Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 24 of 208
Found at i:6810643 original size:27 final size:27
Alignment explanation
Indices: 6810612--6810704 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
6810602 CGCCTATCTC
**
6810612 AGAGGCGCCAATGGTGGTGCC-TATCTG
1 AGAGGCGCCAATATTGGTGCCATA-CTG
* * *
6810639 GGAGGCGCCATTATTGGTGCCATACTA
1 AGAGGCGCCAATATTGGTGCCATACTG
*
6810666 AGAGGCGCCATTATTGGTGCCATACTG
1 AGAGGCGCCAATATTGGTGCCATACTG
6810693 AGAGGCGCCAAT
1 AGAGGCGCCAAT
6810705 GCTCTGATTT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 55 0.96
28 2 0.04
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.23
Consensus pattern (27 bp):
AGAGGCGCCAATATTGGTGCCATACTG
Found at i:6810816 original size:22 final size:23
Alignment explanation
Indices: 6810763--6810816 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
6810753 TACAGAAACG
*
6810763 GAAGAAATAAGAAGGAAGGAAGCA
1 GAAGAAA-AAGAAGGAAGGAAGAA
6810787 GAAG-AAAAGAAGGAAGGAA-AA
1 GAAGAAAAAGAAGGAAGGAAGAA
6810808 GAAGAAAAA
1 GAAGAAAAA
6810817 AATAAGGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 5 0.18
22 17 0.61
23 2 0.07
24 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.31, T:0.02
Consensus pattern (23 bp):
GAAGAAAAAGAAGGAAGGAAGAA
Found at i:6810818 original size:24 final size:22
Alignment explanation
Indices: 6810763--6810823 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 22
6810753 TACAGAAACG
*
6810763 GAAG-AAATAAGAAGGAAGGAA
1 GAAGAAAAAAAGAAGGAAGGAA
* *
6810784 GCAGAAGAAAAGAAGGAAGGAAAA
1 GAAGAAAAAAAGAAGGAAGG--AA
*
6810808 GAAGAAAAAAATAAGG
1 GAAGAAAAAAAGAAGG
6810824 TATTTTGGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 3 0.10
22 13 0.42
24 15 0.48
ACGTcount: A:0.64, C:0.02, G:0.31, T:0.03
Consensus pattern (22 bp):
GAAGAAAAAAAGAAGGAAGGAA
Found at i:6812001 original size:16 final size:15
Alignment explanation
Indices: 6811970--6812011 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
6811960 ACAAAATCAA
*
6811970 ATAAAATTTAATTAT
1 ATAAAAGTTAATTAT
6811985 ATAAAAGTTACATTAT
1 ATAAAAGTTA-ATTAT
*
6812001 ATAAAAATTAA
1 ATAAAAGTTAA
6812012 ATGAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAAAGTTAATTAT
Found at i:6812091 original size:38 final size:38
Alignment explanation
Indices: 6812048--6812129 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
6812038 AAAAAGTCAG
*
6812048 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
1 TTATAATTAAAATTTTAATAAAATGATTTTTAATTTTT
*
6812086 TTATAATTAAAATTTTAATGAAATGATTTTTAATTTTT
1 TTATAATTAAAATTTTAATAAAATGATTTTTAATTTTT
6812124 TTATAA
1 TTATAA
6812130 ATTTTATATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (38 bp):
TTATAATTAAAATTTTAATAAAATGATTTTTAATTTTT
Found at i:6812379 original size:8 final size:8
Alignment explanation
Indices: 6812368--6812550 Score: 69
Period size: 8 Copynumber: 22.6 Consensus size: 8
6812358 NNATATCCCG
6812368 ATATTACA
1 ATATTACA
6812376 ATATTCATACA
1 ATA-T--TACA
*
6812387 AAATTACA
1 ATATTACA
6812395 ATATTACA
1 ATATTACA
6812403 ATATT-C-
1 ATATTACA
** *
6812409 ATACAAAA
1 ATATTACA
* *
6812417 AAATTGCA
1 ATATTACA
6812425 ATATTCATACA
1 ATA-T--TACA
* *
6812436 AAATTATA
1 ATATTACA
6812444 ATATTACA
1 ATATTACA
6812452 ATATT-C-
1 ATATTACA
*
6812458 ATA--AAA
1 ATATTACA
*
6812464 AAATTACA
1 ATATTACA
6812472 ATATTCATACA
1 ATA-T--TACA
*
6812483 AAATTACA
1 ATATTACA
6812491 ATATTACA
1 ATATTACA
6812499 ATATT-C-
1 ATATTACA
* *
6812505 ATA-AAAA
1 ATATTACA
*
6812512 AAATTACA
1 ATATTACA
6812520 ATATCATACA
1 ATAT--TACA
*
6812530 AAATTACA
1 ATATTACA
6812538 ATATTACA
1 ATATTACA
6812546 ATATT
1 ATATT
6812551 CATACAAAAA
Statistics
Matches: 125, Mismatches: 30, Indels: 40
0.64 0.15 0.21
Matches are distributed among these distances:
6 11 0.09
7 5 0.04
8 79 0.63
9 3 0.02
10 10 0.08
11 17 0.14
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.33
Consensus pattern (8 bp):
ATATTACA
Found at i:6812447 original size:49 final size:49
Alignment explanation
Indices: 6812370--6812774 Score: 482
Period size: 49 Copynumber: 8.4 Consensus size: 49
6812360 ATATCCCGAT
6812370 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAA
* *
6812419 ATTGCAATATTCATACAAAATTATAATATTACAATATTCAT--AAAAAA
1 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAA
6812466 ATTACAATATTCATACAAAATTACAATATTACAATATTCATA-AAAAAA
1 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAA
6812514 ATTACAATA-TCATACAAAATTACAATATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAA
* * *
6812562 ATTGCAATATTCATACAAAACTATAATATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAA
6812611 ATTACAATATTCATAC------A-AA-ATTACAATATTCATAC-AAAAA
1 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAA
** * ** **
6812651 ATTACAATATTCATAC-AAATTACTAAT-CCAAAACTATAAATACAAATTTA
1 ATTACAATATTCATACAAAATTAC-AATATTACAA-TATTCATACAAA-AAA
* * *
6812701 ATTATAA-ATTAATTACAATATTCATACAATATTACAATATTCATACAAAAAA
1 ATTACAATATTCA-TACAA-AAT--TACAATATTACAATATTCATACAAAAAA
* *
6812753 GTTAAAATATTCATACAAAATT
1 ATTACAATATTCATACAAAATT
6812775 CTAATCTAAA
Statistics
Matches: 306, Mismatches: 29, Indels: 42
0.81 0.08 0.11
Matches are distributed among these distances:
40 21 0.07
41 16 0.05
42 2 0.01
43 1 0.00
45 1 0.00
47 82 0.27
48 36 0.12
49 98 0.32
50 10 0.03
51 3 0.01
52 13 0.04
53 17 0.06
54 6 0.02
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (49 bp):
ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAA
Found at i:6812560 original size:96 final size:97
Alignment explanation
Indices: 6812370--6812774 Score: 469
Period size: 96 Copynumber: 4.2 Consensus size: 97
6812360 ATATCCCGAT
*
6812370 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATAC
1 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTACAATA-TCATAC
*
6812435 AAAATTATAATATTACAATATTCAT--AAAAAA
65 AAAATTACAATATTACAATATTCATACAAAAAA
6812466 ATTACAATATTCATACAAAATTACAATATTACAATATTCATA-AAAAAAATTACAATATCATACA
1 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTACAATATCATACA
6812530 AAATTACAATATTACAATATTCATACAAAAAA
66 AAATTACAATATTACAATATTCATACAAAAAA
* * *
6812562 ATTGCAATATTCATACAAAACTATAATATTACAATATTCATACAAAAAAATTACAATAT--T-C-
1 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTACAATATCATACA
*
6812623 --A-TACAAAATTACAATATTCATAC-AAAAA
66 AAATTACAATATTACAATATTCATACAAAAAA
** * ** ** * *
6812651 ATTACAATATTCATAC-AAATTACTAAT-CCAAAACTATAAATACAAATTTAATTATAA-ATTAA
1 ATTACAATATTCATACAAAATTAC-AATATTACAA-TATTCATACAAA-AAAATTACAATA-TCA
*
6812713 TTACAATATTCATACAATATTACAATATTCATACAAAAAA
62 -TACAA-AAT--TACAATATTACAATATTCATACAAAAAA
* *
6812753 GTTAAAATATTCATACAAAATT
1 ATTACAATATTCATACAAAATT
6812775 CTAATCTAAA
Statistics
Matches: 268, Mismatches: 21, Indels: 33
0.83 0.07 0.10
Matches are distributed among these distances:
88 8 0.03
89 34 0.13
90 29 0.11
91 1 0.00
93 1 0.00
94 32 0.12
95 15 0.06
96 87 0.32
97 16 0.06
101 21 0.08
102 19 0.07
103 5 0.02
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (97 bp):
ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTACAATATCATACA
AAATTACAATATTACAATATTCATACAAAAAA
Found at i:6812563 original size:30 final size:26
Alignment explanation
Indices: 6812368--6812661 Score: 222
Period size: 27 Copynumber: 12.2 Consensus size: 26
6812358 NNATATCCCG
6812368 ATATTACAATATTCATACAAAATTACA
1 ATATTACAATA-TCATACAAAATTACA
6812395 ATATTACAATATTCATAC-AAA--A-A
1 ATATTACAATA-TCATACAAAATTACA
* *
6812418 A-ATTGCAATATTCATACAAAATTATA
1 ATATTACAATA-TCATACAAAATTACA
6812444 ATATTACAATAT--T-CATAAA--A-A
1 ATATTACAATATCATACA-AAATTACA
6812465 A-ATTACAATATTCATACAAAATTACA
1 ATATTACAATA-TCATACAAAATTACA
6812491 ATATTACAATATTCAT--AAAA--A-A
1 ATATTACAATA-TCATACAAAATTACA
6812513 A-ATTACAATATCATACAAAATTACA
1 ATATTACAATATCATACAAAATTACA
6812538 ATATTACAATATTCATAC-AAA--A-A
1 ATATTACAATA-TCATACAAAATTACA
* * *
6812561 A-ATTGCAATATTCATACAAAACTATA
1 ATATTACAATA-TCATACAAAATTACA
6812587 ATATTACAATATTCATAC-AAA--A-A
1 ATATTACAATA-TCATACAAAATTACA
6812610 A-ATTACAATATTCATACAAAATTACA
1 ATATTACAATA-TCATACAAAATTACA
6812636 ATATT-C-ATA-CA-A-AAAATTACA
1 ATATTACAATATCATACAAAATTACA
6812657 ATATT
1 ATATT
6812662 CATACAAATT
Statistics
Matches: 232, Mismatches: 4, Indels: 68
0.76 0.01 0.22
Matches are distributed among these distances:
20 13 0.06
21 26 0.11
22 54 0.23
23 24 0.10
24 10 0.04
25 13 0.06
26 28 0.12
27 64 0.28
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (26 bp):
ATATTACAATATCATACAAAATTACA
Found at i:6812725 original size:101 final size:101
Alignment explanation
Indices: 6812610--6812791 Score: 305
Period size: 101 Copynumber: 1.8 Consensus size: 101
6812600 CATACAAAAA
*
6812610 AATTACAATATTCATACAAAATTACAATATTCATACAAAAAA-TTACAATATTCATAC-AAATTA
1 AATTACAATATTCATACAAAATTACAATATTCATACAAAAAAGTTAAAATATTCATACAAAATT-
6812673 CTAATCCAAAACTATAAATACAAATTTAATTATAAATT
65 CTAAT-CAAAACTATAAATACAAATTTAATTATAAATT
*
6812711 AATTACAATATTCATACAATATTACAATATTCATACAAAAAAGTTAAAATATTCATACAAAATTC
1 AATTACAATATTCATACAAAATTACAATATTCATACAAAAAAGTTAAAATATTCATACAAAATTC
*
6812776 TAATCTAAACTATAAA
66 TAATCAAAACTATAAA
6812792 CACTAAATAT
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
101 52 0.68
102 19 0.25
103 5 0.07
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (101 bp):
AATTACAATATTCATACAAAATTACAATATTCATACAAAAAAGTTAAAATATTCATACAAAATTC
TAATCAAAACTATAAATACAAATTTAATTATAAATT
Found at i:6812858 original size:12 final size:12
Alignment explanation
Indices: 6812841--6812866 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6812831 AAAAATTCAC
6812841 AATATCTTCTAA
1 AATATCTTCTAA
6812853 AATATCTTCTAA
1 AATATCTTCTAA
6812865 AA
1 AA
6812867 AATTCACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATCTTCTAA
Found at i:6812950 original size:3 final size:3
Alignment explanation
Indices: 6812942--6812982 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
6812932 TTTTCTTTCT
*
6812942 TTC TTC TTC TTC TTC -TC TTC TTC TTC TTC TCC TTC -TC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
6812983 CCTTTCTCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:6812960 original size:14 final size:14
Alignment explanation
Indices: 6812938--6812982 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
6812928 CCTTTTTTCT
6812938 TTCTT-TCTTCTTC
1 TTCTTCTCTTCTTC
6812951 TTCTTCTCTTCTTC
1 TTCTTCTCTTCTTC
6812965 TTCTTCTCCTTC-TC
1 TTCTTCT-CTTCTTC
6812979 TTCT
1 TTCT
6812983 CCTTTCTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 5 0.17
14 21 0.70
15 4 0.13
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (14 bp):
TTCTTCTCTTCTTC
Found at i:6812992 original size:14 final size:14
Alignment explanation
Indices: 6812938--6812994 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
6812928 CCTTTTTTCT
6812938 TTCTTTCT-TCTTC
1 TTCTTTCTCTCTTC
6812951 TTC-TTCTCTTCTTC
1 TTCTTTCTC-TCTTC
6812965 TTCTTCTCCTTCTCTTC
1 TTCTT-T-C-TCTCTTC
*
6812982 TCCTTTCTCTCTT
1 TTCTTTCTCTCTT
6812995 TTTTTTTTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
12 4 0.11
13 3 0.08
14 14 0.38
15 2 0.05
16 2 0.05
17 10 0.27
18 2 0.05
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (14 bp):
TTCTTTCTCTCTTC
Found at i:6812992 original size:20 final size:20
Alignment explanation
Indices: 6812944--6812986 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
6812934 TTCTTTCTTT
* *
6812944 CTTCTTCTTCTTCTCTTCTT
1 CTTCTTCTCCTTCTCTTCTC
6812964 CTTCTTCTCCTTCTCTTCTC
1 CTTCTTCTCCTTCTCTTCTC
6812984 CTT
1 CTT
6812987 TCTCTCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (20 bp):
CTTCTTCTCCTTCTCTTCTC
Found at i:6820811 original size:17 final size:17
Alignment explanation
Indices: 6820791--6820836 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
6820781 TATATTTTTT
6820791 TAATTAATAATTTAAAA
1 TAATTAATAATTTAAAA
*
6820808 TAA-TAATAATTTATAA
1 TAATTAATAATTTAAAA
6820824 -AATTAAATAATTT
1 TAATT-AATAATTT
6820837 GTCTTCATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 13 0.50
17 11 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATTAATAATTTAAAA
Found at i:6823152 original size:18 final size:18
Alignment explanation
Indices: 6823122--6823156 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6823112 ATGAATAAAA
6823122 AATAATAATTTTTTTTTG
1 AATAATAATTTTTTTTTG
6823140 AATAA-AATATTTTTTTT
1 AATAATAAT-TTTTTTTT
6823157 ATATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
AATAATAATTTTTTTTTG
Found at i:6823174 original size:12 final size:11
Alignment explanation
Indices: 6823145--6823179 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
6823135 TTTTGAATAA
6823145 AATATTTTTTT
1 AATATTTTTTT
*
6823156 TATATTTTTTT
1 AATATTTTTTT
*
6823167 AATAATTTTTT
1 AATATTTTTTT
6823178 AA
1 AA
6823180 AAAAATACGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
AATATTTTTTT
Found at i:6823216 original size:5 final size:5
Alignment explanation
Indices: 6823206--6823230 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6823196 ATACGGTCAA
6823206 CGGGT CGGGT CGGGT CGGGT CGGGT
1 CGGGT CGGGT CGGGT CGGGT CGGGT
6823231 GGCGCCTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.60, T:0.20
Consensus pattern (5 bp):
CGGGT
Found at i:6823275 original size:27 final size:27
Alignment explanation
Indices: 6823245--6823306 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
6823235 CCTATCAGGT
6823245 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
*
6823272 AGGCGCCAATGAAGGTGCCTTATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
6823299 AGGCGCCA
1 AGGCGCCA
6823307 TTACTAGACC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.29, C:0.23, G:0.34, T:0.15
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCATAGAG
Found at i:6823491 original size:21 final size:21
Alignment explanation
Indices: 6823467--6823515 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
6823457 AATAAACACC
6823467 AAAAAATTTTTAAAAATAAAA
1 AAAAAATTTTTAAAAATAAAA
*
6823488 AAAAGCA-TTTTAAAAATAAAA
1 AAAA-AATTTTTAAAAATAAAA
*
6823509 ATAAAAT
1 AAAAAAT
6823516 ATATTTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAAATTTTTAAAAATAAAA
Found at i:6823797 original size:19 final size:19
Alignment explanation
Indices: 6823775--6823812 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6823765 AATTTAATTT
*
6823775 ATTAGTAATAAATTACTAA
1 ATTACTAATAAATTACTAA
*
6823794 ATTACTAATAAGTTACTAA
1 ATTACTAATAAATTACTAA
6823813 TAAATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTACTAATAAATTACTAA
Found at i:6823942 original size:27 final size:27
Alignment explanation
Indices: 6823911--6823992 Score: 119
Period size: 27 Copynumber: 3.0 Consensus size: 27
6823901 TACCGACATT
6823911 CAATATTCATACAAAATTATAATATTA
1 CAATATTCATACAAAATTATAATATTA
* *
6823938 CAATATTCATACAAAATTACAAAATTA
1 CAATATTCATACAAAATTATAATATTA
*
6823965 CAATATTCATATAAAATTAGTCAATATT
1 CAATATTCATACAAAATTA-T-AATATT
6823993 TTTTGTTATT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 43 0.90
29 5 0.10
ACGTcount: A:0.51, C:0.12, G:0.01, T:0.35
Consensus pattern (27 bp):
CAATATTCATACAAAATTATAATATTA
Found at i:6824277 original size:19 final size:19
Alignment explanation
Indices: 6824255--6824292 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6824245 TATAAATTTA
*
6824255 TTAGTAACTTATTAGTAAT
1 TTAGTAACTTATTACTAAT
*
6824274 TTAGTAATTTATTACTAAT
1 TTAGTAACTTATTACTAAT
6824293 AAATTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (19 bp):
TTAGTAACTTATTACTAAT
Found at i:6824544 original size:27 final size:28
Alignment explanation
Indices: 6824506--6824582 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 28
6824496 CCGGCCCGGC
*
6824506 CCATTGGCGCCTCTCAGAAT-GGCACCA
1 CCATTGGCGCCTCCCAGAATAGGCACCA
*
6824533 CCATTGGCGCCTCCCAG-GTAGGCACCA
1 CCATTGGCGCCTCCCAGAATAGGCACCA
6824560 CCATTGGCGCCTCCCAG-ATAGGC
1 CCATTGGCGCCTCCCAGAATAGGC
6824583 GCCAATATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.19, C:0.39, G:0.25, T:0.17
Consensus pattern (28 bp):
CCATTGGCGCCTCCCAGAATAGGCACCA
Found at i:6841630 original size:3 final size:3
Alignment explanation
Indices: 6841622--6841660 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
6841612 TCAAAGCAAT
6841622 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
6841661 AGGAAATGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:6842724 original size:48 final size:48
Alignment explanation
Indices: 6842653--6842747 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
6842643 TTCTTTGCTT
6842653 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
** *
6842701 AAAAACGCCTAAGTTGGCCTAACTTGCAATGATAAAGGATTCAACAG
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAG
6842748 AATTCCCTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
Found at i:6842992 original size:36 final size:36
Alignment explanation
Indices: 6842952--6843020 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
6842942 ATCAAAGGCT
*
6842952 ACAATTAAAAGTTGTATACAATTAGAACTCTAAAAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAAAC
*
6842988 ACAATTAGAAGCTGTATACAATTAGAACTCTAA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAA
6843021 GATTACATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAAAC
Found at i:6843010 original size:17 final size:17
Alignment explanation
Indices: 6842951--6843014 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
6842941 CATCAAAGGC
* *
6842951 TACAATTAAAAGTTGTA
1 TACAATTAGAAGCTGTA
*
6842968 TACAATTAGAA-CTCTAAAA
1 TACAATTAGAAGCTGT---A
*
6842987 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
6843004 TACAATTAGAA
1 TACAATTAGAA
6843015 CTCTAAGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 2 0.05
17 21 0.57
19 11 0.30
20 3 0.08
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.28
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:6844767 original size:2 final size:2
Alignment explanation
Indices: 6844760--6844804 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
6844750 TTTACAAGAA
6844760 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6844802 CT C
1 CT C
6844805 ACGACAACAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:6850669 original size:23 final size:23
Alignment explanation
Indices: 6850600--6850671 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
6850590 GTATATTAAA
6850600 ATATAATTAAAATCATTTTGATT
1 ATATAATTAAAATCATTTTGATT
** * * *
6850623 ATATAA-T-ATTTTA-ATTGA-A
1 ATATAATTAAAATCATTTTGATT
6850642 ATATAATTAAAATCATTTTGATT
1 ATATAATTAAAATCATTTTGATT
6850665 ATATAAT
1 ATATAAT
6850672 ATTAATATAA
Statistics
Matches: 35, Mismatches: 10, Indels: 8
0.66 0.19 0.15
Matches are distributed among these distances:
19 6 0.17
20 5 0.14
21 6 0.17
22 5 0.14
23 13 0.37
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (23 bp):
ATATAATTAAAATCATTTTGATT
Found at i:6851225 original size:66 final size:69
Alignment explanation
Indices: 6851114--6851243 Score: 194
Period size: 66 Copynumber: 1.9 Consensus size: 69
6851104 TTTGTCTCTC
* * *
6851114 AATTATTTTTATAAAATTTAATTTGCATCTTCAATTCTTTGATAGTGTGTTCTAA-ATTAATATT
1 AATTATTTTTATAAAATGTAATTTGCAACTTCAACTCTTTGATAGTGTGTTCTAATATTAATATT
6851178 GTTT
66 GTTT
* *
6851182 AATT-TTTTTATAAAGTGTAA-TTGCAACTTCAACTCTTTGATAGTGTGTTCTAATTTTAATAT
1 AATTATTTTTATAAAATGTAATTTGCAACTTCAACTCTTTGATAGTGTGTTCTAATATTAATAT
6851244 GTTGCAGTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
66 31 0.55
67 21 0.38
68 4 0.07
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (69 bp):
AATTATTTTTATAAAATGTAATTTGCAACTTCAACTCTTTGATAGTGTGTTCTAATATTAATATT
GTTT
Found at i:6854169 original size:26 final size:27
Alignment explanation
Indices: 6854129--6854210 Score: 87
Period size: 26 Copynumber: 3.0 Consensus size: 27
6854119 TAAGAACATT
*
6854129 TTATGAAATTATATTTAATAATAATTA
1 TTATTAAATTATATTTAATAATAATTA
* *
6854156 TT-TTAAATTGTATTTAATCATATATT-
1 TTATTAAATTATATTTAATAATA-ATTA
* *
6854182 TTAATTAAAATATATTTAATATTAATTA
1 TT-ATTAAATTATATTTAATAATAATTA
6854210 T
1 T
6854211 AGTATCATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
26 19 0.43
27 8 0.18
28 17 0.39
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (27 bp):
TTATTAAATTATATTTAATAATAATTA
Found at i:6854292 original size:18 final size:17
Alignment explanation
Indices: 6854264--6854298 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6854254 ATTATTAAGA
*
6854264 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
6854281 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
6854299 TTAATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:6854600 original size:18 final size:17
Alignment explanation
Indices: 6854572--6854606 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6854562 AATTATAAGA
*
6854572 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
6854589 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
6854607 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:6854836 original size:44 final size:45
Alignment explanation
Indices: 6854771--6854861 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
6854761 ACCTCTTTTC
* * *
6854771 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
6854815 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
6854860 CA
1 CA
6854862 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:6854863 original size:16 final size:16
Alignment explanation
Indices: 6854842--6854877 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
6854832 GATTAGCTAT
6854842 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6854858 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6854874 TACA
1 TACA
6854878 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:6855654 original size:26 final size:26
Alignment explanation
Indices: 6855623--6855694 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
6855613 ATGAATTTTC
6855623 TCAAAATTTTATTGAGGGTAAAA-TCG
1 TCAAAATTTTATTGAGGGTAAAACT-G
* *
6855649 TCAAAATTTGATTGGGGGTAAAACTG
1 TCAAAATTTTATTGAGGGTAAAACTG
*
6855675 TCAAAATTTTACT-AGGGTAA
1 TCAAAATTTTATTGAGGGTAA
6855695 TATTGGGATG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
25 6 0.15
26 33 0.82
27 1 0.03
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTATTGAGGGTAAAACTG
Found at i:6862834 original size:5 final size:5
Alignment explanation
Indices: 6862820--6862862 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
6862810 AAGAATTAAG
6862820 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
6862863 ATAAAACAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.11
5 34 0.89
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:6862922 original size:12 final size:12
Alignment explanation
Indices: 6862905--6862951 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
6862895 GATAGAAACG
*
6862905 AAAGAGAAGGAA
1 AAAGAGAAAGAA
6862917 AAAGAGAAAGAA
1 AAAGAGAAAGAA
6862929 AAAG-GAAAGAA
1 AAAGAGAAAGAA
6862940 AGAATGAGAAAG
1 A-AA-GAGAAAG
6862952 GAGAAACTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 8 0.26
12 17 0.55
13 1 0.03
14 5 0.16
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (12 bp):
AAAGAGAAAGAA
Found at i:6862943 original size:19 final size:19
Alignment explanation
Indices: 6862885--6862953 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
6862875 AATGAAAGAA
*
6862885 AAAGAACAAA-GATAGAAACG
1 AAAGAA-AAAGGAAAGAAA-G
*
6862905 AAAG-AGAAGGAAA-AAGAG
1 AAAGAAAAAGGAAAGAA-AG
6862923 AAAGAAAAAGGAAAGAAAG
1 AAAGAAAAAGGAAAGAAAG
* *
6862942 AATGAGAAAGGA
1 AAAGAAAAAGGA
6862954 GAAACTAGGG
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
18 9 0.22
19 25 0.62
20 6 0.15
ACGTcount: A:0.67, C:0.03, G:0.28, T:0.03
Consensus pattern (19 bp):
AAAGAAAAAGGAAAGAAAG
Found at i:6863191 original size:24 final size:24
Alignment explanation
Indices: 6863164--6863210 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6863154 ATTGAAATGC
6863164 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
6863188 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
6863211 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:6863490 original size:40 final size:40
Alignment explanation
Indices: 6863369--6863508 Score: 110
Period size: 40 Copynumber: 3.5 Consensus size: 40
6863359 GACTTCGAGT
* * ** *
6863369 CGATGTGACACTGGGTGTCAATTTACGACTTC-AGATTAATT
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGA-ATT-ATC
* * * ** *
6863410 CGATGAGGCACTGTGTG-CCAA-T-TTACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
6863447 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
*
6863487 CGATGA-AGCACTGGGTGCCAAA
1 CGATGAGA-CACTGGGTGTCAAA
6863509 CTGGTGTGTT
Statistics
Matches: 76, Mismatches: 18, Indels: 11
0.72 0.17 0.10
Matches are distributed among these distances:
37 16 0.21
38 10 0.13
39 3 0.04
40 33 0.43
41 14 0.18
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
Found at i:6864256 original size:13 final size:13
Alignment explanation
Indices: 6864238--6864267 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6864228 TAAATGATAC
*
6864238 TTTGATGATATGA
1 TTTGATGATATAA
6864251 TTTGATGATATAA
1 TTTGATGATATAA
6864264 TTTG
1 TTTG
6864268 TGGTACCAAT
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:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (13 bp):
TTTGATGATATAA
Found at i:6871786 original size:21 final size:20
Alignment explanation
Indices: 6871762--6871810 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
6871752 GATGAAGCAA
*
6871762 TATTTTTTTAAACTTTTAATG
1 TATTTTTTGAAA-TTTTAATG
* *
6871783 TATTTTTTGAAATTTTTATT
1 TATTTTTTGAAATTTTAATG
6871803 TATTTTTT
1 TATTTTTT
6871811 ATTTCTAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (20 bp):
TATTTTTTGAAATTTTAATG
Found at i:6878229 original size:13 final size:14
Alignment explanation
Indices: 6878211--6878239 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6878201 TATATTTGTC
6878211 TTATTATAT-ATTA
1 TTATTATATAATTA
6878224 TTATTATATAATTA
1 TTATTATATAATTA
6878238 TT
1 TT
6878240 TATATTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATTATATAATTA
Found at i:6885179 original size:89 final size:89
Alignment explanation
Indices: 6884952--6885586 Score: 945
Period size: 89 Copynumber: 7.2 Consensus size: 89
6884942 TTAAGGAGAT
** * * *
6884952 AAGATCTGTAATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCT
1 AAGATCTGTTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
* * * * ***
6885017 ATTTC-ACGCCAATACATGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* *
6885040 AAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCT
1 AAGATCTGTTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
* * **
6885105 GCTTTGCCACCAGTATGGGAAGGT
66 ACTTCGCCACCAGTATGGGAAGAC
* *
6885129 AAGATTTGTTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCT
1 AAGATCTGTTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
* *
6885194 GCTTCGCCACCAGTATGGGAAGGC
66 ACTTCGCCACCAGTATGGGAAGAC
* * * * * *
6885218 AATATTTGCTATCTTTGATCTA-TTTACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCT
1 AAGATCTGTTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
6885282 ACTTCGCCACCAGTATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
*
6885306 AAGATCTGTTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCCGTTTTCTTCGATCT
1 AAGATCTGTTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
6885371 ACTTCGCCACCAGTATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
*
6885395 AAGATCTGTTTT-TTTTATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
1 AAGATCTGTTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
6885459 ACTTCGCCACCAGTATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* *
6885483 AAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
1 AAGATCTGTTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
*
6885548 ACTTCGCCACCAGTATGGGAAGGC
66 ACTTCGCCACCAGTATGGGAAGAC
6885572 AAGATCTG-TTTCTTT
1 AAGATCTGTTTTCTTT
6885587 CAACCTGTTC
Statistics
Matches: 504, Mismatches: 40, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
88 235 0.47
89 269 0.53
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (89 bp):
AAGATCTGTTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
ACTTCGCCACCAGTATGGGAAGAC
Found at i:6885264 original size:177 final size:177
Alignment explanation
Indices: 6884952--6885586 Score: 941
Period size: 177 Copynumber: 3.6 Consensus size: 177
6884942 TTAAGGAGAT
** * * *
6884952 AAGATCTGTAATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCT
1 AAGATCTGTTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
* * * * *** * *
6885017 ATTTC-ACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAA
66 ACTTCGCCACCAGTATGGGAAGACAAGATCTG-TTTCTTTGATCTACTTCACGCCAGTACATGAA
* * **
6885081 GACAAGATCTGTTTTCTTCGATCTGCTTTGCCACCAGTATGGGAAGGT
130 GACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
* *
6885129 AAGATTTGTTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCT
1 AAGATCTGTTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
* * * * * *
6885194 GCTTCGCCACCAGTATGGGAAGGCAATATTTGCTATCTTTGATCTA-TTTACGCCAGTACATGAA
66 ACTTCGCCACCAGTATGGGAAGACAAGATCTG-TTTCTTTGATCTACTTCACGCCAGTACATGAA
*
6885258 GACAAGATCTGTTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGAC
130 GACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
*
6885306 AAGATCTGTTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCCGTTTTCTTCGATCT
1 AAGATCTGTTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
* *
6885371 ACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTTTTTTATCTACTTCACGCCAGTACATGAAG
66 ACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAG
6885436 ACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
131 ACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
* *
6885483 AAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
1 AAGATCTGTTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
*
6885548 ACTTCGCCACCAGTATGGGAAGGCAAGATCTGTTTCTTT
66 ACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTCTTT
6885587 CAACCTGTTC
Statistics
Matches: 411, Mismatches: 45, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
176 10 0.02
177 373 0.91
178 28 0.07
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (177 bp):
AAGATCTGTTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
ACTTCGCCACCAGTATGGGAAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAG
ACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
Found at i:6893617 original size:20 final size:20
Alignment explanation
Indices: 6893589--6893628 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6893579 TAAAGGTCTA
*
6893589 TAATCCATATAATGTGATGC
1 TAATCCATATAATGCGATGC
* *
6893609 TAATGCATATGATGCGATGC
1 TAATCCATATAATGCGATGC
6893629 ATGAGATGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (20 bp):
TAATCCATATAATGCGATGC
Found at i:6893917 original size:18 final size:20
Alignment explanation
Indices: 6893880--6893917 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6893870 TGAACCACAG
6893880 CTTCTTCCATACTGTGATCC
1 CTTCTTCCATACTGTGATCC
*
6893900 CTTCTTGCA-ACT-TGATCC
1 CTTCTTCCATACTGTGATCC
6893918 TGGAGATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 8 0.47
ACGTcount: A:0.16, C:0.34, G:0.11, T:0.39
Consensus pattern (20 bp):
CTTCTTCCATACTGTGATCC
Found at i:6897478 original size:2 final size:2
Alignment explanation
Indices: 6897473--6897516 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
6897463 AAAAGAATGC
6897473 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6897514 AT A
1 AT A
6897517 AAAGCCATGC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6905197 original size:2 final size:2
Alignment explanation
Indices: 6905190--6905233 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
6905180 TTTTGAGCCT
6905190 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6905232 TA
1 TA
6905234 ANNNNNNNNN
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6907157 original size:42 final size:42
Alignment explanation
Indices: 6907111--6907232 Score: 172
Period size: 42 Copynumber: 2.9 Consensus size: 42
6907101 GATATGTGAT
6907111 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGA
* * *
6907153 TTACGTGTAAGACCCTGTCTGGGACAGTGGCATCGTTATTTGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATATGA
* * * *
6907196 TTACATGTAAGACCACGTTTGGGACGTTGGCATCGTA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTA
6907233 CGAGCTTTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
42 35 0.50
43 35 0.50
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGA
Found at i:6910935 original size:27 final size:28
Alignment explanation
Indices: 6910904--6911007 Score: 102
Period size: 32 Copynumber: 3.5 Consensus size: 28
6910894 TTTCTTGAAT
6910904 TTGTTAGATATTG-ATTATGTTTTAAGC
1 TTGTTAGATATTGTATTATGTTTTAAGC
*
6910931 TTGTTAGATATTGAATTTATTATATTTTAAGC
1 TTGTTAGATATTG----TATTATGTTTTAAGC
*
6910963 TTGTTGGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG----TATTATGTTTTAAGC
*
6910995 TTGTTGGATATTG
1 TTGTTAGATATTG
6911008 AAATGATTGA
Statistics
Matches: 69, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
27 13 0.19
32 56 0.81
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.53
Consensus pattern (28 bp):
TTGTTAGATATTGTATTATGTTTTAAGC
Found at i:6910959 original size:32 final size:32
Alignment explanation
Indices: 6910917--6911009 Score: 168
Period size: 32 Copynumber: 2.9 Consensus size: 32
6910907 TTAGATATTG
*
6910917 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
*
6910949 ATTATATTTTAAGCTTGTTGGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
6910981 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTGGATATTGAA
6911010 ATGATTGACA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.52
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTGGATATTGAATTT
Found at i:6912403 original size:20 final size:19
Alignment explanation
Indices: 6912357--6912394 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6912347 TATCCAAACA
6912357 CCAAAAAAGTAAATCATTT
1 CCAAAAAAGTAAATCATTT
*
6912376 CTAAAAAAGTAAATCATTT
1 CCAAAAAAGTAAATCATTT
6912395 TCCAGAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (19 bp):
CCAAAAAAGTAAATCATTT
Found at i:6913700 original size:3 final size:3
Alignment explanation
Indices: 6913692--6913719 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6913682 TTTCCAAAGC
6913692 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
6913720 TATTTTAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6913845 original size:20 final size:20
Alignment explanation
Indices: 6913820--6913858 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
6913810 TTATATATTC
6913820 TTTATAATTTTTTTAAAAAA
1 TTTATAATTTTTTTAAAAAA
6913840 TTTATAATTTTTTTAAAAA
1 TTTATAATTTTTTTAAAAA
6913859 TATAAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTATAATTTTTTTAAAAAA
Found at i:6913852 original size:19 final size:19
Alignment explanation
Indices: 6913820--6913868 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
6913810 TTATATATTC
6913820 TTTATAATTTTTTTAAAAAA
1 TTTATAA-TTTTTTAAAAAA
*
6913840 TTTATAATTTTTTTAAAAA
1 TTTATAATTTTTTAAAAAA
*
6913859 TATA-AATTTT
1 TTTATAATTTT
6913869 GGAATTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 6 0.22
19 14 0.52
20 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTATAATTTTTTAAAAAA
Found at i:6913880 original size:18 final size:19
Alignment explanation
Indices: 6913859--6913895 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6913849 TTTTTAAAAA
6913859 TATAAAT-TTTGGAATTTT
1 TATAAATATTTGGAATTTT
*
6913877 TATAAATATTTTGAATTTT
1 TATAAATATTTGGAATTTT
6913896 AAAAATCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:6913894 original size:19 final size:19
Alignment explanation
Indices: 6913859--6913912 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
6913849 TTTTTAAAAA
*
6913859 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAATTTT
6913877 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
*
6913895 TAAAAATCATTTTGAATT
1 TATAAAT-ATTTTGAATT
6913913 CTTTTTGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 16 0.52
19 14 0.45
20 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:6914262 original size:37 final size:34
Alignment explanation
Indices: 6914194--6914262 Score: 84
Period size: 37 Copynumber: 1.9 Consensus size: 34
6914184 AGGCCCGCCC
*
6914194 ATATTATTTTTTTAGTTTTAAAAAATATATATTT
1 ATATTATTTTTTTAATTTTAAAAAATATATATTT
* *
6914228 ATATTATATTATTTTAATATTTAATAAATTTATAT
1 ATATTAT-TT-TTTTAAT-TTTAAAAAATATATAT
6914263 ATTTTTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 7 0.24
35 2 0.07
36 6 0.21
37 14 0.48
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (34 bp):
ATATTATTTTTTTAATTTTAAAAAATATATATTT
Found at i:6914268 original size:26 final size:27
Alignment explanation
Indices: 6914231--6914291 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 27
6914221 TATATTTATA
6914231 TTATAT-TATTTTAATATTTAATAA-A-T
1 TTATATATATTTT--TATTTAATAAGATT
*
6914257 TTATATAT-TTTTTATTTATTAAGATT
1 TTATATATATTTTTATTTAATAAGATT
6914283 TTATATATA
1 TTATATATA
6914292 GTCATCTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
24 9 0.30
25 1 0.03
26 19 0.63
27 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (27 bp):
TTATATATATTTTTATTTAATAAGATT
Found at i:6921830 original size:13 final size:14
Alignment explanation
Indices: 6921802--6921835 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
6921792 ATTTTATAAA
6921802 TAAAAGAGATTTAAT
1 TAAAA-AGATTTAAT
6921817 TAAAAAGA-TTAAT
1 TAAAAAGATTTAAT
6921830 TAAAAA
1 TAAAAA
6921836 TGAAAAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 3 0.16
15 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (14 bp):
TAAAAAGATTTAAT
Found at i:6922277 original size:42 final size:42
Alignment explanation
Indices: 6922216--6922330 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 42
6922206 AAAACATACA
* * * *
6922216 TTGTAGGACGTGTTGTCACTGACAAGACAGTAAAAATGTGCC
1 TTGTAGGATGCGTTTTCACTGACAAGACAGTAAAAATGCGCC
* * * *
6922258 TTGTAGGATGCGTTTTCACTGGCACGACAGTGAAAATGCGTC
1 TTGTAGGATGCGTTTTCACTGACAAGACAGTAAAAATGCGCC
*
6922300 TTGTAGGATGCATTTTCACTGA-AACGACAGT
1 TTGTAGGATGCGTTTTCACTGACAA-GACAGT
6922331 GGAAGCACGC
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 1 0.02
42 60 0.98
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (42 bp):
TTGTAGGATGCGTTTTCACTGACAAGACAGTAAAAATGCGCC
Found at i:6923251 original size:18 final size:18
Alignment explanation
Indices: 6923228--6923283 Score: 53
Period size: 18 Copynumber: 3.0 Consensus size: 18
6923218 AGGGAGAAGC
6923228 AGAAGAGAATAAAAAAAA
1 AGAAGAGAATAAAAAAAA
*
6923246 AGAAGAAGAA-AAAAAGAA
1 AGAAG-AGAATAAAAAAAA
6923264 AGTTAA-AGAATATAAAAAAA
1 AG--AAGAGAATA-AAAAAAA
6923284 TTAAATTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 18 0.58
19 5 0.16
20 8 0.26
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (18 bp):
AGAAGAGAATAAAAAAAA
Found at i:6923933 original size:41 final size:41
Alignment explanation
Indices: 6923883--6924003 Score: 102
Period size: 41 Copynumber: 2.9 Consensus size: 41
6923873 ATAAATTTTT
*
6923883 AATTAATTTTTTAAAATTTTAAAAATTTAAAAAAATTGTAAAA
1 AATT-ATTTTTTAAAATTTTAAAAATTTAAAAAAATT-AAAAA
* *** *
6923926 AA-TATTTTTAAAAAAAATAAAAA-TTATTAAAAATTAAAAA
1 AATTATTTTTTAAAATTTTAAAAATTTA-AAAAAATTAAAAA
* * ** *
6923966 AATTATATTTTAATATTTTTTAATTTTAAAAAAATTAA
1 AATTATTTTTTAAAATTTTAAAAATTTAAAAAAATTAA
6924004 TTAAATGTTG
Statistics
Matches: 59, Mismatches: 16, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
40 9 0.15
41 44 0.75
42 4 0.07
43 2 0.03
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (41 bp):
AATTATTTTTTAAAATTTTAAAAATTTAAAAAAATTAAAAA
Found at i:6923957 original size:19 final size:19
Alignment explanation
Indices: 6923921--6923971 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
6923911 AAAAAAATTG
* *
6923921 TAAAAAATATTTTTAAAAA
1 TAAAAAAAATTATTAAAAA
6923940 -AAATAAAAATTATTAAAAA
1 TAAA-AAAAATTATTAAAAA
*
6923959 TTAAAAAAATTAT
1 TAAAAAAAATTAT
6923972 ATTTTAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 3 0.11
19 22 0.81
20 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAAAAATTATTAAAAA
Found at i:6929618 original size:18 final size:19
Alignment explanation
Indices: 6929581--6929618 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
6929571 GAATATAATA
*
6929581 TTATTTAAAAATTATATAT
1 TTATTTAAAAATAATATAT
*
6929600 TTATTT-AAAATAATTTAT
1 TTATTTAAAAATAATATAT
6929618 T
1 T
6929619 GATAGTTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTATTTAAAAATAATATAT
Found at i:6930001 original size:61 final size:61
Alignment explanation
Indices: 6929931--6930059 Score: 240
Period size: 61 Copynumber: 2.1 Consensus size: 61
6929921 GCGTTGAATT
*
6929931 TATCGATATAATTGTAATTGCCATGCATATAAATTTTTGAATCAATTTAATATCTCTATCA
1 TATCGATATAATTGTAATTGCCATGCATATAAATTTTTGAATCAATCTAATATCTCTATCA
*
6929992 TATCGATATAATTGTAATTGCCATGCATGTAAATTTTTGAATCAATCTAATATCTCTATCA
1 TATCGATATAATTGTAATTGCCATGCATATAAATTTTTGAATCAATCTAATATCTCTATCA
6930053 TATCGAT
1 TATCGAT
6930060 CTAAAATACT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (61 bp):
TATCGATATAATTGTAATTGCCATGCATATAAATTTTTGAATCAATCTAATATCTCTATCA
Found at i:6935939 original size:21 final size:20
Alignment explanation
Indices: 6935915--6935958 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
6935905 AACAAAAAAC
* *
6935915 AAAAAATTGAATTAATATATA
1 AAAAAATTAAAATAATATA-A
*
6935936 AAAATATTAAAATAATATAA
1 AAAAAATTAAAATAATATAA
6935956 AAA
1 AAA
6935959 TTTAGAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAAAATTAAAATAATATAA
Found at i:6935953 original size:19 final size:19
Alignment explanation
Indices: 6935931--6935978 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
6935921 TTGAATTAAT
6935931 ATATAAAAATATTAAAATA
1 ATATAAAAATATTAAAATA
* *
6935950 ATATAAAAAT-TTAGAATT
1 ATATAAAAATATTAAAATA
6935968 ATATAAAAATA
1 ATATAAAAATA
6935979 ATAATACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
ATATAAAAATATTAAAATA
Found at i:6940436 original size:17 final size:17
Alignment explanation
Indices: 6940414--6940447 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6940404 GAAGAGGTTC
*
6940414 CATACAAGTTCATATTT
1 CATACAAGTTCAAATTT
6940431 CATACAAGTTCAAATTT
1 CATACAAGTTCAAATTT
6940448 AAACTTACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (17 bp):
CATACAAGTTCAAATTT
Found at i:6948144 original size:2 final size:2
Alignment explanation
Indices: 6948129--6948169 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
6948119 TTTCACATTT
6948129 TA TA T- TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6948169 T
1 T
6948170 CCATATTTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:6949302 original size:3 final size:3
Alignment explanation
Indices: 6949294--6949318 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6949284 TCTATTAGTT
6949294 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
6949319 CACTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6958479 original size:16 final size:16
Alignment explanation
Indices: 6958458--6958491 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
6958448 AATATACTAG
6958458 TTTAAGTTTTTTATGT
1 TTTAAGTTTTTTATGT
6958474 TTTAAGTTTTTTATGT
1 TTTAAGTTTTTTATGT
6958490 TT
1 TT
6958492 AAAATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.71
Consensus pattern (16 bp):
TTTAAGTTTTTTATGT
Found at i:6958655 original size:19 final size:18
Alignment explanation
Indices: 6958612--6958656 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
6958602 CTTATTTGTT
6958612 TACAAAAATATTTGATAA
1 TACAAAAATATTTGATAA
6958630 TACAAAAATATTTGATAA
1 TACAAAAATATTTGATAA
*
6958648 TGCAAAAAT
1 TACAAAAAT
6958657 GTAAACTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (18 bp):
TACAAAAATATTTGATAA
Found at i:6958741 original size:16 final size:16
Alignment explanation
Indices: 6958720--6958761 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
6958710 AATAATTTGA
*
6958720 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
6958736 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
6958752 TAGTTTTAAT
1 TAATTTTAAT
6958762 TTTATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:6958745 original size:22 final size:23
Alignment explanation
Indices: 6958735--6958785 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
6958725 TTACTAACAA
* * *
6958735 TTAATTTTA-ATAACAATTAGTT
1 TTAATTTTATAAAAAAATTAATT
*
6958757 TTAATTTTATCAAAAAATTAATT
1 TTAATTTTATAAAAAAATTAATT
6958780 TTAATT
1 TTAATT
6958786 AAAACGGGCC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (23 bp):
TTAATTTTATAAAAAAATTAATT
Found at i:6959761 original size:58 final size:58
Alignment explanation
Indices: 6959619--6959761 Score: 205
Period size: 58 Copynumber: 2.5 Consensus size: 58
6959609 CTAATGTAGT
* * * *
6959619 AATCCCGTGATATTCAACTTTGTTTAAATCAGGTCTATCATCTTCTGCTTGAATCAAG
1 AATCTCGTGATATTCAACTTTGCTTGAATCAGGTCTATCATCTTCTACTTGAATCAAG
* * *
6959677 AATCTTGTGATATTCAACTCTGCTTGAATCAGGTCTATCATCTTCTATTTGAATCAAG
1 AATCTCGTGATATTCAACTTTGCTTGAATCAGGTCTATCATCTTCTACTTGAATCAAG
* *
6959735 AATCTCGTGATGTTCAACTTTACTTGA
1 AATCTCGTGATATTCAACTTTGCTTGA
6959762 TTTGGGTCCA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 74 1.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (58 bp):
AATCTCGTGATATTCAACTTTGCTTGAATCAGGTCTATCATCTTCTACTTGAATCAAG
Found at i:6962085 original size:17 final size:17
Alignment explanation
Indices: 6962040--6962085 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
6962030 AAAATAAAAA
*
6962040 TTTAAATTCTTTACATTT
1 TTTAAATT-TTTAAATTT
*
6962058 TTTAAAATTTTAAATTT
1 TTTAAATTTTTAAATTT
*
6962075 TTTTAATTTTT
1 TTTAAATTTTT
6962086 GTTGTCATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTAAATTTTTAAATTT
Found at i:6962975 original size:10 final size:10
Alignment explanation
Indices: 6962960--6962988 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
6962950 TCATAATGTT
6962960 AATAATTTTA
1 AATAATTTTA
6962970 AATAATTTTA
1 AATAATTTTA
6962980 AATAATTTT
1 AATAATTTT
6962989 TTGGATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
AATAATTTTA
Found at i:6963656 original size:24 final size:22
Alignment explanation
Indices: 6963622--6963678 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
6963612 CAACCATATT
6963622 TTTAATA--TTTAAATATTCAATA
1 TTTAATATTTTTAAA-ATTCAA-A
*
6963644 TTATAAT-TTTTTAAAATTTAAA
1 TT-TAATATTTTTAAAATTCAAA
6963666 TTTAATATTTTTA
1 TTTAATATTTTTA
6963679 TTTTAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
21 4 0.13
22 11 0.37
23 9 0.30
24 6 0.20
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTAATATTTTTAAAATTCAAA
Found at i:6964054 original size:85 final size:85
Alignment explanation
Indices: 6963926--6964098 Score: 328
Period size: 85 Copynumber: 2.0 Consensus size: 85
6963916 AAGATAAAAA
6963926 CATACTTATAATAATATTTGTTGTTTTTTAACTGATTTCTAATTATCATTTATCTTAGTTAAGAT
1 CATACTTATAATAATATTTGTTGTTTTTTAACTGATTTCTAATTATCATTTATCTTAGTTAAGAT
6963991 TTTAAAATAACATATTTATG
66 TTTAAAATAACATATTTATG
* *
6964011 CATACTTATAATAATATTTGTTGTTTTTTAACTGATTTTTAATTATCGTTTATCTTAGTTAAGAT
1 CATACTTATAATAATATTTGTTGTTTTTTAACTGATTTCTAATTATCATTTATCTTAGTTAAGAT
6964076 TTTAAAATAACATATTTATG
66 TTTAAAATAACATATTTATG
6964096 CAT
1 CAT
6964099 TATCGATATT
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.51
Consensus pattern (85 bp):
CATACTTATAATAATATTTGTTGTTTTTTAACTGATTTCTAATTATCATTTATCTTAGTTAAGAT
TTTAAAATAACATATTTATG
Found at i:6965838 original size:23 final size:23
Alignment explanation
Indices: 6965812--6965862 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
6965802 TAATAATTAT
6965812 ATATTTTAGAA-TTTTATAAAAAA
1 ATATTTTAGAACTTTT-TAAAAAA
* *
6965835 ATATTTTTGAACTTTTTAAAAAT
1 ATATTTTAGAACTTTTTAAAAAA
6965858 ATATT
1 ATATT
6965863 ATATGATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (23 bp):
ATATTTTAGAACTTTTTAAAAAA
Found at i:6966763 original size:22 final size:22
Alignment explanation
Indices: 6966729--6966789 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
6966719 GCACTAATGA
*
6966729 ACAGAGAGTACTGAAGTGCTAT
1 ACAGAGAGCACTGAAGTGCTAT
* *
6966751 ACAGATAGCACTGACGTGCTATT
1 ACAGAGAGCACTGAAGTGCTA-T
6966774 AATCAGAGAGCACTGA
1 -A-CAGAGAGCACTGA
6966790 CATATTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 18 0.56
23 1 0.03
24 1 0.03
25 12 0.38
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (22 bp):
ACAGAGAGCACTGAAGTGCTAT
Found at i:6966786 original size:25 final size:25
Alignment explanation
Indices: 6966730--6966834 Score: 126
Period size: 25 Copynumber: 4.3 Consensus size: 25
6966720 CACTAATGAA
* *
6966730 CAGAGAGTACTGAAGTGCTA-T-A-
1 CAGAGAGCACTGACGTGCTATTAAT
*
6966752 CAGATAGCACTGACGTGCTATTAAT
1 CAGAGAGCACTGACGTGCTATTAAT
* ** *
6966777 CAGAGAGCACTGACATATTAATAAT
1 CAGAGAGCACTGACGTGCTATTAAT
6966802 CAGAGAGCACTGACGTGCTATTAAT
1 CAGAGAGCACTGACGTGCTATTAAT
6966827 CAGAGAGC
1 CAGAGAGC
6966835 GCGCTTAGGT
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
22 17 0.25
23 1 0.01
24 1 0.01
25 49 0.72
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (25 bp):
CAGAGAGCACTGACGTGCTATTAAT
Found at i:6967370 original size:13 final size:13
Alignment explanation
Indices: 6967349--6967380 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6967339 TTTGATTAAT
*
6967349 TAATGTAATATAA
1 TAATATAATATAA
6967362 TAATATAATATAA
1 TAATATAATATAA
6967375 TAATAT
1 TAATAT
6967381 TTTAATCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (13 bp):
TAATATAATATAA
Found at i:6967882 original size:7 final size:7
Alignment explanation
Indices: 6967851--6967916 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 7
6967841 CAAAAGTGTT
6967851 TTTTAATA
1 TTTT-ATA
*
6967859 TTTAATA
1 TTTTATA
*
6967866 TTATA-A
1 TTTTATA
6967872 TTTTATA
1 TTTTATA
6967879 TTTTATAA
1 TTTTAT-A
6967887 TTTT-TA
1 TTTTATA
6967893 TTTTA-A
1 TTTTATA
*
6967899 ATTTAT-
1 TTTTATA
*
6967905 TTTTTTA
1 TTTTATA
6967912 TTTTA
1 TTTTA
6967917 ATAAACTTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 11
0.70 0.12 0.17
Matches are distributed among these distances:
6 19 0.42
7 18 0.40
8 8 0.18
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TTTTATA
Found at i:6967894 original size:14 final size:14
Alignment explanation
Indices: 6967866--6967912 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
6967856 ATATTTAATA
6967866 TTATAATTTTATATT
1 TTATAATTTT-TATT
6967881 TTATAATTTTTATT
1 TTATAATTTTTATT
*
6967895 TTA-AATTTATTTTT
1 TTATAATTT-TTATT
6967909 TTAT
1 TTAT
6967913 TTTAATAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 5 0.17
14 14 0.48
15 10 0.34
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATAATTTTTATT
Found at i:6970492 original size:26 final size:25
Alignment explanation
Indices: 6970463--6970517 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
6970453 TTATTTTTTT
* *
6970463 AATAAACACCAAAAAATTATTTTAAA
1 AATAAAAAACAAAAAA-TATTTTAAA
*
6970489 AATAAAAAATAAAAAATATTTTAAA
1 AATAAAAAACAAAAAATATTTTAAA
6970514 AATA
1 AATA
6970518 TTTTAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.27
Consensus pattern (25 bp):
AATAAAAAACAAAAAATATTTTAAA
Found at i:6970521 original size:36 final size:39
Alignment explanation
Indices: 6970474--6970549 Score: 122
Period size: 37 Copynumber: 2.0 Consensus size: 39
6970464 ATAAACACCA
6970474 AAAAATTATTTTAAAAA-TAAAAAATAAAAAATAT-TTT
1 AAAAATTATTTTAAAAATTAAAAAATAAAAAATATATTT
*
6970511 AAAAA-TATTTTAAAAATTAAAAATTAAAAAATATATTT
1 AAAAATTATTTTAAAAATTAAAAAATAAAAAATATATTT
6970549 A
1 A
6970550 TTATATTTGG
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
36 11 0.31
37 21 0.58
38 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (39 bp):
AAAAATTATTTTAAAAATTAAAAAATAAAAAATATATTT
Found at i:6970525 original size:10 final size:11
Alignment explanation
Indices: 6970500--6970527 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
6970490 ATAAAAAATA
6970500 AAAAATATTTT
1 AAAAATATTTT
6970511 AAAAATATTTT
1 AAAAATATTTT
6970522 AAAAAT
1 AAAAAT
6970528 TAAAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:6977847 original size:22 final size:24
Alignment explanation
Indices: 6977798--6977847 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
6977788 ACTTTTCTCA
*
6977798 CCCTTTTCAACATATACCTATAAT
1 CCCTTTTCAACATATACCTATAAG
6977822 CCCTTTTGC-ACATATA-C-ATAAG
1 CCCTTTT-CAACATATACCTATAAG
6977844 CCCT
1 CCCT
6977848 CAAAAGGTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 8 0.33
23 1 0.04
24 14 0.58
25 1 0.04
ACGTcount: A:0.30, C:0.32, G:0.04, T:0.34
Consensus pattern (24 bp):
CCCTTTTCAACATATACCTATAAG
Found at i:6978952 original size:21 final size:20
Alignment explanation
Indices: 6978919--6978957 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
6978909 TTTTATTGCA
6978919 TTTTATTTTTATTTTTTTAT
1 TTTTATTTTTATTTTTTTAT
*
6978939 TTTTGTTTTCTATTTTTTT
1 TTTTATTTT-TATTTTTTT
6978958 TTTCTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.10, C:0.03, G:0.03, T:0.85
Consensus pattern (20 bp):
TTTTATTTTTATTTTTTTAT
Found at i:6978952 original size:27 final size:27
Alignment explanation
Indices: 6978922--6978973 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
6978912 TATTGCATTT
6978922 TATTTTTATTTTT-TTATT-TTTGTTTTC
1 TATTTTT-TTTTTCTT-TTATTTGTTTTC
6978949 TATTTTTTTTTTCTTTTATTTGTTT
1 TATTTTTTTTTTCTTTTATTTGTTT
6978974 CTGGCAGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.10, C:0.04, G:0.04, T:0.83
Consensus pattern (27 bp):
TATTTTTTTTTTCTTTTATTTGTTTTC
Found at i:6978961 original size:13 final size:13
Alignment explanation
Indices: 6978922--6978975 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
6978912 TATTGCATTT
*
6978922 TATTTTTATTTTTT
1 TATTTTT-TTTTTC
*
6978936 TATTTTTGTTTTC
1 TATTTTTTTTTTC
6978949 TATTTTTTTTTTC
1 TATTTTTTTTTTC
*
6978962 T-TTTATTTGTTTC
1 TATTT-TTTTTTTC
6978975 T
1 T
6978976 GGCAGGTTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
12 3 0.09
13 25 0.71
14 7 0.20
ACGTcount: A:0.09, C:0.06, G:0.04, T:0.81
Consensus pattern (13 bp):
TATTTTTTTTTTC
Found at i:6982652 original size:25 final size:25
Alignment explanation
Indices: 6982613--6982674 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
6982603 CCCATTTTCC
*
6982613 TATT-TTATTATTATT-TCTTTATT-
1 TATTATTATTAATATTAT-TTTATTA
6982636 TATTTATTATTAATATTATTTTATTA
1 TA-TTATTATTAATATTATTTTATTA
*
6982662 TATTATTTTTAAT
1 TATTATTATTAAT
6982675 GCTTTTACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 2 0.06
24 2 0.06
25 26 0.79
26 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (25 bp):
TATTATTATTAATATTATTTTATTA
Found at i:6982654 original size:16 final size:14
Alignment explanation
Indices: 6982621--6982672 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
6982611 CCTATTTTAT
*
6982621 TATTATTTCT-TTA
1 TATTATTTTTATTA
6982634 T-TTATTTATTATTAA
1 TATTATTT-TTATT-A
6982649 TATTA-TTTTATTA
1 TATTATTTTTATTA
6982662 TATTATTTTTA
1 TATTATTTTTA
6982673 ATGCTTTTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
12 6 0.18
13 8 0.24
14 12 0.36
15 4 0.12
16 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (14 bp):
TATTATTTTTATTA
Found at i:6987901 original size:42 final size:42
Alignment explanation
Indices: 6987845--6987999 Score: 256
Period size: 42 Copynumber: 3.7 Consensus size: 42
6987835 TTAACTCATA
* *
6987845 TGAGTTTCCGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTT
1 TGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTT
6987887 TGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTT
1 TGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTT
*
6987929 TGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTA
1 TGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTT
* * *
6987971 CGAGCTTCAGTTCAACCCTTACGGGTTTC
1 TGAGCTTCAGTTTAACCCTTATGGGTTTC
6988000 TGTTTAGAAT
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 107 1.00
ACGTcount: A:0.15, C:0.25, G:0.19, T:0.41
Consensus pattern (42 bp):
TGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTT
Found at i:6987993 original size:21 final size:21
Alignment explanation
Indices: 6987822--6987991 Score: 108
Period size: 21 Copynumber: 8.1 Consensus size: 21
6987812 TGTTTAGCTA
*
6987822 TTATGAGCTTCAGTT-AACTC
1 TTATGAGCTTCAGTTCAACCC
* * * *
6987842 ATATGAGTTTCCGTTTAACCC
1 TTATGAGCTTCAGTTCAACCC
* * * * *
6987863 TTATGGGTTTCCGTTCAGCTC
1 TTATGAGCTTCAGTTCAACCC
* *
6987884 TTTTGAGCTTCAGTTTAACCC
1 TTATGAGCTTCAGTTCAACCC
* * * * *
6987905 TTATGGGTTTCCGTTCAGCTC
1 TTATGAGCTTCAGTTCAACCC
* *
6987926 TTTTGAGCTTCAGTTTAACCC
1 TTATGAGCTTCAGTTCAACCC
* * * * *
6987947 TTATGGGTTTCCGTTCAGCTC
1 TTATGAGCTTCAGTTCAACCC
*
6987968 TTACGAGCTTCAGTTCAACCC
1 TTATGAGCTTCAGTTCAACCC
6987989 TTA
1 TTA
6987992 CGGGTTTCTG
Statistics
Matches: 106, Mismatches: 43, Indels: 1
0.71 0.29 0.01
Matches are distributed among these distances:
20 12 0.11
21 94 0.89
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.41
Consensus pattern (21 bp):
TTATGAGCTTCAGTTCAACCC
Found at i:6989488 original size:4 final size:4
Alignment explanation
Indices: 6989479--6989523 Score: 81
Period size: 4 Copynumber: 11.0 Consensus size: 4
6989469 AGTAAAAGAT
6989479 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA TATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA -ATTA
6989524 TGAGATTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 36 0.90
5 4 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (4 bp):
ATTA
Found at i:6989724 original size:15 final size:17
Alignment explanation
Indices: 6989706--6989737 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6989696 CAGAATAGAA
6989706 AGAA-CAAA-GAAACAG
1 AGAAGCAAACGAAACAG
6989721 AGAAGCAAACGAAACAG
1 AGAAGCAAACGAAACAG
6989738 GGGAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.62, C:0.16, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAGCAAACGAAACAG
Found at i:6990858 original size:12 final size:12
Alignment explanation
Indices: 6990841--6990889 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
6990831 GTGTGTTGAA
6990841 TACTGTTACTTT
1 TACTGTTACTTT
*
6990853 TACTGTTACTGT
1 TACTGTTACTTT
* *
6990865 TACCGTTACTGAT
1 TACTGTTACT-TT
6990878 TACTGTTTACTT
1 TACTG-TTACTT
6990890 GTGTGTTTGG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 20 0.67
13 5 0.17
14 5 0.17
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.51
Consensus pattern (12 bp):
TACTGTTACTTT
Found at i:6990858 original size:45 final size:45
Alignment explanation
Indices: 6990755--6990861 Score: 153
Period size: 46 Copynumber: 2.4 Consensus size: 45
6990745 TATGTGCCGA
*
6990755 TTACTGTTACTGTTACCAATTCGGCACTTTGTGTGTCGAAATACTG
1 TTACTGTTACTGTTA-CAATTCAGCACTTTGTGTGTCGAAATACTG
* *
6990801 TTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTG-AATACTG
1 TTACTGTTACTGTTACA-ATTCAGCACTTTGTGTGTCGAAATACTG
*
6990846 TTACTTTTACTGTTAC
1 TTACTGTTACTGTTAC
6990862 TGTTACCGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
45 23 0.42
46 32 0.58
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (45 bp):
TTACTGTTACTGTTACAATTCAGCACTTTGTGTGTCGAAATACTG
Found at i:6990864 original size:18 final size:19
Alignment explanation
Indices: 6990841--6990889 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
6990831 GTGTGTTGAA
6990841 TACTGTTACTTTTACTG-T
1 TACTGTTACTTTTACTGAT
**
6990859 TACTGTTACCGTTACTGAT
1 TACTGTTACTTTTACTGAT
6990878 TACTGTTTACTT
1 TACTG-TTACTT
6990890 GTGTGTTTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 15 0.60
19 6 0.24
20 4 0.16
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.51
Consensus pattern (19 bp):
TACTGTTACTTTTACTGAT
Found at i:6990882 original size:7 final size:6
Alignment explanation
Indices: 6990841--6990884 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
6990831 GTGTGTTGAA
* *
6990841 TACTGT TACTTT TACTGT TACTGT TACCGT TACTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
6990885 TACTTGTGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (6 bp):
TACTGT
Found at i:6995632 original size:11 final size:11
Alignment explanation
Indices: 6995602--6995631 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6995592 GGAGTGAAAG
6995602 GAGCCAAAATC
1 GAGCCAAAATC
6995613 GAGCCAAAATC
1 GAGCCAAAATC
6995624 GAG-CAAAA
1 GAGCCAAAA
6995632 AGAGTTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.50, C:0.23, G:0.20, T:0.07
Consensus pattern (11 bp):
GAGCCAAAATC
Found at i:6996941 original size:67 final size:67
Alignment explanation
Indices: 6996833--6996961 Score: 231
Period size: 67 Copynumber: 1.9 Consensus size: 67
6996823 TTTCCAATTT
* *
6996833 AGAGAGCACACTCCCGCGAACGTCATTTCTTACAGTGGGATTACCAGTCCAGGCTAAATCCCTTG
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCTTG
6996898 CA
66 CA
*
6996900 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCATGCTAAATCCC
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCC
6996962 CTGTAATATA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCTTG
CA
Found at i:6997183 original size:57 final size:57
Alignment explanation
Indices: 6997091--6997199 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 57
6997081 AATTCGGATT
* *
6997091 ACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATCAAGATC
1 ACCCGTCCAGGCTAAATCCATTTTCCACATATTCTTCAGGAGGGCTATATCAAGATC
* * *
6997148 ACCCGTCCAGGCTAGAT-CTTTTTCACACATTTTCTTCAGGAGGGCTATATCA
1 ACCCGTCCAGGCTAAATCCATTTTC-CACATATTCTTCAGGAGGGCTATATCA
6997200 GTATAGGATC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 6 0.13
57 40 0.87
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (57 bp):
ACCCGTCCAGGCTAAATCCATTTTCCACATATTCTTCAGGAGGGCTATATCAAGATC
Found at i:7000200 original size:14 final size:14
Alignment explanation
Indices: 7000177--7000207 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7000167 TGTCGCGTTC
*
7000177 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
7000191 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
7000205 TTA
1 TTA
7000208 AAACAATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:7026133 original size:3 final size:3
Alignment explanation
Indices: 7026120--7026167 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
7026110 ATCTCACAAA
7026120 TTG TT- TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
7026167 T
1 T
7026168 GAGTGTAGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:7033344 original size:21 final size:20
Alignment explanation
Indices: 7033320--7033387 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
7033310 ACTCATATGA
*
7033320 GTTTTTGTTTAACCCTATTGG
1 GTTTCTGTTTAACCCT-TTGG
* * *
7033341 GTTTCTGTTTAGCTCTTTTGA
1 GTTTCTGTTTAAC-CCTTTGG
*
7033362 GCTTCTGTTTAACCCTTATGG
1 GTTTCTGTTTAACCCTT-TGG
7033383 GTTTC
1 GTTTC
7033388 CGTTCAGCTA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
20 3 0.08
21 31 0.86
22 2 0.06
ACGTcount: A:0.12, C:0.18, G:0.19, T:0.51
Consensus pattern (20 bp):
GTTTCTGTTTAACCCTTTGG
Found at i:7033384 original size:42 final size:42
Alignment explanation
Indices: 7033315--7033498 Score: 181
Period size: 42 Copynumber: 4.4 Consensus size: 42
7033305 AGTTAACTCA
* * * *
7033315 TATGAGTTTTTGTTTAACCC-TATTGGGTTTCTGTTTAGCTCT
1 TATGAGCTTCTGTTTAACCCTTA-TGGGTTTCCGTTCAGCTCT
* *
7033357 TTTGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTAT
1 TATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCT
* **
7033399 TTTGAGCTTCTAATTAACCCTTATGGGTTTCCGTTCAGCTCT
1 TATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCT
* ** * * * * *
7033441 TATGAGCTTCCGTTCGATCCTTACGGGTTTCTGTTTAGCACT
1 TATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCT
* *
7033483 TATGTGCTTCAGTTTA
1 TATGAGCTTCTGTTTA
7033499 GCCTTCGGGC
Statistics
Matches: 117, Mismatches: 24, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
42 115 0.98
43 2 0.02
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.46
Consensus pattern (42 bp):
TATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCT
Found at i:7033444 original size:21 final size:21
Alignment explanation
Indices: 7033418--7033486 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
7033408 CTAATTAACC
7033418 CTTATGGGTTTCCGTTCAGCT
1 CTTATGGGTTTCCGTTCAGCT
* * *
7033439 CTTATGAGCTTCCGTTC-GAT
1 CTTATGGGTTTCCGTTCAGCT
* * * *
7033459 CCTTACGGGTTTCTGTTTAGCA
1 -CTTATGGGTTTCCGTTCAGCT
7033481 CTTATG
1 CTTATG
7033487 TGCTTCAGTT
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
20 2 0.06
21 32 0.91
22 1 0.03
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (21 bp):
CTTATGGGTTTCCGTTCAGCT
Found at i:7034341 original size:17 final size:17
Alignment explanation
Indices: 7034319--7034369 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
7034309 CAGATTATCA
7034319 GAAGCTTGATTGGGTTG
1 GAAGCTTGATTGGGTTG
* *
7034336 GAAGCTCGAGTGGGTTG
1 GAAGCTTGATTGGGTTG
7034353 GAAGCTTG-TTGGAGTTG
1 GAAGCTTGATTGG-GTTG
7034370 TATCACACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 3 0.10
17 26 0.90
ACGTcount: A:0.18, C:0.08, G:0.43, T:0.31
Consensus pattern (17 bp):
GAAGCTTGATTGGGTTG
Found at i:7066260 original size:21 final size:20
Alignment explanation
Indices: 7066232--7066271 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
7066222 ATAACACAAT
**
7066232 TATAAAATTTGTAAAAAATA
1 TATAAAATTACTAAAAAATA
7066252 TATACAAATTACTAAAAAAT
1 TATA-AAATTACTAAAAAAT
7066272 TATTTAAAAA
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:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
TATAAAATTACTAAAAAATA
Found at i:7068830 original size:12 final size:12
Alignment explanation
Indices: 7068815--7068848 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
7068805 TATTAATATA
7068815 TTAATTATGATT
1 TTAATTATGATT
*
7068827 TTAATTATAATT
1 TTAATTATGATT
*
7068839 ATAATTATGA
1 TTAATTATGA
7068849 CTGGGGTTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTAATTATGATT
Found at i:7069741 original size:4 final size:4
Alignment explanation
Indices: 7069732--7069765 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
7069722 CACACCGAAT
*
7069732 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AGGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
7069766 ATGTTGCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:7078744 original size:22 final size:22
Alignment explanation
Indices: 7078725--7078808 Score: 114
Period size: 22 Copynumber: 3.8 Consensus size: 22
7078715 TATACATGCT
* * *
7078725 TAACGAACTAAACCCTCATGGC
1 TAACGTACTAAGCTCTCATGGC
7078747 TAACGTACTAAGCTCTCATGGC
1 TAACGTACTAAGCTCTCATGGC
**
7078769 TAACGTACTAAGCTCTCATGTT
1 TAACGTACTAAGCTCTCATGGC
*
7078791 TCACGTACTAAGCTCTCA
1 TAACGTACTAAGCTCTCA
7078809 AGTAGCCTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (22 bp):
TAACGTACTAAGCTCTCATGGC
Done.