Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 12 of 292
Found at i:3356191 original size:43 final size:43
Alignment explanation
Indices: 3356126--3356229 Score: 164
Period size: 43 Copynumber: 2.5 Consensus size: 43
3356116 TCAAAGTAAG
*
3356126 AATAAAATAATTAAA--AA--T-AATTTTATTTCAAAATTAAA
1 AATAAAATAATTAAATTAAGGTGAATTTTATTTCAAAATAAAA
3356164 AATAAAATAATTAAATTAAGGTGAATTTTATTTCAAAATAAAA
1 AATAAAATAATTAAATTAAGGTGAATTTTATTTCAAAATAAAA
3356207 AATAAAATAATTAAATTAAGGTG
1 AATAAAATAATTAAATTAAGGTG
3356230 TTGTTTTTTT
Statistics
Matches: 60, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
38 15 0.25
40 2 0.03
42 1 0.02
43 42 0.70
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.35
Consensus pattern (43 bp):
AATAAAATAATTAAATTAAGGTGAATTTTATTTCAAAATAAAA
Found at i:3359120 original size:2 final size:2
Alignment explanation
Indices: 3359113--3359147 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
3359103 GCAGAGTAGT
3359113 TA TA TA TA TA TA TA TA T- 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
3359148 CATGTTTGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3359134 original size:17 final size:17
Alignment explanation
Indices: 3359112--3359146 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
3359102 AGCAGAGTAG
3359112 TTATATATATATATATA
1 TTATATATATATATATA
3359129 TTATATATATATATATA
1 TTATATATATATATATA
3359146 T
1 T
3359147 ACATGTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTATATATATATATATA
Found at i:3359135 original size:15 final size:15
Alignment explanation
Indices: 3359115--3359144 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3359105 AGAGTAGTTA
3359115 TATATATATATATAT
1 TATATATATATATAT
3359130 TATATATATATATAT
1 TATATATATATATAT
3359145 ATACATGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATATATATATAT
Found at i:3361375 original size:9 final size:10
Alignment explanation
Indices: 3361361--3361426 Score: 55
Period size: 10 Copynumber: 6.6 Consensus size: 10
3361351 TTTTAAATTC
3361361 TAAAAATATT
1 TAAAAATATT
3361371 TAAAATATATT
1 TAAAA-ATATT
*
3361382 TAAAATTATT
1 TAAAAATATT
* * *
3361392 TTATAATTTT
1 TAAAAATATT
3361402 TAAATAAT-TT
1 TAAA-AATATT
*
3361412 TAATAAT-TT
1 TAAAAATATT
3361421 TAAAAA
1 TAAAAA
3361427 ATAATTTAGA
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
9 10 0.22
10 22 0.49
11 13 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TAAAAATATT
Found at i:3361382 original size:11 final size:11
Alignment explanation
Indices: 3361361--3361392 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
3361351 TTTTAAATTC
3361361 TAAAA-ATATT
1 TAAAATATATT
3361371 TAAAATATATT
1 TAAAATATATT
3361382 TAAAAT-TATT
1 TAAAATATATT
3361392 T
1 T
3361393 TATAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TAAAATATATT
Found at i:3361403 original size:20 final size:20
Alignment explanation
Indices: 3361380--3361442 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
3361370 TTAAAATATA
3361380 TTTAAAATTATTTTATAATT
1 TTTAAAATTATTTTATAATT
*
3361400 TTT-AAATAATTTTAATAATT
1 TTTAAAATTATTTT-ATAATT
* * * *
3361420 TTAAAAAATAATTTAGAATT
1 TTTAAAATTATTTTATAATT
3361440 TTT
1 TTT
3361443 TGAAATTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
19 9 0.26
20 18 0.53
21 7 0.21
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTAAAATTATTTTATAATT
Found at i:3361411 original size:19 final size:20
Alignment explanation
Indices: 3361384--3361421 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
3361374 AATATATTTA
*
3361384 AAATTATTTT-ATAATTTTT
1 AAATAATTTTAATAATTTTT
3361403 AAATAATTTTAATAATTTT
1 AAATAATTTTAATAATTTT
3361422 AAAAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AAATAATTTTAATAATTTTT
Found at i:3361422 original size:19 final size:19
Alignment explanation
Indices: 3361374--3361424 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
3361364 AAATATTTAA
* *
3361374 AATATATTTAAAATTATTTT
1 AATA-ATTTTAAATAATTTT
3361394 -ATAATTTTTAAATAATTTT
1 AATAA-TTTTAAATAATTTT
3361413 AATAATTTTAAA
1 AATAATTTTAAA
3361425 AAATAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 1 0.04
19 22 0.81
20 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATAATTTTAAATAATTTT
Found at i:3364246 original size:19 final size:20
Alignment explanation
Indices: 3364222--3364260 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
3364212 AACTGACATG
*
3364222 AAAAATATTAAAA-AAAATA
1 AAAAATATAAAAAGAAAATA
3364241 AAAAATATAAAAAGAAAATA
1 AAAAATATAAAAAGAAAATA
3364261 GATGTAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (20 bp):
AAAAATATAAAAAGAAAATA
Found at i:3368469 original size:27 final size:27
Alignment explanation
Indices: 3368439--3368490 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
3368429 TATGATAATT
3368439 ATATATAAAATT-TTAATAAATAAAAAA
1 ATATATAAAATTATTAA-AAATAAAAAA
* *
3368466 ATATATTAAATTATTAAATATAAAA
1 ATATATAAAATTATTAAAAATAAAA
3368491 TTAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (27 bp):
ATATATAAAATTATTAAAAATAAAAAA
Found at i:3370113 original size:15 final size:17
Alignment explanation
Indices: 3370078--3370116 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
3370068 ATAGAATTGC
*
3370078 TCTTCACCTTCTTTATT
1 TCTTCCCCTTCTTTATT
3370095 TCTTCCCCTT-TTT-TT
1 TCTTCCCCTTCTTTATT
3370110 TCTTCCC
1 TCTTCCC
3370117 TCTTATTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 3 0.14
17 9 0.43
ACGTcount: A:0.05, C:0.36, G:0.00, T:0.59
Consensus pattern (17 bp):
TCTTCCCCTTCTTTATT
Found at i:3371263 original size:43 final size:43
Alignment explanation
Indices: 3371201--3371298 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 43
3371191 AATGAAGGAA
* * *
3371201 GTATTAGCAACTTGCTTGCACCGATTAGTTGTTTATCTACACC
1 GTATTAGCAACTTGCTTGCACCGAGTAGTGGTTTATCCACACC
* * * *
3371244 GTATTAGCAGCTTGTTTGCACTGAGTAGTGGTTTATCCATACC
1 GTATTAGCAACTTGCTTGCACCGAGTAGTGGTTTATCCACACC
3371287 -TATTAGCAACTT
1 GTATTAGCAACTT
3371299 TTATCTACAT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 11 0.23
43 36 0.77
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.38
Consensus pattern (43 bp):
GTATTAGCAACTTGCTTGCACCGAGTAGTGGTTTATCCACACC
Found at i:3372826 original size:26 final size:27
Alignment explanation
Indices: 3372769--3372827 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
3372759 CTTTTCAATT
3372769 GTAAAA-AGATAAAGAAATAATAAGAA
1 GTAAAATAGATAAAGAAATAATAAGAA
*
3372795 GT-AAATAGATAAATAAATAAATAA-AA
1 GTAAAATAGATAAAGAAAT-AATAAGAA
3372821 -TAAAATA
1 GTAAAATA
3372828 AATTGTGCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
25 4 0.14
26 20 0.69
27 5 0.17
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.20
Consensus pattern (27 bp):
GTAAAATAGATAAAGAAATAATAAGAA
Found at i:3376145 original size:46 final size:44
Alignment explanation
Indices: 3376041--3376148 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
3376031 TGTCTTTGAC
** * * *
3376041 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
3376085 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
3376131 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
3376149 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:3383525 original size:46 final size:44
Alignment explanation
Indices: 3383421--3383528 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
3383411 TGTCTTTGAC
** * * *
3383421 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
3383465 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
3383511 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
3383529 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:3389354 original size:23 final size:23
Alignment explanation
Indices: 3389312--3389360 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
3389302 AAAATATAAA
*
3389312 TAATAATAAAAT-TTAGAAAATT
1 TAATAATAAAATATAAGAAAATT
3389334 TAATCAATAAAAATATAA-AAAATT
1 TAAT-AAT-AAAATATAAGAAAATT
3389358 TAA
1 TAA
3389361 AATTTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 4 0.17
23 3 0.13
24 14 0.61
25 2 0.09
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
TAATAATAAAATATAAGAAAATT
Found at i:3389363 original size:31 final size:34
Alignment explanation
Indices: 3389304--3389366 Score: 87
Period size: 31 Copynumber: 1.9 Consensus size: 34
3389294 ACTAGAAAAA
*
3389304 AATATAAATAATAATAAAATTTAGAAAATTTAATC
1 AATAAAAATAATAATAAAATTTA-AAAATTTAATC
3389339 AATAAAAAT-ATAA-AAAATTT-AAAATTTA
1 AATAAAAATAATAATAAAATTTAAAAATTTA
3389367 TTAAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 8 0.30
33 7 0.26
34 4 0.15
35 8 0.30
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (34 bp):
AATAAAAATAATAATAAAATTTAAAAATTTAATC
Found at i:3389599 original size:9 final size:9
Alignment explanation
Indices: 3389585--3389818 Score: 90
Period size: 9 Copynumber: 25.1 Consensus size: 9
3389575 TTTTGGTGCG
3389585 ATAATTTTT
1 ATAATTTTT
3389594 ATAATTTTTT
1 ATAA-TTTTT
* **
3389604 TTCAAAATTT
1 AT-AATTTTT
3389614 AT-ATTTCTT
1 ATAATTT-TT
3389623 -TACATTTTGT
1 ATA-ATTTT-T
3389633 ATAATTTTCT
1 ATAATTTT-T
3389643 -TACGAT-TTT
1 ATA--ATTTTT
*
3389652 ATAAAATTTT
1 AT-AATTTTT
3389662 ATAATTTTT
1 ATAATTTTT
*
3389671 -TATATTTCT
1 ATA-ATTTTT
3389680 AT-ATATTTT
1 ATAAT-TTTT
3389689 ATAACTTTTT
1 ATAA-TTTTT
3389699 ATAATTTTT
1 ATAATTTTT
3389708 ATAAAATTTTT
1 AT--AATTTTT
*
3389719 ACAATTTTT
1 ATAATTTTT
*
3389728 CTAATTTTT
1 ATAATTTTT
*
3389737 ATAAATTTT
1 ATAATTTTT
*
3389746 A-AATATTT
1 ATAATTTTT
*
3389754 -GAATTTTT
1 ATAATTTTT
* *
3389762 ATTAAAATTTA
1 A-T-AATTTTT
*
3389773 ATAATATTT
1 ATAATTTTT
**
3389782 ATAGCTTTT
1 ATAATTTTT
* *
3389791 ATTGATTTTA
1 A-TAATTTTT
*
3389801 AT-TTTTTT
1 ATAATTTTT
3389809 ATAATTTTT
1 ATAATTTTT
3389818 A
1 A
3389819 ATAAAAGTAA
Statistics
Matches: 165, Mismatches: 35, Indels: 50
0.66 0.14 0.20
Matches are distributed among these distances:
8 24 0.15
9 74 0.45
10 45 0.27
11 22 0.13
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (9 bp):
ATAATTTTT
Found at i:3389641 original size:21 final size:21
Alignment explanation
Indices: 3389617--3389661 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3389607 AAAATTTATA
* *
3389617 TTTCTTTAC-ATTTTGTATAAT
1 TTTC-TTACGATTTTATAAAAT
3389638 TTTCTTACGATTTTATAAAAT
1 TTTCTTACGATTTTATAAAAT
3389659 TTT
1 TTT
3389662 ATAATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.27, C:0.09, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTCTTACGATTTTATAAAAT
Found at i:3389673 original size:20 final size:20
Alignment explanation
Indices: 3389648--3389727 Score: 71
Period size: 20 Copynumber: 4.2 Consensus size: 20
3389638 TTTCTTACGA
3389648 TTTTATAAAATTTTATAATT
1 TTTTATAAAATTTTATAATT
*
3389668 TTTTAT---ATTTCTAT-ATA
1 TTTTATAAAATTT-TATAATT
**
3389685 TTTTATAACTTTTTATAA-T
1 TTTTATAAAATTTTATAATT
*
3389704 TTTTATAAAATTTTTACAATT
1 TTTTATAAAA-TTTTATAATT
3389725 TTT
1 TTT
3389728 CTAATTTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
17 12 0.26
18 3 0.06
19 11 0.23
20 17 0.36
21 4 0.09
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTATAAAATTTTATAATT
Found at i:3389779 original size:28 final size:25
Alignment explanation
Indices: 3389730--3389781 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
3389720 CAATTTTTCT
*
3389730 AATTTTTATAAATTTTAAATATTTG
1 AATTTTTATAAATTTAAAATATTTG
3389755 AATTTTTATTAAAATTTAATAATATTT
1 AATTTTTA-T-AAATTTAA-AATATTT
3389782 ATAGCTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 8 0.35
26 1 0.04
27 7 0.30
28 7 0.30
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (25 bp):
AATTTTTATAAATTTAAAATATTTG
Found at i:3390793 original size:14 final size:14
Alignment explanation
Indices: 3390774--3390801 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3390764 TTTAGGATTT
3390774 TACCTAAAGTTGTC
1 TACCTAAAGTTGTC
3390788 TACCTAAAGTTGTC
1 TACCTAAAGTTGTC
3390802 AATATTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (14 bp):
TACCTAAAGTTGTC
Found at i:3395910 original size:47 final size:47
Alignment explanation
Indices: 3395846--3395956 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
3395836 GACATTGAGT
*
3395846 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
3395893 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
3395940 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
3395957 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:3403220 original size:25 final size:25
Alignment explanation
Indices: 3403158--3403220 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 25
3403148 TATCACACTT
*
3403158 TTATAAC-ATATAAATTAATTTTTA
1 TTATAACTTTATAAATTAATTTTTA
* * *
3403182 TAATAA-TTTCTAAA-TATATTTTTG
1 TTATAACTTTATAAATTA-ATTTTTA
3403206 TTATAACTTTATAAA
1 TTATAACTTTATAAA
3403221 ATGCATAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
23 2 0.07
24 21 0.70
25 7 0.23
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (25 bp):
TTATAACTTTATAAATTAATTTTTA
Found at i:3404379 original size:24 final size:23
Alignment explanation
Indices: 3404333--3404391 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
3404323 ATATTTATAG
3404333 AAATAAAATTAATTAAGTTAAATT
1 AAATAAAA-TAATTAAGTTAAATT
**
3404357 ATTTAAAATAATATAA-TTAAAATT
1 AAATAAAATAAT-TAAGTT-AAATT
3404381 AAATAAAATAA
1 AAATAAAATAA
3404392 AATTTTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 6 0.21
24 23 0.79
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
AAATAAAATAATTAAGTTAAATT
Found at i:3407279 original size:116 final size:116
Alignment explanation
Indices: 3407094--3407308 Score: 349
Period size: 116 Copynumber: 1.9 Consensus size: 116
3407084 ATACAAAGTA
* * *
3407094 TATTAATGTTATCCATGAATAATTTTATTAACCAATCTGTTTGAAAAAATTATAAGTGTACAAAT
1 TATTAATGTAATCCATGAATAATTTTACTAACCAATCTGTTCGAAAAAATTATAAGTGTACAAAT
*
3407159 GAATATACTACACTTAGGGTACCAGATCTAACAAGGACAACATACAAAAGG
66 GAATATACTACACTTAGGGCACCAGATCTAACAAGGACAACATACAAAAGG
* * *
3407210 TATTAATGTAATTCATGAATAATTTTACTAACTAGTCTGTTCGAAAAAATTATAAGTGTACAAAT
1 TATTAATGTAATCCATGAATAATTTTACTAACCAATCTGTTCGAAAAAATTATAAGTGTACAAAT
* *
3407275 GAATATACTACATTTAGGGCACTAGATCTAACAA
66 GAATATACTACACTTAGGGCACCAGATCTAACAA
3407309 TCTTCAACTT
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
116 90 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (116 bp):
TATTAATGTAATCCATGAATAATTTTACTAACCAATCTGTTCGAAAAAATTATAAGTGTACAAAT
GAATATACTACACTTAGGGCACCAGATCTAACAAGGACAACATACAAAAGG
Found at i:3413460 original size:20 final size:22
Alignment explanation
Indices: 3413435--3413477 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
3413425 TTATTTGAAT
3413435 TATTAA-ATAT-AATTCAAATA
1 TATTAATATATCAATTCAAATA
*
3413455 TATTAATTTATCAATTCAAATA
1 TATTAATATATCAATTCAAATA
3413477 T
1 T
3413478 TATAATAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 3 0.15
22 11 0.55
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (22 bp):
TATTAATATATCAATTCAAATA
Found at i:3416003 original size:24 final size:24
Alignment explanation
Indices: 3415976--3416021 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
3415966 TGACCAAGTA
3415976 TAAATAATTAT-TAATTAATTTAGT
1 TAAAT-ATTATATAATTAATTTAGT
*
3416000 TAAATTTTATATAATTAATTTA
1 TAAATATTATATAATTAATTTA
3416022 ATTATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TAAATATTATATAATTAATTTAGT
Found at i:3420350 original size:28 final size:28
Alignment explanation
Indices: 3420310--3420367 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
3420300 AACGATCTGT
*
3420310 ATCACCGGTACATAGTACCTGCTAAATG
1 ATCACCGGCACATAGTACCTGCTAAATG
* *
3420338 ATCACCTGCACATAGTACCTTCTAAATG
1 ATCACCGGCACATAGTACCTGCTAAATG
3420366 AT
1 AT
3420368 TACCAGCTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (28 bp):
ATCACCGGCACATAGTACCTGCTAAATG
Found at i:3432179 original size:89 final size:88
Alignment explanation
Indices: 3432074--3432241 Score: 192
Period size: 89 Copynumber: 1.9 Consensus size: 88
3432064 ATAATAATAA
* * * * *
3432074 TTTTTTTCATTTAATTGAGCGCTTAAATTTTTAAAATGCATAAAAAAGGCCCTCAAACTTCTTCA
1 TTTTTTTCAATCAATTGAGCACTTAAACTTTTAAAATGCATAAAAAAGACCCTCAAA-TTCTTCA
3432139 AAAAAAGCAATTAAGTCTCTATAT
65 AAAAAAGCAATTAAGTCTCTATAT
* * * * * * * * **
3432163 TTTTTTTCAATCAATTGGGTATTTGAACTTTTAAAATGCATCAAAAAGACCTTTAAATTTTTTTA
1 TTTTTTTCAATCAATTGAGCACTTAAACTTTTAAAATGCATAAAAAAGACCCTCAAATTCTTCAA
3432228 AAAAAGCAATTAAG
66 AAAAAGCAATTAAG
3432242 CCCCTATTCT
Statistics
Matches: 64, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
88 19 0.30
89 45 0.70
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (88 bp):
TTTTTTTCAATCAATTGAGCACTTAAACTTTTAAAATGCATAAAAAAGACCCTCAAATTCTTCAA
AAAAAGCAATTAAGTCTCTATAT
Found at i:3432568 original size:10 final size:10
Alignment explanation
Indices: 3432555--3432593 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
3432545 TTTTATGAAA
3432555 TTTATATTTC
1 TTTATATTTC
* *
3432565 TTTACATTTT
1 TTTATATTTC
3432575 TTTATATTTC
1 TTTATATTTC
*
3432585 TATATATTT
1 TTTATATTT
3432594 TATAATTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTATATTTC
Found at i:3432593 original size:20 final size:20
Alignment explanation
Indices: 3432555--3432594 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3432545 TTTTATGAAA
*
3432555 TTTATATTTCTTTACATTTT
1 TTTATATTTCTATACATTTT
*
3432575 TTTATATTTCTATATATTTT
1 TTTATATTTCTATACATTTT
3432595 ATAATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTATATTTCTATACATTTT
Found at i:3432604 original size:10 final size:10
Alignment explanation
Indices: 3432591--3432624 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
3432581 TTTCTATATA
3432591 TTTTATAATT
1 TTTTATAATT
*
3432601 TTTTATAATA
1 TTTTATAATT
3432611 TTTTATAATT
1 TTTTATAATT
3432621 TTTT
1 TTTT
3432625 GAAAGTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTATAATT
Found at i:3434954 original size:9 final size:9
Alignment explanation
Indices: 3434940--3434976 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
3434930 AACAATTTAA
3434940 TTTTTTTCT
1 TTTTTTTCT
3434949 TTTTTTTCT
1 TTTTTTTCT
*
3434958 TTTTTTTCC
1 TTTTTTTCT
*
3434967 TTTTCTTCT
1 TTTTTTTCT
3434976 T
1 T
3434977 CCCCTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:3439704 original size:29 final size:30
Alignment explanation
Indices: 3439672--3439740 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
3439662 AGTAAAAAGA
3439672 TAAAAATA-TATAGTATAAA-TT-AAATTTTT
1 TAAAAATATTATA-TA-AAATTTGAAATTTTT
3439701 T-AAAATATTATATAAAATTTGAAATTTTT
1 TAAAAATATTATATAAAATTTGAAATTTTT
3439730 TATAAAA-ATTA
1 TA-AAAATATTA
3439741 AAAAAGGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
27 3 0.09
28 10 0.29
29 14 0.40
30 4 0.11
31 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (30 bp):
TAAAAATATTATATAAAATTTGAAATTTTT
Found at i:3440000 original size:20 final size:21
Alignment explanation
Indices: 3439975--3440064 Score: 62
Period size: 20 Copynumber: 4.4 Consensus size: 21
3439965 AAAATTTGAA
3439975 TTTTATATAAT-TTTTAAATT
1 TTTTATATAATATTTTAAATT
* *
3439995 TTTTATACAATATTTT-TATT
1 TTTTATATAATATTTTAAATT
* *
3440015 TTTTAAATTTATATTTTAGAATT
1 TTTTATA-TAATATTTTA-AATT
* * *
3440038 TGTTAAAT-A-ATTTTGAATT
1 TTTTATATAATATTTTAAATT
*
3440057 ATTTATAT
1 TTTTATAT
3440065 TTTATATATG
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
19 9 0.16
20 24 0.44
21 12 0.22
22 1 0.02
23 9 0.16
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (21 bp):
TTTTATATAATATTTTAAATT
Found at i:3441891 original size:84 final size:84
Alignment explanation
Indices: 3441537--3442690 Score: 932
Period size: 84 Copynumber: 13.9 Consensus size: 84
3441527 GGGAGGAAAG
* * * * * ** * *
3441537 GTAATCAGAGTCCGGTTTTAGCTCTCCTATCATCCATTTATGTCATGGTGTCACTGAAAGTTAGG
1 GTAATCCGAGTTCGGGTTTAGCTCTCATATAATAGATTTATGTTATGGTGTCACTGAAAGTTAGA
*
3441602 CTTTGTATAAGCTGCATTT
66 CTTTGTAGAAGCTGCATTT
*
3441621 GTTAATCCGAGTTCGGGTTCAGCTCTCATATAATAGA-TT-TGTTATGGTGTCACTGAAAGTTAG
1 G-TAATCCGAGTTCGGGTTTAGCTCTCATATAATAGATTTATGTTATGGTGTCACTGAAAGTTAG
*
3441684 ACTTTGTATAAGCTGCATTT
65 ACTTTGTAGAAGCTGCATTT
** * * * ** *
3441704 GTAATCCGAGTTCAAGTTCAGCTCTCATATAATAGATTTACGATATGGTGTCGTTCAAAGTTAAG
1 GTAATCCGAGTTCGGGTTTAGCTCTCATATAATAGATTTATGTTATGGTGTCACTGAAAGTT-AG
** *
3441769 ACTTTGTTTAAGCTGTATTT
65 ACTTTGTAGAAGCTGCATTT
* * * * * * * *
3441789 GTGATCCGAGTTCTGGTTTAGCCCTCATTTGATAGATTTATGTTATTGAGTCGCTGAAAGTTAGA
1 GTAATCCGAGTTCGGGTTTAGCTCTCATATAATAGATTTATGTTATGGTGTCACTGAAAGTTAGA
*
3441854 CATTGTAGAAGCTGCATTT
66 CTTTGTAGAAGCTGCATTT
* * * * *
3441873 GTAATCTGAGTTCGGGTTTGGCTTTCAGATAATATATTTATGTTATGGTGTCACTGAAAGTTAGA
1 GTAATCCGAGTTCGGGTTTAGCTCTCATATAATAGATTTATGTTATGGTGTCACTGAAAGTTAGA
* *
3441938 CTTTGTATAAGCTGTATTT
66 CTTTGTAGAAGCTGCATTT
* * * * *
3441957 GTAACCCAATTTCGGGTTCAGCTCTCATATAATAGATTTATGTTATGATGTCACTGAAAGTTAGA
1 GTAATCCGAGTTCGGGTTTAGCTCTCATATAATAGATTTATGTTATGGTGTCACTGAAAGTTAGA
* *
3442022 CTTTGGACAAGCTGCATTT
66 CTTTGTAGAAGCTGCATTT
* * *
3442041 GTAATCCAAGTTCGGGTTCAGCTCTCATATAATATATTTATGTTATGGTGTCACTGAAAGTTAGA
1 GTAATCCGAGTTCGGGTTTAGCTCTCATATAATAGATTTATGTTATGGTGTCACTGAAAGTTAGA
* *
3442106 CTTTGTATAAGTTGCATTT
66 CTTTGTAGAAGCTGCATTT
* * * ** * * * *
3442125 GTAATCCAAGTTCAGGTTTAGCCCTTGTTTGATAGATTTATGTTATTGTGTCGCTGAAAGTTAGA
1 GTAATCCGAGTTCGGGTTTAGCTCTCATATAATAGATTTATGTTATGGTGTCACTGAAAGTTAGA
* *
3442190 CTTTGCATG-AGCCGCATTT
66 CTTTGTA-GAAGCTGCATTT
* * * * * * * * * * *
3442209 ATAACCCAAATTCAGGTTTAGCCCTCGTTTGATAGATTTATGTTATTGTGTCACTGAAAGTTAAA
1 GTAATCCGAGTTCGGGTTTAGCTCTCATATAATAGATTTATGTTATGGTGTCACTGAAAGTTAGA
*
3442274 CTTTGCATG-AGCTGCATTT
66 CTTTGTA-GAAGCTGCATTT
* * * * * ** **
3442293 ATAA-CCTGAGTTCGGGCTTAGCTCT-ATTGTAATAGATTTAT-ATATGGTTTTGCTGAATTTTA
1 GTAATCC-GAGTTCGGGTTTAGCTCTCA-TATAATAGATTTATGTTATGGTGTCACTGAAAGTTA
* * *
3442355 GACTTTTTATG-AGTTGTATTT
64 GACTTTGTA-GAAGCTGCATTT
* * * * * **
3442376 GTAATCCGATTTCAGGTTTAGCTCTTGA-ATTATAGATTTTATGTTACGGTGTTGCTGAAAGTTA
1 GTAATCCGAGTTCGGGTTTAGCTC-TCATATAATAGA-TTTATGTTATGGTGTCACTGAAAGTTA
3442440 GAC-TTGT-G-AGCTGCATTT
64 GACTTTGTAGAAGCTGCATTT
* * * * * * *
3442458 GCAATCTGATTTTGGGATTAGCTCTCGA-ATCATAGATTTATGGTAT-G-G----TG-AAGTTAG
1 GTAATCCGAGTTCGGGTTTAGCTCTC-ATATAATAGATTTATGTTATGGTGTCACTGAAAGTTAG
3442515 ACTTTGTATG-AGCTGCATTT
65 ACTTTGTA-GAAGCTGCATTT
* * * * *** * * * ** * *
3442535 GTAATCTGAGTTTGGGTTCAGCCCTCATGCCATAGATTTGTCTTATGGTATCACTGCCACTTGGA
1 GTAATCCGAGTTCGGGTTTAGCTCTCATATAATAGATTTATGTTATGGTGTCACTGAAAGTTAGA
3442600 CTTTGTATG-AGCTGCATTT
66 CTTTGTA-GAAGCTGCATTT
* * * * * * **
3442619 CTAA-CCTCAGTTCGGGTTTAGCTCTCAAATCATAGATTTATATTATGTTGTTGCTGAAAGTTAG
1 GTAATCC-GAGTTCGGGTTTAGCTCTCATATAATAGATTTATGTTATGGTGTCACTGAAAGTTAG
3442683 ACTTTGTA
65 ACTTTGTA
3442691 TGTGCTGCAT
Statistics
Matches: 876, Mismatches: 169, Indels: 50
0.80 0.15 0.05
Matches are distributed among these distances:
74 9 0.01
75 6 0.01
76 1 0.00
77 45 0.05
78 1 0.00
79 1 0.00
80 1 0.00
81 9 0.01
82 69 0.08
83 103 0.12
84 515 0.59
85 116 0.13
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (84 bp):
GTAATCCGAGTTCGGGTTTAGCTCTCATATAATAGATTTATGTTATGGTGTCACTGAAAGTTAGA
CTTTGTAGAAGCTGCATTT
Found at i:3442582 original size:77 final size:73
Alignment explanation
Indices: 3442434--3442583 Score: 169
Period size: 77 Copynumber: 2.0 Consensus size: 73
3442424 GTGTTGCTGA
* *
3442434 AAGTTAGACTTGTGAGCTGCATTTGCAATCTGATTTTGGGATTAGCTCTCGAATCATAGATTTAT
1 AAGTTAGACTTGTGAGCTGCATTTGCAATCTGAGTTTGGGATTAGCCCTC-AATCATAGATTTAT
*
3442499 GGTATGGTG
65 CGTATGGTG
*
3442508 AAGTTAGACTTTGTATGAGCTGCATTTGTAATCTGAGTTTGGG-TTCAGCCCTC-ATGCCATAGA
1 AAGTTAGAC-TTG--TGAGCTGCATTTGCAATCTGAGTTTGGGATT-AGCCCTCAAT--CATAGA
* *
3442571 TTTGTCTTATGGT
60 TTTATCGTATGGT
3442584 ATCACTGCCA
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
74 9 0.14
75 5 0.08
76 2 0.03
77 48 0.75
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.39
Consensus pattern (73 bp):
AAGTTAGACTTGTGAGCTGCATTTGCAATCTGAGTTTGGGATTAGCCCTCAATCATAGATTTATC
GTATGGTG
Found at i:3453835 original size:16 final size:17
Alignment explanation
Indices: 3453808--3453840 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3453798 TTAAAAATAA
3453808 TTTAACAATAATAAATT
1 TTTAACAATAATAAATT
*
3453825 TTTAA-AATAATTAATT
1 TTTAACAATAATAAATT
3453841 CGATTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTAACAATAATAAATT
Found at i:3455511 original size:20 final size:20
Alignment explanation
Indices: 3455486--3455523 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3455476 ATATTTTATT
*
3455486 TTTATTAAAATATTATATAA
1 TTTATTAAAAAATTATATAA
3455506 TTTATTAAAAAATTATAT
1 TTTATTAAAAAATTATAT
3455524 TATAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTATTAAAAAATTATATAA
Found at i:3459023 original size:41 final size:41
Alignment explanation
Indices: 3458966--3459047 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
3458956 ATTATTTTGG
3458966 CCAAAAATTTACTACGTCATTATCTCTTTTACGTTTATAGA
1 CCAAAAATTTACTACGTCATTATCTCTTTTACGTTTATAGA
3459007 CCAAAAATTTACTACGTCATTATCTCTTTTACGTTTATAGA
1 CCAAAAATTTACTACGTCATTATCTCTTTTACGTTTATAGA
3459048 GTATAATTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (41 bp):
CCAAAAATTTACTACGTCATTATCTCTTTTACGTTTATAGA
Found at i:3465051 original size:41 final size:40
Alignment explanation
Indices: 3464777--3465093 Score: 233
Period size: 38 Copynumber: 8.1 Consensus size: 40
3464767 GGTAATTTCA
* * *
3464777 GGCTATGTGCCTAGTAGGCTTTGTGTCGGTG-AT-T-TCG
1 GGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGTATATATCG
* * * *
3464814 GGCTATGTGCCTAGCAGGCTTTATGCCGAT-AATAT-TCG
1 GGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGTATATATCG
* ** * * * **
3464852 AGCTCCGTGCCTAACAGACTTTGTACCAATG-ATAT-TCG
1 GGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGTATATATCG
* **
3464890 AGCTCCGTGCCTAGCAGGCTTTGTGCCGGTG-ATAT-TCG
1 GGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGTATATATCG
** * *
3464928 GGCTCCGTGCCTAGCAGGTTTTGTGCCGGTG-ATAT-TCA
1 GGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGTATATATCG
* * * *
3464966 GGCTCTGTACCTAACAGGTTTTGTGCCGGTGTATTATATCG
1 GGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGTA-TATATCG
** *
3465007 GGCTTTGTGCCTAGCAGGCTTCATGCCAGTGTACTATATCG
1 GGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGTA-TATATCG
* * * *
3465048 GGCTTTGTGCCTAGTAAGCTTTGTGCCAGTGTACTATATCA
1 GGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGTA-TATATCG
3465089 GGCTT
1 GGCTT
3465094 CGTGTGAGTG
Statistics
Matches: 237, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
37 28 0.12
38 129 0.54
39 1 0.00
40 3 0.01
41 76 0.32
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (40 bp):
GGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGTATATATCG
Found at i:3491387 original size:23 final size:23
Alignment explanation
Indices: 3491357--3491404 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
3491347 AATTTCAATC
3491357 TCAATGTAAATTATAATCATTAA
1 TCAATGTAAATTATAATCATTAA
3491380 TCAATGTAAATTATAATCATTAA
1 TCAATGTAAATTATAATCATTAA
3491403 TC
1 TC
3491405 TATTCATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (23 bp):
TCAATGTAAATTATAATCATTAA
Found at i:3499072 original size:18 final size:20
Alignment explanation
Indices: 3499040--3499079 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
3499030 TTAGCTGTGT
3499040 AAAAATTAACCGTTGGA-AA
1 AAAAATTAACCGTTGGATAA
*
3499059 AAAAATT-ACTGTTGGATAA
1 AAAAATTAACCGTTGGATAA
3499078 AA
1 AA
3499080 TGACTATTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.53, C:0.07, G:0.15, T:0.25
Consensus pattern (20 bp):
AAAAATTAACCGTTGGATAA
Found at i:3500305 original size:30 final size:29
Alignment explanation
Indices: 3500220--3500306 Score: 86
Period size: 29 Copynumber: 2.9 Consensus size: 29
3500210 ATTTAGATTT
* *
3500220 ATTTGACTCTTTTTAATAGTATAGGGGCTA
1 ATTTGA-TCTTTTTAATAATATAGGGACTA
* **
3500250 AATTGATCCATTTAATAAT-TGAGGGACTA
1 ATTTGATCTTTTTAATAATAT-AGGGACTA
*
3500279 ATTTGATCTGTTTTTATAATATAGGGAC
1 ATTTGATCT-TTTTAATAATATAGGGAC
3500307 CTCCTAGGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
28 1 0.02
29 24 0.53
30 19 0.42
31 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.41
Consensus pattern (29 bp):
ATTTGATCTTTTTAATAATATAGGGACTA
Found at i:3503720 original size:19 final size:19
Alignment explanation
Indices: 3503677--3503713 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
3503667 ATTTTCAATT
3503677 TTTTATATTTTTTAATTATA
1 TTTT-TATTTTTTAATTATA
3503697 TTTTTATTTTTT-ATTAT
1 TTTTTATTTTTTAATTAT
3503714 TGTTTTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTATTTTTTAATTATA
Found at i:3515439 original size:6 final size:6
Alignment explanation
Indices: 3515424--3515469 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
3515414 TCTTCTTCCT
* *
3515424 CTTCTT CTTCTG CTTCTG CTTCTG CTTCTG CTTCTG CTTCTT CTTC
1 CTTCTG CTTCTG CTTCTG CTTCTG CTTCTG CTTCTG CTTCTG CTTC
3515470 CTCTTCCTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.00, C:0.35, G:0.11, T:0.54
Consensus pattern (6 bp):
CTTCTG
Found at i:3515439 original size:12 final size:12
Alignment explanation
Indices: 3515413--3515469 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
3515403 GCTTAAGTTT
3515413 TTCTTCTTCCT-C
1 TTCTTCTT-CTGC
3515425 TTCTTCTTCTGC
1 TTCTTCTTCTGC
*
3515437 TTCTGCTTCTGC
1 TTCTTCTTCTGC
*
3515449 TTCTGCTTCTGC
1 TTCTTCTTCTGC
3515461 TTCTTCTTC
1 TTCTTCTTC
3515470 CTCTTCCTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
11 2 0.05
12 40 0.95
ACGTcount: A:0.00, C:0.35, G:0.09, T:0.56
Consensus pattern (12 bp):
TTCTTCTTCTGC
Found at i:3515439 original size:18 final size:17
Alignment explanation
Indices: 3515417--3515530 Score: 110
Period size: 18 Copynumber: 6.4 Consensus size: 17
3515407 AAGTTTTTCT
3515417 TCTTCCTCTTCTTCTT-C
1 TCTTCCTCTTC-TCTTCC
3515434 TGCTT-CTGCTTCTGCTT-C
1 T-CTTCCT-CTTCT-CTTCC
3515452 TGCTT-CTGCTTCTTCTTCC
1 T-CTTCCT-CTTC-TCTTCC
3515471 TCTTCCTCTTCCTCTTCC
1 TCTTCCTCTT-CTCTTCC
3515489 TCTTCCTCTTCCTCTTCC
1 TCTTCCTCTT-CTCTTCC
3515507 TCTTCCTCTTCCTCTTCC
1 TCTTCCTCTT-CTCTTCC
3515525 TCTTCC
1 TCTTCC
3515531 GATTCTCCAA
Statistics
Matches: 90, Mismatches: 0, Indels: 13
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.04
18 80 0.89
19 6 0.07
ACGTcount: A:0.00, C:0.44, G:0.04, T:0.52
Consensus pattern (17 bp):
TCTTCCTCTTCTCTTCC
Found at i:3515474 original size:6 final size:6
Alignment explanation
Indices: 3515460--3515530 Score: 133
Period size: 6 Copynumber: 11.8 Consensus size: 6
3515450 TCTGCTTCTG
*
3515460 CTTCTT CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT
1 CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT
3515508 CTTCCT CTTCCT CTTCCT CTTCC
1 CTTCCT CTTCCT CTTCCT CTTCC
3515531 GATTCTCCAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (6 bp):
CTTCCT
Found at i:3521351 original size:14 final size:15
Alignment explanation
Indices: 3521327--3521355 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3521317 TTTGTTTGTT
3521327 TCATATTATATTTAA
1 TCATATTATATTTAA
3521342 TCAT-TTATATTTAA
1 TCATATTATATTTAA
3521356 AATATTACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (15 bp):
TCATATTATATTTAA
Found at i:3526184 original size:5 final size:6
Alignment explanation
Indices: 3526168--3526194 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
3526158 AAAGCTCACC
3526168 ATTTTT ATTTTT ATTTTT ATTTTT ATT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATT
3526195 CTCTGCTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:3527138 original size:15 final size:15
Alignment explanation
Indices: 3527118--3527152 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
3527108 GGCGGAGGTA
3527118 TGGTGCTGCTGCTGG
1 TGGTGCTGCTGCTGG
*
3527133 TGGTGCTGCTGGTGG
1 TGGTGCTGCTGCTGG
3527148 TGGTG
1 TGGTG
3527153 GTGGTGGCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.00, C:0.14, G:0.51, T:0.34
Consensus pattern (15 bp):
TGGTGCTGCTGCTGG
Found at i:3527139 original size:12 final size:12
Alignment explanation
Indices: 3527118--3527159 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
3527108 GGCGGAGGTA
*
3527118 TGGTGCTGCTGC
1 TGGTGGTGCTGC
3527130 TGGTGGTGCTGC
1 TGGTGGTGCTGC
* *
3527142 TGGTGGTGGTGG
1 TGGTGGTGCTGC
3527154 TGGTGG
1 TGGTGG
3527160 CAGGCCATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.00, C:0.12, G:0.55, T:0.33
Consensus pattern (12 bp):
TGGTGGTGCTGC
Found at i:3530490 original size:18 final size:18
Alignment explanation
Indices: 3530455--3530490 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3530445 GTTTGTGATG
* *
3530455 TTTTATATTATGTTATTT
1 TTTTATATTATATAATTT
3530473 TTTTATATTATATAATTT
1 TTTTATATTATATAATTT
3530491 ATAACACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTATATTATATAATTT
Found at i:3530596 original size:30 final size:26
Alignment explanation
Indices: 3530543--3530609 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 26
3530533 TAAGATGACT
*
3530543 ATATATAAAATTTTAATAAATTAAAAA
1 ATATATAAATTTTTAATAAATT-AAAA
3530570 ATATATAAATTTATTAAATCAAATTAAAA
1 ATATATAAATTT-TT-AAT-AAATTAAAA
3530599 ATAATATAAAT
1 AT-ATATAAAT
3530610 ATAATTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
27 11 0.31
28 2 0.06
29 9 0.26
30 13 0.37
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (26 bp):
ATATATAAATTTTTAATAAATTAAAA
Found at i:3532239 original size:19 final size:19
Alignment explanation
Indices: 3532188--3532239 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
3532178 ATATAAACCT
*
3532188 TAAAATAAT-TAT-AAAAA
1 TAAAAAAATGTATAAAAAA
3532205 TAAAATAAATAG-ATAAAAAA
1 TAAAA-AAAT-GTATAAAAAA
3532225 TAAAAAAATGTATAA
1 TAAAAAAATGTATAA
3532240 TTAAATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 10 0.34
20 10 0.34
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (19 bp):
TAAAAAAATGTATAAAAAA
Found at i:3533120 original size:22 final size:23
Alignment explanation
Indices: 3533081--3533123 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3533071 CAAAATAAAA
*
3533081 TAAAAAAAACCATGAATTAAGCC
1 TAAAAAAAACCATAAATTAAGCC
*
3533104 TAAAAAAAACTA-AAATTAAG
1 TAAAAAAAACCATAAATTAAG
3533124 AAAATAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.63, C:0.12, G:0.07, T:0.19
Consensus pattern (23 bp):
TAAAAAAAACCATAAATTAAGCC
Found at i:3544480 original size:16 final size:17
Alignment explanation
Indices: 3544459--3544494 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
3544449 TTATGCTTAA
*
3544459 TTAATAATTT-TTATTT
1 TTAATAATTTATTAATT
3544475 TTAATAATTTATTAATT
1 TTAATAATTTATTAATT
3544492 TTA
1 TTA
3544495 TTTTAACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTAATAATTTATTAATT
Found at i:3547228 original size:67 final size:67
Alignment explanation
Indices: 3547117--3547256 Score: 172
Period size: 67 Copynumber: 2.1 Consensus size: 67
3547107 ACCTGTGATC
* *
3547117 AACATTTGGGCCCGTCCATGAACCATTCAACAACTCTCTGCTGAGGCAAGGCATATCTCCAAACA
1 AACATTTGGGCCCGTCCATGAACCATTCAACAACTCTCTACTGAGGCAAGGCATATCTCCAAAAA
3547182 TA
66 TA
* * *** * ** *
3547184 AACATTTGGGCCCTTCCATGAACCGTTCAATGGCTTTCTACTGAGGTGAGGCATATCTTCAAAAA
1 AACATTTGGGCCCGTCCATGAACCATTCAACAACTCTCTACTGAGGCAAGGCATATCTCCAAAAA
*
3547249 TT
66 TA
3547251 AACATT
1 AACATT
3547257 CGAGCCGCTT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (67 bp):
AACATTTGGGCCCGTCCATGAACCATTCAACAACTCTCTACTGAGGCAAGGCATATCTCCAAAAA
TA
Found at i:3547356 original size:27 final size:28
Alignment explanation
Indices: 3547326--3547390 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 28
3547316 TCGACATATG
*
3547326 GTACCCTTCCATGA-TACCTTCCTACGA
1 GTACCCTCCCATGAGTACCTTCCTACGA
3547353 GTACCCTCCCATGAGTACCTTCCTACGA
1 GTACCCTCCCATGAGTACCTTCCTACGA
*
3547381 CTA-CCTCCCA
1 GTACCCTCCCA
3547391 AAGTACCCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 20 0.57
28 15 0.43
ACGTcount: A:0.22, C:0.42, G:0.11, T:0.26
Consensus pattern (28 bp):
GTACCCTCCCATGAGTACCTTCCTACGA
Found at i:3547385 original size:14 final size:14
Alignment explanation
Indices: 3547340--3547386 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
3547330 CCTTCCATGA
3547340 TACCTTCCTACGAG
1 TACCTTCCTACGAG
* * *
3547354 TACCCTCCCATGAG
1 TACCTTCCTACGAG
*
3547368 TACCTTCCTACGAC
1 TACCTTCCTACGAG
3547382 TACCT
1 TACCT
3547387 CCCAAAGTAC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.21, C:0.40, G:0.11, T:0.28
Consensus pattern (14 bp):
TACCTTCCTACGAG
Found at i:3547400 original size:27 final size:28
Alignment explanation
Indices: 3547327--3547402 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 28
3547317 CGACATATGG
* * *
3547327 TACCCTTCCATGA-TACCTTCCTACGAG
1 TACCCTCCCATAAGTACCTTCCTACGAC
*
3547354 TACCCTCCCATGAGTACCTTCCTACGAC
1 TACCCTCCCATAAGTACCTTCCTACGAC
3547382 TA-CCTCCCA-AAGTACCCTTCC
1 TACCCTCCCATAAGTA-CCTTCC
3547403 ACGGAACCAC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 4 0.09
27 25 0.57
28 15 0.34
ACGTcount: A:0.22, C:0.42, G:0.09, T:0.26
Consensus pattern (28 bp):
TACCCTCCCATAAGTACCTTCCTACGAC
Found at i:3551314 original size:26 final size:26
Alignment explanation
Indices: 3551278--3551331 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
3551268 CTTAAACTAG
3551278 ATTGCCTGTATATCTGTTTCAAATAT
1 ATTGCCTGTATATCTGTTTCAAATAT
3551304 ATTGCCTGTATATCTGTTTCAAATAT
1 ATTGCCTGTATATCTGTTTCAAATAT
3551330 AT
1 AT
3551332 CTTTGAGTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.46
Consensus pattern (26 bp):
ATTGCCTGTATATCTGTTTCAAATAT
Found at i:3555852 original size:7 final size:7
Alignment explanation
Indices: 3555842--3555866 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3555832 TTTAAGAATT
3555842 ATTTTAA
1 ATTTTAA
3555849 ATTTTAA
1 ATTTTAA
3555856 ATTTTAA
1 ATTTTAA
3555863 ATTT
1 ATTT
3555867 CTGAGATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTTAA
Found at i:3556145 original size:28 final size:28
Alignment explanation
Indices: 3556113--3556176 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
3556103 TATATGATTA
3556113 AATAAATA-ATAATTAT-ATAATATTAAAT
1 AATAAATATATAATT-TCATAAT-TTAAAT
*
3556141 AATAAA-ATATAATTTCATAATTTTAAT
1 AATAAATATATAATTTCATAATTTAAAT
3556168 AATAAATAT
1 AATAAATAT
3556177 TTTATCATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 13 0.41
28 19 0.59
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (28 bp):
AATAAATATATAATTTCATAATTTAAAT
Found at i:3559610 original size:16 final size:16
Alignment explanation
Indices: 3559589--3559621 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3559579 ACATGGATAT
3559589 GTTCAAAATTTTAAGA
1 GTTCAAAATTTTAAGA
3559605 GTTCAAAATTTTAAGA
1 GTTCAAAATTTTAAGA
3559621 G
1 G
3559622 ACGTCTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.36
Consensus pattern (16 bp):
GTTCAAAATTTTAAGA
Found at i:3562357 original size:77 final size:76
Alignment explanation
Indices: 3562254--3562403 Score: 212
Period size: 77 Copynumber: 2.0 Consensus size: 76
3562244 GCTAGTCTTC
* * * *
3562254 AAGAAACTCGATAATGATTCTGATACTCAAGCAACTGGCAGTCAAGAAGCTTTATCTCAGACTGT
1 AAGAAACTCGACAATGATTCTGATACTCAAGCAACTGGCAGTCAAGAAGCTTCATCACAAACTGT
3562319 CTGAAAGTTGG
66 CTGAAAGTTGG
** *
3562330 AAGAAACTCAGACAATGATT-TGGATACTTGAGCAACTGGCAGTCGAGAAGCTTCATCACAAACT
1 AAGAAACTC-GACAATGATTCT-GATACTCAAGCAACTGGCAGTCAAGAAGCTTCATCACAAACT
3562394 GTCTGAAAGT
64 GTCTGAAAGT
3562404 GAATAACTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
76 10 0.15
77 55 0.85
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (76 bp):
AAGAAACTCGACAATGATTCTGATACTCAAGCAACTGGCAGTCAAGAAGCTTCATCACAAACTGT
CTGAAAGTTGG
Found at i:3563380 original size:10 final size:10
Alignment explanation
Indices: 3563365--3563394 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
3563355 TGCCTTTGTG
3563365 ATAAAATTTT
1 ATAAAATTTT
3563375 ATAAAATTTT
1 ATAAAATTTT
3563385 A-AAAATTTT
1 ATAAAATTTT
3563394 A
1 A
3563395 ACCCTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATAAAATTTT
Found at i:3567730 original size:28 final size:29
Alignment explanation
Indices: 3567686--3567740 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
3567676 TCTAAGAAGG
*
3567686 TGAATCAATTGGTTCC-TCTACTATTACA
1 TGAATCAATTAGTTCCTTCTACTATTACA
*
3567714 TGAATCAATTTAG-TCCTTTTACTATTA
1 TGAATCAA-TTAGTTCCTTCTACTATTA
3567741 AAAGGAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (29 bp):
TGAATCAATTAGTTCCTTCTACTATTACA
Found at i:3568479 original size:2 final size:2
Alignment explanation
Indices: 3568472--3568496 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3568462 TTCCACAAAA
3568472 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
3568497 ACACACACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3571367 original size:15 final size:15
Alignment explanation
Indices: 3571347--3571379 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
3571337 TTTAATATTA
3571347 AAATTTTCAAATTCT
1 AAATTTTCAAATTCT
3571362 AAATTTTCAAATTCT
1 AAATTTTCAAATTCT
3571377 AAA
1 AAA
3571380 AGTATAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (15 bp):
AAATTTTCAAATTCT
Found at i:3577644 original size:22 final size:22
Alignment explanation
Indices: 3577625--3577667 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3577615 TCTTTTTTTT
* *
3577625 TGCTATTTTTTTACTATTTTGC
1 TGCTATTTTCTCACTATTTTGC
3577647 TGCTATTTTCTCACTATTTTG
1 TGCTATTTTCTCACTATTTTG
3577668 TTACCATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.16, G:0.09, T:0.60
Consensus pattern (22 bp):
TGCTATTTTCTCACTATTTTGC
Found at i:3579587 original size:25 final size:25
Alignment explanation
Indices: 3579555--3579710 Score: 147
Period size: 25 Copynumber: 6.3 Consensus size: 25
3579545 GCTCTCTTTT
3579555 GAGCCATATAATAGGAAGCTCATCA
1 GAGCCATATAATAGGAAGCTCATCA
* *
3579580 GAGCCATATAATAGGAAGCTTATCC
1 GAGCCATATAATAGGAAGCTCATCA
* * * *
3579605 GAGCTATATAATGGGAAGCTTATAA
1 GAGCCATATAATAGGAAGCTCATCA
* * **
3579630 GAGCCATA-ATTGGGAAGCTCATGT
1 GAGCCATATAATAGGAAGCTCATCA
* *
3579654 GAGCCATA-AATAGGAAGCTTATCC
1 GAGCCATATAATAGGAAGCTCATCA
* * *
3579678 GGGCTATATAAT-GAGAAGCTCATAA
1 GAGCCATATAATAG-GAAGCTCATCA
3579703 GAGCCATA
1 GAGCCATA
3579711 ATTGGGAAGT
Statistics
Matches: 106, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
24 38 0.36
25 68 0.64
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (25 bp):
GAGCCATATAATAGGAAGCTCATCA
Found at i:3579674 original size:73 final size:74
Alignment explanation
Indices: 3579568--3579745 Score: 261
Period size: 73 Copynumber: 2.4 Consensus size: 74
3579558 CCATATAATA
* * *
3579568 GGAAGCTCATCAGAGCCATATAATAGGAAGCTTATCCGAGCTATATAATGGGAAGCTTATAAGAG
1 GGAAGCTCATGAGAGCCATATAATAGGAAGCTTATCCGAGCTATATAATGAGAAGCTCATAAGAG
3579633 CCATAATTG
66 CCATAATTG
* *
3579642 GGAAGCTCATGTGAGCCATA-AATAGGAAGCTTATCCGGGCTATATAATGAGAAGCTCATAAGAG
1 GGAAGCTCATGAGAGCCATATAATAGGAAGCTTATCCGAGCTATATAATGAGAAGCTCATAAGAG
3579706 CCATAATTG
66 CCATAATTG
* * * *
3579715 GGAAGTTCATGCGAGCCA-ATAACAGGTAGCT
1 GGAAGCTCATGAGAGCCATATAATAGGAAGCT
3579746 CCAAAGAGCC
Statistics
Matches: 94, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
72 1 0.01
73 75 0.80
74 18 0.19
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (74 bp):
GGAAGCTCATGAGAGCCATATAATAGGAAGCTTATCCGAGCTATATAATGAGAAGCTCATAAGAG
CCATAATTG
Found at i:3579730 original size:24 final size:24
Alignment explanation
Indices: 3579555--3579732 Score: 124
Period size: 25 Copynumber: 7.2 Consensus size: 24
3579545 GCTCTCTTTT
*
3579555 GAGCCATATAATAGGAAGCTCAT-C
1 GAGCCATA-AATGGGAAGCTCATGC
* * *
3579579 AGAGCCATATAATAGGAAGCTTATCC
1 -GAGCCATA-AATGGGAAGCTCATGC
* * **
3579605 GAGCTATATAATGGGAAGCTTATAA
1 GAGCCATA-AATGGGAAGCTCATGC
* *
3579630 GAGCCATAATTGGGAAGCTCATGT
1 GAGCCATAAATGGGAAGCTCATGC
* * *
3579654 GAGCCATAAATAGGAAGCTTATCC
1 GAGCCATAAATGGGAAGCTCATGC
* * * **
3579678 GGGCTATATAATGAGAAGCTCATAA
1 GAGCCATA-AATGGGAAGCTCATGC
* *
3579703 GAGCCATAATTGGGAAGTTCATGC
1 GAGCCATAAATGGGAAGCTCATGC
3579727 GAGCCA
1 GAGCCA
3579733 ATAACAGGTA
Statistics
Matches: 122, Mismatches: 29, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
24 54 0.44
25 67 0.55
26 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (24 bp):
GAGCCATAAATGGGAAGCTCATGC
Found at i:3579871 original size:26 final size:26
Alignment explanation
Indices: 3579801--3579872 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
3579791 AAGTTCAAGC
3579801 GAGCCATAT--CGGGAAGCTCACGAA
1 GAGCCATATAACGGGAAGCTCACGAA
* *
3579825 GAGCC-TTTAATCGGAAAGCTCACGAA
1 GAGCCATATAA-CGGGAAGCTCACGAA
*
3579851 GAGCCATATAACGGGACGCTCA
1 GAGCCATATAACGGGAAGCTCA
3579873 TAAGAGCTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
23 2 0.05
24 5 0.13
26 28 0.72
27 4 0.10
ACGTcount: A:0.33, C:0.25, G:0.26, T:0.15
Consensus pattern (26 bp):
GAGCCATATAACGGGAAGCTCACGAA
Found at i:3580331 original size:10 final size:10
Alignment explanation
Indices: 3580317--3580360 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
3580307 TAAATTTAGC
3580317 TCAATTTAAT
1 TCAATTTAAT
* *
3580327 ACAATCTATAT
1 TCAATTTA-AT
3580338 TCAATTTAAT
1 TCAATTTAAT
*
3580348 TCAATTCAAT
1 TCAATTTAAT
3580358 TCA
1 TCA
3580361 CATCATGTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
10 20 0.71
11 8 0.29
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (10 bp):
TCAATTTAAT
Found at i:3580790 original size:16 final size:16
Alignment explanation
Indices: 3580771--3580803 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3580761 TTTGTTTAAG
3580771 TTATTTT-TCCCATTTT
1 TTATTTTAT-CCATTTT
3580787 TTATTTTATCCATTTT
1 TTATTTTATCCATTTT
3580803 T
1 T
3580804 CTTTGTGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTATCCATTTT
Found at i:3581643 original size:31 final size:31
Alignment explanation
Indices: 3581570--3581645 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
3581560 TAGGTTAGGT
*
3581570 AGGCCATGTGGGCCACACAGGCTAGCCATTT
1 AGGCCATGTGGGCCACACAGGCTAGCCATTC
* * *
3581601 AGGCCACGTGGGCCACACAGGCTTGCTATTC
1 AGGCCATGTGGGCCACACAGGCTAGCCATTC
3581632 AGG-CATTGTGGGCC
1 AGGCCA-TGTGGGCC
3581646 CATTTTTCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 2 0.05
31 37 0.95
ACGTcount: A:0.20, C:0.29, G:0.32, T:0.20
Consensus pattern (31 bp):
AGGCCATGTGGGCCACACAGGCTAGCCATTC
Found at i:3582282 original size:34 final size:34
Alignment explanation
Indices: 3582191--3582309 Score: 114
Period size: 34 Copynumber: 3.5 Consensus size: 34
3582181 TTCCGATATG
* * * **
3582191 ATATAACATTTTGATATATTATATGTTTCTAAAA
1 ATATGACATTCTGATATAGTATATGTTTCTGGAA
* *
3582225 ATATGACATTCTAATCTAGTATATGTTTCTGGAA
1 ATATGACATTCTGATATAGTATATGTTTCTGGAA
* * * *
3582259 ATATGACATTTTGAT-TTGATATATATTTCTGGTA
1 ATATGACATTCTGATATAG-TATATGTTTCTGGAA
*
3582293 ATCTGACATTCTGATAT
1 ATATGACATTCTGATAT
3582310 GATATTGTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
33 2 0.03
34 66 0.96
35 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (34 bp):
ATATGACATTCTGATATAGTATATGTTTCTGGAA
Found at i:3584411 original size:22 final size:22
Alignment explanation
Indices: 3584383--3584436 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
3584373 ATTGGACCTA
*
3584383 TATAATTATGACTCAAATGATT
1 TATAATTAAGACTCAAATGATT
** *
3584405 TATAATTAAGTTTTAAATGATT
1 TATAATTAAGACTCAAATGATT
3584427 TATAATTAAG
1 TATAATTAAG
3584437 TTCTAACTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (22 bp):
TATAATTAAGACTCAAATGATT
Found at i:3584437 original size:22 final size:22
Alignment explanation
Indices: 3584397--3584438 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
3584387 ATTATGACTC
3584397 AAATGATTTATAATTAAGTTTT
1 AAATGATTTATAATTAAGTTTT
3584419 AAATGATTTATAATTAAGTT
1 AAATGATTTATAATTAAGTT
3584439 CTAACTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.48
Consensus pattern (22 bp):
AAATGATTTATAATTAAGTTTT
Found at i:3589907 original size:47 final size:47
Alignment explanation
Indices: 3589843--3589953 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
3589833 GACATTGAGT
*
3589843 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
3589890 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
3589937 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
3589954 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:3591314 original size:43 final size:43
Alignment explanation
Indices: 3591244--3591355 Score: 206
Period size: 43 Copynumber: 2.6 Consensus size: 43
3591234 CCGGCATTAC
3591244 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
* *
3591287 GCCTGCTAGGCACGAAGTCCCGTATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
3591330 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
3591356 AAAACCAACA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.29, C:0.32, G:0.26, T:0.13
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
Found at i:3591415 original size:38 final size:37
Alignment explanation
Indices: 3591370--3591492 Score: 185
Period size: 38 Copynumber: 3.2 Consensus size: 37
3591360 CCAACACTAG
*
3591370 GCCTGCGGGATTTAACCCGAATATATTACCAGCAGGAA
1 GCCTGCGGGATTTAACCCGGATATATTACCAGCA-GAA
3591408 GCCTGCGGGATTTAACCCGGATATATTACCAGCACGAA
1 GCCTGCGGGATTTAACCCGGATATATTACCAGCA-GAA
*
3591446 GCCTGCGGGATTTAACCCGGATATAATT-CCAGCATATA
1 GCCTGCGGGATTTAACCCGGATAT-ATTACCAGCAGA-A
3591484 GCCTGCGGG
1 GCCTGCGGG
3591493 TCTTTAGGCC
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
37 1 0.01
38 76 0.95
39 3 0.04
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (37 bp):
GCCTGCGGGATTTAACCCGGATATATTACCAGCAGAA
Found at i:3591771 original size:206 final size:206
Alignment explanation
Indices: 3591417--3591832 Score: 805
Period size: 206 Copynumber: 2.0 Consensus size: 206
3591407 AGCCTGCGGG
3591417 ATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATA
1 ATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATA
3591482 TAGCCTGCGGGTCTTTAGGCCCGGATACACATAAAATATCATGCATATTTAATCATATATTAACA
66 TAGCCTGCGGGTCTTTAGGCCCGGATACACATAAAATATCATGCATATTTAATCATATATTAACA
3591547 CATCTCATTCAACATATCACATTAGTAGTCATTTGCAACACTCGAATATAAGCTCCATATGAACA
131 CATCTCATTCAACATATCACATTAGTAGTCATTTGCAACACTCGAATATAAGCTCCATATGAACA
3591612 CCATCATTTAC
196 CCATCATTTAC
3591623 ATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATA
1 ATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATA
* *
3591688 TAGCCTGTGGGTCTTTAGGCCCGGATACACATCAAATATCATGCATATTTAATCATATATTAACA
66 TAGCCTGCGGGTCTTTAGGCCCGGATACACATAAAATATCATGCATATTTAATCATATATTAACA
3591753 CATCTCATTCAACATATCACATTAGTAGTCATTTGCAACACTCGAATATAAGCTCCATATGAACA
131 CATCTCATTCAACATATCACATTAGTAGTCATTTGCAACACTCGAATATAAGCTCCATATGAACA
*
3591818 CCATTATTTAC
196 CCATCATTTAC
3591829 ATTT
1 ATTT
3591833 CGGTTCAAAA
Statistics
Matches: 207, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
206 207 1.00
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (206 bp):
ATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATA
TAGCCTGCGGGTCTTTAGGCCCGGATACACATAAAATATCATGCATATTTAATCATATATTAACA
CATCTCATTCAACATATCACATTAGTAGTCATTTGCAACACTCGAATATAAGCTCCATATGAACA
CCATCATTTAC
Found at i:3598931 original size:2 final size:2
Alignment explanation
Indices: 3598924--3598950 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3598914 ATAAAATGAT
3598924 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
3598951 GATAATTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3600087 original size:13 final size:13
Alignment explanation
Indices: 3600069--3600093 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3600059 ATTTCACAAG
3600069 ATAAAAATAAAAA
1 ATAAAAATAAAAA
3600082 ATAAAAATAAAA
1 ATAAAAATAAAA
3600094 CCCCCTAAAT
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
ATAAAAATAAAAA
Found at i:3603318 original size:34 final size:34
Alignment explanation
Indices: 3603275--3603344 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
3603265 TGACCTTTGT
*
3603275 TACACTCTTTGAAGATAAAGGATGAACGTATATA
1 TACACTCTTTGAAGATAAAGGATGAACATATATA
*
3603309 TACACTCTTTGAAGATGAAGGATGAACATATATA
1 TACACTCTTTGAAGATAAAGGATGAACATATATA
3603343 TA
1 TA
3603345 TATACACATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.30
Consensus pattern (34 bp):
TACACTCTTTGAAGATAAAGGATGAACATATATA
Found at i:3603355 original size:6 final size:6
Alignment explanation
Indices: 3603346--3603370 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3603336 ATATATATAT
3603346 ATACAC ATACAC ATACAC ATACAC A
1 ATACAC ATACAC ATACAC ATACAC A
3603371 GGGACCTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (6 bp):
ATACAC
Found at i:3606793 original size:23 final size:22
Alignment explanation
Indices: 3606734--3606793 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
3606724 AACACAAGGC
*
3606734 TGTGTGT-TGCAACACAGACAT
1 TGTGTGTCTGCAACACACACAT
*
3606755 TGTGTGTC-GCATCACACACAT
1 TGTGTGTCTGCAACACACACAT
3606776 TGTGTGTCATGCAACACA
1 TGTGTGTC-TGCAACACA
3606794 AGGCATTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 26 0.79
23 7 0.21
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (22 bp):
TGTGTGTCTGCAACACACACAT
Found at i:3607177 original size:13 final size:13
Alignment explanation
Indices: 3607159--3607183 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3607149 TGTTGATGCA
3607159 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
3607172 TTTTCTTTTTTT
1 TTTTCTTTTTTT
3607184 GTAGATGAAT
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:3611318 original size:168 final size:168
Alignment explanation
Indices: 3611040--3611383 Score: 582
Period size: 168 Copynumber: 2.0 Consensus size: 168
3611030 CCTAGAACAT
3611040 GGGCGTGTGCCTAGGCCGTGTGAAGTCCACACCTAATTTTAGAATTTAATTCACCACACGGCCTA
1 GGGCGTGTGCCTAGGCCGTGTGAAGTCCACACCTAATTTTAGAATTTAATTCACCACACGGCCTA
3611105 AGCACACGGGTGCGTGATTTGGCCGTATGACCTTATTTTGGATGATGACGTCATAGTCAGAAAGT
66 AGCACACGGGTGCGTGATTTGGCCGTATGACCTTATTTTGGATGATGACGTCATAGTCAGAAAGT
3611170 TACACGGGTTGAGGACACAAGCGTGTCCCAAACCACAC
131 TACACGGGTTGAGGACACAAGCGTGTCCCAAACCACAC
** * *
3611208 GGGCGTGTG-CTCAGGCCGTGTGAAGTCTGCACCTGATTTTAGAATTTAATTCACTACACGGCCT
1 GGGCGTGTGCCT-AGGCCGTGTGAAGTCCACACCTAATTTTAGAATTTAATTCACCACACGGCCT
* * *
3611272 AAGCACACGGGTGTGTGATTTGGCCGTGTGACCTTATTTTGGATGATGACGTCATAGTCAGAGAG
65 AAGCACACGGGTGCGTGATTTGGCCGTATGACCTTATTTTGGATGATGACGTCATAGTCAGAAAG
** *
3611337 TTACACGGGTTGAGGACACGGGCGTGTCTCAAACCACAC
130 TTACACGGGTTGAGGACACAAGCGTGTCCCAAACCACAC
3611376 GGGCGTGT
1 GGGCGTGT
3611384 ATGACCACAC
Statistics
Matches: 165, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
167 2 0.01
168 163 0.99
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (168 bp):
GGGCGTGTGCCTAGGCCGTGTGAAGTCCACACCTAATTTTAGAATTTAATTCACCACACGGCCTA
AGCACACGGGTGCGTGATTTGGCCGTATGACCTTATTTTGGATGATGACGTCATAGTCAGAAAGT
TACACGGGTTGAGGACACAAGCGTGTCCCAAACCACAC
Found at i:3612344 original size:11 final size:11
Alignment explanation
Indices: 3612330--3612363 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
3612320 GACAAAAAGT
*
3612330 AGCAGCAAAAC
1 AGCAACAAAAC
*
3612341 AGCACCAAAAC
1 AGCAACAAAAC
3612352 AGCAACAAAAC
1 AGCAACAAAAC
3612363 A
1 A
3612364 ACACAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.59, C:0.29, G:0.12, T:0.00
Consensus pattern (11 bp):
AGCAACAAAAC
Found at i:3612360 original size:22 final size:22
Alignment explanation
Indices: 3612321--3612372 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
3612311 ATAAAACATG
* * *
3612321 ACAAAAAGTAGCAGCAAAACAGC
1 ACAAAAA-CAGCAACAAAACAAC
*
3612344 ACCAAAACAGCAACAAAACAAC
1 ACAAAAACAGCAACAAAACAAC
3612366 ACAAAAA
1 ACAAAAA
3612373 ATAACATCAC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.63, C:0.25, G:0.10, T:0.02
Consensus pattern (22 bp):
ACAAAAACAGCAACAAAACAAC
Found at i:3615564 original size:19 final size:20
Alignment explanation
Indices: 3615535--3615572 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
3615525 TCTCTGAAAA
*
3615535 ATATAAATATTTTTAATTAG
1 ATATAAATATTTTAAATTAG
3615555 ATAT-AATATTTTAAATTA
1 ATATAAATATTTTAAATTA
3615573 TCTTGAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
ATATAAATATTTTAAATTAG
Found at i:3615679 original size:13 final size:13
Alignment explanation
Indices: 3615661--3615687 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3615651 GTGTTTGTTT
3615661 TAAAGACATCAAA
1 TAAAGACATCAAA
3615674 TAAAGACATCAAA
1 TAAAGACATCAAA
3615687 T
1 T
3615688 TGTTTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.15, G:0.07, T:0.19
Consensus pattern (13 bp):
TAAAGACATCAAA
Found at i:3616464 original size:26 final size:26
Alignment explanation
Indices: 3616428--3616481 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
3616418 AACATGAAAG
3616428 ATGTTGAAGCATGGTACGAAATATAC
1 ATGTTGAAGCATGGTACGAAATATAC
3616454 ATGTTGAAGCATGGTACGAAATATAC
1 ATGTTGAAGCATGGTACGAAATATAC
3616480 AT
1 AT
3616482 ATTTTGGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (26 bp):
ATGTTGAAGCATGGTACGAAATATAC
Found at i:3618882 original size:13 final size:13
Alignment explanation
Indices: 3618858--3618895 Score: 53
Period size: 11 Copynumber: 3.0 Consensus size: 13
3618848 AACTAATCAA
3618858 TTTAATCTATTATT
1 TTTAA-CTATTATT
3618872 TTTAACTATTA-T
1 TTTAACTATTATT
3618884 TTT-ACTATTATT
1 TTTAACTATTATT
3618896 ATCAAATCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 7 0.30
12 5 0.22
13 6 0.26
14 5 0.22
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTAACTATTATT
Found at i:3618935 original size:3 final size:3
Alignment explanation
Indices: 3618919--3619244 Score: 190
Period size: 3 Copynumber: 110.0 Consensus size: 3
3618909 TCATTATCTC
* * * *
3618919 TAT TAT TAC T-T TAT TAT TGT AACT TAA TAT -AT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * ** * *
3618963 TA- TAT TAC TAT CAT TAT TAT TAT TAT TAC CGT TAG CAT TAT T-T TCAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
* * *
3619010 TAC TAT TA- TAT T-T TAT TGAT TA- TAT TAC TA- TATT TGT TA- TAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * * * * * * *
3619052 TAT CAT TAT CAT TCT TAC TAT TGT TAT TAT TAC TAC TAC TAT TAT TCT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
3619100 TAT TAA CA- TAT TAT TAT TAT TTT TAC TA- TAC TAT TAT TAT TCT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
3619146 TTT TCACT TAT TAA TAT TAT TGA- TAT TAA CAT ATAT TAT TAT TAT TAT
1 TAT T-A-T TAT TAT TAT TAT T-AT TAT TAT TAT -TAT TAT TAT TAT TAT
3619194 TAT TAT TAT TAT TAT TAT TAT TAT 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
3619242 TAT
1 TAT
3619245 CTTATTTTAC
Statistics
Matches: 246, Mismatches: 57, Indels: 40
0.72 0.17 0.12
Matches are distributed among these distances:
2 21 0.09
3 211 0.86
4 12 0.05
5 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:3619650 original size:2 final size:2
Alignment explanation
Indices: 3619603--3619641 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
3619593 ATATTTTCAT
* *
3619603 TA TA TA TG TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3619642 TTGTATATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3619666 original size:9 final size:9
Alignment explanation
Indices: 3619652--3619760 Score: 60
Period size: 9 Copynumber: 11.7 Consensus size: 9
3619642 TTGTATATAG
3619652 TATTATTTT
1 TATTATTTT
3619661 TATTATTTATTT
1 TATTA--T-TTT
*
3619673 TAATATTTT
1 TATTATTTT
3619682 TATTATATTT
1 TATTAT-TTT
*
3619692 TCTT-TTTT
1 TATTATTTT
* *
3619700 T-GTATTTCAA
1 TATTATTT--T
**
3619710 TATTATTAC
1 TATTATTTT
*
3619719 TATTATTAT
1 TATTATTTT
*
3619728 TATTATTAT
1 TATTATTTT
*
3619737 TATTATTAT
1 TATTATTTT
*
3619746 TATTATTAT
1 TATTATTTT
3619755 TATTAT
1 TATTAT
3619761 AAATTAGTGT
Statistics
Matches: 83, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
7 1 0.01
8 7 0.08
9 55 0.66
10 8 0.10
11 5 0.06
12 7 0.08
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (9 bp):
TATTATTTT
Found at i:3619716 original size:3 final size:3
Alignment explanation
Indices: 3619710--3619760 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
3619700 TGTATTTCAA
*
3619710 TAT TAT TAC TAT TAT TAT TAT TAT 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
3619758 TAT
1 TAT
3619761 AAATTAGTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:3619899 original size:6 final size:6
Alignment explanation
Indices: 3619880--3619976 Score: 58
Period size: 6 Copynumber: 15.2 Consensus size: 6
3619870 GGTTTTTCAA
**
3619880 TATTAT TACCAT TATTAT TATTAT TATTAT TATTAT ATATTAGT GTA-TAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT -TATTA-T -TATTAT
3619930 T-TTCAT TATATAT GTA-TAT GTATATAT ATATTA- TATATAT TATTAT
1 TATT-AT TAT-TAT -TATTAT -TAT-TAT -TATTAT TAT-TAT TATTAT
3619976 T
1 T
3619977 TTTAATTACT
Statistics
Matches: 74, Mismatches: 6, Indels: 22
0.73 0.06 0.22
Matches are distributed among these distances:
5 5 0.07
6 42 0.57
7 15 0.20
8 12 0.16
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (6 bp):
TATTAT
Found at i:3619902 original size:9 final size:9
Alignment explanation
Indices: 3619880--3619976 Score: 58
Period size: 9 Copynumber: 10.1 Consensus size: 9
3619870 GGTTTTTCAA
*
3619880 TATTATTAC
1 TATTATTAT
*
3619889 CATTATTAT
1 TATTATTAT
3619898 TATTATTAT
1 TATTATTAT
3619907 TATTATTAT
1 TATTATTAT
3619916 ATATTAGTGTA-
1 -TATTA-T-TAT
3619927 TATT-TTCAT
1 TATTATT-AT
3619936 TATATATGTA-
1 TAT-TAT-TAT
3619946 TATGTATATAT
1 TAT-TAT-TAT
3619957 ATATTA-TAT
1 -TATTATTAT
3619966 ATATTATTAT
1 -TATTATTAT
3619976 T
1 T
3619977 TTTAATTACT
Statistics
Matches: 72, Mismatches: 5, Indels: 22
0.73 0.05 0.22
Matches are distributed among these distances:
7 1 0.01
8 2 0.03
9 37 0.51
10 21 0.29
11 5 0.07
12 6 0.08
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (9 bp):
TATTATTAT
Found at i:3619941 original size:25 final size:24
Alignment explanation
Indices: 3619895--3619972 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 24
3619885 TTACCATTAT
3619895 TATTAT-TAT-TAT-TATTATTATA
1 TATTATGTATATATATATTA-TATA
*
3619917 TATTAGTGTATAT-TTTCATTATATA
1 TATTA-TGTATATATAT-ATTATATA
*
3619942 TGTATATGTATATATATATTATATA
1 TAT-TATGTATATATATATTATATA
3619967 TATTAT
1 TATTAT
3619973 TATTTTTAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
22 5 0.11
23 1 0.02
24 7 0.15
25 25 0.54
26 8 0.17
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (24 bp):
TATTATGTATATATATATTATATA
Found at i:3619947 original size:155 final size:150
Alignment explanation
Indices: 3619725--3620111 Score: 457
Period size: 155 Copynumber: 2.6 Consensus size: 150
3619715 TTACTATTAT
** * * *
3619725 TATTATTATTATTATTATTATTATTATTATTATTATAAATTAGTGTATATTTTTATTGTATAGGT
1 TATTATTACCATTATTATTATTATTATTATTATTATATATTAGTGTATA-TTTTATTATATATGT
* * *
3619790 ATATGTATATATATTTATATCTAGTATTACTTTTT-ATTACTTTATTTTAATATTTATATTATAT
65 ATATGTATATATATTTATATATAGTATTA-TTTTTAATTACTATATTTCAATATTTATATTATAT
* *
3619854 ATATATATATTATTTTGGTTTTTCAA
129 -TATAT-T-TGATTTT-GTATTTCAA
3619880 TATTATTACCATTATTATTATTATTATTATTATTATATATTAGTGTATATTTTCATTATATATGT
1 TATTATTACCATTATTATTATTATTATTATTATTATATATTAGTGTATATTTT-ATTATATATGT
* * *
3619945 ATATGTATATATATATTATATATATTATTATTTTTAATTACTATATTTCAATATTTTTATTGTAT
65 ATATGTATATATAT-TTATATATAGTATTATTTTTAATTACTATATTTCAATATTTATATTATAT
*
3620010 TATATTTGCTTTTGTATTTCAA
129 TATATTTGATTTTGTATTTCAA
* * * *
3620032 TATTATT-GC-----TATTATTATTATTGTTATTA-CTATTAGTGTATATTTTATTATATATGCA
1 TATTATTACCATTATTATTATTATTATTATTATTATATATTAGTGTATATTTTATTATATATGTA
* * *
3620090 TCTATATATATATATATATATA
66 TATGTATATATATTTATATATA
3620112 TATATATATA
Statistics
Matches: 208, Mismatches: 21, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
143 8 0.04
144 22 0.11
145 16 0.08
146 19 0.09
151 1 0.00
152 15 0.07
153 5 0.02
154 5 0.02
155 79 0.38
156 38 0.18
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (150 bp):
TATTATTACCATTATTATTATTATTATTATTATTATATATTAGTGTATATTTTATTATATATGTA
TATGTATATATATTTATATATAGTATTATTTTTAATTACTATATTTCAATATTTATATTATATTA
TATTTGATTTTGTATTTCAA
Found at i:3620097 original size:2 final size:2
Alignment explanation
Indices: 3620092--3620133 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
3620082 TATATGCATC
3620092 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
3620134 CATGTGTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3624002 original size:2 final size:2
Alignment explanation
Indices: 3623995--3624031 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3623985 TCTTTTGCAG
3623995 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3624032 AAGCCCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3634709 original size:14 final size:14
Alignment explanation
Indices: 3634689--3634721 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3634679 AAACATGCAT
3634689 AAATATT-TTTAAA
1 AAATATTATTTAAA
3634702 ATAATATTATTTAAA
1 A-AATATTATTTAAA
3634717 AAATA
1 AAATA
3634722 AAAATTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 10 0.56
15 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATATTATTTAAA
Found at i:3635133 original size:16 final size:16
Alignment explanation
Indices: 3635112--3635143 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3635102 TCCTTATACC
*
3635112 AAAAGATTTTTTAAAG
1 AAAAGATTTTTCAAAG
3635128 AAAAGATTTTTCAAAG
1 AAAAGATTTTTCAAAG
3635144 TATGATTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.34
Consensus pattern (16 bp):
AAAAGATTTTTCAAAG
Found at i:3635773 original size:14 final size:14
Alignment explanation
Indices: 3635751--3635781 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3635741 TTATTTTCGT
*
3635751 TTTTTTTTATTTTA
1 TTTTATTTATTTTA
3635765 TTTTATTTATTTTA
1 TTTTATTTATTTTA
3635779 TTT
1 TTT
3635782 AGAACCTATT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:3637141 original size:25 final size:27
Alignment explanation
Indices: 3637104--3637156 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
3637094 TCAAACATGC
3637104 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
3637130 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
3637156 A
1 A
3637157 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:3638679 original size:26 final size:26
Alignment explanation
Indices: 3638643--3638726 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
3638633 CATGAAATTC
3638643 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
3638669 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
3638695 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
3638721 TTATCA
1 TTATCA
3638727 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:3639570 original size:20 final size:21
Alignment explanation
Indices: 3639545--3639583 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
3639535 TCGTTATTAT
*
3639545 TATTATTAGTA-TATTTTTAC
1 TATTATTAGAATTATTTTTAC
3639565 TATTATTAGAATTATTTTT
1 TATTATTAGAATTATTTTT
3639584 TAGTTTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (21 bp):
TATTATTAGAATTATTTTTAC
Found at i:3639722 original size:24 final size:24
Alignment explanation
Indices: 3639677--3639731 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
3639667 ATATATGTAT
* *
3639677 ACATATTTAAATACTATATTATAC
1 ACATATTTAAATACCACATTATAC
* * *
3639701 ACATATTTTAATACCACGTTATAT
1 ACATATTTAAATACCACATTATAC
3639725 ACATATT
1 ACATATT
3639732 ATTATTAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.02, T:0.42
Consensus pattern (24 bp):
ACATATTTAAATACCACATTATAC
Found at i:3639808 original size:22 final size:21
Alignment explanation
Indices: 3639762--3639835 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 21
3639752 TTACCCTTAT
3639762 TATATTTGTTATTA-ATAT-TA
1 TATATTT-TTATTACATATGTA
3639782 GTATATGTTTTATTACATATGTA
1 -TATAT-TTTTATTACATATGTA
*
3639805 TATATCTTTTAATACATATATGTA
1 TATAT-TTTTATTAC--ATATGTA
3639829 TATATTT
1 TATATTT
3639836 ATGTAATATT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
21 11 0.24
22 19 0.41
23 4 0.09
24 12 0.26
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (21 bp):
TATATTTTTATTACATATGTA
Found at i:3640212 original size:20 final size:20
Alignment explanation
Indices: 3640187--3640238 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
3640177 TTTAATATTG
*
3640187 TATTTTTATTATTATGTATA
1 TATTTTTATTATTACGTATA
* *
3640207 TATTTTTAATACTACGTATA
1 TATTTTTATTATTACGTATA
3640227 TATTTTT-TTATT
1 TATTTTTATTATT
3640239 TCTATTATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (20 bp):
TATTTTTATTATTACGTATA
Done.