Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 325 of 325
Found at i:102307530 original size:3 final size:3
Alignment explanation
Indices: 102307504--102307554 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
102307494 GTGAGGTAAG
* * * *
102307504 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
102307552 TAT
1 TAT
102307555 GAGTGGGAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:102307551 original size:12 final size:12
Alignment explanation
Indices: 102307504--102307554 Score: 75
Period size: 12 Copynumber: 4.2 Consensus size: 12
102307494 GTGAGGTAAG
* *
102307504 TATTAATATTAG
1 TATTAGTATTAT
102307516 TATTAGTATTAT
1 TATTAGTATTAT
102307528 TATTAGTATTAT
1 TATTAGTATTAT
*
102307540 TATTATTATTAT
1 TATTAGTATTAT
102307552 TAT
1 TAT
102307555 GAGTGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (12 bp):
TATTAGTATTAT
Found at i:102313389 original size:4 final size:4
Alignment explanation
Indices: 102313382--102313429 Score: 87
Period size: 4 Copynumber: 12.0 Consensus size: 4
102313372 GCTTGCTTGC
*
102313382 ATGT ATGT ATGT ATGT ATGT ATGT ATGT TTGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
102313430 TGTGAATCGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (4 bp):
ATGT
Found at i:102327263 original size:18 final size:18
Alignment explanation
Indices: 102327240--102327275 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
102327230 GGAACAAACT
102327240 TGATTAAGGACTCCGCTA
1 TGATTAAGGACTCCGCTA
102327258 TGATTAAGGACTCCGCTA
1 TGATTAAGGACTCCGCTA
102327276 CGGTCATTGC
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:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (18 bp):
TGATTAAGGACTCCGCTA
Found at i:102356611 original size:43 final size:43
Alignment explanation
Indices: 102356563--102356655 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
102356553 ATTCTAGAAA
102356563 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
102356606 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
102356649 TATTTTC
1 TATTTTC
102356656 CCAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:102361347 original size:43 final size:42
Alignment explanation
Indices: 102361299--102361391 Score: 150
Period size: 43 Copynumber: 2.2 Consensus size: 42
102361289 ATTTTAGAAA
102361299 TATTTTTATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
102361342 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTT-TTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
102361385 TATTTTT
1 TATTTTT
102361392 CCAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
42 1 0.02
43 45 0.96
44 1 0.02
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.53
Consensus pattern (42 bp):
TATTTTTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:102365000 original size:6 final size:6
Alignment explanation
Indices: 102364989--102365017 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
102364979 AGCTAGACAT
102364989 CGACGC CGACGC CGACGC CGACGC CGACG
1 CGACGC CGACGC CGACGC CGACGC CGACG
102365018 ACATTATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.48, G:0.34, T:0.00
Consensus pattern (6 bp):
CGACGC
Found at i:102366149 original size:30 final size:31
Alignment explanation
Indices: 102366115--102366178 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
102366105 ACTTAACAAG
*
102366115 CAAATACCTCTAAAA-CAATAACAAAATTAA
1 CAAATACCTCTAAAATAAATAACAAAATTAA
* *
102366145 CAAATGCCTTTAAAATAAATAACAAAATTAA
1 CAAATACCTCTAAAATAAATAACAAAATTAA
102366176 CAA
1 CAA
102366179 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 13 0.43
31 17 0.57
ACGTcount: A:0.59, C:0.17, G:0.02, T:0.22
Consensus pattern (31 bp):
CAAATACCTCTAAAATAAATAACAAAATTAA
Found at i:102370879 original size:18 final size:18
Alignment explanation
Indices: 102370856--102370891 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
102370846 ATAAATAAAT
*
102370856 AAGGTTGGATCGTACTAA
1 AAGGTTAGATCGTACTAA
102370874 AAGGTTAGATCGTACTAA
1 AAGGTTAGATCGTACTAA
102370892 CATATTCTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (18 bp):
AAGGTTAGATCGTACTAA
Found at i:102382969 original size:24 final size:23
Alignment explanation
Indices: 102382942--102382986 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
102382932 ATTTATAAAA
**
102382942 TTTTAATTTTTAAAAGAAATTATT
1 TTTTAATAATTAAAA-AAATTATT
*
102382966 TTTTTATAATTAAAAAAATTA
1 TTTTAATAATTAAAAAAATTA
102382987 AGTCTAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 6 0.33
24 12 0.67
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTTAATAATTAAAAAAATTATT
Found at i:102383070 original size:15 final size:16
Alignment explanation
Indices: 102383052--102383086 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
102383042 TAAATAAAAA
102383052 TTTTAATT-TTAATTT
1 TTTTAATTCTTAATTT
*
102383067 TTTTAATTCTTTATTT
1 TTTTAATTCTTAATTT
102383083 TTTT
1 TTTT
102383087 CTAGCATTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTAATTCTTAATTT
Found at i:102383803 original size:29 final size:29
Alignment explanation
Indices: 102383758--102383824 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
102383748 TATCTTTGTA
*
102383758 ATTTTTAGAAAATTAAATTA-AATTATTATT
1 ATTTTTA-AAAATTAAAATATAATT-TTATT
102383788 ATTTTTAAAGAA-TAAAATATAATTTTATT
1 ATTTTTAAA-AATTAAAATATAATTTTATT
*
102383817 ATTATTAA
1 ATTTTTAA
102383825 TTTAAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 20 0.61
30 13 0.39
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (29 bp):
ATTTTTAAAAATTAAAATATAATTTTATT
Found at i:102387419 original size:56 final size:56
Alignment explanation
Indices: 102387357--102387476 Score: 168
Period size: 56 Copynumber: 2.1 Consensus size: 56
102387347 ATCCATACGA
* * *
102387357 ACTCTTACCTAGAAGAAAATCCATACAAACTCGTTCTTGAAAGATAATTTAAGTGG
1 ACTCTTACCTAGAAGAAAATCCATACAAACTCGTACTTGAAAGATAATTCAAGTAG
* * * * *
102387413 ACTCTTACCTGGATGAAGATCCGTACAAACTCGTACTTGAAAGATAATTCATGTAG
1 ACTCTTACCTAGAAGAAAATCCATACAAACTCGTACTTGAAAGATAATTCAAGTAG
102387469 ACTCTTAC
1 ACTCTTAC
102387477 ATGTAAATTC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (56 bp):
ACTCTTACCTAGAAGAAAATCCATACAAACTCGTACTTGAAAGATAATTCAAGTAG
Found at i:102390807 original size:19 final size:19
Alignment explanation
Indices: 102390783--102390822 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
102390773 CTTGATTTCA
102390783 AATGCATGGGAAAGAAAAC
1 AATGCATGGGAAAGAAAAC
102390802 AATGCATGGGAAAGAAAAC
1 AATGCATGGGAAAGAAAAC
102390821 AA
1 AA
102390823 CTCCCACTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.10, G:0.25, T:0.10
Consensus pattern (19 bp):
AATGCATGGGAAAGAAAAC
Found at i:102392829 original size:6 final size:6
Alignment explanation
Indices: 102392808--102392841 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
102392798 GTATAATCTA
102392808 ATTTAAT ATATTAT ATTTAT ATTTAT ATTTAT AT
1 ATTT-AT AT-TTAT ATTTAT ATTTAT ATTTAT AT
102392842 ATATCATCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 18 0.69
7 6 0.23
8 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
ATTTAT
Found at i:102392835 original size:12 final size:13
Alignment explanation
Indices: 102392808--102392843 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
102392798 GTATAATCTA
102392808 ATTTAATATATTAT
1 ATTT-ATATATTAT
102392822 ATTTATAT-TTAT
1 ATTTATATATTAT
102392834 ATTTATATAT
1 ATTTATATAT
102392844 ATCATCTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.57
13 5 0.24
14 4 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTTATATATTAT
Found at i:102397371 original size:24 final size:24
Alignment explanation
Indices: 102397344--102397392 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
102397334 ATGTAATTTA
102397344 AAATT-TTAAAAATAATAAAAATAT
1 AAATTATT-AAAATAATAAAAATAT
*
102397368 AAATTATTAAAATAATAAAATTAT
1 AAATTATTAAAATAATAAAAATAT
102397392 A
1 A
102397393 TTTTTACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AAATTATTAAAATAATAAAAATAT
Found at i:102398270 original size:16 final size:16
Alignment explanation
Indices: 102398242--102398279 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
102398232 TGGAATTGAA
102398242 TTTTTT-TACAAAATT
1 TTTTTTGTACAAAATT
*
102398257 TTTTTTGTAGAAAATT
1 TTTTTTGTACAAAATT
102398273 TTTTTTG
1 TTTTTTG
102398280 GACTAATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.63
Consensus pattern (16 bp):
TTTTTTGTACAAAATT
Found at i:102401006 original size:17 final size:17
Alignment explanation
Indices: 102400966--102401008 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
102400956 TAAAATATTT
* * *
102400966 TATTTTTTTAAATAAAG
1 TATTTTTTGAAAAAAAA
*
102400983 TAATTTTTGAAAAAAAA
1 TATTTTTTGAAAAAAAA
102401000 TATTTTTTG
1 TATTTTTTG
102401009 CTGACATGAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (17 bp):
TATTTTTTGAAAAAAAA
Found at i:102401667 original size:15 final size:12
Alignment explanation
Indices: 102401627--102401657 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
102401617 TAAGGTAAAA
102401627 TAATAATGGTAT
1 TAATAATGGTAT
102401639 TAATAATGGTAT
1 TAATAATGGTAT
102401651 TAATAAT
1 TAATAAT
102401658 CGGGTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (12 bp):
TAATAATGGTAT
Found at i:102409516 original size:372 final size:373
Alignment explanation
Indices: 102408808--102409528 Score: 1075
Period size: 372 Copynumber: 1.9 Consensus size: 373
102408798 AATTGAGCAT
* * *
102408808 TATTATCGGTTTGATATATTCATTGCTGGTATCGATTCATTGCTAACAAAAATGAATTCTCGCTT
1 TATTATAGGTTTGATATATTCATTGCTGGTATCAATTAATTGCTAACAAAAATGAATTCTCGCTT
* *
102408873 TAATGATGAAGTAGTGGAGTTACTTGTTCTTAGCTCCGCATTGGATCCACGCGATAATTACAAAG
66 TAATGACGAAGTAGTGGAGTTACTTGTTCTTAGCTCCGCATTGGATCCACGCGATAATCACAAAG
* *
102408938 CTTTTTCGTGTAGAAGATATTTGCAAGCCTATAAATGATTTTTATCCAAACAATTTTACAAAGTA
131 CTTTTTCGTGTAGAAGATATCTGCAAGCCTATAAATGATTTTTATCCAAACAATTTTACAAAGCA
*
102409003 AAAAAAGCTACATATGAAAATTCGATTAGAGCATTTTCAACTTAATGCTCATCAAAGCACAGAGT
196 AAAAAAGCTACATATGAAAATTCAATTAGAGCATTTTCAACTTAATGCTCATCAAAGCACAGAGT
* * * * * * *
102409068 TGTAGAAAGCTTCTACAGTTGCCGAGTTGTGTTAAGTGCTAGCTAAGACAAATAAGTCAAGTATT
261 TGTAGAAAACTTCTACAATTACCGAGTTGTGTCAAGTACTAACTAAGACAAATAACTCAAGTATT
*
102409133 TATCCTCTTCTTGATAGAATTATTTGTCTTGTGCACTCTTCTCATGTC
326 TATCATCTTCTTGATAGAATTATTTGTCTTGTGCACTCTTCTCATGTC
* * * *
102409181 TATTATAGGTTTGATATATTTATTGTTGGTATCAATTAATTGTTAACAGAAATGAATTCTCGCTT
1 TATTATAGGTTTGATATATTCATTGCTGGTATCAATTAATTGCTAACAAAAATGAATTCTCGCTT
* * *
102409246 TAATGACGAGGTAGTGGAGTTACTTGTTCTTAGCTTCGCTTTGGATCCACGCGATAATCACAAAG
66 TAATGACGAAGTAGTGGAGTTACTTGTTCTTAGCTCCGCATTGGATCCACGCGATAATCACAAAG
* ** * ** * ***
102409311 CTTTTT-GTGTGGAAGATATCTGCAAGTTTATGAATGATTTTTATCTGAATAATTTTATGGAGCA
131 CTTTTTCGTGTAGAAGATATCTGCAAGCCTATAAATGATTTTTATCCAAACAATTTTACAAAGCA
* * * *
102409375 AGATAAGCTACATATGAAGATTCAATTGGAGCATTTTCAACTTAATGCTCATCAAAGCACAGAGT
196 AAAAAAGCTACATATGAAAATTCAATTAGAGCATTTTCAACTTAATGCTCATCAAAGCACAGAGT
* * *
102409440 TGTAGAAAACTTCTACAATTACGGAGTTGTGTCAAGTACTAACTAAGACAAATAACTTAAGTGTT
261 TGTAGAAAACTTCTACAATTACCGAGTTGTGTCAAGTACTAACTAAGACAAATAACTCAAGTATT
102409505 TATCATCTTCTTGATAGAATTATT
326 TATCATCTTCTTGATAGAATTATT
102409529 CATCTCGTAC
Statistics
Matches: 308, Mismatches: 40, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
372 184 0.60
373 124 0.40
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (373 bp):
TATTATAGGTTTGATATATTCATTGCTGGTATCAATTAATTGCTAACAAAAATGAATTCTCGCTT
TAATGACGAAGTAGTGGAGTTACTTGTTCTTAGCTCCGCATTGGATCCACGCGATAATCACAAAG
CTTTTTCGTGTAGAAGATATCTGCAAGCCTATAAATGATTTTTATCCAAACAATTTTACAAAGCA
AAAAAAGCTACATATGAAAATTCAATTAGAGCATTTTCAACTTAATGCTCATCAAAGCACAGAGT
TGTAGAAAACTTCTACAATTACCGAGTTGTGTCAAGTACTAACTAAGACAAATAACTCAAGTATT
TATCATCTTCTTGATAGAATTATTTGTCTTGTGCACTCTTCTCATGTC
Found at i:102410245 original size:19 final size:21
Alignment explanation
Indices: 102410221--102410259 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
102410211 CAATTTATTT
*
102410221 TTATATTTG-ATA-AATATAA
1 TTATATATGCATACAATATAA
102410240 TTATATATGCATACAATATA
1 TTATATATGCATACAATATA
102410260 TATAACATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (21 bp):
TTATATATGCATACAATATAA
Found at i:102410376 original size:29 final size:30
Alignment explanation
Indices: 102410318--102410394 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 30
102410308 GAATTGTATC
* * * *
102410318 AAATCAAAATTTCATATATAAAATTGTACA-
1 AAATCAAAA-TCCATGTATAAAACTATACAT
*
102410348 AAATTAAAATCCATGTATAAAACTATACATT
1 AAATCAAAATCCATGTATAAAACTATACA-T
*
102410379 AGATCAAAATCCATGT
1 AAATCAAAATCCATGT
102410395 GTTAATAAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 16 0.42
30 8 0.21
31 14 0.37
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (30 bp):
AAATCAAAATCCATGTATAAAACTATACAT
Found at i:102423758 original size:36 final size:36
Alignment explanation
Indices: 102423711--102423784 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
102423701 CAACTTTCCC
102423711 ACCTTTTATCATGATTGCTATGTTCATGGGAAAGTA
1 ACCTTTTATCATGATTGCTATGTTCATGGGAAAGTA
102423747 ACCTTTTATCATGATTGCTATGTTCATGGGAAAGTA
1 ACCTTTTATCATGATTGCTATGTTCATGGGAAAGTA
102423783 AC
1 AC
102423785 TCCCAAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (36 bp):
ACCTTTTATCATGATTGCTATGTTCATGGGAAAGTA
Found at i:102424190 original size:26 final size:26
Alignment explanation
Indices: 102424161--102424224 Score: 110
Period size: 26 Copynumber: 2.5 Consensus size: 26
102424151 ATAATTCAAC
102424161 TATTCTTTTATTTTACTTTCAAAAAA
1 TATTCTTTTATTTTACTTTCAAAAAA
*
102424187 TATTCTTTTATTTTACTTTCAAAAAG
1 TATTCTTTTATTTTACTTTCAAAAAA
*
102424213 TATTATTTTATT
1 TATTCTTTTATT
102424225 AATATTCTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (26 bp):
TATTCTTTTATTTTACTTTCAAAAAA
Found at i:102424543 original size:27 final size:27
Alignment explanation
Indices: 102424513--102424568 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
102424503 CTGAAGAAGT
102424513 ATCACCGCCATACATACTGTCAGTTAG
1 ATCACCGCCATACATACTGTCAGTTAG
102424540 ATCACCGCCATACATACTGTCAGTTAG
1 ATCACCGCCATACATACTGTCAGTTAG
102424567 AT
1 AT
102424569 ATAAGCAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
ATCACCGCCATACATACTGTCAGTTAG
Found at i:102425485 original size:162 final size:160
Alignment explanation
Indices: 102425141--102425456 Score: 391
Period size: 160 Copynumber: 2.0 Consensus size: 160
102425131 GGCAAATTAT
* * * * *
102425141 CACAGTTATAATGGTAAAACCAAAGAAAAAGTGCTAGCAATGGTACATAATGTTAAGCACCCAAG
1 CACAATTATAAAGGTAAAACCAAAGAAAAAGTGATAGCAACGGTACAAAATGTTAAGCACCCAAG
* * * * *
102425206 CAAGAACCAATATACTAGGCAAGAAACCTAATTTGAATATCGAGCCACAGAAAACTAAAGACTTA
66 CAAGAACAAATAGACTAGGCAAGAAACCTAATTCGAACATCAAGCCACAGAAAACTAAAGACTTA
* ** * *
102425271 ACTAATGATCAGTGAGACCAGTTAAATTAT
131 ACTAATGAACAGAAAGACCAGTTAAATCAC
* * * * *
102425301 CACAGTTATAATGGTAAAACCAAAGTAAAAGTGATAGCTACGGTACAAAATGTTAAGCATCCAAG
1 CACAATTATAAAGGTAAAACCAAAGAAAAAGTGATAGCAACGGTACAAAATGTTAAGCACCCAAG
* * *
102425366 CAAGAACAAATAGACTATAGGCAAGAAGCCTCATTCGAACATCAAGCCACAGAAAACTAATGACT
66 CAAGAACAAATAGAC--TAGGCAAGAAACCTAATTCGAACATCAAGCCACAGAAAACTAAAGACT
102425431 TAACTAATGAAC-GAAAAGACCAGTTA
129 TAACTAATGAACAG-AAAGACCAGTTA
102425457 CTCCCCGTAA
Statistics
Matches: 136, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
160 72 0.53
161 1 0.01
162 63 0.46
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.20
Consensus pattern (160 bp):
CACAATTATAAAGGTAAAACCAAAGAAAAAGTGATAGCAACGGTACAAAATGTTAAGCACCCAAG
CAAGAACAAATAGACTAGGCAAGAAACCTAATTCGAACATCAAGCCACAGAAAACTAAAGACTTA
ACTAATGAACAGAAAGACCAGTTAAATCAC
Found at i:102428984 original size:25 final size:25
Alignment explanation
Indices: 102428950--102429000 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
102428940 AACATAACAT
102428950 AGACTAAGCTTCTTGCTTTTAAATG
1 AGACTAAGCTTCTTGCTTTTAAATG
102428975 AGACTAAGCTTCTTGCTTTTAAATG
1 AGACTAAGCTTCTTGCTTTTAAATG
102429000 A
1 A
102429001 CATGGCTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (25 bp):
AGACTAAGCTTCTTGCTTTTAAATG
Found at i:102434714 original size:15 final size:15
Alignment explanation
Indices: 102434694--102434727 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
102434684 CTTCAATGGC
102434694 AGAAG-AAGAAGAGAA
1 AGAAGAAAGAA-AGAA
102434709 AGAAGAAAGAAAGAA
1 AGAAGAAAGAAAGAA
102434724 AGAA
1 AGAA
102434728 ATGTCAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
AGAAGAAAGAAAGAA
Found at i:102450215 original size:32 final size:30
Alignment explanation
Indices: 102450162--102450226 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 30
102450152 ATTTATTTTA
*
102450162 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTATTATTATTTTAGAA-GCAT
102450192 TTGTTAATTTTTTATTATTATTTTAGAAGCAT
1 TTGTTAA--TTTTATTATTATTTTAGAAGCAT
102450224 TTG
1 TTG
102450227 CTTCTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 7 0.23
32 22 0.71
33 2 0.06
ACGTcount: A:0.26, C:0.05, G:0.11, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAGAAGCAT
Found at i:102451902 original size:53 final size:53
Alignment explanation
Indices: 102451821--102451969 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
102451811 GACGGAAAAT
* *
102451821 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
*
102451873 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* *
102451926 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGC
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGC
102451970 TTCGATATGA
Statistics
Matches: 89, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
51 4 0.04
52 11 0.12
53 74 0.83
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
Found at i:102454019 original size:17 final size:17
Alignment explanation
Indices: 102453970--102454046 Score: 61
Period size: 17 Copynumber: 4.6 Consensus size: 17
102453960 TTAACGTCAA
*
102453970 ATTTAATATT--ATTAT
1 ATTTAATATTCAATTTT
* *
102453985 ATTT-ATAATCATTTTT
1 ATTTAATATTCAATTTT
102454001 ATTTAATATTCAATTTT
1 ATTTAATATTCAATTTT
* *
102454018 ATTTTAATAATAAATTTT
1 A-TTTAATATTCAATTTT
**
102454036 AAATAATATTC
1 ATTTAATATTC
102454047 TTCATATATT
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
14 4 0.09
15 4 0.09
16 7 0.15
17 17 0.36
18 15 0.32
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTAATATTCAATTTT
Found at i:102454033 original size:18 final size:17
Alignment explanation
Indices: 102453984--102454036 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
102453974 AATATTATTA
* *
102453984 TATTT-ATAATCATTTT
1 TATTTAATAATAAATTT
* *
102454000 TATTTAATATTCAATTT
1 TATTTAATAATAAATTT
102454017 TATTTTAATAATAAATTT
1 TA-TTTAATAATAAATTT
102454035 TA
1 TA
102454037 AATAATATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 5 0.16
17 11 0.35
18 15 0.48
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTTAATAATAAATTT
Found at i:102454150 original size:17 final size:17
Alignment explanation
Indices: 102454128--102454175 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
102454118 TTTTAATAAA
102454128 TTATTTAATATTCAATT
1 TTATTTAATATTCAATT
* *
102454145 TTATTTTAATAATAAATT
1 TTA-TTTAATATTCAATT
**
102454163 TTAAATAATATTC
1 TTATTTAATATTC
102454176 TTCATATATT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (17 bp):
TTATTTAATATTCAATT
Found at i:102454154 original size:18 final size:18
Alignment explanation
Indices: 102454105--102454165 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 18
102454095 ATATAATAAT
102454105 TAATAAATTATTA-TTT--
1 TAATAAATT-TTATTTTAA
102454121 TAATAAA--TTA-TTTAA
1 TAATAAATTTTATTTTAA
* *
102454136 TATTCAATTTTATTTTAA
1 TAATAAATTTTATTTTAA
102454154 TAATAAATTTTA
1 TAATAAATTTTA
102454166 AATAATATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
15 5 0.14
16 7 0.19
17 3 0.08
18 15 0.42
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATAAATTTTATTTTAA
Found at i:102455785 original size:20 final size:20
Alignment explanation
Indices: 102455760--102455799 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
102455750 TTACTTAGAG
*
102455760 TATATTTTAAAATTTAAAAT
1 TATATTCTAAAATTTAAAAT
*
102455780 TATATTCTATAATTTAAAAT
1 TATATTCTAAAATTTAAAAT
102455800 AAACAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TATATTCTAAAATTTAAAAT
Found at i:102457167 original size:28 final size:26
Alignment explanation
Indices: 102457135--102457203 Score: 63
Period size: 28 Copynumber: 2.6 Consensus size: 26
102457125 GTTTTGTTTT
102457135 TTAATATTTATTTATAATTAATTATTAC
1 TTAATATTTATTTATAA--AATTATTAC
102457163 TTAAT-TTATATTTCAATAAAATTATTAC
1 TTAATATT-TATTT--ATAAAATTATTAC
*
102457191 -TACTATTT-TTTAT
1 TTAATATTTATTTAT
102457204 TTTATTATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
24 2 0.06
26 3 0.08
27 6 0.17
28 21 0.58
30 4 0.11
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.57
Consensus pattern (26 bp):
TTAATATTTATTTATAAAATTATTAC
Found at i:102486735 original size:19 final size:20
Alignment explanation
Indices: 102486713--102486766 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 20
102486703 TTAAACCATT
*
102486713 TAAAAATTTA-AAAATATCA
1 TAAAAATTTATAAAAAATCA
*
102486732 T-AAAATTTATAAAAAATTA
1 TAAAAATTTATAAAAAATCA
*
102486751 TAAAAAAGTTATAAAA
1 T-AAAAATTTATAAAA
102486767 TGTTTAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 8 0.28
19 9 0.31
21 12 0.41
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (20 bp):
TAAAAATTTATAAAAAATCA
Found at i:102486747 original size:11 final size:10
Alignment explanation
Indices: 102486714--102486766 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
102486704 TAAACCATTT
102486714 AAAAATT-TA
1 AAAAATTATA
*
102486723 AAAATATCAT-
1 AAAA-ATTATA
*
102486733 AAAATTTATA
1 AAAAATTATA
102486743 AAAAATTATA
1 AAAAATTATA
102486753 AAAAAGTTATA
1 AAAAA-TTATA
102486764 AAA
1 AAA
102486767 TGTTTAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 7 0.19
10 20 0.56
11 9 0.25
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (10 bp):
AAAAATTATA
Found at i:102487897 original size:21 final size:22
Alignment explanation
Indices: 102487873--102487920 Score: 89
Period size: 21 Copynumber: 2.2 Consensus size: 22
102487863 CCCTATCTTA
102487873 GTATTTTTAGGCCTAACAATT-
1 GTATTTTTAGGCCTAACAATTG
102487894 GTATTTTTAGGCCTAACAATTG
1 GTATTTTTAGGCCTAACAATTG
102487916 GTATT
1 GTATT
102487921 AGAGCTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (22 bp):
GTATTTTTAGGCCTAACAATTG
Found at i:102496952 original size:19 final size:19
Alignment explanation
Indices: 102496928--102496978 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
102496918 TTTTAACAAT
102496928 AATTCTAAAAAGA-ATAAAA
1 AATTCTAAAAA-ATATAAAA
*
102496947 AATTCTAAAAAATATTAAA
1 AATTCTAAAAAATATAAAA
*
102496966 AATTCTGAAAAAT
1 AATTCTAAAAAAT
102496979 CATTATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 1 0.03
19 28 0.97
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (19 bp):
AATTCTAAAAAATATAAAA
Found at i:102501417 original size:14 final size:14
Alignment explanation
Indices: 102501400--102501433 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
102501390 ATATTATAGT
102501400 ATATAAAAATAATA
1 ATATAAAAATAATA
*
102501414 ATATAATAATAATA
1 ATATAAAAATAATA
102501428 A-ATAAA
1 ATATAAA
102501434 TAAATGAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
ATATAAAAATAATA
Found at i:102502875 original size:46 final size:45
Alignment explanation
Indices: 102502773--102503416 Score: 492
Period size: 46 Copynumber: 14.6 Consensus size: 45
102502763 TTTAAGTCTA
** * *
102502773 CTCCACTGTAATATCAGGGAGATAAGACCTCTG---GCTTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGA--TCTGAATTCTTCGATCTG
* * *
102502817 CTCCACTGTAACCTCAGGGGGATAAGATCTGCAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-AATTCTTCGATCTG
* * * *
102502863 CTCCACTGTAACCTCAGAGAGATAAGACCTG-A---TGCGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAATTCTTCGATCTG
* * * * ** * *
102502904 CTCTACTGTAACTTCAGAGAGATGAGATCCTTTATT-TT-AATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-CTGAATTCTTCGATCTG
* *
102502948 CTCCACTGTAACTTCAGGGAGATAGGAT-T--ATATCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAT-TCTTCGATCTG
* *
102502991 CTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-AATTCTTCGATCTG
* * *
102503037 TTCCACTGTAATCTCAGGGAGATAGGAT-T--ATATCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAT-TCTTCGATCTG
* *
102503080 CTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-AATTCTTCGATCTG
* * *
102503126 TTCCACTGTAATCTCAGGGAGATAGGAT-T--ATATCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAT-TCTTCGATCTG
* *
102503169 CTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-AATTCTTCGATCTG
* * * * *
102503215 TTCCACTGTAATCTCAGGGAGATAAGACCTG-A---TGCGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAATTCTTCGATCTG
* * * * * *
102503256 CTCTACTGTAACTTCAGAGAGATAAGATCCGATATT-TT-AATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGA-ATTCTTCGATCTG
* * * ** *
102503300 CTCCACTGTAACTTCAGGGAGATAGGATTTCTA-TCTTTGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTGAATTCTTCGATCTG
* * * * *
102503344 CTCCGCTGTAATCTCAAGGAGATAAGATCTGAAATTCTTTGGTCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTG-AATTCTTCGATCTG
* *
102503390 TTCCACTGTAATCTCAGGGAGATAAGA
1 CTCCACTGTAACCTCAGGGAGATAAGA
102503417 CCTGTATTAT
Statistics
Matches: 477, Mismatches: 90, Indels: 64
0.76 0.14 0.10
Matches are distributed among these distances:
40 2 0.00
41 62 0.13
42 14 0.03
43 102 0.21
44 112 0.23
45 5 0.01
46 174 0.36
47 6 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (45 bp):
CTCCACTGTAACCTCAGGGAGATAAGATCTGAATTCTTCGATCTG
Found at i:102503062 original size:89 final size:90
Alignment explanation
Indices: 102502774--102503413 Score: 675
Period size: 89 Copynumber: 7.3 Consensus size: 90
102502764 TTAAGTCTAC
* * * * ** * * *
102502774 TCCACTGTAATATCAGGGAGATAAGACCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGGGA
1 TCCACTGTAATCTCAGGGAGATAGGACTTATATCTTCGATCTGCTCCGCTGTAACCTCAGGGAGA
**
102502839 TAAGATCTGCAATTCTTCGGTCTAC
66 TAAGATCTGCAATTCTTCGGTCTGT
* * * * * * * ** * *
102502864 TCCACTGTAACCTCAGAGAGATAAGACCT-GA--TGCGATCTACTCTACTGTAACTTCAGAGAGA
1 TCCACTGTAATCTCAGGGAGATAGGACTTATATCTTCGATCTGCTCCGCTGTAACCTCAGGGAGA
* ** ** * *
102502926 TGAGATCCT-TTATT-TT-AATCCGC
66 TAAGAT-CTGCAATTCTTCGGTCTGT
102502949 TCCACTGTAA-CTTCAGGGAGATAGGA-TTATATCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
1 TCCACTGTAATC-TCAGGGAGATAGGACTTATATCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
102503012 ATAAGATCTGCAATTCTTCGGTCTGT
65 ATAAGATCTGCAATTCTTCGGTCTGT
102503038 TCCACTGTAATCTCAGGGAGATAGGA-TTATATCTTCGATCTGCTCCGCTGTAACCTCAGGGAGA
1 TCCACTGTAATCTCAGGGAGATAGGACTTATATCTTCGATCTGCTCCGCTGTAACCTCAGGGAGA
102503102 TAAGATCTGCAATTCTTCGGTCTGT
66 TAAGATCTGCAATTCTTCGGTCTGT
102503127 TCCACTGTAATCTCAGGGAGATAGGA-TTATATCTTCGATCTGCTCCGCTGTAACCTCAGGGAGA
1 TCCACTGTAATCTCAGGGAGATAGGACTTATATCTTCGATCTGCTCCGCTGTAACCTCAGGGAGA
102503191 TAAGATCTGCAATTCTTCGGTCTGT
66 TAAGATCTGCAATTCTTCGGTCTGT
* * * * * ** * *
102503216 TCCACTGTAATCTCAGGGAGATAAGACCT-GA--TGCGATCTACTCTACTGTAACTTCAGAGAGA
1 TCCACTGTAATCTCAGGGAGATAGGACTTATATCTTCGATCTGCTCCGCTGTAACCTCAGGGAGA
* ** * *
102503278 TAAGATCCG-ATATT-TT-AATCCGC
66 TAAGATCTGCA-ATTCTTCGGTCTGT
* * * * *
102503301 TCCACTGTAA-CTTCAGGGAGATAGGATTTCTATCTTTGATCTGCTCCGCTGTAATCTCAAGGAG
1 TCCACTGTAATC-TCAGGGAGATAGGACTTATATCTTCGATCTGCTCCGCTGTAACCTCAGGGAG
* *
102503365 ATAAGATCTGAAATTCTTTGGTCTGT
65 ATAAGATCTGCAATTCTTCGGTCTGT
102503391 TCCACTGTAATCTCAGGGAGATA
1 TCCACTGTAATCTCAGGGAGATA
102503414 AGACCTGTAT
Statistics
Matches: 463, Mismatches: 68, Indels: 38
0.81 0.12 0.07
Matches are distributed among these distances:
84 3 0.01
85 53 0.11
86 8 0.02
87 101 0.22
88 37 0.08
89 208 0.45
90 52 0.11
91 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (90 bp):
TCCACTGTAATCTCAGGGAGATAGGACTTATATCTTCGATCTGCTCCGCTGTAACCTCAGGGAGA
TAAGATCTGCAATTCTTCGGTCTGT
Found at i:102504619 original size:1 final size:1
Alignment explanation
Indices: 102504613--102504641 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
102504603 CCTCTCCAAA
102504613 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
102504642 AGGAAGCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:102516521 original size:38 final size:38
Alignment explanation
Indices: 102516473--102516548 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
102516463 CTACATGATG
102516473 ATTTATTTAATGTAGCGTGATCTTATTTTAATTTGTTT
1 ATTTATTTAATGTAGCGTGATCTTATTTTAATTTGTTT
*
102516511 ATTTATTTAATGTAGGGTGATCTTATTTTAATTTGTTT
1 ATTTATTTAATGTAGCGTGATCTTATTTTAATTTGTTT
102516549 TGGTTTAATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.04, G:0.14, T:0.58
Consensus pattern (38 bp):
ATTTATTTAATGTAGCGTGATCTTATTTTAATTTGTTT
Found at i:102516996 original size:20 final size:19
Alignment explanation
Indices: 102516946--102516996 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
102516936 TAAACCATTT
*
102516946 TAAAA-TTTAAAAATATCA
1 TAAAATTTTAAAAAAATCA
*
102516964 TAAAATTTATAAAAAAATTA
1 TAAAATTT-TAAAAAAATCA
102516984 TAAAATGTTTAAA
1 TAAAAT-TTTAAA
102516997 TTATAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 5 0.18
19 2 0.07
20 19 0.68
21 2 0.07
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
TAAAATTTTAAAAAAATCA
Found at i:102531411 original size:30 final size:30
Alignment explanation
Indices: 102531370--102531428 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
102531360 AGTCGACCGC
*
102531370 TGCTAGCTGTTCTCAAACAAAAATGGGGGT
1 TGCTAGCTGTTCCCAAACAAAAATGGGGGT
* * *
102531400 TGCTGGCTGTTCCCAAAGAGAAATGGGGG
1 TGCTAGCTGTTCCCAAACAAAAATGGGGG
102531429 CTGCAGGTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (30 bp):
TGCTAGCTGTTCCCAAACAAAAATGGGGGT
Found at i:102532545 original size:40 final size:40
Alignment explanation
Indices: 102532496--102532632 Score: 149
Period size: 40 Copynumber: 3.5 Consensus size: 40
102532486 AACACACCAG
* *
102532496 TTTGGCACCCAGTGCCTCATCGGATAATTTGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAATAA
* * *
102532536 TTTGACACCCAGTGTCTCATCGGCTAA-CCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAATAA
*
102532573 -TTGACACCCAGTGCCTCATCGAATTAATCCT-AAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGA-TAAT-CTGAAGTAATAA
* *
102532613 ATTGACACCCAGTGTCTCAT
1 TTTGACACCCAGTGCCTCAT
102532633 TGACTCAAAG
Statistics
Matches: 81, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
36 20 0.25
37 5 0.06
38 5 0.06
39 7 0.09
40 26 0.32
41 18 0.22
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAATAA
Found at i:102532584 original size:36 final size:37
Alignment explanation
Indices: 102532501--102532632 Score: 131
Period size: 41 Copynumber: 3.4 Consensus size: 37
102532491 ACCAGTTTGG
**
102532501 CACCCAGTGCCTCATCGGATAATTTGAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGGATAATCCGAAGT-A-AA-TTGA
* *
102532541 CACCCAGTGTCTCATCGGCTAA-CCGAAGTAAATTGA
1 CACCCAGTGCCTCATCGGATAATCCGAAGTAAATTGA
* *
102532577 CACCCAGTGCCTCATCGAATTAATCCTAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGGA-TAATCCGAAG---TAAATTGA
*
102532618 CACCCAGTGTCTCAT
1 CACCCAGTGCCTCAT
102532633 TGACTCAAAG
Statistics
Matches: 78, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
36 20 0.26
37 5 0.06
38 6 0.08
39 5 0.06
40 20 0.26
41 22 0.28
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGATAATCCGAAGTAAATTGA
Found at i:102533670 original size:19 final size:20
Alignment explanation
Indices: 102533646--102533684 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
102533636 ATTAATAAGC
102533646 AATACATAT-TTTATTATTA
1 AATACATATGTTTATTATTA
102533665 AATACATATGTTTATTATTA
1 AATACATATGTTTATTATTA
102533685 TTACACATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (20 bp):
AATACATATGTTTATTATTA
Found at i:102539108 original size:21 final size:21
Alignment explanation
Indices: 102539082--102539123 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
102539072 AGGGAGGTAG
*
102539082 CGGTTCATGGTGGTGATGCGT
1 CGGTTCACGGTGGTGATGCGT
102539103 CGGTTCACGGTGGTGATGCGT
1 CGGTTCACGGTGGTGATGCGT
102539124 TGATGGTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.10, C:0.17, G:0.43, T:0.31
Consensus pattern (21 bp):
CGGTTCACGGTGGTGATGCGT
Found at i:102548066 original size:15 final size:17
Alignment explanation
Indices: 102548026--102548069 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 17
102548016 CGAAATTTGG
102548026 AAATTATTAAAAATCAT
1 AAATTATTAAAAATCAT
102548043 AAATT-TTAAAAA-CA-
1 AAATTATTAAAAATCAT
*
102548057 AATTTATTAAAAA
1 AAATTATTAAAAA
102548070 ATGTTATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 4 0.16
15 9 0.36
16 7 0.28
17 5 0.20
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATTATTAAAAATCAT
Found at i:102557975 original size:9 final size:9
Alignment explanation
Indices: 102557961--102558024 Score: 128
Period size: 9 Copynumber: 7.1 Consensus size: 9
102557951 TGAGTATTCG
102557961 AATTCGAAT
1 AATTCGAAT
102557970 AATTCGAAT
1 AATTCGAAT
102557979 AATTCGAAT
1 AATTCGAAT
102557988 AATTCGAAT
1 AATTCGAAT
102557997 AATTCGAAT
1 AATTCGAAT
102558006 AATTCGAAT
1 AATTCGAAT
102558015 AATTCGAAT
1 AATTCGAAT
102558024 A
1 A
102558025 TCAAACTATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 55 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (9 bp):
AATTCGAAT
Found at i:102562518 original size:13 final size:13
Alignment explanation
Indices: 102562500--102562531 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
102562490 TTTCCAGCAA
102562500 TTATGAATTTATT
1 TTATGAATTTATT
102562513 TTATGAATTTATT
1 TTATGAATTTATT
*
102562526 TGATGA
1 TTATGA
102562532 TGATCCAAGC
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:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:102562739 original size:50 final size:50
Alignment explanation
Indices: 102562626--102562867 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
102562616 ATTTGGGTAA
* * *
102562626 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
102562682 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
102562732 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
102562782 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
102562832 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
102562868 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:102562815 original size:100 final size:103
Alignment explanation
Indices: 102562626--102562875 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
102562616 ATTTGGGTAA
102562626 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
102562691 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
102562732 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
102562794 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
102562832 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
102562876 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:102565414 original size:19 final size:20
Alignment explanation
Indices: 102565390--102565427 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
102565380 AAATAAACAT
102565390 TAAAAAA-TTATTTTAAAAA
1 TAAAAAATTTATTTTAAAAA
102565409 TAAAAAATTTATTTTAAAA
1 TAAAAAATTTATTTTAAAA
102565428 GTATTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAAAAATTTATTTTAAAAA
Found at i:102565456 original size:13 final size:14
Alignment explanation
Indices: 102565433--102565461 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
102565423 TAAAAGTATT
102565433 TAAAAATTAAAAAA
1 TAAAAATTAAAAAA
102565447 TAAAAA-TAAAAAA
1 TAAAAATTAAAAAA
102565460 TA
1 TA
102565462 TATATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAAAATTAAAAAA
Found at i:102566726 original size:15 final size:14
Alignment explanation
Indices: 102566707--102566749 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
102566697 TAATTTTTTT
102566707 TCTAATTTTAAAAA
1 TCTAATTTTAAAAA
*
102566721 TACTAA-TATAAAAA
1 T-CTAATTTTAAAAA
102566735 TCTAATATTTAAAAA
1 TCTAAT-TTTAAAAA
102566750 AAATCGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 4 0.17
14 9 0.38
15 11 0.46
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
TCTAATTTTAAAAA
Found at i:102567022 original size:16 final size:16
Alignment explanation
Indices: 102567001--102567031 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
102566991 TAGACATACA
*
102567001 ATTTTAATAATTTTAT
1 ATTTTAAAAATTTTAT
102567017 ATTTTAAAAATTTTA
1 ATTTTAAAAATTTTA
102567032 AAATATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTTAAAAATTTTAT
Found at i:102567041 original size:2 final size:2
Alignment explanation
Indices: 102567034--102567064 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
102567024 AAATTTTAAA
102567034 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
102567065 AACTTGCCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:102574966 original size:17 final size:16
Alignment explanation
Indices: 102574946--102574984 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
102574936 ATTAGAAATA
102574946 TTTTGTAATTATATTAT
1 TTTTGTAATT-TATTAT
*
102574963 TTTTTTAATTTATTAT
1 TTTTGTAATTTATTAT
102574979 TGTTTG
1 T-TTTG
102574985 AGAAAATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (16 bp):
TTTTGTAATTTATTAT
Found at i:102579521 original size:21 final size:21
Alignment explanation
Indices: 102579495--102579535 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
102579485 AGACGAGCAA
* *
102579495 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
102579516 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
102579536 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:102594458 original size:2 final size:2
Alignment explanation
Indices: 102594451--102594475 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
102594441 AAGGTTTTCT
102594451 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
102594476 GTTATTGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:102606713 original size:21 final size:21
Alignment explanation
Indices: 102606663--102606713 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
102606653 TTAAAAGAAG
102606663 AAATAAAATGGAATTAGAAAA
1 AAATAAAATGGAATTAGAAAA
*
102606684 CAATGAAAATCGGAA-TA-AAAA
1 AAAT-AAAAT-GGAATTAGAAAA
102606705 TAAATAAAA
1 -AAATAAAA
102606714 AAAAGGGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 11 0.44
22 10 0.40
23 4 0.16
ACGTcount: A:0.67, C:0.04, G:0.12, T:0.18
Consensus pattern (21 bp):
AAATAAAATGGAATTAGAAAA
Found at i:102615451 original size:31 final size:31
Alignment explanation
Indices: 102615416--102615484 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 31
102615406 ATACAAAATG
102615416 GTTACTGAACTATTTGAAAA-TTTTCATTTAA
1 GTTACTGAACTATTT-AAAAGTTTTCATTTAA
* *
102615447 GTTACTGAATTATTTAAAAGTTTTTATTTAA
1 GTTACTGAACTATTTAAAAGTTTTCATTTAA
102615478 GTTACTG
1 GTTACTG
102615485 GGTTGTTAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 4 0.11
31 31 0.89
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (31 bp):
GTTACTGAACTATTTAAAAGTTTTCATTTAA
Found at i:102617128 original size:15 final size:16
Alignment explanation
Indices: 102617101--102617131 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
102617091 AGAAATCGAC
102617101 AGAAAATAAAGAAAAG
1 AGAAAATAAAGAAAAG
102617117 AGAAAA-AAAGAAAAG
1 AGAAAATAAAGAAAAG
102617132 GAAGCGAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.03
Consensus pattern (16 bp):
AGAAAATAAAGAAAAG
Found at i:102623642 original size:20 final size:20
Alignment explanation
Indices: 102623609--102623648 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
102623599 CCCTTGCAGT
* *
102623609 CTAAATTTTTCAAATTTTTC
1 CTAAAATTTCCAAATTTTTC
102623629 CTAAAATTTCCAAATTTTTC
1 CTAAAATTTCCAAATTTTTC
102623649 TGATATAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (20 bp):
CTAAAATTTCCAAATTTTTC
Found at i:102628071 original size:43 final size:42
Alignment explanation
Indices: 102628023--102628109 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 42
102628013 TATTCCCCTT
102628023 TGACTTGATTTGTGGAATCAGTTTTAGTTAAGCCTGTCAATTC
1 TGACTTGATTTGTGGAATCAGTTTTAGTTAAG-CTGTCAATTC
*
102628066 TGACTTGATTTGTGGAATCAGTTTTAGTTTAGCTGTCAATTC
1 TGACTTGATTTGTGGAATCAGTTTTAGTTAAGCTGTCAATTC
102628108 TG
1 TG
102628110 CCATTACTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 12 0.28
43 31 0.72
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.44
Consensus pattern (42 bp):
TGACTTGATTTGTGGAATCAGTTTTAGTTAAGCTGTCAATTC
Found at i:102630255 original size:27 final size:27
Alignment explanation
Indices: 102630217--102630273 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
102630207 TAATGGGTGT
102630217 CAATAGGAGTTTTCAGAGACTCATTTG
1 CAATAGGAGTTTTCAGAGACTCATTTG
102630244 CAATAGGAGTTTTCAGAGACTCATTTG
1 CAATAGGAGTTTTCAGAGACTCATTTG
102630271 CAA
1 CAA
102630274 ACTGGTACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (27 bp):
CAATAGGAGTTTTCAGAGACTCATTTG
Found at i:102631869 original size:17 final size:16
Alignment explanation
Indices: 102631847--102631893 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
102631837 GTTATGCCAA
*
102631847 TTGGCGAACTCTTTGCT
1 TTGGCGAACTCTTTG-G
*
102631864 TTGGCGAGA-TCTATGG
1 TTGGCGA-ACTCTTTGG
102631880 TTGGCGAACTCTTT
1 TTGGCGAACTCTTT
102631894 TGTTAAGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 1 0.04
16 11 0.44
17 12 0.48
18 1 0.04
ACGTcount: A:0.15, C:0.19, G:0.28, T:0.38
Consensus pattern (16 bp):
TTGGCGAACTCTTTGG
Found at i:102635514 original size:58 final size:58
Alignment explanation
Indices: 102635444--102635562 Score: 238
Period size: 58 Copynumber: 2.1 Consensus size: 58
102635434 TTTTTATTTT
102635444 ATATTTGTATAAGGTAAGTATTCTTTCTTTGTAAATGATGAAAAATGTATGTGTATGA
1 ATATTTGTATAAGGTAAGTATTCTTTCTTTGTAAATGATGAAAAATGTATGTGTATGA
102635502 ATATTTGTATAAGGTAAGTATTCTTTCTTTGTAAATGATGAAAAATGTATGTGTATGA
1 ATATTTGTATAAGGTAAGTATTCTTTCTTTGTAAATGATGAAAAATGTATGTGTATGA
102635560 ATA
1 ATA
102635563 ACGGTTATTC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.43
Consensus pattern (58 bp):
ATATTTGTATAAGGTAAGTATTCTTTCTTTGTAAATGATGAAAAATGTATGTGTATGA
Found at i:102650828 original size:15 final size:14
Alignment explanation
Indices: 102650808--102650843 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
102650798 TATCTATAGA
102650808 GAAAAATTCAAACAC
1 GAAAAATTC-AACAC
102650823 GAAAAA-TCAACAC
1 GAAAAATTCAACAC
102650836 GAAAAATT
1 GAAAAATT
102650844 AAAATATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 11 0.55
14 3 0.15
15 6 0.30
ACGTcount: A:0.61, C:0.17, G:0.08, T:0.14
Consensus pattern (14 bp):
GAAAAATTCAACAC
Found at i:102655967 original size:3 final size:3
Alignment explanation
Indices: 102655959--102655986 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
102655949 AACACCCAGG
102655959 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
102655987 CTCCTCCTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:102660613 original size:31 final size:32
Alignment explanation
Indices: 102660554--102660618 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
102660544 GGCAAATTAC
102660554 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
102660586 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
102660617 AA
1 AA
102660619 ATTATTTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:102666156 original size:14 final size:12
Alignment explanation
Indices: 102666137--102666179 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 12
102666127 GTAGGCAACT
102666137 TTTTTTTTTGCGGG
1 TTTTTTTTTGC--G
102666151 TTTTTTTTTGCG
1 TTTTTTTTTGCG
102666163 -TTTTTTTTGCG
1 TTTTTTTTTGCG
102666174 CTTTTT
1 -TTTTT
102666180 GCTTCTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 11 0.41
12 1 0.04
13 4 0.15
14 11 0.41
ACGTcount: A:0.00, C:0.09, G:0.19, T:0.72
Consensus pattern (12 bp):
TTTTTTTTTGCG
Found at i:102666190 original size:13 final size:13
Alignment explanation
Indices: 102666174--102666208 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
102666164 TTTTTTTGCG
102666174 CTTTTTGCTTCTT
1 CTTTTTGCTTCTT
* *
102666187 CTTTTTTCTTTTT
1 CTTTTTGCTTCTT
102666200 CTTTTTGCT
1 CTTTTTGCT
102666209 GTTTTTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.20, G:0.06, T:0.74
Consensus pattern (13 bp):
CTTTTTGCTTCTT
Found at i:102666808 original size:31 final size:32
Alignment explanation
Indices: 102666752--102666813 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
102666742 AAATTACAAC
102666752 AGTAATTGAATCCTAATAAAAACTCTTTAAAG
1 AGTAATTGAATCCTAATAAAAACTCTTTAAAG
102666784 AGTAATTGAATCCTAAT-AAAACTCTTTAAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAAA
102666814 ATTATCTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (32 bp):
AGTAATTGAATCCTAATAAAAACTCTTTAAAG
Found at i:102673576 original size:31 final size:31
Alignment explanation
Indices: 102673505--102673588 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 31
102673495 TACTAAAAGA
* *
102673505 ATAGCTTAGGTACCACTTGTGACAAAAAAAAT
1 ATAGTTTAGGTACCAATT-TGACAAAAAAAAT
* * **
102673537 AAAGGTTTAGGTACCAATTTGAGAAAAATGAT
1 ATA-GTTTAGGTACCAATTTGACAAAAAAAAT
*
102673569 ATAGTTTAGGTACTAATTTG
1 ATAGTTTAGGTACCAATTTG
102673589 TGGCTTTAGC
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
31 16 0.37
32 14 0.33
33 13 0.30
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (31 bp):
ATAGTTTAGGTACCAATTTGACAAAAAAAAT
Found at i:102674501 original size:133 final size:132
Alignment explanation
Indices: 102674244--102674502 Score: 405
Period size: 133 Copynumber: 1.9 Consensus size: 132
102674234 TTTTTGTTTC
102674244 TTCCTATTCTCGAAAAAGTTCAATAGTTAAAAATCTTATACTAAACTCAACACCCATGAGTGCCG
1 TTCCTATTCTCGAAAAAGTTCAATAGTTAAAAATCTTATACTAAACTCAACACCCATGAGTGCCG
*
102674309 AGATACTCTTCGAAAAACATATTTTAATAAATAAGTTTTCATTGTCAGAAATTAAAAAAATTCTA
66 AGATACTCTTCAAAAAACATATTTTAATAAATAAGTTTTCATTGTCAGAAATT-AAAAAATTCTA
102674374 ATA
130 ATA
* * *
102674377 TTCCTATTCTCGAAAAAGTTCAATAGTTAAAAA-CTCTATATTAAACTCGACACCCATGAGTGTC
1 TTCCTATTCTCGAAAAAGTTCAATAGTTAAAAATCT-TATACTAAACTCAACACCCATGAGTGCC
* *
102674441 GAGATACTCCTT-AAAAAATATATATTTAATAAATAAGTTTTTCATTTTCAGAAATTAAAAAA
65 GAGATACT-CTTCAAAAAACATAT-TTTAATAAATAAG-TTTTCATTGTCAGAAATTAAAAAA
102674503 AATCTAATGT
Statistics
Matches: 116, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
132 2 0.02
133 75 0.65
134 22 0.19
135 17 0.15
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (132 bp):
TTCCTATTCTCGAAAAAGTTCAATAGTTAAAAATCTTATACTAAACTCAACACCCATGAGTGCCG
AGATACTCTTCAAAAAACATATTTTAATAAATAAGTTTTCATTGTCAGAAATTAAAAAATTCTAA
TA
Found at i:102683947 original size:21 final size:22
Alignment explanation
Indices: 102683905--102683949 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
102683895 GAAGAAAACT
**
102683905 ATCGTTTTTCATATCATTATTA
1 ATCGTTTTTCATATCAGGATTA
*
102683927 ATCGTTTTTCATGT-AGGATTA
1 ATCGTTTTTCATATCAGGATTA
102683948 AT
1 AT
102683950 AGTTGGTCGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.51
Consensus pattern (22 bp):
ATCGTTTTTCATATCAGGATTA
Found at i:102691153 original size:51 final size:51
Alignment explanation
Indices: 102691098--102691307 Score: 328
Period size: 51 Copynumber: 4.3 Consensus size: 51
102691088 GATCACATTT
*
102691098 ATCACTTGTCACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTA-CACCTC
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCA-CTC
102691149 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
102691200 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAG------CT-
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
* *
102691244 ATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
102691295 ATCACTTGTCACT
1 ATCACTTGTCACT
102691308 GATCAGAAGT
Statistics
Matches: 148, Mismatches: 3, Indels: 16
0.89 0.02 0.10
Matches are distributed among these distances:
44 41 0.28
45 2 0.01
50 2 0.01
51 101 0.68
52 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
Found at i:102691271 original size:95 final size:97
Alignment explanation
Indices: 102691098--102691307 Score: 334
Period size: 95 Copynumber: 2.1 Consensus size: 97
102691088 GATCACATTT
* *
102691098 ATCACTTGTCACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTACACCTCATCACTTGTCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAG-----CCTCATCACTTATCACTT
102691163 GTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
61 GTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTC
102691200 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAG-CT-ATCACTTATCACTTGTCAC
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCCTCATCACTTATCACTTGTCAC
*
102691263 TGATCAGATAAGTGTAGCTAAAGCTACCACTT
66 TGATCAGATAAGTGTAGCTAAAGCTACCACTC
102691295 ATCACTTGTCACT
1 ATCACTTGTCACT
102691308 GATCAGAAGT
Statistics
Matches: 105, Mismatches: 3, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
95 62 0.59
96 2 0.02
102 41 0.39
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (97 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCCTCATCACTTATCACTTGTCAC
TGATCAGATAAGTGTAGCTAAAGCTACCACTC
Found at i:102691294 original size:37 final size:40
Alignment explanation
Indices: 102691208--102691314 Score: 133
Period size: 44 Copynumber: 2.5 Consensus size: 40
102691198 TCATCACTTG
102691208 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGC-ATCAC
*
102691249 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 ---TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGC-ATCAC
102691293 TTATCACTTGTCACTGATCAGA
1 ---TCACTTGTCACTGATCAGA
102691315 AGTACTCAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (40 bp):
TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCATCAC
Found at i:102701881 original size:12 final size:12
Alignment explanation
Indices: 102701864--102701895 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
102701854 AGCATTAAGA
102701864 TCTTTACTTTCT
1 TCTTTACTTTCT
102701876 TCTTTACTTTCT
1 TCTTTACTTTCT
102701888 TCTTTACT
1 TCTTTACT
102701896 CGTTTACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.25, G:0.00, T:0.66
Consensus pattern (12 bp):
TCTTTACTTTCT
Found at i:102702227 original size:50 final size:50
Alignment explanation
Indices: 102702103--102702401 Score: 264
Period size: 50 Copynumber: 5.9 Consensus size: 50
102702093 GAATATAACA
* * * * * * *
102702103 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGA-TGTTTCTTGTA-C
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATCTAGG
* * * * * * *
102702152 TGCCAATGTCATATCCCAGATATGGTATTACATGGGAGTTCACATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTAGG
* ** * *
102702202 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTAGG
* * *
102702252 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTAGG
* * * *
102702302 TGCCAACGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CT-TC-TCATCT--A-GG
*
102702358 TGCCAATGCCATGTCCCAGACATGGTTTTACATGGGA--TCTCATC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATC
102702402 CTCTTAATGT
Statistics
Matches: 205, Mismatches: 37, Indels: 14
0.80 0.14 0.05
Matches are distributed among these distances:
49 35 0.17
50 121 0.59
51 5 0.02
52 4 0.02
53 5 0.02
56 35 0.17
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTAGG
Found at i:102704270 original size:25 final size:24
Alignment explanation
Indices: 102704233--102704320 Score: 70
Period size: 25 Copynumber: 3.6 Consensus size: 24
102704223 GACACACCAC
* * *
102704233 AGCTCGTAAGAGCGTCCCGCTATTT
1 AGCTCTTATGAGC-TCCCGATATTT
* * *
102704258 AGCTCTTATGAGCACCCGTTATAT
1 AGCTCTTATGAGCTCCCGATATTT
*
102704282 -GACTCTTTTGAGCTTCCCGATATTT
1 AG-CTCTTATGAGC-TCCCGATATTT
*
102704307 GGCTCTTATGAGCT
1 AGCTCTTATGAGCT
102704321 TCCTGATTAA
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
23 1 0.02
24 19 0.38
25 29 0.58
26 1 0.02
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.35
Consensus pattern (24 bp):
AGCTCTTATGAGCTCCCGATATTT
Found at i:102704319 original size:49 final size:50
Alignment explanation
Indices: 102704242--102704369 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 50
102704232 CAGCTCGTAA
* * * *
102704242 GAGCGTCCCGCTATTTAGCTCTTATGAGC-ACCCG-TTATATGACTCTTTT
1 GAGCTTCCCGATATTTGGCTCTTATGAGCTACCCGATTA-ATGACTCTCTT
* * *
102704291 GAGCTTCCCGATATTTGGCTCTTATGAGCTTCCTGATTAATGGCTCTCTT
1 GAGCTTCCCGATATTTGGCTCTTATGAGCTACCCGATTAATGACTCTCTT
*
102704341 GAGCTTCCC-AT-TTATGGCTCGTATGAGCT
1 GAGCTTCCCGATATT-TGGCTCTTATGAGCT
102704370 TTTCGATATT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
48 2 0.03
49 42 0.62
50 21 0.31
51 3 0.04
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (50 bp):
GAGCTTCCCGATATTTGGCTCTTATGAGCTACCCGATTAATGACTCTCTT
Found at i:102704321 original size:25 final size:25
Alignment explanation
Indices: 102704242--102704384 Score: 107
Period size: 25 Copynumber: 5.8 Consensus size: 25
102704232 CAGCTCGTAA
* * *
102704242 GAGCGTCCCGCTATTTAGCTCTTAT
1 GAGCTTCCCGATATTTGGCTCTTAT
* * * * *
102704267 GAGC-ACCCGTTATATGACTCTTTT
1 GAGCTTCCCGATATTTGGCTCTTAT
102704291 GAGCTTCCCGATATTTGGCTCTTAT
1 GAGCTTCCCGATATTTGGCTCTTAT
* *
102704316 GAGCTTCCTGAT-TAATGGCTCTCT-T
1 GAGCTTCCCGATAT-TTGGCTCT-TAT
*
102704341 GAGCTTCCC-AT-TTATGGCTCGTAT
1 GAGCTTCCCGATATT-TGGCTCTTAT
**
102704365 GAGCTTTTCGATATTTGGCT
1 GAGCTTCCCGATATTTGGCT
102704385 TGCAAGAGCT
Statistics
Matches: 93, Mismatches: 18, Indels: 14
0.74 0.14 0.11
Matches are distributed among these distances:
23 1 0.01
24 36 0.39
25 53 0.57
26 3 0.03
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (25 bp):
GAGCTTCCCGATATTTGGCTCTTAT
Found at i:102712060 original size:19 final size:20
Alignment explanation
Indices: 102712029--102712066 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
102712019 CATGCAAACT
102712029 AAGAAAGGAAATGAAAGAAA
1 AAGAAAGGAAATGAAAGAAA
*
102712049 AAGAAA-GAAATGAGAGAA
1 AAGAAAGGAAATGAAAGAA
102712067 CGCATGGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.05
Consensus pattern (20 bp):
AAGAAAGGAAATGAAAGAAA
Found at i:102712381 original size:20 final size:20
Alignment explanation
Indices: 102712338--102712381 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
102712328 TTGTGAAAAT
* * *
102712338 TTTGAAATTTAGGAGTTTAA
1 TTTGAAAATAAGGAGTTAAA
102712358 -TTGAAAATAAGGAGTTAAA
1 TTTGAAAATAAGGAGTTAAA
102712377 TTTGA
1 TTTGA
102712382 TTTAAAGTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (20 bp):
TTTGAAAATAAGGAGTTAAA
Found at i:102718535 original size:15 final size:15
Alignment explanation
Indices: 102718517--102718546 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
102718507 GCAACCCACG
102718517 TGAAATTGTTAATGA
1 TGAAATTGTTAATGA
102718532 TGAAATTGTTAATGA
1 TGAAATTGTTAATGA
102718547 ATACATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (15 bp):
TGAAATTGTTAATGA
Found at i:102722695 original size:178 final size:178
Alignment explanation
Indices: 102722392--102722743 Score: 623
Period size: 178 Copynumber: 2.0 Consensus size: 178
102722382 AATTTATATG
*
102722392 GGGTAGGCTTGAAAGGCTCAAATGATCCAAATAAAATGTGCCTAAATCATGTTTAGGTTCTTATG
1 GGGTAGGCTTGAAAGGCTCAAATGATCCAAATAAAATGTGCCTAAATCATGTTTAGATTCTTATG
* * * *
102722457 CCTCCTAAGATTTCGCCTCAAGAAAGTTACTAAGTTAATTCTAAGAACTTAAATCTTCATGCATG
66 CCTCCTAAGATTTCGCCTCAAAAAAGTTACTAAGTCAAATCTAAGAACTTAAACCTTCATGCATG
* * *
102722522 TTTATAAAAAGAAGTTTAATTTTCATGGTAAAAGGCTAAATAAGCTTA
131 TTTATAAAAAGAAGTTTAATTCTCACGATAAAAGGCTAAATAAGCTTA
*
102722570 GGGTAGGCTTGAAAGGCTCAAATGGTCCAAATAAAATGTGCCTAAATCATGTTTAGATTCTTATG
1 GGGTAGGCTTGAAAGGCTCAAATGATCCAAATAAAATGTGCCTAAATCATGTTTAGATTCTTATG
102722635 CCTCCTAAGATTTCGCCTCAAAAAAGTTACTAAGTCAAATCTAAGAACTTAAACCTTCATGCATG
66 CCTCCTAAGATTTCGCCTCAAAAAAGTTACTAAGTCAAATCTAAGAACTTAAACCTTCATGCATG
102722700 TTTATAAAAAGAAGTTTAATTCTCACGATAAAAGGCTAAATAAG
131 TTTATAAAAAGAAGTTTAATTCTCACGATAAAAGGCTAAATAAG
102722744 ACCTAAGAAT
Statistics
Matches: 165, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
178 165 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (178 bp):
GGGTAGGCTTGAAAGGCTCAAATGATCCAAATAAAATGTGCCTAAATCATGTTTAGATTCTTATG
CCTCCTAAGATTTCGCCTCAAAAAAGTTACTAAGTCAAATCTAAGAACTTAAACCTTCATGCATG
TTTATAAAAAGAAGTTTAATTCTCACGATAAAAGGCTAAATAAGCTTA
Found at i:102724349 original size:30 final size:30
Alignment explanation
Indices: 102724315--102724498 Score: 167
Period size: 30 Copynumber: 6.1 Consensus size: 30
102724305 CAATGGAAAG
102724315 GGATAGCTTCGGCTATCAAATTATGAAAAA
1 GGATAGCTTCGGCTATCAAATTATGAAAAA
102724345 GGATAGCTTCGGCTATCAAATTAT-AAAAA
1 GGATAGCTTCGGCTATCAAATTATGAAAAA
* * * *
102724374 GGGATAGCTTCAGCTGTCAACTTGTG-AAAA
1 -GGATAGCTTCGGCTATCAAATTATGAAAAA
* * *
102724404 GAGATAGCTTGGGATATCAAATTATGAAAAT
1 G-GATAGCTTCGGCTATCAAATTATGAAAAA
* * * * * * *
102724435 GGAT-GGTGACGACCATCGAACTATGAAAAG
1 GGATAGCT-TCGGCTATCAAATTATGAAAAA
* * *
102724465 GGATAGTTTCGGCTATCAAATCATGAAAAG
1 GGATAGCTTCGGCTATCAAATTATGAAAAA
102724495 GGAT
1 GGAT
102724499 GGTGACGACT
Statistics
Matches: 121, Mismatches: 27, Indels: 12
0.76 0.17 0.08
Matches are distributed among these distances:
29 8 0.07
30 107 0.88
31 6 0.05
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.26
Consensus pattern (30 bp):
GGATAGCTTCGGCTATCAAATTATGAAAAA
Found at i:102724384 original size:60 final size:60
Alignment explanation
Indices: 102724311--102724578 Score: 197
Period size: 60 Copynumber: 4.5 Consensus size: 60
102724301 CGACCAATGG
*
102724311 AAAGGGATAGCTTCGGCTATCAAATTATGAAAAAGGATAGCTTCGGCTATCAAATTATAA
1 AAAGGGATAGCTTCGGCTATCAAATTATGAAAAAGGATAGCTTCGGCTATCAAATTATGA
* * * * * *
102724371 AAAGGGATAGCTTCAGCTGTCAACTTGTG-AAAAGAGATAGCTTGGGATATCAAATTATGA
1 AAAGGGATAGCTTCGGCTATCAAATTATGAAAAAG-GATAGCTTCGGCTATCAAATTATGA
* * * * * * * * * *
102724431 AAATGGAT-GGTGACGACCATCGAACTATGAAAAGGGATAGTTTCGGCTATCAAATCATGA
1 AAAGGGATAGCT-TCGGCTATCAAATTATGAAAAAGGATAGCTTCGGCTATCAAATTATGA
* * * * * * ** * * *
102724491 AAAGGGAT-GGTGACGACTATC-AACTATGAAAAGGGAT-G-TGACAACCATTAAAATATGA
1 AAAGGGATAGCT-TCGGCTATCAAATTATGAAAAAGGATAGCT-TCGGCTATCAAATTATGA
*
102724549 AAAGGGATAGCTTCGGCTATCGAATTATGA
1 AAAGGGATAGCTTCGGCTATCAAATTATGA
102724579 GAAGGAATGG
Statistics
Matches: 166, Mismatches: 36, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
57 1 0.01
58 27 0.16
59 32 0.19
60 102 0.61
61 4 0.02
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (60 bp):
AAAGGGATAGCTTCGGCTATCAAATTATGAAAAAGGATAGCTTCGGCTATCAAATTATGA
Found at i:102724469 original size:90 final size:90
Alignment explanation
Indices: 102724311--102724583 Score: 232
Period size: 90 Copynumber: 3.1 Consensus size: 90
102724301 CGACCAATGG
* * * * * * * *
102724311 AAAGGGATAGCTTCGGCTATCAAATTATGAAAAAGGATAGCT-TCGGCTATCAAATTATAAAAAG
1 AAAGGGATAGCTTGGGATATCAAATTATGAAAAAGGAT-GGTGACGACCATCAAAATATGAAAAG
* * **
102724375 GGATAGCTTCAGCTGTCAACTTGTGA
65 GGATAGCTTCAGCTATCAAATCATGA
* * * *
102724401 AAAGAGATAGCTTGGGATATCAAATTATGAAAATGGATGGTGACGACCATCGAACTATGAAAAGG
1 AAAGGGATAGCTTGGGATATCAAATTATGAAAAAGGATGGTGACGACCATCAAAATATGAAAAGG
* *
102724466 GATAGTTTCGGCTATCAAATCATGA
66 GATAGCTTCAGCTATCAAATCATGA
* * * * * *
102724491 AAAGGGAT-G-GTGACGACTATC-AACTATGAAAAGGGAT-GTGACAACCATTAAAATATGAAAA
1 AAAGGGATAGCTTG-GGA-TATCAAATTATGAAAAAGGATGGTGACGACCATCAAAATATGAAAA
* * *
102724552 GGGATAGCTTCGGCTATCGAATTATGA
64 GGGATAGCTTCAGCTATCAAATCATGA
*
102724579 GAAGG
1 AAAGG
102724584 AATGGTGACA
Statistics
Matches: 150, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
88 50 0.33
89 19 0.13
90 81 0.54
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (90 bp):
AAAGGGATAGCTTGGGATATCAAATTATGAAAAAGGATGGTGACGACCATCAAAATATGAAAAGG
GATAGCTTCAGCTATCAAATCATGA
Found at i:102724511 original size:30 final size:29
Alignment explanation
Indices: 102724418--102724556 Score: 136
Period size: 30 Copynumber: 4.7 Consensus size: 29
102724408 TAGCTTGGGA
*
102724418 TATCAAATTATGAAAATGGATGGTGACGAC
1 TATCAAA-TATGAAAAGGGATGGTGACGAC
* * * ** *
102724448 CATCGAACTATGAAAAGGGATAGTTTCGGC
1 TATC-AAATATGAAAAGGGATGGTGACGAC
102724478 TATCAAATCATGAAAAGGGATGGTGACGAC
1 TATCAAAT-ATGAAAAGGGATGGTGACGAC
* *
102724508 TATCAACTATGAAAAGGGAT-GTGACAAC
1 TATCAAATATGAAAAGGGATGGTGACGAC
* *
102724536 CATTAAAATATGAAAAGGGAT
1 TA-TCAAATATGAAAAGGGAT
102724557 AGCTTCGGCT
Statistics
Matches: 88, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
28 8 0.09
29 31 0.35
30 47 0.53
31 2 0.02
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.23
Consensus pattern (29 bp):
TATCAAATATGAAAAGGGATGGTGACGAC
Found at i:102724557 original size:88 final size:89
Alignment explanation
Indices: 102724426--102724592 Score: 237
Period size: 88 Copynumber: 1.9 Consensus size: 89
102724416 GATATCAAAT
* * * * *
102724426 TATGAAAATGGATGGTGACGACCATCGAACTATGAAAAGGGATAGTTTCGGCTATCAAATCATGA
1 TATGAAAAGGGATGGTGACAACCATCAAAATATGAAAAGGGATAGCTTCGGCTATCAAATCATGA
*
102724491 AAAGGGATGGTGACGACTATCAAC
66 AAAGGAATGGTGACGACTATCAAC
* * *
102724515 TATGAAAAGGGAT-GTGACAACCATTAAAATATGAAAAGGGATAGCTTCGGCTATCGAATTATGA
1 TATGAAAAGGGATGGTGACAACCATCAAAATATGAAAAGGGATAGCTTCGGCTATCAAATCATGA
*
102724579 GAAGGAATGGTGAC
66 AAAGGAATGGTGAC
102724593 AACCATCGTG
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
88 56 0.82
89 12 0.18
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (89 bp):
TATGAAAAGGGATGGTGACAACCATCAAAATATGAAAAGGGATAGCTTCGGCTATCAAATCATGA
AAAGGAATGGTGACGACTATCAAC
Found at i:102732566 original size:3 final size:3
Alignment explanation
Indices: 102732558--102732583 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
102732548 TTGCTCTCCT
102732558 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
102732584 TAACTATATA
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:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:102745733 original size:90 final size:89
Alignment explanation
Indices: 102745542--102745743 Score: 232
Period size: 87 Copynumber: 2.3 Consensus size: 89
102745532 GCAGGAAAAT
* * * *
102745542 TATAAAAATTATTATTTATTATATTATATTTTTGGGCACTTAGTCTTGAGTATAGTGTTGCAAAA
1 TATAAAAATTATTATTTATTATATTATATTTTTGGACACTGAATCTTGAGTATAGTGCTG-AAAA
* *
102745607 ATATTTTTTTATTTTCTGAAATAAT
65 ATATTTTTTTATTTTCGGAAATAAC
* * *
102745632 TATAAAAATTATTATTTATTCTATTTTATTTTT-GACACTCGAAT-TTGAGTATAGTGCTG-TAA
1 TATAAAAATTATTATTTATTATATTATATTTTTGGACACT-GAATCTTGAGTATAGTGCTGAAAA
* *
102745694 ATTTTTATTTTATTTT-GGAGATAAC
65 ATATTT-TTTTATTTTCGGAAATAAC
* *
102745719 TATAAAAACTATTATTTTTTATATT
1 TATAAAAATTATTATTTATTATATT
102745744 TCATTCTTGG
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
87 35 0.36
88 9 0.09
89 19 0.20
90 33 0.34
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.51
Consensus pattern (89 bp):
TATAAAAATTATTATTTATTATATTATATTTTTGGACACTGAATCTTGAGTATAGTGCTGAAAAA
TATTTTTTTATTTTCGGAAATAAC
Found at i:102745744 original size:87 final size:89
Alignment explanation
Indices: 102745542--102745929 Score: 241
Period size: 88 Copynumber: 4.4 Consensus size: 89
102745532 GCAGGAAAAT
* * * * *
102745542 TATAAAAATTATTATTTATTATATTATATTTTTGGGCACTTAGTCTTGAGTATAGTGTTGCAAAA
1 TATAAAAATTATTATTTATTATATTTTATTTTTGGACACTGAATCTTGAGTATAGTGCTG-AAAA
* *
102745607 ATATTTTTTTATTTTCTGAAATAAT
65 ATATTTTTTTATTTTCGGAAATAAC
* *
102745632 TATAAAAATTATTATTTATTCTATTTTATTTTT-GACACTCGAAT-TTGAGTATAGTGCTG-TAA
1 TATAAAAATTATTATTTATTATATTTTATTTTTGGACACT-GAATCTTGAGTATAGTGCTGAAAA
* *
102745694 ATTTTTATTTTATTTT-GGAGATAAC
65 ATATTT-TTTTATTTTCGGAAATAAC
* * * * * * * *
102745719 TATAAAAACTATTATTTTTTATATTTCATTCTTGGGGAAATTTG--GCTTGAGCAT-GATGCT-A
1 TATAAAAATTATTATTTATTATATTTTATT-TT-TGGACA-CTGAATCTTGAGTATAG-TGCTGA
* ** * *
102745780 CAAAT-TTTTTTTATTTTCCAAAAAAAT
62 AAAATATTTTTTTATTTTCGGAAATAAC
* * * *
102745807 TA-AAAAATATATTATTTGTTATATTTCATTTTCGGAAAACTTG--TGCTTGAGTAT-GATGCTT
1 TATAAAAAT-TATTATTTATTATATTTTATTTTTGG-ACAC-TGAAT-CTTGAGTATAG-TGC-T
* * * * *
102745868 GAAAATTA-TATTTTATTTTTGG-GATAGC
60 GAAAAATATTTTTTTATTTTCGGAAATAAC
*
102745896 TAT-AAAATTATTAATTATTATATTTTATTTTTGG
1 TATAAAAATTATTATTTATTATATTTTATTTTTGG
102745930 GATAGCTATA
Statistics
Matches: 234, Mismatches: 46, Indels: 38
0.74 0.14 0.12
Matches are distributed among these distances:
86 2 0.01
87 60 0.26
88 76 0.32
89 44 0.19
90 51 0.22
91 1 0.00
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.49
Consensus pattern (89 bp):
TATAAAAATTATTATTTATTATATTTTATTTTTGGACACTGAATCTTGAGTATAGTGCTGAAAAA
TATTTTTTTATTTTCGGAAATAAC
Found at i:102745917 original size:40 final size:40
Alignment explanation
Indices: 102745872--102745947 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
102745862 ATGCTTGAAA
*
102745872 ATTATATTTTATTTTTGGGATAGCTATAAAATTATTAATT
1 ATTATATTTTATTTTTGGGATAGCTATAAAAATATTAATT
102745912 ATTATATTTTATTTTTGGGATAGCTATAAAAATATT
1 ATTATATTTTATTTTTGGGATAGCTATAAAAATATT
102745948 GATAAAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.36, C:0.03, G:0.11, T:0.51
Consensus pattern (40 bp):
ATTATATTTTATTTTTGGGATAGCTATAAAAATATTAATT
Found at i:102758492 original size:5 final size:5
Alignment explanation
Indices: 102758482--102758521 Score: 66
Period size: 5 Copynumber: 8.4 Consensus size: 5
102758472 AATATTTTGG
102758482 TTTAA TTTAA TTTAA TTTAA TTTAA TTT-A TTTAA -TTAA TT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TT
102758522 ACCATTTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 8 0.24
5 25 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:102766794 original size:4 final size:5
Alignment explanation
Indices: 102766759--102766793 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
102766749 AATATTTTGG
102766759 TTTAA TTTAA TTTAA TTTAA TTT-A TTTAA -TTAA TT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TT
102766794 ACCATTTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 8 0.29
5 20 0.71
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Done.