Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 7 of 163
Found at i:2208741 original size:21 final size:22
Alignment explanation
Indices: 2208717--2208772 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
2208707 AAATTGGAAT
2208717 AAAATTAATATTTACTATTTA-
1 AAAATTAATATTTACTATTTAC
* *
2208738 AAAAAT-ATCATCTACTATTTAGC
1 AAAATTAAT-ATTTACTATTTA-C
2208761 AAAATTAATATT
1 AAAATTAATATT
2208773 AAGTCTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
20 2 0.07
21 16 0.59
23 7 0.26
24 2 0.07
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (22 bp):
AAAATTAATATTTACTATTTAC
Found at i:2212042 original size:29 final size:29
Alignment explanation
Indices: 2211999--2212054 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
2211989 CTTGAATCTT
*
2211999 TTTAATAGTACAGGGAGTAAATTGATCCA
1 TTTAATAGTACAGGGACTAAATTGATCCA
** *
2212028 TTTAATAGTTGAGGGACTAATTTGATC
1 TTTAATAGTACAGGGACTAAATTGATC
2212055 GAGTCCCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (29 bp):
TTTAATAGTACAGGGACTAAATTGATCCA
Found at i:2215243 original size:18 final size:18
Alignment explanation
Indices: 2215206--2215244 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2215196 ATCTGACTCA
*
2215206 ATTAAAATTATTTTTTAT
1 ATTAAAATTATTTTTCAT
2215224 ATTAAAA-TATTTTTACAT
1 ATTAAAATTATTTTT-CAT
2215242 ATT
1 ATT
2215245 TTAGTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTAAAATTATTTTTCAT
Found at i:2217346 original size:18 final size:19
Alignment explanation
Indices: 2217311--2217349 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
2217301 TACATTAGTG
2217311 TAATTTTTATATTCAATTT
1 TAATTTTTATATTCAATTT
2217330 TAATTATTTAT-TT-AATTT
1 TAATT-TTTATATTCAATTT
2217348 TA
1 TA
2217350 CGTTGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 7 0.37
20 5 0.26
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TAATTTTTATATTCAATTT
Found at i:2220104 original size:31 final size:30
Alignment explanation
Indices: 2220031--2220107 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
2220021 TAAACCTTTC
* * *
2220031 AAAATGGTCATATAAGGATCTAACATTTAT
1 AAAATGGTCAAATAAGGACCAAACATTTAT
* * *
2220061 AAAAGTGCTCAAATAAGGACCAAACCTTTTT
1 AAAA-TGGTCAAATAAGGACCAAACATTTAT
2220092 GAAAATGGTCAAATAA
1 -AAAATGGTCAAATAA
2220108 AAGCTTCTCA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 4 0.11
31 30 0.79
32 4 0.11
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.27
Consensus pattern (30 bp):
AAAATGGTCAAATAAGGACCAAACATTTAT
Found at i:2220782 original size:5 final size:5
Alignment explanation
Indices: 2220760--2220799 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
2220750 TAATAATGAA
2220760 TTTTC TTTCTC TTTTTC TTTTC TTTTC TTTTC TTTT- TTTT
1 TTTTC TTT-TC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
2220800 AAAAAAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.12
5 22 0.67
6 4 0.12
7 3 0.09
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:2224661 original size:153 final size:154
Alignment explanation
Indices: 2224373--2224733 Score: 456
Period size: 153 Copynumber: 2.4 Consensus size: 154
2224363 ACTAAAACTG
* * * *
2224373 TAATCGAGCTAAGTTGAACTTAAGTTCTAATAAGTTTGAATTCAACTCAAAATTTAAAGCTCGAA
1 TAATTGAGCCAAGTTGAACTGAAGTTCTAATAAATTTGAATTCAACTCAAAATTTAAAGCTCGAA
* * * * ** *
2224438 ACTTAATTTAAGCTCGATTCAACCTAAAGATAAAACTGCCCTTTACAACTTCTAAATTCAGTTTT
66 ACTTAACTCAAGCTCAAATCAAAATAAAGATAAAACTGCCCTTTACAACTTCCAAATTCAGTTTT
*
2224503 AGCTAACAATTTACTGCT-AG-CCA
131 AGCTAAC-ATTTACTACTCAGACCA
** *
2224526 TAATTGAGCCAAGTTGAACTGAAGTTCTAATAAATTTGAATTCAACTCAAAATTTGGAGCTTGAA
1 TAATTGAGCCAAGTTGAACTGAAGTTCTAATAAATTTGAATTCAACTCAAAATTTAAAGCTCGAA
* * * ** *
2224591 TCTTAACTCGAGCTCAAATCAAAATAAAGATCAAACTGCTTTTTACAATTTCCAAATTCAGTTTT
66 ACTTAACTCAAGCTCAAATCAAAATAAAGATAAAACTGCCCTTTACAACTTCCAAATTCAGTTTT
* *
2224656 AGCTAACATTTACTACTCTGACCG
131 AGCTAACATTTACTACTCAGACCA
* * * *
2224680 TAATTGAGCCAAGTTGAACTGAAATTCTAATGAATTTGAATTTAACTCGAAATT
1 TAATTGAGCCAAGTTGAACTGAAGTTCTAATAAATTTGAATTCAACTCAAAATT
2224734 CAACTTCAAA
Statistics
Matches: 179, Mismatches: 27, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
152 9 0.05
153 118 0.66
154 52 0.29
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (154 bp):
TAATTGAGCCAAGTTGAACTGAAGTTCTAATAAATTTGAATTCAACTCAAAATTTAAAGCTCGAA
ACTTAACTCAAGCTCAAATCAAAATAAAGATAAAACTGCCCTTTACAACTTCCAAATTCAGTTTT
AGCTAACATTTACTACTCAGACCA
Found at i:2225299 original size:16 final size:17
Alignment explanation
Indices: 2225266--2225307 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
2225256 TAAATAACTT
2225266 AAAA-CAAAAACGAAAG
1 AAAATCAAAAACGAAAG
*
2225282 AAAATCAAAAAC-AGAG
1 AAAATCAAAAACGAAAG
*
2225298 AAAATTAAAA
1 AAAATCAAAA
2225308 GATTAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.74, C:0.10, G:0.10, T:0.07
Consensus pattern (17 bp):
AAAATCAAAAACGAAAG
Found at i:2226881 original size:18 final size:18
Alignment explanation
Indices: 2226844--2226881 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2226834 AGTAGAGGTT
*
2226844 TAGAGATCGACACGTGGA
1 TAGAGATCGACACGTAGA
2226862 TAGAGAT-GACACGCTAGA
1 TAGAGATCGACACG-TAGA
2226880 TA
1 TA
2226882 ATATAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.18
Consensus pattern (18 bp):
TAGAGATCGACACGTAGA
Found at i:2234509 original size:2 final size:2
Alignment explanation
Indices: 2234502--2234539 Score: 53
Period size: 2 Copynumber: 19.5 Consensus size: 2
2234492 NNNNNNNNNN
2234502 TA TA TA TA TA TA TA TA TA TA TA TA -A TA T- TA CTA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA T
2234540 TTAATGTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 2 0.06
2 29 0.88
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2238028 original size:23 final size:24
Alignment explanation
Indices: 2237977--2238028 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 24
2237967 TAGGGAAACG
* *
2237977 AATT-AAATTGTAATTTTTACAAT
1 AATTAAAAATGTAATTTTTAAAAT
*
2238000 -AGTAAAAATGTAA-TTTTAAAAT
1 AATTAAAAATGTAATTTTTAAAAT
2238022 AATTAAA
1 AATTAAA
2238029 TTAAAACTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (24 bp):
AATTAAAAATGTAATTTTTAAAAT
Found at i:2244829 original size:5 final size:5
Alignment explanation
Indices: 2244819--2244848 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
2244809 TACAGCAGAA
2244819 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
2244849 GGGTCCCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:2258168 original size:10 final size:9
Alignment explanation
Indices: 2258150--2258220 Score: 74
Period size: 10 Copynumber: 7.7 Consensus size: 9
2258140 CAAAAAAGAA
2258150 AGAAAAAAG
1 AGAAAAAAG
2258159 AGAAAGAAAG
1 AGAAA-AAAG
2258169 AGAAAAAAAG
1 AG-AAAAAAG
*
2258179 AAAAAAAAAG
1 -AGAAAAAAG
*
2258189 AGAAAAGAG
1 AGAAAAAAG
2258198 AAGAAAAAAG
1 -AGAAAAAAG
2258208 A-AAAAAAG
1 AGAAAAAAG
2258216 A-AAAA
1 AGAAAA
2258221 GGGAGTTCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
8 12 0.22
9 13 0.24
10 25 0.46
11 4 0.07
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AGAAAAAAG
Found at i:2258177 original size:20 final size:19
Alignment explanation
Indices: 2258150--2258220 Score: 85
Period size: 18 Copynumber: 3.8 Consensus size: 19
2258140 CAAAAAAGAA
*
2258150 AGAAAAAAGAGAAAGAAAG
1 AGAAAAAAGAGAAAAAAAG
*
2258169 AGAAAAAA-AGAAAAAAAA
1 AGAAAAAAGAGAAAAAAAG
*
2258187 AGAGAAAAGAGAAGAAAAA-
1 AGAAAAAAGAGAA-AAAAAG
2258206 AGAAAAAA-AGAAAAA
1 AGAAAAAAGAGAAAAA
2258221 GGGAGTTCAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
17 3 0.07
18 19 0.41
19 19 0.41
20 5 0.11
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (19 bp):
AGAAAAAAGAGAAAAAAAG
Found at i:2258186 original size:30 final size:29
Alignment explanation
Indices: 2258141--2258214 Score: 105
Period size: 29 Copynumber: 2.5 Consensus size: 29
2258131 CCAACAGGCC
2258141 AAAAAAGAAAGAAAAAAGAGAAAGAAAG-AG
1 AAAAAAGAAA-AAAAAAGAGAAA-AAAGAAG
*
2258171 AAAAAAAGAAAAAAAAAGAGAAAAGAGAAG
1 -AAAAAAGAAAAAAAAAGAGAAAAAAGAAG
2258201 AAAAAAGAAAAAAA
1 AAAAAAGAAAAAAA
2258215 GAAAAAGGGA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 17 0.41
30 14 0.34
31 10 0.24
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (29 bp):
AAAAAAGAAAAAAAAAGAGAAAAAAGAAG
Found at i:2258195 original size:37 final size:38
Alignment explanation
Indices: 2258141--2258220 Score: 119
Period size: 37 Copynumber: 2.1 Consensus size: 38
2258131 CCAACAGGCC
*
2258141 AAAAAAGAAAGAAAAAAGAGAA-AGAAAGAGAAAAAAAG
1 AAAAAAGAAAGAAAAAAGAGAAGA-AAAAAGAAAAAAAG
*
2258179 AAAAAA-AAAGAGAAAAGAGAAGAAAAAAGAAAAAAAG
1 AAAAAAGAAAGAAAAAAGAGAAGAAAAAAGAAAAAAAG
2258216 AAAAA
1 AAAAA
2258221 GGGAGTTCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
37 32 0.82
38 7 0.18
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (38 bp):
AAAAAAGAAAGAAAAAAGAGAAGAAAAAAGAAAAAAAG
Found at i:2258495 original size:18 final size:17
Alignment explanation
Indices: 2258474--2258639 Score: 88
Period size: 18 Copynumber: 9.2 Consensus size: 17
2258464 AAAATATTCA
2258474 AAAAATTTCGTGTTTTC
1 AAAAATTTCGTGTTTTC
*
2258491 GAAAAAATTCCCGTG-TTTC
1 --AAAAATT-TCGTGTTTTC
* * *
2258510 AAAATTTTCGTATCTTC
1 AAAAATTTCGTGTTTTC
*
2258527 AAAAGTTTTTCTCGTGTTTTTC
1 AAAA---ATT-TCGTG-TTTTC
2258549 AAAAATATTCGTGTTTTC
1 AAAAAT-TTCGTGTTTTC
*
2258567 AAAAATTCCG-G-TTTC
1 AAAAATTTCGTGTTTTC
* *
2258582 AAAAATTTTCGCGTTTCC
1 AAAAA-TTTCGTGTTTTC
* * *
2258600 AAAAA-GTCAGGTGATTTA
1 AAAAATTTC--GTGTTTTC
2258618 AAAAATCTTCGTGTTTTC
1 AAAAAT-TTCGTGTTTTC
2258636 AAAA
1 AAAA
2258640 TTGCCTTATC
Statistics
Matches: 113, Mismatches: 19, Indels: 31
0.69 0.12 0.19
Matches are distributed among these distances:
15 9 0.08
16 10 0.09
17 17 0.15
18 38 0.34
19 17 0.15
20 10 0.09
21 4 0.04
22 8 0.07
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (17 bp):
AAAAATTTCGTGTTTTC
Found at i:2258509 original size:19 final size:18
Alignment explanation
Indices: 2258470--2258639 Score: 68
Period size: 17 Copynumber: 9.4 Consensus size: 18
2258460 CTAAAAAATA
*
2258470 TTCAAAAAATTTCGTGTT
1 TTCAAAAAATTCCGTGTT
2258488 TTCGAAAAAATTCCCGTG-T
1 TTC-AAAAAATT-CCGTGTT
* * * *
2258507 TTC-AAAATTTTCGTATC
1 TTCAAAAAATTCCGTGTT
**
2258524 TTCAAAAGTTTTTCTCGTGTTT
1 TTCAAAA--AATTC-CGTG-TT
2258546 TTCAAAAATATT-CGTGTT
1 TTCAAAAA-ATTCCGTGTT
2258564 TTC-AAAAATTCCG-G-T
1 TTCAAAAAATTCCGTGTT
* * *
2258579 TTCAAAAATTTTCGCG-T
1 TTCAAAAAATTCCGTGTT
* * * *
2258596 TTCCAAAAAGTCAGGTGAT
1 TTCAAAAAATTC-CGTGTT
*
2258615 TT-AAAAAATCTTCGTGTT
1 TTCAAAAAAT-TCCGTGTT
2258633 TTCAAAA
1 TTCAAAA
2258640 TTGCCTTATC
Statistics
Matches: 112, Mismatches: 24, Indels: 31
0.67 0.14 0.19
Matches are distributed among these distances:
15 4 0.04
16 15 0.13
17 25 0.22
18 24 0.21
19 24 0.21
20 7 0.06
21 5 0.04
22 8 0.07
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (18 bp):
TTCAAAAAATTCCGTGTT
Found at i:2258582 original size:33 final size:36
Alignment explanation
Indices: 2258545--2258639 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 36
2258535 TTCTCGTGTT
*
2258545 TTTCAAAAATATTCGTGTTTTCAAAAATTC-CG-G-
1 TTTCAAAAATATTCGTGTTTTCAAAAAGTCACGTGA
* * * *
2258578 TTTCAAAAATTTTCGCGTTTCCAAAAAGTCAGGTGA
1 TTTCAAAAATATTCGTGTTTTCAAAAAGTCACGTGA
* *
2258614 TTTAAAAAATCTTCGTGTTTTCAAAA
1 TTTCAAAAATATTCGTGTTTTCAAAA
2258640 TTGCCTTATC
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
33 26 0.52
34 1 0.02
35 1 0.02
36 22 0.44
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (36 bp):
TTTCAAAAATATTCGTGTTTTCAAAAAGTCACGTGA
Found at i:2262493 original size:24 final size:27
Alignment explanation
Indices: 2262466--2262523 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
2262456 AGATGGTTAT
*
2262466 ATATAAAATT-TTAATAAAT-AA-GAA
1 ATATAAAATTATTAAAAAATCAATGAA
2262490 ATATAGAAAATTATTAAAAAATCAATGAA
1 ATAT--AAAATTATTAAAAAATCAATGAA
2262519 ATATA
1 ATATA
2262524 TATATAACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 4 0.14
26 6 0.21
27 9 0.32
28 2 0.07
29 7 0.25
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (27 bp):
ATATAAAATTATTAAAAAATCAATGAA
Found at i:2276772 original size:151 final size:148
Alignment explanation
Indices: 2276496--2276794 Score: 465
Period size: 151 Copynumber: 2.0 Consensus size: 148
2276486 TATGCTCAGA
* * *
2276496 CCTGCCAATTGAGCGGATCGGGTTAGTTTTGGGTCATATCATTTCTGTTCCAAAATTTGGAGTCC
1 CCTGCCAATTGAGCGGATCGGGTTAGTTTTGGGTCATATCACTTCTGTTCAAAAATTTCGAGTCC
* * *
2276561 TTTTGGGTTTTGGATTATTTTGGATTCAAGTTACTTCAGATCTGGGTCATTTTGTATTCAAGTCA
66 TTTTGGGTTTTGGATTATTTTGGATTCAAGTTACTTCAGATCTGGGTAATTTCGGATTCAAGTCA
*
2276626 TTCTAGGTTCAGGTCATT
131 TTCTAGGTTCAGATCATT
*
2276644 CCTGTCAATTGAGCTGG-TCGGGTTAGTTTTGGGTCATATCACTTCTGTTTCAAAAAGATTTCGA
1 CCTGCCAATTGAGC-GGATCGGGTTAGTTTTGGGTCATATCACTTCTG-TTC-AAAA-ATTTCGA
*
2276708 GTCCTTTTGGGTTTTGGATTATTTTGGATTCAAGTTACTTCAGGTCTGGGTAATTTCGGATTCAA
62 GTCCTTTTGGGTTTTGGATTATTTTGGATTCAAGTTACTTCAGATCTGGGTAATTTCGGATTCAA
*
2276773 GTTATTCTAGGTTCAGATCATT
127 GTCATTCTAGGTTCAGATCATT
2276795 TCAAGCTCTA
Statistics
Matches: 137, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
148 42 0.31
149 5 0.04
150 3 0.02
151 87 0.64
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.42
Consensus pattern (148 bp):
CCTGCCAATTGAGCGGATCGGGTTAGTTTTGGGTCATATCACTTCTGTTCAAAAATTTCGAGTCC
TTTTGGGTTTTGGATTATTTTGGATTCAAGTTACTTCAGATCTGGGTAATTTCGGATTCAAGTCA
TTCTAGGTTCAGATCATT
Found at i:2281319 original size:70 final size:70
Alignment explanation
Indices: 2281229--2281367 Score: 188
Period size: 70 Copynumber: 2.0 Consensus size: 70
2281219 ACTCGGCTCC
* * * * * *
2281229 AAGTAACATCGTAATTAACAATTGTCTATGCATACTCGGACACGGGGAATGAATATTGTACCCAA
1 AAGTAACATCGCAACTAACAATTGTCAATACATACTCAGACACGGGGAATGAATATTGCACCCAA
2281294 CAGGA
66 CAGGA
* * * *
2281299 AAGTAACATTGCAACTAACAATTGTCAATACATACTCAGACATGGGGAATGCATATTGCACCCGA
1 AAGTAACATCGCAACTAACAATTGTCAATACATACTCAGACACGGGGAATGAATATTGCACCCAA
2281364 CAGG
66 CAGG
2281368 CTGACACTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.23
Consensus pattern (70 bp):
AAGTAACATCGCAACTAACAATTGTCAATACATACTCAGACACGGGGAATGAATATTGCACCCAA
CAGGA
Found at i:2281453 original size:90 final size:90
Alignment explanation
Indices: 2281299--2281650 Score: 449
Period size: 90 Copynumber: 3.9 Consensus size: 90
2281289 CCCAACAGGA
*
2281299 AAGTAACATTGCAACTAACAATTGTCAATACATACTCAGACATGGGGAATGCATATTGCACCCGA
1 AAGTAACATTGCAACTAACAATTGTCAATACATACTCAGACATGGGGAATGCATATTGTACCCGA
*
2281364 CAGGCTGACACTAATACACGACTCC
66 CAGGCCGACACTAATACACGACTCC
* * * *
2281389 GAGTAACATTGCAACTAACAATCGTCAATGCATATTCAGACATGGGGAATGCATATTGTACCCGA
1 AAGTAACATTGCAACTAACAATTGTCAATACATACTCAGACATGGGGAATGCATATTGTACCCGA
* * *
2281454 CAGGTCGACACTAACACTCGACTCC
66 CAGGCCGACACTAATACACGACTCC
* * * *
2281479 AAGTAGCATTGCAGCTAACAATTGTCAATACATACTCGATACA--GGGAATGCATATTAT-CCCT
1 AAGTAACATTGCAACTAACAATTGTCAATACATACTC-AGACATGGGGAATGCATATTGTACCC-
2281541 GACAGGCCGACACTAACACTAACACTAGACTCC
64 GACAGGCCGACACT-A-A-T-ACAC--GACTCC
* * * * *
2281574 TAGTAACATTGCAACTAACAATTTTCAATACACATTCGGACATGGGGAATGCATATTGTACCCGA
1 AAGTAACATTGCAACTAACAATTGTCAATACATACTCAGACATGGGGAATGCATATTGTACCCGA
2281639 CAGGCCGACACT
66 CAGGCCGACACT
2281651 CAACTCGGTG
Statistics
Matches: 222, Mismatches: 29, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
88 3 0.01
89 27 0.12
90 113 0.51
91 5 0.02
93 3 0.01
94 3 0.01
95 37 0.17
96 28 0.13
97 3 0.01
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.22
Consensus pattern (90 bp):
AAGTAACATTGCAACTAACAATTGTCAATACATACTCAGACATGGGGAATGCATATTGTACCCGA
CAGGCCGACACTAATACACGACTCC
Found at i:2281618 original size:185 final size:178
Alignment explanation
Indices: 2281299--2281650 Score: 492
Period size: 185 Copynumber: 1.9 Consensus size: 178
2281289 CCCAACAGGA
2281299 AAGTAACATTGCAACTAACAATTGTCAATACATACTCAGACATGGGGAATGCATATTGCACCCGA
1 AAGTAACATTGCAACTAACAATTGTCAATACATACTCAGACA-GGGGAATGCATATT-CACCCGA
* * *
2281364 CAGGCTGACACTAATACACGACTCCGAGTAACATTGCAACTAACAATCGTCAATGCATATTCAGA
64 CAGGCCGACACTAATACACGACTCCGAGTAACATTGCAACTAACAATCGTCAATACACATTCAGA
*
2281429 CATGGGGAATGCATATTGTACCCGACAGGTCGACACTAACACTCGACTCC
129 CATGGGGAATGCATATTGTACCCGACAGGCCGACACTAACACTCGACTCC
* * *
2281479 AAGTAGCATTGCAGCTAACAATTGTCAATACATACTCGATACA-GGGAATGCATATT-ATCCCTG
1 AAGTAACATTGCAACTAACAATTGTCAATACATACTC-AGACAGGGGAATGCATATTCA-CCC-G
* **
2281542 ACAGGCCGACACTAACACTAACACTAGACTCCTAGTAACATTGCAACTAACAATTTTCAATACAC
63 ACAGGCCGACACT-A-A-T-ACAC--GACTCCGAGTAACATTGCAACTAACAATCGTCAATACAC
*
2281607 ATTCGGACATGGGGAATGCATATTGTACCCGACAGGCCGACACT
122 ATTCAGACATGGGGAATGCATATTGTACCCGACAGGCCGACACT
2281651 CAACTCGGTG
Statistics
Matches: 152, Mismatches: 11, Indels: 13
0.86 0.06 0.07
Matches are distributed among these distances:
177 1 0.01
178 3 0.02
179 26 0.17
180 36 0.24
181 5 0.03
182 1 0.01
183 4 0.03
185 76 0.50
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.22
Consensus pattern (178 bp):
AAGTAACATTGCAACTAACAATTGTCAATACATACTCAGACAGGGGAATGCATATTCACCCGACA
GGCCGACACTAATACACGACTCCGAGTAACATTGCAACTAACAATCGTCAATACACATTCAGACA
TGGGGAATGCATATTGTACCCGACAGGCCGACACTAACACTCGACTCC
Found at i:2283110 original size:29 final size:29
Alignment explanation
Indices: 2283068--2283123 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
2283058 GACACATTAA
*
2283068 AAGAACAAATTTTAC-CTGAATTAAGCTCG
1 AAGAACAAACTTTACTC-GAATTAAGCTCG
*
2283097 AAGAATAAACTTTACTCGAATTAAGCT
1 AAGAACAAACTTTACTCGAATTAAGCT
2283124 TGATTCTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (29 bp):
AAGAACAAACTTTACTCGAATTAAGCTCG
Found at i:2284307 original size:16 final size:16
Alignment explanation
Indices: 2284282--2284317 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
2284272 GCCAAATTTT
2284282 CAGG-TCAGACCATTG
1 CAGGTTCAGACCATTG
*
2284297 CAGGTTCAGACCATTT
1 CAGGTTCAGACCATTG
2284313 CAGGT
1 CAGGT
2284318 CACGAACACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (16 bp):
CAGGTTCAGACCATTG
Found at i:2290454 original size:110 final size:110
Alignment explanation
Indices: 2290261--2290473 Score: 300
Period size: 110 Copynumber: 1.9 Consensus size: 110
2290251 TTGTCCAATG
*
2290261 AGGGTATGTTCAATCTCAGTTTTGTATAATATATGCATACTTTACGAATGCCAATTCGTTACCCG
1 AGGGTATGTTCAATCTCAGTTTTGTATAATATATGCATACATTACGAATGCCAATTCGTTACCCG
*
2290326 AACTTGGGGTGAGTATTGGATACGTGTATGAGTATATTTCTGATA
66 AACTTGGGGTAAGTATTGGATACGTGTATGAGTATATTTCTGATA
* * * * * * **
2290371 AGGGTATGTTCAATGTCAGTTTTGTATAATATATGTATACATTAGGAATGCTAGTTTGTTACTTG
1 AGGGTATGTTCAATCTCAGTTTTGTATAATATATGCATACATTACGAATGCCAATTCGTTACCCG
* * * *
2290436 GACTTGGGGTAAGTATTGGATGCTTGTATGATTATATT
66 AACTTGGGGTAAGTATTGGATACGTGTATGAGTATATT
2290474 CGGAGAATGT
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
110 89 1.00
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (110 bp):
AGGGTATGTTCAATCTCAGTTTTGTATAATATATGCATACATTACGAATGCCAATTCGTTACCCG
AACTTGGGGTAAGTATTGGATACGTGTATGAGTATATTTCTGATA
Found at i:2310665 original size:21 final size:22
Alignment explanation
Indices: 2310615--2310669 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
2310605 AAAGGGACGA
2310615 AGGTGGGAGAGGGAGCAGGG-C
1 AGGTGGGAGAGGGAGCAGGGAC
*
2310636 AAGTGGG-GAGAGGAG-AGGGAC
1 AGGTGGGAGAG-GGAGCAGGGAC
2310657 AGGGTGGGA-AGGG
1 A-GGTGGGAGAGGG
2310670 GGAGGGGAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
20 7 0.25
21 14 0.50
22 7 0.25
ACGTcount: A:0.27, C:0.05, G:0.62, T:0.05
Consensus pattern (22 bp):
AGGTGGGAGAGGGAGCAGGGAC
Found at i:2312770 original size:15 final size:15
Alignment explanation
Indices: 2312752--2312792 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
2312742 TTGAAAATTT
2312752 TAAATGTTGAAAAAA
1 TAAATGTTGAAAAAA
* *
2312767 TAAATATTAAAAAAA
1 TAAATGTTGAAAAAA
*
2312782 TAAATGCTGAA
1 TAAATGTTGAA
2312793 TTTAAATTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.61, C:0.02, G:0.10, T:0.27
Consensus pattern (15 bp):
TAAATGTTGAAAAAA
Found at i:2312948 original size:141 final size:142
Alignment explanation
Indices: 2312792--2313074 Score: 559
Period size: 141 Copynumber: 2.0 Consensus size: 142
2312782 TAAATGCTGA
2312792 ATTTAAATTATAAAACTTATTTAATATATTATTTAAAATTAAATATTGAATGTAGTTATATTGTT
1 ATTTAAATTATAAAACTTATTTAATATATTATTTAAAATTAAATATTGAATGTAGTTATATTGTT
2312857 TGATAGAGATTAATATATTTTTAAATAAAATAAAATAATTATTAAATTTATTTTTTATTAAACGA
66 TGATAGAGATTAATATATTTTTAAATAAAATAAAATAATTATTAAATTTATTTTTTATTAAACGA
2312922 TAAATAAGTTAC
131 TAAATAAGTTAC
2312934 ATTTAAATTA-AAAACTTATTTAATATATTATTTAAAATTAAATATTGAATGTAGTTATATTGTT
1 ATTTAAATTATAAAACTTATTTAATATATTATTTAAAATTAAATATTGAATGTAGTTATATTGTT
2312998 TGATAGAGATTAATATATTTTTAAATAAAATAAAATAATTATTAAATTTATTTTTTATTAAACGA
66 TGATAGAGATTAATATATTTTTAAATAAAATAAAATAATTATTAAATTTATTTTTTATTAAACGA
2313063 TAAATAAGTTAC
131 TAAATAAGTTAC
2313075 TATCTTCAAT
Statistics
Matches: 141, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
141 131 0.93
142 10 0.07
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (142 bp):
ATTTAAATTATAAAACTTATTTAATATATTATTTAAAATTAAATATTGAATGTAGTTATATTGTT
TGATAGAGATTAATATATTTTTAAATAAAATAAAATAATTATTAAATTTATTTTTTATTAAACGA
TAAATAAGTTAC
Found at i:2314826 original size:64 final size:64
Alignment explanation
Indices: 2314731--2314854 Score: 203
Period size: 64 Copynumber: 1.9 Consensus size: 64
2314721 TTGAGTCGTA
** * *
2314731 ACTCGAATGACATTGGCATTATTGTCGGTGTAGGAGGTTGTAGGTTAGAATGCGCTGAAACTCG
1 ACTCGAATGACATTGGCATTATTACCAGTGTAGGAGGTTGTAGATTAGAATGCGCTGAAACTCG
*
2314795 ACTCGAATGACATTGGCATTATTACCAGTGTAGGAGGTTGTAGATTAGAATGCGTTGAAA
1 ACTCGAATGACATTGGCATTATTACCAGTGTAGGAGGTTGTAGATTAGAATGCGCTGAAA
2314855 ACTCATTATT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (64 bp):
ACTCGAATGACATTGGCATTATTACCAGTGTAGGAGGTTGTAGATTAGAATGCGCTGAAACTCG
Found at i:2316669 original size:15 final size:15
Alignment explanation
Indices: 2316649--2316700 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
2316639 ACGACAAAAC
2316649 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
2316664 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
2316683 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
2316698 ATT
1 ATT
2316701 AATATTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:2316698 original size:19 final size:20
Alignment explanation
Indices: 2316662--2316713 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
2316652 TATTATTAAT
* **
2316662 ATATTTATAATTGTAATA-A
1 ATATTTATTATTAAAATATA
2316681 ATATTTATTATTAAAATATTA
1 ATATTTATTATTAAAATA-TA
*
2316702 ATATTTAATATT
1 ATATTTATTATT
2316714 TTCAATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 15 0.56
21 12 0.44
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
ATATTTATTATTAAAATATA
Found at i:2319466 original size:16 final size:16
Alignment explanation
Indices: 2319445--2319477 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2319435 AAGTTGGGTT
2319445 TAAAA-TTCTCTAATAA
1 TAAAATTTCT-TAATAA
2319461 TAAAATTTCTTAATAA
1 TAAAATTTCTTAATAA
2319477 T
1 T
2319478 TTCAGCTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAAATTTCTTAATAA
Found at i:2319928 original size:30 final size:30
Alignment explanation
Indices: 2319851--2319934 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 30
2319841 ATTATGTGTC
*
2319851 TAATTAAAATTTTCAAATATATATAAAAGGCA
1 TAATTAAAATTTTCAAA-A-ATTTAAAAGGCA
* * **
2319883 TAATGAAAATATTCAAAAATTTAAGGGGCCA
1 TAATTAAAATTTTCAAAAATTTAAAAGG-CA
2319914 -AATTAAAATTTTCAACAAATT
1 TAATTAAAATTTTCAA-AAATT
2319935 CAAGAGAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
30 20 0.47
31 8 0.19
32 15 0.35
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.32
Consensus pattern (30 bp):
TAATTAAAATTTTCAAAAATTTAAAAGGCA
Found at i:2320970 original size:6 final size:6
Alignment explanation
Indices: 2320959--2320984 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2320949 TATTTCGATA
2320959 ATGTAT ATGTAT ATGTAT ATGTAT AT
1 ATGTAT ATGTAT ATGTAT ATGTAT AT
2320985 ATAGAACCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:2331262 original size:12 final size:12
Alignment explanation
Indices: 2331245--2331279 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
2331235 GTCCTTCCAC
2331245 TCTTATTCTTCT
1 TCTTATTCTTCT
2331257 TCTTATTCTTCT
1 TCTTATTCTTCT
*
2331269 TCTTGTTCTTC
1 TCTTATTCTTC
2331280 GAGGTTTCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.06, C:0.26, G:0.03, T:0.66
Consensus pattern (12 bp):
TCTTATTCTTCT
Found at i:2338759 original size:147 final size:147
Alignment explanation
Indices: 2338512--2338983 Score: 705
Period size: 147 Copynumber: 3.2 Consensus size: 147
2338502 CAGTAGATTT
* *
2338512 GGGATTCGAACCCCAACATATGCAACCATTTTCCCTATGTCTTGATCCGTATACTGCTGCAAAGA
1 GGGATTCGAACCCCAACATCTGCAACCATTTTCCCTATGTCTTGATCCGTATGCTGCTGCAAAGA
* * * *
2338577 TCTGGTGAAACCGGATACTTTGAGAAGAATTCGGAGTTTAA-CTCAATCGGTTTATTCAACCACC
66 TCTGATGAAACCGGATAATTTGAGAAGAACTCGGAG-TTAAGCTCAATTGGTTTATTCAACCACC
2338641 CCGATATGCAGCAAGTTC
130 CCGATATGCAGCAAGTTC
* **
2338659 GGGATTCGAATCCCAACATCTGCAACCATTTTCCCTATGTCTTGATATGTATGCTGCTGCAAAGA
1 GGGATTCGAACCCCAACATCTGCAACCATTTTCCCTATGTCTTGATCCGTATGCTGCTGCAAAGA
* *
2338724 TCTGCTGAAACCGGATAATTTGAGAAGAACTCGGAGTTAAGCTCAGTTGGTTTATTCAACCACCC
66 TCTGATGAAACCGGATAATTTGAGAAGAACTCGGAGTTAAGCTCAATTGGTTTATTCAACCACCC
*
2338789 CGATTTGCAGCAAGTTC
131 CGATATGCAGCAAGTTC
* *
2338806 GGGATTCGAACCCCAACATCTGCAACCATTTTCCCTATGTCTTGATCCATATGCTGCTGCAAGGA
1 GGGATTCGAACCCCAACATCTGCAACCATTTTCCCTATGTCTTGATCCGTATGCTGCTGCAAAGA
** * *
2338871 TCCAATGAAACCGGATAATTTGAGAAGAGCCCGGAGTTAAGCT-AAGTTGGTTTATTCAACCACC
66 TCTGATGAAACCGGATAATTTGAGAAGAACTCGGAGTTAAGCTCAA-TTGGTTTATTCAACCACC
* * *
2338935 CTGATATGCAGTAGGTTC
130 CCGATATGCAGCAAGTTC
* *
2338953 GGGATTCGAATCCCAACATCTGTAACCATTT
1 GGGATTCGAACCCCAACATCTGCAACCATTT
2338984 CTCCTGTATA
Statistics
Matches: 295, Mismatches: 28, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
146 5 0.02
147 290 0.98
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (147 bp):
GGGATTCGAACCCCAACATCTGCAACCATTTTCCCTATGTCTTGATCCGTATGCTGCTGCAAAGA
TCTGATGAAACCGGATAATTTGAGAAGAACTCGGAGTTAAGCTCAATTGGTTTATTCAACCACCC
CGATATGCAGCAAGTTC
Found at i:2344466 original size:25 final size:25
Alignment explanation
Indices: 2344437--2344498 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
2344427 ACTACAATTC
*
2344437 AACTCAATTGGCTCGATTGAGTCTT
1 AACTCAATTGGCTCAATTGAGTCTT
2344462 AACTCAATTGGCTCAATTGAGTCTT
1 AACTCAATTGGCTCAATTGAGTCTT
*
2344487 AACTCGATTGGC
1 AACTCAATTGGC
2344499 ACGAGCATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (25 bp):
AACTCAATTGGCTCAATTGAGTCTT
Found at i:2351158 original size:20 final size:21
Alignment explanation
Indices: 2351115--2351161 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
2351105 ACACAATACA
* *
2351115 TTAAATTAAAAAAAATAACTC
1 TTAATTTAAAAAAAATAACAC
*
2351136 TTAATTTAAAGAAAATAA-AC
1 TTAATTTAAAAAAAATAACAC
2351156 TTAATT
1 TTAATT
2351162 ATTTAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.34
Consensus pattern (21 bp):
TTAATTTAAAAAAAATAACAC
Found at i:2351533 original size:2 final size:2
Alignment explanation
Indices: 2351526--2351553 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2351516 TAATGTTAAA
2351526 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2351554 TCAAAAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2352580 original size:4 final size:4
Alignment explanation
Indices: 2352571--2352597 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2352561 TCTAATTTTT
2352571 TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTA
2352598 TTTGTTCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:2352679 original size:4 final size:4
Alignment explanation
Indices: 2352663--2352700 Score: 67
Period size: 4 Copynumber: 9.2 Consensus size: 4
2352653 CTCTTTTTTT
2352663 ATTA ATATA ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA AT-TA ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
2352701 ACTCTTTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 29 0.88
5 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:2354471 original size:20 final size:20
Alignment explanation
Indices: 2354446--2354485 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2354436 AATATTTTCT
*
2354446 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
2354466 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
2354486 TCATTTTACG
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:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:2354488 original size:34 final size:35
Alignment explanation
Indices: 2354434--2354500 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
2354424 CAAACAGCAG
* *
2354434 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
2354469 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
2354501 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:2354492 original size:14 final size:14
Alignment explanation
Indices: 2354469--2354508 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
2354459 ACAGAAAAGT
*
2354469 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
2354483 AAATCATTTTACGG
1 AAAACATTTTACAG
2354497 AAAACATTTTAC
1 AAAACATTTTAC
2354509 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:2355890 original size:7 final size:7
Alignment explanation
Indices: 2355878--2355916 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
2355868 AGAGGAGATC
2355878 AATCAAA
1 AATCAAA
2355885 AATCAAA
1 AATCAAA
2355892 AATCAAA
1 AATCAAA
2355899 AATCAAA
1 AATCAAA
2355906 AATCAAA
1 AATCAAA
2355913 AATC
1 AATC
2355917 GAGAGATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (7 bp):
AATCAAA
Found at i:2356424 original size:7 final size:7
Alignment explanation
Indices: 2356412--2356451 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
2356402 AAAGTATTTT
2356412 AAAATTA
1 AAAATTA
2356419 AAAATTA
1 AAAATTA
2356426 AAAATTA
1 AAAATTA
*
2356433 AAAAATA
1 AAAATTA
*
2356440 AAAATAA
1 AAAATTA
2356447 AAAAT
1 AAAAT
2356452 ATATATTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAATTA
Found at i:2356450 original size:13 final size:13
Alignment explanation
Indices: 2356411--2356452 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
2356401 AAAAGTATTT
* *
2356411 TAAAATTAAAAAT
1 TAAAAATAAAAAA
2356424 TAAAAATTAAAAAA
1 TAAAAA-TAAAAAA
2356438 TAAAAATAAAAAA
1 TAAAAATAAAAAA
2356451 TA
1 TA
2356453 TATATTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:2361997 original size:96 final size:95
Alignment explanation
Indices: 2361832--2362008 Score: 225
Period size: 96 Copynumber: 1.9 Consensus size: 95
2361822 TAACTCAATA
* * * * *
2361832 TTTTGATGTTCGAGACTAAATTAAAATTTTAGTTATAGTTTGAGGGTGTTTAGTAAATTAATTCT
1 TTTTGAAGTTCGAGACTAAATTAAAATTTTAGTTATAATTTGAGGGTGTTAAGCAAATTAATTCA
*
2361897 TTTTTTATTGCATATTTTGGTAAGTCAACG
66 TTTTTCATTGCATATTTTGGTAAGTCAACG
*
2361927 TTTTGAAGTTTGAGACTAAATTAAGAATTTTAGTTATAATTT-AGGGGTGTCTAATGCAAA-TAA
1 TTTTGAAGTTCGAGACTAAATTAA-AATTTTAGTTATAATTTGA-GGGTGT-TAA-GCAAATTAA
*
2361990 TT-ATTTTTCGTTGCATATT
62 TTCATTTTTCATTGCATATT
2362009 CACTTTTTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
95 23 0.33
96 36 0.51
97 7 0.10
98 4 0.06
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.46
Consensus pattern (95 bp):
TTTTGAAGTTCGAGACTAAATTAAAATTTTAGTTATAATTTGAGGGTGTTAAGCAAATTAATTCA
TTTTTCATTGCATATTTTGGTAAGTCAACG
Found at i:2363694 original size:20 final size:20
Alignment explanation
Indices: 2363669--2363707 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2363659 AGTTAGTTAA
*
2363669 TTTTATTTTAAATATTATTG
1 TTTTATTCTAAATATTATTG
*
2363689 TTTTATTCTAAATTTTATT
1 TTTTATTCTAAATATTATT
2363708 TTTATGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTTATTCTAAATATTATTG
Found at i:2376576 original size:22 final size:22
Alignment explanation
Indices: 2376551--2376596 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
2376541 GAATAAACTC
2376551 AATAATTGGCCATCTAAAACCT
1 AATAATTGGCCATCTAAAACCT
*
2376573 AATAATTGGTCATCTAAAACCT
1 AATAATTGGCCATCTAAAACCT
2376595 AA
1 AA
2376597 GGCAAGGAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (22 bp):
AATAATTGGCCATCTAAAACCT
Found at i:2380263 original size:263 final size:262
Alignment explanation
Indices: 2379796--2380400 Score: 863
Period size: 263 Copynumber: 2.3 Consensus size: 262
2379786 TTCGAGTTTG
* * * *
2379796 AGCACTAATCATTGAGCTGGAAATCGAGCATGAGAGTTTAGCTTTAAACATGGAACTCGATTGAG
1 AGCACTAATAATTGAGCTTGAAATCGAGCATGAGAGTTAAGCTTTAAA-TTGGAACTCGATTGAG
* * * *
2379861 CGTCTGTCGAGTTTCAGGCTTCGAGTTTCAAGTCAAACTTGAGCTCAAGCTTCTTATGGCTTGAG
65 CTTCTGTTGAGTTTCAAGCTTCGAGTTTCAAGTCAAACTTGAGCTCAAGCTTCTTAGGGCTTGAG
* * * * * *
2379926 CTGTTGAACTGGTCGAATTTGAGTATACTAATACTTTATTTGTGTAGCTTATCAGCTTAGTCCAG
130 CTGTTGAACTGGTCAAATTCGAGTATACTAATACTTTATCTGAGTACCTTATCAGCTTAATCCAG
* * * * *
2379991 CTTTTTTCTATGTTTAATGAGTATTGAGAAACTTCAATTTTGAACATTTAAACAC-GAGA-TCAA
195 CCTTTTTCTATATTTAATGAGTATTGAAAAACTTCAA-TGTAAACATTTAAACACTGA-ATTCAA
*
2380054 GTTAA
258 GCTAA
* *
2380059 AGCACTAATAATTGAGATTGAAATCGAGCATGAGAGTTGAGCTTTAAATGTGGAACTCGATTGAG
1 AGCACTAATAATTGAGCTTGAAATCGAGCATGAGAGTTAAGCTTTAAAT-TGGAACTCGATTGAG
* *
2380124 CTTCTGTTGAGTTTCAAGCTTTGATTTTCAAGTCAAACTTGAGCTCAAGCTTCTTAGGGCTTGAG
65 CTTCTGTTGAGTTTCAAGCTTCGAGTTTCAAGTCAAACTTGAGCTCAAGCTTCTTAGGGCTTGAG
*
2380189 CTGTTGAAGTGGTCAAATTCGAGTATACTAATACTTTATCTGAGTACCTTATCAGCTTAATCCAG
130 CTGTTGAACTGGTCAAATTCGAGTATACTAATACTTTATCTGAGTACCTTATCAGCTTAATCCAG
*
2380254 CCTTTTTCTATATTTAATGAGTATTGAAAAACTTCAATGTAAACATTTAAACACTGAATTCTAGC
195 CCTTTTTCTATATTTAATGAGTATTGAAAAACTTCAATGTAAACATTTAAACACTGAATTCAAGC
**
2380319 TCC
260 TAA
* * * *
2380322 AGTACTAATAATTGAGCTTGAAATTGAGCATGAGAGTTAACCTTTAAAATTGGAACTCAATTGAG
1 AGCACTAATAATTGAGCTTGAAATCGAGCATGAGAGTTAAGCTTT-AAATTGGAACTCGATTGAG
2380387 CTTCTGTTGAGTTT
65 CTTCTGTTGAGTTT
2380401 TCTGTTGAGT
Statistics
Matches: 305, Mismatches: 33, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
262 16 0.05
263 285 0.93
264 4 0.01
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (262 bp):
AGCACTAATAATTGAGCTTGAAATCGAGCATGAGAGTTAAGCTTTAAATTGGAACTCGATTGAGC
TTCTGTTGAGTTTCAAGCTTCGAGTTTCAAGTCAAACTTGAGCTCAAGCTTCTTAGGGCTTGAGC
TGTTGAACTGGTCAAATTCGAGTATACTAATACTTTATCTGAGTACCTTATCAGCTTAATCCAGC
CTTTTTCTATATTTAATGAGTATTGAAAAACTTCAATGTAAACATTTAAACACTGAATTCAAGCT
AA
Found at i:2380405 original size:12 final size:12
Alignment explanation
Indices: 2380388--2380412 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2380378 TCAATTGAGC
2380388 TTCTGTTGAGTT
1 TTCTGTTGAGTT
2380400 TTCTGTTGAGTT
1 TTCTGTTGAGTT
2380412 T
1 T
2380413 CAACTTTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.24, T:0.60
Consensus pattern (12 bp):
TTCTGTTGAGTT
Found at i:2384420 original size:60 final size:58
Alignment explanation
Indices: 2384277--2384420 Score: 164
Period size: 58 Copynumber: 2.4 Consensus size: 58
2384267 ATTAGTTCCC
* * * *
2384277 AATGTGGGAACAATTGTTAAGTTCAGGGACTAATTTGGACAAAAATAATTTAGGCTCT
1 AATGTGGGAACAATTGTCAAGTTCAGGGACTAACTTGGACAAAAAGAATTCAGGCTCT
* * * * *
2384335 AATGTGGGAACAGTTGCCTAGTTCAGGTACTAACTTGGACTAAAAAGAGTTCAGG-TCCT
1 AATGTGGGAACAATTGTCAAGTTCAGGGACTAACTTGGAC-AAAAAGAATTCAGGCT-CT
*
2384394 AATGTTGGGAACAATTGTCAAATTCAG
1 AATG-TGGGAACAATTGTCAAGTTCAG
2384421 TGATTTAACC
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
58 35 0.50
59 17 0.24
60 18 0.26
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (58 bp):
AATGTGGGAACAATTGTCAAGTTCAGGGACTAACTTGGACAAAAAGAATTCAGGCTCT
Found at i:2384670 original size:11 final size:12
Alignment explanation
Indices: 2384643--2384673 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2384633 ACACTTCAAT
*
2384643 TTTTTATGGAAC
1 TTTTTATCGAAC
2384655 TTTTTATCGAAC
1 TTTTTATCGAAC
2384667 TTTTTAT
1 TTTTTAT
2384674 TTTCATTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.58
Consensus pattern (12 bp):
TTTTTATCGAAC
Found at i:2385371 original size:19 final size:19
Alignment explanation
Indices: 2385347--2385384 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2385337 TTTAAATAAC
2385347 ATTAAGATAAGCGTAACTT
1 ATTAAGATAAGCGTAACTT
2385366 ATTAAGATAAGCGTAACTT
1 ATTAAGATAAGCGTAACTT
2385385 GACAAGTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (19 bp):
ATTAAGATAAGCGTAACTT
Found at i:2385514 original size:33 final size:33
Alignment explanation
Indices: 2385477--2385541 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
2385467 GAATGTTTGC
* * *
2385477 AAAACAGTAAAAAAATAATAAGAAAATTGTAGT
1 AAAACAGCAAAAAAATAACAAGAAAATAGTAGT
*
2385510 AAAACAGCAAGAAAATAACAAGAAAATAGTAG
1 AAAACAGCAAAAAAATAACAAGAAAATAGTAG
2385542 ATCTTTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.65, C:0.06, G:0.14, T:0.15
Consensus pattern (33 bp):
AAAACAGCAAAAAAATAACAAGAAAATAGTAGT
Found at i:2387052 original size:17 final size:18
Alignment explanation
Indices: 2387030--2387063 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2387020 TTGAAAGTAG
2387030 TAATTTA-TTTTTATTAT
1 TAATTTATTTTTTATTAT
2387047 TAATTTATTTTTTATTA
1 TAATTTATTTTTTATTA
2387064 AAATTAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TAATTTATTTTTTATTAT
Found at i:2387068 original size:17 final size:17
Alignment explanation
Indices: 2387031--2387068 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
2387021 TGAAAGTAGT
*
2387031 AATTTATTTTTATTATT
1 AATTTATTTTTATTATA
2387048 AATTTATTTTTTATTA-A
1 AATTTA-TTTTTATTATA
2387065 AATT
1 AATT
2387069 AAGAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
AATTTATTTTTATTATA
Found at i:2388346 original size:29 final size:30
Alignment explanation
Indices: 2388313--2388370 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
2388303 AAAAAGAAAT
* *
2388313 ACCAATTTTTAAGGGTC-TAAATTTTTTTC
1 ACCAACTTTTAAGGGACTTAAATTTTTTTC
*
2388342 ACCAACTTTTAAGGGACTTCAATTTTTTT
1 ACCAACTTTTAAGGGACTTAAATTTTTTT
2388371 TTCTCCAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.47
Consensus pattern (30 bp):
ACCAACTTTTAAGGGACTTAAATTTTTTTC
Found at i:2390998 original size:13 final size:13
Alignment explanation
Indices: 2390980--2391004 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2390970 TTCAGTATTA
2390980 TTTTACTTTTAAT
1 TTTTACTTTTAAT
2390993 TTTTACTTTTAA
1 TTTTACTTTTAA
2391005 AAGTTATCAA
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:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTACTTTTAAT
Found at i:2395178 original size:9 final size:9
Alignment explanation
Indices: 2395164--2395191 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
2395154 TTTTGTTACA
2395164 ACAATTAAT
1 ACAATTAAT
2395173 ACAATTAAT
1 ACAATTAAT
2395182 ACAATTAAT
1 ACAATTAAT
2395191 A
1 A
2395192 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:2395212 original size:68 final size:66
Alignment explanation
Indices: 2395134--2395275 Score: 248
Period size: 68 Copynumber: 2.1 Consensus size: 66
2395124 TCAAGTTTGT
*
2395134 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
2395199 AAA
64 AAA
2395202 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
*
2395267 T
66 A
2395268 TTTACTAA
1 TTTACTAA
2395276 CAATTAATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 27 0.38
67 1 0.01
68 44 0.61
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:2395285 original size:16 final size:16
Alignment explanation
Indices: 2395264--2395305 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
2395254 AATAATTTGA
*
2395264 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
2395280 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
2395296 TAGTTTTAAT
1 TAATTTTAAT
2395306 TTTATTAAAA
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:2395289 original size:22 final size:23
Alignment explanation
Indices: 2395279--2395340 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
2395269 TTACTAACAA
* * *
2395279 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
2395301 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
2395324 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
2395341 CGGGTCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:2395294 original size:59 final size:66
Alignment explanation
Indices: 2395134--2395297 Score: 216
Period size: 68 Copynumber: 2.5 Consensus size: 66
2395124 TCAAGTTTGT
*
2395134 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTT-ATACAACAATTAATACAATTAATACAATTAATAATTTGAT
2395199 AAA
64 AAA
2395202 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTA-TACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
2395265 AAT
64 AAA
*
2395268 TTTACTAA-C-AA-TTA-ATTTTA-ATAACAATTA
1 TTTACTAATCAAAGTTAGATTTTATACAACAATTA
2395298 GTTTTAATTT
Statistics
Matches: 92, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
59 9 0.10
61 6 0.07
62 3 0.03
64 2 0.02
65 1 0.01
66 27 0.29
67 1 0.01
68 43 0.47
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAAGTTAGATTTTATACAACAATTAATACAATTAATACAATTAATAATTTGATAA
A
Found at i:2396414 original size:2 final size:2
Alignment explanation
Indices: 2396407--2396448 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2396397 TTCTAGGCTT
2396407 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
2396449 ACACTTTTTT
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:2402153 original size:18 final size:19
Alignment explanation
Indices: 2402114--2402155 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 19
2402104 ATGGAGGTAA
2402114 TAAAATATGCATAATAAAAT
1 TAAAATAT-CATAATAAAAT
2402134 TAAAATAT-ATAA-AAATAT
1 TAAAATATCATAATAAA-AT
2402152 TAAA
1 TAAA
2402156 GCAAAACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 3 0.14
18 10 0.48
20 8 0.38
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
TAAAATATCATAATAAAAT
Found at i:2404431 original size:18 final size:19
Alignment explanation
Indices: 2404392--2404433 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 19
2404382 ATGGAGGTAA
2404392 TAAAATATGCATAATAAAAT
1 TAAAATAT-CATAATAAAAT
2404412 TAAAATAT-ATAA-AAATAT
1 TAAAATATCATAATAAA-AT
2404430 TAAA
1 TAAA
2404434 GCAAAACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 3 0.14
18 10 0.48
20 8 0.38
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
TAAAATATCATAATAAAAT
Found at i:2409986 original size:136 final size:140
Alignment explanation
Indices: 2409767--2410152 Score: 450
Period size: 136 Copynumber: 2.7 Consensus size: 140
2409757 ATCGGCGATC
* * *
2409767 CTATGTTACAATTTGCATATAGCTCATCAATG--ACTATGCTAACATACATATTACATGTATATA
1 CTATGTTACAATTTGCATATAGCTCATCTATGCTACTATGCTAACATATATATTACAAGTATATA
*
2409830 CAAAGCATGAACAAGTGCTTACACAGAAACTGGGGAGCATG-TA-T-CA-ATGGTTA-CAGCTGG
66 CAAAGCATGAACAAGTGCTTACACAGAAACTGGAGAGCATGATATTACACATGGTTACCA-CTGG
*
2409890 ATCAGTGAC-A
130 ATCAGCGACAA
2409900 CTATGTTACAATTTGCATATAGCTCATCTATGACTACTATGCTAACATATATATTACAAGTATAT
1 CTATGTTACAATTTGCATATAGCTCATCTATG-CTACTATGCTAACATATATATTACAAGTATAT
*
2409965 ACAAAGCATGAACAAGTGCTTACACAGAAACTGGAGAGCATGTATATTACATCGATTGTTACCAC
65 ACAAAGCATGAACAAGTGCTTACACAGAAACTGGAGAGCATG-ATATTACA-C-ATGGTTACCAC
2410030 TGGATCAGCGACAGTAA
127 TGGATCAGCGAC---AA
* * * * * *
2410047 CATTATGTTACAAATTCCATCTAGATCATCTATGCCTATTCTAAGCAAACATATCATATTACAAG
1 C--TATGTTACAATTTGCATATAGCTCATCTATG-CTA--CTATGCTAACATAT-ATATTACAAG
*
2410112 TATACAC-AAGCATGAACAAGTGCTTACACA-AAACCTGGAGA
60 TATATACAAAGCATGAACAAGTGCTTACACAGAAA-CTGGAGA
2410153 ACATAGCGAA
Statistics
Matches: 218, Mismatches: 14, Indels: 24
0.85 0.05 0.09
Matches are distributed among these distances:
133 31 0.14
136 69 0.32
138 2 0.01
139 1 0.00
140 2 0.01
143 18 0.08
144 2 0.01
147 2 0.01
149 30 0.14
150 3 0.01
151 42 0.19
152 16 0.07
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.28
Consensus pattern (140 bp):
CTATGTTACAATTTGCATATAGCTCATCTATGCTACTATGCTAACATATATATTACAAGTATATA
CAAAGCATGAACAAGTGCTTACACAGAAACTGGAGAGCATGATATTACACATGGTTACCACTGGA
TCAGCGACAA
Found at i:2410435 original size:132 final size:131
Alignment explanation
Indices: 2410209--2410471 Score: 377
Period size: 132 Copynumber: 2.0 Consensus size: 131
2410199 TACAGAAAAA
2410209 GGGAGCATGTATGCTACATCAACGGTTACAAGGATCAGCAAACCTATGTTACAATTCGCATCAAG
1 GGGAGCATGTATGCTACATCAACGGTTACAAGGATCAGCAAACCTATGTTACAATTCGCATCAAG
2410274 CTCATCTATGCCCCTATTACAAACTAACATATCGATTACAAGTATATACAAGCATGAACAAGTGC
66 CTCATCTATG-CCCTATTACAAACTAACATATCGATTACAAGTATATACAAGCATGAACAAGTGC
2410339 TG
130 TG
* * * * * * *
2410341 GGGAGCATTTATGTTACATCCATGGTTACAGCTGGATCAG-AAACACTATGTTACAATTTGTATC
1 GGGAGCATGTATGCTACATCAACGGTTACA--AGGATCAGCAAAC-CTATGTTACAATTCGCATC
* * * *
2410405 TAGCTCATCTATG-CCTATTATAAATTAACATATTGATTACAAGTATATACAAGCATGAACAAGT
63 AAGCTCATCTATGCCCTATTACAAACTAACATATCGATTACAAGTATATACAAGCATGAACAAGT
2410469 GCT
128 GCT
2410472 TACAGAAAAA
Statistics
Matches: 117, Mismatches: 11, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
132 77 0.66
133 4 0.03
134 36 0.31
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (131 bp):
GGGAGCATGTATGCTACATCAACGGTTACAAGGATCAGCAAACCTATGTTACAATTCGCATCAAG
CTCATCTATGCCCTATTACAAACTAACATATCGATTACAAGTATATACAAGCATGAACAAGTGCT
G
Found at i:2410501 original size:132 final size:130
Alignment explanation
Indices: 2410233--2410633 Score: 407
Period size: 130 Copynumber: 3.1 Consensus size: 130
2410223 TACATCAACG
* * * *
2410233 GTTACAAGGATCAGCAAACCTATGTTACAATTCGCATCAAGCTCATCTATGCCCCTATTACAAAC
1 GTTACATGGATCAGCAAACCTATGTTACAATTTGCATCTAGCTCATCTATG--CCTATTATAAAC
* *** *** ** *
2410298 TAACATATCGATTACAAGTATATACAAGCATGAACAAGTGCTGGGGAGCATTTA-T-GTTA-CAT
64 TAACATATTGATTACAAGTATATACAAGCATGAACAAGTGCT-TAAAG-AAAAACTGGGAAGTAT
*
2410360 CCAT
127 GCAT
*
2410364 GGTTACAGCTGGATCAG-AAACACTATGTTACAATTTGTATCTAGCTCATCTATGCCTATTATAA
1 -GTTACA--TGGATCAGCAAAC-CTATGTTACAATTTGCATCTAGCTCATCTATGCCTATTATAA
* *
2410428 ATTAACATATTGATTACAAGTATATACAAGCATGAACAAGTGCTTACAGAAAAACTGGGAAGTAT
62 ACTAACATATTGATTACAAGTATATACAAGCATGAACAAGTGCTTAAAGAAAAACTGGGAAGTAT
*
2410493 GTAT
127 GCAT
* * * * * *
2410497 GTTACAT-CAACAGCGAACCTATGCTACAATTTGCATCTAAGCTCATCTATGCCTATTCTAAGCT
1 GTTACATGGATCAGCAAACCTATGTTACAATTTGCATCT-AGCTCATCTATGCCTATTATAAACT
* * * * * *
2410561 AACATATTGATTACAAGTGTATACAAGCATAAACAAGTGCTTAAACAGAAACCGGGGAGTATGCA
65 AACATATTGATTACAAGTATATACAAGCATGAACAAGTGCTTAAAGAAAAACTGGGAAGTATGCA
2410626 T
130 T
2410627 GTTACAT
1 GTTACAT
2410634 CAATGGTTAC
Statistics
Matches: 227, Mismatches: 34, Indels: 18
0.81 0.12 0.06
Matches are distributed among these distances:
129 22 0.10
130 93 0.41
131 3 0.01
132 65 0.29
133 8 0.04
134 36 0.16
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (130 bp):
GTTACATGGATCAGCAAACCTATGTTACAATTTGCATCTAGCTCATCTATGCCTATTATAAACTA
ACATATTGATTACAAGTATATACAAGCATGAACAAGTGCTTAAAGAAAAACTGGGAAGTATGCAT
Found at i:2422720 original size:30 final size:31
Alignment explanation
Indices: 2422686--2422744 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
2422676 ATTCAGTACT
* *
2422686 TGAGTTTGGTTTTAATG-TCAATTTAATATA
1 TGAGTTTGGCTTCAATGTTCAATTTAATATA
2422716 TGAGTTTGGCTTCAATGTTCAATTTAATA
1 TGAGTTTGGCTTCAATGTTCAATTTAATA
2422745 CTTGACATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.47
Consensus pattern (31 bp):
TGAGTTTGGCTTCAATGTTCAATTTAATATA
Found at i:2427557 original size:17 final size:17
Alignment explanation
Indices: 2427535--2427567 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2427525 AATTATAAAA
2427535 AATAAT-TATTAATATAG
1 AATAATATATT-ATATAG
2427552 AATAATATATTATATA
1 AATAATATATTATATA
2427568 ATTTTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
AATAATATATTATATAG
Found at i:2428184 original size:18 final size:18
Alignment explanation
Indices: 2428161--2428199 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2428151 AATTTCTATA
*
2428161 AAAATAGGATTTCTCAAT
1 AAAATAAGATTTCTCAAT
*
2428179 AAAATAAGATTTCTCTAT
1 AAAATAAGATTTCTCAAT
2428197 AAA
1 AAA
2428200 GTTCAGAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (18 bp):
AAAATAAGATTTCTCAAT
Found at i:2428768 original size:69 final size:69
Alignment explanation
Indices: 2428674--2428811 Score: 222
Period size: 69 Copynumber: 2.0 Consensus size: 69
2428664 GATTGACTAA
* *
2428674 GAAAAATTAAACTATAATAACAAATTATTTGGTGTAGATGAAATTTTTTAAACTCCACAAGTAAA
1 GAAAAAATAAACTATAATAACAAATTATTCGGTGTAGATGAAATTTTTTAAACTCCACAAGTAAA
2428739 TTCG
66 TTCG
* * * *
2428743 GAAAAAATAAGCTATAATAATAAATTATTCGGTGTAGATGAAGTTTTTTAAATTCCACAAGTAAA
1 GAAAAAATAAACTATAATAACAAATTATTCGGTGTAGATGAAATTTTTTAAACTCCACAAGTAAA
2428808 TTCG
66 TTCG
2428812 ATTATTTAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.33
Consensus pattern (69 bp):
GAAAAAATAAACTATAATAACAAATTATTCGGTGTAGATGAAATTTTTTAAACTCCACAAGTAAA
TTCG
Found at i:2431592 original size:889 final size:878
Alignment explanation
Indices: 2429638--2431285 Score: 2648
Period size: 889 Copynumber: 1.9 Consensus size: 878
2429628 AGATATTCTG
* * *
2429638 AATTGTCTCACACAATATCTCCAAACTATCAAACTTAACTCCAAAATGATAACAAAGTCAAATAG
1 AATTGTCTAACACAATATCTCCAAACTATC--ACATAACTCCAAAATGATAACAAACTCAAATAG
* **** ** * * *
2429703 TAAGACAATTTTTTTTTATCTTTTTAAAAAGTGTAAAAAATGTGCCCAACTATATGAAAAATATT
64 TAAGACAA-TCTGAGGTATCTGATTAAAAAGAGTAAAAAATGTGCCAAACAATATG-AAAATATT
**** * * * *
2429768 GCTAAGGTGTATATGATAAGTAGGGGTGGAGCCAAAAAAAAATTTTAGGGATAAGGATTAAGTTG
127 GC-AAGCAACAAATAATAAGCAGGGGTCGAGCCAAAAAAAAATTTTAGGGATAAGGATTAAGTTG
2429833 TATATTTCTACGATAGTAAAAATGTAATTTCACCGCTTTAATAGTCTATATATTTATAATTTTTA
191 TATATTTCTACGATAGTAAAAATGTAATTTCACCGCTTTAATAGTCTATATATTTATAATTTTTA
2429898 AAAGATTAAATCAAATTCCGATCATTTATGGGGGGTTAAAGTGTAACTATTAGTAATTTAAAACT
256 AAAGATTAAATCAAATTCCGATCATTTATGGGGGGTTAAAGTGTAACTATTAGTAATTTAAAACT
2429963 TTATAAATTATAAAGGGCCTAAAAGAGAAATTTTTCATTTTATGGGCGCTAATATATATTTTAAA
321 TTATAAATTATAAAGGGCCTAAAAGAGAAATTTTTCATTTTATGGGCGCTAATATATATTTTAAA
2430028 AGTAATTCATGATAAACTATTTGACCGAATTAAAAAAAGAAAAAAGAATAGACTTCGAGATTAAA
386 AGTAATTCATGATAAACTATTTGACCGAATTAAAAAAAGAAAAAAGAATAGACTTCGAGATTAAA
2430093 AATCCATATTTTGAAAAGTAAGGAGATTAGAAATGATCAAATCATAGTAATGGGATTAAATATAA
451 AATCCATATTTTGAAAAGTAAGGAGATTAGAAATGATCAAATCATAGTAATGGGATTAAATATAA
2430158 AAAAAACACATTATTCAAGGACACTACATAAAATTTAACCTATAATTTTTTTTTGATACAATTAG
516 AAAAAACACATTATTCAAGGACACTACATAAAATTTAACCTATAATTTTTTTTTGATACAATTAG
2430223 TAAACTACTTGTAACCCCCAAACTCTTAAATTAAAGGATATTACGCACTAAGTGCACAAGCCGGG
581 TAAACTACTTGTAACCCCCAAACTCTTAAATTAAAGGATATTACGCACTAAGTGCACAAGCCGGG
2430288 CCGAGTCAAGTCAATGCGTAATTTTAAAAAATTTCAAGCTTGAGCTTGAGCCCAACTTGACCTAT
646 CCGAGTCAAGTCAATGCGTAATTTTAAAAAATTTCAAGCTTGAGCTTGAGCCCAACTTGACCTAT
*
2430353 CCGAAAAGTTCATATTACAGTTTAAAAATTTTAAAAATATATATACTAAACTTGATCAAATTTCT
711 CCGAAAAGTTCATATTACAGTTTAAAAATTTTAAAAATATATATA-TAAACTTGATCAAATTTAT
*** * ** * ** *
2430418 GAATCGGCAGTAAGTCCATATGATTAACTGTGCAGTGACTAATAAGTCCATACTTCAACAACAAA
775 GAATCAAAAGTAAATAAAAATGATTAACAAT-CAGT-ACTAATAAATCCATACTTCAACAACAAA
* * *
2430483 TGTTATCATTAATCTAGACAATAAAAGCAAAAGAATCAAAAAAA
838 TGTGATC---AACCCAGACAATAAAAGCAAAAGAATCAAAAAAA
* * *
2430527 AATTGTCTCACACAATATCTCCAAACTATCAAACTTAACTCCAAAATGATAACAAAGTCAAATAG
1 AATTGTCTAACACAATATCTCCAAACTATC--ACATAACTCCAAAATGATAACAAACTCAAATAG
* **** ** * * *
2430592 TAAGACAATTTTTTTTTATCTTTTTAAAAAGTGTAAAAAATGTGCCCAACTATATGAAAAATATT
64 TAAGACAA-TCTGAGGTATCTGATTAAAAAGAGTAAAAAATGTGCCAAACAATATG-AAAATATT
**** * * * *
2430657 GCTAAGGTGTATATGATAAGTAGGGGTGGAGCCAAAAAAAAATTTTAGGGATAAGGATTAAGTTG
127 GC-AAGCAACAAATAATAAGCAGGGGTCGAGCCAAAAAAAAATTTTAGGGATAAGGATTAAGTTG
2430722 TATATTTCTACGATAGTAAAAATGTAATTTCACCGCTTTAATAGTCTATATATTTATAATTTTTA
191 TATATTTCTACGATAGTAAAAATGTAATTTCACCGCTTTAATAGTCTATATATTTATAATTTTTA
2430787 AAAGATTAAATCAAATTCCGATCATTTATGGGGGGTTAAAGTGTAACTATTAGTAATTTAAAACT
256 AAAGATTAAATCAAATTCCGATCATTTATGGGGGGTTAAAGTGTAACTATTAGTAATTTAAAACT
2430852 TTATAAATTATAAAGGGCCTAAAAGAGAAATTTTTCATTTTATGGGCGCTAATATATATTTTAAA
321 TTATAAATTATAAAGGGCCTAAAAGAGAAATTTTTCATTTTATGGGCGCTAATATATATTTTAAA
2430917 AGTAATTCATGATAAACTATTTGACCGAATTAAAAAAAGAAAAAAGAATAGACTTCGAGATTAAA
386 AGTAATTCATGATAAACTATTTGACCGAATTAAAAAAAGAAAAAAGAATAGACTTCGAGATTAAA
2430982 AATCCATATTTTGAAAAGTAAGGAGATTAGAAATGATCAAATCATAGTAATGGGATTAAATATAA
451 AATCCATATTTTGAAAAGTAAGGAGATTAGAAATGATCAAATCATAGTAATGGGATTAAATATAA
2431047 AAAAAACACATTATTCAAGGACACTACATAAAATTTAACCTATAATTTTTTTTTGATACAATTAG
516 AAAAAACACATTATTCAAGGACACTACATAAAATTTAACCTATAATTTTTTTTTGATACAATTAG
2431112 TAAACTACTTGTAACCCCCAAACTCTTAAATTAAAGGATATTACGCACTAAGTGCACAAGCCGGG
581 TAAACTACTTGTAACCCCCAAACTCTTAAATTAAAGGATATTACGCACTAAGTGCACAAGCCGGG
2431177 CCGAGTCAAGTCAATGCGTAATTTTAAAAAATTTCAAGCTTGAGCTTGAGCCCAACTTGACCTAT
646 CCGAGTCAAGTCAATGCGTAATTTTAAAAAATTTCAAGCTTGAGCTTGAGCCCAACTTGACCTAT
2431242 CCGAAAAGTTCATATTACAGTTTAAAAATTTTAAAAATATATAT
711 CCGAAAAGTTCATATTACAGTTTAAAAATTTTAAAAATATATAT
2431286 TAATATTTAT
Statistics
Matches: 759, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
889 759 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (878 bp):
AATTGTCTAACACAATATCTCCAAACTATCACATAACTCCAAAATGATAACAAACTCAAATAGTA
AGACAATCTGAGGTATCTGATTAAAAAGAGTAAAAAATGTGCCAAACAATATGAAAATATTGCAA
GCAACAAATAATAAGCAGGGGTCGAGCCAAAAAAAAATTTTAGGGATAAGGATTAAGTTGTATAT
TTCTACGATAGTAAAAATGTAATTTCACCGCTTTAATAGTCTATATATTTATAATTTTTAAAAGA
TTAAATCAAATTCCGATCATTTATGGGGGGTTAAAGTGTAACTATTAGTAATTTAAAACTTTATA
AATTATAAAGGGCCTAAAAGAGAAATTTTTCATTTTATGGGCGCTAATATATATTTTAAAAGTAA
TTCATGATAAACTATTTGACCGAATTAAAAAAAGAAAAAAGAATAGACTTCGAGATTAAAAATCC
ATATTTTGAAAAGTAAGGAGATTAGAAATGATCAAATCATAGTAATGGGATTAAATATAAAAAAA
ACACATTATTCAAGGACACTACATAAAATTTAACCTATAATTTTTTTTTGATACAATTAGTAAAC
TACTTGTAACCCCCAAACTCTTAAATTAAAGGATATTACGCACTAAGTGCACAAGCCGGGCCGAG
TCAAGTCAATGCGTAATTTTAAAAAATTTCAAGCTTGAGCTTGAGCCCAACTTGACCTATCCGAA
AAGTTCATATTACAGTTTAAAAATTTTAAAAATATATATATAAACTTGATCAAATTTATGAATCA
AAAGTAAATAAAAATGATTAACAATCAGTACTAATAAATCCATACTTCAACAACAAATGTGATCA
ACCCAGACAATAAAAGCAAAAGAATCAAAAAAA
Found at i:2438192 original size:15 final size:15
Alignment explanation
Indices: 2438164--2438196 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
2438154 CTGAGAGGAT
2438164 AGCAGCAAAAGAAGC
1 AGCAGCAAAAGAAGC
2438179 AGCAG-AAAATGAAGC
1 AGCAGCAAAA-GAAGC
2438194 AGC
1 AGC
2438197 TAAATCCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.52, C:0.18, G:0.27, T:0.03
Consensus pattern (15 bp):
AGCAGCAAAAGAAGC
Found at i:2444775 original size:31 final size:31
Alignment explanation
Indices: 2444708--2444776 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
2444698 TGGACAAAAA
* * *
2444708 AAGTTCAAGCCCCAATGTAAGAACAATTGCC
1 AAGTTCAAGCCACAATATAAGAACAATTACC
* ** *
2444739 TAGTTCAAGCCACAATATGGGAACAATTATC
1 AAGTTCAAGCCACAATATAAGAACAATTACC
2444770 AAGTTCA
1 AAGTTCA
2444777 GGTCCCAATG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (31 bp):
AAGTTCAAGCCACAATATAAGAACAATTACC
Found at i:2449447 original size:87 final size:88
Alignment explanation
Indices: 2449253--2449509 Score: 310
Period size: 87 Copynumber: 3.0 Consensus size: 88
2449243 CGATCTTACA
* * * * *
2449253 ACGATTAGTAAGGAATTGATTCACTTTGTGTTGAGGCAGTTGAAATTACTTGGCACTATTTTTTT
1 ACGATTAGTAAGGAACTGATTCACTTTGTGTTTAAGTAGTTGAAATTACTTGGCACTATCTTTTT
*
2449318 TTCTAGATTCTTTTATGTTGCAT
66 CTCTAGATTCTTTTATGTTGCAT
* * * * *
2449341 ATGATTAGTAAGGAGCTGATTTACTTTGTGTTTAAGTAGTTGCAATTAGTCT-GCACT-TCTTTT
1 ACGATTAGTAAGGAACTGATTCACTTTGTGTTTAAGTAGTTGAAATTACT-TGGCACTATCTTTT
*
2449404 TCTCTAGATTTTTTTATGTTGCAT
65 TCTCTAGATTCTTTTATGTTGCAT
* * *
2449428 ACGATTAGTAAGGAACTGATTCACTTCT-TGTTTAAGTAGTTGAAGTTAC-TCG-A-TACCTTTT
1 ACGATTAGTAAGGAACTGATTCACTT-TGTGTTTAAGTAGTTGAAATTACTTGGCACTATCTTTT
*
2449489 TTTCTAGATTCTTTTATGTTG
65 TCTCTAGATTCTTTTATGTTG
2449510 AATAGGAATT
Statistics
Matches: 144, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
84 1 0.01
85 26 0.18
86 1 0.01
87 68 0.47
88 47 0.33
89 1 0.01
ACGTcount: A:0.23, C:0.12, G:0.18, T:0.46
Consensus pattern (88 bp):
ACGATTAGTAAGGAACTGATTCACTTTGTGTTTAAGTAGTTGAAATTACTTGGCACTATCTTTTT
CTCTAGATTCTTTTATGTTGCAT
Found at i:2452379 original size:27 final size:27
Alignment explanation
Indices: 2452349--2452403 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
2452339 AAAAAAAAAA
*
2452349 AAAAAAAATTTTTTCAAAAAAGGAATG
1 AAAAAAAATCTTTTCAAAAAAGGAATG
* *
2452376 AAAAAAAATCTTTTCAGACAAGGAATG
1 AAAAAAAATCTTTTCAAAAAAGGAATG
2452403 A
1 A
2452404 GGACTTGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.56, C:0.07, G:0.13, T:0.24
Consensus pattern (27 bp):
AAAAAAAATCTTTTCAAAAAAGGAATG
Found at i:2454931 original size:20 final size:21
Alignment explanation
Indices: 2454906--2454955 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
2454896 TTTAATTAAT
2454906 TTTTTA-AAATTAAAAAATAA
1 TTTTTATAAATTAAAAAATAA
** *
2454926 TTTTTATACTTTTAAAAATAA
1 TTTTTATAAATTAAAAAATAA
*
2454947 TTTTAATAA
1 TTTTTATAA
2454956 TTTTTATTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTTTATAAATTAAAAAATAA
Found at i:2454942 original size:21 final size:21
Alignment explanation
Indices: 2454918--2454959 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2454908 TTTAAAATTA
* *
2454918 AAAAATAATTTTTATACTTTT
1 AAAAATAATTTTAATAATTTT
2454939 AAAAATAATTTTAATAATTTT
1 AAAAATAATTTTAATAATTTT
2454960 TATTTGGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAAATAATTTTAATAATTTT
Found at i:2461637 original size:15 final size:15
Alignment explanation
Indices: 2461617--2461648 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2461607 TCTGAATATG
2461617 ATGTTGAGAGTGAAA
1 ATGTTGAGAGTGAAA
2461632 ATGTTGAGAGTGAAA
1 ATGTTGAGAGTGAAA
2461647 AT
1 AT
2461649 TAATCTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (15 bp):
ATGTTGAGAGTGAAA
Found at i:2473422 original size:21 final size:22
Alignment explanation
Indices: 2473401--2473445 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2473391 AATGTCCAAG
2473401 TTGAAAAG-TAAAATAAAAAAGT
1 TTGAAAAGCT-AAATAAAAAAGT
*
2473423 TTGAATAGCTAAAT-AAAAAGT
1 TTGAAAAGCTAAATAAAAAAGT
2473444 TT
1 TT
2473446 CAATCTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 11 0.52
23 1 0.05
ACGTcount: A:0.56, C:0.02, G:0.13, T:0.29
Consensus pattern (22 bp):
TTGAAAAGCTAAATAAAAAAGT
Found at i:2473905 original size:13 final size:13
Alignment explanation
Indices: 2473887--2473911 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2473877 GTTGGTAAAT
2473887 GGTAATTGGGTTG
1 GGTAATTGGGTTG
2473900 GGTAATTGGGTT
1 GGTAATTGGGTT
2473912 TATTAATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (13 bp):
GGTAATTGGGTTG
Found at i:2484689 original size:1 final size:1
Alignment explanation
Indices: 2484683--2484758 Score: 62
Period size: 1 Copynumber: 76.0 Consensus size: 1
2484673 GTTCAGATTC
* * * * ** * **
2484683 AAAAAAAAAAAACAAAAAAACAAAAAAACAAAAAAAGAAAAAAAACCAAAATAAAAAAAATCAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
2484748 AATAAAAAAAA
1 AAAAAAAAAAA
2484759 TCAATCAATC
Statistics
Matches: 58, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.87, C:0.08, G:0.01, T:0.04
Consensus pattern (1 bp):
A
Found at i:2484699 original size:8 final size:8
Alignment explanation
Indices: 2484683--2484758 Score: 77
Period size: 8 Copynumber: 9.5 Consensus size: 8
2484673 GTTCAGATTC
2484683 AAAAA-AA
1 AAAAACAA
2484690 AAAAACAA
1 AAAAACAA
2484698 AAAAACAA
1 AAAAACAA
2484706 AAAAACAA
1 AAAAACAA
*
2484714 AAAAAGAAA
1 AAAAA-CAA
2484723 AAAAACCAA
1 AAAAA-CAA
*
2484732 AATAA-AA
1 AAAAACAA
*
2484739 AAAATCAA
1 AAAAACAA
2484747 AAATAA-AA
1 AAA-AACAA
2484755 AAAA
1 AAAA
2484759 TCAATCAATC
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
7 11 0.19
8 33 0.57
9 14 0.24
ACGTcount: A:0.87, C:0.08, G:0.01, T:0.04
Consensus pattern (8 bp):
AAAAACAA
Found at i:2484762 original size:16 final size:15
Alignment explanation
Indices: 2484683--2484758 Score: 89
Period size: 16 Copynumber: 4.7 Consensus size: 15
2484673 GTTCAGATTC
2484683 AAAAAAAAAAAACAA
1 AAAAAAAAAAAACAA
2484698 AAAAACAAAAAAACAAA
1 AAAAA-AAAAAAAC-AA
2484715 AAAAGAAAAAAAACCAA
1 AAAA-AAAAAAAA-CAA
* *
2484732 AATAAAAAAAATCAA
1 AAAAAAAAAAAACAA
2484747 AAATAAAAAAAA
1 AAA-AAAAAAAA
2484759 TCAATCAATC
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
15 10 0.19
16 23 0.43
17 18 0.34
18 2 0.04
ACGTcount: A:0.87, C:0.08, G:0.01, T:0.04
Consensus pattern (15 bp):
AAAAAAAAAAAACAA
Found at i:2484799 original size:6 final size:6
Alignment explanation
Indices: 2484788--2484824 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
2484778 CAAAAATAGG
2484788 AGAAAA AGAAAAA AGAAAAA AGAAAA AGAAAA AGAAA
1 AGAAAA AG-AAAA AG-AAAA AGAAAA AGAAAA AGAAA
2484825 TGAGAGGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 17 0.57
7 13 0.43
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:2484802 original size:7 final size:7
Alignment explanation
Indices: 2484790--2484824 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
2484780 AAAATAGGAG
2484790 AAAAAGA
1 AAAAAGA
2484797 AAAAAGA
1 AAAAAGA
2484804 AAAAAG-
1 AAAAAGA
2484810 AAAAAG-
1 AAAAAGA
2484816 AAAAAGA
1 AAAAAGA
2484823 AA
1 AA
2484825 TGAGAGGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.44
7 15 0.56
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:2484806 original size:13 final size:13
Alignment explanation
Indices: 2484788--2484824 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
2484778 CAAAAATAGG
2484788 AGAAAAAGAAAAA
1 AGAAAAAGAAAAA
2484801 AGAAAAA-AGAAAA
1 AGAAAAAGA-AAAA
2484814 AGAAAAAGAAA
1 AGAAAAAGAAA
2484825 TGAGAGGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.05
13 20 0.91
14 1 0.05
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AGAAAAAGAAAAA
Found at i:2487335 original size:44 final size:43
Alignment explanation
Indices: 2487272--2487773 Score: 202
Period size: 44 Copynumber: 11.5 Consensus size: 43
2487262 CTAGTAATCC
* *
2487272 TATCTCCCTG-AGATTACAGTGGAACGGATTAAAATAAAGGATCT
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAAT-AAGGATCT
* * * **** *
2487316 TATCTCTCTGAAGTTACAGTAGAGTAGA-TCGTGTCA-GATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAGGATCT
* * * * *
2487357 TATCTCCCTG-AGATTACAGCGGAGCAAATTAAAGCT-AGTAATCC
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTAAA-ATAAG-GATCT
*
2487401 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAT-AAGGATCT
** * * * *** *
2487445 TATCTATCTGAAGTTACAATAGAGTAGA-TCGCATCAGG-TCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAGGATCT
* ** * *
2487486 TATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCA-GATTT
1 TATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AA--TAAGGATCT
* ** * *
2487532 TATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGCT-AGTAATCC
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATT-AAAATAAG-GATCT
* * *
2487576 TATCTCCCTGAAATTACAGTAGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAT-AAGGATCT
* * ** * *
2487620 TATCTCTCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCA-GATTT
1 TATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AA--TAAGGATCT
* ** * *
2487666 TATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGCT-AGTAATCC
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATT-AAAATAAG-GATCT
* * * * * *
2487710 TATCTACCTGAAATTATAGTGGAGCGGATTAAAGTAATAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAA-GGATCT
* *
2487754 TATCTCTCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTACAGT
2487774 AGAGTGGATC
Statistics
Matches: 326, Mismatches: 99, Indels: 66
0.66 0.20 0.13
Matches are distributed among these distances:
40 2 0.01
41 50 0.15
42 8 0.02
43 15 0.05
44 172 0.53
45 15 0.05
46 62 0.19
47 1 0.00
48 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (43 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAGGATCT
Found at i:2487489 original size:129 final size:129
Alignment explanation
Indices: 2487259--2487511 Score: 418
Period size: 129 Copynumber: 2.0 Consensus size: 129
2487249 NNNNAGATTG
*
2487259 AAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTC
1 AAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTATC
* **
2487324 TGAAGTTACAGTAGAGTAGATCGTGTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAAATTA
66 TGAAGTTACAATAGAGTAGATCGCATCAGATCTTATCTCCCTGAGATTACAGCGGAGCAAATTA
*
2487388 AAGCTAGTAATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTAT
1 AAGCTAGTAATCCTATCTCCCTGAGA-TTACAGTGGAACGGATTAAAATAAAGGATCTTATCTAT
* * *
2487452 CTGAAGTTACAATAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCA
65 CTGAAGTTACAATAGAGTAGATCGCATCAGATCTTATCTCCCTGAGATTACAGCGGAGCA
2487512 GACCGAAGAA
Statistics
Matches: 115, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
128 1 0.01
129 114 0.99
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (129 bp):
AAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTATC
TGAAGTTACAATAGAGTAGATCGCATCAGATCTTATCTCCCTGAGATTACAGCGGAGCAAATTA
Found at i:2487556 original size:46 final size:46
Alignment explanation
Indices: 2487478--2487693 Score: 192
Period size: 46 Copynumber: 4.8 Consensus size: 46
2487468 GTAGATCGCA
* *
2487478 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATT
* * ** * *
2487524 TCAGATTTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CTAG
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAAT-T
* * * * **
2487570 T-A-ATCCTATCTCCCTGAAATTACAGTAGAGCGGA-TTAA-AA-T
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATT
** * *
2487611 AAAGGATCTTATCTCTCTGAGGTTACAGTGGAGCAGACCGAAGAATT
1 TCA-GATCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATT
* *
2487658 TCAGATTTTATCTCCCTGAGATTACAGCGGAGCAGA
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGA
2487694 TTGAAGCTAG
Statistics
Matches: 130, Mismatches: 32, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
42 1 0.01
43 3 0.02
44 52 0.40
45 4 0.03
46 68 0.52
47 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (46 bp):
TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATT
Found at i:2487659 original size:134 final size:134
Alignment explanation
Indices: 2487483--2487773 Score: 503
Period size: 134 Copynumber: 2.2 Consensus size: 134
2487473 TCGCATCAGG
*
2487483 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGATTTTATCTCCCTGAGATTA
1 TCTTATCTCTCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGATTTTATCTCCCTGAGATTA
*
2487548 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAAATTACAGTAGAGCGGATTAAAATAA
66 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTACCTGAAATTACAGTAGAGCGGATTAAAATAA
2487613 -AGGA
131 TA-GA
2487617 TCTTATCTCTCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGATTTTATCTCCCTGAGATTA
1 TCTTATCTCTCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGATTTTATCTCCCTGAGATTA
* * *
2487682 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTACCTGAAATTATAGTGGAGCGGATTAAAGTAA
66 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTACCTGAAATTACAGTAGAGCGGATTAAAATAA
2487747 TAGA
131 TAGA
* *
2487751 TCTTATCTCTCTGAAGTTGCAGT
1 TCTTATCTCTCTGAGGTTACAGT
2487774 AGAGTGGATC
Statistics
Matches: 149, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
134 148 0.99
135 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (134 bp):
TCTTATCTCTCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGATTTTATCTCCCTGAGATTA
CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTACCTGAAATTACAGTAGAGCGGATTAAAATAA
TAGA
Found at i:2487808 original size:309 final size:304
Alignment explanation
Indices: 2487253--2487815 Score: 867
Period size: 309 Copynumber: 1.8 Consensus size: 304
2487243 NNNNNNNNNN
* *
2487253 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTTA
1 AGATTGAAGCTAGTAATCCTATCTCCCTGAAATTACAGTAGAACGGATTAAAATAAAGGATCTTA
* *
2487318 TCTCTCTGAAGTTACAGTAGAGTAGATCGTGTCAGATCTTATCTCCCTGAGATTACAGCGGAGCA
66 TCTCTCTGAAGTTACAGTAGAGCAGACCGTGTCAGATCTTATCTCCCTGAGATTACAGCGGAGCA
* *
2487383 AATTAAAGCTAGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTAT
131 AATTAAAGCTAGTAATCCTATCTACCTGAAATTACAGTGGAGCGGATTAAAATAAAGGATCTTAT
* *
2487448 CTATCTGAAGTTACAATAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAG
196 CTATCTGAAGTTACAATAGAGTAGATCGCATCAAGTCTTATCTCACTGAGGTTACAGTGGAGCAG
2487513 ACCGAAGAATTTCAGATTTTATCTCCCTGAGATTACAGCGGAGC
261 ACCGAAGAATTTCAGATTTTATCTCCCTGAGATTACAGCGGAGC
*
2487557 AGATTGAAGCTAGTAATCCTATCTCCCTGAAATTACAGTAGAGCGGATTAAAATAAAGGATCTTA
1 AGATTGAAGCTAGTAATCCTATCTCCCTGAAATTACAGTAGAACGGATTAAAATAAAGGATCTTA
* * * *
2487622 TCTCTCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGATTTTATCTCCCTGAGATTACAGCG
66 TCTCTCTGAAGTTACAGTAGAGCAGACC---G--TGTCAGATCTTATCTCCCTGAGATTACAGCG
* * * *
2487687 GAGCAGATTGAAGCTAGTAATCCTATCTACCTGAAATTATAGTGGAGCGGATTAAAGTAATA-GA
126 GAGCAAATTAAAGCTAGTAATCCTATCTACCTGAAATTACAGTGGAGCGGATTAAAATAA-AGGA
* * * * *
2487751 TCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAAGTCTTATCTCACTGAGGTTGCAGTG
190 TCTTATCTATCTGAAGTTACAATAGAGTAGATCGCATCAAGTCTTATCTCACTGAGGTTACAGTG
2487816 TAGTATACTG
Statistics
Matches: 231, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
304 86 0.37
307 1 0.00
309 143 0.62
310 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (304 bp):
AGATTGAAGCTAGTAATCCTATCTCCCTGAAATTACAGTAGAACGGATTAAAATAAAGGATCTTA
TCTCTCTGAAGTTACAGTAGAGCAGACCGTGTCAGATCTTATCTCCCTGAGATTACAGCGGAGCA
AATTAAAGCTAGTAATCCTATCTACCTGAAATTACAGTGGAGCGGATTAAAATAAAGGATCTTAT
CTATCTGAAGTTACAATAGAGTAGATCGCATCAAGTCTTATCTCACTGAGGTTACAGTGGAGCAG
ACCGAAGAATTTCAGATTTTATCTCCCTGAGATTACAGCGGAGC
Found at i:2488479 original size:13 final size:13
Alignment explanation
Indices: 2488461--2488485 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2488451 CGCAACAGTG
2488461 AAGAAATAGAAAA
1 AAGAAATAGAAAA
2488474 AAGAAATAGAAA
1 AAGAAATAGAAA
2488486 CAAGTTGTAA
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (13 bp):
AAGAAATAGAAAA
Found at i:2489369 original size:3 final size:3
Alignment explanation
Indices: 2489354--2489405 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
2489344 ATAGTGCATC
* * * *
2489354 ATT ATT A-T CTT ATT ATT ATT ATT ATT ATC GTT ATT ATT ATT ATC A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2489400 ATT ATT
1 ATT ATT
2489406 GTTTATACTT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:2489374 original size:6 final size:6
Alignment explanation
Indices: 2489306--2489405 Score: 55
Period size: 6 Copynumber: 16.8 Consensus size: 6
2489296 TAGGTTTTCT
* * * * * *
2489306 TTATTT TTATTAA TTATT- TTAATA TTATTA ATACTA TTA-TA GTGCATCA
1 TTATTA TTATT-A TTATTA TTATTA TTATTA TTATTA TTATTA -T-TATTA
* ** *
2489355 TTATTA -TCTTA TTATTA TTATTA TTATCG TTATTA TTATTA TCA-TA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
2489401 TTATT
1 TTATT
2489406 GTTTATACTT
Statistics
Matches: 69, Mismatches: 18, Indels: 14
0.68 0.18 0.14
Matches are distributed among these distances:
5 14 0.20
6 47 0.68
7 7 0.10
8 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (6 bp):
TTATTA
Found at i:2489377 original size:9 final size:9
Alignment explanation
Indices: 2489306--2489405 Score: 55
Period size: 9 Copynumber: 11.2 Consensus size: 9
2489296 TAGGTTTTCT
*
2489306 TTATTTTTA
1 TTATTATTA
2489315 TTAATTATT-
1 TT-ATTATTA
*
2489324 TTAATATTA
1 TTATTATTA
* *
2489333 TTAATACTA
1 TTATTATTA
*
2489342 TTA-TAGTGCA
1 TTATTA-T-TA
*
2489352 TCATTATTA
1 TTATTATTA
*
2489361 -TCTTATTA
1 TTATTATTA
2489369 TTATTATTA
1 TTATTATTA
**
2489378 TTATCGTTA
1 TTATTATTA
2489387 TTATTATTA
1 TTATTATTA
*
2489396 TCA-TATTA
1 TTATTATTA
2489404 TT
1 TT
2489406 GTTTATACTT
Statistics
Matches: 69, Mismatches: 16, Indels: 13
0.70 0.16 0.13
Matches are distributed among these distances:
8 19 0.28
9 39 0.57
10 9 0.13
11 2 0.03
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (9 bp):
TTATTATTA
Found at i:2489548 original size:25 final size:23
Alignment explanation
Indices: 2489501--2489546 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
2489491 ATACATTTGA
*
2489501 TTTTATAATATATATATGCATAT
1 TTTTATAATATATATATACATAT
* *
2489524 TTTTATAATCTATATATATATAT
1 TTTTATAATATATATATACATAT
2489547 ATATATACGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54
Consensus pattern (23 bp):
TTTTATAATATATATATACATAT
Found at i:2490156 original size:109 final size:108
Alignment explanation
Indices: 2489953--2490168 Score: 371
Period size: 109 Copynumber: 2.0 Consensus size: 108
2489943 AGGGAAAATA
*
2489953 TTTCAAAATAAGACAATATTTTGCGTTTGGAAATTTGAGGAACGTGCCCTAAGGTACTGGGTTTC
1 TTTCAAAATAAGACAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTC
2490018 GATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACT
66 GATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACT
* *
2490061 TTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
1 TTTC-AAAATAAGACAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
*
2490126 CGATTTCTCGTTCGACCAAAT-GACTTAATATCCTTTTAAAAAC
65 CGATTTCTCGTTCGACCAAATAG-CTAAATATCCTTTTAAAAAC
2490169 NNNNCTTCAT
Statistics
Matches: 102, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
108 5 0.05
109 97 0.95
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (108 bp):
TTTCAAAATAAGACAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTC
GATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACT
Found at i:2490847 original size:29 final size:29
Alignment explanation
Indices: 2490806--2490861 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
2490796 CGCGGAAAAT
2490806 GGCCCATTCCGGTAAATAATT-AAAAAACC
1 GGCCCATTCCGGTAAAT-ATTGAAAAAACC
* *
2490835 GGCCTATTTCGGTAAATATTGAAAAAA
1 GGCCCATTCCGGTAAATATTGAAAAAA
2490862 AAATGGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (29 bp):
GGCCCATTCCGGTAAATATTGAAAAAACC
Found at i:2492477 original size:500 final size:501
Alignment explanation
Indices: 2491525--2492525 Score: 1995
Period size: 500 Copynumber: 2.0 Consensus size: 501
2491515 ATATACGGAA
2491525 TTTTAATTTTGGTTTAATTATATATATTTAAAGAAATTAATACATATATTTTTATATTGTATTAA
1 TTTTAATTTTGGTTTAATTATATATATTTAAAGAAATTAATACATATATTTTTATATTGTATTAA
2491590 TATAGTTATTTGTGTATATAATATATCATCGTAAAATGATACATATTCAATTGATGGATAGTATT
66 TATAGTTATTTGTGTATATAATATATCATCGTAAAATGATACATATTCAATTGATGGATAGTATT
2491655 ATTAGTGATCTACGAAAGTTAAATAAAATTAAAATATAGGATGATTCATGTGTAAACACTTGTCC
131 ATTAGTGATCTACGAAAGTTAAATAAAATTAAAATATAGGATGATTCATGTGTAAACACTTGTCC
2491720 TTAAGAAATATAAATTTAATTAAATACTTGCAATATAATTTATTTTTTAAGTGTTTTAAAAATTA
196 TTAAGAAATATAAATTTAATTAAATACTTGCAATATAATTTATTTTTTAAGTGTTTTAAAAATTA
2491785 TTTTATAAAACAGCCATCTTATAACCACAAAGGAAGAATGATATGAATTGTTTTGGGTGTTCGAC
261 TTTTATAAAACAGCCATCTTATAACCACAAAGGAAGAATGATATGAATTGTTTTGGGTGTTCGAC
2491850 TTCGGATTAATCTCAAATTCACATCTATATCTAGACTCATTTGCATATGTTGAAGTTATTGATTT
326 TTCGGATTAATCTCAAATTCACATCTATATCTAGACTCATTTGCATATGTTGAAGTTATTGATTT
2491915 TTTACAAATTTTATCGAATCAAAATTTCAAACATTTCTCTATTTTGGCCATAAAAAATTGTGGTA
391 TTTACAAATTTTATCGAATCAAAATTTCAAACATTTCTCTATTTTGGCCATAAAAAATTGTGGTA
2491980 TGTAGTAAAAAAAAATCGATACCGTAATCGGGCCAAATATTAAAAT
456 TGTAGTAAAAAAAAATCGATACCGTAATCGGGCCAAATATTAAAAT
2492026 TTTTAATTTT-GTTTAATTATATATATTTAAAGAAATTAATACATATATTTTTATATTGTATTAA
1 TTTTAATTTTGGTTTAATTATATATATTTAAAGAAATTAATACATATATTTTTATATTGTATTAA
2492090 TATAGTTATTTGTGTATATAATATATCATCGTAAAATGATACATATTCAATTGATGGATAGTATT
66 TATAGTTATTTGTGTATATAATATATCATCGTAAAATGATACATATTCAATTGATGGATAGTATT
2492155 ATTAGTGATCTACGAAAGTTAAATAAAATTAAAATATAGGATGATTCATGTGTAAACACTTGTCC
131 ATTAGTGATCTACGAAAGTTAAATAAAATTAAAATATAGGATGATTCATGTGTAAACACTTGTCC
2492220 TTAAGAAATATAAATTTAATTAAATACTTGCAATATAATTTATTTTTTAAGTGTTTTAAAAATTA
196 TTAAGAAATATAAATTTAATTAAATACTTGCAATATAATTTATTTTTTAAGTGTTTTAAAAATTA
2492285 TTTTATAAAACAGCCATCTTATAACCACAAAGGAAGAATGATATGAATTGTTTTGGGTGTTCGAC
261 TTTTATAAAACAGCCATCTTATAACCACAAAGGAAGAATGATATGAATTGTTTTGGGTGTTCGAC
2492350 TTCGGATTAATCTCAAATTCACATCTATATCTAGACTCATTTGCATATGTTGAAGTTATTGATTT
326 TTCGGATTAATCTCAAATTCACATCTATATCTAGACTCATTTGCATATGTTGAAGTTATTGATTT
2492415 TTTACAAATTTTATCGAATCAAAATTTCAAACATTTCTCTATTTTGGCCATAAAAAATTGTGGTA
391 TTTACAAATTTTATCGAATCAAAATTTCAAACATTTCTCTATTTTGGCCATAAAAAATTGTGGTA
2492480 TGTAGTAAAAAAAAATCGATACCGTAATCGGGCCAAATATTAAAAT
456 TGTAGTAAAAAAAAATCGATACCGTAATCGGGCCAAATATTAAAAT
2492526 ATAATTATGT
Statistics
Matches: 500, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
500 490 0.98
501 10 0.02
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.40
Consensus pattern (501 bp):
TTTTAATTTTGGTTTAATTATATATATTTAAAGAAATTAATACATATATTTTTATATTGTATTAA
TATAGTTATTTGTGTATATAATATATCATCGTAAAATGATACATATTCAATTGATGGATAGTATT
ATTAGTGATCTACGAAAGTTAAATAAAATTAAAATATAGGATGATTCATGTGTAAACACTTGTCC
TTAAGAAATATAAATTTAATTAAATACTTGCAATATAATTTATTTTTTAAGTGTTTTAAAAATTA
TTTTATAAAACAGCCATCTTATAACCACAAAGGAAGAATGATATGAATTGTTTTGGGTGTTCGAC
TTCGGATTAATCTCAAATTCACATCTATATCTAGACTCATTTGCATATGTTGAAGTTATTGATTT
TTTACAAATTTTATCGAATCAAAATTTCAAACATTTCTCTATTTTGGCCATAAAAAATTGTGGTA
TGTAGTAAAAAAAAATCGATACCGTAATCGGGCCAAATATTAAAAT
Found at i:2497493 original size:30 final size:28
Alignment explanation
Indices: 2497441--2497496 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
2497431 GATTTTAGTT
* *
2497441 AAATAAATTATTAAAAACTTATAAAATA
1 AAATAAAATATTAAAAAATTATAAAATA
2497469 AAATAAACATATTGAAAAAATTATAAAA
1 AAATAAA-ATATT-AAAAAATTATAAAA
2497497 CCGGTCCAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 4 0.17
30 13 0.54
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (28 bp):
AAATAAAATATTAAAAAATTATAAAATA
Found at i:2499823 original size:59 final size:59
Alignment explanation
Indices: 2499758--2499915 Score: 201
Period size: 63 Copynumber: 2.6 Consensus size: 59
2499748 ATAAATTTAC
2499758 TCCGACTTCGAATACAAGTTCTTCCATGGAACTTTTTTAACAGATGGGGTAAAGTATAA
1 TCCGACTTCGAATACAAGTTCTTCCATGGAACTTTTTTAACAGATGGGGTAAAGTATAA
* * * * ** *
2499817 TCCGACTTCGAATAAAAAATTAATT-TATTTGTCTATTTTTTTAACAGATGGGGTAAAGTATAA
1 TCCGACTTCGAAT-ACAAGTT-CTTCCA--TG-GAACTTTTTTAACAGATGGGGTAAAGTATAA
2499880 TCCGACTTCGAATACAAGTTCTTCCATGGAACTTTT
1 TCCGACTTCGAATACAAGTTCTTCCATGGAACTTTT
2499916 GCCTTTTATT
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
59 18 0.23
60 8 0.10
61 4 0.05
62 8 0.10
63 41 0.52
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (59 bp):
TCCGACTTCGAATACAAGTTCTTCCATGGAACTTTTTTAACAGATGGGGTAAAGTATAA
Found at i:2507695 original size:3 final size:3
Alignment explanation
Indices: 2507687--2507735 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
2507677 TTAATTTTAT
2507687 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2507735 T
1 T
2507736 CATCTAAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2508954 original size:109 final size:109
Alignment explanation
Indices: 2508831--2509169 Score: 678
Period size: 109 Copynumber: 3.1 Consensus size: 109
2508821 AATTTATATA
2508831 ATAGTAATATCAGAATAATTAAAACATTTACGAACAAGTATTATTATATTAATAAATTAAATTAT
1 ATAGTAATATCAGAATAATTAAAACATTTACGAACAAGTATTATTATATTAATAAATTAAATTAT
2508896 TAAATTATTAATTATTAATTATACAGAAAATAATAAAATTAAAG
66 TAAATTATTAATTATTAATTATACAGAAAATAATAAAATTAAAG
2508940 ATAGTAATATCAGAATAATTAAAACATTTACGAACAAGTATTATTATATTAATAAATTAAATTAT
1 ATAGTAATATCAGAATAATTAAAACATTTACGAACAAGTATTATTATATTAATAAATTAAATTAT
2509005 TAAATTATTAATTATTAATTATACAGAAAATAATAAAATTAAAG
66 TAAATTATTAATTATTAATTATACAGAAAATAATAAAATTAAAG
2509049 ATAGTAATATCAGAATAATTAAAACATTTACGAACAAGTATTATTATATTAATAAATTAAATTAT
1 ATAGTAATATCAGAATAATTAAAACATTTACGAACAAGTATTATTATATTAATAAATTAAATTAT
2509114 TAAATTATTAATTATTAATTATACAGAAAATAATAAAATTAAAG
66 TAAATTATTAATTATTAATTATACAGAAAATAATAAAATTAAAG
2509158 ATAGTAATATCA
1 ATAGTAATATCA
2509170 TAAGTACCAA
Statistics
Matches: 230, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 230 1.00
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.37
Consensus pattern (109 bp):
ATAGTAATATCAGAATAATTAAAACATTTACGAACAAGTATTATTATATTAATAAATTAAATTAT
TAAATTATTAATTATTAATTATACAGAAAATAATAAAATTAAAG
Found at i:2510749 original size:31 final size:31
Alignment explanation
Indices: 2510714--2510790 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
2510704 ACTTTTAGGG
* *
2510714 TTAATATACT-ATTTGGTACTTGAGTTTGGTT
1 TTAATAT-CTAATTTGATACCTGAGTTTGGTT
* *
2510745 TTAATATTTAATTTGATACCTGAGTTTTGTT
1 TTAATATCTAATTTGATACCTGAGTTTGGTT
* *
2510776 TTAATGTTTAATTTG
1 TTAATATCTAATTTG
2510791 GCACTTATGG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 1 0.03
31 39 0.98
ACGTcount: A:0.25, C:0.05, G:0.16, T:0.55
Consensus pattern (31 bp):
TTAATATCTAATTTGATACCTGAGTTTGGTT
Found at i:2516336 original size:31 final size:31
Alignment explanation
Indices: 2516301--2516377 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
2516291 ACTTTTAGGG
*
2516301 TTAATATACT-ATTTGGTACCTAAGTTTGGTT
1 TTAATAT-CTAATTTGATACCTAAGTTTGGTT
* * *
2516332 TTAATATTTAATTTGATACCTGAGTTTTGTT
1 TTAATATCTAATTTGATACCTAAGTTTGGTT
* *
2516363 TTAATGTTTAATTTG
1 TTAATATCTAATTTG
2516378 GCACTTATGG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 1 0.03
31 39 0.98
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.53
Consensus pattern (31 bp):
TTAATATCTAATTTGATACCTAAGTTTGGTT
Found at i:2520167 original size:25 final size:26
Alignment explanation
Indices: 2520095--2520155 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
2520085 AGTTTTGAGT
*
2520095 TAGAG-TTTATGATTT-AGGATTTATA
1 TAGAGCTTTA-GATTTAATGATTTATA
* *
2520120 TTGAGTTTTAGATTTAATG-TTTATA
1 TAGAGCTTTAGATTTAATGATTTATA
2520145 TAGAGCTTTAG
1 TAGAGCTTTAG
2520156 GTTTCAGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
25 24 0.80
26 6 0.20
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.49
Consensus pattern (26 bp):
TAGAGCTTTAGATTTAATGATTTATA
Found at i:2520715 original size:175 final size:175
Alignment explanation
Indices: 2520417--2521130 Score: 946
Period size: 175 Copynumber: 4.1 Consensus size: 175
2520407 CGAACATCGT
* * * * *
2520417 CAACCACCAAGTGGGCAGGAAAAAAATTCCTAACATAGTAAGAAGCAAACATTATAATATAACGA
1 CAACCACCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
* * * * *
2520482 GCCATTGAAA-AATTAATCAATTTCACCACGTTTTCATAAAACATGCTCTGTCAATAAAATGTCG
66 ACCACT-AAATAATTAATCAATTTCACCACATCTTCATAAAACATTCTCTGTCAATAAAATGTCG
*
2520546 GCATACCAATCACTTCACGAACAAATGTTCAAAAAGAAAACGTCAC
130 GCATACCAATCACTTCACGAACAAATGTTCAAAAAGAAAACGTCGC
* * * *
2520592 CAATCGCCAAGTGGGTAGGAAACAAATTCCTAACATAGTAAAAACCAAACATGATAATATGACAA
1 CAACCACCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
* * * * *
2520657 ACCACTAAATAATTAATCAATTTCACCACGTCTTCATAAAACATTCTCTGTTAATAAAATATAGA
66 ACCACTAAATAATTAATCAATTTCACCACATCTTCATAAAACATTCTCTGTCAATAAAATGTCGG
** * *
2520722 CATACCAATCACTTTGCGAACAGATGTTCAAAAAGAAAACTTCGC
131 CATACCAATCACTTCACGAACAAATGTTCAAAAAGAAAACGTCGC
* * *
2520767 CAACCACCAAGAGGGCAGTAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAG
1 CAACCACCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
* * *
2520832 ACCACTGAATAATTAATCAGTTTCACCACATCTTCATAAAACTTTCTCTGTCAATAAAATGTCGG
66 ACCACTAAATAATTAATCAATTTCACCACATCTTCATAAAACATTCTCTGTCAATAAAATGTCGG
** *
2520897 CATACCAATCGTTTCGA-GGACAAATGTTCAAAAAGAAAACGTCGC
131 CATACCAATCACTTC-ACGAACAAATGTTCAAAAAGAAAACGTCGC
* * *
2520942 CAACCACCAAGTGGGTAAGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATACGACAA
1 CAACCACCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
* * *
2521007 ACCACTAAATAATTAATCAACTTCACCACATCTCCATAAAACATTCTCTATCAATAAAATGTCGG
66 ACCACTAAATAATTAATCAATTTCACCACATCTTCATAAAACATTCTCTGTCAATAAAATGTCGG
* * *** ** * * * *
2521072 TAAACCAATTGTTTCGTGAACAAACGTTGAAAAAGAAAACATCGT
131 CATACCAATCACTTCACGAACAAATGTTCAAAAAGAAAACGTCGC
2521117 CAACCACCAAGTGG
1 CAACCACCAAGTGG
2521131 TAGCTAACCG
Statistics
Matches: 471, Mismatches: 65, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
174 3 0.01
175 468 0.99
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (175 bp):
CAACCACCAAGTGGGCAGGAAACAAATTCCTAACATAGTAAAAAGCAAACATGATAATATGACAA
ACCACTAAATAATTAATCAATTTCACCACATCTTCATAAAACATTCTCTGTCAATAAAATGTCGG
CATACCAATCACTTCACGAACAAATGTTCAAAAAGAAAACGTCGC
Found at i:2523705 original size:18 final size:18
Alignment explanation
Indices: 2523682--2523717 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2523672 GTGTTTCCTA
2523682 ACCCTTATATGTACCCTT
1 ACCCTTATATGTACCCTT
*
2523700 ACCCTTATATGTATCCTT
1 ACCCTTATATGTACCCTT
2523718 TTTCGAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.31, G:0.06, T:0.42
Consensus pattern (18 bp):
ACCCTTATATGTACCCTT
Found at i:2525196 original size:46 final size:46
Alignment explanation
Indices: 2525127--2525357 Score: 372
Period size: 46 Copynumber: 5.0 Consensus size: 46
2525117 CATGGCAAAG
*
2525127 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCCGTGAAGAAAACCATACTGAGT
* * *
2525173 TATGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACTATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCCGTGAAGAAAACCATACTGAGT
* *
2525219 TGTGAAAAGTAGATATGGTATTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCCGTGAAGAAAACCATACTGAGT
* * *
2525265 TGTTAAAAGTAGGTATGGTGTTTCGGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCCGTGAAGAAAACCATACTGAGT
*
2525311 TGTGAAAAGTAGGTATGGTTTTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCCGTGAAGAAAACCATACTGAGT
2525357 T
1 T
2525358 ATAGCAATGT
Statistics
Matches: 168, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 168 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTGTTTCCGTGAAGAAAACCATACTGAGT
Found at i:2526466 original size:125 final size:125
Alignment explanation
Indices: 2526248--2526637 Score: 636
Period size: 125 Copynumber: 3.1 Consensus size: 125
2526238 TTCTGCAAGT
2526248 GATTTTATACTATTTGGTCAGAAAAGTCAAAAAAAAATTATTTCTTACATGACCTACTATAGCAA
1 GATTTTATACTATTTGGTCAGAAAAGTCAAAAAAAAATTATTTCTTACATGACCTACTATAGCAA
* * *
2526313 AAATGCGCCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAGT
66 AAACGCGCCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAAAAGC
2526373 GATTTTATACTATTTGGTCAGAAAAGTCAAAAAAAAATTATTTCTTACATGACCTACTATAGCAA
1 GATTTTATACTATTTGGTCAGAAAAGTCAAAAAAAAATTATTTCTTACATGACCTACTATAGCAA
* *
2526438 AAACGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGTTAAAAGC
66 AAACGCGCCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAAAAGC
* * * * *
2526498 AATTTTATACTATTTGCTCAGAAAAGTCAAAAAAAAAATATTTCTTACATGACATACTGTAGCAA
1 GATTTTATACTATTTGGTCAGAAAAGTCAAAAAAAAATTATTTCTTACATGACCTACTATAGCAA
* * * * * *
2526563 AAGCGCGCCCACGAGGTCGCAATTTCATAAATTCTTTTCAAAAAGCATCCTGCTAAAAGC
66 AAACGCGCCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAAAAGC
2526623 GATTTTATACTATTT
1 GATTTTATACTATTT
2526638 TATCAAAAAC
Statistics
Matches: 246, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 246 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (125 bp):
GATTTTATACTATTTGGTCAGAAAAGTCAAAAAAAAATTATTTCTTACATGACCTACTATAGCAA
AAACGCGCCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAAAAGC
Found at i:2537022 original size:2 final size:2
Alignment explanation
Indices: 2537017--2537042 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2537007 TCTCACACAC
2537017 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2537043 TCGATTAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2540519 original size:231 final size:230
Alignment explanation
Indices: 2540085--2540526 Score: 529
Period size: 230 Copynumber: 1.9 Consensus size: 230
2540075 TGATTCCGTA
* * *
2540085 ATCTAAAATCAGCAGCACAACCAAATAAATTACTCAAAGTTCAATTCTATAGAATAATTATAAAT
1 ATCTAAAATCAGCAGCACAACCAAACAAATTACTCAAAGTTCAATTCTATAAAATAATCATAAAT
** * * * * *
2540150 CATTGAATGAATAGGTAGGTCAATATCCTAAATTCATATTAAATTTTCAAAAATTCTTGACCTGT
66 CAAGGAATGAATAGGAAGATCAATATCCTAAATTCATATTAAATTTTAAAAAATTCCTGACCTGA
* * * *
2540215 AAATTTTCTTTTCATAAAACTAAGAGTAATTAAAGCAACTCAATCTTCTAACTTAATTCTGGATC
131 AAATTTTCATTTCATAAAACTAAGAGTAATTAAAGCAACTCAACCTTCTAACTTAATACTAGATC
2540280 AAGAAATTCTAAAAGCTGATAGAATCGATTCTATG
196 AAGAAATTCTAAAAGCTGATAGAATCGATTCTATG
* * *
2540315 ATCTAAAATCAG-TGACACAACCAAACAAATTAGTCAATGTTCAATT-TCATAAAATAATCATAA
1 ATCTAAAATCAGCAG-CACAACCAAACAAATTACTCAAAGTTCAATTCT-ATAAAATAATCATAA
* * *
2540378 ATCAAGGAAT-TA-AGGAAGATCAATATCTTAAATTCATATTCAAA-TTTAAAAAACTTCCTGAT
64 ATCAAGGAATGAATAGGAAGATCAATATCCTAAATTCATATT-AAATTTTAAAAAA-TTCCTGAC
* * * *
2540440 CTGGAACGAATTTT-ATTTCATAAAACTAAGAGTAGTTAAAGCTAC-CGGACCTTCTAACTTTAT
127 CT-GAA--AATTTTCATTTCATAAAACTAAGAGTAATTAAAGCAACTC-AACCTTCTAACTTAAT
**
2540503 ACTAGATCCGGAAATTCTAAAAGC
188 ACTAGATCAAGAAATTCTAAAAGC
2540527 CGAACAGTAT
Statistics
Matches: 178, Mismatches: 26, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
228 33 0.19
229 14 0.08
230 64 0.36
231 61 0.34
232 6 0.03
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.31
Consensus pattern (230 bp):
ATCTAAAATCAGCAGCACAACCAAACAAATTACTCAAAGTTCAATTCTATAAAATAATCATAAAT
CAAGGAATGAATAGGAAGATCAATATCCTAAATTCATATTAAATTTTAAAAAATTCCTGACCTGA
AAATTTTCATTTCATAAAACTAAGAGTAATTAAAGCAACTCAACCTTCTAACTTAATACTAGATC
AAGAAATTCTAAAAGCTGATAGAATCGATTCTATG
Found at i:2540783 original size:114 final size:112
Alignment explanation
Indices: 2540556--2540926 Score: 337
Period size: 112 Copynumber: 3.3 Consensus size: 112
2540546 ATTTGCTTTG
* * * * **
2540556 AAATAAATTCAAATTTATCAGCAAAGAAACACTAATACAAATCAAAATAAAAAAAATGAC-AT-T
1 AAATCAATTCAAATTAATCAGCAAAGAAATACTAACACAAATCAAAATTTAAAAAA-GACAATAT
* * *
2540619 GATGAACTTTAAAATGAA-AAGCGAGATCAAGAAGGACACAA-TGAACTAA
65 GATGAACTTTGAAATGAATAA-CGAGATCTAG-AGGAGA-AATTGAACTAA
* *
2540668 AAATCAATTCAAATTAATCACCAAAGAAATACTAACACAAATCAAACTTTAAAAAAGACAATAAT
1 AAATCAATTCAAATTAATCAGCAAAGAAATACTAACACAAATCAAAATTTAAAAAAGACAAT-AT
*
2540733 GGTGAACTTTGAAATGAATAACGAGATCTAGAGTGAGAAATTGAACT--
65 GATGAACTTTGAAATGAATAACGAGATCTAGAG-GAGAAATTGAACTAA
* * * ** *
2540780 AAA--AATTCAAATTTATCAGCAAAGAAATACAAACACAAATCAATTTTTATTTTTTAAGGAGGA
1 AAATCAATTCAAATTAATCAGCAAAGAAATACTAACACAAATCAA-----A--ATTTAAAAAAGA
* * * *
2540843 -AATATTGACGAACTTTGAAATGAATAGCAAGATCTAGAGCGAGAATTTGAACTAA
59 CAATA-TGATGAACTTTGAAATGAATAACGAGATCTAGAG-GAGAAATTGAACTAA
*
2540898 AAATCAATTCAAATTAATCAGAAAAGAAA
1 AAATCAATTCAAATTAATCAGCAAAGAAA
2540927 CACCAATAAA
Statistics
Matches: 214, Mismatches: 27, Indels: 28
0.80 0.10 0.10
Matches are distributed among these distances:
110 37 0.17
111 3 0.01
112 53 0.25
113 4 0.02
114 35 0.16
115 4 0.02
116 45 0.21
117 8 0.04
118 3 0.01
120 22 0.10
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.23
Consensus pattern (112 bp):
AAATCAATTCAAATTAATCAGCAAAGAAATACTAACACAAATCAAAATTTAAAAAAGACAATATG
ATGAACTTTGAAATGAATAACGAGATCTAGAGGAGAAATTGAACTAA
Done.