGTCTTACTCAT
1 TTTATCATGATGCCATAGCATCTTTCAGTTATGGTCTTACTCAT
24121993 ATTGACATAT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 4 0.05
44 34 0.44
45 40 0.51
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.44
Consensus pattern (45 bp):
TTTATCATGATGCCATAGCATCTTTCAGTTATGGTCTTACTCATC
Found at i:24123325 original size:20 final size:19
Alignment explanation
Indices: 24123296--24123334 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
24123286 CAATAAGGAC
*
24123296 AATAAATACAATTAAATTTT
1 AATAAATAC-AGTAAATTTT
*
24123316 AATAATTACAGTAAATTTT
1 AATAAATACAGTAAATTTT
24123335 GAACAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (19 bp):
AATAAATACAGTAAATTTT
Found at i:24129532 original size:16 final size:16
Alignment explanation
Indices: 24129511--24129554 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
24129501 GGACAACACC
**
24129511 GGCACAAAGCCTGCTA
1 GGCACAAAGCCCACTA
*
24129527 GGCACAAAGCCCATTA
1 GGCACAAAGCCCACTA
24129543 GGCACAAAGCCC
1 GGCACAAAGCCC
24129555 GATAAATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.34, C:0.34, G:0.23, T:0.09
Consensus pattern (16 bp):
GGCACAAAGCCCACTA
Found at i:24131856 original size:29 final size:28
Alignment explanation
Indices: 24131812--24131868 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
24131802 TATGATTTTA
*
24131812 AAATTTTGAAACATTATAAAGTTTTAAT
1 AAATTTTGAAACATTATAAAGTTCTAAT
*
24131840 AAATTTT-AAACAAATTATAATGTTCTAAT
1 AAATTTTGAAAC--ATTATAAAGTTCTAAT
24131869 TTTTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.16
28 7 0.28
29 14 0.56
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (28 bp):
AAATTTTGAAACATTATAAAGTTCTAAT
Found at i:24133255 original size:3 final size:3
Alignment explanation
Indices: 24133242--24133313 Score: 56
Period size: 3 Copynumber: 23.0 Consensus size: 3
24133232 TGTACATGAA
* * * *
24133242 AAT AAT AAAT AAT AAA AAT AAT AAAT AAG AAT AAG AAT AAT AAAC AAGT
1 AAT AAT -AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT -AAT AA-T
*
24133291 AAT AAT AA- AAA AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
24133314 GTAAAAAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
2 2 0.04
3 43 0.78
4 10 0.18
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:24133296 original size:14 final size:14
Alignment explanation
Indices: 24133240--24133312 Score: 74
Period size: 14 Copynumber: 4.9 Consensus size: 14
24133230 TATGTACATG
24133240 AAAATAATAAATAATA
1 AAAATAAT-AATAA-A
24133256 AAAATAATAAATAAGA
1 AAAATAAT-AATAA-A
* *
24133272 ATAAGAATAATAAA
1 AAAATAATAATAAA
* *
24133286 CAAGTAATAATAAA
1 AAAATAATAATAAA
24133300 AAAATAATAATAA
1 AAAATAATAATAA
24133313 TGTAAAAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
14 22 0.46
15 5 0.10
16 21 0.44
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.22
Consensus pattern (14 bp):
AAAATAATAATAAA
Found at i:24155327 original size:34 final size:34
Alignment explanation
Indices: 24155252--24155349 Score: 137
Period size: 34 Copynumber: 2.9 Consensus size: 34
24155242 ATTTTAAAAA
24155252 AAAATTAATTAAATTAGGTTTTAAGGG--TTTAAG
1 AAAATTAATTAAATTAGGTTTT-AGGGTTTTTAAG
* *
24155285 TAAGTTAATTAAATTAGGTTTTAGGGTTTTTAAG
1 AAAATTAATTAAATTAGGTTTTAGGGTTTTTAAG
* *
24155319 AAAATTAATTGAATTAGGTTTTAGGTTTTTT
1 AAAATTAATTAAATTAGGTTTTAGGGTTTTT
24155350 TAAAAATAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
32 4 0.07
33 20 0.35
34 33 0.58
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (34 bp):
AAAATTAATTAAATTAGGTTTTAGGGTTTTTAAG
Found at i:24155356 original size:33 final size:32
Alignment explanation
Indices: 24155251--24155360 Score: 109
Period size: 33 Copynumber: 3.3 Consensus size: 32
24155241 AATTTTAAAA
*
24155251 AAAAATTAATTAAATTAGGTTTTAAGG--GTTT
1 AAAAATTAATTAAATTAGGTTTT-AGGTTTTTT
* *
24155282 AAGTAAGTTAATTAAATTAGGTTTTAGGGTTTTTA
1 AA--AAATTAATTAAATTAGGTTTTA-GGTTTTTT
*
24155317 AGAAAATTAATTGAATTAGGTTTTAGGTTTTTTT
1 A-AAAATTAATTAAATTAGGTTTTAGG-TTTTTT
24155351 AAAAA-TAATT
1 AAAAATTAATT
24155361 TTGTGTTTAG
Statistics
Matches: 66, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
31 2 0.03
32 6 0.09
33 28 0.42
34 26 0.39
35 3 0.05
36 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (32 bp):
AAAAATTAATTAAATTAGGTTTTAGGTTTTTT
Found at i:24155668 original size:123 final size:126
Alignment explanation
Indices: 24155440--24155826 Score: 405
Period size: 123 Copynumber: 3.1 Consensus size: 126
24155430 GAAGAATTTT
** * * ** * * *
24155440 TTTTTCTACAGTAGTTTCTGAAAAA-TAATTTTGAGAAGAC-GATTCCGAAAAATTAATGTCAAA
1 TTTTTCTACAGTAGTTTCCAAAAAAGTAATTTAGAGAAAACAG-TTCTAAAAAAATACTATCAAA
* * *
24155503 AACGCTTCAAGCAGTATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGTTC
65 AACGCTTCAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
* *
24155565 -TTTTATACAGTAG-TTCCAGAAAAA-TAA-TTAGAGAAAACATTTCTAAAAAAAATACTATC-A
1 TTTTTCTACAGTAGTTTCCA-AAAAAGTAATTTAGAGAAAACAGTTCT-AAAAAAATACTATCAA
* * * *
24155625 AAACGCTTCAAACAGGATGCACTGTCAACAAAATTACT-AAAAAAGCTCTCACATGGATGTTC
64 AAACGCTTCAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
* * * * * * * *
24155687 TTTTTCTACAATAGTTTCTAAAAAAGTAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTTCCAAAAAAGTAATTTAGAGAAAACAGTTCTAAAAAAATACTATCAAAA
* * * *
24155752 AC-ATTCCAAACAGGATGCACTATCAGCAAAATTACTGAAACAAGCTCCCACGTGGACGCTC
66 ACGCTT-CAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
24155813 TTTTTCTACAGTAG
1 TTTTTCTACAGTAG
24155827 CTCCTGTTTG
Statistics
Matches: 215, Mismatches: 37, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
122 21 0.10
123 66 0.31
124 50 0.23
125 46 0.21
126 32 0.15
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTTCCAAAAAAGTAATTTAGAGAAAACAGTTCTAAAAAAATACTATCAAAA
ACGCTTCAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
Found at i:24157287 original size:26 final size:26
Alignment explanation
Indices: 24157258--24157311 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
24157248 AGCAGAAAGC
24157258 ATTAGAAAAGATGCATAGTGGGTGAG
1 ATTAGAAAAGATGCATAGTGGGTGAG
24157284 ATTAGAAAAGATGCATAGTGGGTGAG
1 ATTAGAAAAGATGCATAGTGGGTGAG
24157310 AT
1 AT
24157312 GCTTCACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.04, G:0.33, T:0.24
Consensus pattern (26 bp):
ATTAGAAAAGATGCATAGTGGGTGAG
Found at i:24167533 original size:162 final size:160
Alignment explanation
Indices: 24167235--24167602 Score: 365
Period size: 162 Copynumber: 2.3 Consensus size: 160
24167225 GTTAATGTAG
* *
24167235 GATTAAAATTAACATTTTAATAAAAATAGTGAAAAAATTGACACTTATTTATAGGATAAGTGTGA
1 GATTAAAATTAACATTTTAATAAAAATAGTGAAAAAATTGACAC-TATTTATAAGATAAATGTGA
* * * *
24167300 GCATGAAAGTGTTCTCTGGCCAAGGTGGGATTAAAATTAACTTTTTAATGAAAATAATGAAGAAA
65 GCATCAAAGTGTTCTCTAGCCAAGATAGGATTAAAATTAACTTTTTAAT-AAAATAATGAAGAAA
24167365 TGAGCTATGGAGTATTTTTTTAGTCAATGTGA
129 TGAGCTATGGAGTATTTTTTTAGTCAATGTGA
* * **
24167397 GATTAAAATTAACTTTTTAATAAAAAT-GTTGAAGAAATTTCCAC-ATTTAATAAGATAAATGTG
1 GATTAAAATTAACATTTTAATAAAAATAG-TGAAAAAATTGACACTATTT-ATAAGATAAATGTG
* * *
24167460 AG-ATACAAGAGTGTTCTCTAGTCAATATAGGATTAAAATTAA-TTCTTTAAT-AAA-AATGGAG
64 AGCAT-CAA-AGTGTTCTCTAGCCAAGATAGGATTAAAATTAACTT-TTTAATAAAATAATGAAG
* * * * * *
24167521 AATAGGTGAGCTATGAAAGT-GTTCTCTAATTAATGT-A
126 AA-A--TGAGCTATG-GAGTATTTTTTTAGTCAATGTGA
* * * *
24167558 GGATTAAAAATAACATTTTGATAAAAATAATGAAGAAATTGACAC
1 -GATTAAAATTAACATTTTAATAAAAATAGTGAAAAAATTGACAC
24167603 ATTAAAAATA
Statistics
Matches: 170, Mismatches: 25, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
159 8 0.05
160 10 0.06
161 20 0.12
162 129 0.76
163 3 0.02
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (160 bp):
GATTAAAATTAACATTTTAATAAAAATAGTGAAAAAATTGACACTATTTATAAGATAAATGTGAG
CATCAAAGTGTTCTCTAGCCAAGATAGGATTAAAATTAACTTTTTAATAAAATAATGAAGAAATG
AGCTATGGAGTATTTTTTTAGTCAATGTGA
Found at i:24170847 original size:15 final size:15
Alignment explanation
Indices: 24170796--24170857 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
24170786 AGTCCCTTTA
*
24170796 TTATTATTATTTA-G
1 TTATTATTATTAATG
* * *
24170810 TTCATTGTTTTTATTG
1 TT-ATTATTATTAATG
*
24170826 CTATTATTATTAATG
1 TTATTATTATTAATG
*
24170841 TTATTATTATTATTG
1 TTATTATTATTAATG
24170856 TT
1 TT
24170858 TCTACATTTC
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
14 2 0.06
15 32 0.89
16 2 0.06
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.65
Consensus pattern (15 bp):
TTATTATTATTAATG
Found at i:24170854 original size:30 final size:30
Alignment explanation
Indices: 24170797--24170855 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
24170787 GTCCCTTTAT
* * *
24170797 TATTATTATTTAGTTCATTGTTTTTATTGC
1 TATTATTATTAAGTTCATTATTATTATTGC
24170827 TATTATTATTAATGTT-ATTATTATTATTG
1 TATTATTATTAA-GTTCATTATTATTATTG
24170856 TTTCTACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.25, C:0.03, G:0.08, T:0.63
Consensus pattern (30 bp):
TATTATTATTAAGTTCATTATTATTATTGC
Found at i:24172720 original size:3 final size:3
Alignment explanation
Indices: 24172714--24173517 Score: 1608
Period size: 3 Copynumber: 268.0 Consensus size: 3
24172704 GAATTAGAGG
24172714 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24172762 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24172810 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24172858 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24172906 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24172954 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24173002 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24173050 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24173098 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24173146 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24173194 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24173242 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24173290 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24173338 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24173386 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24173434 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24173482 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24173518 GAAATTTGAG
Statistics
Matches: 801, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 801 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:24174150 original size:29 final size:30
Alignment explanation
Indices: 24174086--24174142 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
24174076 GTGGAGAAGA
* *
24174086 AAAAAACATAAACATATTGGGTTATTTACG
1 AAAAAACATAAAAATATTGGGTAATTTACG
*
24174116 CAAAAA-ATAAAAATATTGGGTAATTTA
1 AAAAAACATAAAAATATTGGGTAATTTA
24174143 TTAAAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (30 bp):
AAAAAACATAAAAATATTGGGTAATTTACG
Found at i:24180264 original size:5 final size:5
Alignment explanation
Indices: 24180254--24180280 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
24180244 AAAATGTACA
24180254 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
24180281 TGTTCGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:24182468 original size:50 final size:50
Alignment explanation
Indices: 24182353--24182601 Score: 318
Period size: 50 Copynumber: 4.8 Consensus size: 50
24182343 GATCATAACA
* ** *
24182353 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * *
24182404 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
24182454 TGCCAACGCCATGTCCCAAACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
24182504 TGCCAACGGCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
* *
24182559 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
24182602 TTACCCAAAT
Statistics
Matches: 173, Mismatches: 19, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
50 93 0.54
51 34 0.20
53 5 0.03
55 2 0.01
56 39 0.23
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:24182717 original size:13 final size:13
Alignment explanation
Indices: 24182696--24182727 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
24182686 GCTTGGATCA
*
24182696 TCATCAAATAAAT
1 TCATAAAATAAAT
24182709 TCATAAAATAAAT
1 TCATAAAATAAAT
24182722 TCATAA
1 TCATAA
24182728 TTGCTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:24184372 original size:26 final size:26
Alignment explanation
Indices: 24184342--24184391 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
24184332 ACAAGAAACT
*
24184342 CTTTCTCTAAGGTTAAAAGGAAAAAA
1 CTTTCCCTAAGGTTAAAAGGAAAAAA
24184368 CTTTCCCTAAGGTTAAAAGGAAAA
1 CTTTCCCTAAGGTTAAAAGGAAAA
24184392 TAAGATTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (26 bp):
CTTTCCCTAAGGTTAAAAGGAAAAAA
Found at i:24189592 original size:16 final size:16
Alignment explanation
Indices: 24189571--24189627 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
24189561 TTTGGTTCGC
*
24189571 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
24189587 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
24189603 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
24189619 TGTAATGGA
1 TGTAATGGA
24189628 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:24191393 original size:34 final size:34
Alignment explanation
Indices: 24191355--24191422 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
24191345 TCTGAAATTC
24191355 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
1 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
24191389 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
1 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
24191423 CTACATTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (34 bp):
AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
Found at i:24191695 original size:78 final size:78
Alignment explanation
Indices: 24191566--24191722 Score: 215
Period size: 78 Copynumber: 2.0 Consensus size: 78
24191556 TATTAGTCAA
* * *
24191566 GGGGTTAACAAGGAGTGAATTTGCAATTGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
* *
24191631 GGCAGCGACACTC
66 GACAGCAACACTC
** * * * *
24191644 GGGGTTAATGAGGACTGAATTCGCAATGGTGATTCTATCTTATTTGGCTTAGCTTCCTTTGGTAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
24191709 GACAGCAACACTC
66 GACAGCAACACTC
24191722 G
1 G
24191723 AAACTTGCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (78 bp):
GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
GACAGCAACACTC
Found at i:24201889 original size:18 final size:18
Alignment explanation
Indices: 24201866--24201901 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
24201856 CAATCTTCTA
24201866 ATATGATCTTATTATCAC
1 ATATGATCTTATTATCAC
24201884 ATATGATCTTATTATCAC
1 ATATGATCTTATTATCAC
24201902 CTTGAACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (18 bp):
ATATGATCTTATTATCAC
Found at i:24208336 original size:34 final size:35
Alignment explanation
Indices: 24208270--24208336 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
24208260 CAAACAGCAG
* *
24208270 AAAATATTTTCTAGTAAATCATTTTACAAAAAAAT
1 AAAACATTTTCTAGAAAATCATTTTACAAAAAAAT
* *
24208305 AAAACATTTTCTA-AAAATTATTTTACGAAAAA
1 AAAACATTTTCTAGAAAATCATTTTACAAAAAA
24208337 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (35 bp):
AAAACATTTTCTAGAAAATCATTTTACAAAAAAAT
Found at i:24209167 original size:17 final size:17
Alignment explanation
Indices: 24209147--24209179 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24209137 AATAAAACTA
24209147 ATTTTT-TAATATTTTTT
1 ATTTTTATAA-ATTTTTT
24209164 ATTTTTATAAATTTTT
1 ATTTTTATAAATTTTT
24209180 AATAATCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTTATAAATTTTTT
Found at i:24211923 original size:18 final size:17
Alignment explanation
Indices: 24211897--24211931 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24211887 AATACTAAGA
*
24211897 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
24211914 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
24211932 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:24212187 original size:16 final size:16
Alignment explanation
Indices: 24212166--24212233 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
24212156 GATTTGCTAT
24212166 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
24212182 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
24212198 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
24212214 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
24212230 TACA
1 TACA
24212234 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:24216827 original size:26 final size:28
Alignment explanation
Indices: 24216777--24216834 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 28
24216767 ATATATTTTT
24216777 AACTAAAAACATGGAAATCATTAAAAAAAA
1 AACTAAAAACATGG-AA-CATTAAAAAAAA
24216807 AACTAAAAACATGG-A-ATTAAAAAAAA
1 AACTAAAAACATGGAACATTAAAAAAAA
24216833 AA
1 AA
24216835 ACAACAACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 13 0.46
28 1 0.04
30 14 0.50
ACGTcount: A:0.69, C:0.09, G:0.07, T:0.16
Consensus pattern (28 bp):
AACTAAAAACATGGAACATTAAAAAAAA
Found at i:24223298 original size:4 final size:4
Alignment explanation
Indices: 24223289--24223324 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
24223279 AGAAACCTTT
24223289 CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA
24223325 ATGCATGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Done.