Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 132 of 144
Found at i:40998257 original size:28 final size:28
Alignment explanation
Indices: 40998215--40998272 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
40998205 ACACCATTTC
*
40998215 TTCTATGAGACACTAGACTCAATAAGCT
1 TTCTATGAGAAACTAGACTCAATAAGCT
40998243 TTCTATGAGAAACTAGACTCAATAAGCT
1 TTCTATGAGAAACTAGACTCAATAAGCT
40998271 TT
1 TT
40998273 AATTTCATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (28 bp):
TTCTATGAGAAACTAGACTCAATAAGCT
Found at i:41008995 original size:26 final size:26
Alignment explanation
Indices: 41008948--41008997 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
41008938 AATCTTTGTA
* *
41008948 TAATAAATTAACATGTGTAAATCACT
1 TAATAAATTAACATCTGAAAATCACT
41008974 TAATAAATTAACATCCT-AAAATCA
1 TAATAAATTAACAT-CTGAAAATCA
41008998 TTATCAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.50, C:0.14, G:0.04, T:0.32
Consensus pattern (26 bp):
TAATAAATTAACATCTGAAAATCACT
Found at i:41011657 original size:6 final size:6
Alignment explanation
Indices: 41011626--41011681 Score: 71
Period size: 6 Copynumber: 9.2 Consensus size: 6
41011616 GTTACTTTTT
41011626 TAATTAA TAATTA TAA--A TGAACTTA TAATTA TAATTA TAATTA TAATTA
1 TAATT-A TAATTA TAATTA T-AA-TTA TAATTA TAATTA TAATTA TAATTA
41011675 TAATTA T
1 TAATTA T
41011682 CACAACTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
4 2 0.04
5 2 0.04
6 32 0.71
7 7 0.16
8 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (6 bp):
TAATTA
Found at i:41012678 original size:21 final size:20
Alignment explanation
Indices: 41012633--41012680 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
41012623 ATAAATAATT
*
41012633 TAAAAATTATCAAAAATTTA
1 TAAAAATTATCAAAAATTCA
*
41012653 AAAAATATTAT-AAAAACTTCA
1 TAAAA-ATTATCAAAAA-TTCA
41012674 TAAAAAT
1 TAAAAAT
41012681 AGAATGAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAAAATTATCAAAAATTCA
Found at i:41015101 original size:12 final size:13
Alignment explanation
Indices: 41015070--41015101 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
41015060 TAGTTTATTA
41015070 ATATTTTAAATTG
1 ATATTTTAAATTG
41015083 ATA-TTTAAA-TG
1 ATATTTTAAATTG
41015094 ATATTTTA
1 ATATTTTA
41015102 TTATTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 10 0.56
13 3 0.17
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (13 bp):
ATATTTTAAATTG
Found at i:41023332 original size:19 final size:18
Alignment explanation
Indices: 41023308--41023353 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
41023298 ATATATAATC
41023308 ATTAAAAATAAATAAAAA
1 ATTAAAAATAAATAAAAA
*
41023326 TATTAAAAAT-CATAAAAA
1 -ATTAAAAATAAATAAAAA
*
41023344 ATAAAAAATA
1 ATTAAAAATA
41023354 TATATACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.33
18 7 0.29
19 9 0.38
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
ATTAAAAATAAATAAAAA
Found at i:41023366 original size:16 final size:16
Alignment explanation
Indices: 41023297--41023386 Score: 51
Period size: 17 Copynumber: 5.4 Consensus size: 16
41023287 CACACTCCAC
*
41023297 AATATATAATCATTAAA
1 AATATATAAACA-TAAA
* *
41023314 AATAAATAAAAATATTAA
1 AATATATAAACATA--AA
*
41023332 AA-ATCATAAAAAATAAAA
1 AATAT-AT-AAACAT-AAA
*
41023350 AATATATATACAT-AA
1 AATATATAAACATAAA
41023365 AAT-TATAAACATATAA
1 AATATATAAACATA-AA
41023381 AATATA
1 AATATA
41023387 AAAGTATTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 18
0.70 0.09 0.22
Matches are distributed among these distances:
14 8 0.14
15 5 0.09
16 7 0.12
17 16 0.28
18 12 0.21
19 8 0.14
20 1 0.02
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
AATATATAAACATAAA
Found at i:41023654 original size:12 final size:13
Alignment explanation
Indices: 41023637--41023665 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
41023627 AAAGTAAAAA
41023637 ATTATTACAAA-T
1 ATTATTACAAATT
41023649 ATTATTACAAATT
1 ATTATTACAAATT
41023662 ATTA
1 ATTA
41023666 AAATAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTATTACAAATT
Found at i:41025050 original size:22 final size:24
Alignment explanation
Indices: 41025022--41025065 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
41025012 ATTTTTTTCA
41025022 ACTTTAAATT-TTAT-TCAAAAAC
1 ACTTTAAATTGTTATATCAAAAAC
*
41025044 ACTTTAATTTGTTATATCAAAA
1 ACTTTAAATTGTTATATCAAAA
41025066 CATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.43
Consensus pattern (24 bp):
ACTTTAAATTGTTATATCAAAAAC
Found at i:41026331 original size:20 final size:20
Alignment explanation
Indices: 41026289--41026331 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
41026279 CCCAGTAAAC
**
41026289 ATCGATATTTTTATATGAGT
1 ATCGATATTTTTATAAAAGT
* *
41026309 ATCGTTATTTTTATAAAATT
1 ATCGATATTTTTATAAAAGT
41026329 ATC
1 ATC
41026332 AAAAAATTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (20 bp):
ATCGATATTTTTATAAAAGT
Found at i:41029690 original size:206 final size:206
Alignment explanation
Indices: 41029336--41029724 Score: 681
Period size: 206 Copynumber: 1.9 Consensus size: 206
41029326 ATTTTTAGCT
* * *
41029336 AATTTATACGAAATGCTTATGCTAGCACGTCTTAGTTTTCTATGTCACAACAAAAAGTTATTTTC
1 AATTTATACAAAATGCTTATGCTAGCACATCCTAGTTTTCTATGTCACAACAAAAAGTTATTTTC
*
41029401 ATTTTTAGCAACAAGGCATATGAATGAATCATATAAGTCATCTAAATGCACTATATAAGTATTTC
66 ATTTTTAGCAACAAGGCATATGAATGAATCATACAAGTCATCTAAATGCACTATATAAGTATTTC
41029466 CTATCCTATGTCCTACAAGCATAATCTTATTAAACACAATGTCAATTACTTTATCCTATGTCCTC
131 CTATCCTATGTCCTACAAGCATAATCTTATTAAACACAATGTCAATTACTTTATCCTATGTCCTC
41029531 CAATTCCTCCA
196 CAATTCCTCCA
* *
41029542 AATTTATACAAAATG-TTCATGCTAGCACATCCTAGTTTTTTATGTCACAACAAAGAGTTATTTT
1 AATTTATACAAAATGCTT-ATGCTAGCACATCCTAGTTTTCTATGTCACAACAAAAAGTTATTTT
*
41029606 CATTTTTAGCAACAAGGCATATGAATGAATCATGCAAGTCATCTAAATGCACTATATAAGTATTT
65 CATTTTTAGCAACAAGGCATATGAATGAATCATACAAGTCATCTAAATGCACTATATAAGTATTT
* *
41029671 TCTATCCTATGTCCTACAAGCATAATTTTATTAAACACAATGTCAATTACTTTA
130 CCTATCCTATGTCCTACAAGCATAATCTTATTAAACACAATGTCAATTACTTTA
41029725 CATTCATTAG
Statistics
Matches: 173, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
205 2 0.01
206 171 0.99
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (206 bp):
AATTTATACAAAATGCTTATGCTAGCACATCCTAGTTTTCTATGTCACAACAAAAAGTTATTTTC
ATTTTTAGCAACAAGGCATATGAATGAATCATACAAGTCATCTAAATGCACTATATAAGTATTTC
CTATCCTATGTCCTACAAGCATAATCTTATTAAACACAATGTCAATTACTTTATCCTATGTCCTC
CAATTCCTCCA
Found at i:41032820 original size:37 final size:36
Alignment explanation
Indices: 41032769--41032860 Score: 105
Period size: 37 Copynumber: 2.4 Consensus size: 36
41032759 ATTCCAAAAA
*
41032769 TAATATTATTTTAATAGTTTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTTTAATATT-AATTTAATAT
**
41032805 TAATACTTATCTTAATAGTTTTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTTTAATATTAATTTAATAT
41032842 TAAAGTGATTATCTTAATA
1 T-AA-T-ATTATCTTAATA
41032861 TTAAATTTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.27
37 20 0.42
38 2 0.04
39 12 0.25
40 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.53
Consensus pattern (36 bp):
TAATATTATCTTAATAGTTTAATATTAATTTAATAT
Found at i:41032970 original size:59 final size:62
Alignment explanation
Indices: 41032855--41032971 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 62
41032845 AGTGATTATC
* * * *
41032855 TTAATATTAAATTTAAGCTAATGTTTATCTTGTAGATAAATATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAAGCTAATATTTATCCTGTAGATAAATATTATATTAATTTAATAAGAT
*
41032917 TTAATATTAAATTTAATCTAATATTTA-CCT-T-GATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAAGCTAATATTTATCCTGTAGATAAATATTATATTAATTTAATA
41032972 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 22 0.44
60 1 0.02
61 2 0.04
62 25 0.50
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (62 bp):
TTAATATTAAATTTAAGCTAATATTTATCCTGTAGATAAATATTATATTAATTTAATAAGAT
Found at i:41034923 original size:95 final size:95
Alignment explanation
Indices: 41034524--41034904 Score: 753
Period size: 95 Copynumber: 4.0 Consensus size: 95
41034514 GAGTTCAAAG
41034524 TAAAGATTGAAAATTTTATCTCTTAGACTTCATTTGAGAAATCATTTTGTCAATTTTTTTCAATT
1 TAAAGATTGAAAATTTTATCTCTTAGACTTCATTTGAGAAATCATTTTGTCAATTTTTTTCAATT
41034589 TTAAATTTTACTCAAAAATAATTTAATTTT
66 TTAAATTTTACTCAAAAATAATTTAATTTT
41034619 TAAAGATTGAAAATTTTATCTCTTAGACTTCATTTGAGAAATCATTTTGTCAATTTTTTTCAATT
1 TAAAGATTGAAAATTTTATCTCTTAGACTTCATTTGAGAAATCATTTTGTCAATTTTTTTCAATT
41034684 TTAAATTTTACTCAAAAATAATTTAATTTT
66 TTAAATTTTACTCAAAAATAATTTAATTTT
41034714 TAAAGATTGAAAATTTTATCTCTTAGACTTCATTTGAGAAATCATTTTGTCAATTTTTTTCAATT
1 TAAAGATTGAAAATTTTATCTCTTAGACTTCATTTGAGAAATCATTTTGTCAATTTTTTTCAATT
41034779 TTAAATTTTACTCAAAAATAATTTAATTTT
66 TTAAATTTTACTCAAAAATAATTTAATTTT
41034809 TAAAGATTGAAAATTTTATCTCTTAGACTTCATTTGAGAAATCATTTTGTCAATTTTTTTCAATT
1 TAAAGATTGAAAATTTTATCTCTTAGACTTCATTTGAGAAATCATTTTGTCAATTTTTTTCAATT
*
41034874 TTCAATTTTACTCAAAAATAATTTAATTTT
66 TTAAATTTTACTCAAAAATAATTTAATTTT
41034904 T
1 T
41034905 TATTTCAAAA
Statistics
Matches: 285, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 285 1.00
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.49
Consensus pattern (95 bp):
TAAAGATTGAAAATTTTATCTCTTAGACTTCATTTGAGAAATCATTTTGTCAATTTTTTTCAATT
TTAAATTTTACTCAAAAATAATTTAATTTT
Found at i:41036565 original size:30 final size:31
Alignment explanation
Indices: 41036518--41036597 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 31
41036508 AATTTATTTT
*
41036518 ATATTTTT-ATACTTTTTATAACATTTTAT-A
1 ATATTTTTAATA-ATTTTATAACATTTTATAA
** *
41036548 ATATTTTTTAA-AATTTTAT-TGATTTTTTAA
1 ATA-TTTTTAATAATTTTATAACATTTTATAA
41036578 ATATTTTTAATAATTTTATA
1 ATATTTTTAATAATTTTATA
41036598 TATTTAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
29 13 0.32
30 21 0.51
31 6 0.15
32 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (31 bp):
ATATTTTTAATAATTTTATAACATTTTATAA
Found at i:41036637 original size:23 final size:25
Alignment explanation
Indices: 41036611--41036656 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
41036601 TTAAAAAGAC
41036611 CATAATTT-TAT-TTTTATTTTTTT
1 CATAATTTATATATTTTATTTTTTT
41036634 CATAATTTATATATTTTATTTTT
1 CATAATTTATATATTTTATTTTT
41036657 AATATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 8 0.38
24 3 0.14
25 10 0.48
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (25 bp):
CATAATTTATATATTTTATTTTTTT
Found at i:41036673 original size:17 final size:16
Alignment explanation
Indices: 41036616--41036683 Score: 61
Period size: 16 Copynumber: 4.2 Consensus size: 16
41036606 AAGACCATAA
41036616 TTTTATTTTT-AT-TT
1 TTTTATTTTTAATATT
* *
41036630 TTTTCATAATTT-ATATA
1 TTTT-AT-TTTTAATATT
41036647 TTTTATTTTTAATATT
1 TTTTATTTTTAATATT
41036663 TTTTAATTTTTAATTATT
1 TTTT-ATTTTTAA-TATT
41036681 TTT
1 TTT
41036684 AAAATTTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
14 4 0.09
15 5 0.11
16 15 0.34
17 13 0.30
18 7 0.16
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTATTTTTAATATT
Found at i:41036795 original size:22 final size:22
Alignment explanation
Indices: 41036743--41036783 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
41036733 TTCTCAATTT
*
41036743 AATA-TTTTTATAATGTTTAAA
1 AATATTTTTTATAATATTTAAA
41036764 AATATTTTTTATAATATTTA
1 AATATTTTTTATAATATTTA
41036784 TATATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
AATATTTTTTATAATATTTAAA
Found at i:41036880 original size:18 final size:18
Alignment explanation
Indices: 41036857--41036891 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41036847 ATTAAGGCCT
*
41036857 TTTAAAATTTAAAAATTA
1 TTTAAAAATTAAAAATTA
*
41036875 TTTAAAAATTATAAATT
1 TTTAAAAATTAAAAATT
41036892 TTGTAATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTAAAAATTAAAAATTA
Found at i:41039665 original size:55 final size:55
Alignment explanation
Indices: 41039581--41039690 Score: 193
Period size: 55 Copynumber: 2.0 Consensus size: 55
41039571 AATCTCTTTC
*
41039581 CCTATCTCTAGGCTAAGACCTCTTTTGCACCACAAAAAGGTCGCCAATACAAGAG
1 CCTATCTATAGGCTAAGACCTCTTTTGCACCACAAAAAGGTCGCCAATACAAGAG
* *
41039636 CCTATCTATAGGCTAAGCCCTCTTTTGCACCACAAAAAGGTTGCCAATACAAGAG
1 CCTATCTATAGGCTAAGACCTCTTTTGCACCACAAAAAGGTCGCCAATACAAGAG
41039691 ACTCGCATGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (55 bp):
CCTATCTATAGGCTAAGACCTCTTTTGCACCACAAAAAGGTCGCCAATACAAGAG
Found at i:41041247 original size:12 final size:12
Alignment explanation
Indices: 41041226--41041256 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
41041216 ATGGGAAACG
41041226 ATAAAAAAATAA
1 ATAAAAAAATAA
*
41041238 ATAAATAAATAA
1 ATAAAAAAATAA
41041250 ATAAAAA
1 ATAAAAA
41041257 TAAAAAGCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
ATAAAAAAATAA
Found at i:41046346 original size:3 final size:3
Alignment explanation
Indices: 41046338--41046367 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
41046328 GAGATAAAAA
41046338 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
41046368 GAGAGGAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:41048335 original size:16 final size:15
Alignment explanation
Indices: 41048316--41048345 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
41048306 TTCATTTCAT
41048316 TTGCATTTAGGTTAAC
1 TTGCATTTA-GTTAAC
41048332 TTGCATTTAGTTAA
1 TTGCATTTAGTTAA
41048346 TTAACTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (15 bp):
TTGCATTTAGTTAAC
Found at i:41048756 original size:35 final size:35
Alignment explanation
Indices: 41048717--41048792 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
41048707 TGGCATGATT
* * *
41048717 AACATGGGATTTAGAATCAAAATAATAGCATGCTC
1 AACATGGGAGTCAGAATCAAAATAATAACATGCTC
* * * *
41048752 AACATGTGAGTCATAATCAGAATAATAACATGCTT
1 AACATGGGAGTCAGAATCAAAATAATAACATGCTC
41048787 AACATG
1 AACATG
41048793 TGAATCAAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.26
Consensus pattern (35 bp):
AACATGGGAGTCAGAATCAAAATAATAACATGCTC
Found at i:41055769 original size:56 final size:56
Alignment explanation
Indices: 41055683--41055858 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
41055673 ACAAGGGATG
*
41055683 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
41055739 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
41055795 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
41055851 ATGGGCAA
1 ATGGGCAA
41055859 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:41057125 original size:39 final size:40
Alignment explanation
Indices: 41057026--41057169 Score: 145
Period size: 40 Copynumber: 3.6 Consensus size: 40
41057016 CGAATGATGT
* * *
41057026 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAA
* * *
41057066 CCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-A
*
41057106 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
*
41057145 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
41057170 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
39 34 0.39
40 43 0.49
41 10 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
Found at i:41057183 original size:40 final size:39
Alignment explanation
Indices: 41057078--41057176 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
41057068 AGACTAAGAT
** * *
41057078 CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAGC
1 CCGAAGGCATTTGAACGAGTTACTATA-ACCGGGCTAAGC
** *
41057117 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGTTACTATAACCGGGCTAAG-C
41057157 CCGAAGGCATTTGAACGAGT
1 CCGAAGGCATTTGAACGAGT
41057177 AGCTATATCC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 33 0.62
40 20 0.38
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTTGAACGAGTTACTATAACCGGGCTAAGC
Found at i:41057188 original size:79 final size:80
Alignment explanation
Indices: 41057025--41057175 Score: 182
Period size: 79 Copynumber: 1.9 Consensus size: 80
41057015 TCGAATGATG
*
41057025 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCAGACTAAGATCCGAAGGCATTT
**
41057090 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * * *
41057105 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCAGACTAAGAT-CCGAAGGCAT
41057167 TTGAACGAG
64 TTGAACGAG
41057176 TAGCTATATC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.02
79 41 0.68
80 18 0.30
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCAGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:41060633 original size:31 final size:31
Alignment explanation
Indices: 41060586--41061128 Score: 722
Period size: 31 Copynumber: 17.7 Consensus size: 31
41060576 ATCTAATGCT
*
41060586 CAAATC-AATTCGGCAATATATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * *
41060616 CGAATCAAATTTGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
41060647 TAAATC-AATTCGGCAATGAATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
41060677 CAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
41060708 CAAATCAAATTCGGCAATATATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
41060739 CAAATC-AATTCGACAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
41060769 CAAATC-AATTCGGCAATGTATAACCACATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
41060799 CAAATCAAATTCGACAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
41060830 CAAATC-AATTCGACAATGTATATCCATTTA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
41060860 CAAATCAAATTCGGCAATATATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
41060891 CAAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
41060922 CAAATC-AATTCGGCAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
41060952 CAAACCAAATTCGGCAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * *
41060983 CAAATCAAATTCGACAATATATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * *
41061014 CAATTCAAATTCGGCAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * *
41061045 CAAATCAATTTCGGCAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * **
41061076 AAAATCAAATTCAGCAATGTATATCTTTATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
41061107 CAAAT-TAATTTGGCAATGTATA
1 CAAATCAAATTCGGCAATGTATA
41061129 AAACATATAC
Statistics
Matches: 451, Mismatches: 57, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
30 155 0.34
31 296 0.66
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.30
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCCATATA
Found at i:41060683 original size:61 final size:62
Alignment explanation
Indices: 41060586--41061128 Score: 722
Period size: 61 Copynumber: 8.9 Consensus size: 62
41060576 ATCTAATGCT
* * * *
41060586 CAAATC-AATTCGGCAATATATATCCATATACGAATCAAATTTGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCCATATA
* * *
41060647 TAAATC-AATTCGGCAATGAATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCCATATA
* * *
41060708 CAAATCAAATTCGGCAATATATATCTATATACAAATC-AATTCGACAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCCATATA
* * * *
41060769 CAAATC-AATTCGGCAATGTATAACCACATACAAATCAAATTCGACAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCCATATA
* * * *
41060830 CAAATC-AATTCGACAATGTATATCCATTTACAAATCAAATTCGGCAATATATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCCATATA
*
41060891 CAAATCAAATTCGGCAATGTATATCTATATACAAATC-AATTCGGCAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCCATATA
* * * *
41060952 CAAACCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGACAATATATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCCATATA
* * * * * *
41061014 CAATTCAAATTCGGCAATGTATATCTATAAACAAATCAATTTCGGCAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCCATATA
* * ** * *
41061076 AAAATCAAATTCAGCAATGTATATCTTTATACAAAT-TAATTTGGCAATGTATA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATA
41061129 AAACATATAC
Statistics
Matches: 424, Mismatches: 54, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
60 26 0.06
61 240 0.57
62 158 0.37
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.30
Consensus pattern (62 bp):
CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCCATATA
Found at i:41060714 original size:92 final size:92
Alignment explanation
Indices: 41060586--41061128 Score: 784
Period size: 92 Copynumber: 5.9 Consensus size: 92
41060576 ATCTAATGCT
* * * * *
41060586 CAAATC-AATTCGGCAATATATATCCATATACGAATCAAATTTGGCAATGTATATCTATATATAA
1 CAAATCAAATTCGGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
*
41060650 ATCAATTCGGCAATGAATATCCATATA
66 ATCAATTCGGCAATGTATATCCATATA
*
41060677 CAAATCAAATTCGGCAATGTATAACCATATACAAATCAAATTCGGCAATATATATCTATATACAA
1 CAAATCAAATTCGGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
*
41060742 ATCAATTCGACAATGTATATCCATATA
66 ATCAATTCGGCAATGTATATCCATATA
* *
41060769 CAAATC-AATTCGGCAATGTATAACCACATACAAATCAAATTCGACAATGTATATCTATATACAA
1 CAAATCAAATTCGGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
* *
41060833 ATCAATTCGACAATGTATATCCATTTA
66 ATCAATTCGGCAATGTATATCCATATA
*
41060860 CAAATCAAATTCGGCAATATATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
1 CAAATCAAATTCGGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
41060925 ATCAATTCGGCAATGTATATCCATATA
66 ATCAATTCGGCAATGTATATCCATATA
* * * * * *
41060952 CAAACCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGACAATATATAACCATATACAA
1 CAAATCAAATTCGGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
* * *
41061017 TTCAAATTCGGCAATGTATATCTATAAA
66 ATC-AATTCGGCAATGTATATCCATATA
* * * * * * *
41061045 CAAATCAATTTCGGCAATGTATATCTATAAAAAAATCAAATTCAGCAATGTATATCTTTATACAA
1 CAAATCAAATTCGGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
* *
41061110 ATTAATTTGGCAATGTATA
66 ATCAATTCGGCAATGTATA
41061129 AAACATATAC
Statistics
Matches: 408, Mismatches: 41, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
91 93 0.23
92 238 0.58
93 77 0.19
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.30
Consensus pattern (92 bp):
CAAATCAAATTCGGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
ATCAATTCGGCAATGTATATCCATATA
Found at i:41067842 original size:31 final size:31
Alignment explanation
Indices: 41067807--41068253 Score: 551
Period size: 31 Copynumber: 14.5 Consensus size: 31
41067797 ATGCTCAAAA
* * **
41067807 AAATTCAGCAATGTATATCCATATATGAATC
1 AAATTCGGCAATGTATATCTATATACAAATC
* *
41067838 AAATTTGGCAATGTATATCTATATATAAATC
1 AAATTCGGCAATGTATATCTATATACAAATC
* *
41067869 -AATTCGGCAATGAATATCCATATACAAATC
1 AAATTCGGCAATGTATATCTATATACAAATC
* * *
41067899 AAATTCGGTAATGTATAACCATATACAAATC
1 AAATTCGGCAATGTATATCTATATACAAATC
*
41067930 AAATTCGGCAATATATATCTATATACAAATC
1 AAATTCGGCAATGTATATCTATATACAAATC
* *
41067961 -AATTCGACAATGTATATCCATATACAAATC
1 AAATTCGGCAATGTATATCTATATACAAATC
* * * *
41067991 AAATTTGGCAATATATAACCATATACAAATC
1 AAATTCGGCAATGTATATCTATATACAAATC
* *
41068022 AAATTCGACAATGTATATCTATATACAAAAC
1 AAATTCGGCAATGTATATCTATATACAAATC
* *
41068053 -AATTCGGTAATGTATATCCATATACAAATC
1 AAATTCGGCAATGTATATCTATATACAAATC
* * * *
41068083 AAATTCAGCAATATATAACAATATACAAATC
1 AAATTCGGCAATGTATATCTATATACAAATC
* *
41068114 AAATTCGGCAATGTATATCTATAAACAATTC
1 AAATTCGGCAATGTATATCTATATACAAATC
*
41068145 AAATTCGGCAATGTATATCTATAAACAAATC
1 AAATTCGGCAATGTATATCTATATACAAATC
* * *
41068176 AATTTTGGCAATGTATATCTATAAACAAATC
1 AAATTCGGCAATGTATATCTATATACAAATC
* *
41068207 AAATTCGGCAATGTATAACTTTATACAAATC
1 AAATTCGGCAATGTATATCTATATACAAATC
*
41068238 -AATTCAGCAATGTATA
1 AAATTCGGCAATGTATA
41068254 AAACATATAC
Statistics
Matches: 361, Mismatches: 52, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
30 94 0.26
31 267 0.74
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.31
Consensus pattern (31 bp):
AAATTCGGCAATGTATATCTATATACAAATC
Found at i:41067930 original size:92 final size:92
Alignment explanation
Indices: 41067807--41068253 Score: 615
Period size: 92 Copynumber: 4.8 Consensus size: 92
41067797 ATGCTCAAAA
* * ** * *
41067807 AAATTCAGCAATGTATATCCATATATGAATCAAATTTGGCAATGTATATCTATATATAAATCAAT
1 AAATTCGGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAAATCAAT
*
41067872 TCGGCAATGAATATCCATATACAAATC
66 TCGGCAATGTATATCCATATACAAATC
* *
41067899 AAATTCGGTAATGTATAACCATATACAAATCAAATTCGGCAATATATATCTATATACAAATCAAT
1 AAATTCGGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAAATCAAT
*
41067964 TCGACAATGTATATCCATATACAAATC
66 TCGGCAATGTATATCCATATACAAATC
* * * *
41067991 AAATTTGGCAATATATAACCATATACAAATCAAATTCGACAATGTATATCTATATACAAAACAAT
1 AAATTCGGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAAATCAAT
*
41068056 TCGGTAATGTATATCCATATACAAATC
66 TCGGCAATGTATATCCATATACAAATC
* * * * *
41068083 AAATTCAGCAATATATAACAATATACAAATCAAATTCGGCAATGTATATCTATAAACAATTCAAA
1 AAATTCGGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAAATC-AA
* *
41068148 TTCGGCAATGTATATCTATAAACAAATC
65 TTCGGCAATGTATATCCATATACAAATC
* * * * * * *
41068176 AATTTTGGCAATGTATATCTATAAACAAATCAAATTCGGCAATGTATAACTTTATACAAATCAAT
1 AAATTCGGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAAATCAAT
*
41068241 TCAGCAATGTATA
66 TCGGCAATGTATA
41068254 AAACATATAC
Statistics
Matches: 314, Mismatches: 40, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
92 236 0.75
93 78 0.25
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.31
Consensus pattern (92 bp):
AAATTCGGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAAATCAAT
TCGGCAATGTATATCCATATACAAATC
Found at i:41068273 original size:123 final size:123
Alignment explanation
Indices: 41067808--41068264 Score: 551
Period size: 123 Copynumber: 3.7 Consensus size: 123
41067798 TGCTCAAAAA
* ** * * *
41067808 AATTCAGCAATGTATATCCATATATGAATCAAATTTGGCAATGTATATCTATATATAAATC-AAT
1 AATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACTATATACAAATCAAAT
* * * * *
41067872 TCGGCAATGAATATCCATATACAAATCAAATTCGGTAATGTATAACCATATACAAATC
66 TCGGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAAATC
* * * * *
41067930 AAATTCGGCAATATATATCTATATACAAATC-AATTCGACAATGTATATCCATATACAAATCAAA
1 -AATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACTATATACAAATCAAA
* * * *
41067994 TTTGGCAATATATAACCATATACAAATCAAATTCGACAATGTATATCTATATACAAAAC
65 TTCGGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAAATC
* * * *
41068053 AATTCGGTAATGTATATCCATATACAAATCAAATTCAGCAATATATAACAATATACAAATCAAAT
1 AATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACTATATACAAATCAAAT
* * * * *
41068118 TCGGCAATGTATATCTATAAACAATTCAAATTCGGCAATGTATATCTATAAACAAATC
66 TCGGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAAATC
* * * *
41068176 AATTTTGGCAATGTATATCTATAAACAAATCAAATTCGGCAATGTATAACTTTATACAAATC-AA
1 AA-TTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACTATATACAAATCAAA
* *
41068240 TTCAGCAATGTATAAAACATATACA
65 TTCGGCAATGTAT-AACCATATACA
41068265 TTTAAATTCA
Statistics
Matches: 282, Mismatches: 48, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
122 53 0.19
123 171 0.61
124 58 0.21
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (123 bp):
AATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACTATATACAAATCAAAT
TCGGCAATGTATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAAATC
Found at i:41077004 original size:23 final size:23
Alignment explanation
Indices: 41076964--41077007 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
41076954 TGCCGTGAAC
*
41076964 TTCTTCTCTCTTTCTTTCTTTCT
1 TTCTTCTCTCTTTATTTCTTTCT
* *
41076987 TTCTTTTCTTTTTATTTCTTT
1 TTCTTCTCTCTTTATTTCTTT
41077008 TCTAATTTGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (23 bp):
TTCTTCTCTCTTTATTTCTTTCT
Found at i:41082013 original size:25 final size:23
Alignment explanation
Indices: 41081985--41082063 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 23
41081975 AGCTCATGAA
41081985 AGCTAAGTATCAGGAAGCTCTTGCG
1 AGCTAA-TATC-GGAAGCTCTTGCG
*
41082010 AGCTAAATATCGAGAAGCTCTTGTG
1 AGCT-AATATCG-GAAGCTCTTGCG
* * *
41082035 AGTTGAATATTGGGAAGCTCATGCG
1 AGCT-AATA-TCGGAAGCTCTTGCG
41082060 AGCT
1 AGCT
41082064 GTGGTGTGTC
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
24 1 0.02
25 39 0.89
26 4 0.09
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (23 bp):
AGCTAATATCGGAAGCTCTTGCG
Found at i:41083758 original size:39 final size:40
Alignment explanation
Indices: 41083688--41083770 Score: 123
Period size: 39 Copynumber: 2.1 Consensus size: 40
41083678 ATTAACCCAA
* * *
41083688 AAAAATCATCAATTTAACAATTTATATGCAATGAATTAGT
1 AAAAATCAACAATTCAACAATTTATATGCAATAAATTAGT
*
41083728 AAAAATCAACAATTCAA-AATTTTTATGCAATAAATTAGT
1 AAAAATCAACAATTCAACAATTTATATGCAATAAATTAGT
41083767 AAAA
1 AAAA
41083771 TTGAGTAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 24 0.62
40 15 0.38
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (40 bp):
AAAAATCAACAATTCAACAATTTATATGCAATAAATTAGT
Found at i:41085237 original size:124 final size:124
Alignment explanation
Indices: 41084964--41085341 Score: 551
Period size: 125 Copynumber: 3.0 Consensus size: 124
41084954 TTAGGGTTTT
* *** * * * *
41084964 TAGGTCCTGGAAGAAATAATTTCGAGTTGACATTTCTGATCAAATACTATAAAATCACTTCTAGC
1 TAGGTCATGGAAGAAATAATTT-TTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* *
41085029 AGGATGCTATTTGAGAAGAATTTGTG-AAATCGCGCCCTAGTGGACACGCTTTTGCTACAG
65 AGGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGAC-GGCTTTTGCTACAG
41085089 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
1 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
*
41085154 GGATACTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACTGGCTTTTGCTACAG
66 GGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGAC-GGCTTTTGCTACAG
*
41085214 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGATTCTAGCA
1 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
* * * * * *
41085279 AGATGCTATTTGAGAAGAATTTGTGAAAATCACACCCTCTTGGACGCGTTTTTACTACAG
66 GGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACG-GCTTTTGCTACAG
41085339 TAG
1 TAG
41085342 CATGTTTGAG
Statistics
Matches: 231, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
124 61 0.26
125 170 0.74
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (124 bp):
TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
GGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGGCTTTTGCTACAG
Found at i:41088553 original size:116 final size:116
Alignment explanation
Indices: 41088347--41088590 Score: 400
Period size: 116 Copynumber: 2.1 Consensus size: 116
41088337 TAAGTTTGTG
*
41088347 AAATTATTAATTGATAAATTGTATTAATGGTTAGAAAAAATTATCAAATTATATAAAATTATTAA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGAAAAAATTATCAAATTATATAAAATTATTAA
* ** *
41088412 TTGTTAGTACTAGTCAAAACATTTTTCCAAATCTAACATTATATGAATGTA
66 TTGTTAGTACCAGAAAAAACATTTTTCCAAATCTAACATTATATGAAAGTA
* *
41088463 AAATTATTAATTGATAAGTTGTATTAATGATTAG-TAAAATTATCAAATTATATAAAATTATTAA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGAAAAAATTATCAAATTATATAAAATTATTAA
*
41088527 TTGTTAGTACCAGGAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
66 TTGTTAGTACCA-GAAAAAACATTTTTCCAAATCTAACATTATATGAAAGTA
41088579 AAATTATTAATT
1 AAATTATTAATT
41088591 TAGTTTAGGG
Statistics
Matches: 119, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
115 40 0.34
116 79 0.66
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (116 bp):
AAATTATTAATTGATAAATTGTATTAATGATTAGAAAAAATTATCAAATTATATAAAATTATTAA
TTGTTAGTACCAGAAAAAACATTTTTCCAAATCTAACATTATATGAAAGTA
Found at i:41088628 original size:24 final size:23
Alignment explanation
Indices: 41088584--41089150 Score: 308
Period size: 23 Copynumber: 25.2 Consensus size: 23
41088574 AAGTAAAATT
* *
41088584 ATTAATTTAGTTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
41088607 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
41088630 AGTT-AA--GGGTTAGGATTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
* *
41088651 AGTT-AA--GGGTTTAGTGTTTTTAA
1 A-TTAAATTAGG-TTAGGGTTTTT-A
*
41088674 ATT-AA--GGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
41088694 AGTT-AA--GGGTTAGTGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
* ***
41088715 AGTT-GAGGGGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
*
41088738 AGT---TTAGGGTTTAGGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
*
41088760 ATTAAATTAGGTTAGGATTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
41088783 AGT---TTAGGGTTTAGTGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
*
41088805 ATTTAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
**
41088828 AGTTAAA-GGGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
* *
41088851 AGT---TTAGGGTTTATGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
*
41088873 ATTTAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
41088896 AGT---TTAGGGTTTAGGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
* *
41088918 ATTTAATTAGGTTAGAGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
41088941 AGT---TTAGGGTTTATGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
*
41088963 ATTAAATTAGGTTATGGTTTTT-
1 ATTAAATTAGGTTAGGGTTTTTA
* *
41088985 A--AATTTAGGGTTTAAGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
41089008 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
41089031 ATTTAATTAGGTTAGGGTTTTAA
1 ATTAAATTAGGTTAGGGTTTTTA
*
41089054 AGTT-AATTAGGTTAGAGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
***
41089077 AGTTAAGGGA-GTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
* *
41089100 AGT---TTAGGGTTTAAGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
41089122 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
41089145 AGTTAA
1 A-TTAA
41089151 GGGTATTAAT
Statistics
Matches: 442, Mismatches: 55, Indels: 93
0.75 0.09 0.16
Matches are distributed among these distances:
19 1 0.00
20 16 0.04
21 68 0.15
22 108 0.24
23 198 0.45
24 28 0.06
25 23 0.05
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (23 bp):
ATTAAATTAGGTTAGGGTTTTTA
Found at i:41088773 original size:45 final size:43
Alignment explanation
Indices: 41088584--41089154 Score: 316
Period size: 45 Copynumber: 12.7 Consensus size: 43
41088574 AAGTAAAATT
* *
41088584 ATTAATTTAGTTTAGGGTTTTTAATTAAATTA-GGTTAGGGTTTTTA
1 ATTAA-TTAGGTTAGGGTTTTTAAGT---TTAGGGTTAGGGTTTTTA
* * * *
41088630 AGTTAA--GGGTTAGGATTTTTAAGTTAAGGGTTTAGTGTTTTTAA
1 A-TTAATTAGGTTAGGGTTTTTAAGTTTAGGG-TTAGGGTTTTT-A
* * *
41088674 ATTAA--GGGTTAGGGTTTTTAAGTTAAGGGTTAGTGTTTTTA
1 ATTAATTAGGTTAGGGTTTTTAAGTTTAGGGTTAGGGTTTTTA
* ***
41088715 AGTTGAGGGGGTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTAAGTTTAGGG-TTAGGGTTTTTA
* *
41088760 ATTAAATTAGGTTAGGATTTTTAAGTTTAGGGTTTAGTGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTAAGTTTAGGG-TTAGGGTTTTTA
*
41088805 ATTTAATTAGGTTAGGGTTTTTAAGTTAAAGGGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTAAGTT-TA-GGGTTAGGGTTTTTA
* * *
41088851 AGT--TTAGGGTTTATGGTTTTTAA-TTTAATTAGGTTAGGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTAAGTTT-A--GGGTTAGGGTTTTTA
* * *
41088896 AGT--TTAGGGTTTAGGGTTTTTAA-TTTAATTAGGTTAGAGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTAAGTTT-A--GGGTTAGGGTTTTTA
* * * *
41088941 AGT--TTAGGGTTTATGGTTTTTAATTAAATTA-GGTTATGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTAAGT---TTAGGGTTAGGGTTTTTA
* * *
41088986 A--ATTTAGGGTTTAAGGTTTTTAATTAAATTA-GGTTAGGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTAAGT---TTAGGGTTAGGGTTTTTA
* *
41089031 ATTTAATTAGGTTAGGGTTTTAAAGTTAATTA-GGTTAGAGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTAAG-T--TTAGGGTTAGGGTTTTTA
** *
41089077 AGTTAA-GGGAGTTAGGGTTTTTAAGTTTAGGGTTTAAGGTTTTTA
1 A-TTAATTAG-GTTAGGGTTTTTAAGTTTAGGG-TTAGGGTTTTTA
*
41089122 ATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGT
1 ATT-AATTAGGTTAGGGTTTTTAAGTTTAGGGT
41089155 ATTAATGGTT
Statistics
Matches: 449, Mismatches: 45, Indels: 64
0.80 0.08 0.11
Matches are distributed among these distances:
41 4 0.01
42 16 0.04
43 43 0.10
44 51 0.11
45 252 0.56
46 66 0.15
47 10 0.02
48 5 0.01
49 2 0.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (43 bp):
ATTAATTAGGTTAGGGTTTTTAAGTTTAGGGTTAGGGTTTTTA
Found at i:41088839 original size:113 final size:111
Alignment explanation
Indices: 41088585--41089150 Score: 484
Period size: 113 Copynumber: 5.0 Consensus size: 111
41088575 AGTAAAATTA
* ** * *
41088585 TTAATTTAGTTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGATTTT
1 TTAA-TTAGGTTAGGGTTTTTAAGTTAAA-GGGGTTAGGGTTTTTAAGTTTAGGGTTAGGGTTTT
* * * *
41088649 TAAGTT-AA--GGGTTTAGTGTTTTTAAATTAAGGGTTAGGGTTTTTAAG
64 TAA-TTAAATTAGGTTTAG-GTTTTTAAGTTTAGGGTTAGGGTTTTTAAT
* * * *
41088696 TTAA--GGGTTAGTGTTTTTAAGTTGAGGGGGTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAAAGGGGTTAGGGTTTTTAAGTTTAGGG-TTAGGGTTTTT
*
41088759 AATTAAATTAGG-TTAGGATTTTTAAGTTTAGGGTTTAGTGTTTTTAAT
65 AATTAAATTAGGTTTAGG-TTTTTAAGTTTAGGG-TTAGGGTTTTTAAT
*
41088807 TTAATTAGGTTAGGGTTTTTAAGTTAAAGGGGTTAGGGTTTTTAAGTTTAGGGTTTATGGTTTTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAAAGGGGTTAGGGTTTTTAAGTTTAGGG-TTAGGGTTTTT
*
41088872 AATTTAATTAGG-TTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAAT
65 AATTAAATTAGGTTTA-GGTTTTTAAGTTTAGGG-TTAGGGTTTTTAAT
* * * * * *
41088920 TTAATTAGGTTAGAGTTTTTAAGTT-TAGGGTTTATGGTTTTTAATTAAATTA-GGTTATGGTTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAAAGGGGTTAGGGTTTTTAAGT---TTAGGGTTAGGGTTT
* *
41088983 TT-A--AATTTAGGGTTTAAGGTTTTTAATTAAATTA-GGTTAGGGTTTTTAAT
63 TTAATTAAATTA-GGTTT-AGGTTTTTAAGT---TTAGGGTTAGGGTTTTTAAT
* *** * *
41089033 TTAATTAGGTTAGGGTTTTAAAGTTAATTAGGTTAGAGTTTTTAAGTTAAGGGAGTTAGGGTTTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAAAGGGGTTAGGGTTTTTAAGTTTA-GG-GTTAGGGTTTT
* * *
41089098 TAAGT---TTAGGGTTTAAGGTTTTTAATTAAATTA-GGTTAGGGTTTTTAAG
64 TAATTAAATTA-GGTTT-AGGTTTTTAAGT---TTAGGGTTAGGGTTTTTAAT
41089147 TTAA
1 TTAA
41089151 GGGTATTAAT
Statistics
Matches: 387, Mismatches: 42, Indels: 49
0.81 0.09 0.10
Matches are distributed among these distances:
108 37 0.10
109 18 0.05
110 21 0.05
111 26 0.07
112 30 0.08
113 171 0.44
114 77 0.20
115 7 0.02
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (111 bp):
TTAATTAGGTTAGGGTTTTTAAGTTAAAGGGGTTAGGGTTTTTAAGTTTAGGGTTAGGGTTTTTA
ATTAAATTAGGTTTAGGTTTTTAAGTTTAGGGTTAGGGTTTTTAAT
Found at i:41089222 original size:25 final size:25
Alignment explanation
Indices: 41089193--41089240 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
41089183 TATAAAAAAA
41089193 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
41089218 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
41089241 TATCAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.46
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:41089694 original size:18 final size:18
Alignment explanation
Indices: 41089671--41089708 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
41089661 CTCGAAAAAT
*
41089671 GATACATATAAGGGTTAG
1 GATACATATAAGGGCTAG
*
41089689 GATACATATAGGGGCTAG
1 GATACATATAAGGGCTAG
41089707 GA
1 GA
41089709 AACGCACCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.08, G:0.32, T:0.24
Consensus pattern (18 bp):
GATACATATAAGGGCTAG
Found at i:41090579 original size:20 final size:20
Alignment explanation
Indices: 41090542--41090579 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
41090532 TTTATTTTTA
*
41090542 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
41090562 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
41090580 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:41091566 original size:11 final size:11
Alignment explanation
Indices: 41091550--41091580 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
41091540 AAAAAGGGAG
41091550 TTAAGAGAAAC
1 TTAAGAGAAAC
*
41091561 TTAAGAGGAAC
1 TTAAGAGAAAC
41091572 TTAAGAGAA
1 TTAAGAGAA
41091581 TTTTTGAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (11 bp):
TTAAGAGAAAC
Found at i:41094561 original size:88 final size:88
Alignment explanation
Indices: 41094412--41094587 Score: 325
Period size: 88 Copynumber: 2.0 Consensus size: 88
41094402 CTTCATGTGC
*
41094412 GGTCCTTTACAAAAGTAGCACCGTAACTTTCCCCTCTTTTCTTTCGGGCTATTAGGTCTCCACTT
1 GGTCCTTTACAAAAGTAGCACCGTAACTTTCCCCTCTTTTCTTTCGGCCTATTAGGTCTCCACTT
41094477 CCCATTTCGTGGTTTCCTATCAT
66 CCCATTTCGTGGTTTCCTATCAT
**
41094500 GGTCCTTTACAAAAGTAGCACCGTAACTTTCCCCTCTTTTCTTTTTGCCTATTAGGTCTCCACTT
1 GGTCCTTTACAAAAGTAGCACCGTAACTTTCCCCTCTTTTCTTTCGGCCTATTAGGTCTCCACTT
41094565 CCCATTTCGTGGTTTCCTATCAT
66 CCCATTTCGTGGTTTCCTATCAT
41094588 CACCATCACT
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 85 1.00
ACGTcount: A:0.17, C:0.30, G:0.14, T:0.40
Consensus pattern (88 bp):
GGTCCTTTACAAAAGTAGCACCGTAACTTTCCCCTCTTTTCTTTCGGCCTATTAGGTCTCCACTT
CCCATTTCGTGGTTTCCTATCAT
Found at i:41097341 original size:22 final size:22
Alignment explanation
Indices: 41097288--41097344 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
41097278 ATTGCCTCCG
* *
41097288 GTACTAACATTATCTATCCCTA
1 GTACTAACATTCTATATCCCTA
41097310 GTACTAACATTCTATATCCCTA
1 GTACTAACATTCTATATCCCTA
* *
41097332 GTATTGACATTCT
1 GTACTAACATTCT
41097345 TTACGAATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (22 bp):
GTACTAACATTCTATATCCCTA
Found at i:41099508 original size:15 final size:15
Alignment explanation
Indices: 41099487--41099527 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
41099477 TGGTAATTCT
*
41099487 CCTCCTCTTAGTATT
1 CCTCCTCTTAGTATG
* *
41099502 TCTCCTCTTAGTGTG
1 CCTCCTCTTAGTATG
41099517 CCTCCTCTTAG
1 CCTCCTCTTAG
41099528 AGCTACCCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.10, C:0.34, G:0.12, T:0.44
Consensus pattern (15 bp):
CCTCCTCTTAGTATG
Found at i:41100433 original size:69 final size:69
Alignment explanation
Indices: 41100354--41100923 Score: 347
Period size: 69 Copynumber: 8.3 Consensus size: 69
41100344 CCCTTCGCTC
* * * * * * *
41100354 GCGAGTCTTAATATGACAGTTGAGAGCTTTGCTTTCACTAATTGTGCTGGGGGTTGCGCCTCTTC
1 GCGAGCCTTAATATGACAGCTGAGAGCTTTGCTTTCACTAACTATGCTGGAGGCTGCGGCTCTTC
41100419 ACCT
66 ACCT
* * * *
41100423 GCGAGCCTTAATATGACAGCTGGGAGCTTTG-TTCTCACTAACTATGTTGGAGGCTACGGCTCCT
1 GCGAGCCTTAATATGACAGCTGAGAGCTTTGCTT-TCACTAACTATGCTGGAGGCTGCGGCTCTT
*
41100487 CGCCT
65 CACCT
** * * ** * ***
41100492 ATGAGCCTTAATATGACACCTGGGAGCTTTG-TTCTTGCTAACTATGCTGGGGGCTATAGCTCTT
1 GCGAGCCTTAATATGACAGCTGAGAGCTTTGCTT-TCACTAACTATGCTGGAGGCTGCGGCTCTT
*
41100556 CGCCT
65 CACCT
* * * * * * *
41100561 GCAAGCCTTAATATGATAGCTAAGAGCTTTACTTTCGCTAACTGTGTTGGAGGCTGCGGCTCTTC
1 GCGAGCCTTAATATGACAGCTGAGAGCTTTGCTTTCACTAACTATGCTGGAGGCTGCGGCTCTTC
41100626 ACCT
66 ACCT
** * * * * * * * * * *
41100630 GTAAGCCTTAATATGATAGTTAAGAGTTTTACTCTCACTAATTATGTTGGAGGCTACGGATCTTC
1 GCGAGCCTTAATATGACAGCTGAGAGCTTTGCTTTCACTAACTATGCTGGAGGCTGCGGCTCTTC
*
41100695 GCCT
66 ACCT
* * * ** * * *
41100699 GCGAGCTTTAATATAACA-CATGGGAGCTTTG-TTCTTGCTAACTATGGTGGGGGCTGCGACTCT
1 GCGAGCCTTAATATGACAGC-TGAGAGCTTTGCTT-TCACTAACTATGCTGGAGGCTGCGGCTCT
** *
41100762 TTGCTT
64 TCACCT
* ** * * * * * * * * * * * *
41100768 GTGAGCCTTAATACAACAGTTGGGAGCCTTGCTATCGCCATCTGTGTTAGAGGCTGTGACTCTTC
1 GCGAGCCTTAATATGACAGCTGAGAGCTTTGCTTTCACTAACTATGCTGGAGGCTGCGGCTCTTC
41100833 ACCT
66 ACCT
* * * * * * * *
41100837 GCGAACCTTAATATAACAACTGGGTGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCGGCTCTTC
1 GCGAGCCTTAATATGACAGCTGAGAGCTTTGCTTTCACTAACTATGCTGGAGGCTGCGGCTCTTC
* *
41100902 GCTT
66 ACCT
* *
41100906 ACGAGTCTTAATATGACA
1 GCGAGCCTTAATATGACA
41100924 CGAATGTTGT
Statistics
Matches: 389, Mismatches: 106, Indels: 12
0.77 0.21 0.02
Matches are distributed among these distances:
68 3 0.01
69 383 0.98
70 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (69 bp):
GCGAGCCTTAATATGACAGCTGAGAGCTTTGCTTTCACTAACTATGCTGGAGGCTGCGGCTCTTC
ACCT
Found at i:41100568 original size:138 final size:137
Alignment explanation
Indices: 41100413--41100924 Score: 427
Period size: 138 Copynumber: 3.7 Consensus size: 137
41100403 GGGGTTGCGC
* *
41100413 CTCTTCACCTGCGAGCCTTAATATGACAGCTGGGAGCTTTGTTCTCACTAACTATGTTGGAGGCT
1 CTCTTCACCTGCAAGCCTTAATATAACAGCTGGGAGCTTTGTTCTCACTAACTATGTTGGAGGCT
* * * * * * *
41100478 ACGGCTCCTCGCCTATGAGCCTTAATATGACACCTGGGAGCTTTGTTCTTGCTAACTATGCTGGG
66 GCGGCTCTTCGCCTATGAGCCTTAATATGACACTTGGGAGCTTTGCTCTCGCTAACTATGTTGGA
41100543 GGCTATAG
131 GGCTAT-G
* * * ** * * *
41100551 CTCTTCGCCTGCAAGCCTTAATATGATAGCTAAGAGCTTTACTT-TCGCTAACTGTGTTGGAGGC
1 CTCTTCACCTGCAAGCCTTAATATAACAGCTGGGAGCTTT-GTTCTCACTAACTATGTTGGAGGC
* * * * * ** * * * *
41100615 TGCGGCTCTTCACCTGTAAGCCTTAATATGATAGTTAAGAGTTTTACTCTCACTAATTATGTTGG
65 TGCGGCTCTTCGCCTATGAGCCTTAATATGACACTTGGGAGCTTTGCTCTCGCTAACTATGTTGG
*
41100680 AGGCTACGG
130 AGGCTA-TG
* * * * ** * *
41100689 ATCTTCGCCTGCGAGCTTTAATATAACA-CATGGGAGCTTTGTTCTTGCTAACTATGGTGGGGGC
1 CTCTTCACCTGCAAGCCTTAATATAACAGC-TGGGAGCTTTGTTCTCACTAACTATGTTGGAGGC
* * * * ** * * * * * * *
41100753 TGCGACTCTTTGCTTGTGAGCCTTAATACAACAGTTGGGAGCCTTGCTATCGCCATCTGTGTTAG
65 TGCGGCTCTTCGCCTATGAGCCTTAATATGACACTTGGGAGCTTTGCTCTCGCTAACTATGTTGG
*
41100818 AGGCTGTG
130 AGGCTATG
* * * *
41100826 ACTCTTCACCTGCGAA-CCTTAATATAACAACTGGGTGCTTTGCTCTCACTAACTGTGTTGGAGG
1 -CTCTTCACCTGC-AAGCCTTAATATAACAGCTGGGAGCTTTGTTCTCACTAACTATGTTGGAGG
* * *
41100890 CTGCGGCTCTTCGCTTACGAGTCTTAATATGACAC
64 CTGCGGCTCTTCGCCTATGAGCCTTAATATGACAC
41100925 GAATGTTGTT
Statistics
Matches: 287, Mismatches: 80, Indels: 14
0.75 0.21 0.04
Matches are distributed among these distances:
137 4 0.01
138 279 0.97
139 4 0.01
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (137 bp):
CTCTTCACCTGCAAGCCTTAATATAACAGCTGGGAGCTTTGTTCTCACTAACTATGTTGGAGGCT
GCGGCTCTTCGCCTATGAGCCTTAATATGACACTTGGGAGCTTTGCTCTCGCTAACTATGTTGGA
GGCTATG
Found at i:41100687 original size:207 final size:207
Alignment explanation
Indices: 41100322--41100753 Score: 542
Period size: 207 Copynumber: 2.1 Consensus size: 207
41100312 TCAATTCTCA
* * * * * * *
41100322 CTAACTGTGATGGGGGCTATGGCCCTTCGCTCGCGAGTCTTAATATGACAGTTGAGAGCTTTGCT
1 CTAACTATGATGGGGGCTATAGCCCTTCGCTCGCAAGCCTTAATATGACAGCTAAGAGCTTTACT
* * * * **
41100387 TTCACTAATTGTGCTGGGGGTTGCGCCTCTTCACCTGCGAGCCTTAATATGACAGCTGGGAGCTT
66 TTCACTAACTGTGCTGGAGGCTGCGCCTCTTCACCTGCAAGCCTTAATATGACAGCTAAGAGCTT
** * * * *
41100452 TGTTCTCACTAACTATGTTGGAGGCTACGGCTCCTCGCCTATGAGCCTTAATATGACACCTGGGA
131 TACTCTCACTAACTATGTTGGAGGCTACGGATCCTCGCCTACGAGCCTTAATATAACACATGGGA
41100517 GCTTTGTTCTTG
196 GCTTTGTTCTTG
* * *
41100529 CTAACTATGCTGGGGGCTATAGCTCTTCGC-CTGCAAGCCTTAATATGATAGCTAAGAGCTTTAC
1 CTAACTATGATGGGGGCTATAGCCCTTCGCTC-GCAAGCCTTAATATGACAGCTAAGAGCTTTAC
* * * * * * *
41100593 TTTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCACCTGTAAGCCTTAATATGATAGTTAAGAGTT
65 TTTCACTAACTGTGCTGGAGGCTGCGCCTCTTCACCTGCAAGCCTTAATATGACAGCTAAGAGCT
* * * *
41100658 TTACTCTCACTAATTATGTTGGAGGCTACGGATCTTCGCCTGCGAGCTTTAATATAACACATGGG
130 TTACTCTCACTAACTATGTTGGAGGCTACGGATCCTCGCCTACGAGCCTTAATATAACACATGGG
41100723 AGCTTTGTTCTTG
195 AGCTTTGTTCTTG
*
41100736 CTAACTATGGTGGGGGCT
1 CTAACTATGATGGGGGCT
41100754 GCGACTCTTT
Statistics
Matches: 190, Mismatches: 34, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
206 1 0.01
207 189 0.99
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (207 bp):
CTAACTATGATGGGGGCTATAGCCCTTCGCTCGCAAGCCTTAATATGACAGCTAAGAGCTTTACT
TTCACTAACTGTGCTGGAGGCTGCGCCTCTTCACCTGCAAGCCTTAATATGACAGCTAAGAGCTT
TACTCTCACTAACTATGTTGGAGGCTACGGATCCTCGCCTACGAGCCTTAATATAACACATGGGA
GCTTTGTTCTTG
Found at i:41100777 original size:207 final size:207
Alignment explanation
Indices: 41100360--41100924 Score: 540
Period size: 207 Copynumber: 2.7 Consensus size: 207
41100350 GCTCGCGAGT
* * * * * *
41100360 CTTAATATGACAGTTGAGAGCTTTGCTTTCACTAATTGTGCTGGGGGTTGCGCCTCTTCACCTGC
1 CTTAATATGACAGCTAAGAGCTTTACTTTCACTAACTGTGCTGGAGGCTGCGCCTCTTCACCTGC
* ** ** *
41100425 GAGCCTTAATATGACAGCTGGGAGCTTTGTTCTCACTAACTATGTTGGAGGCTACGGCTCCTCGC
66 AAGCCTTAATATGACAGCTAAGAGCTTTACTCTCACTAACTATGTTGGAGGCTACGGATCCTCGC
* * * *
41100490 CTATGAGCCTTAATATGACACCTGGGAGCTTTGTTCTTGCTAACTATGCTGGGGGCTATAGCTCT
131 CTACGAGCCTTAATATAACACATGGGAGCTTTGTTCTTGCTAACTATGCTGGGGGCTAGAGCTCT
41100555 TCGCCTGCAAGC
196 TCGCCTGCAAGC
* * * * *
41100567 CTTAATATGATAGCTAAGAGCTTTACTTTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCACCTGT
1 CTTAATATGACAGCTAAGAGCTTTACTTTCACTAACTGTGCTGGAGGCTGCGCCTCTTCACCTGC
* * * * *
41100632 AAGCCTTAATATGATAGTTAAGAGTTTTACTCTCACTAATTATGTTGGAGGCTACGGATCTTCGC
66 AAGCCTTAATATGACAGCTAAGAGCTTTACTCTCACTAACTATGTTGGAGGCTACGGATCCTCGC
* * * *
41100697 CTGCGAGCTTTAATATAACACATGGGAGCTTTGTTCTTGCTAACTATGGTGGGGGCT-GCGACTC
131 CTACGAGCCTTAATATAACACATGGGAGCTTTGTTCTTGCTAACTATGCTGGGGGCTAGAG-CTC
* * **
41100761 TTTGCTTGTGAGC
195 TTCGCCTGCAAGC
** * ** * * * * * * * * * *
41100774 CTTAATACAACAGTTGGGAGCCTTGCTATCGCCATCTGTGTTAGAGGCTGTGACTCTTCACCTGC
1 CTTAATATGACAGCTAAGAGCTTTACTTTCACTAACTGTGCTGGAGGCTGCGCCTCTTCACCTGC
* * ** * * * * * *
41100839 GAA-CCTTAATATAACAACTGGGTGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCGGCTCTTCG
66 -AAGCCTTAATATGACAGCTAAGAGCTTTACTCTCACTAACTATGTTGGAGGCTACGGATCCTCG
* * *
41100903 CTTACGAGTCTTAATATGACAC
130 CCTACGAGCCTTAATATAACAC
41100925 GAATGTTGTT
Statistics
Matches: 289, Mismatches: 67, Indels: 4
0.80 0.19 0.01
Matches are distributed among these distances:
206 1 0.00
207 286 0.99
208 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (207 bp):
CTTAATATGACAGCTAAGAGCTTTACTTTCACTAACTGTGCTGGAGGCTGCGCCTCTTCACCTGC
AAGCCTTAATATGACAGCTAAGAGCTTTACTCTCACTAACTATGTTGGAGGCTACGGATCCTCGC
CTACGAGCCTTAATATAACACATGGGAGCTTTGTTCTTGCTAACTATGCTGGGGGCTAGAGCTCT
TCGCCTGCAAGC
Found at i:41102760 original size:18 final size:18
Alignment explanation
Indices: 41102737--41102771 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
41102727 TTCGCAATGA
41102737 TTGGCTAAGAGGTCCTTG
1 TTGGCTAAGAGGTCCTTG
*
41102755 TTGGCTATGAGGTCCTT
1 TTGGCTAAGAGGTCCTT
41102772 TCCTGTTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.17, G:0.31, T:0.37
Consensus pattern (18 bp):
TTGGCTAAGAGGTCCTTG
Found at i:41106785 original size:23 final size:22
Alignment explanation
Indices: 41106755--41106804 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 22
41106745 TACACTTATT
41106755 TATTTTT-AATGAATAATTTTTCA
1 TATTTTTAAATGAAT-ATTTTT-A
41106778 TATTTTTAAATGAATATTTTTA
1 TATTTTTAAATGAATATTTTTA
41106800 TATTT
1 TATTT
41106805 ATACGTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 6 0.23
23 13 0.50
24 7 0.27
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (22 bp):
TATTTTTAAATGAATATTTTTA
Found at i:41106864 original size:3 final size:3
Alignment explanation
Indices: 41106849--41106890 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
41106839 ATTTACATTT
*
41106849 TTA TTA -TA TTTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
41106891 CTATATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.89
4 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:41119129 original size:44 final size:44
Alignment explanation
Indices: 41119081--41119514 Score: 129
Period size: 44 Copynumber: 9.9 Consensus size: 44
41119071 GCAGAGTGGG
*
41119081 TTGAAAATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGA
1 TTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
* ** * * *
41119125 TTGAAGACGGCAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGTAGA
1 TTGAAAATTGTAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGTAGA
* * ** * * * * * * * *
41119169 TTTAAGCCA-TCAAG-CCTTGTATCTCTGAGCAGCAGCGGAGTAGG
1 TTGAA--AATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
* *
41119213 TTGAAAATTGTAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
* * * * * * * *
41119257 TCGAAGATGGCAAATCTTATCTTTCC-AAGTAGTAG-GAAGTAGA
1 TTGAAAATTGTAGATCTTATC-TCCCTAAGCAGTAGTGGAGTAGA
* * *** * * * ** *
41119300 TTTAAGCCA-CCAAG-CCTTGTCTCCCTGAGCAGTAGCAGAGTAGG
1 TTGAA--AATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
* *
41119344 TTGAAAATTGTAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGA
1 TTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
* * * * * * * *
41119388 TCGAAGATGGCAAATCTTATCTTTCC-AAGTAGTAG-GAAGTAGA
1 TTGAAAATTGTAGATCTTATC-TCCCTAAGCAGTAGTGGAGTAGA
* * *** * * * ** *
41119431 TTTAAGCCA-CCAAG-CCTTGTCTCCCTGAGCAGTAGCAGAGTAGG
1 TTGAA--AATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
41119475 TTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAG
41119515 CATATCAAAG
Statistics
Matches: 258, Mismatches: 108, Indels: 48
0.62 0.26 0.12
Matches are distributed among these distances:
42 13 0.05
43 54 0.21
44 174 0.67
45 14 0.05
46 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (44 bp):
TTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
Found at i:41119284 original size:132 final size:132
Alignment explanation
Indices: 41119044--41120038 Score: 1490
Period size: 132 Copynumber: 7.6 Consensus size: 132
41119034 AGATCAAAGA
* * * * *
41119044 CACCAAGCCTTCTCTCCTTGAGTAGCAGCAGAGTGGGTTGAAAATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
* * ** *
41119109 GTAGTAGTGGAGTAGATTGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
41119174 GC
131 GC
* * * *
41119176 CATCAAGCCTTGTATCTCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATTTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
* * * *
41119241 GCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTTCCAAG-TAGTAGGAAGTAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
41119305 GC
131 GC
* * *
41119307 CACCAAGCCTTGTCTCCCTGAGCAGTAGCAGAGTAGGTTGAAAATTGTAGATCTTATCTCCTTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
* * * *
41119372 GCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTTCCAAG-TAGTAGGAAGTAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
41119436 GC
131 GC
* *
41119438 CACCAAGCCTTGTCTCCCTGAGCAGTAGCAGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
* * *
41119503 GCAGTAGTGGAGCATATCAAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAAATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
*
41119568 GA
131 GC
* *
41119570 CACCAAGCCTTGTATCCCTGAGCAGCAGCGGAGTAGGTTGAAAACTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
*
41119635 GCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
41119700 GC
131 GC
* * * * **
41119702 CACCAAGTCTTATCTCCTTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAAATCTTATCTTACTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
* * * *
41119767 GCAGTAGTGGAGTAGATCAAAGATGACAAATCTTATCTTTCCAAGATAGTGGAAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
41119832 GC
131 GC
* *
41119834 CACCAAGCCTTGTCTCCCTGAGCAGCAACGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
* ** *
41119899 GCAGTAATGGAGCAGATCAAAGACGAAAAATCTTATCTTTCTAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
*
41119964 CC
131 GC
** *
41119966 CACCAAGCCTTGTCTCATTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
41120031 GCAGTAGT
66 GCAGTAGT
41120039 AGCGGAGTAG
Statistics
Matches: 793, Mismatches: 69, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
131 249 0.31
132 544 0.69
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:41119668 original size:44 final size:44
Alignment explanation
Indices: 41119488--41119672 Score: 112
Period size: 44 Copynumber: 4.2 Consensus size: 44
41119478 AAAATTGTAG
*
41119488 ATCTTATCTCCCTAAGCAGTAGTGGAGCATATCAAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGA
* * ** * *
41119532 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAAATTTAAGAC-ACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCAAAGACGGCGA
* * * * * * * * * * *
41119575 AGCCTTGTATCCCTGAGCAGCAGCGGAGTAGGTTGAAA-ACTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCA-GATCAAAGACGGCGA
41119619 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGA
41119664 ATCTTATCT
1 ATCTTATCT
41119673 TTCCAAGATA
Statistics
Matches: 98, Mismatches: 31, Indels: 24
0.64 0.20 0.16
Matches are distributed among these distances:
42 4 0.04
43 14 0.14
44 67 0.68
45 11 0.11
46 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGA
Found at i:41120046 original size:47 final size:47
Alignment explanation
Indices: 41119992--41120083 Score: 184
Period size: 47 Copynumber: 2.0 Consensus size: 47
41119982 ATTGAGCAGC
41119992 AGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
1 AGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
41120039 AGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTA
1 AGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTA
41120084 ATGAAGCAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (47 bp):
AGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
Found at i:41120069 original size:179 final size:179
Alignment explanation
Indices: 41119862--41120217 Score: 613
Period size: 179 Copynumber: 2.0 Consensus size: 179
41119852 TGAGCAGCAA
*
41119862 CGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAAAGACGAAA
1 CGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAATGAAGCAGATCAAAGACGAAA
* * * *
41119927 AATCTTATCTTTCTAAGATAGTGGGAAGCAGATTTAACCCACCAAGCCTTGTCTCATTGAGCAGC
66 AATCTTATCTTTCCAAGATAGTGGAAAGCAGATTTAACCCACCAAGCCTTGTCTCACTAAGCAGC
*
41119992 AGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTAG
131 AGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTAG
* *
41120041 CGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAATGAAGCAGATCAAAGACTACA
1 CGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAATGAAGCAGATCAAAGACGAAA
* *
41120106 AATCTTATCTTTCCAAGATAGTGGAAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGC
66 AATCTTATCTTTCCAAGATAGTGGAAAGCAGATTTAACCCACCAAGCCTTGTCTCACTAAGCAGC
*
41120171 AGCAGAGTAGGTTGAAGATTGTAGATGTTATCTCCCTAAGCAGTAGT
131 AGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
41120218 GGAGCAGATC
Statistics
Matches: 166, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
179 166 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (179 bp):
CGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAATGAAGCAGATCAAAGACGAAA
AATCTTATCTTTCCAAGATAGTGGAAAGCAGATTTAACCCACCAAGCCTTGTCTCACTAAGCAGC
AGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTAG
Found at i:41120206 original size:132 final size:128
Alignment explanation
Indices: 41120043--41120291 Score: 372
Period size: 132 Copynumber: 1.9 Consensus size: 128
41120033 AGTAGTAGCG
* *
41120043 GAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAATGAAGCAGATCAAAGACTACAAA
1 GAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAATGAAGCAGATCAAAGACAAAAAA
*
41120108 TCTTATCTTTCCAAGATAGTGGAAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGCAG
66 TCTTATC--T--AAGATAGTGGAAAGCAGATTTAAGCCAACAAGCCTTGTCTCCCTAAGCAGCAG
41120173 CA
127 CA
* * * *
41120175 GAGTAGGTTGAAGATTGTAGATGTTATCTCCCTAAGCAGTAGTGGAGCAGATCCAAGACAAAAAA
1 GAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAATGAAGCAGATCAAAGACAAAAAA
* * *
41120240 TCTTATCTAAGATAGTGGGAAGCAGATTTAAGCCAATAGGCCTTGTCTCCCT
66 TCTTATCTAAGATAGTGGAAAGCAGATTTAAGCCAACAAGCCTTGTCTCCCT
41120292 GAAGTTGCAG
Statistics
Matches: 107, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
128 40 0.37
130 1 0.01
132 66 0.62
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (128 bp):
GAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAATGAAGCAGATCAAAGACAAAAAA
TCTTATCTAAGATAGTGGAAAGCAGATTTAAGCCAACAAGCCTTGTCTCCCTAAGCAGCAGCA
Found at i:41120338 original size:44 final size:44
Alignment explanation
Indices: 41120285--41120398 Score: 160
Period size: 44 Copynumber: 2.6 Consensus size: 44
41120275 ATAGGCCTTG
* *
41120285 TCTCCCTGAAGTTGCAGTAGAGCAGGTTAAAGCCGATA-ATCTTA
1 TCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACC-ATAGATCTTA
* * *
41120329 TCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACCTTAGATCTTA
1 TCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCATAGATCTTA
41120373 TCTCCCTGAAGTTGCAG-AGAGCAGAT
1 TCTCCCTGAAGTTGCAGTAGAGCAGAT
41120399 CGCATTTAGC
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
43 9 0.15
44 53 0.85
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
TCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCATAGATCTTA
Found at i:41122214 original size:14 final size:15
Alignment explanation
Indices: 41122195--41122224 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
41122185 TTTACTGACT
41122195 TATTTT-TTCATTTA
1 TATTTTGTTCATTTA
41122209 TATTTTGTTCATTTA
1 TATTTTGTTCATTTA
41122224 T
1 T
41122225 TTGATATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (15 bp):
TATTTTGTTCATTTA
Found at i:41124177 original size:30 final size:29
Alignment explanation
Indices: 41124093--41124184 Score: 87
Period size: 30 Copynumber: 3.1 Consensus size: 29
41124083 ACATGTGGCA
* * *
41124093 AAAAATAATAAAAAAATAAATAAAAATTAT
1 AAAAATTATTAAAAATTAAA-AAAAATTAT
**
41124123 AAAAATTATTAAATTTTAATAAAAATATT-T
1 AAAAATTATTAAAAATTAA-AAAAA-ATTAT
*
41124153 AAAAGTTATTAAAAATTAAAAAAAAATTAT
1 AAAAATTATTAAAAATT-AAAAAAAATTAT
41124183 AA
1 AA
41124185 CATTTTATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
29 3 0.06
30 41 0.82
31 6 0.12
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (29 bp):
AAAAATTATTAAAAATTAAAAAAAATTAT
Found at i:41124221 original size:29 final size:27
Alignment explanation
Indices: 41124189--41124270 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 27
41124179 TTATAACATT
41124189 TTATAAAAATTATAAAATATAGCAAAAAA
1 TTATAAAAATTATAAAATATA--AAAAAA
* * *
41124218 TTATAAAATTTTATAAAGTCGTAAAAAAA
1 TTATAAAA-ATTATAAAAT-ATAAAAAAA
41124247 TTATAAAAATTA-AGAAATATAAAA
1 TTATAAAAATTATA-AAATATAAAA
41124271 TTCGTAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
27 6 0.14
28 6 0.14
29 22 0.50
30 8 0.18
31 2 0.05
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.30
Consensus pattern (27 bp):
TTATAAAAATTATAAAATATAAAAAAA
Found at i:41124225 original size:10 final size:10
Alignment explanation
Indices: 41124092--41124225 Score: 62
Period size: 10 Copynumber: 13.4 Consensus size: 10
41124082 GACATGTGGC
*
41124092 AAAAAATAAT
1 AAAAAATTAT
* *
41124102 AAAAAAATAA
1 AAAAAATTAT
41124112 ATAAAAATTAT
1 A-AAAAATTAT
41124123 -AAAAATTAT
1 AAAAAATTAT
* **
41124132 TAAATTTTAAT
1 AAAAAATT-AT
41124143 AAAAATATT-T
1 AAAAA-ATTAT
*
41124153 -AAAAGTTAT
1 AAAAAATTAT
* *
41124162 TAAAAATTAAA
1 AAAAAATT-AT
41124173 AAAAAATTAT
1 AAAAAATTAT
* **
41124183 AACATTTTAT
1 AAAAAATTAT
41124193 -AAAAATTAT
1 AAAAAATTAT
* *
41124202 AAAATA-TAGC
1 AAAAAATTA-T
41124212 AAAAAATTAT
1 AAAAAATTAT
41124222 AAAA
1 AAAA
41124226 TTTTATAAAG
Statistics
Matches: 89, Mismatches: 25, Indels: 20
0.66 0.19 0.15
Matches are distributed among these distances:
8 2 0.02
9 22 0.25
10 41 0.46
11 22 0.25
12 2 0.02
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:41124290 original size:10 final size:9
Alignment explanation
Indices: 41124112--41124295 Score: 79
Period size: 9 Copynumber: 19.2 Consensus size: 9
41124102 AAAAAAATAA
41124112 ATAAAAATT
1 ATAAAAATT
41124121 ATAAAAATT
1 ATAAAAATT
**
41124130 ATTAAATTTT
1 A-TAAAAATT
41124140 AATAAAAATAT
1 -ATAAAAAT-T
* *
41124151 TTAAAAGTT
1 ATAAAAATT
41124160 ATTAAAAATT
1 A-TAAAAATT
*
41124170 AAAAAAAAATT
1 --ATAAAAATT
**
41124181 ATAACATTTT
1 ATAA-AAATT
41124191 ATAAAAATT
1 ATAAAAATT
41124200 AT-AAAATAT
1 ATAAAAAT-T
*
41124209 AGCAAAAAATT
1 A--TAAAAATT
41124220 AT-AAAATT
1 ATAAAAATT
* *
41124228 TTATAAAGTCGT
1 ATA-AAAAT--T
*
41124240 AAAAAAATT
1 ATAAAAATT
41124249 ATAAAAATT
1 ATAAAAATT
*
41124258 A-AGAAA-T
1 ATAAAAATT
*
41124265 ATAAAATTCGT
1 ATAAAAAT--T
*
41124276 AAAAAAATT
1 ATAAAAATT
41124285 ATAAAAATT
1 ATAAAAATT
41124294 AT
1 AT
41124296 TGTATCTCGT
Statistics
Matches: 128, Mismatches: 28, Indels: 38
0.66 0.14 0.20
Matches are distributed among these distances:
7 2 0.02
8 19 0.15
9 42 0.33
10 35 0.27
11 22 0.17
12 8 0.06
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:41135188 original size:93 final size:93
Alignment explanation
Indices: 41135034--41135204 Score: 220
Period size: 93 Copynumber: 1.8 Consensus size: 93
41135024 TATCGCATGA
* *** * *
41135034 GTTCAATGGGAACTGGTAGCCCTTTTGGTTCGGTACATTTCCAAGAACTAGGGGTTAAATGAAC-
1 GTTCAATGGGAACTGGTAGCCCTTTTGGTCCAACACATTCCCAAGAACTAGGGATTAAATG-ACT
41135098 C-AAAAGAAAACGGTTTAAGGTCATACAG
65 CTAAAAGAAAACGGTTTAAGGTCATACAG
* * * *
41135126 GTTCAATGGGGTACTGGTAGCCCTTTTGGTCCAACACGTTCCCAAGAACTAGTGATTCAATGACT
1 GTTCAAT-GGGAACTGGTAGCCCTTTTGGTCCAACACATTCCCAAGAACTAGGGATTAAATGACT
41135191 CTAAAAGAAAACGG
65 CTAAAAGAAAACGG
41135205 GTCATCGAAG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
92 9 0.14
93 45 0.68
94 12 0.18
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (93 bp):
GTTCAATGGGAACTGGTAGCCCTTTTGGTCCAACACATTCCCAAGAACTAGGGATTAAATGACTC
TAAAAGAAAACGGTTTAAGGTCATACAG
Found at i:41137349 original size:8 final size:8
Alignment explanation
Indices: 41137332--41137366 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
41137322 TCAATGTCAA
*
41137332 ATATAAAT
1 ATATACAT
41137340 ATATACAT
1 ATATACAT
41137348 ATATACAT
1 ATATACAT
41137356 ATATACAT
1 ATATACAT
41137364 ATA
1 ATA
41137367 CATTATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (8 bp):
ATATACAT
Found at i:41150298 original size:114 final size:115
Alignment explanation
Indices: 41150154--41150449 Score: 364
Period size: 114 Copynumber: 2.6 Consensus size: 115
41150144 GTTTATTTGT
* * * *
41150154 AAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAAAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGC
* * **
41150219 GTTTTCAAGAAAACGCTGCTAAAGAACAGTATTAGCGGCGTTTGAC-AAC
66 GCTTTCAAGAAAACGCCGCTAAAGAACAGTATTAGCGGCGCCTGACGAAC
* * *
41150268 AAGCGCCGCAAAAGATCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGAGTTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGC
** * * *
41150333 GCTTTGGAGAACACGCCGCTAAAGCACAGTATTAGCGGCGCCTGTCTGAAC
66 GCTTTCAAGAAAACGCCGCTAAAGAACAGTATTAGCGGCGCCTGAC-GAAC
* * * * * *
41150384 --GCGCTGCAAAATATCTTATCTAAAACGCAGCTTTTAGTCTTGAGGTAGATTAGAATTAGCGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGC
41150447 GCT
66 GCT
41150450 AGGAAAAACG
Statistics
Matches: 155, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
114 152 0.98
116 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (115 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGC
GCTTTCAAGAAAACGCCGCTAAAGAACAGTATTAGCGGCGCCTGACGAAC
Found at i:41150486 original size:72 final size:73
Alignment explanation
Indices: 41150385--41150521 Score: 188
Period size: 72 Copynumber: 1.9 Consensus size: 73
41150375 TGTCTGAACG
* * * * *
41150385 CGCTGCAAAATATCTTATCTAAAACGCAGCTTTTAGTCTTGAGGTAG-ATTAGAATTAGCGGCGC
1 CGCTGCAAAATATCTTAACCAAAACGCAGCGTTCAGTCTTGAGGT-GTATAAGAATTAGCGGCGC
41150449 TAGGAAAAA
65 TAGGAAAAA
* *
41150458 CGCTGCAAAA-ATCTTAACCAAAACGCAGCGTTCGGTCTTGAGGTGTATAAGAATTAGGGGCGCT
1 CGCTGCAAAATATCTTAACCAAAACGCAGCGTTCAGTCTTGAGGTGTATAAGAATTAGCGGCGCT
41150522 TGACAATAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
71 1 0.02
72 45 0.80
73 10 0.18
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (73 bp):
CGCTGCAAAATATCTTAACCAAAACGCAGCGTTCAGTCTTGAGGTGTATAAGAATTAGCGGCGCT
AGGAAAAA
Found at i:41151683 original size:21 final size:21
Alignment explanation
Indices: 41151645--41151711 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
41151635 GGTTTTGACT
* *
41151645 TTTAGGGTTTGAGATTTGGGG
1 TTTAGGGTTTGGGGTTTGGGG
*
41151666 TTTAGGGTTTGGGGTTTGGAG
1 TTTAGGGTTTGGGGTTTGGGG
* **
41151687 TTT-GGTTTTGGGGTTTAAGG
1 TTTAGGGTTTGGGGTTTGGGG
41151707 TTTAG
1 TTTAG
41151712 AATTTATGAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 16 0.42
21 22 0.58
ACGTcount: A:0.12, C:0.00, G:0.42, T:0.46
Consensus pattern (21 bp):
TTTAGGGTTTGGGGTTTGGGG
Found at i:41151702 original size:13 final size:14
Alignment explanation
Indices: 41151649--41151702 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
41151639 TTGACTTTTA
* *
41151649 GGGTTTGAGATTTG
1 GGGTTTGGGGTTTG
*
41151663 GGGTTTAGGGTTTG
1 GGGTTTGGGGTTTG
*
41151677 GGGTTTGGAGTTT-
1 GGGTTTGGGGTTTG
*
41151690 GGTTTTGGGGTTT
1 GGGTTTGGGGTTT
41151703 AAGGTTTAGA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
13 11 0.33
14 22 0.67
ACGTcount: A:0.07, C:0.00, G:0.46, T:0.46
Consensus pattern (14 bp):
GGGTTTGGGGTTTG
Found at i:41152378 original size:228 final size:228
Alignment explanation
Indices: 41151981--41152441 Score: 913
Period size: 228 Copynumber: 2.0 Consensus size: 228
41151971 GTACATGAAC
41151981 GTTAATTTGATCAAAATCTTGTAAAATAATAAGACAATTATTGATATAATTAACATCATTTTTTA
1 GTTAATTTGATCAAAATCTTGTAAAATAATAAGACAATTATTGATATAATTAACATCATTTTTTA
41152046 TTTATATATTGCATACATAAATATTTATATTGATTCAACATAAAAATAGATTGATGGATTTATTT
66 TTTATATATTGCATACATAAATATTTATATTGATTCAACATAAAAATAGATTGATGGATTTATTT
41152111 TTTAAAACGCGAATTTATTTTTTTAAAATGTATTATTCTCTCCTTTTATTTATTATTAAATTTTC
131 TTTAAAACGCGAATTTATTTTTTTAAAATGTATTATTCTCTCCTTTTATTTATTATTAAATTTTC
41152176 CATTTTATAACTTTGGTTTTAATTTTGGATCAA
196 CATTTTATAACTTTGGTTTTAATTTTGGATCAA
41152209 GTTAATTTGATCAAAATCTTGTAAAATAATAAGACAATTATTGATATAATTAACATCATTTTTTA
1 GTTAATTTGATCAAAATCTTGTAAAATAATAAGACAATTATTGATATAATTAACATCATTTTTTA
41152274 TTTATATATTGCATACATAAATATTTATATTGATTCAACATAAAAATAGATTGATGGATTTATTT
66 TTTATATATTGCATACATAAATATTTATATTGATTCAACATAAAAATAGATTGATGGATTTATTT
41152339 TTTAAAACGCGAATTTATTTTTTTAAAATGTATTATTCTCTCCTTTTATTTATTATTAAATTTTC
131 TTTAAAACGCGAATTTATTTTTTTAAAATGTATTATTCTCTCCTTTTATTTATTATTAAATTTTC
41152404 CATTTTATAACTTTGGTTTTAATTTTGGATCAA
196 CATTTTATAACTTTGGTTTTAATTTTGGATCAA
*
41152437 TTTAA
1 GTTAA
41152442 CTTCAATCTT
Statistics
Matches: 232, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
228 232 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (228 bp):
GTTAATTTGATCAAAATCTTGTAAAATAATAAGACAATTATTGATATAATTAACATCATTTTTTA
TTTATATATTGCATACATAAATATTTATATTGATTCAACATAAAAATAGATTGATGGATTTATTT
TTTAAAACGCGAATTTATTTTTTTAAAATGTATTATTCTCTCCTTTTATTTATTATTAAATTTTC
CATTTTATAACTTTGGTTTTAATTTTGGATCAA
Found at i:41155402 original size:15 final size:16
Alignment explanation
Indices: 41155365--41155408 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
41155355 TATAAATATT
*
41155365 TATATACATTTTTAATA
1 TATATA-ATTTTTAAAA
41155382 TATAT-ATTTTTAAAA
1 TATATAATTTTTAAAA
*
41155397 TCTATAATTTTT
1 TATATAATTTTT
41155409 TCAAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.54
16 6 0.25
17 5 0.21
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATTTTTAAAA
Found at i:41155551 original size:12 final size:12
Alignment explanation
Indices: 41155536--41155594 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
41155526 TATATAGAAT
41155536 CTTATATAATAA
1 CTTATATAATAA
41155548 CTTATATAATAA
1 CTTATATAATAA
*
41155560 CATACAATATAATAA
1 C-T--TATATAATAA
*
41155575 CTTATA-CATAA
1 CTTATATAATAA
*
41155586 CTTAAATAA
1 CTTATATAA
41155595 CATACAATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
11 9 0.24
12 17 0.45
13 1 0.03
14 1 0.03
15 10 0.26
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.36
Consensus pattern (12 bp):
CTTATATAATAA
Found at i:41155657 original size:9 final size:9
Alignment explanation
Indices: 41155645--41156091 Score: 287
Period size: 9 Copynumber: 48.8 Consensus size: 9
41155635 ATACATGGCC
41155645 TACATAACT
1 TACATAACT
41155654 TACATAACT
1 TACATAACT
41155663 TACATAACT
1 TACATAACT
*
41155672 TAAATAACT
1 TACATAACT
41155681 TACATAA--
1 TACATAACT
41155688 TACATAACCT
1 TACATAA-CT
*
41155698 T-CCTAACT
1 TACATAACT
* * *
41155706 TAAATTATT
1 TACATAACT
41155715 TACATAA--
1 TACATAACT
41155722 TACATAACTT
1 TACATAAC-T
41155732 AGTACATAACT
1 --TACATAACT
*
41155743 TACATAATTTTTT
1 TACATAA----CT
*
41155756 CTAAATAACT
1 -TACATAACT
**
41155766 TACATAAAA
1 TACATAACT
*
41155775 TAAATAACT
1 TACATAACT
41155784 TACATAACT
1 TACATAACT
*
41155793 TACATAAAT
1 TACATAACT
*
41155802 TAAATAACT
1 TACATAACT
41155811 TACATAACT
1 TACATAACT
*
41155820 TAAATAACT
1 TACATAACT
41155829 TACATAACT
1 TACATAACT
41155838 TACATAA--
1 TACATAACT
41155845 TACATAACTT
1 TACATAAC-T
41155855 AGTACATAACT
1 --TACATAACT
*
41155866 TACATAATTTTTT
1 TACATAA----CT
*
41155879 CTAAATAACT
1 -TACATAACT
41155889 TACATAACT
1 TACATAACT
*
41155898 TACATAAAT
1 TACATAACT
*
41155907 TAAATAACT
1 TACATAACT
*
41155916 TAAATAACT
1 TACATAACT
*
41155925 TACAT-A-G
1 TACATAACT
41155932 TACATAACCT
1 TACATAA-CT
*
41155942 T-CCTAACT
1 TACATAACT
* *
41155950 TACATTATT
1 TACATAACT
*
41155959 TAGATAA--
1 TACATAACT
* *
41155966 TACATAGCC
1 TACATAACT
41155975 TACATAACTT
1 TACATAAC-T
*
41155985 ATATATAAACT
1 -TACAT-AACT
*
41155996 TACATAAAT
1 TACATAACT
*
41156005 TAAATAACT
1 TACATAACT
41156014 TACATAACT
1 TACATAACT
41156023 TACATAACT
1 TACATAACT
*
41156032 CACATAA--
1 TACATAACT
*
41156039 TACACAACT
1 TACATAACT
41156048 TACATAACT
1 TACATAACT
41156057 TACATAA--
1 TACATAACT
*
41156064 TACAGAACTT
1 TACATAAC-T
41156074 AGTACATAACT
1 --TACATAACT
41156085 TACATAA
1 TACATAA
41156092 TACATAAAAA
Statistics
Matches: 341, Mismatches: 57, Indels: 80
0.71 0.12 0.17
Matches are distributed among these distances:
7 42 0.12
8 8 0.02
9 235 0.69
10 8 0.02
11 8 0.02
12 26 0.08
13 2 0.01
14 12 0.04
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.34
Consensus pattern (9 bp):
TACATAACT
Found at i:41155872 original size:123 final size:121
Alignment explanation
Indices: 41155657--41155971 Score: 398
Period size: 123 Copynumber: 2.6 Consensus size: 121
41155647 CATAACTTAC
* * ** * *
41155657 ATAACTTACATAACTTAAATAACTTACATAATACATAACCTTCCTAACTTAAATTATTTACATAA
1 ATAACTTACATAACTTAAATAAATTAAATAATACATAACCTTAATAACTTAAATAACTTACATAA
41155722 TACATAACTTAGTACATAACTTACATAATTTTTTCTAAATAACTTACATAAAATAA
66 TACATAACTTAGTACATAACTTACATAATTTTTTCTAAATAACTTACATAAAATAA
* *
41155778 ATAACTTACATAACTTACATAAATTAAATAACTTACATAA-CTTAAATAACTTACATAACTTACA
1 ATAACTTACATAACTTAAATAAATTAAATAA--TACATAACCTT-AATAACTTAAATAACTTACA
** *
41155842 TAATACATAACTTAGTACATAACTTACATAATTTTTTCTAAATAACTTACATAACTTAC
63 TAATACATAACTTAGTACATAACTTACATAATTTTTTCTAAATAACTTACATAAAATAA
* * * * * ** * * * *
41155901 ATAAATTAAATAACTTAAATAACTTACATAGTACATAACCTTCCTAACTTACATTATTTAGATAA
1 ATAACTTACATAACTTAAATAAATTAAATAATACATAACCTTAATAACTTAAATAACTTACATAA
41155966 TACATA
66 TACATA
41155972 GCCTACATAA
Statistics
Matches: 168, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
121 59 0.35
122 6 0.04
123 103 0.61
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.36
Consensus pattern (121 bp):
ATAACTTACATAACTTAAATAAATTAAATAATACATAACCTTAATAACTTAAATAACTTACATAA
TACATAACTTAGTACATAACTTACATAATTTTTTCTAAATAACTTACATAAAATAA
Found at i:41159205 original size:43 final size:43
Alignment explanation
Indices: 41159144--41159254 Score: 186
Period size: 43 Copynumber: 2.6 Consensus size: 43
41159134 NNNNNNNNNN
* *
41159144 GCTATAGATCGTGGTCTTTAGCGGCGTTTGTGGGAGAAGTGTC
1 GCTATAGATCGTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGTC
*
41159187 GCTATAGATCGTGGTCTTTAGCGGCGTTTGTTGGAAAAGCGTC
1 GCTATAGATCGTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGTC
*
41159230 GCTATAGATCGTGGGCTTTAGCGGC
1 GCTATAGATCGTGGTCTTTAGCGGC
41159255 ATTTTTTATA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.17, C:0.16, G:0.35, T:0.32
Consensus pattern (43 bp):
GCTATAGATCGTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGTC
Found at i:41159546 original size:42 final size:42
Alignment explanation
Indices: 41159485--41159600 Score: 196
Period size: 42 Copynumber: 2.8 Consensus size: 42
41159475 CCGCTAAAGA
* *
41159485 CGCTAAAAAACATGATCTTTAGCGGCGTTTTTCTCTAAGCGC
1 CGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCTAAGCGC
* *
41159527 CTCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCGC
1 CGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCTAAGCGC
41159569 CGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 CGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
41159601 GTTTGTAAAC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (42 bp):
CGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCTAAGCGC
Found at i:41160806 original size:43 final size:41
Alignment explanation
Indices: 41160694--41160819 Score: 180
Period size: 42 Copynumber: 3.0 Consensus size: 41
41160684 GTTTACAAAT
*
41160694 AAAAACGCCGCTAAAGGTCATGTTTTTTAGCGGCGCTTGGAA
1 AAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTT-GAA
* *
41160736 AAAAACGCCTCTAAATGTCATGTTCTTTAGCGGCGCTTGAA
1 AAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTGAA
* *
41160777 AACCAAACACCGCTAAAGGTTATGTTCTTTAGCGGCGCTTGAA
1 AA--AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTGAA
41160820 TTCTTTAGCA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 5 0.07
42 35 0.47
43 35 0.47
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTGAA
Found at i:41161995 original size:2 final size:2
Alignment explanation
Indices: 41161988--41162012 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
41161978 CATAAAACTG
41161988 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
41162013 TGACAATCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:41166493 original size:15 final size:15
Alignment explanation
Indices: 41166473--41166547 Score: 77
Period size: 15 Copynumber: 5.1 Consensus size: 15
41166463 TCGACCCCTG
41166473 AATCCCTAAACCTTA
1 AATCCCTAAACCTTA
41166488 AATCCCT-AACTCTT-
1 AATCCCTAAAC-CTTA
*
41166502 AACCCCTAAACCCTT-
1 AATCCCTAAA-CCTTA
*
41166517 AACCCCTAAACCTTA
1 AATCCCTAAACCTTA
*
41166532 AATCCC-AACCCTTA
1 AATCCCTAAACCTTA
41166546 AA
1 AA
41166548 CCATGATCCC
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
14 22 0.42
15 30 0.57
16 1 0.02
ACGTcount: A:0.37, C:0.39, G:0.00, T:0.24
Consensus pattern (15 bp):
AATCCCTAAACCTTA
Found at i:41166586 original size:15 final size:15
Alignment explanation
Indices: 41166544--41166590 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
41166534 TCCCAACCCT
*
41166544 TAAA-CCATGATCCC
1 TAAATCCATAATCCC
*
41166558 T-AATTCATAATCCC
1 TAAATCCATAATCCC
*
41166572 TAAATCCATACTCCC
1 TAAATCCATAATCCC
41166587 TAAA
1 TAAA
41166591 CCTTAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 2 0.07
14 10 0.37
15 15 0.56
ACGTcount: A:0.38, C:0.32, G:0.02, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:41166854 original size:15 final size:15
Alignment explanation
Indices: 41166831--41166860 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
41166821 ACCCCTAATT
41166831 CATAATCCCTAAACC
1 CATAATCCCTAAACC
*
41166846 CATACTCCCTAAACC
1 CATAATCCCTAAACC
41166861 TTAAAATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.20
Consensus pattern (15 bp):
CATAATCCCTAAACC
Found at i:41167449 original size:114 final size:113
Alignment explanation
Indices: 41167106--41167547 Score: 665
Period size: 113 Copynumber: 3.9 Consensus size: 113
41167096 TAAATTATTT
*
41167106 TTAGCGGCGCTTT-TCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
1 TTAGCGGCGCTTTCT-TAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
*
41167170 TTAGGTTTTCTTGCGGCGCTTT-CCAAAAACGCCGCTAAAGCCCTGAGCG
65 TTAGGTTTT-TTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
* * *
41167219 CTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCGT-GTTGGACT
1 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
41167283 TAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
66 TAGG-TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
* * * *
41167332 TTAGCGGCGCGTTCTTAAAAACGCCGCTAAATCGCTGAAAGCTCAGAAAACGGCGTCATTGGGCT
1 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
* *
41167397 TAGGATTTTTTACAGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
66 TAGG-TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
* * ** **
41167446 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCGGGAAACGATGTCGTTTCGCT
1 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
*
41167511 TAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
66 TAGGTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAA
41167548 TGCTTATTTT
Statistics
Matches: 297, Mismatches: 28, Indels: 8
0.89 0.08 0.02
Matches are distributed among these distances:
112 23 0.08
113 162 0.55
114 112 0.38
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (113 bp):
TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
TAGGTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
Found at i:41167521 original size:227 final size:225
Alignment explanation
Indices: 41167106--41167547 Score: 678
Period size: 227 Copynumber: 2.0 Consensus size: 225
41167096 TAAATTATTT
*
41167106 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
1 TTAGCGGCGCTTTT-CAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGGGCT
* * *
41167171 TAGGTTTTCTTGCGGCGCTTTCCAAAAACGCCGCTAAAGCCCTGAGCGCTAGCGGCGCTTTCTTA
65 TAGGTTTTCTTACAGCGCTTTCCAAAAACGCCGCTAAAGCCCTGAGCACTAGCGGCGCTTTCTTA
*
41167236 AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCGTGTTGGACTTAGGTTTTTTTGCGGCGC
130 AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCGTGTTCGACTTAGGTTTTTTTGCGGCGC
41167301 TTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
195 TTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
* *
41167332 TTAGCGGCGCGTTCTT-AAAAACGCCGCTAAATCGCTGAAAGCTCAGAAAACGGCGTCATTGGGC
1 TTAGCGGCGC-TT-TTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGGGC
*
41167396 TTAGGATTTT-TTACAGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTC
64 TTAGG-TTTTCTTACAGCGCTTT-CCAAAAACGCCGCTAAAGCCCTGAGCACTAGCGGCGCTTTC
* *
41167460 TTAAAAACGCCGCTAAATCCCCGAAAGCTCGGGAAACGATGTCGT-TTCG-CTTAGG-TTTTTTG
127 TTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC-A-G-CGTGTTCGACTTAGGTTTTTTTG
*
41167522 CGGCGCTTTCTCAAAAACGCCGCTAA
189 CGGCGCTTTCCCAAAAACGCCGCTAA
41167548 TGCTTATTTT
Statistics
Matches: 198, Mismatches: 11, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
226 70 0.35
227 112 0.57
228 9 0.05
229 4 0.02
230 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (225 bp):
TTAGCGGCGCTTTTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGGGCTT
AGGTTTTCTTACAGCGCTTTCCAAAAACGCCGCTAAAGCCCTGAGCACTAGCGGCGCTTTCTTAA
AAACGCCGCTAAATCCCCGAAAGCTCAGAAAACAGCGTGTTCGACTTAGGTTTTTTTGCGGCGCT
TTCCCAAAAACGCCGCTAAAGCCCTGAGCA
Found at i:41168464 original size:20 final size:21
Alignment explanation
Indices: 41168424--41168470 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
41168414 TATAATGATA
41168424 ATAATAATAATAAAACAAATT
1 ATAATAATAATAAAACAAATT
41168445 -TAATAATAATAAAA-ATAATT
1 ATAATAATAATAAAACA-AATT
41168465 ATAATA
1 ATAATA
41168471 GTTACCATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.04
20 18 0.75
21 5 0.21
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
ATAATAATAATAAAACAAATT
Found at i:41169224 original size:44 final size:44
Alignment explanation
Indices: 41169174--41169262 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
41169164 CCAAAACGAC
*
41169174 GTCGTTTTGGGGCATTTTGGAACACCTCTAAACAATTCCATTTT
1 GTCGTTTTGGGGCATTTTGGAACACCTCTAAACAATGCCATTTT
* *
41169218 GTCGTTTTGGGGCATTTTGGAGCACCTCTAAACGATGCCATTTT
1 GTCGTTTTGGGGCATTTTGGAACACCTCTAAACAATGCCATTTT
41169262 G
1 G
41169263 GCACCCTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (44 bp):
GTCGTTTTGGGGCATTTTGGAACACCTCTAAACAATGCCATTTT
Found at i:41169908 original size:14 final size:15
Alignment explanation
Indices: 41169871--41169902 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
41169861 TGTAATGGAC
41169871 TGGACTTTTAA-TAT
1 TGGACTTTTAATTAT
41169885 TGGACTTTTAATTAT
1 TGGACTTTTAATTAT
41169900 TGG
1 TGG
41169903 GTTTTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (15 bp):
TGGACTTTTAATTAT
Found at i:41170277 original size:44 final size:44
Alignment explanation
Indices: 41170229--41170367 Score: 142
Period size: 45 Copynumber: 3.2 Consensus size: 44
41170219 GACCCACTAT
41170229 AACTTTAAAAGGATAAAATTTGTAGCTTTAATCTGCTCTACTGC
1 AACTTTAAAAGGATAAAATTTGTAGCTTTAATCTGCTCTACTGC
* * * *
41170273 AACTTT-AGAGAGATAAGATTTGCTA-TTTTCAATCTGCTCCACTGC
1 AACTTTAAAAG-GATAAAATTTG-TAGCTTT-AATCTGCTCTACTGC
* * * *
41170318 AACTTCAGGAA-GATAAAATTTGTGGCTTTAATATGCTCTACT-C
1 AACTTTA-AAAGGATAAAATTTGTAGCTTTAATCTGCTCTACTGC
41170361 AACTTTA
1 AACTTTA
41170368 GAGAGATAAG
Statistics
Matches: 76, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
43 10 0.13
44 31 0.41
45 34 0.45
47 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.36
Consensus pattern (44 bp):
AACTTTAAAAGGATAAAATTTGTAGCTTTAATCTGCTCTACTGC
Found at i:41170292 original size:92 final size:88
Alignment explanation
Indices: 41170128--41170394 Score: 245
Period size: 92 Copynumber: 3.0 Consensus size: 88
41170118 CTTCGATCTA
* * * * * ** *
41170128 CTCCACTGCAACTTT-AAAGAGATAAGACTTATAGCTTCAATCTGCTCCGCTACAACTTTAGGGA
1 CTCCACTACAACTTTAAAAG-GATAAAATTTGTAGCTTTAATCTGCTCTACT-CAACTTTAGAGA
* *
41170192 GATGAGATTTG-TGACTTAATTTAATCCG
64 GATAAGATTTGCT-A-TT--TTCAATCCG
*
41170220 AC-CCACTATAACTTTAAAAGGATAAAATTTGTAGCTTTAATCTGCTCTACTGCAACTTTAGAGA
1 -CTCCACTACAACTTTAAAAGGATAAAATTTGTAGCTTTAATCTGCTCTACT-CAACTTTAGAGA
*
41170284 GATAAGATTTGCTATTTTCAATCTG
64 GATAAGATTTGCTATTTTCAATCCG
* * * * *
41170309 CTCCACTGCAACTTCAGGAA-GATAAAATTTGTGGCTTTAATATGCTCTACTCAACTTTAGAGAG
1 CTCCACTACAACTTTA-AAAGGATAAAATTTGTAGCTTTAATCTGCTCTACTCAACTTTAGAGAG
** *
41170373 ATAAGATTCACTATCTTCAATC
65 ATAAGATTTGCTATTTTCAATC
41170395 TACTTCACTG
Statistics
Matches: 148, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
88 33 0.22
89 47 0.32
90 2 0.01
91 2 0.01
92 58 0.39
93 6 0.04
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (88 bp):
CTCCACTACAACTTTAAAAGGATAAAATTTGTAGCTTTAATCTGCTCTACTCAACTTTAGAGAGA
TAAGATTTGCTATTTTCAATCCG
Found at i:41170404 original size:88 final size:89
Alignment explanation
Indices: 41170240--41170433 Score: 273
Period size: 88 Copynumber: 2.2 Consensus size: 89
41170230 ACTTTAAAAG
* * ** *
41170240 GATAAAATTTGTAGCTTTAATCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGCTATTTTCAA
1 GATAAAATTTGTGGCTTTAATATGCTCTACTGCAACTTTAGAGAGATAAGATTCACTATCTTCAA
*
41170305 TCTGCTCCACTGCAACTTCAGGAA
66 TCTACTCCACTGCAACTTCAGGAA
41170329 GATAAAATTTGTGGCTTTAATATGCTCTACT-CAACTTTAGAGAGATAAGATTCACTATCTTCAA
1 GATAAAATTTGTGGCTTTAATATGCTCTACTGCAACTTTAGAGAGATAAGATTCACTATCTTCAA
* * ** *
41170393 TCTACTTCACTGTAACTTTTGGCA
66 TCTACTCCACTGCAACTTCAGGAA
*
41170417 GATAAGATTTGTGGCTT
1 GATAAAATTTGTGGCTT
41170434 GAAGCCGCTC
Statistics
Matches: 93, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
88 64 0.69
89 29 0.31
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (89 bp):
GATAAAATTTGTGGCTTTAATATGCTCTACTGCAACTTTAGAGAGATAAGATTCACTATCTTCAA
TCTACTCCACTGCAACTTCAGGAA
Found at i:41171911 original size:7 final size:7
Alignment explanation
Indices: 41171901--41171930 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
41171891 GAGATGAGAA
41171901 ATGAAAT
1 ATGAAAT
41171908 ATGAAAT
1 ATGAAAT
41171915 ATGAAAT
1 ATGAAAT
41171922 GATGAAAT
1 -ATGAAAT
41171930 A
1 A
41171931 AGATGTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.27
Consensus pattern (7 bp):
ATGAAAT
Found at i:41171920 original size:19 final size:19
Alignment explanation
Indices: 41171877--41171923 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
41171867 ATGACAAAGT
*
41171877 TGAGAAATG-AATATGAGA
1 TGAGAAATGAAATATGAAA
41171895 TGAGAAATGAAATATGAAA
1 TGAGAAATGAAATATGAAA
41171914 T-ATGAAATGA
1 TGA-GAAATGA
41171924 TGAAATAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.23
Consensus pattern (19 bp):
TGAGAAATGAAATATGAAA
Found at i:41171928 original size:15 final size:14
Alignment explanation
Indices: 41171901--41171930 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
41171891 GAGATGAGAA
41171901 ATGAAATATGAAAT
1 ATGAAATATGAAAT
41171915 ATGAAATGATGAAAT
1 ATGAAAT-ATGAAAT
41171930 A
1 A
41171931 AGATGTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.27
Consensus pattern (14 bp):
ATGAAATATGAAAT
Found at i:41183772 original size:25 final size:25
Alignment explanation
Indices: 41183744--41183799 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
41183734 GAGCCAAGAA
41183744 GAAGAAGAGCAAAGCCAAATTAAGC
1 GAAGAAGAGCAAAGCCAAATTAAGC
41183769 GAAGAAGAGCAAAGCCAAATTAAGC
1 GAAGAAGAGCAAAGCCAAATTAAGC
*
41183794 AAAGAA
1 GAAGAA
41183800 AACTCTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.55, C:0.14, G:0.23, T:0.07
Consensus pattern (25 bp):
GAAGAAGAGCAAAGCCAAATTAAGC
Found at i:41185170 original size:13 final size:14
Alignment explanation
Indices: 41185152--41185181 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
41185142 TTATATTTCT
41185152 ATTAA-TTTTTTTA
1 ATTAATTTTTTTTA
41185165 ATTAATTTTTTTTA
1 ATTAATTTTTTTTA
41185179 ATT
1 ATT
41185182 TTTTAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTAATTTTTTTTA
Found at i:41188377 original size:19 final size:19
Alignment explanation
Indices: 41188342--41188383 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
41188332 TTTAGGATTG
41188342 ATTTT-TCTTTATTTCTTT
1 ATTTTATCTTTATTTCTTT
41188360 ATTTTATCTTT-TTATCTTT
1 ATTTTATCTTTATT-TCTTT
41188379 -TTTTA
1 ATTTTA
41188384 ATCTGTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (19 bp):
ATTTTATCTTTATTTCTTT
Found at i:41188387 original size:19 final size:20
Alignment explanation
Indices: 41188355--41188392 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
41188345 TTTCTTTATT
41188355 TCTTTATTTTATCT-TTTTA
1 TCTTTATTTTATCTGTTTTA
41188374 TCTTT-TTTTAATCTGTTTT
1 TCTTTATTTT-ATCTGTTTT
41188393 TTTCTCTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 9 0.53
20 4 0.24
ACGTcount: A:0.13, C:0.11, G:0.03, T:0.74
Consensus pattern (20 bp):
TCTTTATTTTATCTGTTTTA
Found at i:41194750 original size:40 final size:39
Alignment explanation
Indices: 41194719--41194928 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
41194709 GGACTAAGAT
* *
41194719 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
41194759 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
41194799 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
41194839 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
41194879 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
41194918 CCGAAGGCATT
1 CCGAAGGCATT
41194929 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:41194882 original size:120 final size:120
Alignment explanation
Indices: 41194666--41194928 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
41194656 TTGAATGCTG
* *
41194666 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
41194730 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
41194786 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
41194849 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
41194905 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
41194929 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:41194948 original size:79 final size:80
Alignment explanation
Indices: 41194667--41194963 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
41194657 TGAATGCTGT
* ** * * * **
41194667 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
41194730 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
41194747 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
41194811 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
41194827 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
41194891 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
41194906 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
41194964 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:41202691 original size:40 final size:40
Alignment explanation
Indices: 41202608--41202950 Score: 485
Period size: 40 Copynumber: 8.6 Consensus size: 40
41202598 TTGAATGCTG
* * * * * *
41202608 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
41202648 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
41202688 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
41202728 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
41202768 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
41202808 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
41202848 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
41202888 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
41202927 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
41202951 TGAACGAGGA
Statistics
Matches: 281, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.12
40 238 0.85
41 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:41204798 original size:44 final size:44
Alignment explanation
Indices: 41204716--41204803 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
41204706 ATTATTGCAA
*
41204716 TATTTGGTTATACAAAATTAGGTGAAAGCTCCAAAAGAGTTAAT
1 TATTTGGTTATACAAAATTAGGTGAAAGCTCCAAAAGAGCTAAT
* * * *
41204760 TATTTGG-TAGTACAAAATTTGTTGAAAGCTCTAGAAGAGCTAAT
1 TATTTGGTTA-TACAAAATTAGGTGAAAGCTCCAAAAGAGCTAAT
41204804 ATATCAATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
43 2 0.05
44 36 0.95
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (44 bp):
TATTTGGTTATACAAAATTAGGTGAAAGCTCCAAAAGAGCTAAT
Found at i:41209298 original size:35 final size:33
Alignment explanation
Indices: 41209258--41209365 Score: 98
Period size: 35 Copynumber: 3.2 Consensus size: 33
41209248 TCTATTTATT
41209258 TATTATTCTTTTACTTTTTAAATATTTATATTTAA
1 TATTATT-TTTTACTTTTTAAATATTTA-ATTTAA
** * *
41209293 TATTA-TTTTTA--TTTTATTTA-TCAATTTATT
1 TATTATTTTTTACTTTTTAAATATTTAATTTA-A
*
41209323 TATTATTATTTTACTTTTTAAATATTTAAATTTGA
1 TATTATT-TTTTACTTTTTAAATATTT-AATTTAA
41209358 TATTATTT
1 TATTATTT
41209366 ATATTTGTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
29 5 0.09
30 7 0.12
31 8 0.14
32 5 0.09
33 5 0.09
34 9 0.16
35 13 0.23
36 5 0.09
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (33 bp):
TATTATTTTTTACTTTTTAAATATTTAATTTAA
Found at i:41209310 original size:27 final size:26
Alignment explanation
Indices: 41209280--41209335 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
41209270 ACTTTTTAAA
*
41209280 TATTTAT-ATTTAATATTATTTTTATTT
1 TATTTATAATTT-AT-TTATTATTATTT
41209307 TATTTATCAATTTATTTATTATTATTT
1 TATTTAT-AATTTATTTATTATTATTT
41209334 TA
1 TA
41209336 CTTTTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 20 0.77
28 2 0.08
29 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (26 bp):
TATTTATAATTTATTTATTATTATTT
Found at i:41209323 original size:33 final size:32
Alignment explanation
Indices: 41209222--41209429 Score: 106
Period size: 33 Copynumber: 6.5 Consensus size: 32
41209212 AAACATTCAA
* * *
41209222 ATTTGATATTATTTATATTTGTTTTATCTATTT
1 ATTTAATATTATTTTTATTT-TTTTATCAATTT
* * ** *
41209255 ATTTATTATT-CTTTTACTTTTTAAAT-ATTTAT
1 ATTTAATATTATTTTTA-TTTTTTTATCAATT-T
41209287 ATTTAATATTATTTTTATTTTATTTATCAATTT
1 ATTTAATATTATTTTTATTTT-TTTATCAATTT
* * *
41209320 ATTTATTATTA-TTTTA-CTTTTTA-AATATTT
1 ATTTAATATTATTTTTATTTTTTTATCA-ATTT
* * *
41209350 AAATTTGATATTATTTATATTTGTTTTATCTATTT
1 --ATTTAATATTATTTTTATTT-TTTTATCAATTT
* * * **
41209385 ATTTATTATT-CTTTTA-CTTTTTATTTATTT
1 ATTTAATATTATTTTTATTTTTTTATCAATTT
* *
41209415 ATTTATTATTCTTTT
1 ATTTAATATTATTTT
41209430 AAAATATTTA
Statistics
Matches: 133, Mismatches: 29, Indels: 28
0.70 0.15 0.15
Matches are distributed among these distances:
29 1 0.01
30 29 0.22
31 8 0.06
32 40 0.30
33 42 0.32
34 4 0.03
35 9 0.07
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (32 bp):
ATTTAATATTATTTTTATTTTTTTATCAATTT
Found at i:41209342 original size:22 final size:22
Alignment explanation
Indices: 41209230--41209413 Score: 73
Period size: 22 Copynumber: 8.4 Consensus size: 22
41209220 AAATTTGATA
* *
41209230 TTATTTA-TATTTGTTTTATCTAT
1 TTATTTATTA-TTATTTTA-CTTT
*
41209253 TTATTTATTATTCTTTTACTTT
1 TTATTTATTATTATTTTACTTT
** *
41209275 TTAAATATT-TATATTTAATA-TTA
1 TTATTTATTAT-TATTT--TACTTT
**
41209298 TT-TTTATT-TTA-TTTATCAAT
1 TTATTTATTATTATTTTA-CTTT
41209318 TTATTTATTATTATTTTACTTT
1 TTATTTATTATTATTTTACTTT
** * * *
41209340 TTAAATATT-TAAATTTGA--TA
1 TTATTTATTAT-TATTTTACTTT
* *
41209360 TTATTTA-TATTTGTTTTATCTAT
1 TTATTTATTA-TTATTTTA-CTTT
*
41209383 TTATTTATTATTCTTTTACTTT
1 TTATTTATTATTATTTTACTTT
41209405 TTATTTATT
1 TTATTTATT
41209414 TATTTATTAT
Statistics
Matches: 118, Mismatches: 27, Indels: 33
0.66 0.15 0.19
Matches are distributed among these distances:
18 2 0.02
19 1 0.01
20 14 0.12
21 11 0.09
22 48 0.41
23 36 0.31
24 6 0.05
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTTATTATTATTTTACTTT
Found at i:41209362 original size:32 final size:31
Alignment explanation
Indices: 41209190--41209451 Score: 113
Period size: 32 Copynumber: 8.4 Consensus size: 31
41209180 TATTTTATCT
* * * *
41209190 ATTTGTTATTCTTTTACTTTTTAAACATTCAA
1 ATTTGATATTATTTTACTTTTTAAATATT-TA
* **
41209222 ATTTGATATTATTTATATTTGTTTTATCTATTT-
1 ATTTGATATTATTT-TA-CT-TTTTAAATATTTA
*
41209255 ATTT-ATTATTCTTTTACTTTTTAAATATTTA
1 ATTTGA-TATTATTTTACTTTTTAAATATTTA
* **
41209286 TATTTAATATTATTTTTA-TTTTATTTATCAATTT-
1 -ATTTGATATTA-TTTTACTTTT-TAAAT--ATTTA
41209320 ATTT-ATTATTATTTTACTTTTTAAATATTTAA
1 ATTTGA-TATTATTTTACTTTTTAAATATTT-A
* **
41209352 ATTTGATATTATTTATATTTGTTTTATCTATTT-
1 ATTTGATATTATTT-TA-CT-TTTTAAATATTTA
*
41209385 ATTT-ATTATTCTTTTAC-TTTT---TATTT-
1 ATTTGA-TATTATTTTACTTTTTAAATATTTA
*
41209411 ATTT-AT-TTATTATT-CTTTTAAAATATTTAA
1 ATTTGATATTATT-TTACTTTTTAAATATTT-A
41209441 ATTTGATATTA
1 ATTTGATATTA
41209452 CTTATATTTC
Statistics
Matches: 178, Mismatches: 23, Indels: 58
0.69 0.09 0.22
Matches are distributed among these distances:
24 5 0.03
25 6 0.03
26 10 0.06
28 5 0.03
29 4 0.02
30 18 0.10
31 3 0.02
32 54 0.30
33 49 0.28
34 2 0.01
35 22 0.12
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (31 bp):
ATTTGATATTATTTTACTTTTTAAATATTTA
Found at i:41209415 original size:65 final size:65
Alignment explanation
Indices: 41209189--41209407 Score: 350
Period size: 65 Copynumber: 3.4 Consensus size: 65
41209179 TTATTTTATC
* * *
41209189 TATTTGTTATTCTTTTACTTTTTAAACATTCAAATTTGATATTATTTATATTTGTTTTATCTATT
1 TATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTATATTTGTTTTATCTATT
* * * *
41209254 TATTTATTATTCTTTTACTTTTTAAATATTTATATTTAATATTATTTTTATTT-TATTTATCAAT
1 TATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTATATTTGT-TTTATCTAT
41209318 T
65 T
*
41209319 TATTTATTATTATTTTACTTTTTAAATATTTAAATTTGATATTATTTATATTTGTTTTATCTATT
1 TATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTATATTTGTTTTATCTATT
41209384 TATTTATTATTCTTTTACTTTTTA
1 TATTTATTATTCTTTTACTTTTTA
41209408 TTTATTTATT
Statistics
Matches: 139, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
64 1 0.01
65 137 0.99
66 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.65
Consensus pattern (65 bp):
TATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTATATTTGTTTTATCTATT
Found at i:41209416 original size:23 final size:24
Alignment explanation
Indices: 41209360--41209417 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
41209350 AAATTTGATA
* *
41209360 TTATTTATAT-TTGTTTTATCTAT
1 TTATTTATTTATTCTTTTATCTAT
*
41209383 TTATTTA-TTATTCTTTTA-CTTT
1 TTATTTATTTATTCTTTTATCTAT
41209405 TTATTTATTTATT
1 TTATTTATTTATT
41209418 TATTATTCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 11 0.37
23 19 0.63
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (24 bp):
TTATTTATTTATTCTTTTATCTAT
Found at i:41209425 original size:30 final size:30
Alignment explanation
Indices: 41209243--41209430 Score: 162
Period size: 30 Copynumber: 5.9 Consensus size: 30
41209233 TTTATATTTG
41209243 TTTTATCTATTTATTTATTATTCTTTTACT
1 TTTTATCTATTTATTTATTATTCTTTTACT
** * * *
41209273 TTTTAAATATTTATATTTAATATTATTTTTATTT
1 TTTTATCTA-TT-TATTTATTATT-CTTTTA-CT
* *
41209307 TATTTATCAATTTATTTATTATTATTTTACT
1 T-TTTATCTATTTATTTATTATTCTTTTACT
** * *
41209338 TTTTAAATATTTAAATTTGA-TATTATTTATATTT
1 TTTTATCTATTT--ATTT-ATTATTCTTT-TA-CT
41209372 GTTTTATCTATTTATTTATTATTCTTTTACT
1 -TTTTATCTATTTATTTATTATTCTTTTACT
*
41209403 TTTTATTTATTTATTTATTATTCTTTTA
1 TTTTATCTATTTATTTATTATTCTTTTA
41209431 AAATATTTAA
Statistics
Matches: 126, Mismatches: 20, Indels: 24
0.74 0.12 0.14
Matches are distributed among these distances:
30 42 0.33
31 5 0.04
32 30 0.24
33 29 0.23
34 5 0.04
35 15 0.12
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.68
Consensus pattern (30 bp):
TTTTATCTATTTATTTATTATTCTTTTACT
Found at i:41209484 original size:89 final size:87
Alignment explanation
Indices: 41209317--41209488 Score: 224
Period size: 89 Copynumber: 2.0 Consensus size: 87
41209307 TATTTATCAA
* * *
41209317 TTTATTTATTATTATTTTACTTTTTAAATATTTAAATTTGATATTATTTATATTTGTTTTATCTA
1 TTTATTTATTATTATTTTACTTTTAAAATATTTAAATTTGATATTACTTATATTTCTTTTATCTA
***
41209382 TTTATTTATTATTCTTTTACTT
66 AGCATTTATTATTCTTTTACTT
41209404 TTTATTTATTTATTTATTATT-CTTTTAAAATATTTAAATTTGATATTACTTATATTTCCTTTTC
1 TTTATTTA-TTA-TTATT-TTACTTTTAAAATATTTAAATTTGATATTACTTATATTT-CTTTT-
41209468 AT-TAAGCATTTA-TATTCTTTT
61 ATCTAAGCATTTATTATTCTTTT
41209489 TTTTGCCCTT
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
87 8 0.11
88 3 0.04
89 48 0.65
90 13 0.18
91 2 0.03
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.64
Consensus pattern (87 bp):
TTTATTTATTATTATTTTACTTTTAAAATATTTAAATTTGATATTACTTATATTTCTTTTATCTA
AGCATTTATTATTCTTTTACTT
Found at i:41211844 original size:125 final size:124
Alignment explanation
Indices: 41211550--41212071 Score: 744
Period size: 125 Copynumber: 4.2 Consensus size: 124
41211540 CCCAAACATG
* * *
41211550 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGGTTTCACAAATTCTTCTCAAATAGCATCATGC
1 CTACTGTAGCAAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
41211615 T-GAAGAGATTTTATACTATTTGCTCAGAAACATCAAGTCAAAATTATTTTTTCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTTTTCCAGGAC
* * *
41211673 CTACTGTAGCAAAAGCGCATCCAC-AAGGGCGCGATTGCATAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAA-GGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* *
41211737 CTAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTT-TTCCAGGAC
* * *
41211798 CTACTATAGCAAAAGCGCGTCCACGAAGGCACGATTTCACAAATTCTTCTCAAATAGGATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
41211863 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTT-TTCCAGGAC
* * * * *
41211923 CTACTGTAGCAAAAGCGCGTCGACG-AGAGCGCGATTTTATAAATTCTTATCAAACAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAAG-GCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* * * * *
41211987 CTAGAAGCGATTTTATACTATTTGCCCAGAAACGTCAACTCGAAATTATTTTTTCAAGAC
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTTTTCCAGGAC
* * *
41212047 CTACTATAGCAAAAGTGCGTACACG
1 CTACTGTAGCAAAAGCGCGTCCACG
41212072 TGGGTGCGAC
Statistics
Matches: 358, Mismatches: 36, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
122 1 0.00
123 58 0.16
124 74 0.21
125 223 0.62
126 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTTTTCCAGGAC
Found at i:41212140 original size:16 final size:16
Alignment explanation
Indices: 41212104--41212142 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
41212094 TTTTTTCTCC
*
41212104 AAAACCTTAAAAACCC
1 AAAACCTTAAAAACCA
* *
41212120 TAAACCTTAAAATCCA
1 AAAACCTTAAAAACCA
41212136 AAAACCT
1 AAAACCT
41212143 AACGTGGGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAACCTTAAAAACCA
Found at i:41212857 original size:30 final size:30
Alignment explanation
Indices: 41212821--41212879 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
41212811 TTGATTTTAT
*
41212821 GTGTAATCT-TATACACAAAATTTTAATTTG
1 GTGTAAT-TATATACACAAAACTTTAATTTG
**
41212851 GTGTAATTATATACATGAAACTTTAATTT
1 GTGTAATTATATACACAAAACTTTAATTT
41212880 TGATTCAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.44
Consensus pattern (30 bp):
GTGTAATTATATACACAAAACTTTAATTTG
Found at i:41213071 original size:29 final size:30
Alignment explanation
Indices: 41213018--41213097 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 30
41213008 AAATTGAATC
41213018 AAAT-CAAATTTCATGTATAAAATTACACA-
1 AAATCCAAATTT-ATGTATAAAATTACACAT
** *
41213047 AAATCCAAATTTATGTATACTATTACATAT
1 AAATCCAAATTTATGTATAAAATTACACAT
* *
41213077 AAAACCAAAATTATTGTATAA
1 AAATCCAAATTTA-TGTATAA
41213098 TTTTGAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
29 18 0.43
30 18 0.43
31 6 0.14
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.34
Consensus pattern (30 bp):
AAATCCAAATTTATGTATAAAATTACACAT
Found at i:41213085 original size:30 final size:29
Alignment explanation
Indices: 41213022--41213097 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 29
41213012 TGAATCAAAT
*
41213022 CAAATTTCATGTATAAAATTACACAAAATC
1 CAAATTT-ATGTATAAAATTACACAAAAAC
** *
41213052 CAAATTTATGTATACTATTACATATAAAAC
1 CAAATTTATGTATAAAATTACACA-AAAAC
*
41213082 CAAAATTATTGTATAA
1 CAAATTTA-TGTATAA
41213098 TTTTGAAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 14 0.37
30 18 0.47
31 6 0.16
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (29 bp):
CAAATTTATGTATAAAATTACACAAAAAC
Done.