Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold320
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: 2598547
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 499 characters in sequence are not A, C, G, or T
File 1 of 17
Found at i:1266 original size:3 final size:3
Alignment explanation
Indices: 1258--1298 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1248 TCGCAAATGA
1258 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1299 CATCATCATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4019 original size:24 final size:23
Alignment explanation
Indices: 3991--4055 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 23
3981 TTTTAATAAG
3991 TTAATAATTCATATTATAT-TAATT
1 TTAATAATTCAT-TTATATGT-ATT
*
4015 TTAATACTTTCATTTATATGTATT
1 TTAATA-ATTCATTTATATGTATT
* *
4039 TTTATAATT-TTTTATAT
1 TTAATAATTCATTTATAT
4056 TATATTATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 7 0.20
23 2 0.06
24 20 0.57
25 6 0.17
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.60
Consensus pattern (23 bp):
TTAATAATTCATTTATATGTATT
Found at i:4488 original size:19 final size:19
Alignment explanation
Indices: 4464--4528 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
4454 TAGCCAAACT
4464 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
4483 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
4496 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
4517 TGTATCGATACA
1 TGTATCGATACA
4529 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:4500 original size:13 final size:13
Alignment explanation
Indices: 4482--4507 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4472 TACACAAAAT
4482 ATGTATCGATACA
1 ATGTATCGATACA
4495 ATGTATCGATACA
1 ATGTATCGATACA
4508 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4505 original size:32 final size:33
Alignment explanation
Indices: 4464--4528 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
4454 TAGCCAAACT
4464 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
4496 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
4529 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:8598 original size:15 final size:15
Alignment explanation
Indices: 8578--8608 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8568 AAAAATAGTC
*
8578 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
8593 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
8608 C
1 C
8609 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:10708 original size:13 final size:13
Alignment explanation
Indices: 10690--10727 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
10680 CATTTTTCTT
10690 TGTATCGATACAA
1 TGTATCGATACAA
*
10703 TGTATCGATACAC
1 TGTATCGATACAA
10716 TGTATCGATACA
1 TGTATCGATACA
10728 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:10882 original size:20 final size:20
Alignment explanation
Indices: 10839--10884 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
10829 AAATCTTTTG
10839 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
10860 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
10880 CAAAA
1 CAAAA
10885 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:18129 original size:53 final size:53
Alignment explanation
Indices: 18050--18186 Score: 215
Period size: 53 Copynumber: 2.6 Consensus size: 53
18040 TTAAGTTTGT
**
18050 GATC-AAATTTGGAGTGACTTGGTGTCACCGAGAGTGATGATGCCTTGGTGGC
1 GATCAAAATTTGGAGTGACTTGGTGTCACCGAGAGTGATGATGCCTCAGTGGC
* *
18102 GATCAAAATTTGGAGTGACTTGGTGTCACTGAGAGTGATGATGCCTCAGTGGT
1 GATCAAAATTTGGAGTGACTTGGTGTCACCGAGAGTGATGATGCCTCAGTGGC
18155 GATCAAAAATTT-GAGTGACTTGGTGTCACCGA
1 GATC-AAAATTTGGAGTGACTTGGTGTCACCGA
18187 TGCTTTGAGC
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
52 4 0.05
53 67 0.86
54 7 0.09
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.29
Consensus pattern (53 bp):
GATCAAAATTTGGAGTGACTTGGTGTCACCGAGAGTGATGATGCCTCAGTGGC
Found at i:23948 original size:13 final size:13
Alignment explanation
Indices: 23930--23955 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23920 ACAAAGATCC
23930 ATGTATCGATACA
1 ATGTATCGATACA
23943 ATGTATCGATACA
1 ATGTATCGATACA
23956 TTTGAGTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:24040 original size:21 final size:19
Alignment explanation
Indices: 23993--24047 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
23983 TGGCAGTAGC
23993 TTTGTATCGATACAACACT
1 TTTGTATCGATACAACACT
* **
24012 TATGTATCGATACAGTTACT
1 TTTGTATCGATACA-ACACT
24032 ATTTGTATCGATACAA
1 -TTTGTATCGATACAA
24048 ATTGTCGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACAACACT
Found at i:28537 original size:21 final size:20
Alignment explanation
Indices: 28500--28539 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
28490 AGTCTAATTT
* *
28500 AAATTTAATTTTTAAATATA
1 AAATTTAATATTAAAATATA
28520 AAATATTAATATTAAAATAT
1 AAAT-TTAATATTAAAATAT
28540 TTTTAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATTTAATATTAAAATATA
Found at i:28864 original size:18 final size:18
Alignment explanation
Indices: 28837--28876 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
28827 TTATTAATTT
*
28837 ATTTTTAATATAAATATA
1 ATTTTAAATATAAATATA
28855 ATTTTAAATATAAATATA
1 ATTTTAAATATAAATATA
28873 ATTT
1 ATTT
28877 AATAATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTTAAATATAAATATA
Found at i:28921 original size:13 final size:14
Alignment explanation
Indices: 28892--28933 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
28882 TTAATTATTA
*
28892 TTTATCATTAATAT
1 TTTATTATTAATAT
28906 TTT-TTATTAATAT
1 TTTATTATTAATAT
28919 TTTATTATTTAATAT
1 TTTATTA-TTAATAT
28934 AAATATACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 12 0.48
14 6 0.24
15 7 0.28
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTATTATTAATAT
Found at i:28954 original size:34 final size:35
Alignment explanation
Indices: 28861--28954 Score: 97
Period size: 34 Copynumber: 2.8 Consensus size: 35
28851 TATAATTTTA
* *
28861 AATATAAATATAATTTAATAATTA-ATTATTATTT
1 AATATAAATATAATTTATTAATTATTTTATTATTT
* **
28895 -ATCATTAATATTTTTTATTAA-TATTTTATTATTT
1 AAT-ATAAATATAATTTATTAATTATTTTATTATTT
*
28929 AATATAAATATACTTT-TTAATTATTT
1 AATATAAATATAATTTATTAATTATTT
28955 ATCGTTATAT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
33 8 0.17
34 38 0.79
35 2 0.04
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (35 bp):
AATATAAATATAATTTATTAATTATTTTATTATTT
Found at i:29102 original size:21 final size:22
Alignment explanation
Indices: 29067--29107 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
29057 ATTATAATCA
*
29067 TATTTTAATATAATATATTTAG
1 TATTTTAATAAAATATATTTAG
29089 TATTTTAA-AAAATATATTT
1 TATTTTAATAAAATATATTT
29108 GATTTAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TATTTTAATAAAATATATTTAG
Found at i:29199 original size:20 final size:21
Alignment explanation
Indices: 29154--29200 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
29144 TTAAAAGTTC
29154 AAATTTTATTAATTACAAATA
1 AAATTTTATTAATTACAAATA
*
29175 AAATTTTATTTATCTA-AAA-A
1 AAATTTTATTAAT-TACAAATA
29195 AAATTT
1 AAATTT
29201 CAACTTACCG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 15 0.62
22 2 0.08
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (21 bp):
AAATTTTATTAATTACAAATA
Found at i:29426 original size:22 final size:23
Alignment explanation
Indices: 29384--29440 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
29374 TTGCTTATGC
29384 AAAAAAATATTTATTAAAAAA-T
1 AAAAAAATATTTATTAAAAAAGT
* *
29406 AAAGAAATATTT-TTATGAAAAGT
1 AAAAAAATATTTATTA-AAAAAGT
*
29429 AAAAAAAAATTT
1 AAAAAAATATTT
29441 CTATACTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 15 0.52
23 11 0.38
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (23 bp):
AAAAAAATATTTATTAAAAAAGT
Found at i:29431 original size:23 final size:22
Alignment explanation
Indices: 29384--29440 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
29374 TTGCTTATGC
29384 AAAAAAATATTTATTAAAAAAT
1 AAAAAAATATTTATTAAAAAAT
* *
29406 AAAGAAATATTT-TTATGAAAAGT
1 AAAAAAATATTTATTA--AAAAAT
*
29429 AAAAAAAAATTT
1 AAAAAAATATTT
29441 CTATACTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 11 0.38
23 15 0.52
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (22 bp):
AAAAAAATATTTATTAAAAAAT
Found at i:30541 original size:14 final size:15
Alignment explanation
Indices: 30514--30542 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30504 ACAATTAATA
30514 ATTTAAAAATTATTT
1 ATTTAAAAATTATTT
30529 ATTTAAAAA-TATTT
1 ATTTAAAAATTATTT
30543 TAATATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTAAAAATTATTT
Found at i:30802 original size:15 final size:15
Alignment explanation
Indices: 30779--30809 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30769 GTTCTCACGG
30779 TGTTCGCACTACAAT
1 TGTTCGCACTACAAT
*
30794 TGTTGGCACTACAAT
1 TGTTCGCACTACAAT
30809 T
1 T
30810 TAATGCGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (15 bp):
TGTTCGCACTACAAT
Found at i:33670 original size:2 final size:2
Alignment explanation
Indices: 33663--33689 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33653 TTAATTGGCT
33663 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
33690 CTCTAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34238 original size:38 final size:38
Alignment explanation
Indices: 34196--34276 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
34186 ATGAGTTGTT
34196 GAAATCATGTTTCGAAGTGTATTCTTAAAAAAACCAAA
1 GAAATCATGTTTCGAAGTGTATTCTTAAAAAAACCAAA
*
34234 GAAATCATGTTTCGAAGTGTATTCTTAAGAAAACCAAA
1 GAAATCATGTTTCGAAGTGTATTCTTAAAAAAACCAAA
34272 GAAAT
1 GAAAT
34277 TTAAATAAGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.28
Consensus pattern (38 bp):
GAAATCATGTTTCGAAGTGTATTCTTAAAAAAACCAAA
Found at i:34966 original size:305 final size:305
Alignment explanation
Indices: 34415--35023 Score: 1065
Period size: 305 Copynumber: 2.0 Consensus size: 305
34405 ATATGACCAC
* *
34415 ATTCAAAACCTATAAAATGTTAAAGAAAATAAGAGTACAACTATTCAATAAGAATATTCCTTCAA
1 ATTCAAAACCTATAAAATGTTAAAGAAAATAAGAGTACAACTAGTCAACAAGAATATTCCTTCAA
* * * *
34480 TTGGGTTAAGCAAATTCAAAAACCTATTAGAAAAAAAATAGCTAAGTAAATAATAATGCTAAATT
66 TTGGATTAAACAAATTCAAAAACCTATTAGAAAAAAAATAACTAAGTAAATAATAATACTAAATT
* *
34545 CTAGGTAATCATATAATTATACATAATTTATCTCAAAATGATACATCATAATATATTTTAACAAA
131 CTAGGTAATCATATAATTATACATAATTTATCTCAAAAGGATACATCATAATATATTTTAAAAAA
*
34610 GATTTTATGCATTAATCTTTGAAATTTTTATATCCATTTACAAGCTATTGTCACTCATAACCTAG
196 GATTTTATGCATTAATCTTTGAAATTTATATATCCATTTACAAGCTATTGTCACTCATAACCTAG
*
34675 GTGACAAAGATTAGAATATATCAAAAGCAATCATTAGTTGTGTAT
261 GTGACAAAGATTAGAATATATAAAAAGCAATCATTAGTTGTGTAT
* *
34720 ATTCAAAACCTATAAAATGTTAAAGAAAATAAGAGTAGAACTAGTCAACAAGAATATTCCTTCAG
1 ATTCAAAACCTATAAAATGTTAAAGAAAATAAGAGTACAACTAGTCAACAAGAATATTCCTTCAA
* * *
34785 TTGGATTAAACAAGTTCAAAAACCTATTAGGAAAAAAATAACTAAGTAGATAATAATACTAAATT
66 TTGGATTAAACAAATTCAAAAACCTATTAGAAAAAAAATAACTAAGTAAATAATAATACTAAATT
*
34850 CTAGGTAATCATATAATTATATATAATTTATCTCAAAAGGATACATCATAATATATTTTAAAAAA
131 CTAGGTAATCATATAATTATACATAATTTATCTCAAAAGGATACATCATAATATATTTTAAAAAA
*
34915 GATTTTATGCATTAATCTTTGAAATTTATATATCTATTTACAAGCTATTGTCACTCATAACCTAG
196 GATTTTATGCATTAATCTTTGAAATTTATATATCCATTTACAAGCTATTGTCACTCATAACCTAG
34980 GTGACAAAGATTAGAATATATAAAAAGCAATCATTAGTTGTGTA
261 GTGACAAAGATTAGAATATATAAAAAGCAATCATTAGTTGTGTA
35024 CATCGAATAT
Statistics
Matches: 287, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
305 287 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (305 bp):
ATTCAAAACCTATAAAATGTTAAAGAAAATAAGAGTACAACTAGTCAACAAGAATATTCCTTCAA
TTGGATTAAACAAATTCAAAAACCTATTAGAAAAAAAATAACTAAGTAAATAATAATACTAAATT
CTAGGTAATCATATAATTATACATAATTTATCTCAAAAGGATACATCATAATATATTTTAAAAAA
GATTTTATGCATTAATCTTTGAAATTTATATATCCATTTACAAGCTATTGTCACTCATAACCTAG
GTGACAAAGATTAGAATATATAAAAAGCAATCATTAGTTGTGTAT
Found at i:35233 original size:18 final size:18
Alignment explanation
Indices: 35210--35245 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
35200 ACATTTTTTA
35210 TTTATAAATAAAACATAT
1 TTTATAAATAAAACATAT
* *
35228 TTTATACATAAAATATAT
1 TTTATAAATAAAACATAT
35246 CTAATGAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTATAAATAAAACATAT
Found at i:36836 original size:79 final size:79
Alignment explanation
Indices: 36722--37192 Score: 507
Period size: 79 Copynumber: 5.9 Consensus size: 79
36712 GATAAAAACG
* * ** *
36722 GGTTCGGAGTACCCCCTCAGAAAATAACAGGGTTGGAGTATCCCCAATGGTGAAAAATCAATGTT
1 GGTT-GGAGTATCCCCTCA-AAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTT
* *
36787 TTGGAAATAAAACTGG
64 TTAGAAATAAAACTGA
* * * *
36803 GGTTAGAGTGTCCCCTCAAAAATAACGGGGTTGGAGTATCTCCGATTATGAAAAATCGATGTTTT
1 GGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTT
*
36868 AGAAATAAAGCTGA
66 AGAAATAAAACTGA
* * * * * * *
36882 GGTTGGAGCATCCCCTCAAAAATGACTGGGTTGGAGTATCCCTGATTATAAAAAATTGATATTTT
1 GGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTT
* *
36947 AGAAA-AAAGCCGA
66 AGAAATAAAACTGA
* * * * * *
36960 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATAATGGAAAATGGGTGTTTT
1 GGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTT
* *
37025 GGAAAT-AAAGTCG-
66 AGAAATAAAACT-GA
* * * * *
37038 GGATTAGAGTATCCCCTCGAAAATAACAAGGTTGGAGTATCTCCGATTGTGAAAAATCGATGTTT
1 GG-TTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTT
**
37103 TAGAAATAAGGCTGA
65 TAGAAATAAAACTGA
* * ** * *
37118 GGTTGGAGTATCTCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATCGGTATTTT
1 GGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTT
37183 AGAAATAAAA
66 AGAAATAAAA
37193 ACATGAATGA
Statistics
Matches: 325, Mismatches: 60, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
78 69 0.21
79 237 0.73
80 15 0.05
81 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (79 bp):
GGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTT
AGAAATAAAACTGA
Found at i:36996 original size:157 final size:158
Alignment explanation
Indices: 36734--37191 Score: 510
Period size: 157 Copynumber: 2.9 Consensus size: 158
36724 TTCGGAGTAC
* * * ** * * * * *
36734 CCCCTCAGAAAATAACAGGGTTGGAGTATCCCCAATGGTGAAAAATCAATGTTTTGGAAATAAAA
1 CCCCTCA-AAAATAACAAGGTTGGAGTATCTCCGATTATAAAAAATCGATATTTTAGAAATAAAG
* * * * * * * *
36799 CTGGGGTTAGAGTGTCCCCTCAAAAATAACGGGGTTGGAGTATCTCCGATTATGAAAAATCGATG
65 CCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATAATGAAAAATCGGTG
*
36864 TTTTAGAAATAAAG-CTGAGG-TTGGAGCAT
130 TTTTAGAAATAAAGTC-G-GGATTAGAGCAT
* ** *
36893 CCCCTCAAAAATGACTGGGTTGGAGTATC-CCTGATTATAAAAAATTGATATTTTAGAAA-AAAG
1 CCCCTCAAAAATAACAAGGTTGGAGTATCTCC-GATTATAAAAAATCGATATTTTAGAAATAAAG
* *
36956 CCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATAATGGAAAATGGGTG
65 CCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATAATGAAAAATCGGTG
* *
37021 TTTTGGAAATAAAGTCGGGATTAGAGTAT
130 TTTTAGAAATAAAGTCGGGATTAGAGCAT
* * * * *
37050 CCCCTCGAAAATAACAAGGTTGGAGTATCTCCGATTGTGAAAAATCGATGTTTTAGAAATAAGGC
1 CCCCTCAAAAATAACAAGGTTGGAGTATCTCCGATTATAAAAAATCGATATTTTAGAAATAAAGC
* * * ** *
37115 TGAGGTTGGAGTATCTCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATCGGTAT
66 CGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATAATGAAAAATCGGTGT
37180 TTTAGAAATAAA
131 TTTAGAAATAAA
37192 AACATGAATG
Statistics
Matches: 252, Mismatches: 42, Indels: 11
0.83 0.14 0.04
Matches are distributed among these distances:
156 2 0.01
157 129 0.51
158 114 0.45
159 7 0.03
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (158 bp):
CCCCTCAAAAATAACAAGGTTGGAGTATCTCCGATTATAAAAAATCGATATTTTAGAAATAAAGC
CGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATAATGAAAAATCGGTGT
TTTAGAAATAAAGTCGGGATTAGAGCAT
Found at i:37154 original size:236 final size:238
Alignment explanation
Indices: 36722--37187 Score: 650
Period size: 236 Copynumber: 2.0 Consensus size: 238
36712 GATAAAAACG
**
36722 GGTTCGGAGTACCCCCTCAGAAAATAACAGGGTTGGAGTATCCCCAATGGTGAAAAATCAATGTT
1 GGTTCGGAGTACCCCCTCAGAAAATAACAGGGTTGGAGTATCCCCAATAATGAAAAATCAATGTT
* * **
36787 TTGGAAATAAAACTGGGGTTAGAGTGTCCCCTCAAAAATAACGGGGTTGGAGTATCTCCGATTAT
66 TTGGAAATAAAACTGGGATTAGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATCTCCGATTAT
* *
36852 GAAAAATCGATGTTTTAGAAATAAAGCTGAGGTTGGAGCATCCCCTCAAAAATGACTGGGTTGGA
131 GAAAAATCGATGTTTTAGAAATAAAGCTGAGGTTGGAGCATCCCCTCAAAAATAACAGGGTTGGA
* * *
36917 GTATCCCTGATTATAAAAAATTGATATTTTAGAAAAAAGCCGA
196 GTATCCCCGATGATAAAAAATCGATATTTTAGAAAAAAGCCGA
* * * * ***
36960 GGTT-GGAGTATCCCCTC-GAAAATAACGGGGTTGGAGTATCCCCGATAATGGAAAATGGGTGTT
1 GGTTCGGAGTACCCCCTCAGAAAATAACAGGGTTGGAGTATCCCCAATAATGAAAAATCAATGTT
* * *
37023 TTGGAAAT-AAAGTCGGGATTAGAGTATCCCCTCGAAAATAACAAGGTTGGAGTATCTCCGATTG
66 TTGGAAATAAAACT-GGGATTAGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATCTCCGATTA
* * * *
37087 TGAAAAATCGATGTTTTAGAAATAAGGCTGAGGTTGGAGTATCTCCTCGAAAATAACAGGGTTGG
130 TGAAAAATCGATGTTTTAGAAATAAAGCTGAGGTTGGAGCATCCCCTCAAAAATAACAGGGTTGG
* * *
37152 AGTATCCCCGATGGTGAAAAATCGGTATTTTAGAAA
195 AGTATCCCCGATGATAAAAAATCGATATTTTAGAAA
37188 TAAAAACATG
Statistics
Matches: 199, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
235 4 0.02
236 179 0.90
237 12 0.06
238 4 0.02
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.26
Consensus pattern (238 bp):
GGTTCGGAGTACCCCCTCAGAAAATAACAGGGTTGGAGTATCCCCAATAATGAAAAATCAATGTT
TTGGAAATAAAACTGGGATTAGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATCTCCGATTAT
GAAAAATCGATGTTTTAGAAATAAAGCTGAGGTTGGAGCATCCCCTCAAAAATAACAGGGTTGGA
GTATCCCCGATGATAAAAAATCGATATTTTAGAAAAAAGCCGA
Found at i:38019 original size:13 final size:14
Alignment explanation
Indices: 37987--38013 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37977 TCTTTCATTG
37987 GATTTTTCTAAAAC
1 GATTTTTCTAAAAC
38001 GATTTTTCTAAAA
1 GATTTTTCTAAAA
38014 TTTTTTAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (14 bp):
GATTTTTCTAAAAC
Found at i:43542 original size:12 final size:12
Alignment explanation
Indices: 43527--43568 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
43517 TGAAAAAGTA
43527 AAAAAAAAAAAC
1 AAAAAAAAAAAC
*
43539 AAAAACAAAAAC
1 AAAAAAAAAAAC
* *
43551 AAAAAAACACAC
1 AAAAAAAAAAAC
43563 AAAAAA
1 AAAAAA
43569 GTGCAAAAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:44973 original size:31 final size:31
Alignment explanation
Indices: 44836--45068 Score: 253
Period size: 31 Copynumber: 7.6 Consensus size: 31
44826 TCTTCAAATC
*
44836 TCTTTTC-TCAAAGTCCACGACTCCGTGGCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCA
* * * *
44866 TCTTTTCTTCCAAGTCCTCGATTCAGTGACA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCA
*
44897 TTTTTTTCTTCAAAGTCCACGACTCAGTGGCA
1 -TCTTTTCTTCAAAGTCCACGACTCAGTGGCA
* *
44929 TCTTGTTC-T-AAAGTCCACGACTCCGTGACA
1 TCTT-TTCTTCAAAGTCCACGACTCAGTGGCA
* * *
44959 TCTTTTCTTCAAAGTCCACGACTTAATGCCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCA
* *
44990 TCTCTTT-TT-TAAGTCCACGAGTCAGTGGCA
1 TCT-TTTCTTCAAAGTCCACGACTCAGTGGCA
*
45020 TCTTTTCTTCAAAGTCCACAACTCAGTGGCAA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGC-A
*
45052 TCTCTT-TTCAAAGTCCA
1 TCTTTTCTTCAAAGTCCA
45069 TAACTTCGTG
Statistics
Matches: 168, Mismatches: 26, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
29 6 0.04
30 52 0.31
31 72 0.43
32 38 0.23
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (31 bp):
TCTTTTCTTCAAAGTCCACGACTCAGTGGCA
Found at i:44992 original size:61 final size:60
Alignment explanation
Indices: 44836--45068 Score: 254
Period size: 61 Copynumber: 3.8 Consensus size: 60
44826 TCTTCAAATC
* * * *
44836 TCTTTTC-TCAAAGTCCACGACTCCGTGGCATCTTTTCTTCCAAGTCCTCGATTCAGTGACA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTC-T-AAAGTCCACGACTCAGTGACA
* *
44897 TTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTGTTCTAAAGTCCACGACTCCGTGACA
1 -TCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTT-TTCTAAAGTCCACGACTCAGTGACA
* * * * * * *
44959 TCTTTTCTTCAAAGTCCACGACTTAATGCCATCTCTTTTTTAAGTCCACGAGTCAGTGGCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGCATCT-TTTCTAAAGTCCACGACTCAGTGACA
*
45020 TCTTTTCTTCAAAGTCCACAACTCAGTGGCAATCTCTTT-TCAAAGTCCA
1 TCTTTTCTTCAAAGTCCACGACTCAGTGGC-ATCT-TTTCT-AAAGTCCA
45069 TAACTTCGTG
Statistics
Matches: 146, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
61 77 0.53
62 39 0.27
63 27 0.18
64 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (60 bp):
TCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTTCTAAAGTCCACGACTCAGTGACA
Found at i:45146 original size:34 final size:34
Alignment explanation
Indices: 44996--45375 Score: 322
Period size: 34 Copynumber: 11.7 Consensus size: 34
44986 GCCATCTCTT
* * *
44996 TTTTAAGTCCACGAGTCAGTGGCA-TC-TTTT-C
1 TTTTAAGTCCACAACTCCGTGGCACTCTTTTTCC
** * *
45027 TTCAAAGTCCACAACTCAGTGGCAATCTCTTTT-C
1 TTTTAAGTCCACAACTCCGTGGCACTCT-TTTTCC
* * * *
45061 ---AAAGTCCATAACTTCGTGGCAC-CATTTTTCT
1 TTTTAAGTCCACAACTCCGTGGCACTC-TTTTTCC
45092 TTTTAAAG-CCAACAACTCCGTGGCACTCTTTTTCC
1 TTTT-AAGTCC-ACAACTCCGTGGCACTCTTTTTCC
45127 TTTTAAGTCCACAACTCCGTGGCA--C-----CC
1 TTTTAAGTCCACAACTCCGTGGCACTCTTTTTCC
*
45154 TTTTAAG-CTCACAACTCCGTGGCACTCTTTTGCC
1 TTTTAAGTC-CACAACTCCGTGGCACTCTTTTTCC
* **
45188 TTTTAAGCCCACAACTCTATGGCACTCTTTTTCC
1 TTTTAAGTCCACAACTCCGTGGCACTCTTTTTCC
* * *
45222 TTTTAAGCCCACAACTCCATGGCATTCTTTTTCC
1 TTTTAAGTCCACAACTCCGTGGCACTCTTTTTCC
* * *
45256 TTTTAAGCCCACAACCCCGTGGAACTCTTTTTCC
1 TTTTAAGTCCACAACTCCGTGGCACTCTTTTTCC
* *
45290 GTTTAAGTCCACAATTCCGTGGCA--C-----CC
1 TTTTAAGTCCACAACTCCGTGGCACTCTTTTTCC
* *
45317 TTTTAAGCCCACAACTCCATGGCACTCTTTTTCC
1 TTTTAAGTCCACAACTCCGTGGCACTCTTTTTCC
45351 TTTTAAGTCCACAACTCCGTGGCAC
1 TTTTAAGTCCACAACTCCGTGGCAC
45376 ATTGGCACAT
Statistics
Matches: 288, Mismatches: 33, Indels: 53
0.77 0.09 0.14
Matches are distributed among these distances:
26 1 0.00
27 46 0.16
29 2 0.01
30 5 0.02
31 39 0.14
32 4 0.01
34 161 0.56
35 29 0.10
36 1 0.00
ACGTcount: A:0.22, C:0.32, G:0.13, T:0.34
Consensus pattern (34 bp):
TTTTAAGTCCACAACTCCGTGGCACTCTTTTTCC
Found at i:45155 original size:27 final size:27
Alignment explanation
Indices: 45125--45184 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 27
45115 CACTCTTTTT
45125 CCTTTTAAG-TCCACAACTCCGTGGCAC
1 CCTTTTAAGCT-CACAACTCCGTGGCAC
45152 CCTTTTAAGCTCACAACTCCGTGGCAC
1 CCTTTTAAGCTCACAACTCCGTGGCAC
*
45179 TCTTTT
1 CCTTTT
45185 GCCTTTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.32
Consensus pattern (27 bp):
CCTTTTAAGCTCACAACTCCGTGGCAC
Found at i:45175 original size:61 final size:61
Alignment explanation
Indices: 45092--45286 Score: 219
Period size: 61 Copynumber: 3.1 Consensus size: 61
45082 CCATTTTTCT
* *
45092 TTTTAAAGCCAACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCC
* * **
45154 TTTTAAGCTCACAACTCCGTGGCACTCTTTTGCCTTTTAAGCCCACAACTCTATGGCACTCTTTT
1 TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA--C----
45219 TCC
60 -CC
* * * * *
45222 TTTTAAGCCCACAACTCCATGGCATTCTTTTTCCTTTTAAGCCCACAACCCCGTGGAACTC
1 TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCC
45283 TTTT
1 TTTT
45287 TCCGTTTAAG
Statistics
Matches: 111, Mismatches: 15, Indels: 15
0.79 0.11 0.11
Matches are distributed among these distances:
61 53 0.48
62 4 0.04
63 1 0.01
66 1 0.01
68 52 0.47
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (61 bp):
TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCC
Found at i:45251 original size:129 final size:124
Alignment explanation
Indices: 45031--45375 Score: 338
Period size: 129 Copynumber: 2.7 Consensus size: 124
45021 CTTTTCTTCA
* * * * * * *
45031 AAGTCCACAACTCAGTGGCAATCTCTTTTCAAAGTCCATAACTTCGTGGCAC-CATTTTTCTTTT
1 AAGTCCACAACTCCGTGGC-A-CCCTTTT--AAGCCCACAACTCCATGGCACTC-TTTTTCCTTT
* * * *
45095 TAAAGCCAACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGG-CAC-CCTTTT
61 T-AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACCCCGTGGACACTCCGTTT
*
45158 AAG-CTCACAACTCCGTGGCACTCTTTTGCCTTTTAAGCCCACAACTCTATGGCACTCTTTTTCC
1 AAGTC-CACAACTCCGTGGCA--C-----CCTTTTAAGCCCACAACTCCATGGCACTCTTTTTCC
* * *
45222 TTTTAAGCCCACAACTCCATGGCATTCTTTTTCCTTTTAAGCCCACAACCCCGTGGAACTCTTTT
58 TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACCCCGTGG-ACAC----
45287 TCCGTTT
118 TCCGTTT
* *
45294 AAGTCCACAATTCCGTGGCACCCTTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGC
45359 CCACAACTCCGTGGCAC
66 CCACAACTCCGTGGCAC
45376 ATTGGCACAT
Statistics
Matches: 182, Mismatches: 20, Indels: 30
0.78 0.09 0.13
Matches are distributed among these distances:
126 2 0.01
127 18 0.10
129 104 0.57
130 26 0.14
131 3 0.02
132 5 0.03
134 1 0.01
136 22 0.12
137 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.33
Consensus pattern (124 bp):
AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGC
CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACCCCGTGGACACTCCGTTT
Found at i:45252 original size:95 final size:96
Alignment explanation
Indices: 45070--45245 Score: 257
Period size: 95 Copynumber: 1.8 Consensus size: 96
45060 CAAAGTCCAT
* * * * *
45070 AACTTCGTGGCACCATTTTTCTTTTTAAAGCCAACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
1 AACTCCGTGGCACCATTTTGCCTTTTAAAGCCAACAACTCCATGGCACTCTTTTTCCTTTTAAGC
*
45135 CCACAACTCCGTGGCACCCTTTTAAGCTCAC
66 CCACAACTCCATGGCACCCTTTTAAGCTCAC
* *
45166 AACTCCGTGGCACTC-TTTTGCCTTTT-AAGCCCACAACTCTATGGCACTCTTTTTCCTTTTAAG
1 AACTCCGTGGCAC-CATTTTGCCTTTTAAAGCCAACAACTCCATGGCACTCTTTTTCCTTTTAAG
45229 CCCACAACTCCATGGCA
65 CCCACAACTCCATGGCA
45246 TTCTTTTTCC
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
95 49 0.69
96 21 0.30
97 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.34
Consensus pattern (96 bp):
AACTCCGTGGCACCATTTTGCCTTTTAAAGCCAACAACTCCATGGCACTCTTTTTCCTTTTAAGC
CCACAACTCCATGGCACCCTTTTAAGCTCAC
Found at i:45329 original size:27 final size:27
Alignment explanation
Indices: 45291--45347 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
45281 TCTTTTTCCG
* * *
45291 TTTAAGTCCACAATTCCGTGGCACCCT
1 TTTAAGCCCACAACTCCATGGCACCCT
*
45318 TTTAAGCCCACAACTCCATGGCACTCT
1 TTTAAGCCCACAACTCCATGGCACCCT
45345 TTT
1 TTT
45348 TCCTTTTAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.33, G:0.12, T:0.32
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCATGGCACCCT
Found at i:45329 original size:61 final size:61
Alignment explanation
Indices: 45254--45375 Score: 199
Period size: 61 Copynumber: 2.0 Consensus size: 61
45244 CATTCTTTTT
* *
45254 CCTTTTAAGCCCACAACCCCGTGGAACTCTTTTTCCGTTTAAGTCCACAATTCCGTGGCAC
1 CCTTTTAAGCCCACAACCCCATGGAACTCTTTTTCCGTTTAAGTCCACAACTCCGTGGCAC
* * *
45315 CCTTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACCCCATGGAACTCTTTTTCCGTTTAAGTCCACAACTCCGTGGCAC
45376 ATTGGCACAT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.30
Consensus pattern (61 bp):
CCTTTTAAGCCCACAACCCCATGGAACTCTTTTTCCGTTTAAGTCCACAACTCCGTGGCAC
Found at i:45436 original size:39 final size:38
Alignment explanation
Indices: 45386--45624 Score: 136
Period size: 39 Copynumber: 5.7 Consensus size: 38
45376 ATTGGCACAT
* *
45386 TGGCATTGAATCAACACATTGGCACAAGCCTAATATCGC
1 TGGCCTTGAATCAGCACATTGGCACAAGCC-AATATCGC
* *
45425 TGGCCTTGAATCAGCATATTGGCACCTTCATATTTAGGACCAATGTCGC
1 TGGCCTTGAATCAGCACATTGGCA----C--A---A-G-CCAATATCGC
* *
45474 TGGTCTTGAATCAGCACATTGGCATAAGCCCAATATCGC
1 TGGCCTTGAATCAGCACATTGGCACAAG-CCAATATCGC
* * *
45513 TGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAAACCAATGTCGC
1 TGGCCTTGAATCAGCACATTGGCA--------C--AAGCCAATATCGC
* * **
45561 TGGCCTTGAATTAGCACATTGGCATAAGTCCAATATCAT
1 TGGCCTTGAATCAGCACATTGGCACAAG-CCAATATCGC
*
45600 TGGCCTTGAATCAGCATATTGGCAC
1 TGGCCTTGAATCAGCACATTGGCAC
45625 CTTCATCTTT
Statistics
Matches: 154, Mismatches: 24, Indels: 44
0.69 0.11 0.20
Matches are distributed among these distances:
38 2 0.01
39 82 0.53
40 1 0.01
43 2 0.01
45 1 0.01
48 32 0.21
49 32 0.21
50 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (38 bp):
TGGCCTTGAATCAGCACATTGGCACAAGCCAATATCGC
Found at i:45540 original size:88 final size:88
Alignment explanation
Indices: 45386--45673 Score: 391
Period size: 88 Copynumber: 3.3 Consensus size: 88
45376 ATTGGCACAT
* * *
45386 TGGCATTGAATCAACACATTGGCACAAGCCTAATATCGCTGGCCTTGAATCAGCATATTGGCACC
1 TGGCCTTGAATCAACACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
* *
45451 TTCATATTTAGGACCAATGTCGC
66 TTCATCTTTAAGACCAATGTCGC
* *
45474 TGGTCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
1 TGGCCTTGAATCAACACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
* * *
45539 TT-GTCTCTAAAACCAATGTCGC
66 TTCATCTTTAAGACCAATGTCGC
* * * **
45561 TGGCCTTGAATTAGCACATTGGCATAAGTCCAATATCATTGGCCTTGAATCAGCATATTGGCACC
1 TGGCCTTGAATCAACACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
* *
45626 TTCATCTTTAAGATCGATGTCG-
66 TTCATCTTTAAGACCAATGTCGC
*
45648 TCGGCCTTGAATCAACATATTGGCAT
1 T-GGCCTTGAATCAACACATTGGCAT
45674 CTTTAACATT
Statistics
Matches: 175, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
87 78 0.45
88 97 0.55
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (88 bp):
TGGCCTTGAATCAACACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
TTCATCTTTAAGACCAATGTCGC
Found at i:46576 original size:2 final size:2
Alignment explanation
Indices: 46571--46619 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
46561 ATGTCCACAA
* *
46571 AT AT AT AT AT A- AA AT AT AT A- AA 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
46611 AT AT AT AT A
1 AT AT AT AT A
46620 AAACTCTGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:59167 original size:2 final size:2
Alignment explanation
Indices: 59160--59190 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59150 TTATTTACTT
59160 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
59191 TATGAGAAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:60420 original size:15 final size:15
Alignment explanation
Indices: 60396--60436 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
60386 ATATGATATG
60396 TAAT-TTTTTAATTT
1 TAATATTTTTAATTT
60410 TAATATTTTTAATTT
1 TAATATTTTTAATTT
* *
60425 AAAAATTTTTAA
1 TAATATTTTTAA
60437 AAATGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TAATATTTTTAATTT
Found at i:62016 original size:2 final size:2
Alignment explanation
Indices: 62011--62044 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
62001 ACATACATAC
*
62011 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62045 TAAGTTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:64229 original size:2 final size:2
Alignment explanation
Indices: 64222--64258 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
64212 AAGAACAAGA
64222 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
64259 AAAGAACAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:65098 original size:17 final size:17
Alignment explanation
Indices: 65078--65113 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
65068 TTTTAAACAC
*
65078 AATACCAAAAAATATAT
1 AATACCAAAAAAAATAT
*
65095 AATACGAAAAAAAATAT
1 AATACCAAAAAAAATAT
65112 AA
1 AA
65114 ACATTACATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.19
Consensus pattern (17 bp):
AATACCAAAAAAAATAT
Found at i:65257 original size:24 final size:25
Alignment explanation
Indices: 65197--65254 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
65187 TAATTATCTA
* *
65197 AAATATATTATATATAATTATGATAT
1 AAATATATTA-ATATAAATACGATAT
*
65223 AAA-AAATTAATATAAATACGATAT
1 AAATATATTAATATAAATACGATAT
65247 AAATATAT
1 AAATATAT
65255 AATTTTTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 16 0.59
25 8 0.30
26 3 0.11
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (25 bp):
AAATATATTAATATAAATACGATAT
Found at i:65300 original size:28 final size:26
Alignment explanation
Indices: 65257--65312 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 26
65247 AAATATATAA
*
65257 TTTTTTTCTTTTCTTTTCCATTTATT
1 TTTTTTTCTTTTCTTTTCCATCTATT
*
65283 TTTTCTTTCTTATTCTTTTCTATCTATT
1 TTTT-TTTCTT-TTCTTTTCCATCTATT
65311 TT
1 TT
65313 AGTTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 4 0.15
27 6 0.23
28 16 0.62
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTTTTTCTTTTCTTTTCCATCTATT
Found at i:65902 original size:19 final size:20
Alignment explanation
Indices: 65874--65911 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
65864 TGTTTTTTCC
*
65874 AAATATAAAAATTA-AAATT
1 AAATAAAAAAATTATAAATT
65893 AAATAAAAAAATTATAAAT
1 AAATAAAAAAATTATAAAT
65912 ATTAGATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AAATAAAAAAATTATAAATT
Found at i:66723 original size:25 final size:24
Alignment explanation
Indices: 66695--66763 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
66685 TAATAAAAAC
66695 TAATATTTACAAATATT-TTAATA-AA
1 TAATATTTA-AAATATTATT--TAGAA
*
66720 TAATACTTAAAAATATTATTTAGAA
1 TAATA-TTTAAAATATTATTTAGAA
*
66745 TAATATTTAAAATAATATT
1 TAATATTTAAAATATTATT
66764 ACTTAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
24 14 0.37
25 19 0.50
26 5 0.13
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (24 bp):
TAATATTTAAAATATTATTTAGAA
Found at i:66751 original size:12 final size:12
Alignment explanation
Indices: 66690--66763 Score: 62
Period size: 12 Copynumber: 5.9 Consensus size: 12
66680 AAATTTAATA
66690 AAAACTAATATTT
1 AAAA-TAATATTT
66703 ACAAAT-AT-TTT
1 A-AAATAATATTT
*
66714 AATAAATAATACTTA
1 -A-AAATAATA-TTT
*
66729 AAAATATTATTT
1 AAAATAATATTT
*
66741 AGAATAATATTT
1 AAAATAATATTT
66753 AAAATAATATT
1 AAAATAATATT
66764 ACTTAAAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
11 3 0.06
12 29 0.59
13 11 0.22
14 4 0.08
15 2 0.04
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (12 bp):
AAAATAATATTT
Found at i:70478 original size:31 final size:31
Alignment explanation
Indices: 70411--70478 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
70401 TTGTTTTGAA
*
70411 AATTTCCTAGTCGCCAGCCAAATCCAAATTG
1 AATTTGCTAGTCGCCAGCCAAATCCAAATTG
* *
70442 AATTTGCTAGTCGCCAGTCAAATTCAAATTG
1 AATTTGCTAGTCGCCAGCCAAATCCAAATTG
70473 AATTTG
1 AATTTG
70479 GTCTATGTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (31 bp):
AATTTGCTAGTCGCCAGCCAAATCCAAATTG
Found at i:72803 original size:38 final size:37
Alignment explanation
Indices: 72761--72877 Score: 153
Period size: 38 Copynumber: 3.1 Consensus size: 37
72751 TAGCCGTCAG
* * *
72761 CCAAATCAAGATTGAATTTTCTAGTCGCCAATCACCAA
1 CCAAATCAA-ATTGAATTTGCTAGCCGCCAACCACCAA
**
72799 CCAAATCTAAATTGAATTTGCTAGCCGCCAACCGTCAA
1 CCAAATC-AAATTGAATTTGCTAGCCGCCAACCACCAA
*
72837 CCAAATGCAAATTGAATTTGCTAGCCACCAACCACCAA
1 CCAAAT-CAAATTGAATTTGCTAGCCGCCAACCACCAA
72875 CCA
1 CCA
72878 CCAACCAAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
38 66 0.96
39 3 0.04
ACGTcount: A:0.37, C:0.30, G:0.11, T:0.22
Consensus pattern (37 bp):
CCAAATCAAATTGAATTTGCTAGCCGCCAACCACCAA
Found at i:73886 original size:26 final size:26
Alignment explanation
Indices: 73856--73906 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
73846 AACCAGAATC
*
73856 TCACTCATTTATCTCTCAAAAATCTA
1 TCACTCACTTATCTCTCAAAAATCTA
73882 TCACTCACTTATCTCTCAAAAATCT
1 TCACTCACTTATCTCTCAAAAATCT
73907 TTTGTTATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.37
Consensus pattern (26 bp):
TCACTCACTTATCTCTCAAAAATCTA
Found at i:75440 original size:2 final size:2
Alignment explanation
Indices: 75433--75465 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
75423 TTTATATTTC
75433 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
75466 TATCATGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:78649 original size:13 final size:13
Alignment explanation
Indices: 78631--78655 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78621 ATATATCCAC
78631 ATAATTTTAACAT
1 ATAATTTTAACAT
78644 ATAATTTTAACA
1 ATAATTTTAACA
78656 AGATTCAGCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAATTTTAACAT
Found at i:80936 original size:13 final size:13
Alignment explanation
Indices: 80918--80953 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
80908 AATTATTTTA
80918 TACATATTATATT
1 TACATATTATATT
80931 TACATAATTATATT
1 TACAT-ATTATATT
80945 TA-ATATTAT
1 TACATATTAT
80954 TAAGTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.23
13 7 0.32
14 10 0.45
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (13 bp):
TACATATTATATT
Found at i:80940 original size:14 final size:14
Alignment explanation
Indices: 80907--80946 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
80897 TATCATATTT
*
80907 TAATTATTTTATACA
1 TAATTATATT-TACA
80922 T-ATTATATTTACA
1 TAATTATATTTACA
80935 TAATTATATTTA
1 TAATTATATTTA
80947 ATATTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 5 0.22
14 17 0.74
15 1 0.04
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (14 bp):
TAATTATATTTACA
Found at i:81859 original size:35 final size:35
Alignment explanation
Indices: 81789--81859 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 35
81779 CTTAGGAGTC
* *
81789 TTTCAATAGGTTTTTCAATTTTTTTATTGGGCTTAA
1 TTTCAAAAAGTTTTTCAA-TTTTTTATTGGGCTTAA
81825 TTTCAAAAAGTTTTTCAA-TTTTTATTGGGCCTTAA
1 TTTCAAAAAGTTTTTCAATTTTTTATTGGG-CTTAA
81860 GCCCAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
34 11 0.34
35 5 0.16
36 16 0.50
ACGTcount: A:0.25, C:0.10, G:0.13, T:0.52
Consensus pattern (35 bp):
TTTCAAAAAGTTTTTCAATTTTTTATTGGGCTTAA
Found at i:82096 original size:25 final size:23
Alignment explanation
Indices: 82058--82104 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
82048 TTGACTCAAT
82058 TCATTTTTCAATTTTATAATATATA
1 TCATTTTTCAA-TTTAT-ATATATA
82083 TCATTTTT-ATATTTATATATAT
1 TCATTTTTCA-ATTTATATATAT
82105 TATGTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.29
24 6 0.29
25 9 0.43
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (23 bp):
TCATTTTTCAATTTATATATATA
Found at i:83935 original size:21 final size:21
Alignment explanation
Indices: 83893--83937 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
83883 TGATAATTAA
* **
83893 AATCATCATAATTTAATTTTT
1 AATCATCAAAATTTAAAATTT
*
83914 AATCATTAAAATTTAAAATTT
1 AATCATCAAAATTTAAAATTT
83935 AAT
1 AAT
83938 ATTTTAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (21 bp):
AATCATCAAAATTTAAAATTT
Found at i:84630 original size:30 final size:31
Alignment explanation
Indices: 84595--84681 Score: 92
Period size: 30 Copynumber: 2.9 Consensus size: 31
84585 AAATATTAAA
*
84595 ATTTAATATTTATTTATATATTTAATTATTG
1 ATTTAATATTTATTTATATATTTAATAATTG
* *
84626 -TTTAAT-TTATATTTTTATATTTAAAAATTG
1 ATTTAATATT-TATTTATATATTTAATAATTG
* *
84656 ATTTAATA--AACTTATATATTTAATAA
1 ATTTAATATTTATTTATATATTTAATAA
84682 GTTTAGATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
29 16 0.35
30 24 0.52
31 6 0.13
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (31 bp):
ATTTAATATTTATTTATATATTTAATAATTG
Found at i:85899 original size:32 final size:32
Alignment explanation
Indices: 85852--85933 Score: 110
Period size: 32 Copynumber: 2.6 Consensus size: 32
85842 TAAAACTTTT
* * *
85852 TAATAATTATCAAATTTATAAGTAATTATATA
1 TAATATTTATTAAATTTATAAATAATTATATA
* * *
85884 TAATATTTATTAAATTTATAAATAATTTTGTT
1 TAATATTTATTAAATTTATAAATAATTATATA
85916 TAATATTTATTAAATTTA
1 TAATATTTATTAAATTTA
85934 CAATTAATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (32 bp):
TAATATTTATTAAATTTATAAATAATTATATA
Found at i:87074 original size:7 final size:7
Alignment explanation
Indices: 87062--87087 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
87052 ATAAATCAAA
87062 ATTATTT
1 ATTATTT
87069 ATTATTT
1 ATTATTT
87076 ATTATTT
1 ATTATTT
87083 ATTAT
1 ATTAT
87088 CTTTATCATA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
ATTATTT
Found at i:87188 original size:22 final size:21
Alignment explanation
Indices: 87156--87197 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
87146 GAGATAAAAA
* *
87156 AGTTATTATATTACAATAAAT
1 AGTTATTATATGAAAATAAAT
87177 AGTTATTAATATGAAAATAAA
1 AGTTATT-ATATGAAAATAAA
87198 AAATATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (21 bp):
AGTTATTATATGAAAATAAAT
Found at i:87529 original size:25 final size:27
Alignment explanation
Indices: 87481--87535 Score: 87
Period size: 25 Copynumber: 2.1 Consensus size: 27
87471 AATATATTTA
*
87481 AATAAAAATTATTATTTAGTATAATAT
1 AATAAAAATTAATATTTAGTATAATAT
87508 AATAAAAA-TAAT-TTTAGTATAATAT
1 AATAAAAATTAATATTTAGTATAATAT
87533 AAT
1 AAT
87536 TTTTAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 16 0.59
26 3 0.11
27 8 0.30
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (27 bp):
AATAAAAATTAATATTTAGTATAATAT
Found at i:89159 original size:13 final size:13
Alignment explanation
Indices: 89141--89170 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
89131 ATTATAATAT
89141 AATTAAATATTAA
1 AATTAAATATTAA
*
89154 AATTAAATATTAT
1 AATTAAATATTAA
89167 AATT
1 AATT
89171 TATTTTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATTAAATATTAA
Found at i:89609 original size:18 final size:20
Alignment explanation
Indices: 89572--89613 Score: 61
Period size: 18 Copynumber: 2.1 Consensus size: 20
89562 CAAATATCCA
89572 AATCAATAAATAGTAAAATTT
1 AATCAATAAATAG-AAAATTT
89593 AATCAA-AAATA-AAAATTT
1 AATCAATAAATAGAAAATTT
89611 AAT
1 AAT
89614 TGTAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.48
20 5 0.24
21 6 0.29
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (20 bp):
AATCAATAAATAGAAAATTT
Found at i:90544 original size:30 final size:32
Alignment explanation
Indices: 90510--90569 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
90500 ATTGTTACAT
* * *
90510 TTTATTTTATTTTTA-ATATTTT-TATATTTA
1 TTTATTTGATGTTTAGAAATTTTATATATTTA
90540 TTTATTTGATGTTTAGAAATTTTATATATT
1 TTTATTTGATGTTTAGAAATTTTATATATT
90570 AAATATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.52
31 6 0.24
32 6 0.24
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (32 bp):
TTTATTTGATGTTTAGAAATTTTATATATTTA
Found at i:90578 original size:15 final size:15
Alignment explanation
Indices: 90556--90596 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
90546 TGATGTTTAG
90556 AAAT-TTTATATATT
1 AAATATTTATATATT
*
90570 AAATATTTATAATTTT
1 AAATATTTAT-ATATT
90586 AAA-ATTTATAT
1 AAATATTTATAT
90597 TTACATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 6 0.25
15 11 0.46
16 7 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
AAATATTTATATATT
Found at i:91852 original size:6 final size:6
Alignment explanation
Indices: 91841--91871 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
91831 AATAAATTGT
91841 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA A
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA A
91872 CTAACTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTTA
Found at i:92955 original size:2 final size:2
Alignment explanation
Indices: 92942--92978 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
92932 TGGTTAGTAT
*
92942 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
92979 TTTTTTTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:95193 original size:2 final size:2
Alignment explanation
Indices: 95186--95213 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
95176 TGACTAGAGG
95186 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
95214 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:108368 original size:34 final size:34
Alignment explanation
Indices: 108330--108396 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
108320 AAATATCTTG
* * *
108330 CTCACCTAACATATTACCTAACACATCTAATATT
1 CTCACCAAACATATCACCTAACACACCTAATATT
* *
108364 CTCACCAAATATATCACCTAACATACCTAATAT
1 CTCACCAAACATATCACCTAACACACCTAATAT
108397 GCTTTACTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (34 bp):
CTCACCAAACATATCACCTAACACACCTAATATT
Found at i:109461 original size:21 final size:21
Alignment explanation
Indices: 109428--109473 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
109418 GATCAGCTTC
* *
109428 AGCTGAATTTCAGCTC-CTCCT
1 AGCTCAATATCAGCTCTCT-CT
109449 AGCTCAATATCAGCTCTCTCT
1 AGCTCAATATCAGCTCTCTCT
109470 AGCT
1 AGCT
109474 TCTTCTTCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.33
Consensus pattern (21 bp):
AGCTCAATATCAGCTCTCTCT
Found at i:109752 original size:19 final size:18
Alignment explanation
Indices: 109708--109754 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
109698 ATCTTCCTTG
109708 AAGAGAAAAAAAAAAAAA
1 AAGAGAAAAAAAAAAAAA
**
109726 AAGAAGAAAAAGAAAAACGA
1 AAG-AGAAAAA-AAAAAAAA
109746 AAGAGAAAA
1 AAGAGAAAA
109755 CGTTACTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.12
19 13 0.52
20 9 0.36
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (18 bp):
AAGAGAAAAAAAAAAAAA
Found at i:110892 original size:2 final size:2
Alignment explanation
Indices: 110885--110921 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
110875 TTCTAAAATA
110885 AT AT AT 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 AT AT AT A
110922 CACATTAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:111826 original size:18 final size:17
Alignment explanation
Indices: 111805--111846 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
111795 AAAATCTATA
111805 TTATAAT-TTAAATTAATT
1 TTATAATATTAAA-TAA-T
111823 TTATAAATATTAAATAAT
1 TTAT-AATATTAAATAAT
111841 TTATAA
1 TTATAA
111847 AAGTATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.09
18 9 0.41
19 6 0.27
20 5 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATAATATTAAATAAT
Found at i:112223 original size:27 final size:28
Alignment explanation
Indices: 112192--112250 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
112182 TTTAAGTTTA
112192 GGGATAATA-AAAATATGCCTAAATTTG
1 GGGATAATATAAAATATGCCTAAATTTG
112219 GGGATAATATAAAATATGCCTAAATTTG
1 GGGATAATATAAAATATGCCTAAATTTG
112247 GGGA
1 GGGA
112251 CCACATAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 9 0.29
28 22 0.71
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (28 bp):
GGGATAATATAAAATATGCCTAAATTTG
Found at i:112258 original size:28 final size:28
Alignment explanation
Indices: 112201--112258 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
112191 AGGGATAATA
* *
112201 AAAATATGCCTAAATTTGGGGATAATAT
1 AAAATATGCCTAAATTTGGGGACAACAT
*
112229 AAAATATGCCTAAATTTGGGGACCACAT
1 AAAATATGCCTAAATTTGGGGACAACAT
112257 AA
1 AA
112259 GTAATTAACC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (28 bp):
AAAATATGCCTAAATTTGGGGACAACAT
Found at i:113501 original size:18 final size:18
Alignment explanation
Indices: 113478--113512 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
113468 TTAACAATGC
113478 TTTTTTTCTTTTTCCAAG
1 TTTTTTTCTTTTTCCAAG
*
113496 TTTTTTTTTTTTTCCAA
1 TTTTTTTCTTTTTCCAA
113513 AATACGCTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.14, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTTTTCTTTTTCCAAG
Found at i:114059 original size:16 final size:16
Alignment explanation
Indices: 114010--114060 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
114000 AGTATGAATA
*
114010 TATTAATATATCAAAA
1 TATTAATATATCAAAT
114026 T-TTACATAATAT-AAAT
1 TATTA-AT-ATATCAAAT
114042 TATTAATATATCAAAT
1 TATTAATATATCAAAT
114058 TAT
1 TAT
114061 ATATAATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
15 7 0.23
16 16 0.53
17 7 0.23
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (16 bp):
TATTAATATATCAAAT
Found at i:114693 original size:26 final size:24
Alignment explanation
Indices: 114664--114724 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
114654 AAATTTAACA
114664 TTAATTTTTATATAAATTATAAATAT
1 TTAATTTTTAT-TAAATTAT-AATAT
* *
114690 TTAA-TTTTATTAACTTATATTAT
1 TTAATTTTTATTAAATTATAATAT
*
114713 TAAATTTTTATT
1 TTAATTTTTATT
114725 GTTAAAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 7 0.23
24 14 0.45
25 6 0.19
26 4 0.13
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
TTAATTTTTATTAAATTATAATAT
Found at i:114718 original size:23 final size:25
Alignment explanation
Indices: 114663--114720 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
114653 TAAATTTAAC
*
114663 ATTAATTTTTATATAAATTATAAAT
1 ATTAAATTTTATATAAATTATAAAT
* * *
114688 ATTTAATTTTAT-TAACTTAT-ATT
1 ATTAAATTTTATATAAATTATAAAT
114711 ATTAAATTTT
1 ATTAAATTTT
114721 TATTGTTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 11 0.39
24 7 0.25
25 10 0.36
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
ATTAAATTTTATATAAATTATAAAT
Found at i:120044 original size:76 final size:75
Alignment explanation
Indices: 119952--120198 Score: 255
Period size: 76 Copynumber: 3.3 Consensus size: 75
119942 ACTATTATCG
* *
119952 AAATAACCCTAATAGACATGTTACAACATGAAAGTTCTCATATGATCTTATACTCGATTGTAAGA
1 AAATAACCCTAATAGACATGTT-CAACATGAAAGTTCCCATATGATCTTATACTCGATTTTAAGA
120017 TATTTTTACCT
65 TATTTTTACCT
* * * * * * ** * * *
120028 AACTAACCCTAGTAGACATGCTTTAACATGAATGTTCCCACATGACCTTAGGCTTGATTTTGAGG
1 AAATAACCCTAATAGACATG-TTCAACATGAAAGTTCCCATATGATCTTATACTCGATTTTAAGA
* *
120093 TATTATTACCG
65 TATTTTTACCT
* * *
120104 AAATAAACCTAATAAACATGTTTCAACATG-AAGATTCCCATATGATCTTATACTCAATTTTAA-
1 AAATAACCCTAATAGACATG-TTCAACATGAAAG-TTCCCATATGATCTTATACTCGATTTTAAG
*
120167 AGTACTTTTACCT
64 A-TATTTTTACCT
*
120180 AAATACCCCTAATAGACAT
1 AAATAACCCTAATAGACAT
120199 ATTTTGATAG
Statistics
Matches: 132, Mismatches: 36, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
75 2 0.02
76 128 0.97
77 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (75 bp):
AAATAACCCTAATAGACATGTTCAACATGAAAGTTCCCATATGATCTTATACTCGATTTTAAGAT
ATTTTTACCT
Found at i:120228 original size:152 final size:152
Alignment explanation
Indices: 119924--120253 Score: 387
Period size: 152 Copynumber: 2.2 Consensus size: 152
119914 CACGTGGTTC
* * * * *
119924 TAAACTCGATTTTGAGGTACTATTATCGAAATAACCCTAATAGACATGTTACAACATGAAAGTTC
1 TAAACTTGATTTTGAGGTATTATTACCGAAATAAACCTAATAAACATGTTACAACATGAAAGTTC
* * * * * *
119989 TCATATGATCTTATACTCGATTGTAAGATATTTTTACCTAACTAACCCTAGTAGACATGCTTTAA
66 CCATATGATCTTATACTCAATTGTAAGATACTTTTACCTAAATAACCCTAATAGACATACTTTAA
* * *
120054 CATGAATGTTCCCACATGACCT
131 CATGAAAGATCCCACATAACCT
** *
120076 TAGGCTTGATTTTGAGGTATTATTACCGAAATAAACCTAATAAACATGTTTCAACATG-AAGATT
1 TAAACTTGATTTTGAGGTATTATTACCGAAATAAACCTAATAAACATGTTACAACATGAAAG-TT
* * *
120140 CCCATATGATCTTATACTCAATTTTAA-AGTACTTTTACCTAAATACCCCTAATAGACATATTTT
65 CCCATATGATCTTATACTCAATTGTAAGA-TACTTTTACCTAAATAACCCTAATAGACATACTTT
* * *
120204 GATA-GAAAAGATCCTACATAACCT
129 AACATG-AAAGATCCCACATAACCT
* *
120228 TAAACTTGATTTTAAGGCATTATTAC
1 TAAACTTGATTTTGAGGTATTATTAC
120254 TAAAATATCT
Statistics
Matches: 148, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
151 5 0.03
152 143 0.97
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (152 bp):
TAAACTTGATTTTGAGGTATTATTACCGAAATAAACCTAATAAACATGTTACAACATGAAAGTTC
CCATATGATCTTATACTCAATTGTAAGATACTTTTACCTAAATAACCCTAATAGACATACTTTAA
CATGAAAGATCCCACATAACCT
Found at i:120660 original size:20 final size:21
Alignment explanation
Indices: 120629--120672 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
120619 AATTTGTATT
*
120629 GATACAATAAGTGAATATATC
1 GATACAATAAGTAAATATATC
*
120650 GATAC-ATAAGTAAATGTATC
1 GATACAATAAGTAAATATATC
120670 GAT
1 GAT
120673 TCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.30
Consensus pattern (21 bp):
GATACAATAAGTAAATATATC
Found at i:120811 original size:51 final size:53
Alignment explanation
Indices: 120732--120855 Score: 171
Period size: 52 Copynumber: 2.4 Consensus size: 53
120722 TTTGGAATGA
* *
120732 AAATGTATTGATAAATTTTTATATTGTATCGATACATTCT-GGGTTTTGACCC
1 AAATGTATTGATACATTCTTATATTGTATCGATACATTCTAGGGTTTTGACCC
* * * *
120784 AAATGTATCGATACATTCTT-TATTGTATCGATCCATTCTAGGTTTTTGAGCC
1 AAATGTATTGATACATTCTTATATTGTATCGATACATTCTAGGGTTTTGACCC
*
120836 AAATATATTGATACATTCTT
1 AAATGTATTGATACATTCTT
120856 CAATGAATCG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 18 0.29
52 45 0.71
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.44
Consensus pattern (53 bp):
AAATGTATTGATACATTCTTATATTGTATCGATACATTCTAGGGTTTTGACCC
Found at i:120866 original size:52 final size:51
Alignment explanation
Indices: 120759--120868 Score: 139
Period size: 52 Copynumber: 2.1 Consensus size: 51
120749 TTTATATTGT
* * * *
120759 ATCGATACATTCTGGGTTTTGACCCAAATGTATCGATACATTCTTTATTGT
1 ATCGATACATTCTGGGTTTTGACCCAAATATATCGATACATTCTTCAATGA
* * * *
120810 ATCGATCCATTCTAGGTTTTTGAGCCAAATATATTGATACATTCTTCAATGA
1 ATCGATACATTCT-GGGTTTTGACCCAAATATATCGATACATTCTTCAATGA
120862 ATCGATA
1 ATCGATA
120869 TATGCAGGCA
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
51 12 0.24
52 37 0.76
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (51 bp):
ATCGATACATTCTGGGTTTTGACCCAAATATATCGATACATTCTTCAATGA
Found at i:126352 original size:157 final size:157
Alignment explanation
Indices: 126049--126419 Score: 383
Period size: 157 Copynumber: 2.4 Consensus size: 157
126039 CCATTGATGT
* * * * ** *
126049 TTTTATTTTTAAAATATTGATTTTCCACTATCGGGGATACTCCAACCCTGTTATTTTTGAAGTGA
1 TTTTATTTTCAAAATATTGATTTTTCACAATCGGGGATACTCCAACCCTATTATTTCCGAAGAGA
* *
126114 TACTATAACCCCGATTTTATTTTCAAAACACCGATTTTCTACCATCAGGATGCTCCAACCATGTT
66 TACTACAACCCCGATTTTATTTTCAAAACACCAATTTTCTACCATCAGGATGCTCCAACCATGTT
* * * *
126179 ATTTCTAAGGAGATACTCCAACTCCGA
131 ATTTCTAAAGAAATACTCCAACCCCAA
* * * *
126206 TTTTATTTTCAAAATATCGATTTTTCACAATCGGGGATACTCTAACTC-ATTATTTCCGAGGAGA
1 TTTTATTTTCAAAATATTGATTTTTCACAATCGGGGATACTCCAACCCTATTATTTCCGAAGAGA
* * * * * *
126270 TACTCCCACCCCGATTTTA-TTTCTAAAACACTAATTTT-TCACCATCGGGGATGCTCTAATC-T
66 TACTACAACCCCGATTTTATTTTC-AAAACACCAATTTTCT-ACCATC-AGGATGCTCCAACCAT
* *
126332 CGTTGTTT-TCAAAGAAATACTCTAACCCCAA
128 -GTTATTTCT-AAAGAAATACTCCAACCCCAA
* ** * * *
126363 TTTTATTTTCAAAATATTGATTTTTCATAATCAAGAATACTCCAGCCCTGTTATTTC
1 TTTTATTTTCAAAATATTGATTTTTCACAATCGGGGATACTCCAACCCTATTATTTC
126420 TAAGTGGATA
Statistics
Matches: 174, Mismatches: 34, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
155 5 0.03
156 47 0.27
157 115 0.66
158 7 0.04
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (157 bp):
TTTTATTTTCAAAATATTGATTTTTCACAATCGGGGATACTCCAACCCTATTATTTCCGAAGAGA
TACTACAACCCCGATTTTATTTTCAAAACACCAATTTTCTACCATCAGGATGCTCCAACCATGTT
ATTTCTAAAGAAATACTCCAACCCCAA
Found at i:126386 original size:79 final size:78
Alignment explanation
Indices: 126049--126389 Score: 287
Period size: 78 Copynumber: 4.3 Consensus size: 78
126039 CCATTGATGT
* * * * ** *
126049 TTTTATTTTTAAAATATTGATTTTCCACTATCGGGGATACTCCAACCCTGTTATTTTTGAAGTGA
1 TTTTATTTTCAAAATATTGATTTTTCACCATCGGGGATACTCCAACTC-GTTATTTTCAAAGAGA
**
126114 TACTATAACCCCGA
65 TACTCCAACCCCGA
* ** * * *
126128 TTTTATTTTCAAAACACCGA-TTTTCTACCATC-AGGATGCTCCAAC-CATGTTA-TTTCTAAGG
1 TTTTATTTTCAAAATATTGATTTTTC-ACCATCGGGGATACTCCAACTC--GTTATTTTC-AAAG
*
126189 AGATACTCCAACTCCGA
62 AGATACTCCAACCCCGA
* * * * * * *
126206 TTTTATTTTCAAAATATCGATTTTTCACAATCGGGGATACTCTAACTCATTATTTCCGAGGAGAT
1 TTTTATTTTCAAAATATTGATTTTTCACCATCGGGGATACTCCAACTCGTTATTTTCAAAGAGAT
*
126271 ACTCCCACCCCGA
66 ACTCCAACCCCGA
* * * * * * *
126284 TTTTA-TTTCTAAAACACTAATTTTTCACCATCGGGGATGCTCTAATCTCGTTGTTTTCAAAGAA
1 TTTTATTTTC-AAAATATTGATTTTTCACCATCGGGGATACTCCAA-CTCGTTATTTTCAAAGAG
* *
126348 ATACTCTAACCCCAA
64 ATACTCCAACCCCGA
126363 TTTTATTTTCAAAATATTGATTTTTCA
1 TTTTATTTTCAAAATATTGATTTTTCA
126390 TAATCAAGAA
Statistics
Matches: 208, Mismatches: 44, Indels: 20
0.76 0.16 0.07
Matches are distributed among these distances:
77 8 0.04
78 113 0.54
79 82 0.39
80 5 0.02
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (78 bp):
TTTTATTTTCAAAATATTGATTTTTCACCATCGGGGATACTCCAACTCGTTATTTTCAAAGAGAT
ACTCCAACCCCGA
Found at i:126508 original size:79 final size:79
Alignment explanation
Indices: 126425--126859 Score: 379
Period size: 79 Copynumber: 5.5 Consensus size: 79
126415 ATTTCTAAGT
* * * * *
126425 GGATACTCTAACTTCGTTATTTTCGAGGGGATACTCCAACCTCAATTTTATTTTTAAAACATCGA
1 GGATACTCCAACTCCGTTATTTTCGAGGGGATACTCCAACCCCAATTTTATTTCTAAAACACCGA
*
126490 -TTTTCTACAATTAG
66 TTTTTC-ACAATCAG
* ** * ** *
126504 GGATACTCCAA-TCTCATTATTTTTAAGCGGATACTCCAACCCCGGTTTTATTTCTAAAATACCG
1 GGATACTCCAACTC-CGTTATTTTCGAGGGGATACTCCAACCCCAATTTTATTTCTAAAACACCG
* *
126568 ATTTTTCACCATCAT
65 ATTTTTCACAATCAG
* * * *
126583 GGATACCCCAACTCCGTTATTTTCGAGGGGATACTTCAACCCCAATTTTATTTCTAAGACA-CTA
1 GGATACTCCAACTCCGTTATTTTCGAGGGGATACTCCAACCCCAATTTTATTTCTAAAACACCGA
* *
126647 ATTTTCAACAATCGG
66 TTTTTC-ACAATCAG
* * * *
126662 GGATACTCCAA-TACTGTTA-TTTCTGAGGGGGTACTCCAACCTCGATTTTATTT-TCAAAACAC
1 GGATACTCCAACT-CCGTTATTTTC-GAGGGGATACTCCAACCCCAATTTTATTTCT-AAAACAC
126724 CGATTTTTCACAATC-G
63 CGATTTTTCACAATCAG
* * * * * *
126740 GAGATACTCTAAC-CCTGTTATTTTCGAGGGGATACTTCAGCCCTAGTTTTATTTCTAAAACACT
1 G-GATACTCCAACTCC-GTTATTTTCGAGGGGATACTCCAACCCCAATTTTATTTCTAAAACACC
*
126804 GTTTTTTTCACAATC-G
64 G-ATTTTTCACAATCAG
* * * * *
126820 AGATACT--AACCCCATTATTTTCGAGCGGATACTCGAACCC
1 GGATACTCCAACTCCGTTATTTTCGAGGGGATACTCCAACCC
126860 TGTTTTTATC
Statistics
Matches: 285, Mismatches: 56, Indels: 32
0.76 0.15 0.09
Matches are distributed among these distances:
77 25 0.09
78 19 0.07
79 209 0.73
80 32 0.11
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (79 bp):
GGATACTCCAACTCCGTTATTTTCGAGGGGATACTCCAACCCCAATTTTATTTCTAAAACACCGA
TTTTTCACAATCAG
Found at i:126651 original size:158 final size:158
Alignment explanation
Indices: 126424--126803 Score: 464
Period size: 158 Copynumber: 2.4 Consensus size: 158
126414 TATTTCTAAG
* * * *
126424 TGGATACTCTAACTTCGTTATTTTCGAGGGGATACTCCAACCTCAATTTTATTTTTAAAACA-TC
1 TGGATACTCTAACTCCGTTATTTTCGAGGGGATACTTCAACCCCAATTTTATTTCTAAAACACTC
* * * * *
126488 GATTTTCTACAATTAGGGATACTCCAAT-CTCATTATTTTTAAGCGGATACTCCAACCCCGGTTT
66 AATTTTCAACAATCAGGGATACTCCAATACT-ATTATTTCTAAGCGGATACTCCAACCCCGATTT
* *
126552 TA-TTTCTAAAATACCGATTTTTCACCATC
130 TATTTTC-AAAACACCGATTTTTCACAATC
* * *
126581 ATGGATACCCCAACTCCGTTATTTTCGAGGGGATACTTCAACCCCAATTTTATTTCTAAGACACT
1 -TGGATACTCTAACTCCGTTATTTTCGAGGGGATACTTCAACCCCAATTTTATTTCTAAAACACT
* * * * * *
126646 -AATTTTCAACAATCGGGGATACTCCAATACTGTTATTTCTGAGGGGGTACTCCAACCTCGATTT
65 CAATTTTCAACAATCAGGGATACTCCAATACTATTATTTCTAAGCGGATACTCCAACCCCGATTT
126710 TATTTTCAAAACACCGATTTTTCACAATC
130 TATTTTCAAAACACCGATTTTTCACAATC
* * * *
126739 GGAGATACTCTAAC-CCTGTTATTTTCGAGGGGATACTTCAGCCCTAGTTTTATTTCTAAAACAC
1 TG-GATACTCTAACTCC-GTTATTTTCGAGGGGATACTTCAACCCCAATTTTATTTCTAAAACAC
126803 T
64 T
126804 GTTTTTTTCA
Statistics
Matches: 190, Mismatches: 27, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
157 3 0.02
158 180 0.95
159 7 0.04
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (158 bp):
TGGATACTCTAACTCCGTTATTTTCGAGGGGATACTTCAACCCCAATTTTATTTCTAAAACACTC
AATTTTCAACAATCAGGGATACTCCAATACTATTATTTCTAAGCGGATACTCCAACCCCGATTTT
ATTTTCAAAACACCGATTTTTCACAATC
Found at i:126670 original size:265 final size:264
Alignment explanation
Indices: 126190--126685 Score: 556
Period size: 265 Copynumber: 1.9 Consensus size: 264
126180 TTTCTAAGGA
* * * *
126190 GATACTCCAACTCCGATTTTATTTTCAAAATATCGATTTTTCACAATCGGGGATACTCTAACTCA
1 GATACTCCAACTCCAATTTTATTTTCAAAACATCGATTTTTCACAATCAGGGATACTCCAACTCA
* * * *
126255 TTATTTCCGAGGAGATACTCCCACCCCGATTTTATTTCTAAAACACTAATTTTTCACCATCGGGG
66 TTATTTCCAAGGAGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACCATCAGGG
* * * * * * *
126320 ATGCTCTAATCTCGTTGTTTTCAAAGAAATACTCTAACCCCAATTTTATTTTCAAAATATTGATT
131 ATACCCCAATCTCGTTATTTTCAAAGAAATACTCTAACCCCAATTTTATTTTCAAAACACTGAAT
* * *
126385 TTTCATAATCAAGAATACTCCAGCCCTGTTATTTCTAAGTGGATACTCTAACTTCGTTATTTTCG
196 TTTCACAATCAAGAATACTCCAACACTGTTATTTCTAAGTGGATACTCTAACTTCGTTATTTTCG
126450 AGGG
261 AGGG
* *
126454 GATACTCCAAC-CTCAATTTTATTTTTAAAACATCGA-TTTTCTACAATTAGGGATACTCCAATC
1 GATACTCCAACTC-CAATTTTATTTTCAAAACATCGATTTTTC-ACAATCAGGGATACTCCAA-C
** * * *
126517 TCATTATTTTTAAGCG-GATACTCCAACCCCGGTTTTATTTCTAAAATACCGATTTTTCACCATC
63 TCATTATTTCCAAG-GAGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACCATC
* * * ** *
126581 ATGGATACCCCAA-CTCCGTTATTTTCGAGGGGATACT-TCAACCCCAATTTTA-TTTCTAAGAC
127 AGGGATACCCCAATCT-CGTTATTTTCAAAGAAATACTCT-AACCCCAATTTTATTTTC-AAAAC
** * *
126643 ACT-AATTTTCAACAATCGGGGATACTCCAATACTGTTATTTCT
189 ACTGAATTTTC-ACAATCAAGAATACTCCAACACTGTTATTTCT
126686 GAGGGGGTAC
Statistics
Matches: 189, Mismatches: 35, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
263 6 0.03
264 60 0.32
265 122 0.65
266 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (264 bp):
GATACTCCAACTCCAATTTTATTTTCAAAACATCGATTTTTCACAATCAGGGATACTCCAACTCA
TTATTTCCAAGGAGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACCATCAGGG
ATACCCCAATCTCGTTATTTTCAAAGAAATACTCTAACCCCAATTTTATTTTCAAAACACTGAAT
TTTCACAATCAAGAATACTCCAACACTGTTATTTCTAAGTGGATACTCTAACTTCGTTATTTTCG
AGGG
Found at i:128066 original size:115 final size:114
Alignment explanation
Indices: 127890--128182 Score: 266
Period size: 115 Copynumber: 2.6 Consensus size: 114
127880 AAAATAACCT
* * * * * * * * *
127890 AAATGGCCATAAAATGCATGAAGTTGCA-AAATAATCCCTAAATCATGGAAAAA-GACCAAAATG
1 AAATGACCTTAAAATACATGAATTTGCATAAA-AGTCCATAATTCAT-GAAAAATAACTAAAATG
* * * * *
127953 ACCTTAAATGCATAAAATTACATAATGGTCCTTAGATCATGAAAAATGACTA
64 ACCTAAAATGCATAAAATTACAAAATGATCC-TAAACCATGAAAAATGACTA
* * * * *
128005 AAATGACCTTAAAATTCATGAATTTTCATTAAAGTCCATAATTTATGAAAAATAACTAAAATAGT
1 AAATGACCTTAAAATACATGAATTTGCATAAAAGTCCATAATTCATGAAAAATAACTAAAAT-GA
* * * *
128070 TCTAAAATGCATGAAATTACAAAATGATCCTAAACCATGGAAATTGACTA
65 CCTAAAATGCATAAAATTACAAAATGATCCTAAACCATGAAAAATGACTA
* * ** * * *
128120 AAATGGCTTTAAAATACATGAATTTGCATAAAAGTCTTTAATTCGTGGAAAATGACTAAAATG
1 AAATGACCTTAAAATACATGAATTTGCATAAAAGTCCATAATTCATGAAAAATAACTAAAATG
128183 GTTCTGAAAG
Statistics
Matches: 142, Mismatches: 33, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
114 7 0.05
115 107 0.75
116 28 0.20
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (114 bp):
AAATGACCTTAAAATACATGAATTTGCATAAAAGTCCATAATTCATGAAAAATAACTAAAATGAC
CTAAAATGCATAAAATTACAAAATGATCCTAAACCATGAAAAATGACTA
Found at i:128133 original size:57 final size:57
Alignment explanation
Indices: 127890--128183 Score: 193
Period size: 58 Copynumber: 5.1 Consensus size: 57
127880 AAAATAACCT
* * * * *
127890 AAATGGCCATAAAATGCATGAAGTTGCAAAATAATCCCTAAATCATGGAAAAAGACCA
1 AAATGGCCTTAAAATGCATGAAATTGCAAAATGAT-CCTAAATCATGGAAAATGACTA
* * * * * * *
127948 AAATGACCTT-AAATGCATAAAATTACATAATGGTCCTTAGATCATGAAAAATGACTA
1 AAATGGCCTTAAAATGCATGAAATTGCAAAATGATCC-TAAATCATGGAAAATGACTA
* * * * * * * *
128005 AAATGACCTTAAAATTCATGAATTTTCATTAAA-G-TCCATAATTTATGAAAAATAACTA
1 AAATGGCCTTAAAATGCATGAAATTGCA--AAATGATCC-TAAATCATGGAAAATGACTA
* * * * *
128063 AAATAG-TTCTAAAATGCATGAAATTACAAAATGATCCTAAACCATGGAAATTGACTA
1 AAATGGCCT-TAAAATGCATGAAATTGCAAAATGATCCTAAATCATGGAAAATGACTA
* * * * * * *
128120 AAATGGCTTTAAAATACATGAATTTGCATAAAAG-TCTTTAATTCGTGGAAAATGACTA
1 AAATGGCCTTAAAATGCATGAAATTGCA-AAATGATC-CTAAATCATGGAAAATGACTA
128178 AAATGG
1 AAATGG
128184 TTCTGAAAGG
Statistics
Matches: 182, Mismatches: 44, Indels: 20
0.74 0.18 0.08
Matches are distributed among these distances:
56 5 0.03
57 83 0.46
58 91 0.50
59 1 0.01
60 2 0.01
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (57 bp):
AAATGGCCTTAAAATGCATGAAATTGCAAAATGATCCTAAATCATGGAAAATGACTA
Found at i:128187 original size:115 final size:115
Alignment explanation
Indices: 127932--128297 Score: 335
Period size: 115 Copynumber: 3.2 Consensus size: 115
127922 AATCCCTAAA
* * ** * * * * *
127932 TCATGGAAAAAGACCAAAAT-GACCTTAAATGCATAAAATTACATAATGGTCCTTAGATCATGAA
1 TCATGGAAAATGACTAAAATGGTTCTAAAATGCATAAAATTACATAATGATCC-TAAACCATGGA
* * * * *
127996 AAATGACTAAAATGACCTTAAAATTCATGAATTTTCATTAAAGTCCA-TAAT
65 AATTGACTAAAATGACATTAAAATACATGAATTTGCATAAAAGT-CATTAAT
* * * * * *
128047 TTATGAAAAATAACTAAAATAGTTCTAAAATGCATGAAATTACAAAATGATCCTAAACCATGGAA
1 TCATGGAAAATGACTAAAATGGTTCTAAAATGCATAAAATTACATAATGATCCTAAACCATGGAA
* * *
128112 ATTGACTAAAATGGCTTTAAAATACATGAATTTGCATAAAAGTCTTTAAT
66 ATTGACTAAAATGACATTAAAATACATGAATTTGCATAAAAGTCATTAAT
* * * * * *
128162 TCGTGGAAAATGACTAAAATGGTTCTGAAAGGCATTAAATTGCATAAT-AGTCCTAAACCGTGGA
1 TCATGGAAAATGACTAAAATGGTTCTAAAATGCATAAAATTACATAATGA-TCCTAAACCATGGA
* ** * * *
128226 AATTTACTAAAATGACATTAAGGTATATGAA-ATGACATAAAAGTCATTAAG
65 AATTGACTAAAATGACATTAAAATACATGAATTTG-CATAAAAGTCATTAAT
* *
128277 TCATGGAGAATGATTAAAATG
1 TCATGGAAAATGACTAAAATG
128298 CATAAAAATC
Statistics
Matches: 203, Mismatches: 44, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
114 4 0.02
115 173 0.85
116 26 0.13
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (115 bp):
TCATGGAAAATGACTAAAATGGTTCTAAAATGCATAAAATTACATAATGATCCTAAACCATGGAA
ATTGACTAAAATGACATTAAAATACATGAATTTGCATAAAAGTCATTAAT
Found at i:128205 original size:58 final size:57
Alignment explanation
Indices: 128079--128239 Score: 155
Period size: 58 Copynumber: 2.8 Consensus size: 57
128069 TTCTAAAATG
* * * *
128079 CATGAAATTACA-AAATGATCCTAAACCATGGAAATTGACTAAAATGGCTTTAAAATA
1 CATGAAATTGCATAAAAG-TCCTAAACCGTGGAAATTGACTAAAATGGCTTTAAAAGA
* * ** * * *
128136 CATGAATTTGCATAAAAGTCTTTAATTCGTGGAAAATGACTAAAATGG-TTCTGAAAGG
1 CATGAAATTGCATAAAAGTC-CTAAACCGTGGAAATTGACTAAAATGGCTT-TAAAAGA
* * *
128194 CATTAAATTGCATAATAGTCCTAAACCGTGGAAATTTACTAAAATG
1 CATGAAATTGCATAAAAGTCCTAAACCGTGGAAATTGACTAAAATG
128240 ACATTAAGGT
Statistics
Matches: 82, Mismatches: 19, Indels: 6
0.77 0.18 0.06
Matches are distributed among these distances:
57 35 0.43
58 47 0.57
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (57 bp):
CATGAAATTGCATAAAAGTCCTAAACCGTGGAAATTGACTAAAATGGCTTTAAAAGA
Found at i:129675 original size:21 final size:22
Alignment explanation
Indices: 129650--129711 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
129640 ACAAAAACTA
129650 ACATTGTATCGATACAAA-GGC
1 ACATTGTATCGATACAAATGGC
*
129671 ACATTGCATCGATACAATATGGC
1 ACATTGTATCGATACAA-ATGGC
*
129694 -C-CTGTATCGATACAAATG
1 ACATTGTATCGATACAAATG
129712 CATGCTTTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 3 0.08
21 28 0.78
22 2 0.06
23 3 0.08
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (22 bp):
ACATTGTATCGATACAAATGGC
Found at i:130026 original size:19 final size:19
Alignment explanation
Indices: 130002--130069 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
129992 AATTCAACAA
130002 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
130021 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
130036 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
130053 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
130070 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:130041 original size:13 final size:13
Alignment explanation
Indices: 130023--130047 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
130013 ACATAAGTTT
130023 TGTATCGATACAA
1 TGTATCGATACAA
130036 TGTATCGATACA
1 TGTATCGATACA
130048 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:130045 original size:32 final size:32
Alignment explanation
Indices: 130004--130066 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
129994 TTCAACAATT
*
130004 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
130036 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
130067 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:130127 original size:13 final size:13
Alignment explanation
Indices: 130109--130134 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
130099 TATTTTTCTG
130109 TGTATCGATACAT
1 TGTATCGATACAT
130122 TGTATCGATACAT
1 TGTATCGATACAT
130135 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:132757 original size:52 final size:51
Alignment explanation
Indices: 132498--132885 Score: 216
Period size: 52 Copynumber: 7.4 Consensus size: 51
132488 AATTCTCCAC
* * * *
132498 AATCGGGGATATTCCAACTCCGATTTTATTT-TCAAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCT-AAAACACTAATTTTTTCT
* * * * *
132549 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTT-C--TAAAACACTAATTTTTTC-T
* * ** ** *
132604 AATCGGGGATACTCCAACCCCG-TTGATCATCGGGGATACTCCAAC-CCCATTATTTCT
1 AATCGGGGATACTCCAACCCCGATT--TTAT------TTCTAAAACACTAATTTTTTCT
* * * * * *
132661 GA--GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTTCGT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTTTC-T
* * * * *
132711 AATCGGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTTTC-T
* * * *
132763 AATCGGGGATACTTCAACCCCGGTTTTATTTTTGAAACACTAATTTTCCTT-T
1 AATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTT--TTCT
* * * *
132815 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAATATACCAA-TTTTTC-
1 AATCGGGGATACTCCAACCCCGATTTTATTTCTAAA-ACACTAATTTTTTCT
*
132865 ACAGTCGAGGATACTCCAACC
1 A-A-TCGGGGATACTCCAACC
132886 TCGTTATTTC
Statistics
Matches: 255, Mismatches: 58, Indels: 47
0.71 0.16 0.13
Matches are distributed among these distances:
48 4 0.02
49 7 0.03
50 5 0.02
51 31 0.12
52 127 0.50
53 5 0.02
54 19 0.07
55 39 0.15
56 4 0.02
57 1 0.00
58 8 0.03
59 3 0.01
61 1 0.00
62 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTTTCT
Found at i:132906 original size:28 final size:28
Alignment explanation
Indices: 132873--132944 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
132863 TCACAGTCGA
* * *
132873 GGATACTCCAACCTCGTTATTTCAC-CGG
1 GGATACTCCAACCCCGTTACTTC-CGAGG
132901 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCCGAGG
132929 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
132945 GCTTTATTCC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 1 0.03
28 39 0.98
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.22
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCCGAGG
Found at i:132964 original size:264 final size:263
Alignment explanation
Indices: 132493--132995 Score: 744
Period size: 264 Copynumber: 1.9 Consensus size: 263
132483 TTCTCAATTC
*
132493 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATATTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
*
132558 TACTCCAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
66 TACTCCAACTCCGATTTTATTTCC-AAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACC
* * *
132623 CCGTTGATCATCGGGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCGACTTTAT
130 CCGTTGATCACCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCGACTTTAT
* * * *
132688 TTCCAAAATATTGATTTTTTCGTAATCGGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTA
195 TCCCAAAATATTGA-TTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTA
132753 ATTTT
259 ATTTT
* ** *
132758 TCCACAATCGGGGATACTT-CAACCCCGGTTTTATTTTTGAAACACTAATTTTCCTTTAATCGGG
1 TCCACAATCGGGGATA-TTCCAACCCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGG
* * *
132822 GATACTCCAACTCCGATTTTATTTCC-AAATATACCAATTT-TTCACAGTCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* * *
132885 CTCGTT-ATTTCACCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTT
129 CCCGTTGA--TCACCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCGACTT
*
132949 TATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
192 TATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
132996 TTATTTTCGA
Statistics
Matches: 214, Mismatches: 20, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
262 1 0.00
263 52 0.24
264 78 0.36
265 45 0.21
266 38 0.18
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (263 bp):
TCCACAATCGGGGATATTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTGATCACCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
TTT
Found at i:133077 original size:78 final size:78
Alignment explanation
Indices: 132896--133098 Score: 232
Period size: 78 Copynumber: 2.6 Consensus size: 78
132886 TCGTTATTTC
* *
132896 ACCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAAT
1 ACCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATT-CCAAAAT
* *
132961 ATTGATTTCTCATA
65 ATCGATTTCTCACA
** * * *
132975 ATTGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTCTTT-TT-C-TAA
1 ACCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG--GCTTTATTCCAAAA
133037 TCATCGATTTCTCACA
64 T-ATCGATTTCTCACA
* * * *
133053 ACCGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACC
1 ACCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACC
133099 TCGTTATTAT
Statistics
Matches: 105, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
77 3 0.03
78 52 0.50
79 44 0.42
80 2 0.02
81 4 0.04
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.28
Consensus pattern (78 bp):
ACCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCAAAATA
TCGATTTCTCACA
Found at i:145534 original size:16 final size:16
Alignment explanation
Indices: 145513--145562 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
145503 CTTCTCTTCA
145513 AAAAAAAAAGCAAAAG
1 AAAAAAAAAGCAAAAG
* *
145529 AAAAAAAAAACAAAAA
1 AAAAAAAAAGCAAAAG
145545 AACAAAACAAAG-AAAAG
1 AA-AAAA-AAAGCAAAAG
145562 A
1 A
145563 GAGAAAAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 16 0.57
17 9 0.32
18 3 0.11
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGCAAAAG
Found at i:145534 original size:17 final size:17
Alignment explanation
Indices: 145512--145562 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
145502 CCTTCTCTTC
145512 AAAAAAAAAAGCAAAAG
1 AAAAAAAAAAGCAAAAG
145529 AAAAAAAAAA-CAAAA-
1 AAAAAAAAAAGCAAAAG
145544 AAACAAAACAAAG-AAAAG
1 AAA-AAAA-AAAGCAAAAG
145562 A
1 A
145563 GAGAAAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.10
16 9 0.30
17 17 0.57
18 1 0.03
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAGCAAAAG
Found at i:146602 original size:59 final size:57
Alignment explanation
Indices: 146445--147207 Score: 815
Period size: 59 Copynumber: 13.3 Consensus size: 57
146435 AAAGATGAAC
*** * **
146445 CAGTCCTCAAAGAGCAGGACACCTT-TC--AAAGCCCACGCAAGTTGGTGGCATTTT
1 CAGTCCTCAAAGAGCAGGACTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTT
* **
146499 CCAGTCCTCAGAGAGCAGGAC---ACCTCTTAAAGCCCACACAAGTTGGTGGCACCTT
1 -CAGTCCTCAAAGAGCAGGACTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTT
* *
146554 CAGTCCTCAAAGAGCGGGACATATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CAGTCCTCAAAGAGCAGGAC-T-TTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTT
*
146613 CAGTCCTCAAAGAGCGGGACGCTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CAGTCCTCAAAGAGCAGGA--CTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTT
*
146672 CAGTCCTCAAAGAGCAGGACACCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CAGTCCTCAAAGAGCAGG--ACTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTT
* *
146731 CAGTCCTCAAAGAGCGGGACGCTTTTTCCCTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CAGTCCTCAAAGAGCAGGA--CTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTT
*
146790 CAGTCCTCAAAGAGCAGGACACCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CAGTCCTCAAAGAGCAGG--ACTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTT
* * *
146849 CAGTCCTCAAAGAGCGGGACGTCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT
1 CAGTCCTCAAAGAGCAGGAC-T-TTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTT
* * *
146908 TAGTCCTCAAAGGGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCATT
1 CAGTCCTCAAAGAGCAGGA--CTTTTTCTCTT-AAAGCCCACACAAGTTGGTGGCACC-TT
* ***
146969 CAGTCCCCAAAGAGCAGGACCCCTT-TC--AAAGCCCACACAAGTTGGTGGCACCTTT
1 CAGTCCTCAAAGAGCAGGACTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACC-TT
* ** * **
147024 CAGTCCCCAAAGAGCAGGAC---ACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTT
1 CAGTCCTCAAAGAGCAGGACTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCA-CCTT
** **
147079 CAGTCCTCAAAGAGCAGGAC---ACCTCTTAAAGCCCATGCAAGTTGGTGGCACCTTT
1 CAGTCCTCAAAGAGCAGGACTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACC-TT
*** * *
147134 CAGTCCTCAAAGAGCAGGACGCCTT-TC--AAAGCCCACACGAGTTGGTGGCACTTTT
1 CAGTCCTCAAAGAGCAGGACTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCAC-CTT
* * *
147189 TACTCCTCAATGAGCAGGA
1 CAGTCCTCAAAGAGCAGGA
147208 TACACTTTAT
Statistics
Matches: 621, Mismatches: 56, Indels: 62
0.84 0.08 0.08
Matches are distributed among these distances:
53 3 0.00
54 18 0.03
55 222 0.36
57 5 0.01
58 1 0.00
59 324 0.52
60 26 0.04
61 22 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (57 bp):
CAGTCCTCAAAGAGCAGGACTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTT
Found at i:147023 original size:29 final size:29
Alignment explanation
Indices: 146937--147073 Score: 87
Period size: 26 Copynumber: 4.9 Consensus size: 29
146927 TGCTTTTTCT
146937 TTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTCAAAGCCCACACAAGTTGGTGGCACC
* * ** *
146966 ATTC--AGTCCC-CA-AAG-AGCAGGACCCC
1 TTTCAAAG-CCCACACAAGTTGGTGG-CACC
146992 TTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTCAAAGCCCACACAAGTTGGTGGCACC
* **
147021 TTTC--AGTCCC-CA-AAG-AGCAGGACACC
1 TTTCAAAG-CCCACACAAGTTGGTGG-CACC
*
147047 TTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTCAAAGCCCACACAAGTTGGTGGCA
147074 TTTTTCAGTC
Statistics
Matches: 77, Mismatches: 17, Indels: 28
0.63 0.14 0.23
Matches are distributed among these distances:
25 6 0.08
26 19 0.25
27 14 0.18
28 14 0.18
29 18 0.23
30 6 0.08
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.19
Consensus pattern (29 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACC
Found at i:148026 original size:19 final size:19
Alignment explanation
Indices: 148002--148069 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
147992 AATTCAACAA
148002 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
148021 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
148036 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
148053 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
148070 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:148041 original size:13 final size:13
Alignment explanation
Indices: 148023--148047 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
148013 ACATAAGTTT
148023 TGTATCGATACAA
1 TGTATCGATACAA
148036 TGTATCGATACA
1 TGTATCGATACA
148048 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:148045 original size:32 final size:32
Alignment explanation
Indices: 148004--148066 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
147994 TTCAACAATT
*
148004 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
148036 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
148067 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:148127 original size:13 final size:13
Alignment explanation
Indices: 148109--148134 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
148099 TATTTTTCTG
148109 TGTATCGATACAT
1 TGTATCGATACAT
148122 TGTATCGATACAT
1 TGTATCGATACAT
148135 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:150565 original size:51 final size:53
Alignment explanation
Indices: 150490--150621 Score: 162
Period size: 51 Copynumber: 2.5 Consensus size: 53
150480 AGTTTCTCAA
* * * * *
150490 TTCTCCACAATCAGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
150541 TT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC--AAAAACACCAAT
150596 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
150622 CCCGTTGATC
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
50 2 0.03
51 33 0.49
54 9 0.13
55 21 0.31
56 3 0.04
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:150790 original size:52 final size:51
Alignment explanation
Indices: 150702--150903 Score: 192
Period size: 52 Copynumber: 3.9 Consensus size: 51
150692 AAAATATTGA
* * * *
150702 TTTT-TTGCTAAAACACTAATTTTCTATAATCGGGGATATTCCAACCCCGG
1 TTTTATTGCTAAAACACCAATTTTTTACAATCGGGGATACTCCAACCCCGG
* *
150752 TTTTATTGCTAAAACACTAATTTTTTCACAATCGGGGATACTTCAACCCCGG
1 TTTTATTGCTAAAACACCAATTTTTT-ACAATCGGGGATACTCCAACCCCGG
** * * * *
150804 TTTTATTTTTGAAACACCAATTTTCCTT-TAATCGGGGATACTCCAACTCCGA
1 TTTTATTGCTAAAACACCAATTTT--TTACAATCGGGGATACTCCAACCCCGG
* * * * * *
150856 TTTTATTTCCAAAAATACCAATTTTTCACAGTCGAGGATACTCCAACC
1 TTTTA-TTGCTAAAACACCAATTTTTTACAATCGGGGATACTCCAACC
150904 TCGTTATTTC
Statistics
Matches: 124, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
50 4 0.03
51 21 0.17
52 83 0.67
53 14 0.11
54 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (51 bp):
TTTTATTGCTAAAACACCAATTTTTTACAATCGGGGATACTCCAACCCCGG
Found at i:150849 original size:104 final size:103
Alignment explanation
Indices: 150712--150903 Score: 251
Period size: 104 Copynumber: 1.9 Consensus size: 103
150702 TTTTTTGCTA
* * * * * *
150712 AAACACTAATTTTCTATAATCGGGGATATTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTT
1 AAACACCAATTTTCTATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAA-TTT
* *
150776 TTCACAATCGGGGATACTTCAACCCCGGTTTTATTTTTG
65 TTCACAATCGAGGATACTCCAACCCCGGTTTTATTTTTG
* * *
150815 AAACACCAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTT
1 AAACACCAATTTT-CTATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTT
*
150880 TTCACAGTCGAGGATACTCCAACC
65 TTCACAATCGAGGATACTCCAACC
150904 TCGTTATTTC
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
103 12 0.16
104 52 0.69
105 11 0.15
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (103 bp):
AAACACCAATTTTCTATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTT
TCACAATCGAGGATACTCCAACCCCGGTTTTATTTTTG
Found at i:150924 original size:28 final size:28
Alignment explanation
Indices: 150891--150962 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
150881 TCACAGTCGA
* * *
150891 GGATACTCCAACCTCGTTATTTCAC-CGG
1 GGATACTCCAACCCCGTTACTTC-CGAGG
150919 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCCGAGG
150947 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
150963 GCTTTATTCC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 1 0.03
28 39 0.98
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.22
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCCGAGG
Done.