Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 291 of 318
Found at i:91576567 original size:1 final size:1
Alignment explanation
Indices: 91576556--91576598 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
91576546 GATGAACCTG
* * * *
91576556 TTTTGTTTTTTTTTTGTTTTTTGTTTTTTTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
91576599 CCTTTGAAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (1 bp):
T
Found at i:91576575 original size:7 final size:7
Alignment explanation
Indices: 91576561--91576598 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
91576551 ACCTGTTTTG
91576561 TTTT-TT
1 TTTTGTT
91576567 TTTTGTT
1 TTTTGTT
91576574 TTTTGTT
1 TTTTGTT
*
91576581 TTTTTTT
1 TTTTGTT
91576588 TTTTGTT
1 TTTTGTT
91576595 TTTT
1 TTTT
91576599 CCTTTGAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (7 bp):
TTTTGTT
Found at i:91578013 original size:25 final size:26
Alignment explanation
Indices: 91577941--91578014 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 26
91577931 ATTAAGAACG
* *
91577941 TTATTAAATTAT--TT-ATTATTATT
1 TTATTAAATTATAATTAATAATAATT
91577964 TTATTAAATTATAATTAATAATAATT
1 TTATTAAATTATAATTAATAATAATT
91577990 TTATTAAAATT-TAA-TAATAATAATT
1 TTATT-AAATTATAATTAATAATAATT
91578015 ATCTATCTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
23 12 0.27
25 13 0.29
26 15 0.33
27 5 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TTATTAAATTATAATTAATAATAATT
Found at i:91586181 original size:109 final size:108
Alignment explanation
Indices: 91586054--91586266 Score: 365
Period size: 109 Copynumber: 2.0 Consensus size: 108
91586044 GATTGAATAA
*
91586054 TTATGTGTTTGAGTATGGGATTGTAGAGTGGAATTATTAAGTATAAATAAACTAAATTAGCTATT
1 TTATGTGTTTGAGTATGGGATTGTAGAGTCGAATTATTAAGTATAAATAAACTAAATTAGCTATT
*
91586119 AAAAAAATAGTACATGGACTGTATTATAAAAATGTAATCATATAG
66 --AAAAATAATACATGGACTGTATTATAAAAATGTAATCATATAG
* *
91586164 TTATGTG-TTGAGTATGGGATTGTAGAGTCGAATTATTAAGTATAAATAAATTAAATTGGCTATT
1 TTATGTGTTTGAGTATGGGATTGTAGAGTCGAATTATTAAGTATAAATAAACTAAATTAGCTATT
91586228 AAAAATAATACATGGACTGTATTATAAAAATGTAATCAT
66 AAAAATAATACATGGACTGTATTATAAAAATGTAATCAT
91586267 TAACAAATTT
Statistics
Matches: 99, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
107 38 0.38
109 54 0.55
110 7 0.07
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (108 bp):
TTATGTGTTTGAGTATGGGATTGTAGAGTCGAATTATTAAGTATAAATAAACTAAATTAGCTATT
AAAAATAATACATGGACTGTATTATAAAAATGTAATCATATAG
Found at i:91589779 original size:29 final size:29
Alignment explanation
Indices: 91589746--91589902 Score: 242
Period size: 29 Copynumber: 5.4 Consensus size: 29
91589736 TTGTGTGTAC
* *
91589746 AATGTGAAAAGGGATAGCTTTGGCTATCA
1 AATGTGAAAAGGGATAGCTTCGGCTATCG
**
91589775 AATGTGAAAAGGGATAGCTTTAGCTATCG
1 AATGTGAAAAGGGATAGCTTCGGCTATCG
91589804 AATGTGAAAAGGGATAGCTTCGGCTATCG
1 AATGTGAAAAGGGATAGCTTCGGCTATCG
* * **
91589833 AATATGAAAAGGGATAGCTTCGACTATTA
1 AATGTGAAAAGGGATAGCTTCGGCTATCG
91589862 AATGTGAAAAGGGATAGCTTCGGCTATCG
1 AATGTGAAAAGGGATAGCTTCGGCTATCG
91589891 AATGTGAAAAGG
1 AATGTGAAAAGG
91589903 AAAGGTATAC
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 116 1.00
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.25
Consensus pattern (29 bp):
AATGTGAAAAGGGATAGCTTCGGCTATCG
Found at i:91589933 original size:33 final size:33
Alignment explanation
Indices: 91589895--91590058 Score: 186
Period size: 33 Copynumber: 5.0 Consensus size: 33
91589885 CTATCGAATG
*
91589895 TGAAAAGGAAAGGTATACTTTGTGTATATCACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACT
* * *
91589928 AGAAAATGAAAGGTATACTTTGTGTATACCATT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACT
* * * *
91589961 TGAAAAGGATATGTACACTTTGTGTGTA-CACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACT
* ** *
91589993 TGGAAAGGTTAGGTATACTTTGTGTATACCATT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACT
* * *
91590026 TGAAAATGAAAGATATACTTTGTGTGTACCACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACT
91590059 CGGAAAGAAA
Statistics
Matches: 106, Mismatches: 24, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
32 26 0.25
33 80 0.75
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCACT
Found at i:91590020 original size:65 final size:66
Alignment explanation
Indices: 91589895--91590065 Score: 202
Period size: 65 Copynumber: 2.6 Consensus size: 66
91589885 CTATCGAATG
* * * * * * * **
91589895 TGAAAAGGAAAGGTATACTTTGTGTATATCACTAGAAAATGAAAGGTATACTTTGTGTATACCAT
1 TGAAAAGGAAAGATACACTTTGTGTGTACCACTCGGAAAGGTTAGGTATACTTTGTGTATACCAT
91589960 T
66 T
* *
91589961 TGAAAAGGATATG-TACACTTTGTGTGTA-CACTTGGAAAGGTTAGGTATACTTTGTGTATACCA
1 TGAAAAGGA-AAGATACACTTTGTGTGTACCACTCGGAAAGGTTAGGTATACTTTGTGTATACCA
91590024 TT
65 TT
* *
91590026 TGAAAATGAAAGATATACTTTGTGTGTACCACTCGGAAAG
1 TGAAAAGGAAAGATACACTTTGTGTGTACCACTCGGAAAG
91590066 AAACGTACAC
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
64 2 0.02
65 54 0.60
66 32 0.36
67 2 0.02
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (66 bp):
TGAAAAGGAAAGATACACTTTGTGTGTACCACTCGGAAAGGTTAGGTATACTTTGTGTATACCAT
T
Found at i:91590098 original size:98 final size:99
Alignment explanation
Indices: 91589896--91590104 Score: 253
Period size: 98 Copynumber: 2.1 Consensus size: 99
91589886 TATCGAATGT
* * *
91589896 GAAAAGGAAAGGTATACTTTGTGTATATCACTAGAAAATGAAAGGTATACTTTGTGTATACCATT
1 GAAAAGGAAAGGTATACTTTGTGTATACCACTAGAAAATGAAAGATATACTTTGTGTATACCACT
* * * * * *
91589961 TGAAAAGGATATGTACACTTTGTGTGTACACTTG
66 CGAAAAGGAAACGTACACCTCGAGTGTACACTTG
** * * *
91589995 G-AAAGGTTAGGTATACTTTGTGTATACCATTTGAAAATGAAAGATATACTTTGTGTGTACCACT
1 GAAAAGGAAAGGTATACTTTGTGTATACCACTAGAAAATGAAAGATATACTTTGTGTATACCACT
*
91590059 CGGAAA-GAAACGTACACCTCGAGTGTACAAC-TG
66 CGAAAAGGAAACGTACACCTCGAGTGTAC-ACTTG
91590092 GAAAAGGAAAGGT
1 GAAAAGGAAAGGT
91590105 CCATCAGAAA
Statistics
Matches: 91, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
97 20 0.22
98 70 0.77
99 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (99 bp):
GAAAAGGAAAGGTATACTTTGTGTATACCACTAGAAAATGAAAGATATACTTTGTGTATACCACT
CGAAAAGGAAACGTACACCTCGAGTGTACACTTG
Found at i:91592505 original size:28 final size:28
Alignment explanation
Indices: 91592460--91592536 Score: 118
Period size: 28 Copynumber: 2.8 Consensus size: 28
91592450 CAAATATGGT
*
91592460 ACTTAGTGTACGAAATATTGAGAATGAC
1 ACTTAGTGTGCGAAATATTGAGAATGAC
* *
91592488 ACTTAATGTGCGAGATATTGAGAATGAC
1 ACTTAGTGTGCGAAATATTGAGAATGAC
*
91592516 ACTTAGTGTGCAAAATATTGA
1 ACTTAGTGTGCGAAATATTGA
91592537 ATGATTAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (28 bp):
ACTTAGTGTGCGAAATATTGAGAATGAC
Found at i:91592653 original size:39 final size:39
Alignment explanation
Indices: 91592609--91592870 Score: 382
Period size: 39 Copynumber: 6.7 Consensus size: 39
91592599 GACTTTATAA
* *
91592609 TGGTGTTATATCCGGGCTAAGTTCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
91592648 TGGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
91592687 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
91592726 TGGTGTTATATCCGAGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
91592765 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
91592804 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
* *
91592843 TGGTATTATATCCTGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
91592871 CATGATTTGT
Statistics
Matches: 205, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 184 0.90
40 21 0.10
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:91598374 original size:41 final size:41
Alignment explanation
Indices: 91598302--91598560 Score: 403
Period size: 41 Copynumber: 6.3 Consensus size: 41
91598292 ACAGAGCAAT
* * *
91598302 AAACGCCGCTAAAAA-CAGAGCAATAGCGGCGCTTTTGGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATA
*
91598342 AAACGCCGCTAAAAACCAGAGCATTAGTGGCGCTTTCGATA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATA
* *
91598383 AAACGCCGCTAAAAACCAGAGTAGTAGCGGCGCTTTCGATA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATA
* *
91598424 AAACGCCTCTAAAAACCAGAGCATTAGCAGCGCTTTCGATA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATA
*
91598465 AAACGCCGCTAAAAACCAGAGAATTAGCGGCGCTTTCGATA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATA
* *
91598506 AAACGCCACTAAAAACCAGAGCATTAGCGGTGCTTTCGATA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATA
*
91598547 AAACGCCACTAAAA
1 AAACGCCGCTAAAA
91598561 GTCATATAAT
Statistics
Matches: 201, Mismatches: 17, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
40 15 0.07
41 186 0.93
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.18
Consensus pattern (41 bp):
AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATA
Found at i:91598687 original size:22 final size:21
Alignment explanation
Indices: 91598649--91598689 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
91598639 AAATCCTAAA
*
91598649 AACCCCTAAACATTAAACTAT
1 AACCCCTAAACACTAAACTAT
*
91598670 AACCCCTAAAACCCTAAACT
1 AACCCCT-AAACACTAAACT
91598690 CCAAAAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (21 bp):
AACCCCTAAACACTAAACTAT
Found at i:91604424 original size:43 final size:44
Alignment explanation
Indices: 91604257--91604443 Score: 244
Period size: 42 Copynumber: 4.4 Consensus size: 44
91604247 ATATATATAG
*
91604257 TCTTTAGCGGCGTTTTT-AGGGAAAGCGTCGCTAAAGGTCATG-
1 TCTTTAGCGGCGTTTTTGAGGGAAAGCGCCGCTAAAGGTCATGA
*
91604299 TCTTTAGTGGCG-TTTTGAGGGAAAGCGCCGCTAAAGGTCATGA
1 TCTTTAGCGGCGTTTTTGAGGGAAAGCGCCGCTAAAGGTCATGA
*
91604342 -CTTTTAGCGGCATTTTT--GGGAAAGCGCCGCTAAAGGTCATGA
1 TC-TTTAGCGGCGTTTTTGAGGGAAAGCGCCGCTAAAGGTCATGA
* * *
91604384 TCTTTAGCGGCGTTTTTGA-GGAAAGTGCCGCTAAAAGTCATAA
1 TCTTTAGCGGCGTTTTTGAGGGAAAGCGCCGCTAAAGGTCATGA
* *
91604427 CCTTTAGCGGTGTTTTT
1 TCTTTAGCGGCGTTTTT
91604444 TCTACGCCGT
Statistics
Matches: 128, Mismatches: 10, Indels: 13
0.85 0.07 0.09
Matches are distributed among these distances:
41 4 0.03
42 75 0.59
43 45 0.35
44 4 0.03
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (44 bp):
TCTTTAGCGGCGTTTTTGAGGGAAAGCGCCGCTAAAGGTCATGA
Found at i:91604443 original size:85 final size:85
Alignment explanation
Indices: 91604258--91604443 Score: 268
Period size: 85 Copynumber: 2.2 Consensus size: 85
91604248 TATATATAGT
* *
91604258 CTTTAGCGGCGTTTTTAGGGAAAGCGTCGCTAAAGGTCATGTCTTTAGTGGCGTTTTGAGGGAAA
1 CTTTAGCGGCGTTTTTAGGGAAAGCGCCGCTAAAGGTCATGTCTTTAGCGGCGTTTTGAGGGAAA
* *
91604323 GCGCCGCTAAAGGTCATGAC
66 GCGCCGCTAAAAGTCATAAC
* *
91604343 TTTTAGCGGCATTTTT-GGGAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTTTGA-GGA
1 CTTTAGCGGCGTTTTTAGGGAAAGCGCCGCTAAAGGTCATG-TCTTTAGCGGCG-TTTTGAGGGA
*
91604406 AAGTGCCGCTAAAAGTCATAAC
64 AAGCGCCGCTAAAAGTCATAAC
*
91604428 CTTTAGCGGTGTTTTT
1 CTTTAGCGGCGTTTTT
91604444 TCTACGCCGT
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
84 23 0.26
85 60 0.67
86 6 0.07
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (85 bp):
CTTTAGCGGCGTTTTTAGGGAAAGCGCCGCTAAAGGTCATGTCTTTAGCGGCGTTTTGAGGGAAA
GCGCCGCTAAAAGTCATAAC
Found at i:91607428 original size:7 final size:7
Alignment explanation
Indices: 91607418--91607443 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
91607408 TAAAAAATAA
91607418 AAACATT
1 AAACATT
91607425 AAACATT
1 AAACATT
91607432 AAACATT
1 AAACATT
91607439 AAACA
1 AAACA
91607444 AAAAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (7 bp):
AAACATT
Found at i:91614368 original size:96 final size:96
Alignment explanation
Indices: 91614202--91614379 Score: 275
Period size: 96 Copynumber: 1.9 Consensus size: 96
91614192 TCACTTATTT
*
91614202 TTGCTCCTCTTAGCCCTCTTGGCTTCGACTTTACCCTTGCTCGAACCAAGCTTCTTGGACTCCTT
1 TTGCTCCTCTTAGCCCTCTTGGCTTCGACTTTACCCTTGCTCGAACCAAGCTTCTTGGACTCCGT
* *
91614267 GTCTGCTCCATCGTTCCTTTCGATGACAGAC
66 ATCTGCTCCATCATTCCTTTCGATGACAGAC
* * * * *
91614298 TTGCTCCTCTTTGCCCTCTTGGCTTTGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
1 TTGCTCCTCTTAGCCCTCTTGGCTTCGACTTTACCCTTGCTCGAACCAAGCTTCTTGGACTCCGT
*
91614363 ATCTGCTCGATCATTCC
66 ATCTGCTCCATCATTCC
91614380 CATCGATAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 73 1.00
ACGTcount: A:0.11, C:0.34, G:0.17, T:0.37
Consensus pattern (96 bp):
TTGCTCCTCTTAGCCCTCTTGGCTTCGACTTTACCCTTGCTCGAACCAAGCTTCTTGGACTCCGT
ATCTGCTCCATCATTCCTTTCGATGACAGAC
Found at i:91620994 original size:25 final size:24
Alignment explanation
Indices: 91620964--91621010 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
91620954 AATAATAATA
91620964 ATAATAAAGATAATA-AAATGAAAAC
1 ATAATAAAGA-AATAGAAA-GAAAAC
91620989 ATAATAAAGAAATAGAAAGAAA
1 ATAATAAAGAAATAGAAAGAAA
91621011 GTGGAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.70, C:0.02, G:0.11, T:0.17
Consensus pattern (24 bp):
ATAATAAAGAAATAGAAAGAAAAC
Found at i:91620995 original size:3 final size:3
Alignment explanation
Indices: 91620941--91620979 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
91620931 AAAGTAACTT
*
91620941 TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA -AGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
91620980 AATGAAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 1 0.03
3 30 0.94
4 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:91622243 original size:16 final size:16
Alignment explanation
Indices: 91622179--91622244 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 16
91622169 GATTGATATT
*
91622179 GAAATGACAAAGATGA
1 GAAATGACAAATATGA
91622195 GAAATG---AATATGA
1 GAAATGACAAATATGA
* *
91622208 G--ATGCGCAAATAT-T
1 GAAATG-ACAAATATGA
91622222 GAAATGACAAATATGA
1 GAAATGACAAATATGA
91622238 GAAATGA
1 GAAATGA
91622245 TCATGAGATG
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
11 3 0.08
13 7 0.18
14 1 0.03
15 12 0.31
16 16 0.41
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.20
Consensus pattern (16 bp):
GAAATGACAAATATGA
Found at i:91625768 original size:3 final size:3
Alignment explanation
Indices: 91625755--91625828 Score: 52
Period size: 3 Copynumber: 25.7 Consensus size: 3
91625745 CTTAACCCTT
*
91625755 TTA TGA TTA TTA TTGA TTA TTA -TA TT- TTA TT- TCT- TTA TTA TTTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA T-TA TTA TTA -TTA
* *
91625799 TTA AT- TTA TTG TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
91625829 TCTTTCTTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
2 9 0.16
3 42 0.74
4 6 0.11
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:91633053 original size:12 final size:12
Alignment explanation
Indices: 91633036--91633062 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
91633026 AAGCAAACCA
91633036 TAAATAGTTAAT
1 TAAATAGTTAAT
91633048 TAAATAGTTAAT
1 TAAATAGTTAAT
91633060 TAA
1 TAA
91633063 GGTTGAGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (12 bp):
TAAATAGTTAAT
Found at i:91638384 original size:19 final size:20
Alignment explanation
Indices: 91638360--91638404 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
91638350 AGATTTATTT
91638360 AATTAAAATATAG-TAATTA
1 AATTAAAATATAGTTAATTA
91638379 AATTAAAATATAGTTAATTA
1 AATTAAAATATAGTTAATTA
*
91638399 AGTTAA
1 AATTAA
91638405 TTGGAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.38
Consensus pattern (20 bp):
AATTAAAATATAGTTAATTA
Found at i:91639806 original size:18 final size:18
Alignment explanation
Indices: 91639764--91639821 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
91639754 TAACATGTAT
*
91639764 ATATATATAAT-TAATAAAT
1 ATATA-ATAATAT-ATAAAA
*
91639783 ATATAAT-ATATGTGAAAA
1 ATATAATAATATAT-AAAA
91639801 ATATAATAATATATAAAA
1 ATATAATAATATATAAAA
91639819 ATA
1 ATA
91639822 GTGATAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 3 0.09
18 20 0.61
19 10 0.30
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATATAATAATATATAAAA
Found at i:91641637 original size:119 final size:119
Alignment explanation
Indices: 91641424--91642541 Score: 1887
Period size: 119 Copynumber: 9.4 Consensus size: 119
91641414 CTTGAATTTT
* * * * * * * * * *
91641424 TTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTTCTTATAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
* ** ***
91641489 CAAATCATCTTGGATCTGTTTCAGCATAAACATCTGAAGGT-TAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAA-GTCTAGATCTGCTGCC
* *
91641543 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTGAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
91641608 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGCC
66 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGCC
*
91641662 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCTTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
**
91641727 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGTA
66 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGCC
* * *
91641781 TTTGAGAATGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTGAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
* *
91641846 CAAATTATCTTGGATCTGCTTCAATATAAATATCTGAAGTCTAGATCTGCTGCC
66 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGCC
91641900 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
91641965 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGCC
66 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGCC
* *
91642019 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTGAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
*
91642084 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTACTGCC
66 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGCC
*
91642138 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
91642203 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGCC
66 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGCC
* * *
91642257 TTTGAGAATGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTGAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
* *
91642322 CAAATCATCTTGGATTTACTTCAATATAAACATCTGAAGTCTAGATCTGCTGCC
66 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGCC
*
91642376 TTTAAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
91642441 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGCC
66 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGCC
*
91642495 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTATTCC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCC
91642542 CAAATCATCT
Statistics
Matches: 941, Mismatches: 57, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
118 2 0.00
119 939 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGTCTAGATCTGCTGCC
Found at i:91659864 original size:44 final size:46
Alignment explanation
Indices: 91659743--91659865 Score: 119
Period size: 48 Copynumber: 2.7 Consensus size: 46
91659733 CATGATATAC
* * * * *
91659743 ATAACATATATAA-AAATAAATAAATATTATATAATAAAATGTAAT
1 ATAATATATATAATTAATAAATATATAATATAAAATAAAATGTAAT
* * *
91659788 ATAAATATATAAGAATT-ATAATAGATATAATATAAAATAACATGTAA-
1 AT-AATATAT-ATAATTAATAA-ATATATAATATAAAATAAAATGTAAT
91659835 AT-ATATATATAATTAATAAATATATAATATA
1 ATAATATATATAATTAATAAATATATAATATA
91659866 TGTGAAAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
44 16 0.25
45 12 0.19
46 6 0.10
47 9 0.14
48 20 0.32
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (46 bp):
ATAATATATATAATTAATAAATATATAATATAAAATAAAATGTAAT
Found at i:91659879 original size:18 final size:18
Alignment explanation
Indices: 91659791--91659894 Score: 63
Period size: 18 Copynumber: 5.8 Consensus size: 18
91659781 ATGTAATATA
*
91659791 AATATATAAGAAT-T-AT
1 AATATATAAAAATATAAT
* * *
91659807 AATAGATATAATATAAAAT
1 AATATATA-AAAATATAAT
* * *
91659826 AACATGTAAATATATATAT
1 AATATATAAAAATATA-AT
*
91659845 AAT-TAATAAATATATAAT
1 AATAT-ATAAAAATATAAT
*
91659863 -ATATGTGAAAAATATAAT
1 AATATAT-AAAAATATAAT
91659881 AATATATAAAAATA
1 AATATATAAAAATA
91659895 GTGATAATTT
Statistics
Matches: 67, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
16 7 0.10
17 6 0.09
18 28 0.42
19 26 0.39
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.35
Consensus pattern (18 bp):
AATATATAAAAATATAAT
Found at i:91662688 original size:2 final size:2
Alignment explanation
Indices: 91662683--91662724 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
91662673 TGAAAATCAA
91662683 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91662725 GTAAATGTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91664563 original size:55 final size:55
Alignment explanation
Indices: 91664491--91664616 Score: 216
Period size: 55 Copynumber: 2.3 Consensus size: 55
91664481 TTTAGATAGA
*
91664491 TGAGATTGAAAGGGTATTATGTTGCATAAACATTTAGTGAACTTGTATTGAGCAG
1 TGAGACTGAAAGGGTATTATGTTGCATAAACATTTAGTGAACTTGTATTGAGCAG
* * *
91664546 TGCGACTGAAAGGGTATTATGTTGCGTAAACATTTAGTGAACTTGTGTTGAGCAG
1 TGAGACTGAAAGGGTATTATGTTGCATAAACATTTAGTGAACTTGTATTGAGCAG
91664601 TGAGACTGAAAGGGTA
1 TGAGACTGAAAGGGTA
91664617 ACTTAGGTAG
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.32
Consensus pattern (55 bp):
TGAGACTGAAAGGGTATTATGTTGCATAAACATTTAGTGAACTTGTATTGAGCAG
Found at i:91671610 original size:41 final size:42
Alignment explanation
Indices: 91671516--91671634 Score: 118
Period size: 41 Copynumber: 2.9 Consensus size: 42
91671506 TATTCGATAT
* * * * *
91671516 CTCGCACACTAAGTGCCAAAGCATAGCCGAAGCTATTATAAT
1 CTCGCAAACTAAATGCCATATCATAGCCGAAGCTATTATAAC
* * *
91671558 CTCGCACACTAAATGCC-TTTCATAGCCGAAGCT-TTCTCAAC
1 CTCGCAAACTAAATGCCATATCATAGCCGAAGCTATTAT-AAC
* *
91671599 CTCTCAAACTAAGTGCCATAT-ATAGCCGAAGCTATT
1 CTCGCAAACTAAATGCCATATCATAGCCGAAGCTATT
91671635 CCAATTCGCA
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
40 3 0.05
41 41 0.64
42 20 0.31
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (42 bp):
CTCGCAAACTAAATGCCATATCATAGCCGAAGCTATTATAAC
Found at i:91671669 original size:81 final size:83
Alignment explanation
Indices: 91671523--91671703 Score: 212
Period size: 81 Copynumber: 2.2 Consensus size: 83
91671513 TATCTCGCAC
*
91671523 ACTAAGTGCCAAAGCATAGCCGAAGCTATTATAATCTCGCACACTAAATGCCTTTCATAGCCGAA
1 ACTAAGTGCCAAAGCATAGCCGAAGCTATTACAATCTCGCACACTAAATGCCTTTCATAGCCGAA
*
91671588 GCTTTCTCAACCTCTCAA
66 GCTATCTCAACCTCTCAA
* * * * * *
91671606 ACTAAGTGCCATA-TATAGCCGAAGCTATTCCAAT-TCGCACACTAAGTG-CTTTATATAGTCGA
1 ACTAAGTGCCAAAGCATAGCCGAAGCTATTACAATCTCGCACACTAAATGCCTTT-CATAGCCGA
* *
91671668 AGCTATCTCGAA--TCGCAC
65 AGCTATCTC-AACCTCTCAA
91671686 ACTAAGTGCCAAA-CATAG
1 ACTAAGTGCCAAAGCATAG
91671704 TCGATTCATC
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
80 24 0.29
81 28 0.33
82 20 0.24
83 12 0.14
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (83 bp):
ACTAAGTGCCAAAGCATAGCCGAAGCTATTACAATCTCGCACACTAAATGCCTTTCATAGCCGAA
GCTATCTCAACCTCTCAA
Found at i:91671707 original size:40 final size:39
Alignment explanation
Indices: 91671516--91671703 Score: 162
Period size: 40 Copynumber: 4.6 Consensus size: 39
91671506 TATTCGATAT
* *
91671516 CTCGCACACTAAGTGCCAAAGCATAGCCGAAGCTATTATAA
1 CTCGCACACTAAGTGCCATA-CATAGCCGAAGCTATT-CAA
* * * *
91671557 TCTCGCACACTAAATGCCTTTCATAGCCGAAGCTTTCTCAA
1 -CTCGCACACTAAGTGCCATACATAGCCGAAGCTAT-TCAA
* * *
91671598 CCTCTCAAACTAAGTGCCATATATAGCCGAAGCTATTCCAA
1 -CTCGCACACTAAGTGCCATACATAGCCGAAGCTATT-CAA
* ** * *
91671639 TTCGCACACTAAGTGCTTTATATAGTCGAAGCTATCTCGAA
1 CTCGCACACTAAGTGCCATACATAGCCGAAGCTAT-TC-AA
*
91671680 -TCGCACACTAAGTGCCAAACATAG
1 CTCGCACACTAAGTGCCATACATAG
91671704 TCGATTCATC
Statistics
Matches: 118, Mismatches: 24, Indels: 10
0.78 0.16 0.07
Matches are distributed among these distances:
40 51 0.43
41 50 0.42
42 17 0.14
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (39 bp):
CTCGCACACTAAGTGCCATACATAGCCGAAGCTATTCAA
Found at i:91674708 original size:17 final size:18
Alignment explanation
Indices: 91674678--91674712 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
91674668 CCAAAACCAA
91674678 AATAAAACAAAAAATAAT
1 AATAAAACAAAAAATAAT
*
91674696 AATAAAAC-CAAAATAAT
1 AATAAAACAAAAAATAAT
91674713 TTAAAAGTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (18 bp):
AATAAAACAAAAAATAAT
Found at i:91675078 original size:23 final size:22
Alignment explanation
Indices: 91675052--91675094 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
91675042 GAAATGATGT
*
91675052 AAAAAAAGAAAAGACTGAAATAC
1 AAAAAAA-AAAACACTGAAATAC
*
91675075 AAAAAAAAAACCACTGAAAT
1 AAAAAAAAAAACACTGAAAT
91675095 TGAAAGGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.70, C:0.12, G:0.09, T:0.09
Consensus pattern (22 bp):
AAAAAAAAAAACACTGAAATAC
Found at i:91686386 original size:20 final size:20
Alignment explanation
Indices: 91686361--91686401 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
91686351 ACTTGTCGAA
91686361 TGATTCAATTGGAGTTCAAT
1 TGATTCAATTGGAGTTCAAT
91686381 TGATTCAATTGGAGTTCAAT
1 TGATTCAATTGGAGTTCAAT
91686401 T
1 T
91686402 CCTTCAAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (20 bp):
TGATTCAATTGGAGTTCAAT
Found at i:91686389 original size:9 final size:11
Alignment explanation
Indices: 91686364--91686401 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
91686354 TGTCGAATGA
91686364 TTCAATTGGAG
1 TTCAATTGGAG
91686375 TTCAATT-GA-
1 TTCAATTGGAG
91686384 TTCAATTGGAG
1 TTCAATTGGAG
91686395 TTCAATT
1 TTCAATT
91686402 CCTTCAAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 7 0.28
10 4 0.16
11 14 0.56
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (11 bp):
TTCAATTGGAG
Found at i:91686407 original size:20 final size:20
Alignment explanation
Indices: 91686363--91686408 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
91686353 TTGTCGAATG
*
91686363 ATTCAATTGGAGTTCAATTG
1 ATTCAATTGGAGTTCAATTC
91686383 ATTCAATTGGAGTTCAATTC
1 ATTCAATTGGAGTTCAATTC
*
91686403 CTTCAA
1 ATTCAA
91686409 GCTTTCAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (20 bp):
ATTCAATTGGAGTTCAATTC
Found at i:91687648 original size:159 final size:161
Alignment explanation
Indices: 91687356--91687665 Score: 394
Period size: 159 Copynumber: 1.9 Consensus size: 161
91687346 GTTTTCTTTC
*
91687356 ATTCATTCGAACAAATCTTATTATATAGGAAATAAGGTCATGACCTTCCTTTAAATTTCCATATT
1 ATTCATTCGAACAAATCTTATTATACAGGAAAT-AGGTCATGACCTTCCTTTAAATTTCCATATT
* * * ** * * * *
91687421 TTACCCTTAGATGGTCATTATGAACAATCTCAAATTCATTGGGACATCGTGACCTCCTTAAATAA
65 TTACCCTTAGATAGTAATTATGAACAATCTCAAATCCATTAAGACATCATCAACTCCTTAAACAA
*
91687486 TGGTTGACATCTCCTTCAAATATTTGTCTTCT
130 TGGTTAACATCTCCTTCAAATATTTGTCTTCT
** * * **
91687518 ATTCATTCGAACAGTTCTTATTATACATG-AAT-GGTCATGACTTTCCTTTAAATTTTTATATTT
1 ATTCATTCGAACAAATCTTATTATACAGGAAATAGGTCATGACCTTCCTTTAAATTTCCATATTT
*
91687581 TACGCC-TA-ATTAGTAATTATGAACAATCTCAAATCCATTAAGACATCATCAACTTCTTAAACA
66 TAC-CCTTAGA-TAGTAATTATGAACAATCTCAAATCCATTAAGACATCATCAACTCCTTAAACA
*
91687644 ATGGTTAAGATCTCCTTCAAAT
129 ATGGTTAACATCTCCTTCAAAT
91687666 GTTGACAAAT
Statistics
Matches: 127, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
158 1 0.01
159 96 0.76
160 2 0.02
161 3 0.02
162 25 0.20
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (161 bp):
ATTCATTCGAACAAATCTTATTATACAGGAAATAGGTCATGACCTTCCTTTAAATTTCCATATTT
TACCCTTAGATAGTAATTATGAACAATCTCAAATCCATTAAGACATCATCAACTCCTTAAACAAT
GGTTAACATCTCCTTCAAATATTTGTCTTCT
Found at i:91688408 original size:20 final size:20
Alignment explanation
Indices: 91688367--91688415 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
91688357 AATTAGATTT
**
91688367 ATTTAAATTAAAAATATTAA
1 ATTTAAATTAAAAATAAAAA
91688387 ATTTAAATTAAAAATAAAAA
1 ATTTAAATTAAAAATAAAAA
91688407 ATATTAAAT
1 AT-TTAAAT
91688416 ATTTAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATTTAAATTAAAAATAAAAA
Found at i:91688479 original size:21 final size:21
Alignment explanation
Indices: 91688454--91688500 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
91688444 TTGATTGACC
*
91688454 GTTGACCAACTATTGATCGAT
1 GTTGACCAACTATTGATCAAT
* * *
91688475 GTTGACTAATTGTTGATCAAT
1 GTTGACCAACTATTGATCAAT
91688496 GTTGA
1 GTTGA
91688501 TCGACATTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (21 bp):
GTTGACCAACTATTGATCAAT
Found at i:91688687 original size:20 final size:19
Alignment explanation
Indices: 91688659--91688710 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
91688649 TATAATTATA
*
91688659 AATTTTAAAAATTCAAAAT
1 AATTATAAAAATTCAAAAT
*
91688678 AATATATAAAAATTGAAAAT
1 AAT-TATAAAAATTCAAAAT
**
91688698 TGTTATAAAAATT
1 AATTATAAAAATT
91688711 TTAAAAGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (19 bp):
AATTATAAAAATTCAAAAT
Found at i:91688792 original size:35 final size:35
Alignment explanation
Indices: 91688753--91688839 Score: 140
Period size: 35 Copynumber: 2.5 Consensus size: 35
91688743 AAAACCTTGA
91688753 AATTTAAATACTTTTTTAGAATTTTATAAAAAATT
1 AATTTAAATACTTTTTTAGAATTTTATAAAAAATT
*
91688788 AATTTAAATAATTTTTTAGAATTTTATAAAAAATT
1 AATTTAAATACTTTTTTAGAATTTTATAAAAAATT
**
91688823 CTTTTAAA-ACTTTTTTA
1 AATTTAAATACTTTTTTA
91688840 AAATATCTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
34 8 0.17
35 40 0.83
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (35 bp):
AATTTAAATACTTTTTTAGAATTTTATAAAAAATT
Found at i:91688827 original size:23 final size:24
Alignment explanation
Indices: 91688792--91688851 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
91688782 AAAATTAATT
* *
91688792 TAAATAATT-TTTTAGAA-TTTTA
1 TAAAAAATTCTTTTAAAACTTTTA
*
91688814 TAAAAAATTCTTTTAAAACTTTTT
1 TAAAAAATTCTTTTAAAACTTTTA
*
91688838 TAAAATA-TCTTTTA
1 TAAAAAATTCTTTTA
91688852 CAGTTTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 8 0.25
23 14 0.44
24 10 0.31
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (24 bp):
TAAAAAATTCTTTTAAAACTTTTA
Found at i:91697530 original size:2 final size:2
Alignment explanation
Indices: 91697523--91697558 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
91697513 ATAATGCTTA
91697523 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91697559 CTTGATTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91699747 original size:25 final size:25
Alignment explanation
Indices: 91699678--91699773 Score: 120
Period size: 25 Copynumber: 3.8 Consensus size: 25
91699668 GACACACCAT
* * *
91699678 AGCTCGTATGAGCTTCCCGCTATAC
1 AGCTCGCATGAGCTTCCCGTTATTC
91699703 AGCTCGCATGAGCTTCCCGTTATTC
1 AGCTCGCATGAGCTTCCCGTTATTC
* *
91699728 AGCTCGCATGAGCTTCCCGTAATTT
1 AGCTCGCATGAGCTTCCCGTTATTC
* * *
91699753 AGCTTGGAGGAGCTTCCCGTT
1 AGCTCGCATGAGCTTCCCGTT
91699774 TACAGTTCGT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.18, C:0.29, G:0.23, T:0.30
Consensus pattern (25 bp):
AGCTCGCATGAGCTTCCCGTTATTC
Found at i:91701137 original size:5 final size:5
Alignment explanation
Indices: 91701127--91701153 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
91701117 TTATGTTTTA
91701127 ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT AT
91701154 ATAAACATAA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:91702469 original size:18 final size:19
Alignment explanation
Indices: 91702448--91702486 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
91702438 ATATATAGAT
91702448 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
91702466 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
91702485 AT
1 AT
91702487 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:91702835 original size:39 final size:39
Alignment explanation
Indices: 91702725--91702859 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
91702715 GACCTCGAGT
* * * *
91702725 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
91702766 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
91702804 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
91702843 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
91702860 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:91706499 original size:5 final size:5
Alignment explanation
Indices: 91706489--91706520 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
91706479 TTATGTTTTA
91706489 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
91706521 ATAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:91707836 original size:18 final size:19
Alignment explanation
Indices: 91707815--91707853 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
91707805 ATATATAGAT
91707815 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
91707833 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
91707852 AT
1 AT
91707854 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:91708203 original size:39 final size:39
Alignment explanation
Indices: 91708093--91708227 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
91708083 GACCTCGAGT
* * * *
91708093 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
91708134 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
91708172 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
91708211 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
91708228 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:91711872 original size:5 final size:5
Alignment explanation
Indices: 91711862--91711906 Score: 76
Period size: 5 Copynumber: 9.4 Consensus size: 5
91711852 TTATGTTTTA
91711862 ATTAT ATTAT ATTAT A-TAT ATTAT ATTAT A-TAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
91711907 ATAAACATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 8 0.21
5 30 0.79
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:91711883 original size:14 final size:14
Alignment explanation
Indices: 91711864--91711909 Score: 92
Period size: 14 Copynumber: 3.3 Consensus size: 14
91711854 ATGTTTTAAT
91711864 TATATTATATTATA
1 TATATTATATTATA
91711878 TATATTATATTATA
1 TATATTATATTATA
91711892 TATATTATATTATA
1 TATATTATATTATA
91711906 TATA
1 TATA
91711910 AACATAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATATTATATTATA
Found at i:91711886 original size:19 final size:19
Alignment explanation
Indices: 91711862--91711906 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
91711852 TTATGTTTTA
91711862 ATTATATTATAT-TATATAT
1 ATTATATTATATATAT-TAT
91711881 ATTATATTATATATATTAT
1 ATTATATTATATATATTAT
91711900 ATTATAT
1 ATTATAT
91711907 ATAAACATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 22 0.88
20 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTATATTATATATATTAT
Found at i:91713229 original size:18 final size:19
Alignment explanation
Indices: 91713208--91713246 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
91713198 ATATATAGAT
91713208 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
91713226 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
91713245 AT
1 AT
91713247 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:91713596 original size:39 final size:40
Alignment explanation
Indices: 91713486--91713596 Score: 91
Period size: 38 Copynumber: 2.8 Consensus size: 40
91713476 GACCTCGAGT
* * * **
91713486 CGATGAGACACTGGGTGTGACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGATAGAGC
** ** * *
91713527 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGATAGAGC
*
91713565 CGATGAGACACTGGGTGTCAAATATTGCTTCG
1 CGATGAGACACTGGGTGTCAAATATTACTTCG
91713597 AACTATCTGA
Statistics
Matches: 52, Mismatches: 17, Indels: 4
0.71 0.23 0.05
Matches are distributed among these distances:
38 18 0.35
39 18 0.35
40 1 0.02
41 15 0.29
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGATAGAGC
Found at i:91714996 original size:49 final size:49
Alignment explanation
Indices: 91714924--91715020 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
91714914 TATTTGTATG
*
91714924 ATCCTTAAAATTCTTTGCATAAAATGTTCTTTCTAAATGGATTTCAAGC
1 ATCCTTAAAATTCTTTGCATAAAATGTTCTTTATAAATGGATTTCAAGC
*
91714973 ATCCTTAGAATTCTTTGCATAAAATGTTCTTTATAAATGGATTTCAAG
1 ATCCTTAAAATTCTTTGCATAAAATGTTCTTTATAAATGGATTTCAAG
91715021 TATGCTTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.41
Consensus pattern (49 bp):
ATCCTTAAAATTCTTTGCATAAAATGTTCTTTATAAATGGATTTCAAGC
Found at i:91715732 original size:20 final size:19
Alignment explanation
Indices: 91715707--91715759 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
91715697 AAACATGTTT
**
91715707 TAAATGTGTTTTAATTTATC
1 TAAATGT-TTTTAATCAATC
91715727 TAAATGTTTTTGAATCAATC
1 TAAATGTTTTT-AATCAATC
91715747 TAAATGTTTTTAA
1 TAAATGTTTTTAA
91715760 GTGTTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 6 0.20
20 24 0.80
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (19 bp):
TAAATGTTTTTAATCAATC
Found at i:91716735 original size:29 final size:29
Alignment explanation
Indices: 91716668--91716735 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
91716658 ATTAAAATAT
91716668 TAATAAA-AATAATTTTCTATAATATAAA
1 TAATAAATAATAATTTTCTATAATATAAA
* * *
91716696 TAATTAGTAATAATTTAT-TATATTATTAAA
1 TAATAAATAATAATTT-TCTATAATA-TAAA
91716726 T-ATAAATAAT
1 TAATAAATAAT
91716736 TAAATATGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 5 0.16
29 21 0.66
30 6 0.19
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (29 bp):
TAATAAATAATAATTTTCTATAATATAAA
Found at i:91716783 original size:21 final size:22
Alignment explanation
Indices: 91716752--91716793 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
91716742 TGTGTTTAAA
*
91716752 ATATTGAATATTATCATATTTG
1 ATATTGAATATTATAATATTTG
*
91716774 ATATT-AATATTTTAATATTT
1 ATATTGAATATTATAATATTT
91716794 TTAACTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (22 bp):
ATATTGAATATTATAATATTTG
Found at i:91717021 original size:2 final size:2
Alignment explanation
Indices: 91717016--91717046 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
91717006 CACACACAAA
91717016 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
91717047 AATAGATGAC
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:91717692 original size:25 final size:26
Alignment explanation
Indices: 91717664--91717713 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
91717654 TTTTTATAAT
91717664 AAAATATAAT-ATTTAAATATTTTTA
1 AAAATATAATGATTTAAATATTTTTA
* *
91717689 AAAATTTAATGTTTTAAATATTTTT
1 AAAATATAATGATTTAAATATTTTT
91717714 TTTAGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
AAAATATAATGATTTAAATATTTTTA
Found at i:91720749 original size:19 final size:19
Alignment explanation
Indices: 91720722--91720759 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
91720712 TCAGCATAAA
*
91720722 ACGCTCTTTGCTGACATGG
1 ACGCGCTTTGCTGACATGG
91720741 ACGCGCTTTGCTGACATGG
1 ACGCGCTTTGCTGACATGG
91720760 CAAAAATGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.29
Consensus pattern (19 bp):
ACGCGCTTTGCTGACATGG
Found at i:91721143 original size:24 final size:24
Alignment explanation
Indices: 91721116--91721201 Score: 82
Period size: 24 Copynumber: 3.4 Consensus size: 24
91721106 AAATTAAGGG
91721116 TTAATTTTTATTTTTGAATATTAT
1 TTAATTTTTATTTTTGAATATTAT
* * *
91721140 TTAATTTTTTTCATTTATGTAATTTTAA
1 TTAA--TTTTT-ATTTTTG-AATATTAT
* *
91721168 TTAATTGTAATTTTTGAATATTAT
1 TTAATTTTTATTTTTGAATATTAT
91721192 TTAATATTTT
1 TTAAT-TTTT
91721202 TTATTTATGT
Statistics
Matches: 47, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
24 15 0.32
25 8 0.17
26 8 0.17
27 6 0.13
28 10 0.21
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.64
Consensus pattern (24 bp):
TTAATTTTTATTTTTGAATATTAT
Found at i:91721148 original size:18 final size:17
Alignment explanation
Indices: 91721125--91721217 Score: 64
Period size: 18 Copynumber: 5.3 Consensus size: 17
91721115 GTTAATTTTT
91721125 ATTTTTGAATATTATTTA
1 ATTTTTGAAT-TTATTTA
** *
91721143 ATTTTTTTCATTTATGTA
1 A-TTTTTGAATTTATTTA
*
91721161 A-TTTT-AATTAATTGTA
1 ATTTTTGAATTTATT-TA
91721177 ATTTTTGAATATTATTTA
1 ATTTTTGAAT-TTATTTA
** *
91721195 ATATTTTTTATTTATGTA
1 AT-TTTTGAATTTATTTA
91721213 ATTTT
1 ATTTT
91721218 AATTATTTTG
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
15 5 0.08
16 7 0.12
17 7 0.12
18 23 0.39
19 17 0.29
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.63
Consensus pattern (17 bp):
ATTTTTGAATTTATTTA
Found at i:91721173 original size:52 final size:52
Alignment explanation
Indices: 91721116--91721233 Score: 186
Period size: 52 Copynumber: 2.3 Consensus size: 52
91721106 AAATTAAGGG
91721116 TTAATTTTTATTTTTGAATATTATTTAAT-TTTTTTCATTTATGTAATTTTAA
1 TTAATTTTTATTTTTGAATATTATTTAATATTTTTT-ATTTATGTAATTTTAA
* *
91721168 TTAATTGTAATTTTTGAATATTATTTAATATTTTTTATTTATGTAATTTTAA
1 TTAATTTTTATTTTTGAATATTATTTAATATTTTTTATTTATGTAATTTTAA
91721220 TT-ATTTTGTATTTT
1 TTAATTTT-TATTTT
91721234 ATAATTTTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
51 4 0.07
52 50 0.83
53 6 0.10
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.65
Consensus pattern (52 bp):
TTAATTTTTATTTTTGAATATTATTTAATATTTTTTATTTATGTAATTTTAA
Found at i:91721218 original size:24 final size:25
Alignment explanation
Indices: 91721139--91721241 Score: 86
Period size: 25 Copynumber: 4.1 Consensus size: 25
91721129 TTGAATATTA
*
91721139 TTTAATT-TTTTTCATTTATGTAAT
1 TTTAATTATTTTTTATTTATGTAAT
* * * * *
91721163 TTTAATTAATTGTAATTTTTGAATATT
1 TTTAATTATTTTTTATTTATG--TAAT
91721190 ATTTAA-TATTTTTTATTTATGTAAT
1 -TTTAATTATTTTTTATTTATGTAAT
* *
91721215 TTTAATTATTTTGTATTT-TATAAT
1 TTTAATTATTTTTTATTTATGTAAT
91721239 TTT
1 TTT
91721242 TTATAACAGT
Statistics
Matches: 62, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
24 20 0.32
25 23 0.37
27 14 0.23
28 5 0.08
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.65
Consensus pattern (25 bp):
TTTAATTATTTTTTATTTATGTAAT
Found at i:91721223 original size:18 final size:18
Alignment explanation
Indices: 91721152--91721245 Score: 65
Period size: 18 Copynumber: 5.3 Consensus size: 18
91721142 AATTTTTTTC
91721152 ATTTATGTAATTTTAATT
1 ATTTATGTAATTTTAATT
*
91721170 A-AT-TGTAATTTTTGAA-T
1 ATTTATGTAA-TTTT-AATT
* *
91721187 A-TTATTTAATATTT-TTT
1 ATTTATGTAAT-TTTAATT
91721204 ATTTATGTAATTTTAATT
1 ATTTATGTAATTTTAATT
*
91721222 ATTT-TGTATTTTATAATT
1 ATTTATGTAATTT-TAATT
*
91721240 TTTTAT
1 ATTTAT
91721246 AACAGTCTGT
Statistics
Matches: 59, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
16 5 0.08
17 21 0.36
18 32 0.54
19 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
ATTTATGTAATTTTAATT
Found at i:91721242 original size:25 final size:24
Alignment explanation
Indices: 91721191--91721241 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
91721181 TTGAATATTA
* *
91721191 TTTAATATTTTTTATTTATGTAAT
1 TTTAATATTTTGTATTTATATAAT
91721215 TTTAATTATTTTGTATTT-TATAAT
1 TTTAA-TATTTTGTATTTATATAAT
91721239 TTT
1 TTT
91721242 TTATAACAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (24 bp):
TTTAATATTTTGTATTTATATAAT
Found at i:91725433 original size:45 final size:45
Alignment explanation
Indices: 91725383--91725489 Score: 139
Period size: 45 Copynumber: 2.4 Consensus size: 45
91725373 GTAGCAGTAG
91725383 CAGTAAGAGTAACAGTATTCAACACACAAAGTG-CTGAATCTG-TAA
1 CAGTAAGAGTAACAGTATTCAACACACAAAGTGTC-GAATC-GATAA
**
91725428 CAGTAACG-GTAACAGTATTTGACACACAAAGTGTCGAATCGATAA
1 CAGTAA-GAGTAACAGTATTCAACACACAAAGTGTCGAATCGATAA
*
91725473 CAGTAACAGTAACAGTA
1 CAGTAAGAGTAACAGTA
91725490 ACAATAGTCG
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
44 1 0.02
45 52 0.95
46 2 0.04
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (45 bp):
CAGTAAGAGTAACAGTATTCAACACACAAAGTGTCGAATCGATAA
Found at i:91726492 original size:6 final size:6
Alignment explanation
Indices: 91726477--91726532 Score: 58
Period size: 6 Copynumber: 9.2 Consensus size: 6
91726467 AAATCTCTAG
* ** * *
91726477 TTTTTCC TTTTTC TTTTCC TTTTTC TTTTTC TTTGCC TTTTGC TTTCTC
1 TTTTT-C TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
91726526 TTTTTC T
1 TTTTTC T
91726533 CCCCTGTTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
6 35 0.88
7 5 0.12
ACGTcount: A:0.00, C:0.23, G:0.04, T:0.73
Consensus pattern (6 bp):
TTTTTC
Found at i:91726504 original size:18 final size:18
Alignment explanation
Indices: 91726477--91726529 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
91726467 AAATCTCTAG
91726477 TTTTTCCTTTTTCTTTTCC
1 TTTTT-CTTTTTCTTTTCC
*
91726496 TTTTTCTTTTTCTTTGCC
1 TTTTTCTTTTTCTTTTCC
* *
91726514 TTTTGCTTTCTCTTTT
1 TTTTTCTTTTTCTTTT
91726530 TCTCCCCTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 25 0.83
19 5 0.17
ACGTcount: A:0.00, C:0.23, G:0.04, T:0.74
Consensus pattern (18 bp):
TTTTTCTTTTTCTTTTCC
Found at i:91726845 original size:33 final size:33
Alignment explanation
Indices: 91726776--91726838 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
91726766 ATTATTTACT
*
91726776 TAATAAATATCTCTTAATTATAATAATAATAAA
1 TAATAAATATCTCTAAATTATAATAATAATAAA
91726809 TAATAAATATCTACTAAATTA-AATAA-AATA
1 TAATAAATATCT-CTAAATTATAATAATAATA
91726839 TTATAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.14
33 17 0.61
34 7 0.25
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (33 bp):
TAATAAATATCTCTAAATTATAATAATAATAAA
Found at i:91729649 original size:20 final size:20
Alignment explanation
Indices: 91729612--91729649 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
91729602 TGATGGGGAG
*
91729612 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
91729632 CAAGAA-ATCAAAGCTGGA
1 CAAGAATATC-AAGCTGGA
91729650 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:91731600 original size:38 final size:40
Alignment explanation
Indices: 91731546--91731750 Score: 256
Period size: 38 Copynumber: 4.9 Consensus size: 40
91731536 TCTGATATGA
91731546 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT-
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
91731585 AA-GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
91731624 -A-GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
*
91731667 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 -AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
91731708 ATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 A-ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
91731751 ATGACAGAAA
Statistics
Matches: 149, Mismatches: 2, Indels: 23
0.86 0.01 0.13
Matches are distributed among these distances:
38 72 0.48
39 2 0.01
40 1 0.01
41 5 0.03
43 2 0.01
44 2 0.01
45 1 0.01
46 64 0.43
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (40 bp):
AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:91731692 original size:46 final size:46
Alignment explanation
Indices: 91731627--91731799 Score: 240
Period size: 46 Copynumber: 3.8 Consensus size: 46
91731617 CAACCTGAGT
* *
91731627 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
*
91731673 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
** *
91731719 ACAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGA
* * * *
91731765 GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATG
91731800 TCAAAGATAA
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 113 0.99
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
Found at i:91733041 original size:129 final size:122
Alignment explanation
Indices: 91732871--91733117 Score: 298
Period size: 126 Copynumber: 2.0 Consensus size: 122
91732861 GGCTAAACAT
* * * * *
91732871 GAACTACTGTAGAAAAAAAGCGTCCACGTGTGAGCTTTTTTTTTCAAAAATTTTACTGACATTGC
1 GAACTACTGTAGAAAAAAAGCATCCACGTGGGAGC--TATTTTT-AAAAATTTTACTGACAGTAC
*
91732936 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAA
63 ATCCTACTTGAAGCGTTTTTGACACTATTTGTTCAG--A--TCTTCTCAAAATTATTTTTTCAA
* * * **
91733000 GAACTACTGTAGAAAAAGAA-CATTCACGTGGGATCTATTTTTAATAATTTTGTTGACAGTACAT
1 GAACTACTGTAGAAAAA-AAGCATCCACGTGGGAGCTATTTTTAAAAATTTTACTGACAGTACAT
* *
91733064 CCTACTTGAAGCGTTTTTGACACTATTTGTTTAGATCTTCTTAAAATTATTTTT
65 CCTACTTGAAGCGTTTTTGACACTATTTGTTCAGATCTTCTCAAAATTATTTTT
91733118 GCAGGGTAAA
Statistics
Matches: 104, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
122 18 0.17
124 1 0.01
126 49 0.47
127 6 0.06
129 28 0.27
130 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.40
Consensus pattern (122 bp):
GAACTACTGTAGAAAAAAAGCATCCACGTGGGAGCTATTTTTAAAAATTTTACTGACAGTACATC
CTACTTGAAGCGTTTTTGACACTATTTGTTCAGATCTTCTCAAAATTATTTTTTCAA
Found at i:91733266 original size:34 final size:33
Alignment explanation
Indices: 91733172--91733305 Score: 128
Period size: 34 Copynumber: 3.9 Consensus size: 33
91733162 TTTAAAAAAC
** *
91733172 TAAACCCTAATTTAATTAATTTTAACCCT-AAACCC
1 TAAACCCTAATTTAATTAA-TTT-A-TTTAAAACCA
** *
91733207 TAAACTTTAATTTAATTTAATTTATTTAAAACTCT
1 TAAACCCTAATTTAA-TTAATTTATTTAAAAC-CA
*
91733242 TAAACCCTAATTTACTTAATTTATTTAAAAACCA
1 TAAACCCTAATTTAATTAATTTATTT-AAAACCA
91733276 TAAACCCTAATTTAATTAATTT-TTATAAAA
1 TAAACCCTAATTTAATTAATTTATT-TAAAA
91733306 TAACACTAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
33 7 0.08
34 39 0.46
35 34 0.40
36 4 0.05
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.42
Consensus pattern (33 bp):
TAAACCCTAATTTAATTAATTTATTTAAAACCA
Found at i:91733719 original size:2 final size:2
Alignment explanation
Indices: 91733712--91733759 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
91733702 TAAATTAGCC
91733712 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91733754 AT AT AT
1 AT AT AT
91733760 CATTTAAATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91734356 original size:18 final size:19
Alignment explanation
Indices: 91734333--91734370 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
91734323 TTTTTTAAAA
91734333 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
*
91734351 TATAAATATTTTGAATTTT
1 TATAAATATTTAGAATTTT
91734370 T
1 T
91734371 TGTAACTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:91737637 original size:24 final size:24
Alignment explanation
Indices: 91737605--91737654 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
91737595 TTTTCGGATT
*
91737605 TTCATAACTTTCTTCTTATTCTTC
1 TTCATAACTTTCTTATTATTCTTC
91737629 TTCATAACTTTCTTATTATTCTTC
1 TTCATAACTTTCTTATTATTCTTC
91737653 TT
1 TT
91737655 GAATTAGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.60
Consensus pattern (24 bp):
TTCATAACTTTCTTATTATTCTTC
Found at i:91740707 original size:43 final size:43
Alignment explanation
Indices: 91740659--91740871 Score: 234
Period size: 43 Copynumber: 5.0 Consensus size: 43
91740649 ATTACCGAGA
*
91740659 TGTGATTACATGTAAGACCATGACTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
*
91740702 TGTGATTACATGTAAAACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * * *
91740745 TGTGATTACGTGTAAGACTATGTTTGGGATATTGGCATCGTTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TAT
** * * * * *
91740789 T-CAATTTCCTGTAAGACCCTGTCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * *
91740830 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
91740872 CAAGCTTTAT
Statistics
Matches: 140, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
41 2 0.01
42 8 0.06
43 126 0.90
44 4 0.03
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:91742318 original size:18 final size:19
Alignment explanation
Indices: 91742273--91742318 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
91742263 AGGGACATTG
*
91742273 TGATTTATGTGAAACTGAA
1 TGATTTATGAGAAACTGAA
* *
91742292 TCATATATGAGAAA-TGAA
1 TGATTTATGAGAAACTGAA
91742310 TGATTTATG
1 TGATTTATG
91742319 TTGTGATTGA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (19 bp):
TGATTTATGAGAAACTGAA
Found at i:91745026 original size:24 final size:26
Alignment explanation
Indices: 91744995--91745058 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 26
91744985 CAATTATCGA
*
91744995 GAAGCTCATA-TGAGCCA-TAAACGG
1 GAAGCTCATAGAGAGCCATTAAACGG
**
91745019 GAAGCTCA-AGAGAGCCATTAATTGG
1 GAAGCTCATAGAGAGCCATTAAACGG
91745044 GAAGCTCAT-GAGAGC
1 GAAGCTCATAGAGAGC
91745059 GAAATAAAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 1 0.03
24 14 0.41
25 19 0.56
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (26 bp):
GAAGCTCATAGAGAGCCATTAAACGG
Found at i:91745034 original size:49 final size:50
Alignment explanation
Indices: 91744938--91745052 Score: 119
Period size: 49 Copynumber: 2.3 Consensus size: 50
91744928 TACGAGTATG
* * ** *
91744938 TAATCG-GAAAGCTCATGTGAGCTATATAACAGGAAGCTCTTGCGAGCCAAT
1 TAATCGAG-AAGCTCATATGAGCCATATAACAGGAAGCTCAAGAGAGCC-AT
*
91744989 T-ATCGAGAAGCTCATATGAGCCATA-AACGGGAAGCTCAAGAGAGCCAT
1 TAATCGAGAAGCTCATATGAGCCATATAACAGGAAGCTCAAGAGAGCCAT
* *
91745037 TAATTGGGAAGCTCAT
1 TAATCGAGAAGCTCAT
91745053 GAGAGCGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
48 3 0.06
49 29 0.54
50 20 0.37
51 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (50 bp):
TAATCGAGAAGCTCATATGAGCCATATAACAGGAAGCTCAAGAGAGCCAT
Found at i:91745070 original size:25 final size:24
Alignment explanation
Indices: 91744995--91745083 Score: 65
Period size: 25 Copynumber: 3.6 Consensus size: 24
91744985 CAATTATCGA
*
91744995 GAAGCTCAT-ATGAGC-CATAAACGG
1 GAAGCTCATGA-GAGCAAATAAA-GG
* * * *
91745019 GAAGCTCAAGAGAGCCATTAATTGG
1 GAAGCTCATGAGAGCAAATAA-AGG
91745044 GAAGCTCATGAGAGCGAAATAAAGG
1 GAAGCTCATGAGAGC-AAATAAAGG
* *
91745069 GAACCTCGTGAGAGC
1 GAAGCTCATGAGAGC
91745084 CATGATATGT
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
24 12 0.24
25 35 0.69
26 4 0.08
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.16
Consensus pattern (24 bp):
GAAGCTCATGAGAGCAAATAAAGG
Found at i:91746873 original size:18 final size:18
Alignment explanation
Indices: 91746852--91746925 Score: 89
Period size: 18 Copynumber: 4.1 Consensus size: 18
91746842 AGTCACTCTT
91746852 TAACAGTCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
* *
91746870 TAAC-GATAAATTATTCAG
1 TAACAG-TCAGTTATTCAG
91746888 TAACAGTCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
*
91746906 TAGA-AGCCAGTTATTCAG
1 TA-ACAGTCAGTTATTCAG
91746924 TA
1 TA
91746926 CCTTTATTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
17 1 0.02
18 45 0.94
19 2 0.04
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.32
Consensus pattern (18 bp):
TAACAGTCAGTTATTCAG
Found at i:91748424 original size:3 final size:3
Alignment explanation
Indices: 91748416--91748467 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
91748406 ATATACACTA
* *
91748416 AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT TAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
91748463 AAT AA
1 AAT AA
91748468 ATATCTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:91748699 original size:3 final size:3
Alignment explanation
Indices: 91748691--91748719 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
91748681 AATTTATTTG
91748691 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
91748720 TTAATAAATA
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:91749256 original size:3 final size:3
Alignment explanation
Indices: 91749243--91749282 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
91749233 AACTTCTTTC
91749243 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
91749283 CTAAATTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:91752906 original size:76 final size:76
Alignment explanation
Indices: 91752780--91752931 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
91752770 TTTTAGGGAT
91752780 TAATTACATAATTAAATAATTAATAGAAGCCCTATTTTAATGATATTAAAATTATTACGATTGTT
1 TAATTACATAATTAAATAATTAATAGAAGCCCTATTTTAATGATATTAAAATTATTACGATTGTT
91752845 TTTTGCCAAGC
66 TTTTGCCAAGC
*
91752856 TAATTACATAATTAAATAATTAATAGAAGCCCTATTTTAATGCTATTAAAATTATTACGATTGTT
1 TAATTACATAATTAAATAATTAATAGAAGCCCTATTTTAATGATATTAAAATTATTACGATTGTT
91752921 TTTTGCCAAGC
66 TTTTGCCAAGC
91752932 GATGGCAACT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (76 bp):
TAATTACATAATTAAATAATTAATAGAAGCCCTATTTTAATGATATTAAAATTATTACGATTGTT
TTTTGCCAAGC
Found at i:91756296 original size:41 final size:40
Alignment explanation
Indices: 91756168--91756335 Score: 158
Period size: 41 Copynumber: 4.1 Consensus size: 40
91756158 GCAAAAATTG
91756168 TAAAACACAGAGCAATAGCGGCGTTTTACCAAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCGTTTTACCAAAAACGCCGC
** * **** *
91756209 TAAAAATGGAGCAATACCGGCGTTTTTTGTTAAAACGCCAC
1 TAAAAACAGAGCAATAGCGGCG-TTTTACCAAAAACGCCGC
*
91756250 TAAAAACAGAGAAATAGCGGCGTTTTACCAAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGTTTTACCAAAAACGCCGC
* * * ***
91756290 TAAAAAACAAAGCATTAGCAGCGCTTTT-GGTAAAACGCCGC
1 T-AAAAACAGAGCAATAGCGGCG-TTTTACCAAAAACGCCGC
91756331 TAAAA
1 TAAAA
91756336 GCCGGAGTAT
Statistics
Matches: 100, Mismatches: 24, Indels: 7
0.76 0.18 0.05
Matches are distributed among these distances:
40 32 0.32
41 64 0.64
42 4 0.04
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGTTTTACCAAAAACGCCGC
Found at i:91756318 original size:81 final size:82
Alignment explanation
Indices: 91756168--91756357 Score: 224
Period size: 81 Copynumber: 2.3 Consensus size: 82
91756158 GCAAAAATTG
* *** * *
91756168 TAAAACACAGAGCAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAATGGAGCAATACCGGCGTT
1 TAAAACACAGAGAAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAACAAAGCAATACCAGCGTC
*
91756233 TTTTGTTAAAACGCCAC
66 TTTTGGTAAAACGCCAC
* *
91756250 TAAAA-ACAGAGAAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAAACAAAGCATTAGCAGCG-
1 TAAAACACAGAGAAATAGCGGCGTTTTACCAAAAACGCCGCT-AAAAACAAAGCAATACCAGCGT
*
91756313 CTTTTGGTAAAACGCCGC
65 CTTTTGGTAAAACGCCAC
* * *
91756331 TAAAAGC-CGGAGTATTAGCGGCGTTTT
1 TAAAA-CACAGAGAAATAGCGGCGTTTT
91756358 GGTAAAACGC
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
81 55 0.60
82 37 0.40
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (82 bp):
TAAAACACAGAGAAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAACAAAGCAATACCAGCGTC
TTTTGGTAAAACGCCAC
Found at i:91756348 original size:41 final size:40
Alignment explanation
Indices: 91756280--91756376 Score: 122
Period size: 41 Copynumber: 2.4 Consensus size: 40
91756270 CGTTTTACCA
*
91756280 AAAACGCCGCTAAAAAACAAAGCATTAGCAGCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAAAGCATTAGCAGCG-TTTTGGT
* ** * *
91756321 AAAACGCCGCTAAAAGCCGGAGTATTAGCGGCGTTTTGGT
1 AAAACGCCGCTAAAAGACAAAGCATTAGCAGCGTTTTGGT
*
91756361 AAAACGCCACTAAAAG
1 AAAACGCCGCTAAAAG
91756377 TCATATAACC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 22 0.45
41 27 0.55
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (40 bp):
AAAACGCCGCTAAAAGACAAAGCATTAGCAGCGTTTTGGT
Found at i:91756739 original size:21 final size:20
Alignment explanation
Indices: 91756702--91756744 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
91756692 ATTATAGTTT
91756702 AGGGTTTACGTTATATGGTTA
1 AGGGTTTACGTT-TATGGTTA
*
91756723 AGGGTTTAATGTTTATGAGTTA
1 AGGGTTT-ACGTTTATG-GTTA
91756745 CTATTTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.44
Consensus pattern (20 bp):
AGGGTTTACGTTTATGGTTA
Found at i:91756798 original size:14 final size:15
Alignment explanation
Indices: 91756779--91756846 Score: 65
Period size: 14 Copynumber: 4.8 Consensus size: 15
91756769 GTTTAAGTGT
91756779 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
*
91756793 GGTTTAAGGTTTA--
1 GGTTTAAGGGTTAGG
*
91756806 GGTGTAAGGGGTTAGG
1 GGTTTAA-GGGTTAGG
*
91756822 GG-TTAAGGGTTAAG
1 GGTTTAAGGGTTAGG
91756836 GG-TTAAGGGTT
1 GGTTTAAGGGTT
91756847 CATGATTCAG
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
13 6 0.13
14 34 0.76
15 3 0.07
16 2 0.04
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.34
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:91756804 original size:32 final size:32
Alignment explanation
Indices: 91756749--91756810 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
91756739 GAGTTACTAT
* *
91756749 TTTAAGGTTTAGGGATTATGGTTTAAGTGTGG
1 TTTAAGGGTTAGGGATTAAGGTTTAAGTGTGG
* * *
91756781 TTTAAGGGTTGGGGTTTAAGGTTTAGGTGT
1 TTTAAGGGTTAGGGATTAAGGTTTAAGTGT
91756811 AAGGGGTTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (32 bp):
TTTAAGGGTTAGGGATTAAGGTTTAAGTGTGG
Found at i:91756844 original size:7 final size:7
Alignment explanation
Indices: 91756814--91756846 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
91756804 TAGGTGTAAG
*
91756814 GGGTTAG
1 GGGTTAA
91756821 GGGTTAA
1 GGGTTAA
91756828 GGGTTAA
1 GGGTTAA
91756835 GGGTTAA
1 GGGTTAA
91756842 GGGTT
1 GGGTT
91756847 CATGATTCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.48, T:0.30
Consensus pattern (7 bp):
GGGTTAA
Found at i:91757418 original size:41 final size:42
Alignment explanation
Indices: 91757373--91757460 Score: 144
Period size: 42 Copynumber: 2.1 Consensus size: 42
91757363 AATTAAAATT
91757373 AAAATTGAGCAATAGTGGCG-TTTTTAG-GTAAAACGCCGCAA
1 AAAATTGAGCAATAGTGGCGTTTTTTAGTG-AAAACGCCGCAA
*
91757414 AAAATTGAGCTATAGTGGCGTTTTTTAGTGAAAACGCCGCAA
1 AAAATTGAGCAATAGTGGCGTTTTTTAGTGAAAACGCCGCAA
91757456 AAAAT
1 AAAAT
91757461 CTAAAAATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
41 19 0.43
42 24 0.55
43 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.26
Consensus pattern (42 bp):
AAAATTGAGCAATAGTGGCGTTTTTTAGTGAAAACGCCGCAA
Found at i:91759885 original size:54 final size:54
Alignment explanation
Indices: 91759826--91759940 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 54
91759816 AGCATGGCTG
* *
91759826 CCAGAACAGATA-GTGT-GACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTAG-CAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
91759880 CCAGAACAGATATATGTAGCAGAGCCACCAGATCAGATATTTGTGGTATAGCCA
1 CCAGAACAGATATATGTAGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
91759934 CCAGAAC
1 CCAGAAC
91759941 GCTTCCTTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
54 36 0.68
55 16 0.30
56 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTAGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:91759932 original size:27 final size:27
Alignment explanation
Indices: 91759826--91759938 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 27
91759816 AGCATGGCTG
* * * *
91759826 CCAGAACAGATA-GTGTGACAGAGTCA
1 CCAGATCAGATATTTGTGGCAGAGCCA
* *
91759852 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAT-CAGATATTTGTGGCAGAGCCA
* * *
91759880 CCAGAACAGATATATGTAGCAGAGCCA
1 CCAGATCAGATATTTGTGGCAGAGCCA
* *
91759907 CCAGATCAGATATTTGTGGTATAGCCA
1 CCAGATCAGATATTTGTGGCAGAGCCA
91759934 CCAGA
1 CCAGA
91759939 ACGCTTCCTT
Statistics
Matches: 70, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
26 5 0.07
27 50 0.71
28 15 0.21
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGATCAGATATTTGTGGCAGAGCCA
Found at i:91761593 original size:26 final size:26
Alignment explanation
Indices: 91761557--91761666 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
91761547 TATGAAATTC
91761557 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
91761583 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
91761609 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
91761635 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
91761661 TTATCA
1 TTATCA
91761667 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:91765408 original size:21 final size:21
Alignment explanation
Indices: 91765382--91765425 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
91765372 TCAACTTAGA
*
91765382 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAACGAGGGAG
91765403 GCGGAGGCAGCAACGAGGGAG
1 GCGGAGGCAGCAACGAGGGAG
91765424 GC
1 GC
91765426 AGAGCATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.25, C:0.20, G:0.55, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAACGAGGGAG
Found at i:91765776 original size:43 final size:43
Alignment explanation
Indices: 91765729--91765909 Score: 299
Period size: 43 Copynumber: 4.2 Consensus size: 43
91765719 CAAATTCGAT
*
91765729 GCGTTTTTTAAAAAAGCGCCGCGAAAAGTCCTGGTCTTTAGCA
1 GCGTTTTTTAAAAAAGCGCCGCGAAAAGTCCTGGTCTTTAGCG
* *
91765772 GCGTTTTTTAAAAAAGAGCCGCGAAAGGTCCTGGTCTTTAGCG
1 GCGTTTTTTAAAAAAGCGCCGCGAAAAGTCCTGGTCTTTAGCG
* * *
91765815 GCGTTTTTTAAAAAAGTGCCGCGAAAGGTCCTGGTCGTTAGCG
1 GCGTTTTTTAAAAAAGCGCCGCGAAAAGTCCTGGTCTTTAGCG
*
91765858 GCGTTTTTTAAAAAAGCGCCGCTAAAAGTCCTGGTCTTTAGCG
1 GCGTTTTTTAAAAAAGCGCCGCGAAAAGTCCTGGTCTTTAGCG
91765901 GCGTTTTTT
1 GCGTTTTTT
91765910 TTCAAAAAAA
Statistics
Matches: 129, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 129 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
GCGTTTTTTAAAAAAGCGCCGCGAAAAGTCCTGGTCTTTAGCG
Found at i:91771497 original size:23 final size:24
Alignment explanation
Indices: 91771454--91771501 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
91771444 TATACTTAGG
91771454 TTTAGTTGTAATTAAACTTAATTA
1 TTTAGTTGTAATTAAACTTAATTA
*
91771478 TTTAGTT-TAATCTTAA-TTAATTA
1 TTTAGTTGTAAT-TAAACTTAATTA
91771501 T
1 T
91771502 CATTTAGTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.54
Consensus pattern (24 bp):
TTTAGTTGTAATTAAACTTAATTA
Found at i:91772688 original size:26 final size:25
Alignment explanation
Indices: 91772651--91772756 Score: 158
Period size: 26 Copynumber: 4.1 Consensus size: 25
91772641 GTACAAATTA
91772651 ATAATTGGTTAGGTAAATGTTCCATG
1 ATAA-TGGTTAGGTAAATGTTCCATG
* *
91772677 ATAATGGATTAGGTAAATATGCCATG
1 ATAATGG-TTAGGTAAATGTTCCATG
91772703 ATAATAGGTTAGGTAAATGTTCCATG
1 ATAAT-GGTTAGGTAAATGTTCCATG
91772729 ATAATGGTTTAGGTAAATGTTCCATG
1 ATAATGG-TTAGGTAAATGTTCCATG
91772755 AT
1 AT
91772757 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
25 5 0.07
26 66 0.90
27 2 0.03
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.36
Consensus pattern (25 bp):
ATAATGGTTAGGTAAATGTTCCATG
Found at i:91772713 original size:52 final size:52
Alignment explanation
Indices: 91772651--91772756 Score: 176
Period size: 52 Copynumber: 2.0 Consensus size: 52
91772641 GTACAAATTA
*
91772651 ATAATTGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATGCCATG
1 ATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATGCCATG
* * *
91772703 ATAATAGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCATG
1 ATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATGCCATG
91772755 AT
1 AT
91772757 GGGCATTTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.36
Consensus pattern (52 bp):
ATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATGCCATG
Found at i:91773860 original size:19 final size:19
Alignment explanation
Indices: 91773836--91773873 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
91773826 TTAACGTGTT
91773836 AGTAATCAATTGTAGGCAG
1 AGTAATCAATTGTAGGCAG
91773855 AGTAATCAATTGTAGGCAG
1 AGTAATCAATTGTAGGCAG
91773874 TTCGTGTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (19 bp):
AGTAATCAATTGTAGGCAG
Found at i:91779318 original size:26 final size:25
Alignment explanation
Indices: 91779275--91779374 Score: 173
Period size: 26 Copynumber: 3.9 Consensus size: 25
91779265 AAATTAAAAT
91779275 TGGTTAGGTAAATGTTCCATGATAA
1 TGGTTAGGTAAATGTTCCATGATAA
*
91779300 TGGATTAGGTAAATATTCCATGATAA
1 TGG-TTAGGTAAATGTTCCATGATAA
91779326 TGGGTTAGGTAAATGTTCCATGATAA
1 T-GGTTAGGTAAATGTTCCATGATAA
91779352 TGGTTAGGTAAATGTTCCATGAT
1 TGGTTAGGTAAATGTTCCATGAT
91779375 GGAATTTCAT
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
25 25 0.35
26 44 0.62
27 2 0.03
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (25 bp):
TGGTTAGGTAAATGTTCCATGATAA
Found at i:91780473 original size:20 final size:20
Alignment explanation
Indices: 91780448--91780487 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
91780438 TTAACGTGTT
91780448 AGTAATCAAATTGTAGGCAG
1 AGTAATCAAATTGTAGGCAG
91780468 AGTAATCAAATTGTAGGCAG
1 AGTAATCAAATTGTAGGCAG
91780488 TTCGTGTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (20 bp):
AGTAATCAAATTGTAGGCAG
Found at i:91781315 original size:61 final size:56
Alignment explanation
Indices: 91781215--91781337 Score: 183
Period size: 61 Copynumber: 2.1 Consensus size: 56
91781205 AATCAGCAGA
*
91781215 AAATTGATAAATTAAGGGTAAAAATATTGCAAAATTAACTAAATAAAACTAGGACT
1 AAATAGATAAATTAAGGGTAAAAATATTGCAAAATTAACTAAATAAAACTAGGACT
*
91781271 AAATAGATAAATTAAGGGTAAAATTAGAATATTGCAAAATTAACTAAATAAAACTAGGATT
1 AAATAGATAAATTAAGGGT--AA--A-AATATTGCAAAATTAACTAAATAAAACTAGGACT
91781332 AAATAG
1 AAATAG
91781338 GAAATATCTA
Statistics
Matches: 60, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
56 18 0.30
58 2 0.03
60 1 0.02
61 39 0.65
ACGTcount: A:0.54, C:0.06, G:0.13, T:0.27
Consensus pattern (56 bp):
AAATAGATAAATTAAGGGTAAAAATATTGCAAAATTAACTAAATAAAACTAGGACT
Found at i:91789036 original size:61 final size:62
Alignment explanation
Indices: 91788940--91789056 Score: 175
Period size: 61 Copynumber: 1.9 Consensus size: 62
91788930 CAGGCATTTT
*
91788940 TTTATTCTACTTATGCTTCTATTTGAAGTAACTGGATTCTGTTATGTCTTTAATATATGCAA
1 TTTATTCTACTTATGCATCTATTTGAAGTAACTGGATTCTGTTATGTCTTTAATATATGCAA
* * *
91789002 TTTATTCT-CTTATGCATCTGGTTT-AAGTAACTGGATTCTGTTATTTCTTTGATAT
1 TTTATTCTACTTATGCATCT-ATTTGAAGTAACTGGATTCTGTTATGTCTTTAATAT
91789057 GGCTTTTCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
61 39 0.78
62 11 0.22
ACGTcount: A:0.23, C:0.13, G:0.14, T:0.50
Consensus pattern (62 bp):
TTTATTCTACTTATGCATCTATTTGAAGTAACTGGATTCTGTTATGTCTTTAATATATGCAA
Found at i:91797352 original size:2 final size:2
Alignment explanation
Indices: 91797340--91797369 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
91797330 AAATAAATAA
*
91797340 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91797370 TTGTTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91810323 original size:17 final size:15
Alignment explanation
Indices: 91810301--91810350 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 15
91810291 AAAAAAAGTG
91810301 ATAAAAAAGTACAAAAA
1 ATAAAAAA-TA-AAAAA
91810318 ATAAAATACA-AAAAAA
1 ATAAAA-A-ATAAAAAA
91810334 ATAAAAAATAAAAAA
1 ATAAAAAATAAAAAA
91810349 AT
1 AT
91810351 TCTGTGGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.03
15 9 0.30
16 11 0.37
17 7 0.23
18 1 0.03
19 1 0.03
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (15 bp):
ATAAAAAATAAAAAA
Found at i:91826749 original size:17 final size:16
Alignment explanation
Indices: 91826724--91826760 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
91826714 GAACACAAGT
91826724 TTTGCATCTTATTCAA
1 TTTGCATCTTATTCAA
*
91826740 CTTTGTATCTTATTCAA
1 -TTTGCATCTTATTCAA
91826757 TTTG
1 TTTG
91826761 GTCCCTAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.22, C:0.16, G:0.08, T:0.54
Consensus pattern (16 bp):
TTTGCATCTTATTCAA
Found at i:91830346 original size:52 final size:52
Alignment explanation
Indices: 91830238--91830396 Score: 153
Period size: 52 Copynumber: 3.0 Consensus size: 52
91830228 GATGGAAAAT
* * * * **
91830238 ATGTGATATATG-ATTCCGTATAAGACCATAGC-CGAGCTATGGAATCAGTACA
1 ATGTGATA-ATGTATCCCGTATAAGACCATAGCTAG-GCTATGGCATCGGTATG
* *
91830290 ATGTGATTCATGT-TCCCGTATAAGACCATAGCTAGGCTATGGCATCGGTGTG
1 ATGTGA-TAATGTATCCCGTATAAGACCATAGCTAGGCTATGGCATCGGTATG
* * * *
91830342 ATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATG
1 ATGTGATAATGT-ATCCCGTATAAGACCATAGCTAGGCTATGGCATCGGTATG
91830395 AT
1 AT
91830397 ATGTGATCCG
Statistics
Matches: 88, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
51 5 0.06
52 45 0.51
53 38 0.43
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (52 bp):
ATGTGATAATGTATCCCGTATAAGACCATAGCTAGGCTATGGCATCGGTATG
Found at i:91830430 original size:46 final size:52
Alignment explanation
Indices: 91830305--91830440 Score: 149
Period size: 53 Copynumber: 2.7 Consensus size: 52
91830295 ATTCATGTTC
91830305 CCGTATAAGACCATAGCTAGGCTATGGCATCGGTGTGATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTAGGCTATGGCATCGGTGTGA-GTGATAATGTGATT
* * *
91830358 CCGTATAAGACCATATCTGGGATATGGCATC-G-GT-A-TGAT-ATGTGA-T
1 CCGTATAAGACCATAGCTAGGCTATGGCATCGGTGTGAGTGATAATGTGATT
* * * * *
91830404 CCGTGTAAGACCATGGCAAGGCTATGGCTTCAGTGTG
1 CCGTATAAGACCATAGCTAGGCTATGGCATCGGTGTG
91830441 TAATGTGTGA
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
46 25 0.36
47 7 0.10
48 6 0.09
50 1 0.01
51 2 0.03
52 1 0.01
53 28 0.40
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (52 bp):
CCGTATAAGACCATAGCTAGGCTATGGCATCGGTGTGAGTGATAATGTGATT
Found at i:91831212 original size:20 final size:20
Alignment explanation
Indices: 91831187--91831244 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
91831177 TACCCATGGG
91831187 CAGGCCACACGGGCATGTTC
1 CAGGCCACACGGGCATGTTC
*
91831207 CAGGCCACACGGGCGTGTTC
1 CAGGCCACACGGGCATGTTC
* *
91831227 CAGACCACATGGGCATGT
1 CAGGCCACACGGGCATGT
91831245 GCCCCTATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.21, C:0.33, G:0.31, T:0.16
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTTC
Found at i:91831732 original size:21 final size:20
Alignment explanation
Indices: 91831686--91831732 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
91831676 TCTGACATGC
91831686 TTAAAAACAATTAAACTTAT
1 TTAAAAACAATTAAACTTAT
* *
91831706 TGAAAAA-AATTCTAACTTGAT
1 TTAAAAACAATT-AAACTT-AT
91831727 TTAAAA
1 TTAAAA
91831733 GTTGATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.18
20 11 0.50
21 7 0.32
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (20 bp):
TTAAAAACAATTAAACTTAT
Found at i:91833923 original size:20 final size:20
Alignment explanation
Indices: 91833898--91833968 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
91833888 TAAACCCAAT
* * *
91833898 AAGTATCAATATTTTTATAC
1 AAGTATCGATAATTTTATAA
91833918 AAGTATCGATAATTTTATAA
1 AAGTATCGATAATTTTATAA
91833938 AAGTATCGATAATTTTA-AA
1 AAGTATCGATAATTTTATAA
*
91833957 TCAGTATCGATA
1 -AAGTATCGATA
91833969 CCAAATTGCG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 2 0.04
20 44 0.96
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.39
Consensus pattern (20 bp):
AAGTATCGATAATTTTATAA
Found at i:91839220 original size:44 final size:47
Alignment explanation
Indices: 91839108--91839222 Score: 119
Period size: 47 Copynumber: 2.4 Consensus size: 47
91839098 TATACTATTC
* * *
91839108 TATTATTTTACATTTTAATAATATATTATTTCATATTATTATTTATTATA
1 TATTATTTTACA--TTAATTAT-TATTATTTCACATTATTATCTATTATA
** *
91839158 TATTATTTTACACAAATTATTATTATTTTACATTATTATCTA-TATA
1 TATTATTTTACATTAATTATTATTATTTCACATTATTATCTATTATA
*
91839204 TATT-TTTT-TATTAATTATT
1 TATTATTTTACATTAATTATT
91839223 TGTACATATT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
44 8 0.14
45 4 0.07
46 8 0.14
47 19 0.34
48 5 0.09
50 12 0.21
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (47 bp):
TATTATTTTACATTAATTATTATTATTTCACATTATTATCTATTATA
Done.