Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 30 of 125
Found at i:8590441 original size:2 final size:2
Alignment explanation
Indices: 8590434--8590462 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8590424 CGCCAAAGAA
8590434 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 A
8590463 AGTACACGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8594666 original size:26 final size:26
Alignment explanation
Indices: 8594630--8594692 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
8594620 GTTACTCGAG
*
8594630 TCAA-CTCAAATAAGTAATTTGAGTT
1 TCAAGCTCAAATAAGTAATTCGAGTT
* *
8594655 TCGAGTTCAAATAAGTAATTCGAGTT
1 TCAAGCTCAAATAAGTAATTCGAGTT
8594681 TCAAGCTCAAAT
1 TCAAGCTCAAAT
8594693 CGAGTTGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 3 0.09
26 29 0.91
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (26 bp):
TCAAGCTCAAATAAGTAATTCGAGTT
Found at i:8594849 original size:19 final size:20
Alignment explanation
Indices: 8594804--8594856 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
8594794 TTACAAAAAA
8594804 AAAAATTCAAAATAATTTTC
1 AAAAATTCAAAATAATTTTC
8594824 AAAAATTCAAAATAATTTT-
1 AAAAATTCAAAATAATTTTC
*
8594843 TAAAATTCCAAAAT
1 AAAAATT-CAAAAT
8594857 TTATATCTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:8600415 original size:21 final size:21
Alignment explanation
Indices: 8600376--8600416 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8600366 CTAAATAGAG
*
8600376 TTTAAAATTCATAATTTATTT
1 TTTAAAATTCATAAATTATTT
8600397 TTTAAAATT-ATAAAATTATT
1 TTTAAAATTCAT-AAATTATT
8600417 AATTTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTAAAATTCATAAATTATTT
Found at i:8600811 original size:22 final size:22
Alignment explanation
Indices: 8600772--8600813 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8600762 TGTGTTTACG
* **
8600772 TTTTGAGGGTTTTTTTTTTAGT
1 TTTTCAGGGTTTAGTTTTTAGT
8600794 TTTTCAGGGTTTAGTTTTTA
1 TTTTCAGGGTTTAGTTTTTA
8600814 TCTTCATCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.12, C:0.02, G:0.21, T:0.64
Consensus pattern (22 bp):
TTTTCAGGGTTTAGTTTTTAGT
Found at i:8609070 original size:14 final size:15
Alignment explanation
Indices: 8609051--8609085 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
8609041 GTCAAAGTTG
*
8609051 TTTGTTTT-ATTAAT
1 TTTGTTTTGATTAAA
8609065 TTTGTTTTGATTAAA
1 TTTGTTTTGATTAAA
8609080 TTTGTT
1 TTTGTT
8609086 ATTTTTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (15 bp):
TTTGTTTTGATTAAA
Found at i:8614110 original size:19 final size:20
Alignment explanation
Indices: 8614073--8614110 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
8614063 GTTATTTTTC
*
8614073 TTATTTCATTTTGACTAAAA
1 TTATTTCATTTTAACTAAAA
*
8614093 TTATTT-ATTTTAAGTAAA
1 TTATTTCATTTTAACTAAA
8614111 TAGGGTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (20 bp):
TTATTTCATTTTAACTAAAA
Found at i:8616609 original size:25 final size:23
Alignment explanation
Indices: 8616568--8616613 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
8616558 CAAATTAGGG
8616568 AATTATTGTTTAGATTTAATTAT
1 AATTATTGTTTAGATTTAATTAT
*
8616591 AATTATTTTTTTAGAATTTAATT
1 AATTA-TTGTTTAG-ATTTAATT
8616614 TGGATCCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.59
Consensus pattern (23 bp):
AATTATTGTTTAGATTTAATTAT
Found at i:8620907 original size:21 final size:21
Alignment explanation
Indices: 8620881--8620921 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8620871 CTCTCCTTCC
* *
8620881 TCCTTGTGTTTCTTCTTTTTG
1 TCCTTGTGCTTCCTCTTTTTG
8620902 TCCTTGTGCTTCCTCTTTTT
1 TCCTTGTGCTTCCTCTTTTT
8620922 ATCATTCGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.24, G:0.12, T:0.63
Consensus pattern (21 bp):
TCCTTGTGCTTCCTCTTTTTG
Found at i:8626019 original size:11 final size:11
Alignment explanation
Indices: 8626012--8626048 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
8626002 TCATTTCTTA
8626012 TTTCTTTCTCT
1 TTTCTTTCTCT
8626023 TTTCTTTTCTCT
1 TTTC-TTTCTCT
*
8626035 TTTCTTCCTCT
1 TTTCTTTCTCT
8626046 TTT
1 TTT
8626049 AATCACACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTCTTTCTCT
Found at i:8626033 original size:12 final size:12
Alignment explanation
Indices: 8625976--8626040 Score: 64
Period size: 12 Copynumber: 5.5 Consensus size: 12
8625966 GCCTCTCATA
*
8625976 TTTCCTTTCTCT
1 TTTCTTTTCTCT
8625988 TTTCTTTT-TCT
1 TTTCTTTTCTCT
* *
8625999 CATTCATTTCT-T
1 -TTTCTTTTCTCT
8626011 ATTTC-TTTCTCT
1 -TTTCTTTTCTCT
8626023 TTTCTTTTCTCT
1 TTTCTTTTCTCT
8626035 TTTCTT
1 TTTCTT
8626041 CCTCTTTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
11 12 0.27
12 31 0.70
13 1 0.02
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTCTTTTCTCT
Found at i:8626455 original size:21 final size:21
Alignment explanation
Indices: 8626419--8626486 Score: 118
Period size: 21 Copynumber: 3.2 Consensus size: 21
8626409 ACCCATTAAG
8626419 CCCAAATTCTATTTAAACCAAA
1 CCCAAATTC-ATTTAAACCAAA
*
8626441 CCCACATTCATTTAAACCAAA
1 CCCAAATTCATTTAAACCAAA
8626462 CCCAAATTCATTTAAACCAAA
1 CCCAAATTCATTTAAACCAAA
8626483 CCCA
1 CCCA
8626487 TTTGAACCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
21 36 0.82
22 8 0.18
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (21 bp):
CCCAAATTCATTTAAACCAAA
Found at i:8626488 original size:15 final size:15
Alignment explanation
Indices: 8626470--8626499 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8626460 AACCCAAATT
8626470 CATTTAAACCAAACC
1 CATTTAAACCAAACC
*
8626485 CATTTGAACCAAACC
1 CATTTAAACCAAACC
8626500 AAATGAACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.20
Consensus pattern (15 bp):
CATTTAAACCAAACC
Found at i:8626589 original size:21 final size:21
Alignment explanation
Indices: 8626565--8626604 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8626555 GTTGATCGAC
8626565 GTTGACCGACCATTGACCGGT
1 GTTGACCGACCATTGACCGGT
** *
8626586 GTTGATTGACCGTTGACCG
1 GTTGACCGACCATTGACCG
8626605 TTGACTTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.25, G:0.30, T:0.28
Consensus pattern (21 bp):
GTTGACCGACCATTGACCGGT
Found at i:8626590 original size:31 final size:31
Alignment explanation
Indices: 8626536--8626604 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
8626526 AGTCAAACCA
*
8626536 TTGACCGACATTGACTGGCGTTGATCGA-CG
1 TTGACCGACATTGACCGGCGTTGATCGACCG
* *
8626566 TTGACCGACCATTGACCGGTGTTGATTGACCG
1 TTGACCGA-CATTGACCGGCGTTGATCGACCG
8626598 TTGACCG
1 TTGACCG
8626605 TTGACTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 8 0.24
31 17 0.50
32 9 0.26
ACGTcount: A:0.19, C:0.25, G:0.29, T:0.28
Consensus pattern (31 bp):
TTGACCGACATTGACCGGCGTTGATCGACCG
Found at i:8627669 original size:3 final size:3
Alignment explanation
Indices: 8627657--8627689 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
8627647 TATTCTATTC
*
8627657 TAT T-T TAT TAT TAT TAC TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
8627690 TTGGGATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8632931 original size:11 final size:11
Alignment explanation
Indices: 8632911--8632985 Score: 71
Period size: 11 Copynumber: 6.5 Consensus size: 11
8632901 AAGCCTCTCA
*
8632911 TCTTTCCTTTC
1 TCTTTTCTTTC
8632922 TCTTTTCTTTC
1 TCTTTTCTTTC
*
8632933 TCTCATTCATTTC
1 TCT-TTTC-TTTC
8632946 T-TATTTCTTTC
1 TCT-TTTCTTTC
8632957 TCTTTTCTTTTC
1 TCTTTTC-TTTC
* *
8632969 TATTTTCTTCC
1 TCTTTTCTTTC
8632980 TCTTTT
1 TCTTTT
8632986 AATCACACTT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
11 30 0.57
12 18 0.34
13 5 0.09
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.68
Consensus pattern (11 bp):
TCTTTTCTTTC
Found at i:8633416 original size:21 final size:21
Alignment explanation
Indices: 8633356--8633423 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
8633346 ACCCATTAAG
*
8633356 CCCAAATTCTATTTAAACCAAA
1 CCCAAATTC-ATTTAAACTAAA
*
8633378 CCCACATTCATTTAAACTAAA
1 CCCAAATTCATTTAAACTAAA
*
8633399 CCCAAATTCATTTAAACTAAT
1 CCCAAATTCATTTAAACTAAA
8633420 CCCA
1 CCCA
8633424 TTTGAACCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 34 0.81
22 8 0.19
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.28
Consensus pattern (21 bp):
CCCAAATTCATTTAAACTAAA
Found at i:8633519 original size:21 final size:21
Alignment explanation
Indices: 8633493--8633538 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
8633483 TTGACTGGTG
8633493 TTGACCGATGTTGACTGACCA
1 TTGACCGATGTTGACTGACCA
* * *
8633514 TTGACCGGTGTTGATTGACCG
1 TTGACCGATGTTGACTGACCA
8633535 TTGA
1 TTGA
8633539 TCGTTGACCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (21 bp):
TTGACCGATGTTGACTGACCA
Found at i:8633538 original size:7 final size:7
Alignment explanation
Indices: 8633528--8633600 Score: 78
Period size: 7 Copynumber: 10.7 Consensus size: 7
8633518 CCGGTGTTGA
8633528 TTGACCG
1 TTGACCG
*
8633535 TTGATCG
1 TTGACCG
8633542 TTGACCG
1 TTGACCG
*
8633549 TTGACTG
1 TTGACCG
*
8633556 TTGA-CT
1 TTGACCG
8633562 TTGACCG
1 TTGACCG
*
8633569 TTGACTG
1 TTGACCG
*
8633576 TTGA-CT
1 TTGACCG
*
8633582 TTGATCG
1 TTGACCG
8633589 TTGACCG
1 TTGACCG
8633596 TTGAC
1 TTGAC
8633601 TTTTTCGAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
6 8 0.15
7 45 0.85
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.38
Consensus pattern (7 bp):
TTGACCG
Found at i:8633567 original size:20 final size:20
Alignment explanation
Indices: 8633528--8633603 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
8633518 CCGGTGTTGA
*
8633528 TTGACCGTTGATCGTTGACCG
1 TTGACCGTTGA-CTTTGACCG
*
8633549 TTGACTGTTGACTTTGACCG
1 TTGACCGTTGACTTTGACCG
* *
8633569 TTGACTGTTGACTTTGATCG
1 TTGACCGTTGACTTTGACCG
8633589 TTGACCGTTGACTTT
1 TTGACCGTTGACTTT
8633604 TTCGAAAAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
20 41 0.80
21 10 0.20
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.41
Consensus pattern (20 bp):
TTGACCGTTGACTTTGACCG
Found at i:8633601 original size:27 final size:27
Alignment explanation
Indices: 8633528--8633601 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
8633518 CCGGTGTTGA
* *
8633528 TTGACCGTTGATCGTTGACCGTTGACTG
1 TTGA-CGTTGACCGTTGACTGTTGACTG
*
8633556 TTGACTTTGACCGTTGACTGTTGACT-
1 TTGACGTTGACCGTTGACTGTTGACTG
8633582 TTGATCGTTGACCGTTGACT
1 TTGA-CGTTGACCGTTGACT
8633602 TTTTCGAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
26 4 0.10
27 33 0.80
28 4 0.10
ACGTcount: A:0.15, C:0.20, G:0.26, T:0.39
Consensus pattern (27 bp):
TTGACGTTGACCGTTGACTGTTGACTG
Found at i:8634661 original size:3 final size:3
Alignment explanation
Indices: 8634649--8634699 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
8634639 TATTCTATTC
*
8634649 TAT T-T TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8634696 TAT T
1 TAT T
8634700 TTGGGATGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8649167 original size:185 final size:184
Alignment explanation
Indices: 8648842--8649208 Score: 562
Period size: 185 Copynumber: 2.0 Consensus size: 184
8648832 AATTTGTGGT
8648842 CCCCTCCCTATTAATCACATTCTCTAGTTCAGTCAACTAAATAATTCCCTTTTCAAAGCCCCCAA
1 CCCCTCCCTATTAATCACATTCTCTAGTTCAGTCAACTAAATAATTCCCTTTTCAAAGCCCCCAA
* * *
8648907 ATCCTCATAGTCACCAATCGATTTTTTGGAGAAATAATAATAATCAATCCGCAAAAATCTTTACC
66 ATCCTCATAGTCACCAAGCCATTTTTTGGAGAAATAATAACAATCAATCCGCAAAAATCTTTACC
* *
8648972 CAATAAATCAGATTCCATATTCAAATTTGGTATCTCTACTGTTAGCTTGCAAGA
131 CAATAAATCAGATTCCATATCCAAATTTAGTATCTCTACTGTTAGCTTGCAAGA
* * *
8649026 CCCCTCTCTATTAATCACATTTTCCT-GTTTAGTCAACTAAATAATTCCCTTTTCAAAGCCCCTC
1 CCCCTCCCTATTAATCACATTCT-CTAGTTCAGTCAACTAAATAATTCCCTTTTCAAAGCCCC-C
* *
8649090 AAATCCTCATAGTCACC-AGCCATTTTTTTGGAGAAA-CATCAACAATCAAAT-CGCAAGAATCT
64 AAATCCTCATAGTCACCAAGCCA-TTTTTTGGAGAAATAAT-AACAATC-AATCCGCAAAAATCT
*
8649152 TTACCCAATAAATCAGATTCCATATCCGAATTTAGTATCTCTACTGTTAGCTTGCAA
126 TTACCCAATAAATCAGATTCCATATCCAAATTTAGTATCTCTACTGTTAGCTTGCAA
8649209 TCCTTTTCAT
Statistics
Matches: 167, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
184 61 0.37
185 103 0.62
186 3 0.02
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.32
Consensus pattern (184 bp):
CCCCTCCCTATTAATCACATTCTCTAGTTCAGTCAACTAAATAATTCCCTTTTCAAAGCCCCCAA
ATCCTCATAGTCACCAAGCCATTTTTTGGAGAAATAATAACAATCAATCCGCAAAAATCTTTACC
CAATAAATCAGATTCCATATCCAAATTTAGTATCTCTACTGTTAGCTTGCAAGA
Found at i:8653875 original size:6 final size:6
Alignment explanation
Indices: 8653864--8653891 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
8653854 TTATAAAAAA
8653864 TTATAT TTATAT TTATAT TTATAT TTAT
1 TTATAT TTATAT TTATAT TTATAT TTAT
8653892 TTTTTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTATAT
Found at i:8654759 original size:23 final size:24
Alignment explanation
Indices: 8654731--8654781 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
8654721 CCACTGTCAT
*
8654731 ACCACTGTTAGCCAC-CCCATCAA
1 ACCACTGATAGCCACTCCCATCAA
* *
8654754 ACCACTGATAGCCTCTGCCATCAA
1 ACCACTGATAGCCACTCCCATCAA
8654778 ACCA
1 ACCA
8654782 TCGTCTATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.31, C:0.41, G:0.10, T:0.18
Consensus pattern (24 bp):
ACCACTGATAGCCACTCCCATCAA
Found at i:8656550 original size:13 final size:13
Alignment explanation
Indices: 8656532--8656556 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8656522 ATGGCGAATG
8656532 CATACTTGCAAAC
1 CATACTTGCAAAC
8656545 CATACTTGCAAA
1 CATACTTGCAAA
8656557 TCCTTTATAT
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:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
CATACTTGCAAAC
Found at i:8659073 original size:108 final size:105
Alignment explanation
Indices: 8658932--8659139 Score: 294
Period size: 108 Copynumber: 2.0 Consensus size: 105
8658922 CCTTTTTTTC
*
8658932 TTTTTTTTCTTAAGAATATTGGACCTTTTGACGCGAAATGGAATGACAACCCAAGCACCCCATCC
1 TTTTTTTTCTTAAGAATATTGGACCTTTTGACGCGAAATGAAATGACAACCCAAGCACCCCATCC
** *
8658997 TTGTTACTC-AGCCCAACATACTCCCAATTTATTATCATCA
66 CGGTTACTCTA-CCCAACACACTCCCAATTTATTATCATCA
*
8659037 TTTTTTTTACTTAAGAATGTATT-GACCCTTTTGACGCGAAATGAAATGACAACCCAAGCACTCC
1 TTTTTTTT-CTTAAGAA--TATTGGA-CCTTTTGACGCGAAATGAAATGACAACCCAAGCACCCC
* *
8659101 ATCCCGGTTACTCTATCCAACACACTCCTAATTTATTAT
62 ATCCCGGTTACTCTACCCAACACACTCCCAATTTATTAT
8659140 TCCATAATTT
Statistics
Matches: 91, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
105 8 0.09
106 8 0.09
107 2 0.02
108 72 0.79
109 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (105 bp):
TTTTTTTTCTTAAGAATATTGGACCTTTTGACGCGAAATGAAATGACAACCCAAGCACCCCATCC
CGGTTACTCTACCCAACACACTCCCAATTTATTATCATCA
Found at i:8659925 original size:6 final size:6
Alignment explanation
Indices: 8659916--8659961 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
8659906 AAAAAAACAC
* *
8659916 TAAAAC TAAAAA TAAAAA TAAATA -AAAAA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
8659962 TTGGGTTGCC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
5 4 0.11
6 32 0.89
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:8659932 original size:23 final size:23
Alignment explanation
Indices: 8659917--8659960 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
8659907 AAAAAACACT
*
8659917 AAAACTAAAAATAAAAATAAATA
1 AAAAATAAAAATAAAAATAAATA
8659940 AAAAATAAAAATAAAAATAAA
1 AAAAATAAAAATAAAAATAAA
8659961 ATTGGGTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (23 bp):
AAAAATAAAAATAAAAATAAATA
Found at i:8680990 original size:10 final size:11
Alignment explanation
Indices: 8680975--8681003 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
8680965 TAACATACCC
8680975 TTTAATTTTT-
1 TTTAATTTTTA
8680985 TTTAATTTTTA
1 TTTAATTTTTA
8680996 TTTAATTT
1 TTTAATTT
8681004 ATTTAATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTAATTTTTA
Found at i:8681576 original size:10 final size:9
Alignment explanation
Indices: 8681561--8681612 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 9
8681551 ATAATAATTA
*
8681561 TTAAAAACT
1 TTAAAAAAT
8681570 TTAAAAAAT
1 TTAAAAAAT
*
8681579 TTAAAATAT
1 TTAAAAAAT
* *
8681588 ATATAAAAT
1 TTAAAAAAT
* *
8681597 ATGAAAAAT
1 TTAAAAAAT
8681606 TTAAAAA
1 TTAAAAA
8681613 GAAAATATTG
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
TTAAAAAAT
Found at i:8681609 original size:36 final size:37
Alignment explanation
Indices: 8681537--8681612 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
8681527 TTATTAATTT
* *
8681537 AAAATTTTAAATTAATAATAATTATTAAAAACTTTAA
1 AAAATTTAAAATTAATAATAATTATGAAAAACTTTAA
8681574 AAAATTTAAAATATATATAA-AA-TATGAAAAA-TTTAA
1 AAAATTTAAAAT-TA-ATAATAATTATGAAAAACTTTAA
8681610 AAA
1 AAA
8681613 GAAAATATTG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 8 0.23
37 19 0.54
38 4 0.11
39 4 0.11
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (37 bp):
AAAATTTAAAATTAATAATAATTATGAAAAACTTTAA
Found at i:8682265 original size:54 final size:57
Alignment explanation
Indices: 8682124--8682267 Score: 163
Period size: 58 Copynumber: 2.6 Consensus size: 57
8682114 TCTTAATTTT
* * * *
8682124 TTTTTTCTTTCG-TTT-ATGCCATCGTATTCTCATTTTTCTTCAAAGAAATTTTAACCCA
1 TTTTTTCTTTCGATTTCA--CCATCGTTTTCCCTTTTTTCTTCAAAGAAATATTAA-CCA
* * *
8682182 TTTTTTCTTTCGTTTTCACTATCATTTTCCCTTTTTTCTTCAAAGAAATATTAA-C-
1 TTTTTTCTTTCGATTTCACCATCGTTTTCCCTTTTTTCTTCAAAGAAATATTAACCA
8682237 TTTTTT-TTTCGATTTCACCATCGTTTTCCCT
1 TTTTTTCTTTCGATTTCACCATCGTTTTCCCT
8682268 CACCATCATT
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
54 22 0.29
55 6 0.08
56 1 0.01
58 42 0.56
59 3 0.04
60 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.06, T:0.53
Consensus pattern (57 bp):
TTTTTTCTTTCGATTTCACCATCGTTTTCCCTTTTTTCTTCAAAGAAATATTAACCA
Found at i:8682328 original size:22 final size:22
Alignment explanation
Indices: 8682288--8682340 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
8682278 TATCATTTCC
* **
8682288 TTTCGTTTTGCCTTTGCATCTA
1 TTTCGTTTTCCCTCAGCATCTA
*
8682310 TTTCGTTTTCCCTCAGCATCTC
1 TTTCGTTTTCCCTCAGCATCTA
*
8682332 TTTCATTTT
1 TTTCGTTTT
8682341 TCGTTTCGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.09, C:0.26, G:0.09, T:0.55
Consensus pattern (22 bp):
TTTCGTTTTCCCTCAGCATCTA
Found at i:8683188 original size:23 final size:24
Alignment explanation
Indices: 8683134--8683181 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
8683124 TTAAATTAAA
8683134 CATCGTATCTAAAAAAGAACCATC
1 CATCGTATCTAAAAAAGAACCATC
* *
8683158 CATTGTATCTAAATAA-AACCATC
1 CATCGTATCTAAAAAAGAACCATC
8683181 C
1 C
8683182 TGCGTATGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (24 bp):
CATCGTATCTAAAAAAGAACCATC
Found at i:8685492 original size:19 final size:22
Alignment explanation
Indices: 8685445--8685500 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 22
8685435 TGCATGATAT
8685445 ACATAACATACATAACAGTATGG
1 ACATAACATACATAACAG-ATGG
8685468 ACCATAACATACATAACAG-T-G
1 A-CATAACATACATAACAGATGG
8685489 -CATAACATACAT
1 ACATAACATACAT
8685501 TATTATACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 12 0.38
21 1 0.03
22 1 0.03
23 1 0.03
24 17 0.53
ACGTcount: A:0.48, C:0.21, G:0.09, T:0.21
Consensus pattern (22 bp):
ACATAACATACATAACAGATGG
Found at i:8685652 original size:30 final size:30
Alignment explanation
Indices: 8685611--8685679 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
8685601 AATGCCAACA
* * *
8685611 AAAACAAAAAATAAAAGTTAGATATAATAC
1 AAAATAAAAAATAAAAATAAGATATAATAC
* * *
8685641 GAATTAAAAAATAAAAATAATATATAATAC
1 AAAATAAAAAATAAAAATAAGATATAATAC
8685671 AAAATAAAA
1 AAAATAAAA
8685680 CAATCAATTT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (30 bp):
AAAATAAAAAATAAAAATAAGATATAATAC
Found at i:8688029 original size:16 final size:17
Alignment explanation
Indices: 8687998--8688041 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
8687988 AATATTATTT
8687998 ATTAAATTAA--TTTAA
1 ATTAAATTAATTTTTAA
8688013 A-TAAATTAATTTTTAA
1 ATTAAATTAATTTTTAA
8688029 ATTAAA-TAATTTT
1 ATTAAATTAATTTT
8688042 CTCAACCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.31
15 1 0.04
16 13 0.50
17 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTAAATTAATTTTTAA
Found at i:8691300 original size:11 final size:11
Alignment explanation
Indices: 8691284--8691309 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8691274 TGATACTATG
8691284 TAAAATAAAAA
1 TAAAATAAAAA
8691295 TAAAATAAAAA
1 TAAAATAAAAA
8691306 TAAA
1 TAAA
8691310 TTATATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:8696604 original size:5 final size:5
Alignment explanation
Indices: 8696594--8696620 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
8696584 CTGGATCTAT
8696594 TTTTG TTTTG TTTTG TTTTG TTTTG TT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TT
8696621 CCGTTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTTTG
Found at i:8696626 original size:15 final size:15
Alignment explanation
Indices: 8696594--8696627 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8696584 CTGGATCTAT
**
8696594 TTTTGTTTTGTTTTG
1 TTTTGTTTTGTTCCG
8696609 TTTTGTTTTGTTCCG
1 TTTTGTTTTGTTCCG
8696624 TTTT
1 TTTT
8696628 TTATTATGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.06, G:0.18, T:0.76
Consensus pattern (15 bp):
TTTTGTTTTGTTCCG
Found at i:8700176 original size:20 final size:20
Alignment explanation
Indices: 8700140--8700177 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8700130 AAATGATTCT
*
8700140 ATTTTTAATTTTTAAAATTA
1 ATTTTTAATTTTAAAAATTA
8700160 ATTTCTTAA-TTTAAAAAT
1 ATTT-TTAATTTTAAAAAT
8700178 GAAATGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTTAATTTTAAAAATTA
Found at i:8704314 original size:11 final size:10
Alignment explanation
Indices: 8704275--8704322 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 10
8704265 TGTTGGATAT
8704275 TTTTAA-TTA
1 TTTTAATTTA
8704284 -TTT-ATTTA
1 TTTTAATTTA
8704292 TTTT-ATTTA
1 TTTTAATTTA
8704301 TTTTAATATTA
1 TTTTAAT-TTA
*
8704312 TTTTATTTTA
1 TTTTAATTTA
8704322 T
1 T
8704323 AAAAATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
7 1 0.03
8 6 0.18
9 12 0.35
10 6 0.18
11 9 0.26
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTAATTTA
Found at i:8707202 original size:43 final size:41
Alignment explanation
Indices: 8707155--8707271 Score: 112
Period size: 41 Copynumber: 2.8 Consensus size: 41
8707145 CACACGGGCT
8707155 GGCACATTGATGTGTGTCAGGGTGTGTGAGTATACGGTTTGGA
1 GGCACA-TGATGTGTGTCAGGGTGTGTG-GTATACGGTTTGGA
* * ** *
8707198 GGCACATGAGCGTGGGTCAGGGTGTGT-GTATATTGTTTTGA
1 GGCACATGA-TGTGTGTCAGGGTGTGTGGTATACGGTTTGGA
* * *
8707239 GGCACACGGGTGTGTGTCAAGGTGTGT-GTATAC
1 GGCACA-TGATGTGTGTCAGGGTGTGTGGTATAC
8707272 TGTTCTGGGA
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
41 36 0.59
42 4 0.07
43 21 0.34
ACGTcount: A:0.18, C:0.11, G:0.39, T:0.32
Consensus pattern (41 bp):
GGCACATGATGTGTGTCAGGGTGTGTGGTATACGGTTTGGA
Found at i:8707241 original size:41 final size:41
Alignment explanation
Indices: 8707170--8707275 Score: 122
Period size: 41 Copynumber: 2.5 Consensus size: 41
8707160 ATTGATGTGT
* *
8707170 GTCAGGGTGTGTGAGTATACGGTTTGGAGGCACATGAGCGTGG
1 GTCAGGGTGTGT--GTATACTGTTTGGAGGCACACGAGCGTGG
* * * * *
8707213 GTCAGGGTGTGTGTATATTGTTTTGAGGCACACGGGTGTGT
1 GTCAGGGTGTGTGTATACTGTTTGGAGGCACACGAGCGTGG
*
8707254 GTCAAGGTGTGTGTATACTGTT
1 GTCAGGGTGTGTGTATACTGTT
8707276 CTGGGAAACA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 42 0.78
43 12 0.22
ACGTcount: A:0.17, C:0.10, G:0.40, T:0.33
Consensus pattern (41 bp):
GTCAGGGTGTGTGTATACTGTTTGGAGGCACACGAGCGTGG
Found at i:8707959 original size:29 final size:29
Alignment explanation
Indices: 8707927--8708015 Score: 126
Period size: 29 Copynumber: 3.1 Consensus size: 29
8707917 TCTGCATCCA
*
8707927 TAACTATATCTGTGACATGACTATATCTG
1 TAACTATATCTGTGACATGACTGTATCTG
*
8707956 TAAC-AGTATCTGTGACATGATTGTATCTG
1 TAACTA-TATCTGTGACATGACTGTATCTG
* *
8707985 TAACTGTATCTTTGACATGACTGTATCTG
1 TAACTATATCTGTGACATGACTGTATCTG
8708014 TA
1 TA
8708016 TTATTTCTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
28 1 0.02
29 52 0.98
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (29 bp):
TAACTATATCTGTGACATGACTGTATCTG
Found at i:8707968 original size:58 final size:58
Alignment explanation
Indices: 8707903--8708015 Score: 140
Period size: 58 Copynumber: 1.9 Consensus size: 58
8707893 ATCAGTAATT
8707903 GTATCTGT-ATCATG-TCTGCATCCATAACTATATCTGTGACATGACTATATCTGTAACA
1 GTATCTGTGA-CATGAT-TGCATCCATAACTATATCTGTGACATGACTATATCTGTAACA
* ** * * *
8707961 GTATCTGTGACATGATTGTATCTGTAACTGTATCTTTGACATGACTGTATCTGTA
1 GTATCTGTGACATGATTGCATCCATAACTATATCTGTGACATGACTATATCTGTA
8708016 TTATTTCTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
58 45 0.96
59 2 0.04
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.39
Consensus pattern (58 bp):
GTATCTGTGACATGATTGCATCCATAACTATATCTGTGACATGACTATATCTGTAACA
Found at i:8710419 original size:13 final size:13
Alignment explanation
Indices: 8710401--8710426 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8710391 TTAATTCGAA
8710401 ATTTAATTTAATT
1 ATTTAATTTAATT
8710414 ATTTAATTTAATT
1 ATTTAATTTAATT
8710427 TAATAAATAA
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:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTAATTTAATT
Found at i:8711047 original size:21 final size:21
Alignment explanation
Indices: 8711023--8711078 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
8711013 ATCAATATTC
*
8711023 ATATCACATATCATGA-CATCA
1 ATATCACATATCATAACCAT-A
8711044 ATATTC-CATATCA-AACCATA
1 ATA-TCACATATCATAACCATA
8711064 ATATCACAATATCAT
1 ATATCAC-ATATCAT
8711079 CCAATCTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
19 2 0.07
20 6 0.21
21 19 0.66
22 2 0.07
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (21 bp):
ATATCACATATCATAACCATA
Found at i:8712213 original size:158 final size:158
Alignment explanation
Indices: 8711925--8712245 Score: 633
Period size: 158 Copynumber: 2.0 Consensus size: 158
8711915 GCATTTACAA
8711925 AATAACATCATCCTAGTACATGCCCTATAACCAAGTGATGTAAATACTACCGAATGAGCTCCCGG
1 AATAACATCATCCTAGTACATGCCCTATAACCAAGTGATGTAAATACTACCGAATGAGCTCCCGG
8711990 GATAGTGTGATTCCTCCAAGATGGTCCAATCTTCAAGCAGCAAAATAGAATCTACAAAACAACAA
66 GATAGTGTGATTCCTCCAAGATGGTCCAATCTTCAAGCAGCAAAATAGAATCTACAAAACAACAA
8712055 TAAATTCACTAGTAAGCTTTCATAGCTT
131 TAAATTCACTAGTAAGCTTTCATAGCTT
8712083 AATAACATCATCCTAGTACATGCCCTATAACCAAGTGATGTAAATACTACCGAATGAGCTCCCGG
1 AATAACATCATCCTAGTACATGCCCTATAACCAAGTGATGTAAATACTACCGAATGAGCTCCCGG
*
8712148 GATAGTGTGATTCCTCCGAGATGGTCCAATCTTCAAGCAGCAAAATAGAATCTACAAAACAACAA
66 GATAGTGTGATTCCTCCAAGATGGTCCAATCTTCAAGCAGCAAAATAGAATCTACAAAACAACAA
8712213 TAAATTCACTAGTAAGCTTTCATAGCTT
131 TAAATTCACTAGTAAGCTTTCATAGCTT
8712241 AATAA
1 AATAA
8712246 GTTCACAAGG
Statistics
Matches: 162, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
158 162 1.00
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (158 bp):
AATAACATCATCCTAGTACATGCCCTATAACCAAGTGATGTAAATACTACCGAATGAGCTCCCGG
GATAGTGTGATTCCTCCAAGATGGTCCAATCTTCAAGCAGCAAAATAGAATCTACAAAACAACAA
TAAATTCACTAGTAAGCTTTCATAGCTT
Found at i:8713577 original size:18 final size:21
Alignment explanation
Indices: 8713537--8713590 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
8713527 TGGAAAGGTT
8713537 CTACCGATACAAGTATGACTA
1 CTACCGATACAAGTATGACTA
* * *
8713558 CTACCGATACAATTATTACTT
1 CTACCGATACAAGTATGACTA
*
8713579 TTACCGATACAA
1 CTACCGATACAA
8713591 CAAGCTCCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (21 bp):
CTACCGATACAAGTATGACTA
Found at i:8713962 original size:24 final size:24
Alignment explanation
Indices: 8713930--8713975 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
8713920 TCAAGTATCT
8713930 CTGAATTTACATGTCATTACATCC
1 CTGAATTTACATGTCATTACATCC
8713954 CTGAATTTACATGTCATTACAT
1 CTGAATTTACATGTCATTACAT
8713976 TACAATGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (24 bp):
CTGAATTTACATGTCATTACATCC
Found at i:8716046 original size:18 final size:17
Alignment explanation
Indices: 8716025--8716069 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
8716015 TATAGCAATA
8716025 TTTCTTTTTATTTTCTCT
1 TTTCTTTTT-TTTTCTCT
*
8716043 TTTCTCTTTTTTTTTTCT
1 TTTCT-TTTTTTTTCTCT
8716061 TTTCTTTTT
1 TTTCTTTTT
8716070 CTCATTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 4 0.16
18 17 0.68
19 4 0.16
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTCTTTTTTTTTCTCT
Found at i:8717945 original size:53 final size:53
Alignment explanation
Indices: 8717858--8717975 Score: 166
Period size: 53 Copynumber: 2.2 Consensus size: 53
8717848 CACAATTTTC
* * *
8717858 AGGCTTTGTGCCTAGTAGTCTTTGTACCGGTGTTTTCAGGCTATGTGCCTAGT
1 AGGCTTTGTGCCTAGTAGTCTTCGTACCGATGTTTTCAAGCTATGTGCCTAGT
* * *
8717911 AGGCTTCGTGCCTAGTAGGT-TTCGTGCCGATGTTTTCAAGCTTTGTGCCTAGT
1 AGGCTTTGTGCCTAGTA-GTCTTCGTACCGATGTTTTCAAGCTATGTGCCTAGT
8717964 AGGCTTTGTGCC
1 AGGCTTTGTGCC
8717976 GGTGTTTTCA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 55 0.96
54 2 0.04
ACGTcount: A:0.13, C:0.20, G:0.29, T:0.38
Consensus pattern (53 bp):
AGGCTTTGTGCCTAGTAGTCTTCGTACCGATGTTTTCAAGCTATGTGCCTAGT
Found at i:8717971 original size:16 final size:16
Alignment explanation
Indices: 8717895--8718012 Score: 69
Period size: 16 Copynumber: 6.8 Consensus size: 16
8717885 CGGTGTTTTC
*
8717895 AGGCTATGTGCCTAGT
1 AGGCTTTGTGCCTAGT
*
8717911 AGGCTTCGTGCCTAGT
1 AGGCTTTGTGCCTAGT
*
8717927 AGG-TTTCGTGCCGATGTTTT
1 AGGCTTT-GTGCCTA-G---T
*
8717947 CAAGCTTTGTGCCTAGT
1 -AGGCTTTGTGCCTAGT
8717964 AGGCTTTGTGCCGGT-GTTTT
1 AGGCTTTGTGCC--TAG---T
8717984 CAGGCTTTGTGCCTAGT
1 -AGGCTTTGTGCCTAGT
*
8718001 AGGCTTTATGCC
1 AGGCTTTGTGCC
8718013 GGTGTTTTCA
Statistics
Matches: 80, Mismatches: 8, Indels: 28
0.69 0.07 0.24
Matches are distributed among these distances:
15 2 0.03
16 45 0.56
17 4 0.05
18 1 0.01
19 1 0.01
20 4 0.05
21 20 0.25
22 3 0.04
ACGTcount: A:0.13, C:0.20, G:0.30, T:0.37
Consensus pattern (16 bp):
AGGCTTTGTGCCTAGT
Found at i:8717975 original size:37 final size:37
Alignment explanation
Indices: 8717918--8718191 Score: 316
Period size: 37 Copynumber: 7.4 Consensus size: 37
8717908 AGTAGGCTTC
* * * * *
8717918 GTGCCTAGTAGGTTTCGTGCCGATGTTTTCAAGCTTT
1 GTGCCTAGTAGGCTTCATGCCGGTGTTTTCAGGCTAT
** *
8717955 GTGCCTAGTAGGCTTTGTGCCGGTGTTTTCAGGCTTT
1 GTGCCTAGTAGGCTTCATGCCGGTGTTTTCAGGCTAT
* *
8717992 GTGCCTAGTAGGCTTTATGCCGGTGTTTTCAGGCTTT
1 GTGCCTAGTAGGCTTCATGCCGGTGTTTTCAGGCTAT
* *
8718029 GTGCCTAGTAGGATTCATGCCGGTGTATT-AGGGCTAT
1 GTGCCTAGTAGGCTTCATGCCGGTGTTTTCA-GGCTAT
* * * *
8718066 GTGCCTAGCAAGCTTCATGCCGATGTTTCCAGGCTAT
1 GTGCCTAGTAGGCTTCATGCCGGTGTTTTCAGGCTAT
* * * *
8718103 GTGCCTAGTAGGCTCCGTGCTGGTATTTTCAGGCTAT
1 GTGCCTAGTAGGCTTCATGCCGGTGTTTTCAGGCTAT
* * *
8718140 GTGCCTAATAGGCTTCATGCCGGTGTATTCAAGCTAT
1 GTGCCTAGTAGGCTTCATGCCGGTGTTTTCAGGCTAT
*
8718177 GTGCCTAGCAGGCTT
1 GTGCCTAGTAGGCTT
8718192 TGTGCCAGTG
Statistics
Matches: 203, Mismatches: 32, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
36 1 0.00
37 201 0.99
38 1 0.00
ACGTcount: A:0.15, C:0.21, G:0.29, T:0.35
Consensus pattern (37 bp):
GTGCCTAGTAGGCTTCATGCCGGTGTTTTCAGGCTAT
Found at i:8717990 original size:21 final size:21
Alignment explanation
Indices: 8717964--8718033 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
8717954 TGTGCCTAGT
8717964 AGGCTTTGTGCCGGTGTTTTC
1 AGGCTTTGTGCCGGTGTTTTC
8717985 AGGCTTTGTGCC--TAG---T-
1 AGGCTTTGTGCCGGT-GTTTTC
*
8718001 AGGCTTTATGCCGGTGTTTTC
1 AGGCTTTGTGCCGGTGTTTTC
8718022 AGGCTTTGTGCC
1 AGGCTTTGTGCC
8718034 TAGTAGGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
16 11 0.28
17 2 0.05
18 1 0.03
19 1 0.03
20 2 0.05
21 23 0.57
ACGTcount: A:0.09, C:0.20, G:0.31, T:0.40
Consensus pattern (21 bp):
AGGCTTTGTGCCGGTGTTTTC
Found at i:8718050 original size:111 final size:111
Alignment explanation
Indices: 8717911--8718197 Score: 360
Period size: 111 Copynumber: 2.6 Consensus size: 111
8717901 TGTGCCTAGT
* * * * * * *
8717911 AGGCTTCGTGCCTAGTAGGTTTCGTGCCGATGTTTTCAAGCTTTGTGCCTAGTAGGCTTTGTGCC
1 AGGCTTTGTGCCTAGTAGGATTCATGCCGGTGTATTCAAGCTATGTGCCTAGCAGGCTTTGTGCC
* * * ** *
8717976 GGTGTTTTCAGGCTTTGTGCCTAGTAGGCTTTATGCCGGTGTTTTC
66 GATGTTTCCAGGCTATGTGCCTAGTAGGCTCCATGCCGGTATTTTC
* * **
8718022 AGGCTTTGTGCCTAGTAGGATTCATGCCGGTGTATT-AGGGCTATGTGCCTAGCAAGCTTCATGC
1 AGGCTTTGTGCCTAGTAGGATTCATGCCGGTGTATTCA-AGCTATGTGCCTAGCAGGCTTTGTGC
* *
8718086 CGATGTTTCCAGGCTATGTGCCTAGTAGGCTCCGTGCTGGTATTTTC
65 CGATGTTTCCAGGCTATGTGCCTAGTAGGCTCCATGCCGGTATTTTC
* * *
8718133 AGGCTATGTGCCTAATAGGCTTCATGCCGGTGTATTCAAGCTATGTGCCTAGCAGGCTTTGTGCC
1 AGGCTTTGTGCCTAGTAGGATTCATGCCGGTGTATTCAAGCTATGTGCCTAGCAGGCTTTGTGCC
8718198 AGTGATCTAA
Statistics
Matches: 148, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
110 1 0.01
111 146 0.99
112 1 0.01
ACGTcount: A:0.15, C:0.21, G:0.29, T:0.35
Consensus pattern (111 bp):
AGGCTTTGTGCCTAGTAGGATTCATGCCGGTGTATTCAAGCTATGTGCCTAGCAGGCTTTGTGCC
GATGTTTCCAGGCTATGTGCCTAGTAGGCTCCATGCCGGTATTTTC
Found at i:8736132 original size:43 final size:43
Alignment explanation
Indices: 8736083--8736167 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
8736073 AAAATAAAGA
8736083 AATTTAGTCAAAATAAAATTAAGAAAATAACAACTTTGAATAT
1 AATTTAGTCAAAATAAAATTAAGAAAATAACAACTTTGAATAT
8736126 AATTTAGTCAAAATAAAATTAAGAAAATAACAACTTTGAATA
1 AATTTAGTCAAAATAAAATTAAGAAAATAACAACTTTGAATA
8736168 AGCTTATTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.29
Consensus pattern (43 bp):
AATTTAGTCAAAATAAAATTAAGAAAATAACAACTTTGAATAT
Found at i:8738722 original size:94 final size:94
Alignment explanation
Indices: 8738276--8738706 Score: 520
Period size: 94 Copynumber: 4.6 Consensus size: 94
8738266 AAAATTGCCT
* * * * * *
8738276 CTGTTACCAGTATACGATGCTGTTCACACTAATCTGATGAGGACTCGCAAAATATGTGGTACCTC
1 CTGTTACCAGTATACGATGTTGCTCACACTAAGCTGACGAGGACTCGCAACATATGCGGTACCTC
* * ** * *
8738341 AGTTATCAATATGGTATCTGTAGATATAA
66 AGTCATCGATACAGTATCTATACATATAA
* * * * * * *
8738370 CTGTTACTAGTATACGATGCTACTCACACTAAGCTAACAAGGACTTGCAACATATGCGGTATCTC
1 CTGTTACCAGTATACGATGTTGCTCACACTAAGCTGACGAGGACTCGCAACATATGCGGTACCTC
** * *
8738435 AACCAGCGATACAGTATCTGTACATATAA
66 AGTCATCGATACAGTATCTATACATATAA
* * * ** * *
8738464 CTGTTACCAGTATATGGTGTTGCTCACACTAAACTGACGAGGACTCATAACATTTGCGATACCTC
1 CTGTTACCAGTATACGATGTTGCTCACACTAAGCTGACGAGGACTCGCAACATATGCGGTACCTC
* *
8738529 AGCCATCGATACGGTATCTATACATATAA
66 AGTCATCGATACAGTATCTATACATATAA
* *
8738558 CTGTTACTAGTGTACGATGTTGCTCACACTAAGCTGACGAGGACTCGCAACATATGCGGTACCTC
1 CTGTTACCAGTATACGATGTTGCTCACACTAAGCTGACGAGGACTCGCAACATATGCGGTACCTC
*
8738623 AGTCATTGATACAGTATCTATACATATAA
66 AGTCATCGATACAGTATCTATACATATAA
* * *
8738652 TTGTTACCAGTATACGATATTACTCACACTAAGCTGACGAGGACTCGCAACATAT
1 CTGTTACCAGTATACGATGTTGCTCACACTAAGCTGACGAGGACTCGCAACATAT
8738707 AGGATGTCTC
Statistics
Matches: 283, Mismatches: 54, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
94 283 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (94 bp):
CTGTTACCAGTATACGATGTTGCTCACACTAAGCTGACGAGGACTCGCAACATATGCGGTACCTC
AGTCATCGATACAGTATCTATACATATAA
Found at i:8741848 original size:30 final size:29
Alignment explanation
Indices: 8741804--8741863 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
8741794 AATACACGGG
* *
8741804 AATAGGTTGTTCACACAAGCTGACAGTAT
1 AATAGGTTGCTCACACAAACTGACAGTAT
*
8741833 AATAGGGTTGCTCACACAAACTGACATTAT
1 AATA-GGTTGCTCACACAAACTGACAGTAT
8741863 A
1 A
8741864 TTGAGGTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (29 bp):
AATAGGTTGCTCACACAAACTGACAGTAT
Found at i:8744353 original size:193 final size:199
Alignment explanation
Indices: 8743991--8744436 Score: 525
Period size: 201 Copynumber: 2.3 Consensus size: 199
8743981 CTCGAAGCTG
* * * * * *
8743991 CTCACGCGAGCTGTCGAGGACTCACAACGTATTCAGTACCCCAGCCATCAGTACGGTGTCTGTCT
1 CTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCAGTACGGTGTCTGTCT
* * * *
8744056 GTACTATAAACTATTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAGTATGCAATAAGCATAG
66 GCACTATAAACTATTCCCTAACGATGCTGCTCACACAAGCTGTCGAGAATATGCAATAAGCATAA
*
8744121 TCCCAACCATCATAGGGCCTGTAATCCATTTAAGATCC-A-TA-TCTC-TTTCCCGAGTCACGAT
131 TCCCAACCATCATAGGGCCTGTAATCCATTTAAGATCCAATTATTCTCATTTCCCGACTCACGAT
8744182 GCTA
196 GCTA
8744186 CTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATC-GATACGGTAG-CTGT
1 CTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCAG-TACGGT-GTCTGT
* * *
8744249 -T-CA-TAT-AACTGTTCCCTAACGATGCTGCTCACACAAGCTGTCGAGAATATGCACTTATGCA
64 CTGCACTATAAACTATTCCCTAACGATGCTGCTCACACAAGCTGTCGAGAATATGCA-ATAAGCA
* * *
8744310 TAAATCTCAACCATCGTAGGGCCTGTAATCCATTTAGGATCCATATTTATTTTCTCATTTCCCGA
128 T-AATCCCAACCATCATAGGGCCTGTAATCCATTTAAGATCCA-A-TTA--TTCTCATTTCCCGA
* *
8744375 CTCATGATTCTA
188 CTCACGATGCTA
** * * * *
8744387 CTTGCACGAGCTATCGATGACTTGCAACATATGCGGTACCTCAACCATCA
1 CTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCA
8744437 CATCGGTTTC
Statistics
Matches: 213, Mismatches: 25, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
191 44 0.21
192 9 0.04
193 37 0.17
194 2 0.01
195 54 0.25
196 1 0.00
197 2 0.01
200 4 0.02
201 60 0.28
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (199 bp):
CTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCAGTACGGTGTCTGTCT
GCACTATAAACTATTCCCTAACGATGCTGCTCACACAAGCTGTCGAGAATATGCAATAAGCATAA
TCCCAACCATCATAGGGCCTGTAATCCATTTAAGATCCAATTATTCTCATTTCCCGACTCACGAT
GCTA
Found at i:8746105 original size:22 final size:19
Alignment explanation
Indices: 8746072--8746111 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 19
8746062 CACTTATACT
8746072 AAATTTTAATTCAATAATTA
1 AAATTTTAATTCAA-AATTA
8746092 AAATTCTTGAATTCAAAATT
1 AAATT-TT-AATTCAAAATT
8746112 TCATATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (19 bp):
AAATTTTAATTCAAAATTA
Found at i:8750350 original size:31 final size:29
Alignment explanation
Indices: 8750306--8750376 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 29
8750296 TTCAATAAAT
*
8750306 AAAAAAT-TTATAAA-ATTATTAAATATTA
1 AAAAAATAATATAAATATTATTAAA-ATTA
* *
8750334 AAATAATATAATATAAATATTTTTTAAATTA
1 AAA-AA-ATAATATAAATATTATTAAAATTA
8750365 AAAAAATAATAT
1 AAAAAATAATAT
8750377 GAACAGGTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
28 3 0.08
29 9 0.25
30 4 0.11
31 13 0.36
32 7 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (29 bp):
AAAAAATAATATAAATATTATTAAAATTA
Found at i:8750595 original size:14 final size:14
Alignment explanation
Indices: 8750575--8750607 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8750565 GAACATAACA
*
8750575 TAAAAAATA-TTTT
1 TAAAAAAAAGTTTT
8750588 TAAAAAAAAGTTTT
1 TAAAAAAAAGTTTT
8750602 TAAAAA
1 TAAAAA
8750608 GATAAAGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (14 bp):
TAAAAAAAAGTTTT
Found at i:8755176 original size:5 final size:5
Alignment explanation
Indices: 8755166--8755205 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
8755156 TATGGGAGAA
8755166 AAAGG AAAGG AAAGG AAAGG AAA-G AAA-G AAA-G AAA-G AAAG
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAG
8755206 AAGAAGGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 16 0.47
5 18 0.53
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:8755198 original size:8 final size:9
Alignment explanation
Indices: 8755170--8755207 Score: 53
Period size: 8 Copynumber: 4.3 Consensus size: 9
8755160 GGAGAAAAAG
8755170 GAAAGGAAA
1 GAAAGGAAA
8755179 GGAAAGGAAA
1 -GAAAGGAAA
8755189 GAAA-GAAA
1 GAAAGGAAA
8755197 GAAA-GAAA
1 GAAAGGAAA
8755205 GAA
1 GAA
8755208 GAAGGTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 15 0.54
9 4 0.14
10 9 0.32
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (9 bp):
GAAAGGAAA
Found at i:8755286 original size:3 final size:3
Alignment explanation
Indices: 8755278--8755306 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8755268 TTTTATTTGT
8755278 TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
8755307 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:8756047 original size:19 final size:19
Alignment explanation
Indices: 8756020--8756059 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
8756010 CCTTATGTCA
* *
8756020 TTTATGAAATTATATTAGG
1 TTTACGAAATTAAATTAGG
8756039 TTTACGAAATTAAATTAGG
1 TTTACGAAATTAAATTAGG
8756058 TT
1 TT
8756060 ATATTAACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.45
Consensus pattern (19 bp):
TTTACGAAATTAAATTAGG
Found at i:8757944 original size:21 final size:21
Alignment explanation
Indices: 8757920--8757964 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
8757910 TCTCATATAG
*
8757920 TTTAAGGTTTCACGTTTAGAA
1 TTTAAGGTTTAACGTTTAGAA
* * *
8757941 TTTATGGTTTAAGGTTTAGTA
1 TTTAAGGTTTAACGTTTAGAA
8757962 TTT
1 TTT
8757965 TATGTTTAGG
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:0.24, C:0.04, G:0.20, T:0.51
Consensus pattern (21 bp):
TTTAAGGTTTAACGTTTAGAA
Found at i:8757971 original size:21 final size:21
Alignment explanation
Indices: 8757933--8757979 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
8757923 AAGGTTTCAC
8757933 GTTTAGAATTTATGGTTTAAG
1 GTTTAGAATTTATGGTTTAAG
* *
8757954 GTTTAGTATTTTAT-GTTTAGG
1 GTTTAG-AATTTATGGTTTAAG
8757975 GTTTA
1 GTTTA
8757980 AGGTTTTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.53
Consensus pattern (21 bp):
GTTTAGAATTTATGGTTTAAG
Found at i:8765658 original size:22 final size:21
Alignment explanation
Indices: 8765633--8765683 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
8765623 AGTAAATAAC
8765633 ATTTTTTTTAAAAAAATTAGAA
1 ATTTTTTTT-AAAAAATTAGAA
8765655 ATTTTTTTTAAAAAATTAGAA
1 ATTTTTTTTAAAAAATTAGAA
8765676 ATTTTTTT
1 ATTTTTTT
8765684 ATATTTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (21 bp):
ATTTTTTTTAAAAAATTAGAA
Found at i:8768118 original size:29 final size:29
Alignment explanation
Indices: 8768043--8768122 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
8768033 ACTTGGATTT
8768043 TTAAATTTAAAAATA-AAAATATTAAATTC
1 TTAAATTTAAAAATATAAAA-ATTAAATTC
** *
8768072 TTAAAAATAAAACT-TAAAAATTAAATTC
1 TTAAATTTAAAAATATAAAAATTAAATTC
8768100 -TAAATTTACAAAATATAAAAATT
1 TTAAATTTA-AAAATATAAAAATT
8768123 TAAAACATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
27 6 0.14
28 13 0.31
29 23 0.55
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (29 bp):
TTAAATTTAAAAATATAAAAATTAAATTC
Found at i:8768119 original size:28 final size:28
Alignment explanation
Indices: 8768043--8768119 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 28
8768033 ACTTGGATTT
*
8768043 TTAAATTTAAAAATAAAAATATTAAATTC
1 TTAAATTTAAAAATATAAA-ATTAAATTC
** *
8768072 TTAAAAATAAAACT-TAAAAATTAAATTC
1 TTAAATTTAAAAATAT-AAAATTAAATTC
8768100 -TAAATTTACAAAATATAAAA
1 TTAAATTTA-AAAATATAAAA
8768120 ATTTAAAACA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
27 6 0.16
28 17 0.45
29 15 0.39
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (28 bp):
TTAAATTTAAAAATATAAAATTAAATTC
Found at i:8768765 original size:27 final size:29
Alignment explanation
Indices: 8768718--8768775 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 29
8768708 AGTTCAATGT
* *
8768718 TTATAATAATATATTGTATTT-GAA-CAA
1 TTATAATAAAAAATTGTATTTAGAAGCAA
8768745 TTATAATAAAAAATT-TCATTTAGAAGCAA
1 TTATAATAAAAAATTGT-ATTTAGAAGCAA
8768774 TT
1 TT
8768776 TTTTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 1 0.04
27 17 0.65
28 3 0.12
29 5 0.19
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (29 bp):
TTATAATAAAAAATTGTATTTAGAAGCAA
Found at i:8769636 original size:18 final size:18
Alignment explanation
Indices: 8769613--8769650 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8769603 ATAATAAAAT
8769613 ATGTAT-AATAAAATTAAA
1 ATGTATGAA-AAAATTAAA
*
8769631 ATGTATGAAAACATTAAA
1 ATGTATGAAAAAATTAAA
8769649 AT
1 AT
8769651 AAAATTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (18 bp):
ATGTATGAAAAAATTAAA
Found at i:8771219 original size:4 final size:4
Alignment explanation
Indices: 8771203--8771239 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
8771193 CACCCTATCC
*
8771203 TGGT TGAT TGGT TGGT TGGT TGGT TGGT TGGT TGGT T
1 TGGT TGGT TGGT TGGT TGGT TGGT TGGT TGGT TGGT T
8771240 TTGAAGCCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (4 bp):
TGGT
Found at i:8784114 original size:16 final size:16
Alignment explanation
Indices: 8784079--8784114 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8784069 TGGCATTCAG
*
8784079 ATAAAAATATATTCTA
1 ATAAAAATATATTATA
*
8784095 ATAAAAATATATTATT
1 ATAAAAATATATTATA
8784111 ATAA
1 ATAA
8784115 GTTTATAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
ATAAAAATATATTATA
Found at i:8791496 original size:51 final size:51
Alignment explanation
Indices: 8791436--8791541 Score: 212
Period size: 51 Copynumber: 2.1 Consensus size: 51
8791426 TATCATCTTT
8791436 ATATCTTCTCCTCATTTTACCGGTAAATCAATTATACACTATTTCAATTTA
1 ATATCTTCTCCTCATTTTACCGGTAAATCAATTATACACTATTTCAATTTA
8791487 ATATCTTCTCCTCATTTTACCGGTAAATCAATTATACACTATTTCAATTTA
1 ATATCTTCTCCTCATTTTACCGGTAAATCAATTATACACTATTTCAATTTA
8791538 ATAT
1 ATAT
8791542 TACTTTTATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.43
Consensus pattern (51 bp):
ATATCTTCTCCTCATTTTACCGGTAAATCAATTATACACTATTTCAATTTA
Found at i:8791932 original size:21 final size:19
Alignment explanation
Indices: 8791906--8791944 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
8791896 ACTACTGAGC
8791906 TCTTGTAACTCAGTGCATAGT
1 TCTTGTAA-TC-GTGCATAGT
*
8791927 TCTTGTTATCGTGCATAG
1 TCTTGTAATCGTGCATAG
8791945 GTTGAAGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 2 0.12
21 7 0.41
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (19 bp):
TCTTGTAATCGTGCATAGT
Found at i:8792573 original size:17 final size:17
Alignment explanation
Indices: 8792547--8792580 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
8792537 CAATTTGTAG
8792547 TTATTTAAATAA-AACT
1 TTATTTAAATAACAACT
8792563 TTATCTTAAATAACAACT
1 TTAT-TTAAATAACAACT
8792581 AATTTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 8 0.50
18 4 0.25
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (17 bp):
TTATTTAAATAACAACT
Found at i:8797588 original size:31 final size:31
Alignment explanation
Indices: 8797553--8797655 Score: 79
Period size: 31 Copynumber: 3.5 Consensus size: 31
8797543 TTAATATAAT
*
8797553 ATTTGGTACTTAAATTTGATATTTTTTTCTA
1 ATTTGGTACTTAAACTTGATATTTTTTTCTA
* ** *
8797584 ATTTGATAC-TAAACTT--T-TTTTGGTCAA
1 ATTTGGTACTTAAACTTGATATTTTTTTCTA
* * * * *
8797611 ATTTAGTACTCAAACTTGACACTTTTTCCTA
1 ATTTGGTACTTAAACTTGATATTTTTTTCTA
*
8797642 ATTTGGTACCTAAA
1 ATTTGGTACTTAAA
8797656 TTTTTTTTAA
Statistics
Matches: 51, Mismatches: 17, Indels: 8
0.67 0.22 0.11
Matches are distributed among these distances:
27 14 0.27
28 7 0.14
30 6 0.12
31 24 0.47
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.48
Consensus pattern (31 bp):
ATTTGGTACTTAAACTTGATATTTTTTTCTA
Found at i:8798235 original size:24 final size:25
Alignment explanation
Indices: 8798208--8798276 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 25
8798198 GTATTTTTTT
8798208 TTATCATTTTTA-CTTTTTAATTA-A
1 TTATCATTTTTACCTTTTTAA-TAGA
* *
8798232 TTATATATTTTTACCTTTTTTATAGA
1 TTAT-CATTTTTACCTTTTTAATAGA
* *
8798258 ATATC-TTTTTATCTTTTTA
1 TTATCATTTTTACCTTTTTA
8798277 CTTGTATTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
24 16 0.44
25 9 0.25
26 11 0.31
ACGTcount: A:0.26, C:0.09, G:0.01, T:0.64
Consensus pattern (25 bp):
TTATCATTTTTACCTTTTTAATAGA
Found at i:8798322 original size:55 final size:57
Alignment explanation
Indices: 8798204--8798328 Score: 143
Period size: 57 Copynumber: 2.2 Consensus size: 57
8798194 AATAGTATTT
*
8798204 TTTTTTATCATTTTTACTTTTTAATTAATTATATATTTTTACCTTTTTTATAGAATA
1 TTTTTTATCATTTTTACTTTTTAATTAATTATATATTATTACCTTTTTTATAGAATA
* *
8798261 TCTTTTTATC-TTTTTACTTGTATTAATT-A-TATATATATATTA-CTTTTTTATTG-TTA
1 T-TTTTTATCATTTTTACTT-T-TTAATTAATTATATAT-TATTACCTTTTTTATAGAATA
*
8798317 TTTTTTAACATT
1 TTTTTTATCATT
8798329 AATTTCATTA
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
55 7 0.12
56 5 0.08
57 27 0.46
58 14 0.24
59 6 0.10
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.64
Consensus pattern (57 bp):
TTTTTTATCATTTTTACTTTTTAATTAATTATATATTATTACCTTTTTTATAGAATA
Found at i:8822429 original size:30 final size:30
Alignment explanation
Indices: 8822393--8822452 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
8822383 AATATATGTG
8822393 TATGTTGTTACCTCACTTGATCCTTTACAT
1 TATGTTGTTACCTCACTTGATCCTTTACAT
8822423 TATGTTGTTACCTCACTTGATCCTTTACAT
1 TATGTTGTTACCTCACTTGATCCTTTACAT
8822453 GCTTATGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.23, G:0.10, T:0.47
Consensus pattern (30 bp):
TATGTTGTTACCTCACTTGATCCTTTACAT
Found at i:8823094 original size:4 final size:4
Alignment explanation
Indices: 8823080--8823121 Score: 50
Period size: 4 Copynumber: 10.0 Consensus size: 4
8823070 TGGTTTTCAT
8823080 TTTA TTTTA TTTA TTTA TATATA TTTA TTTA TTT- TTTA TTTA
1 TTTA -TTTA TTTA TTTA T-T-TA TTTA TTTA TTTA TTTA TTTA
8823122 CTAACTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
3 3 0.09
4 22 0.65
5 6 0.18
6 3 0.09
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:8828893 original size:12 final size:12
Alignment explanation
Indices: 8828876--8828900 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8828866 TTGTTATATG
8828876 ATGAATGCTATT
1 ATGAATGCTATT
8828888 ATGAATGCTATT
1 ATGAATGCTATT
8828900 A
1 A
8828901 ATTCATTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:8832396 original size:116 final size:116
Alignment explanation
Indices: 8832258--8832509 Score: 344
Period size: 116 Copynumber: 2.2 Consensus size: 116
8832248 TAACCCTGCA
* * * *
8832258 ACTTCTACCGAGT-CAAGTATTTAAACTACCGATACCTCTATGTACAAAACTATCGATACCTGTT
1 ACTTCTACCGA-TACAAGCATTTAAACTACCGATACCTCAATGTACAAAACTACCGATACCTGAT
* * * *
8832322 ATACAACTACCGAAACAACTCAAGTTAGAGAGCAACCTCTCTCCTACTCTGT
65 ATACAACTACCGAAACAACTCAAGTCAGAGAACAACCTCTCTCCTACCCTAT
** * *
8832374 ACTTCTACCGATACAAGCATTTAAACTATTGATACCTCAATGTAGAGAACTACCGATACCTGATA
1 ACTTCTACCGATACAAGCATTTAAACTACCGATACCTCAATGTACAAAACTACCGATACCTGATA
* *
8832439 TACAACTACCGAAACAACTGAAGTCAGAGAACAACCTCTCTCTTACCCTAT
66 TACAACTACCGAAACAACTCAAGTCAGAGAACAACCTCTCTCCTACCCTAT
* *
8832490 ACTTCTACTGAAACAAGCAT
1 ACTTCTACCGATACAAGCAT
8832510 GAGTTCTACC
Statistics
Matches: 119, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
115 1 0.01
116 118 0.99
ACGTcount: A:0.36, C:0.27, G:0.11, T:0.26
Consensus pattern (116 bp):
ACTTCTACCGATACAAGCATTTAAACTACCGATACCTCAATGTACAAAACTACCGATACCTGATA
TACAACTACCGAAACAACTCAAGTCAGAGAACAACCTCTCTCCTACCCTAT
Found at i:8833065 original size:36 final size:36
Alignment explanation
Indices: 8832998--8833097 Score: 146
Period size: 36 Copynumber: 2.8 Consensus size: 36
8832988 TGATTATTAT
*
8832998 TCGTTTTACTCCTTGTTGACCCCAAAGGTCATGATGC
1 TCGTTTTACTCCCTGTTGA-CCCAAAGGTCATGATGC
* *
8833035 TCGTTTTACTCCCTATTGACCCAAAGGTCATTATGC
1 TCGTTTTACTCCCTGTTGACCCAAAGGTCATGATGC
* *
8833071 TCATTTTTCTCCCTGTTGACCCAAAGG
1 TCGTTTTACTCCCTGTTGACCCAAAGG
8833098 CCATACTTGT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 40 0.70
37 17 0.30
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (36 bp):
TCGTTTTACTCCCTGTTGACCCAAAGGTCATGATGC
Found at i:8834564 original size:47 final size:48
Alignment explanation
Indices: 8834510--8834665 Score: 145
Period size: 49 Copynumber: 3.2 Consensus size: 48
8834500 ATCTGGATAC
8834510 AATAAGATGGGTCACTGGTAGGGCATGCTAGTTGCTAACCAAGTGG-G
1 AATAAGATGGGTCACTGGTAGGGCATGCTAGTTGCTAACCAAGTGGAG
** * * ** *
8834557 AATAAGATGGGTCACAAGTAGGGCATGTTAGTTTCTAACCAGAAAGGTCG
1 AATAAGATGGGTCACTGGTAGGGCATGCTAGTTGCTAACCA-AGTGG-AG
** ** * * *
8834607 -ATGTGATGGACCATTGGTAGGGCATGCTTGTTGCTAACCAGGTGGGAG
1 AATAAGATGGGTCACTGGTAGGGCATGCTAGTTGCTAACCAAGT-GGAG
8834655 AATAAGATGGG
1 AATAAGATGGG
8834666 CCGTACGTAG
Statistics
Matches: 81, Mismatches: 23, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
47 37 0.46
48 4 0.05
49 39 0.48
50 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.24
Consensus pattern (48 bp):
AATAAGATGGGTCACTGGTAGGGCATGCTAGTTGCTAACCAAGTGGAG
Found at i:8848455 original size:21 final size:21
Alignment explanation
Indices: 8848410--8848457 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
8848400 AGGTTCTAAG
* *
8848410 ATACAAGTATGACTACTATCG
1 ATACAAGTATGACTACTACCA
* *
8848431 ATACAATTATGACTTCTACCA
1 ATACAAGTATGACTACTACCA
8848452 ATACAA
1 ATACAA
8848458 CAAACTCTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (21 bp):
ATACAAGTATGACTACTACCA
Found at i:8849373 original size:90 final size:90
Alignment explanation
Indices: 8849217--8849452 Score: 350
Period size: 90 Copynumber: 2.6 Consensus size: 90
8849207 CCAGTACATA
* * * * *
8849217 ATGCTACTCACACTAGCTGTCGAGGATTCGCAACATATGCGGTACCTTAACCATCGATATGATAT
1 ATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATATGATAT
*
8849282 CTGTGCATATAACTATTCCCTAACG
66 CTATGCATATAACTATTCCCTAACG
*
8849307 ATGCTGCTCACACGAGCTGTCAAGGACTCGCAACATATGCGGTACCTCAGCCATCG--ATGCAGT
1 ATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATATG-A-T
*
8849370 ATCTATGCATATAACTGTTCCCTAACG
64 ATCTATGCATATAACTATTCCCTAACG
* *
8849397 ATGCTGCTCACACGAGCTGTCGAGGACTCGTAAAATATGCGGTACCTCAGCCATCG
1 ATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCG
8849453 CGTCGGTTTC
Statistics
Matches: 133, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
88 3 0.02
89 1 0.01
90 129 0.97
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (90 bp):
ATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATATGATAT
CTATGCATATAACTATTCCCTAACG
Found at i:8851845 original size:29 final size:29
Alignment explanation
Indices: 8851811--8851872 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
8851801 TTAATTAAAC
* *
8851811 TTTTAATTATTTTATGAGGATTTAATTGT
1 TTTTAATTATTTTATAAGGATTTAATTAT
8851840 TTTTAATTATTTTATAAGGATTTAATTAT
1 TTTTAATTATTTTATAAGGATTTAATTAT
8851869 TTTT
1 TTTT
8851873 TTGGCATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (29 bp):
TTTTAATTATTTTATAAGGATTTAATTAT
Found at i:8852270 original size:29 final size:29
Alignment explanation
Indices: 8852228--8852285 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
8852218 TTCGATGATC
*
8852228 GTTTCTTCTTCTAAATCTGATTTTTCCCT
1 GTTTCTTCTTCTAAATATGATTTTTCCCT
8852257 GTTTCTTCTTCTAAATATGATTTTTCCCT
1 GTTTCTTCTTCTAAATATGATTTTTCCCT
8852286 TGTCAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.16, C:0.22, G:0.07, T:0.55
Consensus pattern (29 bp):
GTTTCTTCTTCTAAATATGATTTTTCCCT
Found at i:8855080 original size:18 final size:18
Alignment explanation
Indices: 8855057--8855104 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
8855047 TTTATACTTT
8855057 TTTTTATAATTTTCATAA
1 TTTTTATAATTTTCATAA
* *
8855075 TTTTTAT-AGTTTCATAT
1 TTTTTATAATTTTCATAA
*
8855092 TTTTTAAAATTTT
1 TTTTTATAATTTT
8855105 TCTATAAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTTATAATTTTCATAA
Found at i:8855233 original size:31 final size:32
Alignment explanation
Indices: 8855164--8855236 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 32
8855154 TTTTATAAAT
8855164 TTAATAATTTTT-TATATTTTTCTATGACTTC
1 TTAATAATTTTTATATATTTTTCTATGACTTC
**
8855195 -TAA-AATTTTTATAATATTTTTC-AT-TTTTC
1 TTAATAATTTTTAT-ATATTTTTCTATGACTTC
8855224 TTAATAATTTTTA
1 TTAATAATTTTTA
8855237 AATGCTTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
29 10 0.28
30 9 0.25
31 17 0.47
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.62
Consensus pattern (32 bp):
TTAATAATTTTTATATATTTTTCTATGACTTC
Found at i:8857490 original size:31 final size:30
Alignment explanation
Indices: 8857448--8857540 Score: 118
Period size: 31 Copynumber: 3.0 Consensus size: 30
8857438 CATGGACATC
8857448 AATTATACATATTCACATTATCATACCCTGT
1 AATTATACATATT-ACATTATCATACCCTGT
*
8857479 AATTATTCATATTTACATGT-TCATACCCTGT
1 AATTATACATA-TTACAT-TATCATACCCTGT
*
8857510 AATTATCCATAGTTACA-TATCATACCCTGT
1 AATTATACATA-TTACATTATCATACCCTGT
8857540 A
1 A
8857541 CCATTTCATA
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
29 1 0.02
30 12 0.21
31 40 0.71
32 3 0.05
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (30 bp):
AATTATACATATTACATTATCATACCCTGT
Found at i:8858469 original size:21 final size:21
Alignment explanation
Indices: 8858445--8858503 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
8858435 ATGGCTCCCA
* *
8858445 ACATGGCCGTGTGGTTATACC
1 ACATGCCCGTGTGGCTATACC
** * *
8858466 ACATGTTCGTATGGCTATCCC
1 ACATGCCCGTGTGGCTATACC
8858487 ACATGCCCGTGTGGCTA
1 ACATGCCCGTGTGGCTA
8858504 CTCCACACGT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.19, C:0.27, G:0.25, T:0.29
Consensus pattern (21 bp):
ACATGCCCGTGTGGCTATACC
Found at i:8858510 original size:21 final size:21
Alignment explanation
Indices: 8858429--8858503 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
8858419 ACAGAGCCTA
*
8858429 GCCCGTATGGC--TCCCAACAT
1 GCCCGTATGGCTATACC-ACAT
* * *
8858449 GGCCGTGTGGTTATACCACAT
1 GCCCGTATGGCTATACCACAT
** *
8858470 GTTCGTATGGCTATCCCACAT
1 GCCCGTATGGCTATACCACAT
*
8858491 GCCCGTGTGGCTA
1 GCCCGTATGGCTA
8858504 CTCCACACGT
Statistics
Matches: 41, Mismatches: 12, Indels: 3
0.73 0.21 0.05
Matches are distributed among these distances:
20 8 0.20
21 30 0.73
22 3 0.07
ACGTcount: A:0.17, C:0.31, G:0.25, T:0.27
Consensus pattern (21 bp):
GCCCGTATGGCTATACCACAT
Found at i:8859468 original size:34 final size:34
Alignment explanation
Indices: 8859420--8859494 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
8859410 CTAACCAACT
* * *
8859420 AGCACACCAGATGCTCATATGAGCCAGTCCATCC
1 AGCACACCAAATGCTCATAAGAGCCAATCCATCC
* *
8859454 AGCACACCAAATGCTCGTAAGAGCTAATCCATCC
1 AGCACACCAAATGCTCATAAGAGCCAATCCATCC
*
8859488 AACACAC
1 AGCACAC
8859495 AAAAGCACTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.35, C:0.35, G:0.15, T:0.16
Consensus pattern (34 bp):
AGCACACCAAATGCTCATAAGAGCCAATCCATCC
Found at i:8861120 original size:5 final size:5
Alignment explanation
Indices: 8861110--8861139 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
8861100 TAAAAAATAA
*
8861110 TTAAT TTAAT TTAAT TTAAT TTAAC TTAAT
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT
8861140 CAACTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (5 bp):
TTAAT
Found at i:8864129 original size:17 final size:17
Alignment explanation
Indices: 8864107--8864139 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8864097 TTTGAAAGCA
8864107 TAAAATA-AAAGATAAAC
1 TAAAATAGAAA-ATAAAC
8864124 TAAAATAGAAAATAAA
1 TAAAATAGAAAATAAA
8864140 GGAAAAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (17 bp):
TAAAATAGAAAATAAAC
Found at i:8865340 original size:24 final size:24
Alignment explanation
Indices: 8865308--8865358 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
8865298 GAGGAAGAAT
*
8865308 TGGTGGCTTCGTCCACAATCTACA
1 TGGTGGCTTCGTCCACAACCTACA
* *
8865332 TGGTGGCTTTGTCCACAACCTATA
1 TGGTGGCTTCGTCCACAACCTACA
8865356 TGG
1 TGG
8865359 CAGCTTGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (24 bp):
TGGTGGCTTCGTCCACAACCTACA
Found at i:8865364 original size:24 final size:24
Alignment explanation
Indices: 8865313--8865364 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
8865303 AGAATTGGTG
* **
8865313 GCTTCGTCCACAATCTACATGGTG
1 GCTTCGTCCACAACCTACATGGCA
* *
8865337 GCTTTGTCCACAACCTATATGGCA
1 GCTTCGTCCACAACCTACATGGCA
8865361 GCTT
1 GCTT
8865365 GATTGCAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (24 bp):
GCTTCGTCCACAACCTACATGGCA
Found at i:8879347 original size:16 final size:15
Alignment explanation
Indices: 8879325--8879360 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
8879315 AATATAAATA
*
8879325 TTTTTCTTTTTCTTT
1 TTTTTCTTCTTCTTT
8879340 TCTTTTCTTCTTCTTT
1 T-TTTTCTTCTTCTTT
8879356 TTTTT
1 TTTTT
8879361 AACAAGTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTCTTCTTCTTT
Found at i:8888401 original size:42 final size:42
Alignment explanation
Indices: 8888348--8888530 Score: 242
Period size: 42 Copynumber: 4.3 Consensus size: 42
8888338 TGAGAATATA
*
8888348 TTAAAGGAAGACTTATGTCTCGGGAAGAGAATGAGATTATGT
1 TTAAAGGAAGACTCATGTCTCGGGAAGAGAATGAGATTATGT
* *
8888390 TTAAAGGAAGACTCATGTCTCGGGATGAGAATTAGATTATGT
1 TTAAAGGAAGACTCATGTCTCGGGAAGAGAATGAGATTATGT
* * *
8888432 TTGAAGGAAGAATCATGTCTCGGGATGAGAATGAGATTATGT
1 TTAAAGGAAGACTCATGTCTCGGGAAGAGAATGAGATTATGT
* ** *
8888474 TTAAAGGAAGACTCATGTCTC-GAAATGAGCGTGAGATGATGT
1 TTAAAGGAAGACTCATGTCTCGGGAA-GAGAATGAGATTATGT
8888516 TTAAAAAGGAAGACT
1 TT--AAAGGAAGACT
8888531 TGTGGCTCTA
Statistics
Matches: 125, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
41 2 0.02
42 112 0.90
44 11 0.09
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.28
Consensus pattern (42 bp):
TTAAAGGAAGACTCATGTCTCGGGAAGAGAATGAGATTATGT
Found at i:8888516 original size:84 final size:83
Alignment explanation
Indices: 8888259--8888530 Score: 280
Period size: 84 Copynumber: 3.2 Consensus size: 83
8888249 GAGACACTTG
* * * * * *
8888259 ATGTATAAATGGAAGACTCATGTCTC-AGATTGAGCATGAGAATT-TGTATGAATGGAAGACTCG
1 ATGTTTAAA-GGAAGACTCATGTCTCGGGA-TGAGAATGAG-ATTATGT-TTAAAGGAAGACTCA
* *
8888322 TGACTCGAAATGAACATGAGAAT
62 TGTCTCGAAATGAGCATGAG-AT
* * *
8888345 AT-ATTAAAGGAAGACTTATGTCTCGGGAAGAGAATGAGATTATGTTTAAAGGAAGACTCATGTC
1 ATGTTTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATTATGTTTAAAGGAAGACTCATGTC
** * *
8888409 TCGGGATGAGAATTAGATT
66 TCGAAATGAGCATGAGA-T
* *
8888428 ATGTTTGAAGGAAGAATCATGTCTCGGGATGAGAATGAGATTATGTTTAAAGGAAGACTCATGTC
1 ATGTTTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATTATGTTTAAAGGAAGACTCATGTC
*
8888493 TCGAAATGAGCGTGAGAT
66 TCGAAATGAGCATGAGAT
8888511 GATGTTTAAAAAGGAAGACT
1 -ATGTTT--AAAGGAAGACT
8888531 TGTGGCTCTA
Statistics
Matches: 152, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
82 1 0.01
83 33 0.22
84 101 0.66
85 6 0.04
86 11 0.07
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (83 bp):
ATGTTTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATTATGTTTAAAGGAAGACTCATGTC
TCGAAATGAGCATGAGAT
Found at i:8896139 original size:57 final size:57
Alignment explanation
Indices: 8896008--8896225 Score: 267
Period size: 57 Copynumber: 3.8 Consensus size: 57
8895998 TTCCATAGCC
* * * * * * * *
8896008 TTACGCTTTAACCTAGCCGTAAGCAAAT-CAAAGCTCTACCCGAGCTATTCGTGGAT
1 TTACGCTCTAACCGAGACGTAAGCAAATCCATAGCTCTACCCGAGCTGTACATGGAA
* * *
8896064 TTATGCTCAAATCGAGACGTAAGCAAATCCATAGCTCTACCCGAGCTGTACATGGAA
1 TTACGCTCTAACCGAGACGTAAGCAAATCCATAGCTCTACCCGAGCTGTACATGGAA
* * *
8896121 TTACGCTCTGACCAAGACGTAAGCAAATCCATAGCTCTACCCGAGCTGTACATGGCA
1 TTACGCTCTAACCGAGACGTAAGCAAATCCATAGCTCTACCCGAGCTGTACATGGAA
* * * *
8896178 TTACGATCTAACCGAGACATAAGCAAATCTATAGCTCTACTCGAGCTG
1 TTACGCTCTAACCGAGACGTAAGCAAATCCATAGCTCTACCCGAGCTG
8896226 CCCTTTAATG
Statistics
Matches: 138, Mismatches: 23, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
56 22 0.16
57 116 0.84
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (57 bp):
TTACGCTCTAACCGAGACGTAAGCAAATCCATAGCTCTACCCGAGCTGTACATGGAA
Found at i:8897122 original size:100 final size:98
Alignment explanation
Indices: 8896949--8897146 Score: 360
Period size: 100 Copynumber: 2.0 Consensus size: 98
8896939 TTAGGTTTAA
* *
8896949 CCGTTGGAGAAGAGTGAGGAAGAAGAAGATGAAATTATCATCATTTTATTTCTTTTAATTTTAAT
1 CCGTTGGAGAAGAGTAAGGAAGAAGAAGAAGAAATTATCATCATTTTATTTCTTTTAATTTTAAT
8897014 TTATATACTAGGTTTTTTTTTTAATTTCTAGGACT
66 TTATATACTAGG--TTTTTTTTAATTTCTAGGACT
8897049 CCGTTGGAGAAGAGTAAGGAAGAAGAAGAAGAAATTATCATCATTTTATTTCTTTTAATTTTAAT
1 CCGTTGGAGAAGAGTAAGGAAGAAGAAGAAGAAATTATCATCATTTTATTTCTTTTAATTTTAAT
8897114 TTATATACTAGGTTTTTTTTAATTTCTAGGACT
66 TTATATACTAGGTTTTTTTTAATTTCTAGGACT
8897147 TTCTCCATTA
Statistics
Matches: 96, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
98 21 0.22
100 75 0.78
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (98 bp):
CCGTTGGAGAAGAGTAAGGAAGAAGAAGAAGAAATTATCATCATTTTATTTCTTTTAATTTTAAT
TTATATACTAGGTTTTTTTTAATTTCTAGGACT
Found at i:8898059 original size:43 final size:43
Alignment explanation
Indices: 8897998--8898081 Score: 168
Period size: 43 Copynumber: 2.0 Consensus size: 43
8897988 ATCTTCATTA
8897998 TTGTTCATCTTCTAAAGGTCCTCCTACACACTCGTAAAGTCTG
1 TTGTTCATCTTCTAAAGGTCCTCCTACACACTCGTAAAGTCTG
8898041 TTGTTCATCTTCTAAAGGTCCTCCTACACACTCGTAAAGTC
1 TTGTTCATCTTCTAAAGGTCCTCCTACACACTCGTAAAGTC
8898082 CGTTAGCCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.35
Consensus pattern (43 bp):
TTGTTCATCTTCTAAAGGTCCTCCTACACACTCGTAAAGTCTG
Found at i:8898547 original size:21 final size:19
Alignment explanation
Indices: 8898522--8898561 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
8898512 CCTAAATATC
*
8898522 TATTTTACTTTAGTTTTAAAT
1 TATTTTA-TTTA-ATTTAAAT
8898543 TATTTTATTTAATTTAAAT
1 TATTTTATTTAATTTAAAT
8898562 GTTGTATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 4 0.22
21 7 0.39
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TATTTTATTTAATTTAAAT
Found at i:8899383 original size:37 final size:37
Alignment explanation
Indices: 8899335--8899465 Score: 149
Period size: 37 Copynumber: 3.6 Consensus size: 37
8899325 TTGAGATTTA
* * *
8899335 ATTT-CATGTTAAACATGCCCTATATAATATTATTCA
1 ATTTGCATGTTAAACATGCCCTACATGATATTATTCG
* * *
8899371 ATTTTCATGTTAAACATGCCGTACATGTTATTATTCG
1 ATTTGCATGTTAAACATGCCCTACATGATATTATTCG
* **
8899408 ATTTGCATATTAAACATATCCTACATGATATTA-TCTG
1 ATTTGCATGTTAAACATGCCCTACATGATATTATTC-G
*
8899445 ATTTGCATGTTCAACATGCCC
1 ATTTGCATGTTAAACATGCCC
8899466 ATTGTGACAA
Statistics
Matches: 78, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
36 6 0.08
37 72 0.92
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (37 bp):
ATTTGCATGTTAAACATGCCCTACATGATATTATTCG
Found at i:8902801 original size:21 final size:22
Alignment explanation
Indices: 8902775--8902815 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8902765 ACAAAATGTG
*
8902775 AGGATCTTGTGAG-GTTCTACA
1 AGGATCTTATGAGTGTTCTACA
8902796 AGGATCTTATGAGTGTTCTA
1 AGGATCTTATGAGTGTTCTA
8902816 ATCGCCTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (22 bp):
AGGATCTTATGAGTGTTCTACA
Found at i:8904582 original size:52 final size:52
Alignment explanation
Indices: 8904485--8904775 Score: 388
Period size: 52 Copynumber: 5.6 Consensus size: 52
8904475 TTCCCGTTTA
* * * * * *
8904485 ATACTCATGATGACACAAAGTCATCGAACCTTA-AATCCGTAAAAGGATCCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCTGT-AAAGGATTCAT
* *
8904537 ATGCTCATGATGACACATAGTCATCGGACCTCATAATCTGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCTGTAAAGGATTCAT
* * * **
8904589 ATACTCACGATGATACATAGTCATCAGACCTTATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCTGTAAAGGATTCAT
* * *
8904641 ATACTCACGATGACAGATAGTCATTGGACCTCATAATTTGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCTGTAAAGGATTCAT
**
8904693 ATACTCGTGATGACACATAGTCATCGGACCTCATAATCCT-TAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAAT-CTGTAAAGGATTCAT
8904745 ATACTCACGATGACACATAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
8904776 TTTTGCATTT
Statistics
Matches: 209, Mismatches: 28, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
52 202 0.97
53 7 0.03
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCTGTAAAGGATTCAT
Found at i:8911157 original size:58 final size:58
Alignment explanation
Indices: 8911087--8911272 Score: 284
Period size: 58 Copynumber: 3.2 Consensus size: 58
8911077 AAAAAAATAT
*
8911087 AGATACAGTTACGAATACAGTCATGCCACAGATACAGTTACAAATACAATTATGTCAG
1 AGATACAGTTACGAATACAGTCATGCCACAGATACAGTTACAGATACAATTATGTCAG
8911145 AGATACAGTTACGAATACAGTCATGCCACAGATACAGTTACAGATACAATTATGTCAG
1 AGATACAGTTACGAATACAGTCATGCCACAGATACAGTTACAGATACAATTATGTCAG
* ** ** * *
8911203 AGATACAGTTA-TAGATACAGTCATGTTACAGATACAGTTTTAGATACAATCATGTCAC
1 AGATACAGTTACGA-ATACAGTCATGCCACAGATACAGTTACAGATACAATTATGTCAG
8911261 AGATACAGTTAC
1 AGATACAGTTAC
8911273 AGACGCAAAC
Statistics
Matches: 118, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
57 1 0.01
58 117 0.99
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (58 bp):
AGATACAGTTACGAATACAGTCATGCCACAGATACAGTTACAGATACAATTATGTCAG
Found at i:8911285 original size:29 final size:29
Alignment explanation
Indices: 8911087--8911308 Score: 225
Period size: 29 Copynumber: 7.7 Consensus size: 29
8911077 AAAAAAATAT
* *
8911087 AGATACAGTTAC-GAATACAGTCATGCCAC
1 AGATACAGTTACAG-ATACAATCATGTCAC
* * *
8911116 AGATACAGTTACAAATACAATTATGTCAG
1 AGATACAGTTACAGATACAATCATGTCAC
* *
8911145 AGATACAGTTAC-GAATACAGTCATGCCAC
1 AGATACAGTTACAG-ATACAATCATGTCAC
* *
8911174 AGATACAGTTACAGATACAATTATGTCAG
1 AGATACAGTTACAGATACAATCATGTCAC
* * *
8911203 AGATACAGTTATAGATACAGTCATGTTAC
1 AGATACAGTTACAGATACAATCATGTCAC
**
8911232 AGATACAGTTTTAGATACAATCATGTCAC
1 AGATACAGTTACAGATACAATCATGTCAC
** *
8911261 AGATACAGTTACAGACGCAAACATGAT-AC
1 AGATACAGTTACAGATACAATCATG-TCAC
* *
8911290 AAATATAGTTACAGATACA
1 AGATACAGTTACAGATACA
8911309 GACGTGTTAC
Statistics
Matches: 158, Mismatches: 31, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
29 156 0.99
30 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (29 bp):
AGATACAGTTACAGATACAATCATGTCAC
Found at i:8911306 original size:58 final size:58
Alignment explanation
Indices: 8911087--8911308 Score: 259
Period size: 58 Copynumber: 3.8 Consensus size: 58
8911077 AAAAAAATAT
** *
8911087 AGATACAGTTAC-GAATACAGTCATGCCACAGATACAGTTACAAATACAATTATGTCAG
1 AGATACAGTTACAG-ATACAGTCATGATACAGATACAGTTACAGATACAATTATGTCAG
**
8911145 AGATACAGTTAC-GAATACAGTCATGCCACAGATACAGTTACAGATACAATTATGTCAG
1 AGATACAGTTACAG-ATACAGTCATGATACAGATACAGTTACAGATACAATTATGTCAG
* * ** * *
8911203 AGATACAGTTATAGATACAGTCATGTTACAGATACAGTTTTAGATACAATCATGTCAC
1 AGATACAGTTACAGATACAGTCATGATACAGATACAGTTACAGATACAATTATGTCAG
** ** * *
8911261 AGATACAGTTACAGACGCAAACATGATACAAATATAGTTACAGATACA
1 AGATACAGTTACAGATACAGTCATGATACAGATACAGTTACAGATACA
8911309 GACGTGTTAC
Statistics
Matches: 145, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
58 144 0.99
59 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (58 bp):
AGATACAGTTACAGATACAGTCATGATACAGATACAGTTACAGATACAATTATGTCAG
Found at i:8912487 original size:42 final size:41
Alignment explanation
Indices: 8912427--8912574 Score: 170
Period size: 42 Copynumber: 3.5 Consensus size: 41
8912417 TCACTTGCTA
*
8912427 TATAAATGGAAGACTCATGTCTTGGGATAAGCGTGAGATTATG
1 TATAAA-GGAAGACTCATGTCTT-GGATAAGCATGAGATTATG
* * * *
8912470 TATAAAGGAAGACTCATGACTCAGAATGAGCATGAGATTATG
1 TATAAAGGAAGACTCATGTCT-TGGATAAGCATGAGATTATG
* *
8912512 TTTAAAGGAAGACTCATGTCTTGGAAAGAGCATGAGATTATG
1 TATAAAGGAAGACTCATGTCTTGGATA-AGCATGAGATTATG
* * *
8912554 TTTAAAGGAAGAATTATGTCT
1 TATAAAGGAAGACTCATGTCT
8912575 CGGTGGAGAA
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
41 2 0.02
42 82 0.91
43 6 0.07
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.29
Consensus pattern (41 bp):
TATAAAGGAAGACTCATGTCTTGGATAAGCATGAGATTATG
Found at i:8912560 original size:21 final size:21
Alignment explanation
Indices: 8912497--8912560 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 21
8912487 GACTCAGAAT
8912497 GAGCATGAGATTATGTTTAAA
1 GAGCATGAGATTATGTTTAAA
*
8912518 G-G-A--AGACTCATGTCTTGGAAA
1 GAGCATGAGA-TTATGT-TT--AAA
8912539 GAGCATGAGATTATGTTTAAA
1 GAGCATGAGATTATGTTTAAA
8912560 G
1 G
8912561 GAAGAATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
17 3 0.09
18 5 0.15
19 3 0.09
20 1 0.03
21 9 0.27
22 1 0.03
23 3 0.09
24 5 0.15
25 3 0.09
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.30
Consensus pattern (21 bp):
GAGCATGAGATTATGTTTAAA
Done.