Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 207 of 210
Found at i:68811312 original size:29 final size:29
Alignment explanation
Indices: 68811270--68811340 Score: 124
Period size: 29 Copynumber: 2.4 Consensus size: 29
68811260 TTTCAAAGAC
*
68811270 AGCAGGGAGCAGATGAGCAGTAGGCGGAG
1 AGCAAGGAGCAGATGAGCAGTAGGCGGAG
68811299 AGCAAGGAGCAGATGAGCAGTAGGCGGAG
1 AGCAAGGAGCAGATGAGCAGTAGGCGGAG
68811328 AGCAAGGCAGCAG
1 AGCAAGG-AGCAG
68811341 CAGCAGGCTA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 35 0.88
30 5 0.12
ACGTcount: A:0.34, C:0.15, G:0.45, T:0.06
Consensus pattern (29 bp):
AGCAAGGAGCAGATGAGCAGTAGGCGGAG
Found at i:68811472 original size:51 final size:50
Alignment explanation
Indices: 68811416--68811533 Score: 149
Period size: 44 Copynumber: 2.4 Consensus size: 50
68811406 AGTTGTTTGT
68811416 TTTATTGGGTTAGTAATTGGTAAATGGTAATTGGGTTTGGGTAGACTTTAG
1 TTTATTGGGTT-GTAATTGGTAAATGGTAATTGGGTTTGGGTAGACTTTAG
*
68811467 TTTATT-GG--G---TTGGTAAATGTTAATTGGGTTTGGGTAGACTTTAG
1 TTTATTGGGTTGTAATTGGTAAATGGTAATTGGGTTTGGGTAGACTTTAG
* *
68811511 TTTGTTGGGTTGGTAAATGGTAA
1 TTTATTGGGTT-GTAATTGGTAA
68811534 TTGGGTTGGG
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
44 39 0.68
45 2 0.04
47 1 0.02
48 1 0.02
50 2 0.04
51 12 0.21
ACGTcount: A:0.22, C:0.02, G:0.32, T:0.44
Consensus pattern (50 bp):
TTTATTGGGTTGTAATTGGTAAATGGTAATTGGGTTTGGGTAGACTTTAG
Found at i:68811477 original size:25 final size:25
Alignment explanation
Indices: 68811445--68811521 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
68811435 GTAAATGGTA
68811445 ATTGGGTTTGGGTAGACTTTAGTTT
1 ATTGGGTTTGGGTAGACTTTAGTTT
* *
68811470 ATTGGG-TT-GGTA-A--AT-GTTA
1 ATTGGGTTTGGGTAGACTTTAGTTT
68811489 ATTGGGTTTGGGTAGACTTTAGTTT
1 ATTGGGTTTGGGTAGACTTTAGTTT
*
68811514 GTTGGGTT
1 ATTGGGTT
68811522 GGTAAATGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
19 9 0.22
20 3 0.07
21 4 0.10
22 2 0.05
23 4 0.10
24 3 0.07
25 16 0.39
ACGTcount: A:0.17, C:0.03, G:0.34, T:0.47
Consensus pattern (25 bp):
ATTGGGTTTGGGTAGACTTTAGTTT
Found at i:68811482 original size:44 final size:44
Alignment explanation
Indices: 68811432--68811545 Score: 203
Period size: 44 Copynumber: 2.6 Consensus size: 44
68811422 GGGTTAGTAA
68811432 TTGGTAAATGGTAATTGGGTTTGGGTAGACTTTAGTTTATTGGG
1 TTGGTAAATGGTAATTGGGTTTGGGTAGACTTTAGTTTATTGGG
* *
68811476 TTGGTAAATGTTAATTGGGTTTGGGTAGACTTTAGTTTGTTGGG
1 TTGGTAAATGGTAATTGGGTTTGGGTAGACTTTAGTTTATTGGG
68811520 TTGGTAAATGGTAATTGGG-TTGGGTA
1 TTGGTAAATGGTAATTGGGTTTGGGTA
68811546 ATTGGGTTTA
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
43 7 0.10
44 60 0.90
ACGTcount: A:0.20, C:0.02, G:0.35, T:0.43
Consensus pattern (44 bp):
TTGGTAAATGGTAATTGGGTTTGGGTAGACTTTAGTTTATTGGG
Found at i:68811492 original size:19 final size:19
Alignment explanation
Indices: 68811470--68811542 Score: 56
Period size: 19 Copynumber: 3.5 Consensus size: 19
68811460 ACTTTAGTTT
68811470 ATTGGGTTGGTAAATGTTA
1 ATTGGGTTGGTAAATGTTA
* *
68811489 ATTGGGTTTGGGTAGACTTTAGTTT
1 ATTGGG-TT-GGTA-A--AT-GTTA
* *
68811514 GTTGGGTTGGTAAATGGTA
1 ATTGGGTTGGTAAATGTTA
68811533 ATTGGGTTGG
1 ATTGGGTTGG
68811543 GTAATTGGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
19 17 0.41
20 3 0.07
21 4 0.10
22 2 0.05
23 4 0.10
24 3 0.07
25 8 0.20
ACGTcount: A:0.19, C:0.01, G:0.37, T:0.42
Consensus pattern (19 bp):
ATTGGGTTGGTAAATGTTA
Found at i:68811547 original size:13 final size:13
Alignment explanation
Indices: 68811529--68811553 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68811519 GTTGGTAAAT
68811529 GGTAATTGGGTTG
1 GGTAATTGGGTTG
68811542 GGTAATTGGGTT
1 GGTAATTGGGTT
68811554 TATTAATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (13 bp):
GGTAATTGGGTTG
Found at i:68814052 original size:24 final size:24
Alignment explanation
Indices: 68814025--68814070 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
68814015 GAAAGAACAC
* *
68814025 GATAGAGATGAAGATTAAGATGGA
1 GATAGAGATGAAAATGAAGATGGA
*
68814049 GATAGAGGTGAAAATGAAGATG
1 GATAGAGATGAAAATGAAGATG
68814071 ATAAGAGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.35, T:0.20
Consensus pattern (24 bp):
GATAGAGATGAAAATGAAGATGGA
Found at i:68814651 original size:51 final size:47
Alignment explanation
Indices: 68814592--68814686 Score: 118
Period size: 48 Copynumber: 1.9 Consensus size: 47
68814582 TGATTAAATT
*
68814592 TAAGATTAAGATAATCACTTTAATATTAAATTAATAAAATATTATTAAGA
1 TAAGATTAAGATAA--A-TTTAATATTAAATTAATAAAATAATATTAAGA
** *
68814642 TAAGTATTAATTTAAATTTAATATTAAATTATTAAAATAATATTA
1 TAAG-ATTAAGATAAATTTAATATTAAATTAATAAAATAATATTA
68814687 TTTTTGAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
48 27 0.68
49 1 0.03
50 4 0.10
51 8 0.20
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (47 bp):
TAAGATTAAGATAAATTTAATATTAAATTAATAAAATAATATTAAGA
Found at i:68814652 original size:37 final size:36
Alignment explanation
Indices: 68814611--68814686 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
68814601 GATAATCACT
*
68814611 TTAATATTAAA-TTAATA-AAATATTATTAAGATAAGTA
1 TTAAT-TTAAATTTAATATAAA-ATTATTAAAATAA-TA
*
68814648 TTAATTTAAATTTAATATTAAATTATTAAAATAATA
1 TTAATTTAAATTTAATATAAAATTATTAAAATAATA
68814684 TTA
1 TTA
68814687 TTTTTGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 10 0.29
37 23 0.66
38 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (36 bp):
TTAATTTAAATTTAATATAAAATTATTAAAATAATA
Found at i:68815026 original size:3 final size:3
Alignment explanation
Indices: 68815018--68815048 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
68815008 CTGATAATCA
68815018 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
68815049 AATTTCTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:68815859 original size:43 final size:43
Alignment explanation
Indices: 68815793--68816052 Score: 247
Period size: 43 Copynumber: 6.1 Consensus size: 43
68815783 ATGCCGCTAA
* *
68815793 CTTTAGCGGCGCTTTTATAACAAACGCCGCTAAAGAACATGAC
1 CTTTAGCGGCGCTTTTGTCACAAACGCCGCTAAAGAACATGAC
* *
68815836 CTTTAGCGGCGCTTTTGTCACAAACGCCGCTAAAGATCTTGAC
1 CTTTAGCGGCGCTTTTGTCACAAACGCCGCTAAAGAACATGAC
* * * * *
68815879 CTTTAGCGGCGTTTTTATCACAAACGCCGCTAAAGATCGTGAT
1 CTTTAGCGGCGCTTTTGTCACAAACGCCGCTAAAGAACATGAC
* ** * * *
68815922 CTTTAGCGGCGCTTTAGAT-ACAAACATCGCTAAAGATCGTGAG
1 CTTTAGCGGCGCTTTTG-TCACAAACGCCGCTAAAGAACATGAC
* * * * *
68815965 CTTTAGCGACGCTTTAGCCACAAACGCCGCTAAAGAATA-AAC
1 CTTTAGCGGCGCTTTTGTCACAAACGCCGCTAAAGAACATGAC
* * ** * * *
68816007 CTTTAGCGACGCTTCTCACAAAAACGCTGCTAAA-AACATAAC
1 CTTTAGCGGCGCTTTTGTCACAAACGCCGCTAAAGAACATGAC
68816049 CTTT
1 CTTT
68816053 TAAAAAAATT
Statistics
Matches: 184, Mismatches: 30, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
41 3 0.02
42 36 0.20
43 144 0.78
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTGTCACAAACGCCGCTAAAGAACATGAC
Found at i:68816050 original size:42 final size:41
Alignment explanation
Indices: 68815965--68816052 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 41
68815955 AGATCGTGAG
* *
68815965 CTTTAGCGACGCTTTAGCCACAAACGCCGCTAAAGAATAAAC
1 CTTTAGCGACGCTTTA-CCAAAAACGCCGCTAAAAAATAAAC
*
68816007 CTTTAGCGACGCTTCT-CACAAAAACGCTGCTAAAAACAT-AAC
1 CTTTAGCGACGCTT-TAC-CAAAAACGCCGCTAAAAA-ATAAAC
68816049 CTTT
1 CTTT
68816053 TAAAAAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
41 1 0.03
42 36 0.90
43 3 0.08
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (41 bp):
CTTTAGCGACGCTTTACCAAAAACGCCGCTAAAAAATAAAC
Found at i:68819315 original size:18 final size:19
Alignment explanation
Indices: 68819283--68819319 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
68819273 AAACATATAG
*
68819283 AAAATTATTTAAAAATTCA
1 AAAAATATTTAAAAATTCA
68819302 AAAAATATTT-AAAATTCA
1 AAAAATATTTAAAAATTCA
68819320 CATATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATATTTAAAAATTCA
Found at i:68824987 original size:15 final size:16
Alignment explanation
Indices: 68824967--68824999 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
68824957 GTTTTTAAGA
68824967 TATTAAATTGG-TTGG
1 TATTAAATTGGCTTGG
*
68824982 TATTAATTTGGCTTGG
1 TATTAAATTGGCTTGG
68824998 TA
1 TA
68825000 CCTAAGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.48
Consensus pattern (16 bp):
TATTAAATTGGCTTGG
Found at i:68825106 original size:41 final size:41
Alignment explanation
Indices: 68825048--68825140 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 41
68825038 TTTTTAAGGT
* *
68825048 ACACAAGGCCTGGGACACAGGTTGTCACACAACT-GTGTGTC
1 ACACACGGCCTGAGACACAGGTTGTCACAC-ACTCGTGTGTC
* * *
68825089 ACACACGGCCTGAGACACGGGTTGTCATACAGTCGTGTGTC
1 ACACACGGCCTGAGACACAGGTTGTCACACACTCGTGTGTC
*
68825130 ATACACGGCCT
1 ACACACGGCCT
68825141 ACTCACATAG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 2 0.04
41 43 0.96
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.20
Consensus pattern (41 bp):
ACACACGGCCTGAGACACAGGTTGTCACACACTCGTGTGTC
Found at i:68828266 original size:4 final size:4
Alignment explanation
Indices: 68828259--68828285 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
68828249 TTTGTTGTCT
68828259 TAAA TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAA
68828286 CTATAGTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:68833302 original size:29 final size:29
Alignment explanation
Indices: 68833257--68833312 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
68833247 TTGAATGTTT
68833257 TTTTTAATAAAATAATAAATTATCAATATG
1 TTTTTAATAAAATAATAAATTAT-AATATG
*
68833287 TTTTT-ATAATAA-AATAATTTATAATA
1 TTTTTAATAA-AATAATAAATTATAATA
68833313 CATCTAGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 4 0.17
29 13 0.54
30 7 0.29
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (29 bp):
TTTTTAATAAAATAATAAATTATAATATG
Found at i:68835198 original size:17 final size:17
Alignment explanation
Indices: 68835176--68835217 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
68835166 TCATCAACAG
*
68835176 AACATGAAGTCGACCAC
1 AACATGAAGTCAACCAC
68835193 AACATGAAGTCAACCAC
1 AACATGAAGTCAACCAC
68835210 AACATGAA
1 AACATGAA
68835218 AACACAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.48, C:0.26, G:0.14, T:0.12
Consensus pattern (17 bp):
AACATGAAGTCAACCAC
Found at i:68836578 original size:27 final size:28
Alignment explanation
Indices: 68836548--68836605 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
68836538 AAATATAAAA
68836548 GTATT-AAATAATGGTTTGGTTGAAGAG
1 GTATTAAAATAATGGTTTGGTTGAAGAG
68836575 GTATTAAAATAATGGTTTGGTTGAAGAG
1 GTATTAAAATAATGGTTTGGTTGAAGAG
68836603 GTA
1 GTA
68836606 AAGGAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.36
Consensus pattern (28 bp):
GTATTAAAATAATGGTTTGGTTGAAGAG
Found at i:68840363 original size:15 final size:15
Alignment explanation
Indices: 68840339--68840394 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
68840329 CCTCTTTTTT
68840339 ATTTTT-ATTTTAAA
1 ATTTTTAATTTTAAA
* *
68840353 ATTTTTAATTTTTAT
1 ATTTTTAATTTTAAA
**
68840368 ATTTCAAATTTTAAA
1 ATTTTTAATTTTAAA
68840383 A--TTTAATTTTAA
1 ATTTTTAATTTTAA
68840395 TTATTAGTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
13 9 0.27
14 6 0.18
15 18 0.55
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTTAATTTTAAA
Found at i:68840363 original size:21 final size:21
Alignment explanation
Indices: 68840333--68840394 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
68840323 CCCTTCCCTC
*
68840333 TTTTTTATTTTTATTTTAAAA
1 TTTTTAATTTTTATTTTAAAA
*
68840354 TTTTTAATTTTTATATTTCAAA
1 TTTTTAATTTTTAT-TTTAAAA
* * *
68840376 TTTTAAAATTTAATTTTAA
1 TTTTTAATTTTTATTTTAA
68840395 TTATTAGTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 17 0.50
22 17 0.50
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTAATTTTTATTTTAAAA
Found at i:68844581 original size:11 final size:12
Alignment explanation
Indices: 68844552--68844583 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
68844542 CACTTGTTAA
68844552 CAAT-ACTTTCT
1 CAATCACTTTCT
68844563 CAATCACTTTCT
1 CAATCACTTTCT
68844575 CAA-CACTTT
1 CAATCACTTT
68844584 TAATGCACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (12 bp):
CAATCACTTTCT
Found at i:68848823 original size:32 final size:32
Alignment explanation
Indices: 68848782--68848846 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
68848772 AGGGAGAAAG
68848782 TTTCTATGAGGCATGGGAACACTTCAAAATGT
1 TTTCTATGAGGCATGGGAACACTTCAAAATGT
* *
68848814 TTTCTATGAGGCATGGGAACGCTTTAAAATGT
1 TTTCTATGAGGCATGGGAACACTTCAAAATGT
68848846 T
1 T
68848847 GATCCAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (32 bp):
TTTCTATGAGGCATGGGAACACTTCAAAATGT
Found at i:68851488 original size:5 final size:5
Alignment explanation
Indices: 68851478--68851502 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
68851468 CATTGGAACT
68851478 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
68851503 CTTAGTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:68863651 original size:16 final size:18
Alignment explanation
Indices: 68863620--68863652 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
68863610 AGTCAAATAT
68863620 TATATTTATTAGATTTTA
1 TATATTTATTAGATTTTA
68863638 TATATTT-TTA-ATTTT
1 TATATTTATTAGATTTT
68863653 TTAGAACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 3 0.20
18 7 0.47
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TATATTTATTAGATTTTA
Found at i:68864197 original size:29 final size:29
Alignment explanation
Indices: 68864123--68864198 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 29
68864113 AAGTCTGTAC
*
68864123 ACTTTTTATATTTG-GAATTTAGTCCTCTT
1 ACTTTTT-TATTTGAAAATTTAGTCCTCTT
* *
68864152 ACTTTTATT-TTTAAAAATTTAATTCCT-TT
1 ACTTTT-TTATTTGAAAATTT-AGTCCTCTT
68864181 ACTTTTTTATTTGAAAAT
1 ACTTTTTTATTTGAAAAT
68864199 CTACTTTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
28 5 0.13
29 28 0.72
30 6 0.15
ACGTcount: A:0.28, C:0.11, G:0.05, T:0.57
Consensus pattern (29 bp):
ACTTTTTTATTTGAAAATTTAGTCCTCTT
Found at i:68864763 original size:26 final size:27
Alignment explanation
Indices: 68864727--68864777 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
68864717 GAATTGAATT
* *
68864727 AAATGAAATATTTG-AGTTAAATTAAA
1 AAATGAAATATGTGAAATTAAATTAAA
*
68864753 AAATTAAATATGTGAAATTAAATTA
1 AAATGAAATATGTGAAATTAAATTA
68864778 TTGTTATAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (27 bp):
AAATGAAATATGTGAAATTAAATTAAA
Found at i:68864994 original size:18 final size:17
Alignment explanation
Indices: 68864968--68865007 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
68864958 TACTTTAATT
*
68864968 TTTTTTAAAAATATATAA
1 TTTTCTAAAAA-ATATAA
68864986 TTTTCTAAAAAATATAA
1 TTTTCTAAAAAATATAA
*
68865003 ATTTC
1 TTTTC
68865008 AGAATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTTCTAAAAAATATAA
Found at i:68870069 original size:113 final size:113
Alignment explanation
Indices: 68869927--68870272 Score: 533
Period size: 110 Copynumber: 3.1 Consensus size: 113
68869917 TGTTTATTTG
*
68869927 AAAGCGCCGCAAAAAGCCTAAGCCAAACGGCACCG-TTTCTGAGTTTTTGGGGGTCTTTAGCGGC
1 AAAGCGCCGCAAAAAGCCTAAACCAAACGGCACCGTTTTCTGAGTTTTT-GGGGTCTTTAGCGGC
*
68869991 GTTTCTATACA-GCGCCGCTAATTCTCAGGTCTTTAGCGGCATTTTTTTA
65 GTTTCTGTA-ATGCGCCGCTAATTCTCAGGTCTTTAGCGGCATTTTTTTA
*
68870040 AAAGCGCCGCAAAAAGCCTAAACCCAACGGCACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGCG
1 AAAGCGCCGCAAAAAGCCTAAACCAAACGGCACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGCG
* *
68870105 TTTCTGTAATGCGTCGCTAATCCTCAGG---TTAGCGGCATTTTTTTA
66 TTTCTGTAATGCGCCGCTAATTCTCAGGTCTTTAGCGGCATTTTTTTA
* * *
68870150 AAAGCGCCGCAAAAAGCCTAAACCTAACGGCACAGTTTTCTGAGTTTTTTGGGTCTTTAGCGGCG
1 AAAGCGCCGCAAAAAGCCTAAACCAAACGGCACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGCG
* *
68870215 ATTCTGTAATGCGCCGCTAATTCTCAGGTCTTTAGCGGC-GTTTTTTA
66 TTTCTGTAATGCGCCGCTAATTCTCAGGTCTTTAGCGGCATTTTTTTA
68870262 ATAAGCGCCGC
1 A-AAGCGCCGC
68870273 TAATGCTCAG
Statistics
Matches: 215, Mismatches: 12, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
110 104 0.48
112 9 0.04
113 89 0.41
114 13 0.06
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (113 bp):
AAAGCGCCGCAAAAAGCCTAAACCAAACGGCACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGCG
TTTCTGTAATGCGCCGCTAATTCTCAGGTCTTTAGCGGCATTTTTTTA
Found at i:68870282 original size:41 final size:41
Alignment explanation
Indices: 68870201--68870464 Score: 410
Period size: 41 Copynumber: 6.5 Consensus size: 41
68870191 GAGTTTTTTG
* * *
68870201 GGTCTTTAGCGGCGATTCTGTAAT--GCGCCGCTAATTCTCA
1 GGTCTTTAGCGGCG-TTTTTTAATAAGCGCCGCTAATGCTCA
68870241 GGTCTTTAGCGGCGTTTTTTAATAAGCGCCGCTAATGCTCA
1 GGTCTTTAGCGGCGTTTTTTAATAAGCGCCGCTAATGCTCA
* *
68870282 GGTCTTTAGCGGCGTTTTTTAATAAGCGCCGCTAATTCTTA
1 GGTCTTTAGCGGCGTTTTTTAATAAGCGCCGCTAATGCTCA
* *
68870323 GGTCTTTAGCGACGTTTTTTAATAAGCGCCGCGAATGCTCA
1 GGTCTTTAGCGGCGTTTTTTAATAAGCGCCGCTAATGCTCA
68870364 GGTCTTTAGCGGCGTTTTTTAATAAGCGCCGCTAATGCTCA
1 GGTCTTTAGCGGCGTTTTTTAATAAGCGCCGCTAATGCTCA
68870405 GGTCTTTAGCGGCGTTTTTTAATAAGCGCCGCTAATGCTC-
1 GGTCTTTAGCGGCGTTTTTTAATAAGCGCCGCTAATGCTCA
68870445 -GTACCTTTAGCGGCGTTTTT
1 GGT--CTTTAGCGGCGTTTTT
68870465 GAGGAAGCGC
Statistics
Matches: 209, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
39 9 0.04
40 14 0.07
41 186 0.89
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (41 bp):
GGTCTTTAGCGGCGTTTTTTAATAAGCGCCGCTAATGCTCA
Found at i:68870970 original size:87 final size:78
Alignment explanation
Indices: 68870892--68871042 Score: 194
Period size: 82 Copynumber: 1.9 Consensus size: 78
68870882 TTCGGTGTTA
*
68870892 GGTTAGAGTTTAGGGTTTAGACTAAGTAATATATATTTTAAATTATATAATATTAAATAATGTTT
1 GGTTAGAGTTTAGGATTTAGACTAAGTAATAT-T-TTTTAAATTATAT-ATATTAAATAATGTTT
68870957 AGGGGTTAGGGATTTAG
63 A-GGGTTAGGGATTTAG
* * * * * *
68870974 GGTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATATTAAATAATGTTTACG
1 GGTTAGAGTTTAGGATTTAGACTAAGTAATATTTTTTAAATTATATATATTAAATAATGTTTA-G
68871039 GGTT
65 GGTT
68871043 TGGGGTTAGT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
79 22 0.36
80 12 0.20
81 1 0.02
82 26 0.43
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.45
Consensus pattern (78 bp):
GGTTAGAGTTTAGGATTTAGACTAAGTAATATTTTTTAAATTATATATATTAAATAATGTTTAGG
GTTAGGGATTTAG
Found at i:68870987 original size:82 final size:79
Alignment explanation
Indices: 68870892--68871133 Score: 205
Period size: 91 Copynumber: 2.9 Consensus size: 79
68870882 TTCGGTGTTA
*
68870892 GGTTAGAGTTTAGGGTTTAGACTAAGTAATATATATTTTAAATTATATAATATTAAATAATGTTT
1 GGTTAGAGTTTAGGATTTAGACTAAGTAATAT-T-TTTTAAATTATAT-ATATTAAATAATGTTT
*
68870957 AGGGGTTAGGGATTTAG
63 ACGGGTTAGGGATTTAG
* * * * * *
68870974 GGTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATATTAAATAATGTTTACG
1 GGTTAGAGTTTAGGATTTAGACTAAGTAATATTTTTTAAATTATATATATTAAATAATGTTTAC-
* *
68871039 GGTTTGGGGTTAGTGATTTGGGG
65 ------GGGTTAGGGATTT--AG
* * * * * *
68871062 TCGAGTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATATTAAATAATGTTT
1 --G-GTTAGAGTTTAGGATTTAGACTAAGTAATATTTTTTAAATTATATATATTAAATAATGTTT
68871127 ACGGGTT
63 ACGGGTT
68871134 TGGGGTTAGT
Statistics
Matches: 138, Mismatches: 10, Indels: 22
0.81 0.06 0.13
Matches are distributed among these distances:
79 17 0.12
80 12 0.09
81 1 0.01
82 26 0.19
84 5 0.04
86 12 0.09
88 1 0.01
90 1 0.01
91 63 0.46
ACGTcount: A:0.30, C:0.02, G:0.23, T:0.45
Consensus pattern (79 bp):
GGTTAGAGTTTAGGATTTAGACTAAGTAATATTTTTTAAATTATATATATTAAATAATGTTTACG
GGTTAGGGATTTAG
Found at i:68870989 original size:20 final size:21
Alignment explanation
Indices: 68870955--68870993 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
68870945 TAAATAATGT
68870955 TTAGGGGTTAGGGATTTAGGG
1 TTAGGGGTTAGGGATTTAGGG
*
68870976 TTAGGGTTTA-GGATTTAG
1 TTAGGGGTTAGGGATTTAG
68870994 ATTAATTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (21 bp):
TTAGGGGTTAGGGATTTAGGG
Found at i:68870993 original size:14 final size:14
Alignment explanation
Indices: 68870954--68870987 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
68870944 TTAAATAATG
68870954 TTTAGGGGTTAGGGA
1 TTTA-GGGTTAGGGA
68870969 TTTAGGGTTAGGG-
1 TTTAGGGTTAGGGA
68870982 TTTAGG
1 TTTAGG
68870988 ATTTAGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 9 0.47
15 4 0.21
ACGTcount: A:0.18, C:0.00, G:0.44, T:0.38
Consensus pattern (14 bp):
TTTAGGGTTAGGGA
Found at i:68871081 original size:91 final size:91
Alignment explanation
Indices: 68870975--68871225 Score: 474
Period size: 91 Copynumber: 2.8 Consensus size: 91
68870965 GGGATTTAGG
68870975 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATATTAAATAATGTTTACGG
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATATTAAATAATGTTTACGG
68871040 GTTTGGGGTTAGTGATTTGGGGTCGA
66 GTTTGGGGTTAGTGATTTGGGGTCGA
68871066 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATATTAAATAATGTTTACGG
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATATTAAATAATGTTTACGG
68871131 GTTTGGGGTTAGTGATTTGGGGTCGA
66 GTTTGGGGTTAGTGATTTGGGGTCGA
68871157 GTTAGGGTTTAGGATTTAGATTAATTAGTG-TTTTTAA-TT-TATATATTAAATAATGTTTA-GG
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATATTAAATAATGTTTACGG
68871218 GTTTGGGG
66 GTTTGGGG
68871226 GTTTAGGATT
Statistics
Matches: 160, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
87 10 0.06
88 20 0.12
89 2 0.01
90 7 0.04
91 121 0.76
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.47
Consensus pattern (91 bp):
GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATATTAAATAATGTTTACGG
GTTTGGGGTTAGTGATTTGGGGTCGA
Found at i:68871247 original size:7 final size:7
Alignment explanation
Indices: 68871211--68871249 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
68871201 ATTAAATAAT
68871211 GTTTAGG
1 GTTTAGG
*
68871218 GTTTGGGG
1 GTTT-AGG
68871226 GTTTAGG
1 GTTTAGG
*
68871233 ATTTAGG
1 GTTTAGG
68871240 GTTTAGG
1 GTTTAGG
68871247 GTT
1 GTT
68871250 AAGAGTTAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.13, C:0.00, G:0.44, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:68871288 original size:17 final size:18
Alignment explanation
Indices: 68871263--68871301 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
68871253 AGTTAGTGAT
68871263 TTAAAGTTT-AGATCAGA
1 TTAAAGTTTAAGATCAGA
* *
68871280 TTAAGGTTTAAGCTCAGA
1 TTAAAGTTTAAGATCAGA
68871298 TTAA
1 TTAA
68871302 TTAGTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (18 bp):
TTAAAGTTTAAGATCAGA
Found at i:68871779 original size:8 final size:9
Alignment explanation
Indices: 68871756--68871799 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
68871746 AATTTGGACC
*
68871756 AAAATATAA
1 AAAAAATAA
68871765 GAAAAAATAA
1 -AAAAAATAA
68871775 AAAAAATAA
1 AAAAAATAA
68871784 AAAGGAAATAA
1 AAA--AAATAA
68871795 AAAAA
1 AAAAA
68871800 CTAATAATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
9 14 0.45
10 8 0.26
11 9 0.29
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (9 bp):
AAAAAATAA
Found at i:68871783 original size:19 final size:19
Alignment explanation
Indices: 68871756--68871799 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
68871746 AATTTGGACC
*
68871756 AAAATATAAGAAA-AAATAA
1 AAAAAATAA-AAAGAAATAA
68871775 AAAAAATAAAAAGGAAATAA
1 AAAAAATAAAAA-GAAATAA
68871795 AAAAA
1 AAAAA
68871800 CTAATAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 8 0.36
20 11 0.50
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (19 bp):
AAAAAATAAAAAGAAATAA
Found at i:68877132 original size:107 final size:107
Alignment explanation
Indices: 68876946--68877156 Score: 413
Period size: 107 Copynumber: 2.0 Consensus size: 107
68876936 CACTTTTGGC
68876946 ACCAACTTTTCCTTGTGTTGCACATTGACCCATTTTATCTCTAAATTCACGCTTTTGGCCCTTAA
1 ACCAACTTTTCCTTGTGTTGCACATTGACCCATTTTATCTCTAAATTCACGCTTTTGGCCCTTAA
68877011 TTTTGCTTTTGCCTCAAATTTAGTCCCTATAAGATAAAAGAT
66 TTTTGCTTTTGCCTCAAATTTAGTCCCTATAAGATAAAAGAT
68877053 ACCAACTTTTCCTTGTGTTGCACATTGACCCATTTTATCTCTAAATTCACGCTTTTGGCCCTTAA
1 ACCAACTTTTCCTTGTGTTGCACATTGACCCATTTTATCTCTAAATTCACGCTTTTGGCCCTTAA
*
68877118 TTTTGCTTTTGCCTCAAATTTAGTCCCTATGAGATAAAA
66 TTTTGCTTTTGCCTCAAATTTAGTCCCTATAAGATAAAA
68877157 TATCATAAAT
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 103 1.00
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.40
Consensus pattern (107 bp):
ACCAACTTTTCCTTGTGTTGCACATTGACCCATTTTATCTCTAAATTCACGCTTTTGGCCCTTAA
TTTTGCTTTTGCCTCAAATTTAGTCCCTATAAGATAAAAGAT
Found at i:68878012 original size:51 final size:51
Alignment explanation
Indices: 68877907--68878012 Score: 142
Period size: 51 Copynumber: 2.1 Consensus size: 51
68877897 TCTGTAAATG
* * *
68877907 TTGATAGAATGTGAAAATGTTGTAGGCAAAATTTGTTAAATCATGACCAGA
1 TTGATAGAACGTGAAAATGTTGTAGGCAAAATTTGTTAAATCAAGACCAAA
* * *
68877958 TTGATAGAACGTGTAAATGTTGT-GAGCTAAATTTGTTAAATCAAGATCAAA
1 TTGATAGAACGTGAAAATGTTGTAG-GCAAAATTTGTTAAATCAAGACCAAA
68878009 TTGA
1 TTGA
68878013 CAGGATATGT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
50 1 0.02
51 47 0.98
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.33
Consensus pattern (51 bp):
TTGATAGAACGTGAAAATGTTGTAGGCAAAATTTGTTAAATCAAGACCAAA
Found at i:68878024 original size:51 final size:51
Alignment explanation
Indices: 68877921--68878025 Score: 122
Period size: 51 Copynumber: 2.1 Consensus size: 51
68877911 TAGAATGTGA
* * * *
68877921 AAATGTTGTAGGCAAAATTTGTTAAATCATGACCAGATTGATAGAACGTGT
1 AAATGTTGTAGGCAAAATTTGTTAAATCAAGACCAAATTGACAGAACATGT
* * * *
68877972 AAATGTTGT-GAGCTAAATTTGTTAAATCAAGATCAAATTGACAGGATATGT
1 AAATGTTGTAG-GCAAAATTTGTTAAATCAAGACCAAATTGACAGAACATGT
68878023 AAA
1 AAA
68878026 CTTTAAGGCC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
50 1 0.02
51 44 0.98
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (51 bp):
AAATGTTGTAGGCAAAATTTGTTAAATCAAGACCAAATTGACAGAACATGT
Found at i:68879503 original size:23 final size:25
Alignment explanation
Indices: 68879472--68879522 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
68879462 GTAATTTATA
68879472 TTTATATTTTTAAA-ATTGTTT-TTT
1 TTTATA-TTTTAAAGATTGTTTATTT
*
68879496 TTTA-ATTTTAAAGATTTTTTATTT
1 TTTATATTTTAAAGATTGTTTATTT
68879520 TTT
1 TTT
68879523 TTCATAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 7 0.29
23 7 0.29
24 10 0.42
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (25 bp):
TTTATATTTTAAAGATTGTTTATTT
Found at i:68879504 original size:22 final size:24
Alignment explanation
Indices: 68879479--68879522 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
68879469 ATATTTATAT
68879479 TTTTAAA-ATTGTTT-TTTTTTAA
1 TTTTAAAGATTGTTTATTTTTTAA
*
68879501 TTTTAAAGATTTTTTATTTTTT
1 TTTTAAAGATTGTTTATTTTTT
68879523 TTCATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 6 0.32
24 6 0.32
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (24 bp):
TTTTAAAGATTGTTTATTTTTTAA
Found at i:68879524 original size:20 final size:19
Alignment explanation
Indices: 68879478--68879541 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 19
68879468 TATATTTATA
*
68879478 TTTTTAAAATTGTTTTTTTT
1 TTTTTAAAATT-TTTTATTT
68879498 TAATTTTAAAGATTTTTTATTT
1 T--TTTTAAA-ATTTTTTATTT
*
68879520 TTTTTCATAATTTTTTATTT
1 TTTTT-AAAATTTTTTATTT
68879540 TT
1 TT
68879542 AAAAAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
20 18 0.47
21 2 0.05
22 15 0.39
23 3 0.08
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTTAAAATTTTTTATTT
Found at i:68885257 original size:9 final size:9
Alignment explanation
Indices: 68885245--68885277 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
68885235 ATATTATTTT
*
68885245 AATTAATTA
1 AATTAACTA
68885254 AATTAACTA
1 AATTAACTA
68885263 AATTAACTA
1 AATTAACTA
68885272 AATTAA
1 AATTAA
68885278 TTTTCTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (9 bp):
AATTAACTA
Found at i:68885307 original size:17 final size:16
Alignment explanation
Indices: 68885266--68885308 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
68885256 TTAACTAAAT
68885266 TAACTAAATTAATTTTC
1 TAACTAAA-TAATTTTC
*
68885283 TAATTAAATAATTTTC
1 TAACTAAATAATTTTC
68885299 TCAACTAAAT
1 T-AACTAAAT
68885309 TCTAATTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (16 bp):
TAACTAAATAATTTTC
Found at i:68886247 original size:133 final size:133
Alignment explanation
Indices: 68886008--68886404 Score: 749
Period size: 133 Copynumber: 3.0 Consensus size: 133
68885998 AAGCCTATTC
*
68886008 CTCACCCAAACTTGTCTTTCACCTACATAAACACTTAAATACATTTACCAACCAATTCAAAACAT
1 CTCACCCAAACTTGTCTTCCACCTACATAAACACTTAAATACATTTACCAACCAATTCAAAACAT
*
68886073 TAAAACTAAGCCAATACCAAGTCTTATGCATATCATCTTATCACATATGTTCAAGTGTCCAAACT
66 TAAAACTAAGCCAATACCAAGTCTTATGCATATCATATTATCACATATGTTCAAGTGTCCAAACT
68886138 TTT
131 TTT
68886141 CTCACCCAAACTTGTCTTCCACCTACATAAACACTTAAATACATTTACCAACCAATTCAAAACAT
1 CTCACCCAAACTTGTCTTCCACCTACATAAACACTTAAATACATTTACCAACCAATTCAAAACAT
*
68886206 TAAAACTAAGCCAATATCAAGTCTTATGCATATCATATTATCACATATGTTCAAGTGTCCAAACT
66 TAAAACTAAGCCAATACCAAGTCTTATGCATATCATATTATCACATATGTTCAAGTGTCCAAACT
68886271 TTT
131 TTT
* *
68886274 CTCACTCAAACTTATCTTCCACCTACATAAACACTTAAATACATTTACCAACCAATTCAAAACAT
1 CTCACCCAAACTTGTCTTCCACCTACATAAACACTTAAATACATTTACCAACCAATTCAAAACAT
68886339 TAAAACTAAGCCAATACCAAGTCTTATGCATATCATATTATCACATATGTTCAAGTGTCCAAACT
66 TAAAACTAAGCCAATACCAAGTCTTATGCATATCATATTATCACATATGTTCAAGTGTCCAAACT
68886404 T
131 T
68886405 ACCAAATATA
Statistics
Matches: 258, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 258 1.00
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.30
Consensus pattern (133 bp):
CTCACCCAAACTTGTCTTCCACCTACATAAACACTTAAATACATTTACCAACCAATTCAAAACAT
TAAAACTAAGCCAATACCAAGTCTTATGCATATCATATTATCACATATGTTCAAGTGTCCAAACT
TTT
Found at i:68887252 original size:25 final size:25
Alignment explanation
Indices: 68887205--68887266 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
68887195 GTGAACCATG
* ** *
68887205 TAACAGGAAGCTTATCCGGGCTTAA
1 TAACAGGAAGCTCATAAGAGCTTAA
68887230 TAACAGGAAGCTCATAAGAGCTTAA
1 TAACAGGAAGCTCATAAGAGCTTAA
*
68887255 -AACAGAAAGCTC
1 TAACAGGAAGCTC
68887267 GTGTGAGCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 11 0.34
25 21 0.66
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (25 bp):
TAACAGGAAGCTCATAAGAGCTTAA
Found at i:68887314 original size:24 final size:25
Alignment explanation
Indices: 68887286--68887337 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
68887276 TAACGGGTAA
*
68887286 CTCCGAAGAG-CTATTATCAGGAAG
1 CTCCGAAGAGCCAATTATCAGGAAG
* * *
68887310 CTCCGGATAGCCAATTATCAGGTAG
1 CTCCGAAGAGCCAATTATCAGGAAG
68887335 CTC
1 CTC
68887338 AAGCGGCCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (25 bp):
CTCCGAAGAGCCAATTATCAGGAAG
Found at i:68892637 original size:18 final size:18
Alignment explanation
Indices: 68892595--68892652 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
68892585 TATAAATATC
*
68892595 AATAA-AAATATTT-TTT
1 AATAATAAATATTTAATT
68892611 AA-AATTAAATATTTAATT
1 AATAA-TAAATATTTAATT
*
68892629 AATAATAAA-ATTAAATAT
1 AATAATAAATATTTAAT-T
68892647 AATAAT
1 AATAAT
68892653 TACAAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
15 2 0.06
16 2 0.06
17 14 0.40
18 15 0.43
19 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AATAATAAATATTTAATT
Found at i:68893900 original size:66 final size:67
Alignment explanation
Indices: 68893793--68893925 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 67
68893783 AAACAAAAGT
68893793 GACTATTTTAATAGTTTACTCTTAATTTTATGGTATACTATAATATATACAATATATAATTAAGG
1 GACTATTTTAATAGTTTACTCTTAATTTTATGGTATACTATAATATATACAATATATAATTAAGG
68893858 TA
66 TA
68893860 GACTATTTT-ATAGTTTACTCTTAATTTTATGGTATACTATAATATATACAATATATAATTAAGG
1 GACTATTTTAATAGTTTACTCTTAATTTTATGGTATACTATAATATATACAATATATAATTAAGG
68893924 TA
66 TA
68893926 TATTAGTTAT
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
66 57 0.86
67 9 0.14
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (67 bp):
GACTATTTTAATAGTTTACTCTTAATTTTATGGTATACTATAATATATACAATATATAATTAAGG
TA
Found at i:68898136 original size:18 final size:18
Alignment explanation
Indices: 68898094--68898151 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
68898084 TATAAATATC
*
68898094 AATAA-AAATATTT-TTT
1 AATAATAAATATTTAATT
68898110 AA-AATTAAATATTTAATT
1 AATAA-TAAATATTTAATT
*
68898128 AATAATAAA-ATTAAATAT
1 AATAATAAATATTTAAT-T
68898146 AATAAT
1 AATAAT
68898152 TACAAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
15 2 0.06
16 2 0.06
17 14 0.40
18 15 0.43
19 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AATAATAAATATTTAATT
Found at i:68900893 original size:18 final size:18
Alignment explanation
Indices: 68900851--68900908 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
68900841 TATAAATATC
*
68900851 AATAA-AAATATTT-TTT
1 AATAATAAATATTTAATT
68900867 AA-AATTAAATATTTAATT
1 AATAA-TAAATATTTAATT
*
68900885 AATAATAAA-ATTAAATAT
1 AATAATAAATATTTAAT-T
68900903 AATAAT
1 AATAAT
68900909 TACTCTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
15 2 0.06
16 2 0.06
17 14 0.40
18 15 0.43
19 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AATAATAAATATTTAATT
Found at i:68901988 original size:19 final size:20
Alignment explanation
Indices: 68901961--68902001 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
68901951 TGGTTGTATA
*
68901961 TATTAATTAAAATA-TATTT
1 TATTAATTAAAAAATTATTT
*
68901980 TATTTATTAAAAAATTATTT
1 TATTAATTAAAAAATTATTT
68902000 TA
1 TA
68902002 AATTTTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTAATTAAAAAATTATTT
Found at i:68902717 original size:23 final size:22
Alignment explanation
Indices: 68902682--68902726 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
68902672 ATCATAATAT
*
68902682 TTATTTTAATTATACAAATATTA
1 TTATTTTAATTATA-AAAAATTA
**
68902705 TTATTTTTGTTATAAAAAATTA
1 TTATTTTAATTATAAAAAATTA
68902727 ACTAATTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TTATTTTAATTATAAAAAATTA
Found at i:68913792 original size:28 final size:30
Alignment explanation
Indices: 68913732--68913795 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
68913722 ATTAGCAATT
* *
68913732 TAATATAATATAAATATTATTTAACATATA
1 TAATATAATATAAATATTATTTAACAAACA
* *
68913762 TAAT-TAATAT-AATATTATTTTATAAACA
1 TAATATAATATAAATATTATTTAACAAACA
68913790 TAATAT
1 TAATAT
68913796 TCGGTTTGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 18 0.62
29 7 0.24
30 4 0.14
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (30 bp):
TAATATAATATAAATATTATTTAACAAACA
Found at i:68915331 original size:31 final size:31
Alignment explanation
Indices: 68915288--68915391 Score: 181
Period size: 31 Copynumber: 3.4 Consensus size: 31
68915278 AGGCAAGATT
68915288 GGGCGTGTGGGCCTACACGGGTATGCCACAC
1 GGGCGTGTGGGCCTACACGGGTATGCCACAC
*
68915319 GGGCATGTGGGCCTACACGGGTATGCCACAC
1 GGGCGTGTGGGCCTACACGGGTATGCCACAC
* *
68915350 AGGCGTGTGGGCCTATACGGGTATGCCACAC
1 GGGCGTGTGGGCCTACACGGGTATGCCACAC
68915381 GGGCGTGTGGG
1 GGGCGTGTGGG
68915392 TTTTAGGCCA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.16, C:0.26, G:0.40, T:0.17
Consensus pattern (31 bp):
GGGCGTGTGGGCCTACACGGGTATGCCACAC
Found at i:68925164 original size:67 final size:67
Alignment explanation
Indices: 68925056--68925187 Score: 210
Period size: 67 Copynumber: 2.0 Consensus size: 67
68925046 GTTTATATTA
* * *
68925056 CAGGGGATTTAGCCTAGACTAGTAATCCCGCTGTAAGAAATGAGGTTCGCAGGAGTGTGCTCTCT
1 CAGGGGATTTAGCCTAGACTAGTAATCCCGCTATAAGAAATGAGGTTCGCAAGAGTATGCTCTCT
68925121 TG
66 TG
* * *
68925123 CAGGGGATTTAGCCTGGACTGGTAATCTCGCTATAAGAAATGAGGTTCGCAAGAGTATGCTCTCT
1 CAGGGGATTTAGCCTAGACTAGTAATCCCGCTATAAGAAATGAGGTTCGCAAGAGTATGCTCTCT
68925188 GAATTGGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (67 bp):
CAGGGGATTTAGCCTAGACTAGTAATCCCGCTATAAGAAATGAGGTTCGCAAGAGTATGCTCTCT
TG
Found at i:68928462 original size:23 final size:23
Alignment explanation
Indices: 68928436--68928481 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
68928426 TATTTAATGA
* *
68928436 GATAATGGGGAGTTAGGATAATC
1 GATAATAGGAAGTTAGGATAATC
*
68928459 GATAATAGGAAGTTGGGATAATC
1 GATAATAGGAAGTTAGGATAATC
68928482 TTTTTTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.26
Consensus pattern (23 bp):
GATAATAGGAAGTTAGGATAATC
Found at i:68937657 original size:40 final size:39
Alignment explanation
Indices: 68937576--68937657 Score: 94
Period size: 40 Copynumber: 2.1 Consensus size: 39
68937566 TTTTAGTAGG
* *
68937576 ATTTTAGGATTTTATTTTATTTATAAGTTAATTTTAGTAT
1 ATTTTAGGATTTTATTTTATTTAT-AGTTAAGTTAAGTAT
* *
68937616 ATTTTAGGAATTTTATTTTATTTAT-GTTTTAGTTAATTAT
1 ATTTTAGG-ATTTTATTTTATTTATAG-TTAAGTTAAGTAT
68937656 AT
1 AT
68937658 ATTATTAGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
39 1 0.03
40 19 0.53
41 16 0.44
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (39 bp):
ATTTTAGGATTTTATTTTATTTATAGTTAAGTTAAGTAT
Found at i:68946527 original size:71 final size:71
Alignment explanation
Indices: 68946411--68946706 Score: 304
Period size: 71 Copynumber: 4.2 Consensus size: 71
68946401 GAAATGATTT
* * ** * * * *
68946411 CACACATATTTGTCGGGTCTACCGACCAGCGTAGAGCTCATTTATTATCGGTTATATCGACCAGT
1 CACACATATTTGTCGGTTTTACCGACCAGCACAGGGCGCATTTATTTTCGGTTATACCGACCAGT
68946476 GCTAGG
66 GCTAGG
* * * * *
68946482 CACACATATTTGTTGGTTTTACCGACCAGCACAGGGCGCACTTATTGTCAGTTATACCGACTAGT
1 CACACATATTTGTCGGTTTTACCGACCAGCACAGGGCGCATTTATTTTCGGTTATACCGACCAGT
** *
68946547 TTTGGG
66 GCTAGG
* * * * * ** * * *
68946553 TACACATATTTGTCGATTTTACCAACCAACGCACTGCACATTTTATTTTCGGTTACACCGATCAG
1 CACACATATTTGTCGGTTTTACCGACCAGCACAGGGCGCA-TTTATTTTCGGTTATACCGACCAG
68946618 TGCTAGG
65 TGCTAGG
* * * *
68946625 TACACATATTTTTCAGTTTTACCGACCAGCACAGGGCGCATTTATTTTCGGTTATATCGACCAGT
1 CACACATATTTGTCGGTTTTACCGACCAGCACAGGGCGCATTTATTTTCGGTTATACCGACCAGT
*
68946690 GCTGGG
66 GCTAGG
68946696 CACACATATTT
1 CACACATATTT
68946707 TTCAGTCCTA
Statistics
Matches: 177, Mismatches: 47, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
71 124 0.70
72 53 0.30
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (71 bp):
CACACATATTTGTCGGTTTTACCGACCAGCACAGGGCGCATTTATTTTCGGTTATACCGACCAGT
GCTAGG
Found at i:68946719 original size:143 final size:143
Alignment explanation
Indices: 68946451--68946723 Score: 361
Period size: 143 Copynumber: 1.9 Consensus size: 143
68946441 GTAGAGCTCA
* * *
68946451 TTTATTATCGGTTATATCGACCAGTGCTAGGCACACATATTTGTTGGTTTTACCGACCAGCACAG
1 TTTATTATCGGTTACACCGACCAGTGCTAGGCACACATATTTGTTAGTTTTACCGACCAGCACAG
* ** * **
68946516 GGCGCACTTATTGTCAGTTATACCGACTAGTTTTGGGTACACATATTTGTCGATTTTACCAACCA
66 GGCGCACTTATTGTCAGTTATACCGACCAGTGCTGGGCACACATATTTGTCGATCCTACCAACCA
68946581 ACGCACTGCACAT
131 ACGCACTGCACAT
* * *
68946594 TTTATTTTCGGTTACACCGATCAGTGCTAGGTACACATATTT-TTCAGTTTTACCGACCAGCACA
1 TTTATTATCGGTTACACCGACCAGTGCTAGGCACACATATTTGTT-AGTTTTACCGACCAGCACA
* * * * *
68946658 GGGCGCATTTATTTTCGGTTATATCGACCAGTGCTGGGCACACATATTTTTC-AGTCCTACCAAC
65 GGGCGCACTTATTGTCAGTTATACCGACCAGTGCTGGGCACACATATTTGTCGA-TCCTACCAAC
68946722 CA
129 CA
68946724 GCGCCAGGCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
142 3 0.03
143 108 0.97
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (143 bp):
TTTATTATCGGTTACACCGACCAGTGCTAGGCACACATATTTGTTAGTTTTACCGACCAGCACAG
GGCGCACTTATTGTCAGTTATACCGACCAGTGCTGGGCACACATATTTGTCGATCCTACCAACCA
ACGCACTGCACAT
Found at i:68947796 original size:21 final size:24
Alignment explanation
Indices: 68947771--68947815 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
68947761 TAAGTATACA
68947771 AATTT-TT-GAAA-ATTTATTTTC
1 AATTTGTTGGAAATATTTATTTTC
68947792 AATTTGTTGGGAAATATTTATTTT
1 AATTTGTT-GGAAATATTTATTTT
68947816 AATGTTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.25
22 2 0.10
24 4 0.20
25 9 0.45
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (24 bp):
AATTTGTTGGAAATATTTATTTTC
Found at i:68948430 original size:3 final size:3
Alignment explanation
Indices: 68948424--68948451 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
68948414 GATGATGATG
68948424 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
68948452 GTTTTGCTAT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:68948545 original size:21 final size:24
Alignment explanation
Indices: 68948520--68948564 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
68948510 TAAGTATACA
68948520 AATTT-TT-GAAA-ATTTATTTTC
1 AATTTGTTGGAAATATTTATTTTC
68948541 AATTTGTTGGGAAATATTTATTTT
1 AATTTGTT-GGAAATATTTATTTT
68948565 AATGTTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.25
22 2 0.10
24 4 0.20
25 9 0.45
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (24 bp):
AATTTGTTGGAAATATTTATTTTC
Found at i:68950476 original size:30 final size:29
Alignment explanation
Indices: 68950440--68950511 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 29
68950430 TTTATTTTTT
*
68950440 ATTTTTTAAAATTTTAAAATACTTTTTTAA
1 ATTTTTTAAAATTTTAAAATA-TTTTTAAA
**
68950470 ATTTTTTTTAATTTTAAAATATTTTTAAA
1 ATTTTTTAAAATTTTAAAATATTTTTAAA
68950499 ATATTTTTAAAAT
1 AT-TTTTTAAAAT
68950512 ACTTTTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 9 0.25
30 27 0.75
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (29 bp):
ATTTTTTAAAATTTTAAAATATTTTTAAA
Found at i:68950486 original size:17 final size:17
Alignment explanation
Indices: 68950464--68950497 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
68950454 TAAAATACTT
* *
68950464 TTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTAA
68950481 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
68950498 AATATTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:68950495 original size:11 final size:11
Alignment explanation
Indices: 68950481--68950540 Score: 70
Period size: 11 Copynumber: 5.5 Consensus size: 11
68950471 TTTTTTTTAA
68950481 TTTTAAAATAT
1 TTTTAAAATAT
68950492 TTTTAAAATAT
1 TTTTAAAATAT
68950503 TTTTAAAATACT
1 TTTTAAAATA-T
**
68950515 TTTT-TTA-AT
1 TTTTAAAATAT
68950524 TTTTAAAATAGT
1 TTTTAAAATA-T
68950536 TTTTA
1 TTTTA
68950541 GGTATTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
9 5 0.12
10 2 0.05
11 23 0.56
12 11 0.27
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:68950495 original size:21 final size:20
Alignment explanation
Indices: 68950470--68950539 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 20
68950460 ACTTTTTTAA
68950470 ATTTTTTTTAATTTTAAAAT
1 ATTTTTTTTAATTTTAAAAT
** *
68950490 ATTTTTAAAATATTTTTAAAAT
1 ATTTTT--TTTAATTTTAAAAT
*
68950512 ACTTTTTTTAATTTTTAAAAT
1 ATTTTTTTTAA-TTTTAAAAT
68950533 AGTTTTT
1 A-TTTTT
68950540 AGGTATTTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
20 8 0.21
21 10 0.26
22 20 0.53
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (20 bp):
ATTTTTTTTAATTTTAAAAT
Found at i:68950547 original size:22 final size:20
Alignment explanation
Indices: 68950432--68950554 Score: 67
Period size: 21 Copynumber: 6.0 Consensus size: 20
68950422 ATAATTTTTT
*
68950432 TATTTTTTAT-TTTTTAAAA
1 TATTTTTAATATTTTTAAAA
** *
68950451 T-TTTAAAATACTTTTTTAAA
1 TATTTTTAATA-TTTTTAAAA
* *
68950471 T-TTTTT-TTAATTTTAAAA
1 TATTTTTAATATTTTTAAAA
68950489 TATTTTTAAAATATTTTTAAAA
1 TATTTTT--AATATTTTTAAAA
*
68950511 TACTTTTT-TTAATTTTTAAAA
1 TA-TTTTTAAT-ATTTTTAAAA
*
68950532 TAGTTTTTAGGTATTTATTAAAA
1 TA-TTTTTA-ATATTT-TTAAAA
68950555 AATGGGCCGG
Statistics
Matches: 79, Mismatches: 14, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
18 13 0.16
19 8 0.10
20 13 0.16
21 17 0.22
22 16 0.20
23 12 0.15
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
TATTTTTAATATTTTTAAAA
Found at i:68950547 original size:43 final size:43
Alignment explanation
Indices: 68950434--68950554 Score: 121
Period size: 43 Copynumber: 2.9 Consensus size: 43
68950424 AATTTTTTTA
* * *
68950434 TTTTTTATTTTTTAAA-A-TTTTAAAATACTTT-TTTAAAT--T
1 TTTTTTAATTTTAAAATATTTTTAAAATA-TTTATTAAAATACT
68950473 TTTTTTAATTTTAAAATATTTTTAAAATATTT-TTAAAATACT
1 TTTTTTAATTTTAAAATATTTTTAAAATATTTATTAAAATACT
**
68950515 TTTTTTAATTTTTAAAATAGTTTTT-AGGTATTTATTAAAA
1 TTTTTTAA-TTTTAAAATA-TTTTTAAAATATTTATTAAAA
68950555 AATGGGCCGG
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
39 14 0.20
40 10 0.14
41 10 0.14
42 9 0.13
43 16 0.23
44 11 0.16
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (43 bp):
TTTTTTAATTTTAAAATATTTTTAAAATATTTATTAAAATACT
Found at i:68956973 original size:8 final size:8
Alignment explanation
Indices: 68956960--68956987 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
68956950 ATTTGAAATT
68956960 AAAATTTG
1 AAAATTTG
68956968 AAAATTTG
1 AAAATTTG
68956976 AAAATTTG
1 AAAATTTG
68956984 AAAA
1 AAAA
68956988 ATATATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (8 bp):
AAAATTTG
Found at i:68957459 original size:114 final size:113
Alignment explanation
Indices: 68957270--68957583 Score: 332
Period size: 113 Copynumber: 2.8 Consensus size: 113
68957260 AAGAACATCA
* * * * * *
68957270 TTAGCGGCG-TTCACAACCACGCGCCGCAAATCTCCTATCCAAAACGCAACG-TTTTCGT-CTTT
1 TTAGCGGCGTTTTACAACAACGCGCCGCAAATCTCCTAACCAAAACGCATCGTTTTTAGTGC-TG
* * * *
68957332 ATGTATGCAAGAATTAGTGGCGCTTC-AAAAAACACGCCACTAAAGTGTC
65 ATGTATCCTAGAATTAGTGGCGCTTCTAAAAAA-ACGCCACGAAAGCGTC
* * *
68957381 TTAGCGGTGTTTTACAACAACGCGCCGTAATTTCTCCTAACCAAAACGCATCGTTTTTAGTGCTG
1 TTAGCGGCGTTTTACAACAACGCGCCGCAA-ATCTCCTAACCAAAACGCATCGTTTTTAGTGCTG
* *
68957446 ATGTATCCTAGAATTAGTGGTGCTTCTAAAAAAACGCCGCGAAAGCGTC
65 ATGTATCCTAGAATTAGTGGCGCTTCTAAAAAAACGCCACGAAAGCGTC
* * * * * * * * *
68957495 TTTGCGGCGTTTTGCGA-TATGCGCCGCAAAATATCTTAACCAAAACGCATCGTTTTTGGTGTTG
1 TTAGCGGCGTTTTACAACAACGCGCCGC-AAATCTCCTAACCAAAACGCATCGTTTTTAGTGCTG
*
68957559 ATGTATCCTAGATTTAGTGGCGCTT
65 ATGTATCCTAGAATTAGTGGCGCTT
68957584 TGTGATATGC
Statistics
Matches: 168, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
111 8 0.05
112 17 0.10
113 78 0.46
114 58 0.35
115 7 0.04
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (113 bp):
TTAGCGGCGTTTTACAACAACGCGCCGCAAATCTCCTAACCAAAACGCATCGTTTTTAGTGCTGA
TGTATCCTAGAATTAGTGGCGCTTCTAAAAAAACGCCACGAAAGCGTC
Found at i:68958316 original size:268 final size:267
Alignment explanation
Indices: 68957638--68958434 Score: 1326
Period size: 259 Copynumber: 3.0 Consensus size: 267
68957628 AAAGCGCCAC
*
68957638 AAAATATCTTTACTAAAACGCGTAGTTTTAATTTTGATGTATACTTATATTAGTGGCGCTTACTA
1 AAAATATCTTAACTAAAACGCGTAGTTTTAATTTTGATGTATACTTATATTAGTGGCGCTTACTA
* * *
68957703 GAAAACGCTGTTAAAGAATAGCTTTAGCAGCGCTTGATCCAAAGTGCCGCAACGTATCTTAACAA
66 GAAAACGCCGTTAAAGAATAGCTTTAGCGGCGCTTGATCCAAAGCGCCGCAACGTATCTTAACAA
*
68957768 AACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAATGCCGCAAAAA-
131 AACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAAAT
68957832 ATCTGAACCAAAACGCAT-CATTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAA
196 ATCTGAACCAAAACGC-TCCATTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAA
*
68957896 ACACCGCA
260 ACGCCGCA
** *
68957904 AAAATATCTTAGGTAAAACGTGTAGTTTTAA-TTT--TG---A-TTATATTAGTGGCGCTTACTA
1 AAAATATCTTAACTAAAACGCGTAGTTTTAATTTTGATGTATACTTATATTAGTGGCGCTTACTA
* *
68957962 GAAAACACCGTTAAAGAATAGCTTTAGCGGCGCTTGAGCCAAAGCGCCGCAACGTATCTTAACAA
66 GAAAACGCCGTTAAAGAATAGCTTTAGCGGCGCTTGATCCAAAGCGCCGCAACGTATCTTAACAA
*
68958027 AACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCACAAAAAN
131 AACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAAA-
* * *
68958092 TATCTGAACCAAAACTCTCCTTTTTGGTCTCGATTTATACTTCAATTAGTGGCGCTGACGTTAAA
195 TATCTGAACCAAAACGCTCCATTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAA
68958157 ACGCCGCA
260 ACGCCGCA
68958165 AAAATATCTTAACTAAAACGCGTAGTTTTAATTTTGATGTATACTTATATTAGTGGCGCTTACTA
1 AAAATATCTTAACTAAAACGCGTAGTTTTAATTTTGATGTATACTTATATTAGTGGCGCTTACTA
*
68958230 GAAAACGCCGTTAAAGAATAGCTTTAGCGGCACTTGATCCAAAGCGCCGCAACGTATCTTAACAA
66 GAAAACGCCGTTAAAGAATAGCTTTAGCGGCGCTTGATCCAAAGCGCCGCAACGTATCTTAACAA
*
68958295 AACGCAGTGTTTTGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGC-AAAAT
131 AACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAAAT
* *
68958359 ATCTGAACCAAAACGCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAAA
196 ATCTGAACCAAAACGCTCCATTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAAA
*
68958424 CGCTGCA
261 CGCCGCA
68958431 AAAA
1 AAAA
68958435 AGCAAAATAC
Statistics
Matches: 493, Mismatches: 28, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
259 143 0.29
260 2 0.00
261 94 0.19
262 3 0.01
263 2 0.00
264 2 0.00
265 3 0.01
266 99 0.20
267 5 0.01
268 140 0.28
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (267 bp):
AAAATATCTTAACTAAAACGCGTAGTTTTAATTTTGATGTATACTTATATTAGTGGCGCTTACTA
GAAAACGCCGTTAAAGAATAGCTTTAGCGGCGCTTGATCCAAAGCGCCGCAACGTATCTTAACAA
AACGCAGTGTTTGGTCTTAAGCTATGTTACATTTAGTGGCGCTTATAGGAAAACGCCGCAAAAAT
ATCTGAACCAAAACGCTCCATTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGACGTTAAAA
CGCCGCA
Found at i:68958516 original size:84 final size:84
Alignment explanation
Indices: 68958352--68958517 Score: 190
Period size: 84 Copynumber: 2.0 Consensus size: 84
68958342 GGAAAACGCC
* * **
68958352 GCAAAATATCTGAACCAAAACGCACCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTGAC
1 GCAAAATACCTGAAACAAAACGCACCGTTTTGGTCTCGATGTATACTAAAATTAGTGGCGCTGAC
* * *
68958417 GTTAAAACGCTGCAAAAAA
66 CTGAAAACGCCGCAAAAAA
* * * * **
68958436 GCAAAATACCTTAAACAAAACGCAGCGTTTTTGTCGT-TATGTATACTAAAATTAGTGGCGCTTT
1 GCAAAATACCTGAAACAAAACGCACCGTTTTGGTC-TCGATGTATACTAAAATTAGTGGCGCTGA
*
68958500 CCTGAAAGCGCCGCAAAA
65 CCTGAAAACGCCGCAAAA
68958518 TATGTTAACA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
84 66 0.99
85 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (84 bp):
GCAAAATACCTGAAACAAAACGCACCGTTTTGGTCTCGATGTATACTAAAATTAGTGGCGCTGAC
CTGAAAACGCCGCAAAAAA
Found at i:68959053 original size:22 final size:22
Alignment explanation
Indices: 68959028--68959080 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
68959018 GGGTTTAAGA
68959028 GTTTAAAGTTTAAAGGTTACGG
1 GTTTAAAGTTTAAAGGTTACGG
*
68959050 GTTTAAAGTTTGAAGGTTACGG
1 GTTTAAAGTTTAAAGGTTACGG
68959072 G-TTAAAGTT
1 GTTTAAAGTT
68959081 AGGGGCCTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 8 0.27
22 22 0.73
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.38
Consensus pattern (22 bp):
GTTTAAAGTTTAAAGGTTACGG
Found at i:68959067 original size:15 final size:14
Alignment explanation
Indices: 68958991--68959067 Score: 55
Period size: 15 Copynumber: 5.3 Consensus size: 14
68958981 TAAGGTTACG
* *
68958991 GGTTTAGAGTGTAA
1 GGTTTAAAGTTTAA
** *
68959005 GGTTTGTAGTTTAG
1 GGTTTAAAGTTTAA
68959019 GGTTTAAGAGTTTAA
1 GGTTTAA-AGTTTAA
* * *
68959034 AGTTTAAAGGTTACG
1 GGTTTAAAGTTTA-A
68959049 GGTTTAAAGTTTGAA
1 GGTTTAAAGTTT-AA
68959064 GGTT
1 GGTT
68959068 ACGGGTTAAA
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
14 20 0.43
15 26 0.55
16 1 0.02
ACGTcount: A:0.27, C:0.01, G:0.31, T:0.40
Consensus pattern (14 bp):
GGTTTAAAGTTTAA
Found at i:68959673 original size:22 final size:23
Alignment explanation
Indices: 68959617--68959667 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
68959607 ATTCCCTAAT
*
68959617 TTCCC-ATTTCGTATTCCCCCCAA
1 TTCCCGATTTCAT-TTCCCCCCAA
68959640 TTCCCCGATTTCATTTCCCCCCAA
1 TT-CCCGATTTCATTTCCCCCCAA
68959664 TTCC
1 TTCC
68959668 TATTTCCCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 4 0.16
24 15 0.60
25 6 0.24
ACGTcount: A:0.16, C:0.45, G:0.04, T:0.35
Consensus pattern (23 bp):
TTCCCGATTTCATTTCCCCCCAA
Found at i:68960898 original size:15 final size:15
Alignment explanation
Indices: 68960874--68960906 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
68960864 AAGGTTTCTA
*
68960874 TATTAGTATTAAATT
1 TATTACTATTAAATT
68960889 TATTACTATTAAATT
1 TATTACTATTAAATT
68960904 TAT
1 TAT
68960907 AAAAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTACTATTAAATT
Found at i:68961003 original size:21 final size:21
Alignment explanation
Indices: 68960975--68961036 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
68960965 TAACCTATAA
68960975 AATT-TAAAAGTTTTCTAAAT
1 AATTATAAAAGTTTTCTAAAT
*
68960995 AATTATAAATA-TTGTT-TTAAT
1 AATTATAAA-AGTT-TTCTAAAT
*
68961016 -ATCTATATAAGTTTTCTAAAT
1 AAT-TATAAAAGTTTTCTAAAT
68961037 TTATAAGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
20 9 0.27
21 21 0.64
22 3 0.09
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (21 bp):
AATTATAAAAGTTTTCTAAAT
Found at i:68961075 original size:15 final size:15
Alignment explanation
Indices: 68961051--68961083 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
68961041 AAGGTTTCTA
*
68961051 TATTAGTATTAAATT
1 TATTACTATTAAATT
68961066 TATTACTATTAAATT
1 TATTACTATTAAATT
68961081 TAT
1 TAT
68961084 AAAAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTACTATTAAATT
Found at i:68961104 original size:177 final size:177
Alignment explanation
Indices: 68960808--68962337 Score: 3024
Period size: 177 Copynumber: 8.6 Consensus size: 177
68960798 AATGATAACA
68960808 TTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAATTTATAAGGTTTCT
1 TTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAATTTATAAGGTTTCT
68960873 ATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTAT
66 ATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTAT
68960938 ATTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAG
131 ATTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAG
68960985 TTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAATTTATAAGGTTTCT
1 TTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAATTTATAAGGTTTCT
68961050 ATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTAT
66 ATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTAT
68961115 ATTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAG
131 ATTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAG
68961162 TTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAATTTATAAGGTTTCT
1 TTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAATTTATAAGGTTTCT
68961227 ATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTAT
66 ATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTAT
68961292 ATTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAG
131 ATTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAG
68961339 TTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAATTTATAAGGTTTCT
1 TTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAATTTATAAGGTTTCT
68961404 ATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTAT
66 ATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTAT
68961469 ATTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAG
131 ATTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAG
68961516 TTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAATTTATAAGGTTTCT
1 TTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAATTTATAAGGTTTCT
68961581 ATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTAT
66 ATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTAT
68961646 ATTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAG
131 ATTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAG
*
68961693 TTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAACTTATAAGGTTTCT
1 TTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAATTTATAAGGTTTCT
68961758 ATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTAT
66 ATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTAT
68961823 ATTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAG
131 ATTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAG
*
68961870 TTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAACTTATAAGGTTTCT
1 TTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAATTTATAAGGTTTCT
68961935 ATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTAT
66 ATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTAT
68962000 ATTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAG
131 ATTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAG
*
68962047 TTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAACTTATAAGGTTTCT
1 TTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAATTTATAAGGTTTCT
68962112 ATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTAT
66 ATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTAT
68962177 ATTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAG
131 ATTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAG
*
68962224 TTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAACTTATAAGGTTTCT
1 TTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAATTTATAAGGTTTCT
68962289 ATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATA
66 ATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATA
68962338 CCATGATGGA
Statistics
Matches: 1352, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
177 1352 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.48
Consensus pattern (177 bp):
TTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAATTTATAAGGTTTCT
ATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTAT
ATTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAG
Found at i:68961180 original size:21 final size:21
Alignment explanation
Indices: 68961152--68961213 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
68961142 TAACCTATAA
68961152 AATT-TAAAAGTTTTCTAAAT
1 AATTATAAAAGTTTTCTAAAT
*
68961172 AATTATAAATA-TTGTT-TTAAT
1 AATTATAAA-AGTT-TTCTAAAT
*
68961193 -ATCTATATAAGTTTTCTAAAT
1 AAT-TATAAAAGTTTTCTAAAT
68961214 TTATAAGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
20 9 0.27
21 21 0.64
22 3 0.09
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (21 bp):
AATTATAAAAGTTTTCTAAAT
Found at i:68961252 original size:15 final size:15
Alignment explanation
Indices: 68961228--68961260 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
68961218 AAGGTTTCTA
*
68961228 TATTAGTATTAAATT
1 TATTACTATTAAATT
68961243 TATTACTATTAAATT
1 TATTACTATTAAATT
68961258 TAT
1 TAT
68961261 AAAAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTACTATTAAATT
Found at i:68961357 original size:21 final size:21
Alignment explanation
Indices: 68961329--68961390 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
68961319 TAACCTATAA
68961329 AATT-TAAAAGTTTTCTAAAT
1 AATTATAAAAGTTTTCTAAAT
*
68961349 AATTATAAATA-TTGTT-TTAAT
1 AATTATAAA-AGTT-TTCTAAAT
*
68961370 -ATCTATATAAGTTTTCTAAAT
1 AAT-TATAAAAGTTTTCTAAAT
68961391 TTATAAGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
20 9 0.27
21 21 0.64
22 3 0.09
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (21 bp):
AATTATAAAAGTTTTCTAAAT
Found at i:68961429 original size:15 final size:15
Alignment explanation
Indices: 68961405--68961437 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
68961395 AAGGTTTCTA
*
68961405 TATTAGTATTAAATT
1 TATTACTATTAAATT
68961420 TATTACTATTAAATT
1 TATTACTATTAAATT
68961435 TAT
1 TAT
68961438 AAAAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTACTATTAAATT
Found at i:68961534 original size:21 final size:21
Alignment explanation
Indices: 68961506--68961567 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
68961496 TAACCTATAA
68961506 AATT-TAAAAGTTTTCTAAAT
1 AATTATAAAAGTTTTCTAAAT
*
68961526 AATTATAAATA-TTGTT-TTAAT
1 AATTATAAA-AGTT-TTCTAAAT
*
68961547 -ATCTATATAAGTTTTCTAAAT
1 AAT-TATAAAAGTTTTCTAAAT
68961568 TTATAAGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
20 9 0.27
21 21 0.64
22 3 0.09
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (21 bp):
AATTATAAAAGTTTTCTAAAT
Found at i:68961606 original size:15 final size:15
Alignment explanation
Indices: 68961582--68961614 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
68961572 AAGGTTTCTA
*
68961582 TATTAGTATTAAATT
1 TATTACTATTAAATT
68961597 TATTACTATTAAATT
1 TATTACTATTAAATT
68961612 TAT
1 TAT
68961615 AAAAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTACTATTAAATT
Found at i:68961783 original size:15 final size:15
Alignment explanation
Indices: 68961759--68961791 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
68961749 AAGGTTTCTA
*
68961759 TATTAGTATTAAATT
1 TATTACTATTAAATT
68961774 TATTACTATTAAATT
1 TATTACTATTAAATT
68961789 TAT
1 TAT
68961792 AAAAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTACTATTAAATT
Found at i:68961960 original size:15 final size:15
Alignment explanation
Indices: 68961936--68961968 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
68961926 AAGGTTTCTA
*
68961936 TATTAGTATTAAATT
1 TATTACTATTAAATT
68961951 TATTACTATTAAATT
1 TATTACTATTAAATT
68961966 TAT
1 TAT
68961969 AAAAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTACTATTAAATT
Found at i:68962137 original size:15 final size:15
Alignment explanation
Indices: 68962113--68962145 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
68962103 AAGGTTTCTA
*
68962113 TATTAGTATTAAATT
1 TATTACTATTAAATT
68962128 TATTACTATTAAATT
1 TATTACTATTAAATT
68962143 TAT
1 TAT
68962146 AAAAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTACTATTAAATT
Found at i:68962314 original size:15 final size:15
Alignment explanation
Indices: 68962290--68962322 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
68962280 AAGGTTTCTA
*
68962290 TATTAGTATTAAATT
1 TATTACTATTAAATT
68962305 TATTACTATTAAATT
1 TATTACTATTAAATT
68962320 TAT
1 TAT
68962323 AAAAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTACTATTAAATT
Found at i:68966983 original size:21 final size:21
Alignment explanation
Indices: 68966957--68967004 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
68966947 CAACAACTTA
* *
68966957 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
*
68966978 AAGCAGATGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
68966999 AAGCAG
1 AAGCAG
68967005 CGATAGAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.44, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:68967488 original size:42 final size:43
Alignment explanation
Indices: 68967426--68967518 Score: 152
Period size: 42 Copynumber: 2.2 Consensus size: 43
68967416 TCAAAACAGT
* * *
68967426 GGCGTTTGTGAAACAAGCGCCGCTAAAGCACACTACTTTTAGC
1 GGCGTTTTTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGA
68967469 GGCGTTTTTG-AACAAGCGCCGCTAAAGAACACTACTTTTAGA
1 GGCGTTTTTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGA
68967511 GGCGTTTT
1 GGCGTTTT
68967519 CTTCCAAAGC
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 38 0.81
43 9 0.19
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (43 bp):
GGCGTTTTTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGA
Found at i:68967564 original size:49 final size:48
Alignment explanation
Indices: 68967488--68967584 Score: 128
Period size: 49 Copynumber: 2.0 Consensus size: 48
68967478 GAACAAGCGC
68967488 CGCTAAAGAACACTACTTTTAGAGGCGTTTTCTTCCA-AAGCGCCGCTAA
1 CGCTAAAGAACACTACTTTTAGAGGCGTTTT-TT-CATAAGCGCCGCTAA
*
68967537 CGCTAAAGAACA-TGA-TCTTTAGCGGCGTTTTTTCATAAGCGCCGCTAA
1 CGCTAAAGAACACT-ACT-TTTAGAGGCGTTTTTTCATAAGCGCCGCTAA
68967585 AGAACATGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
47 2 0.05
48 16 0.36
49 26 0.59
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (48 bp):
CGCTAAAGAACACTACTTTTAGAGGCGTTTTTTCATAAGCGCCGCTAA
Found at i:68967596 original size:42 final size:42
Alignment explanation
Indices: 68967537--68967673 Score: 184
Period size: 43 Copynumber: 3.2 Consensus size: 42
68967527 GCGCCGCTAA
68967537 CGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAGCGC
1 CGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAGCGC
* * * *
68967579 CGCTAAAGAACATGATCTTTAGTGGCGTGTATTTCCTTAGCGC
1 CGCTAAAGAACATGATCTTTAGCGGCGT-TTTTTCATAAGCGC
* *
68967622 CGCTAAAGAACATGATCGTTAGCGGCGTTTTTTTCTGTAAGCGC
1 CGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTC-ATAAGCGC
*
68967666 CGCAAAAG
1 CGCTAAAG
68967674 TTAGCGACGT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
42 27 0.33
43 41 0.50
44 14 0.17
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (42 bp):
CGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAGCGC
Found at i:68967600 original size:91 final size:85
Alignment explanation
Indices: 68967440--68967673 Score: 217
Period size: 91 Copynumber: 2.7 Consensus size: 85
68967430 TTTGTGAAAC
* ** *
68967440 AAGCGCCGCTAAAGCACACT-A-CTTTTAGCGGCGTTTTTGAACAAGCGCCGCTAAAGAACACTA
1 AAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTCATAAGCGCCGCTAAAGAACACTA
*
68967503 CTTTTAGAGGCGT-TTTCTTCCA
64 CTTTTAGAGGCGTGTAT-TTCCA
68967525 AAGCGCCGCTAACGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAGCGCCGCTAAAGAAC
1 AA--G-CGC---CGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAGCGCCGCTAAAGAAC
* *
68967590 A-TGA-TCTTTAGTGGCGTGTATTTCCT
60 ACT-ACT-TTTAGAGGCGTGTATTTCCA
* * * *
68967616 TAGCGCCGCTAAAGAACATGATCGTTAGCGGCGTTTTTTTCTGTAAGCGCCGCAAAAG
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTC-ATAAGCGCCGCTAAAG
68967674 TTAGCGACGT
Statistics
Matches: 125, Mismatches: 11, Indels: 24
0.78 0.07 0.15
Matches are distributed among these distances:
85 28 0.22
86 7 0.06
87 15 0.12
88 6 0.05
89 1 0.01
90 3 0.02
91 62 0.50
92 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCATAAGCGCCGCTAAAGAACACTACT
TTTAGAGGCGTGTATTTCCA
Found at i:68968189 original size:10 final size:10
Alignment explanation
Indices: 68968165--68968194 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
68968155 TGTTGAAAAT
68968165 TTTAAATTATA
1 TTTAAATT-TA
68968176 TTTAAATTTA
1 TTTAAATTTA
68968186 TTTAAATTT
1 TTTAAATTT
68968195 GAAGTCAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTAAATTTA
Found at i:68969702 original size:30 final size:29
Alignment explanation
Indices: 68969632--68969700 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 29
68969622 ATAAAACACT
* *
68969632 AAAAATTTATTTTAAAAATAAAAAAATTTAA
1 AAAAATATATGTT-AAAATAAAAAAA-TTAA
*
68969663 AAAAATATATGTTAAAATTAAAAAA-TAA
1 AAAAATATATGTTAAAATAAAAAAATTAA
*
68969691 AAATATATAT
1 AAAAATATAT
68969701 ATTTATTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.35
30 11 0.32
31 11 0.32
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (29 bp):
AAAAATATATGTTAAAATAAAAAAATTAA
Found at i:68970578 original size:2 final size:2
Alignment explanation
Indices: 68970571--68970596 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
68970561 ACCAAAAATA
68970571 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
68970597 TAAAATTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68976440 original size:6 final size:6
Alignment explanation
Indices: 68976432--68976472 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
68976422 GAGGGACGAG
* * *
68976432 GGTGGG GGTGGC GGTGGC GGTGGC GGTGGC AGTGGC AGTGG
1 GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC GGTGG
68976473 GGTTTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.05, C:0.12, G:0.66, T:0.17
Consensus pattern (6 bp):
GGTGGC
Found at i:68976733 original size:21 final size:21
Alignment explanation
Indices: 68976709--68976751 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
68976699 TAAAATTAAG
68976709 ATCAAATTCAGAACATTTGTA
1 ATCAAATTCAGAACATTTGTA
68976730 ATCAAATTCAGAACATTTGTA
1 ATCAAATTCAGAACATTTGTA
68976751 A
1 A
68976752 ATTTTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (21 bp):
ATCAAATTCAGAACATTTGTA
Found at i:68977177 original size:12 final size:13
Alignment explanation
Indices: 68977155--68977185 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
68977145 TCATTCATTC
68977155 ATCAAGTTTTTCA
1 ATCAAGTTTTTCA
68977168 ATCAAG-TTTTCA
1 ATCAAGTTTTTCA
68977180 ATCAAG
1 ATCAAG
68977186 CCTTTTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (13 bp):
ATCAAGTTTTTCA
Found at i:68980824 original size:63 final size:63
Alignment explanation
Indices: 68980681--68980825 Score: 139
Period size: 63 Copynumber: 2.3 Consensus size: 63
68980671 CCTAAAAAAT
* * * ** * *** *
68980681 GTGTTGATGTAGGGAATAATTGTATGTGTTATGGTGCTTGTGTAAAATAAACTGGTGTTGAAT
1 GTGTTGATGCAAGGAATGATTACATGTGTTATGGTGCTTGTGTAAAATAAACCGGAACTGAAG
* * * *
68980744 GTGTTGATGTAATGAATGATTACATGTGTTGTGGTGGTTGTGTAAAATAAACCGGAACTGAAG
1 GTGTTGATGCAAGGAATGATTACATGTGTTATGGTGCTTGTGTAAAATAAACCGGAACTGAAG
*
68980807 GTGATT-ATGCAGGGAATGA
1 GTG-TTGATGCAAGGAATGA
68980826 GTGTGCGTGT
Statistics
Matches: 66, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
63 64 0.97
64 2 0.03
ACGTcount: A:0.29, C:0.05, G:0.31, T:0.35
Consensus pattern (63 bp):
GTGTTGATGCAAGGAATGATTACATGTGTTATGGTGCTTGTGTAAAATAAACCGGAACTGAAG
Found at i:68983973 original size:50 final size:50
Alignment explanation
Indices: 68983919--68984071 Score: 145
Period size: 50 Copynumber: 3.1 Consensus size: 50
68983909 CATTGTGGCC
68983919 TCAATCTTTTCAATTGTAATATCAGGGAAACCAGATCCGCCGTCGTAGCT
1 TCAATCTTTTCAATTGTAATATCAGGGAAACCAGATCCGCCGTCGTAGCT
* * * * * * * * * * * *
68983969 TCAATCTGTTCCACTGCACT-GCTA-AG-TA--AGATCTGTCGTTGTGGCT
1 TCAATCTTTTCAATTGTAATATC-AGGGAAACCAGATCCGCCGTCGTAGCT
*
68984015 ACAATCTTTTCAATTGTAATATCAGGGAAACCAGATCCGCCGTCGTAGCT
1 TCAATCTTTTCAATTGTAATATCAGGGAAACCAGATCCGCCGTCGTAGCT
68984065 TCAATCT
1 TCAATCT
68984072 GTTCCACTGC
Statistics
Matches: 71, Mismatches: 26, Indels: 12
0.65 0.24 0.11
Matches are distributed among these distances:
46 29 0.41
47 2 0.03
48 2 0.03
49 2 0.03
50 36 0.51
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (50 bp):
TCAATCTTTTCAATTGTAATATCAGGGAAACCAGATCCGCCGTCGTAGCT
Found at i:68984116 original size:96 final size:96
Alignment explanation
Indices: 68983843--68984116 Score: 395
Period size: 96 Copynumber: 2.8 Consensus size: 96
68983833 TGCCATGTTG
* * * * * ** *
68983843 GGGAAACCAGATCCGCCGTCGTAGGTTAAATCTATTCCGCCGCATCGTTAGGGAAATAAGATCTG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCA-C--T-GCTAAGTAAGATCTG
* *
68983908 CCATTGTGGCCTCAATCTTTTCAATTGTAATATCA
62 CCGTTGTGGCTTCAATCTTTTCAATTGTAATATCA
*
68983943 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGTAAGATCTGTCGT
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGTAAGATCTGCCGT
*
68984008 TGTGGCTACAATCTTTTCAATTGTAATATCA
66 TGTGGCTTCAATCTTTTCAATTGTAATATCA
68984039 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGTAAGATCTGCCGT
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGTAAGATCTGCCGT
*
68984104 TGTGGATTCAATC
66 TGTGGCTTCAATC
68984117 CTTTACTTTT
Statistics
Matches: 159, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
96 118 0.74
97 1 0.01
99 1 0.01
100 39 0.25
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.29
Consensus pattern (96 bp):
GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGTAAGATCTGCCGT
TGTGGCTTCAATCTTTTCAATTGTAATATCA
Found at i:68993414 original size:20 final size:20
Alignment explanation
Indices: 68993389--68993428 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
68993379 TAAAGGTCTT
*
68993389 TAATGCATATGATGTGATGC
1 TAATGCATATGATGCGATGC
68993409 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
68993429 ATGAGGTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (20 bp):
TAATGCATATGATGCGATGC
Found at i:68997177 original size:2 final size:2
Alignment explanation
Indices: 68997159--68997194 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
68997149 NNNNNNNNNG
* *
68997159 AT AT AT AC AT AT CT 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
68997195 GGAAAATGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:68997815 original size:53 final size:53
Alignment explanation
Indices: 68997754--68997855 Score: 204
Period size: 53 Copynumber: 1.9 Consensus size: 53
68997744 AAAAAAACTG
68997754 AAAAAACCCCTCTGCTAGGGTTTTGAACCCAGGCCGCCGCAACCCACCTCTGA
1 AAAAAACCCCTCTGCTAGGGTTTTGAACCCAGGCCGCCGCAACCCACCTCTGA
68997807 AAAAAACCCCTCTGCTAGGGTTTTGAACCCAGGCCGCCGCAACCCACCT
1 AAAAAACCCCTCTGCTAGGGTTTTGAACCCAGGCCGCCGCAACCCACCT
68997856 TCGCCTCAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.26, C:0.38, G:0.19, T:0.17
Consensus pattern (53 bp):
AAAAAACCCCTCTGCTAGGGTTTTGAACCCAGGCCGCCGCAACCCACCTCTGA
Found at i:68999379 original size:15 final size:16
Alignment explanation
Indices: 68999359--68999388 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
68999349 AAATTATAAC
68999359 GAAAAGAA-AAAATTT
1 GAAAAGAATAAAATTT
68999374 GAAAAGAATAAAATT
1 GAAAAGAATAAAATT
68999389 AATAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (16 bp):
GAAAAGAATAAAATTT
Found at i:68999422 original size:7 final size:7
Alignment explanation
Indices: 68999410--68999457 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
68999400 TGAGGATCGG
68999410 AAATTGA
1 AAATTGA
68999417 AAATTGA
1 AAATTGA
68999424 AAATTGA
1 AAATTGA
68999431 AAATTGA
1 AAATTGA
* *
68999438 AGATTTA
1 AAATTGA
* *
68999445 TAATAGA
1 AAATTGA
68999452 AAATTG
1 AAATTG
68999458 GAATTTGAGG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (7 bp):
AAATTGA
Found at i:68999453 original size:28 final size:28
Alignment explanation
Indices: 68999412--68999476 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
68999402 AGGATCGGAA
* *
68999412 ATTGAAAATTGAAAATTGAAAATTGAAG
1 ATTGATAATAGAAAATTGAAAATTGAAG
* * * *
68999440 ATTTATAATAGAAAATTGGAATTTGAGG
1 ATTGATAATAGAAAATTGAAAATTGAAG
68999468 ATTGATAAT
1 ATTGATAAT
68999477 TTAGGAAGGA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.34
Consensus pattern (28 bp):
ATTGATAATAGAAAATTGAAAATTGAAG
Found at i:69007530 original size:16 final size:17
Alignment explanation
Indices: 69007493--69007535 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
69007483 TAATTTATTA
69007493 AATAAAA-A-TGATCTT
1 AATAAAATATTGATCTT
69007508 AATTAAAATATTGAT-TT
1 AA-TAAAATATTGATCTT
69007525 AATAAAATATT
1 AATAAAATATT
69007536 TAAATTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 2 0.08
16 14 0.56
17 5 0.20
18 4 0.16
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (17 bp):
AATAAAATATTGATCTT
Found at i:69009291 original size:17 final size:17
Alignment explanation
Indices: 69009269--69009323 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
69009259 TTTATTTATT
69009269 TATTTATTTATTTTTGC
1 TATTTATTTATTTTTGC
*
69009286 TATTTATTTGTGTTTT-C
1 TATTTATTTAT-TTTTGC
*
69009303 -GTTTATATTA-TTTTGC
1 TATTTAT-TTATTTTTGC
69009319 TATTT
1 TATTT
69009324 TATGTGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
15 4 0.13
16 6 0.20
17 16 0.53
18 4 0.13
ACGTcount: A:0.16, C:0.05, G:0.09, T:0.69
Consensus pattern (17 bp):
TATTTATTTATTTTTGC
Found at i:69021286 original size:44 final size:44
Alignment explanation
Indices: 69021226--69021828 Score: 202
Period size: 44 Copynumber: 13.8 Consensus size: 44
69021216 TATCGCATCT
*
69021226 AGTCTTATCTCTCTGAAGTTACAGTGGAGCAGACT-AAGTAA-GCA
1 AGTCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTGAAG-AAGGCA
*
69021270 AGTCTTATCCTCCTGAAGTTGTAGT-GAGGCAGACTGAAGAAGGCA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACTGAAGAAGGCA
** * ** * ** **
69021315 AACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTAAAGTCGATA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTGAAGAAGGCA
* * * * * * * *
69021360 A-TCCTATCTCCCTAAAGTTGTAGTGGAACGGA-TTAA-AA-TCTT
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTGAAGAAGGC-A
* * * * * * *
69021402 GGATCTTATCTCTCTGAAGTTTCAG-AGAGCAGA-T--CGCA-TCT
1 AG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTGAAGAAGGCA
69021443 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAA-GCA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTGAAG-AAGGCA
* * *
69021487 AGTCTTATCCTCCTGAAGTTGTAGTGGGGCAGACTGAAGATGGCA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGGCA
** ** * ** **
69021532 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGATA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTGAAGAAGGCA
* * * * * * * *
69021577 A-TCCTATCTCCCTAAAGTTGTAGTGGAACGGA-TTAA-AA-TCTT
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTGAAGAAGGC-A
* * * * * * *
69021619 GGATCTTATCTCTCTGAAGTTGTAG-AGAGCAGA-T--CGCA-TCT
1 AG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTGAAGAAGGCA
*
69021660 AGTCTTATCTCCATGAAGTTGCAGTGGAGCAGACT-AAGTAA-GCG
1 AGTCTTATCTCC-TGAAGTTGCAGTGGAGCAGACTGAAG-AAGGCA
* * *
69021704 AGTCTTATCCTCCTGAAGTTTCCA-TGGGGCAGACT-AACTAA-GCA
1 AGTCTTAT-CTCCTGAAG-TTGCAGTGGAGCAGACTGAA-GAAGGCA
* * * *
69021748 AGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTAAAGATGACA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGGCA
* *
69021793 AATCTTATCTCCCTGACA-TTGCAGTGGAGTAGACTG
1 AGTCTTATCT-CCTGA-AGTTGCAGTGGAGCAGACTG
69021829 CAGCACTAAT
Statistics
Matches: 423, Mismatches: 98, Indels: 75
0.71 0.16 0.13
Matches are distributed among these distances:
39 1 0.00
40 38 0.09
41 19 0.04
42 8 0.02
43 28 0.07
44 209 0.49
45 117 0.28
46 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (44 bp):
AGTCTTATCTCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGGCA
Found at i:69021520 original size:217 final size:217
Alignment explanation
Indices: 69021140--69021779 Score: 1004
Period size: 217 Copynumber: 3.0 Consensus size: 217
69021130 TCCGTGGCCA
* * * * * * *
69021140 ATAATCCCATCTCTCTGAAGTTGCAATGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTAAAGTTGTAGTGGAACGGATTAAAATCTTGGATCTTATCTCTCTGAAGT
* * * *
69021205 TGCAGAGAGCATATCGCATCTAGTCTTATCTCTCTGAAGTTACAGTGGAGCAGACTAAGTAAGCA
66 TTCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
*
69021270 AGTCTTATCCTCCTGAAGTTGTAGTGAGGCAGACTGAAGAAGGCAAACCTTATCTCCCTGAAGTT
131 AGTCTTATCCTCCTGAAGTTGTAGTGGGGCAGACTGAAGAAGGCAAACCTTATCTCCCTGAAGTT
* *
69021335 GCAGTGGAGTAGGTTAAAGTCG
196 GCAGTGGAGCAGGTTAAAGCCG
69021357 ATAATCCTATCTCCCTAAAGTTGTAGTGGAACGGATTAAAATCTTGGATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTAAAGTTGTAGTGGAACGGATTAAAATCTTGGATCTTATCTCTCTGAAGT
69021422 TTCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
66 TTCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
*
69021487 AGTCTTATCCTCCTGAAGTTGTAGTGGGGCAGACTGAAGATGGCAAACCTTATCTCCCTGAAGTT
131 AGTCTTATCCTCCTGAAGTTGTAGTGGGGCAGACTGAAGAAGGCAAACCTTATCTCCCTGAAGTT
69021552 GCAGTGGAGCAGGTTAAAGCCG
196 GCAGTGGAGCAGGTTAAAGCCG
69021574 ATAATCCTATCTCCCTAAAGTTGTAGTGGAACGGATTAAAATCTTGGATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTAAAGTTGTAGTGGAACGGATTAAAATCTTGGATCTTATCTCTCTGAAGT
*
69021639 TGT-AGAGAGCAGATCGCATCTAGTCTTATCTCCATGAAGTTGCAGTGGAGCAGACTAAGTAAGC
66 T-TCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC
* * **
69021703 GAGTCTTATCCTCCTGAAGTT-TCCA-TGGGGCAGACT-AACTAA-GCAAGTCTTATC-CTCCTG
130 AAGTCTTATCCTCCTGAAGTTGT--AGTGGGGCAGACTGAA-GAAGGCAAACCTTATCTC-CCTG
*
69021763 AAGTTGCAGTGGGGCAG
191 AAGTTGCAGTGGAGCAG
69021780 ACTAAAGATG
Statistics
Matches: 396, Mismatches: 22, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
215 1 0.00
216 33 0.08
217 360 0.91
218 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (217 bp):
ATAATCCTATCTCCCTAAAGTTGTAGTGGAACGGATTAAAATCTTGGATCTTATCTCTCTGAAGT
TTCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
AGTCTTATCCTCCTGAAGTTGTAGTGGGGCAGACTGAAGAAGGCAAACCTTATCTCCCTGAAGTT
GCAGTGGAGCAGGTTAAAGCCG
Found at i:69022451 original size:3 final size:3
Alignment explanation
Indices: 69022443--69022473 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
69022433 GCTTGTTACC
69022443 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
69022474 TACATATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:69039420 original size:16 final size:16
Alignment explanation
Indices: 69039399--69039433 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
69039389 TGAATTACTG
* *
69039399 ATTACAGCTTTATTTT
1 ATTACAGCTCTATTCT
69039415 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCT
69039431 ATT
1 ATT
69039434 CCAATGAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (16 bp):
ATTACAGCTCTATTCT
Found at i:69040121 original size:22 final size:24
Alignment explanation
Indices: 69040096--69040145 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
69040086 AATACATCAA
69040096 ATTTATT-AAAAAATT-AAAAAAT
1 ATTTATTGAAAAAATTGAAAAAAT
* *
69040118 ATTT-TTGAACAAATTGAAAATAT
1 ATTTATTGAAAAAATTGAAAAAAT
69040141 ATTTA
1 ATTTA
69040146 GAAAATCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 2 0.09
22 11 0.48
23 10 0.43
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (24 bp):
ATTTATTGAAAAAATTGAAAAAAT
Done.