Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 80 of 214
Found at i:22602520 original size:24 final size:24
Alignment explanation
Indices: 22602488--22602536 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
22602478 TGCTGAGTCG
22602488 AAGAATTGATTCTTAGATAATGGA
1 AAGAATTGATTCTTAGATAATGGA
22602512 AAGAATTGATTCTTAGATAATGGA
1 AAGAATTGATTCTTAGATAATGGA
22602536 A
1 A
22602537 TGACTTCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (24 bp):
AAGAATTGATTCTTAGATAATGGA
Found at i:22603159 original size:19 final size:18
Alignment explanation
Indices: 22603128--22603169 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
22603118 TACTATTAAG
**
22603128 ATATT-AAATTTAATTTA
1 ATATTAAAATTTAAAATA
22603145 ATATTAAAATATTAAAATA
1 ATATTAAAAT-TTAAAATA
22603164 ATATTA
1 ATATTA
22603170 TTTTTAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 4 0.19
19 12 0.57
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATTAAAATTTAAAATA
Found at i:22605294 original size:50 final size:50
Alignment explanation
Indices: 22605171--22605413 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
22605161 GGTAAAGTGA
* *
22605171 TCCCATGTAAGACCATGTCTTGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---AG---ATGAGAGG
** * *
22605227 TCTAATGTAAAACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
*
22605277 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
* * * * **
22605327 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
* * *
22605377 TCCCATGTAAGACCATATCTGGGATATGCCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
22605414 GTACAAGAAA
Statistics
Matches: 166, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
50 130 0.78
53 2 0.01
56 34 0.20
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
Found at i:22613222 original size:67 final size:68
Alignment explanation
Indices: 22613114--22613246 Score: 173
Period size: 67 Copynumber: 2.0 Consensus size: 68
22613104 TGGTTAAACG
* * * * *
22613114 TAATCACTTTAATATTAAATTAATATATATTTATCTTGATAAATATTATATT-AATTTAATCTTA
1 TAATCACTTTAATATTAAATTAATAAATATTTATCTAGATAAATAGTAAATTAAATTTAATATTA
22613178 AGA
66 AGA
*
22613181 TAATCACTTTAATATTAAATTAATAAA-ATATTAT-TAAGATAAGTAGTAAATTAAATTTAATAT
1 TAATCACTTTAATATTAAATTAATAAATAT-TTATCT-AGATAAATAGTAAATTAAATTTAATAT
22613244 TAA
64 TAA
22613247 ACTATTAAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
66 3 0.05
67 42 0.74
68 12 0.21
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (68 bp):
TAATCACTTTAATATTAAATTAATAAATATTTATCTAGATAAATAGTAAATTAAATTTAATATTA
AGA
Found at i:22617672 original size:16 final size:16
Alignment explanation
Indices: 22617633--22617697 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
22617623 CTTAAATAGA
22617633 ATTTTAATTAAAGTTAATT
1 ATTTTAATT-AA-TT-ATT
*
22617652 TTTTTAATTAATTATT
1 ATTTTAATTAATTATT
*
22617668 ATTTTAAATAA-TATT
1 ATTTTAATTAATTATT
22617683 ACTTTGT-ATTAATTA
1 A-TTT-TAATTAATTA
22617698 CAAAAAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 5 0.13
16 19 0.49
17 5 0.13
18 2 0.05
19 8 0.21
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (16 bp):
ATTTTAATTAATTATT
Found at i:22618493 original size:20 final size:21
Alignment explanation
Indices: 22618468--22618507 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22618458 GGATGTCTTA
*
22618468 GGGAGATG-GACGAAGAAAGT
1 GGGAGAAGCGACGAAGAAAGT
*
22618488 GGGAGAAGCGACGAGGAAAG
1 GGGAGAAGCGACGAAGAAAG
22618508 CCGAGGATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.40, C:0.07, G:0.47, T:0.05
Consensus pattern (21 bp):
GGGAGAAGCGACGAAGAAAGT
Found at i:22624929 original size:27 final size:27
Alignment explanation
Indices: 22624873--22624973 Score: 139
Period size: 27 Copynumber: 3.6 Consensus size: 27
22624863 GTACGCTGTC
*
22624873 AAGGTATTCCTTTCATCGTATATTGCCACA
1 AAGGCATTCCTTTCA---TATATTGCCACA
*
22624903 AAGGCATTCCTTTCATATATTGTCACA
1 AAGGCATTCCTTTCATATATTGCCACA
* *
22624930 AAGACATTCTTTTCATATATTGCCACA
1 AAGGCATTCCTTTCATATATTGCCACA
22624957 AAGGCATTCCTTTCATA
1 AAGGCATTCCTTTCATA
22624974 AGTTGTTTAA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
27 50 0.78
30 14 0.22
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.37
Consensus pattern (27 bp):
AAGGCATTCCTTTCATATATTGCCACA
Found at i:22628823 original size:19 final size:17
Alignment explanation
Indices: 22628787--22628825 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
22628777 TCAGTTGTTG
22628787 ATTAGTTAAATAAATTA
1 ATTAGTTAAATAAATTA
*
22628804 ATTAGCTTAAGATTAATTA
1 ATTAG-TTAA-ATAAATTA
22628823 ATT
1 ATT
22628826 TAATAAAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 10 0.53
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (17 bp):
ATTAGTTAAATAAATTA
Found at i:22630227 original size:21 final size:19
Alignment explanation
Indices: 22630194--22630234 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
22630184 GTAGATTTGT
*
22630194 AAAAAAAATTTGTATATTAA
1 AAAAAAAAGTTGTAT-TTAA
22630214 AAAAAAGAAGTTGTATTTAA
1 AAAAAA-AAGTTGTATTTAA
22630234 A
1 A
22630235 TTACATGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.32
Consensus pattern (19 bp):
AAAAAAAAGTTGTATTTAA
Found at i:22631105 original size:6 final size:6
Alignment explanation
Indices: 22631094--22631178 Score: 55
Period size: 6 Copynumber: 14.0 Consensus size: 6
22631084 AATGAAAAAG
* * ** *
22631094 AAGAAA ATGAAA ATGAAA AAGAAA AAGAAA TTGCAA AAGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
* ** * *
22631142 TCA-AAA AAGTGA GAGAAA AAGAAA ATTGAAA AAGAAA
1 -AAGAAA AAGAAA AAGAAA AAGAAA A-AGAAA AAGAAA
22631179 TTGAGATTGA
Statistics
Matches: 58, Mismatches: 18, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
5 1 0.02
6 51 0.88
7 6 0.10
ACGTcount: A:0.71, C:0.02, G:0.18, T:0.09
Consensus pattern (6 bp):
AAGAAA
Found at i:22631117 original size:18 final size:18
Alignment explanation
Indices: 22631082--22631227 Score: 80
Period size: 18 Copynumber: 7.9 Consensus size: 18
22631072 CATTGTAATA
22631082 AAAATGAAAAAGAAGAAAATG
1 AAAATGAAAAAG-A-AAAA-G
22631103 AAAATGAAAAAGAAAAAG
1 AAAATGAAAAAGAAAAAG
* *
22631121 AAATTGCAAAAGAAAAAG
1 AAAATGAAAAAGAAAAAG
* ** *
22631139 -AAATCAAAAAAGTGAGAG
1 AAAAT-GAAAAAGAAAAAG
* *
22631157 AAAAAGAAAATTGAAAAAG
1 AAAATGAAAA-AGAAAAAG
* * **
22631176 AAATTGAGATTGAGAAAA-
1 AAAATGAAAAAGA-AAAAG
*
22631194 AAATTGAAAAAGAAAAAG
1 AAAATGAAAAAGAAAAAG
***
22631212 ATGTTGAAAAAGAAAA
1 AAAATGAAAAAGAAAA
22631228 GAGAGAAAAT
Statistics
Matches: 97, Mismatches: 23, Indels: 13
0.73 0.17 0.10
Matches are distributed among these distances:
17 7 0.07
18 56 0.58
19 21 0.22
20 1 0.01
21 12 0.12
ACGTcount: A:0.68, C:0.01, G:0.18, T:0.12
Consensus pattern (18 bp):
AAAATGAAAAAGAAAAAG
Found at i:22631135 original size:24 final size:24
Alignment explanation
Indices: 22631082--22631141 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
22631072 CATTGTAATA
22631082 AAAATGAAAAAG---AAGAAAATG
1 AAAATGAAAAAGAAAAAGAAAATG
*
22631103 AAAATGAAAAAGAAAAAGAAATTG
1 AAAATGAAAAAGAAAAAGAAAATG
22631127 CAAAA-GAAAAAGAAA
1 -AAAATGAAAAAGAAA
22631142 TCAAAAAAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
21 12 0.35
24 18 0.53
25 4 0.12
ACGTcount: A:0.73, C:0.02, G:0.17, T:0.08
Consensus pattern (24 bp):
AAAATGAAAAAGAAAAAGAAAATG
Found at i:22646585 original size:23 final size:22
Alignment explanation
Indices: 22646542--22646585 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
22646532 TTCTAAGTCG
22646542 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
22646565 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
22646586 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:22646904 original size:50 final size:50
Alignment explanation
Indices: 22646720--22646909 Score: 204
Period size: 51 Copynumber: 3.8 Consensus size: 50
22646710 CAATGATGTT
* * * * *
22646720 TGGTTCACATAGTAGCCTGAAAATAGTACTACAAATGTGACCATTACCA-TC
1 TGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACC--TAACATTC
* * * **
22646771 TGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATTC
1 TGGTACACATAGTAGCCTGCACATAGTACTACACATGTGA-CCTAAC-ATTC
* * *
22646823 -GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTC
1 TGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCTAACATTC
*
22646872 TGGTATACATAGTAGCCTGCACATAGTACTACACATGT
1 TGGTACACATAGTAGCCTGCACATAGTACTACACATGT
22646910 CACCATCACT
Statistics
Matches: 114, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
49 4 0.04
50 39 0.34
51 68 0.60
52 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (50 bp):
TGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCTAACATTC
Found at i:22649013 original size:21 final size:23
Alignment explanation
Indices: 22648968--22649014 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
22648958 TCACCTGCAA
* *
22648968 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
22648991 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
22649012 TAA
1 TAA
22649015 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:22654366 original size:16 final size:16
Alignment explanation
Indices: 22654345--22654387 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
22654335 TAGCTTCTTC
*
22654345 TTTTTTTTTCACGAAT
1 TTTTTTTTTCACGAAA
22654361 TTTTTTTTTCACGAAA
1 TTTTTTTTTCACGAAA
22654377 TTTTTTTTTCA
1 TTTTTTTTTCA
22654388 ACTTGATATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.19, C:0.12, G:0.05, T:0.65
Consensus pattern (16 bp):
TTTTTTTTTCACGAAA
Found at i:22654461 original size:11 final size:12
Alignment explanation
Indices: 22654427--22654458 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
22654417 GGAAACCAAT
22654427 TTTTTTTTTGAA
1 TTTTTTTTTGAA
22654439 TTTTTTTTTGAA
1 TTTTTTTTTGAA
22654451 TTTTTTTT
1 TTTTTTTT
22654459 GAAGAAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:22655499 original size:21 final size:23
Alignment explanation
Indices: 22655454--22655500 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
22655444 TCACCTGCAA
* *
22655454 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
22655477 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
22655498 TAA
1 TAA
22655501 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:22660485 original size:35 final size:35
Alignment explanation
Indices: 22660439--22660507 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
22660429 ATAAGTATTT
22660439 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTA
*
22660474 AGTTGTTGGAATAAATTACTCATCTTAGTTAATT
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATT
22660508 GAGCTCATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.42
Consensus pattern (35 bp):
AGTTGCTGGAATAAATTACTCATCTTAGTTAATTA
Found at i:22660516 original size:54 final size:54
Alignment explanation
Indices: 22660457--22660576 Score: 204
Period size: 54 Copynumber: 2.2 Consensus size: 54
22660447 GAATAAATTA
* *
22660457 CTCATCTTAGTTAATTAAGTTGTTGGAATAAATTACTCATCTTAGTTAATTGAG
1 CTCATCTTAGTTAATTAAGTTGTTGGAATAAATTACTAATCTTAGTTAATTAAG
22660511 CTCATCTTAGTTAATTAAGTTGTTGGAATAAATTACTAATCTTAGTTAATTAAG
1 CTCATCTTAGTTAATTAAGTTGTTGGAATAAATTACTAATCTTAGTTAATTAAG
* *
22660565 TTCAGCTTAGTT
1 CTCATCTTAGTT
22660577 CACTTAGTTG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (54 bp):
CTCATCTTAGTTAATTAAGTTGTTGGAATAAATTACTAATCTTAGTTAATTAAG
Found at i:22671747 original size:27 final size:27
Alignment explanation
Indices: 22671683--22671749 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
22671673 CATGACAACT
*
22671683 AAGAATAGCCATTGTGGTGAACTCTAA
1 AAGAATAGCCTTTGTGGTGAACTCTAA
*
22671710 AAGAATAGCCTTTGTGTTGAACTCTAA
1 AAGAATAGCCTTTGTGGTGAACTCTAA
22671737 AAGAA-ATGCCTTT
1 AAGAATA-GCCTTT
22671750 ATGGCAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 1 0.03
27 36 0.97
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (27 bp):
AAGAATAGCCTTTGTGGTGAACTCTAA
Found at i:22679734 original size:4 final size:4
Alignment explanation
Indices: 22679718--22679747 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
22679708 TAAACTAAGT
*
22679718 AATA AATA TATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
22679748 AATAAAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
AATA
Found at i:22680552 original size:22 final size:23
Alignment explanation
Indices: 22680499--22680545 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
22680489 TGCTGCAAAC
*
22680499 TATAGTGTCTGAAGGTTGTGATT
1 TATAATGTCTGAAGGTTGTGATT
*
22680522 TATAATGTCTGAATGTTGT-ATT
1 TATAATGTCTGAAGGTTGTGATT
22680544 TA
1 TA
22680546 AGTTGTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.26, C:0.04, G:0.23, T:0.47
Consensus pattern (23 bp):
TATAATGTCTGAAGGTTGTGATT
Found at i:22682787 original size:14 final size:14
Alignment explanation
Indices: 22682770--22682800 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
22682760 GGAATTGTTT
*
22682770 TAATCTAAATTTAC
1 TAATCTAAATTAAC
22682784 TAATCTAAATTAAC
1 TAATCTAAATTAAC
22682798 TAA
1 TAA
22682801 GAATGCGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:22683662 original size:30 final size:30
Alignment explanation
Indices: 22683623--22683679 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
22683613 CACGGGTTGG
*
22683623 CACATGGGCATGTGGCCAGCCCGTGTGGCT
1 CACACGGGCATGTGGCCAGCCCGTGTGGCT
*
22683653 CACACGGGCATGTGGCCAGGCCGTGTG
1 CACACGGGCATGTGGCCAGCCCGTGTG
22683680 AAAGTGCCCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.14, C:0.30, G:0.39, T:0.18
Consensus pattern (30 bp):
CACACGGGCATGTGGCCAGCCCGTGTGGCT
Found at i:22684563 original size:17 final size:17
Alignment explanation
Indices: 22684541--22684577 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
22684531 TATATTTTGA
22684541 TTTCTTTTTTCGT-TTTT
1 TTTCTTTTTTC-TCTTTT
22684558 TTTCTTTTTTCTCTTTT
1 TTTCTTTTTTCTCTTTT
22684575 TTT
1 TTT
22684578 TACAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.84
Consensus pattern (17 bp):
TTTCTTTTTTCTCTTTT
Found at i:22685557 original size:6 final size:6
Alignment explanation
Indices: 22685546--22685584 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
22685536 TAAGTCTAAG
* *
22685546 AAAATA ATAATA AACATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
22685585 GAAAAGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:22687277 original size:7 final size:7
Alignment explanation
Indices: 22687265--22687320 Score: 53
Period size: 7 Copynumber: 7.6 Consensus size: 7
22687255 AAAGAATTTG
22687265 ATAATAA
1 ATAATAA
22687272 ATAATAA
1 ATAATAA
22687279 ATAAATAA
1 AT-AATAA
22687287 A-AGA-AA
1 ATA-ATAA
22687293 ATAACTAAAA
1 ATAA-T--AA
22687303 ATAATAA
1 ATAATAA
22687310 ATAATAA
1 ATAATAA
22687317 ATAA
1 ATAA
22687321 ATAGAGAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
6 5 0.12
7 24 0.57
8 6 0.14
9 1 0.02
10 6 0.14
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (7 bp):
ATAATAA
Found at i:22687281 original size:4 final size:4
Alignment explanation
Indices: 22687267--22687333 Score: 52
Period size: 4 Copynumber: 17.5 Consensus size: 4
22687257 AGAATTTGAT
* * *
22687267 AATA AAT- AATA AATA AATA AA-A GA-A AATA ACTA AAAA TAATA AAT-
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA -AATA AATA
* *
22687312 AATA AATA AATA GAGA AATA AA
1 AATA AATA AATA AATA AATA AA
22687334 GAAAGAAAGG
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
3 10 0.20
4 36 0.73
5 3 0.06
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:22690471 original size:56 final size:50
Alignment explanation
Indices: 22690428--22690620 Score: 176
Period size: 50 Copynumber: 3.9 Consensus size: 50
22690418 ATTGAGGTTC
*
22690428 TAAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGA
1 TAAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGA
* * ** *
22690478 TAAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTGATA
1 TAAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGA
* ** * * * * * *
22690528 TGAGAACTCCCATGTAAGACCATATCTGGGATATGACATTGGCAGTACAGGA
1 TAAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA--CCAAGA
* * * *
22690580 -AACA--TCCTATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TAAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
22690621 TGTTATTATC
Statistics
Matches: 114, Mismatches: 27, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
49 32 0.28
50 79 0.69
51 2 0.02
52 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (50 bp):
TAAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGA
Found at i:22690605 original size:49 final size:50
Alignment explanation
Indices: 22690491--22690611 Score: 147
Period size: 49 Copynumber: 2.4 Consensus size: 50
22690481 GAGGTCCCCC
* * *
22690491 GTAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGACATGGGCACTGACAGGAGAACTCCCAT
* * * * *
22690541 GTAAGACCATATCTGGGATATGACATTGGCAGT-ACAGGA-AACATCCTAT
1 GTAAGACCATGTCTGGGACATGACATGGGCACTGACAGGAGAAC-TCCCAT
22690590 GTAAGACCATGTCTGGGACATG
1 GTAAGACCATGTCTGGGACATG
22690612 GCTTTGGCAT
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
48 3 0.05
49 29 0.48
50 28 0.47
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGACATGGGCACTGACAGGAGAACTCCCAT
Found at i:22690839 original size:12 final size:12
Alignment explanation
Indices: 22690822--22690849 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
22690812 ATGAGTTATT
22690822 TAAGTAAACAAG
1 TAAGTAAACAAG
22690834 TAAGTAAACAAG
1 TAAGTAAACAAG
22690846 TAAG
1 TAAG
22690850 AGAGTAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.18, T:0.18
Consensus pattern (12 bp):
TAAGTAAACAAG
Found at i:22697463 original size:12 final size:12
Alignment explanation
Indices: 22697446--22697474 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
22697436 GTACCAAATG
22697446 CACATGCATCTT
1 CACATGCATCTT
22697458 CACATGCATCTT
1 CACATGCATCTT
22697470 CACAT
1 CACAT
22697475 ATATTGAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.34, G:0.07, T:0.31
Consensus pattern (12 bp):
CACATGCATCTT
Found at i:22705512 original size:14 final size:14
Alignment explanation
Indices: 22705493--22705523 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
22705483 GGAATTGTTT
*
22705493 TAATCTAAATTTAC
1 TAATCTAAATTAAC
22705507 TAATCTAAATTAAC
1 TAATCTAAATTAAC
22705521 TAA
1 TAA
22705524 GAACGCGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:22707649 original size:50 final size:50
Alignment explanation
Indices: 22707527--22707823 Score: 292
Period size: 50 Copynumber: 5.8 Consensus size: 50
22707517 ATTTGGGTAA
* * *
22707527 AGAGATCCCATGTAAGACCATCTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
22707583 AGAGGTCCCATGTAAGACCTTGTCTGGGACATGACATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
22707633 AAAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
22707683 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * *
22707733 AGAACTCCCATGTAAGACCATATCTAGGATATGGCATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * * *
22707782 AAATATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
22707824 TGTTATATTC
Statistics
Matches: 204, Mismatches: 36, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
49 36 0.18
50 126 0.62
53 3 0.01
55 1 0.00
56 38 0.19
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:22713815 original size:22 final size:23
Alignment explanation
Indices: 22713785--22713827 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
22713775 TTGTGCGAAT
22713785 CTATCAAAAATAATCAAAATTAA
1 CTATCAAAAATAATCAAAATTAA
* *
22713808 CTAT-AAAATTAATTAAAATT
1 CTATCAAAAATAATCAAAATT
22713828 TATCATGTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (23 bp):
CTATCAAAAATAATCAAAATTAA
Found at i:22713864 original size:18 final size:18
Alignment explanation
Indices: 22713843--22713882 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
22713833 TGTTCATATT
22713843 TTTTAC-ATAATTTAATTA
1 TTTTACAAT-ATTTAATTA
*
22713861 TTTTACAATATTTATTTA
1 TTTTACAATATTTAATTA
22713879 TTTT
1 TTTT
22713883 TTGACAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTACAATATTTAATTA
Found at i:22736897 original size:50 final size:50
Alignment explanation
Indices: 22736825--22737105 Score: 280
Period size: 50 Copynumber: 5.5 Consensus size: 50
22736815 CCTGTACTGT
* * * * **
22736825 CAATGTCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGC
* * *
22736875 CCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGC
** * *
22736925 CAACACCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGC
* * **
22736975 CAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATAATTTCAATAATGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTGC
* * * *
22737031 CAATGCCATGTCCAAGACATGGTCTTACACT-GG--CTCACATATCGATGT
1 CAATGCCATGTCCCAGACATGGTCTTACA-TGGGACCTCTCATATCGGTGC
*
22737079 CGATGCCATGTCCCAGACATGGTCTTA
1 CAATGCCATGTCCCAGACATGGTCTTA
22737106 TAAGAGATCA
Statistics
Matches: 196, Mismatches: 28, Indels: 16
0.82 0.12 0.07
Matches are distributed among these distances:
48 28 0.14
50 125 0.64
51 2 0.01
53 3 0.02
54 5 0.03
56 32 0.16
57 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (50 bp):
CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGC
Found at i:22737125 original size:48 final size:48
Alignment explanation
Indices: 22737033--22737125 Score: 107
Period size: 48 Copynumber: 1.9 Consensus size: 48
22737023 AATAATGCCA
* * * *
22737033 ATGCCATGTCCAAGACATGGTCTTACACTGGCTCACATATCGATGTCG
1 ATGCCATGTCCAAGACATGGTCTTACACAGGATCACACACCGATGTCG
* * *
22737081 ATGCCATGTCCCAGACATGGTCTTATA-AGAGATCACACGCCGATG
1 ATGCCATGTCCAAGACATGGTCTTACACAG-GATCACACACCGATG
22737126 CCATATCCCA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
47 1 0.03
48 36 0.97
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCAAGACATGGTCTTACACAGGATCACACACCGATGTCG
Found at i:22741093 original size:25 final size:25
Alignment explanation
Indices: 22741033--22741146 Score: 115
Period size: 25 Copynumber: 4.6 Consensus size: 25
22741023 ATATTCATGT
* * *
22741033 AAGCTCATACGAGCTATGAAT-AGT
1 AAGCTCATACGAGCTATAAATCGGG
* *
22741057 ATGCTC-TCACGAGCTATGAATCGGG
1 AAGCTCAT-ACGAGCTATAAATCGGG
* **
22741082 AAGCTCATACGAACTGCAAATCGGG
1 AAGCTCATACGAGCTATAAATCGGG
* *
22741107 AAGCTCATACGAGCTGTAAATCGAG
1 AAGCTCATACGAGCTATAAATCGGG
22741132 AAGCTCATACGAGCT
1 AAGCTCATACGAGCT
22741147 GTAGTGTGCT
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
23 1 0.01
24 18 0.24
25 56 0.74
26 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (25 bp):
AAGCTCATACGAGCTATAAATCGGG
Found at i:22741147 original size:25 final size:25
Alignment explanation
Indices: 22741065--22741149 Score: 125
Period size: 25 Copynumber: 3.4 Consensus size: 25
22741055 GTATGCTCTC
* *
22741065 ACGAGCTATGAATCGGGAAGCTCAT
1 ACGAGCTGTAAATCGGGAAGCTCAT
* *
22741090 ACGAACTGCAAATCGGGAAGCTCAT
1 ACGAGCTGTAAATCGGGAAGCTCAT
*
22741115 ACGAGCTGTAAATCGAGAAGCTCAT
1 ACGAGCTGTAAATCGGGAAGCTCAT
22741140 ACGAGCTGTA
1 ACGAGCTGTA
22741150 GTGTGCTCGC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (25 bp):
ACGAGCTGTAAATCGGGAAGCTCAT
Found at i:22746752 original size:14 final size:14
Alignment explanation
Indices: 22746733--22746759 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22746723 TTCGAGAGAT
22746733 TTGTGAGGTTTTTG
1 TTGTGAGGTTTTTG
22746747 TTGTGAGGTTTTT
1 TTGTGAGGTTTTT
22746760 CTATTTCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.00, G:0.33, T:0.59
Consensus pattern (14 bp):
TTGTGAGGTTTTTG
Found at i:22762081 original size:20 final size:20
Alignment explanation
Indices: 22762021--22762119 Score: 110
Period size: 20 Copynumber: 5.0 Consensus size: 20
22762011 GATGCATAAT
* * *
22762021 AGAGTCACCGAAGTGTAGAC
1 AGAGGCACCGAAGTGCAAAC
**
22762041 AGAGGCA-CGAATGTGTGAAC
1 AGAGGCACCGAA-GTGCAAAC
* *
22762061 AGATGCACCGAAATGCAAAC
1 AGAGGCACCGAAGTGCAAAC
*
22762081 AGAGGCACCGAAGTGCAAAG
1 AGAGGCACCGAAGTGCAAAC
22762101 AGAGGCACCGAAGTGCAAA
1 AGAGGCACCGAAGTGCAAA
22762120 TCCCATACAA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
19 4 0.06
20 59 0.88
21 4 0.06
ACGTcount: A:0.39, C:0.20, G:0.30, T:0.10
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCAAAC
Found at i:22771869 original size:44 final size:44
Alignment explanation
Indices: 22771803--22771892 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
22771793 CTCAACAATT
22771803 CTCACGCTACCAATACTAGCAGTCAGTGAATTAACGAATTTCAA
1 CTCACGCTACCAATACTAGCAGTCAGTGAATTAACGAATTTCAA
*
22771847 CTCACGCTACCAATACTTGCAGTCAGTGAATTAACGAATTTCAA
1 CTCACGCTACCAATACTAGCAGTCAGTGAATTAACGAATTTCAA
22771891 CT
1 CT
22771893 TACTCTATCT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (44 bp):
CTCACGCTACCAATACTAGCAGTCAGTGAATTAACGAATTTCAA
Found at i:22776930 original size:20 final size:21
Alignment explanation
Indices: 22776897--22776938 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
22776887 AAGCTTGTTG
22776897 AGCTCAATTGAGCTCATTTCC
1 AGCTCAATTGAGCTCATTTCC
*
22776918 AGCTCAA-TGAGCTCGTTTCC
1 AGCTCAATTGAGCTCATTTCC
22776938 A
1 A
22776939 TCTTTCTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.31
Consensus pattern (21 bp):
AGCTCAATTGAGCTCATTTCC
Found at i:22777010 original size:13 final size:14
Alignment explanation
Indices: 22776987--22777015 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22776977 AATAAATTAT
22776987 TTAATTTTAGTTAG
1 TTAATTTTAGTTAG
22777001 TTAA-TTTAGTTAG
1 TTAATTTTAGTTAG
22777014 TT
1 TT
22777016 CAGTTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (14 bp):
TTAATTTTAGTTAG
Found at i:22781910 original size:20 final size:21
Alignment explanation
Indices: 22781871--22781912 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
22781861 AAGCTTGTTG
22781871 AGCTCAATTAAGCTCATTTCC
1 AGCTCAATTAAGCTCATTTCC
* *
22781892 AGCTCAA-TGAGCTCGTTTCC
1 AGCTCAATTAAGCTCATTTCC
22781912 A
1 A
22781913 TTTTTCTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (21 bp):
AGCTCAATTAAGCTCATTTCC
Found at i:22781984 original size:13 final size:14
Alignment explanation
Indices: 22781961--22781989 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22781951 AATAAATTAT
22781961 TTAATTTTAGTTAG
1 TTAATTTTAGTTAG
22781975 TTAA-TTTAGTTAG
1 TTAATTTTAGTTAG
22781988 TT
1 TT
22781990 CAGTTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (14 bp):
TTAATTTTAGTTAG
Found at i:22785555 original size:23 final size:23
Alignment explanation
Indices: 22785498--22785833 Score: 116
Period size: 23 Copynumber: 14.5 Consensus size: 23
22785488 AATCTTATTT
*
22785498 AAACTTATAATCTAA-TTTACTA
1 AAACTTAAAATCTAATTTTACTA
*
22785520 AAA-TCTATCAATCTAATTTTACTA
1 AAACT-TA-AAATCTAATTTTACTA
* *
22785544 AAACTTAAAATCAAATTCTACTTA
1 AAACTTAAAATCTAATTTTAC-TA
* * * *
22785568 TAA-TTATAA--TAATTTTTTTCCA
1 AAACTTAAAATCTAA--TTTTACTA
*** *
22785590 AAA-TTAAAATCTAAACCTATTA
1 AAACTTAAAATCTAATTTTACTA
*
22785612 AAAGCTAAAAATCTAATTTTACTA
1 AAA-CTTAAAATCTAATTTTACTA
* *
22785636 CAACTTAAAATCTAATTTTTATTA
1 AAACTTAAAATCTAA-TTTTACTA
* * * * * *
22785660 AAAATTACAAA-CGAATCTCATTT
1 AAACTTA-AAATCTAATTTTACTA
* * *
22785683 AAACTTATAATTTAA-TTTATTA
1 AAACTTAAAATCTAATTTTACTA
* ** *
22785705 AAACCTATCGATCTAATTTTAATA
1 AAACTTA-AAATCTAATTTTACTA
* * *
22785729 GAACTTAAAATCAAATTCTAACTA
1 AAACTTAAAATCTAATT-TTACTA
** * * *
22785753 AAA-TTCTAATATAATTTTTTCCA
1 AAACTTAAAATCTAA-TTTTACTA
*** *
22785776 AAA-TTAAAATCTAAACCTATTA
1 AAACTTAAAATCTAATTTTACTA
*
22785798 AAAGCTAAAAATCTAATTTTACTA
1 AAA-CTTAAAATCTAATTTTACTA
*
22785822 CAACTTAAAATC
1 AAACTTAAAATC
22785834 AAACCCTTTT
Statistics
Matches: 219, Mismatches: 75, Indels: 39
0.66 0.23 0.12
Matches are distributed among these distances:
21 3 0.01
22 35 0.16
23 92 0.42
24 85 0.39
25 4 0.02
ACGTcount: A:0.46, C:0.14, G:0.01, T:0.38
Consensus pattern (23 bp):
AAACTTAAAATCTAATTTTACTA
Found at i:22785625 original size:92 final size:90
Alignment explanation
Indices: 22785529--22786341 Score: 801
Period size: 92 Copynumber: 8.8 Consensus size: 90
22785519 AAAATCTATC
* * *
22785529 AATCTAATTTTACTAAAACTTAAAATCAAATTCTACTTATAATTATAA-TAATTTTTTTCCAAAA
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTA-AATTATAACTAA--TTTTTCCAAAA
* *
22785593 TTAAAATCTAAACCTATTAAAAGCTAAA
63 TTATAATCTAAACCTATTAAAACCTAAA
* ** * * *
22785621 AATCTAATTTTACTACAACTTAAAATCTAATTTTTATTAAAAATTACAAACGAATCTCATTT--A
1 AATCTAATTTTACTACAACTTAAAATC-AAATCCTATT-TAAATTA-TAACTAAT-T--TTTCCA
* * ** **
22785684 AACTTATAAT-TTAATTTATTAAAACCTATC
60 AAATTATAATCTAAACCTATTAAAACCTAAA
* * * * * * * *
22785714 GATCTAATTTTAATAGAACTTAAAATCAAATTCTAACTAAAATTCTAATATAATTTTTTCCAAAA
1 AATCTAATTTTACTACAACTTAAAATCAAATCCT-ATTTAAATTATAA-CTAA-TTTTTCCAAAA
* *
22785779 TTAAAATCTAAACCTATTAAAAGCTAAA
63 TTATAATCTAAACCTATTAAAACCTAAA
* * *
22785807 AATCTAATTTTACTACAACTTAAAATCAAACCCT-TTTAAACCTATAATCTAATTTTACCAAAAT
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAA-TTATAA-CTAATTTTTCCAAAAT
*
22785871 TATAATCTAAACCTATTAGAACCTAAA
64 TATAATCTAAACCTATTAAAACCTAAA
* ** * * *
22785898 AATATAATACTATTACAACTTAAAATCAAATCCTATTTAAACCTATTATCTAATTTTTCCAAAAT
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAA-TTA-TAACTAATTTTTCCAAAAT
* *
22785963 TATGATCTAAGCCTATTAAAACCTAAA
64 TATAATCTAAACCTATTAAAACCTAAA
* *
22785990 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAACCTATAATCTAATTTTACCAAAAT
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAA-TTATAA-CTAATTTTTCCAAAAT
*
22786055 TATAATCTAAACCTATTAGAACCTAAA
64 TATAATCTAAACCTATTAAAACCTAAA
* ** * *
22786082 AATATAATACTACTACAACTTAAAATCAAATCCTATTT-AATCCTATTATCTATTTTTTCCAAAA
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAAT--TA-TAACTAATTTTTCCAAAA
* * *
22786146 TTATTATCTAAGCCTATTAGAACCTAAA
63 TTATAATCTAAACCTATTAAAACCTAAA
* * *
22786174 ATTCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAACCTATAAACTAATTTTACCAAAAT
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAA-TTAT-AACTAATTTTTCCAAAAT
* * * *
22786239 TACAATATAAACCTACTAGAACCTAAA
64 TATAATCTAAACCTATTAAAACCTAAA
* * *
22786266 AATATAATTTTACTACAACTTCAAATCAAATCCTATTTAAATCTATAATCTAATTTTACCAAAAT
1 AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAAT-TATAA-CTAATTTTTCCAAAAT
* *
22786331 TAAAACCTAAA
64 TATAATCTAAA
22786342 AATATAGTTT
Statistics
Matches: 601, Mismatches: 95, Indels: 50
0.81 0.13 0.07
Matches are distributed among these distances:
90 3 0.00
91 77 0.13
92 400 0.67
93 103 0.17
94 13 0.02
95 2 0.00
96 3 0.00
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.36
Consensus pattern (90 bp):
AATCTAATTTTACTACAACTTAAAATCAAATCCTATTTAAATTATAACTAATTTTTCCAAAATTA
TAATCTAAACCTATTAAAACCTAAA
Found at i:22785667 original size:185 final size:186
Alignment explanation
Indices: 22785466--22786016 Score: 628
Period size: 185 Copynumber: 3.0 Consensus size: 186
22785456 AATCTATTTT
* *
22785466 TTTTTATTAAAAATTACAAACGAATCTTATTTAAACTTATAATCTAATTTACTAAAATCTATCAA
1 TTTTTATTAAAAATTACAAACGAATCTCATTTAAACTTATAATCTAATTTACTAAAACCTATCAA
* * *
22785531 TCTAATTTTACTAAAACTTAAAATCAAATTCT-ACTTATAATTATAATA-ATTTTTTTCCAAAAT
66 TCTAATTTTAATAAAACTTAAAATCAAATTCTAAC-TAAAATTATAATATAATTTTTTCCAAAAT
22785594 TAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACTTAAAATCTAA
130 TAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACTTAAAATCTAA
* * *
22785651 TTTTTATTAAAAATTACAAACGAATCTCATTTAAACTTATAATTTAATTTATTAAAACCTATCGA
1 TTTTTATTAAAAATTACAAACGAATCTCATTTAAACTTATAATCTAATTTACTAAAACCTATCAA
* *
22785716 TCTAATTTTAATAGAACTTAAAATCAAATTCTAACTAAAATTCTAATATAATTTTTTCCAAAATT
66 TCTAATTTTAATAAAACTTAAAATCAAATTCTAACTAAAATTATAATATAATTTTTTCCAAAATT
*
22785781 AAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACTTAAAATCAAA
131 AAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACTTAAAATCTAA
*** ** * * * * * ** * ** * * **
22785837 CCCTT-TT-AAACCTATAATCTAATTTTA-CCAAAATTATAATCTAAACCTATTAGAACCTAAAA
1 TTTTTATTAAAAATTACAAACGAATCTCATTTAAACTTATAATCT-AATTTACTAAAACCTATCA
* ** * * * ** ** * *
22785899 ATATAATACTATTACAACTTAAAATCAAATCCTATTTAAACCTATTATCTAA-TTTTTCCAAAAT
65 ATCTAATTTTAATAAAACTTAAAATCAAATTCTAACTAAAATTATAATATAATTTTTTCCAAAAT
** * *
22785963 TATGATCTAAGCCTATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAATC
130 TAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACTTAAAATC
22786017 AAATCCTATT
Statistics
Matches: 315, Mismatches: 48, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
183 73 0.23
184 65 0.21
185 103 0.33
186 74 0.23
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.38
Consensus pattern (186 bp):
TTTTTATTAAAAATTACAAACGAATCTCATTTAAACTTATAATCTAATTTACTAAAACCTATCAA
TCTAATTTTAATAAAACTTAAAATCAAATTCTAACTAAAATTATAATATAATTTTTTCCAAAATT
AAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACTTAAAATCTAA
Found at i:22786053 original size:184 final size:184
Alignment explanation
Indices: 22785582--22786332 Score: 939
Period size: 184 Copynumber: 4.1 Consensus size: 184
22785572 TATAATAATT
* * *
22785582 TTTTTCCAAAATTAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACTTAAAAT
1 TTTTTCCAAAATTATAATCTAAGCCTATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAAT
* ** * ** * * * * * ** * * ** *
22785647 CTAATTTTTATTAAAAATTACAAACGAATCTCATTTAAACTTATAAT-TTAATTTATTAAAACCT
66 C-AAATCCTATTTAAACCTATAATCTAATTTTA-CCAAAATTATAATCTAAACCTATTAGAACCT
*** * ** * * * ** ** * * *
22785711 ATCGATCTAATTTTAATAGAACTTAAAATCAAATTCTAACTAAAATTCTAATATAA
129 AAAAATATAATACTACTACAACTTAAAATCAAATCCTATTTAAACCTATTATCTAA
* * *
22785767 TTTTTTCCAAAATTAAAATCTAAACCTATTAAAAGCTAAAAATCTAATTTTACTACAACTTAAAA
1 -TTTTTCCAAAATTATAATCTAAGCCTATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAA
*
22785832 TCAAACCCT-TTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACCTATTAGAACCTA
65 TCAAATCCTATTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACCTATTAGAACCTA
*
22785896 AAAATATAATACTATTACAACTTAAAATCAAATCCTATTTAAACCTATTATCTAA
130 AAAATATAATACTACTACAACTTAAAATCAAATCCTATTTAAACCTATTATCTAA
*
22785951 TTTTTCCAAAATTATGATCTAAGCCTATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAAT
1 TTTTTCCAAAATTATAATCTAAGCCTATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAAT
22786016 CAAATCCTATTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACCTATTAGAACCTAA
66 CAAATCCTATTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACCTATTAGAACCTAA
* *
22786081 AAATATAATACTACTACAACTTAAAATCAAATCCTATTTAATCCTATTATCTAT
131 AAATATAATACTACTACAACTTAAAATCAAATCCTATTTAAACCTATTATCTAA
* * *
22786135 TTTTTCCAAAATTATTATCTAAGCCTATTAGAACCTAAAATTCTAATTTTACTACAACTTAAAAT
1 TTTTTCCAAAATTATAATCTAAGCCTATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAAT
* * * *
22786200 CAAATCCTATTTAAACCTATAAACTAATTTTACCAAAATTACAATATAAACCTACTAGAACCTAA
66 CAAATCCTATTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACCTATTAGAACCTAA
** * * *
22786265 AAATATAATTTTACTACAACTTCAAATCAAATCCTATTTAAATCTATAATCTAA
131 AAATATAATACTACTACAACTTAAAATCAAATCCTATTTAAACCTATTATCTAA
*
22786319 TTTTACCAAAATTA
1 TTTTTCCAAAATTA
22786333 AAACCTAAAA
Statistics
Matches: 505, Mismatches: 58, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
183 78 0.15
184 358 0.71
185 3 0.01
186 66 0.13
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (184 bp):
TTTTTCCAAAATTATAATCTAAGCCTATTAAAACCTAAAAATCTAATTTTACTACAACTTAAAAT
CAAATCCTATTTAAACCTATAATCTAATTTTACCAAAATTATAATCTAAACCTATTAGAACCTAA
AAATATAATACTACTACAACTTAAAATCAAATCCTATTTAAACCTATTATCTAA
Found at i:22787111 original size:12 final size:12
Alignment explanation
Indices: 22787094--22787127 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
22787084 CTACGCATGC
22787094 AAAGCGAAAACG
1 AAAGCGAAAACG
22787106 AAAGCGAAAACG
1 AAAGCGAAAACG
22787118 AAAGCGAAAA
1 AAAGCGAAAA
22787128 GGAGAAGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.62, C:0.15, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAGCGAAAACG
Found at i:22787177 original size:15 final size:16
Alignment explanation
Indices: 22787149--22787184 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
22787139 CTCACCTTCG
22787149 ATTTCCTCTCCTTTTT
1 ATTTCCTCTCCTTTTT
22787165 ATTTCCTCT-CTTTTT
1 ATTTCCTCTCCTTTTT
*
22787180 TTTTC
1 ATTTC
22787185 AATCTTCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.06, C:0.28, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTCCTCTCCTTTTT
Found at i:22787448 original size:2 final size:2
Alignment explanation
Indices: 22787441--22787481 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
22787431 TGAAAGGGTT
22787441 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
22787482 TGTGTGTGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:22787486 original size:2 final size:2
Alignment explanation
Indices: 22787481--22787510 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22787471 GAGAGAGAGA
22787481 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
22787511 CTGAGCACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:22788040 original size:22 final size:23
Alignment explanation
Indices: 22788022--22788062 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
22788012 TAAAAATTAA
22788022 TTAT-TTTTTC-A-AAACAAATT
1 TTATATTTTTCTATAAACAAATT
22788042 TTATATTTTTCTATAAACAAA
1 TTATATTTTTCTATAAACAAA
22788063 AGGTTTGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 6 0.33
22 1 0.06
23 7 0.39
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (23 bp):
TTATATTTTTCTATAAACAAATT
Found at i:22791979 original size:107 final size:106
Alignment explanation
Indices: 22791806--22792004 Score: 319
Period size: 107 Copynumber: 1.9 Consensus size: 106
22791796 TTTTTAATGC
*
22791806 TTAAGAATGTATTGGTCCTTTTGACGCGAAATGGAATGACAACCAAGCACCCCACCCCAGTTACT
1 TTAAGAATGTATTGGCCCTTTTGACGCGAAATGGAATGACAACCAAGCACCCCACCCCAGTTACT
* *
22791871 CAGCCCAACATACTCCTAATTTATTATATTATATATATTGT
66 CAGCCCAACACACTCCTAATTAATTATATTATATATATTGT
* *
22791912 TTAAGAATGTATTGGCCCTTTTGATGC-AAAGTGGAATGACAACCCAAGCATCCCACCCCAGTTA
1 TTAAGAATGTATTGGCCCTTTTGACGCGAAA-TGGAATGACAA-CCAAGCACCCCACCCCAGTTA
*
22791976 CTCAGCCCAACACACTCTTAATTAATTAT
64 CTCAGCCCAACACACTCCTAATTAATTAT
22792005 TTTTTGTTTA
Statistics
Matches: 85, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
105 3 0.04
106 36 0.42
107 46 0.54
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (106 bp):
TTAAGAATGTATTGGCCCTTTTGACGCGAAATGGAATGACAACCAAGCACCCCACCCCAGTTACT
CAGCCCAACACACTCCTAATTAATTATATTATATATATTGT
Found at i:22792808 original size:5 final size:5
Alignment explanation
Indices: 22792764--22792839 Score: 53
Period size: 5 Copynumber: 14.4 Consensus size: 5
22792754 AAGAAGAGAG
* * * * * *
22792764 AATAA AATTA ATTAA CATGA AAGAA AATAA AGAAAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA A-ATAA AATAA AATAA AATAA
*
22792815 AATATA TAACAA AATAAA AATAA AA
1 AATA-A -AATAA AAT-AA AATAA AA
22792840 ATTAAATTGG
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
5 39 0.74
6 11 0.21
7 3 0.06
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:22792841 original size:12 final size:11
Alignment explanation
Indices: 22792787--22792839 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
22792777 AACATGAAAG
22792787 AAAATAAAGA-A
1 AAAATAAA-ATA
22792798 AAAATAAAAT-
1 AAAATAAAATA
22792808 AAAATAAAATA
1 AAAATAAAATA
* *
22792819 TATAACAAAATA
1 -AAAATAAAATA
22792831 AAAATAAAA
1 AAAATAAAA
22792840 ATTAAATTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 11 0.31
11 15 0.43
12 9 0.26
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:22796810 original size:16 final size:16
Alignment explanation
Indices: 22796789--22796865 Score: 64
Period size: 16 Copynumber: 4.4 Consensus size: 16
22796779 ATATTTCATT
22796789 ATGTATCATATTGTAA
1 ATGTATCATATTGTAA
* *
22796805 ATGTATTTATGACATGTATCA
1 ATGTA-TCAT-A-TTGTA--A
22796826 TATTGTATCATATTGTAA
1 -AT-GTATCATATTGTAA
*
22796844 ATGTATTATATTGTAA
1 ATGTATCATATTGTAA
22796860 ATGTAT
1 ATGTAT
22796866 TTATGACATG
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
16 24 0.49
17 5 0.10
18 2 0.04
19 4 0.08
20 4 0.08
21 2 0.04
22 5 0.10
23 3 0.06
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (16 bp):
ATGTATCATATTGTAA
Found at i:22796866 original size:16 final size:16
Alignment explanation
Indices: 22796829--22796866 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
22796819 TGTATCATAT
*
22796829 TGTATCATATTGTAAA
1 TGTATTATATTGTAAA
22796845 TGTATTATATTGTAAA
1 TGTATTATATTGTAAA
22796861 TGTATT
1 TGTATT
22796867 TATGACATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.50
Consensus pattern (16 bp):
TGTATTATATTGTAAA
Found at i:22798658 original size:15 final size:15
Alignment explanation
Indices: 22798638--22798668 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22798628 TTGATTTTGT
*
22798638 AATCTTAAGGGATTG
1 AATCTTAAAGGATTG
22798653 AATCTTAAAGGATTG
1 AATCTTAAAGGATTG
22798668 A
1 A
22798669 GTCAATCCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (15 bp):
AATCTTAAAGGATTG
Found at i:22799231 original size:85 final size:85
Alignment explanation
Indices: 22799099--22799268 Score: 313
Period size: 85 Copynumber: 2.0 Consensus size: 85
22799089 AACATCTCTT
* *
22799099 TTTTTTTGCATTTTATAGAAAATGGTGAAATTCCAATTTTAGTCCTTATCGTACACTCAAAATTT
1 TTTTTTTGCATTTTATAAAAAATAGTGAAATTCCAATTTTAGTCCTTATCGTACACTCAAAATTT
22799164 ATATTATATAATAATAGTCA
66 ATATTATATAATAATAGTCA
*
22799184 TTTTTTTGCATTTTATAAAAAATAGTGAAATTCCAATTTTAGTCCTTATCGTACACTCTAAATTT
1 TTTTTTTGCATTTTATAAAAAATAGTGAAATTCCAATTTTAGTCCTTATCGTACACTCAAAATTT
22799249 ATATTATATAATAATAGTCA
66 ATATTATATAATAATAGTCA
22799269 AATTTTAATT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (85 bp):
TTTTTTTGCATTTTATAAAAAATAGTGAAATTCCAATTTTAGTCCTTATCGTACACTCAAAATTT
ATATTATATAATAATAGTCA
Found at i:22800275 original size:19 final size:20
Alignment explanation
Indices: 22800227--22800283 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 20
22800217 AGCTAGCCTT
22800227 TATTATGTATAATTATAATATAA
1 TATTAT-TA-AATTA-AATATAA
22800250 TATTTATTAAATTAAATA-AA
1 TA-TTATTAAATTAAATATAA
*
22800270 TATTATGAAATTAA
1 TATTATTAAATTAA
22800284 TCTCAATGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 11 0.34
20 4 0.12
21 4 0.12
22 5 0.16
23 4 0.12
24 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
TATTATTAAATTAAATATAA
Found at i:22804506 original size:34 final size:35
Alignment explanation
Indices: 22804447--22804513 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
22804437 CAGTAAAATA
*
22804447 TTTTCCGTAAAATGATTTCGAG-AAAATATTTTAT
1 TTTTCCGTAAAATGATTTAGAGAAAAATATTTTAT
* **
22804481 TTTTCTGTAAAATGATTTATTGAAAAATATTTT
1 TTTTCCGTAAAATGATTTAGAGAAAAATATTTT
22804514 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 18 0.64
35 10 0.36
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTAGAGAAAAATATTTTAT
Found at i:22806630 original size:15 final size:16
Alignment explanation
Indices: 22806603--22806634 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
22806593 TTTAGTTATG
22806603 TTAATTAATTTTAATT
1 TTAATTAATTTTAATT
22806619 TTAATT-ATTTTAATT
1 TTAATTAATTTTAATT
22806634 T
1 T
22806635 GTACTGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTAATTAATTTTAATT
Found at i:22812320 original size:18 final size:18
Alignment explanation
Indices: 22812297--22812389 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
22812287 CCCAACTACT
*
22812297 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
22812315 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
22812333 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
* *
22812351 ATATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
22812369 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
22812387 GTA
1 GTA
22812390 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:22812349 original size:36 final size:36
Alignment explanation
Indices: 22812297--22812389 Score: 159
Period size: 36 Copynumber: 2.6 Consensus size: 36
22812287 CCCAACTACT
*
22812297 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
**
22812333 GTATACGTGAATAGTACTATATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
22812369 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
22812390 AACGGTCGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:22829881 original size:25 final size:25
Alignment explanation
Indices: 22829843--22829896 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
22829833 CAGCTTGTGA
**
22829843 GAGCTTACCAATTTTTAGCTCATAT
1 GAGCTTACCAATTTACAGCTCATAT
** *
22829868 GAGCTTACTGATTTACAGCTCGTAT
1 GAGCTTACCAATTTACAGCTCATAT
22829893 GAGC
1 GAGC
22829897 ATACATGTAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (25 bp):
GAGCTTACCAATTTACAGCTCATAT
Found at i:22830720 original size:25 final size:25
Alignment explanation
Indices: 22830676--22830754 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
22830666 CAGCTTGTGA
* ** *
22830676 GAGCTTACTAATTTTTAGCTCATAT
1 GAGCTTACTGATTTACAGCTCGTAT
22830701 GAGCTTACTGATTTACAGCTCGTGA-
1 GAGCTTACTGATTTACAGCTCGT-AT
* * *
22830726 GAGCATACCGATTCACAGCTCGTAT
1 GAGCTTACTGATTTACAGCTCGTAT
22830751 GAGC
1 GAGC
22830755 ATACATGTAC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
24 1 0.02
25 43 0.96
26 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (25 bp):
GAGCTTACTGATTTACAGCTCGTAT
Found at i:22830755 original size:25 final size:25
Alignment explanation
Indices: 22830692--22830758 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
22830682 ACTAATTTTT
* * * *
22830692 AGCTCATATGAGCTTACTGATTTAC
1 AGCTCGTATGAGCATACCGATTCAC
22830717 AGCTCGTGA-GAGCATACCGATTCAC
1 AGCTCGT-ATGAGCATACCGATTCAC
22830742 AGCTCGTATGAGCATAC
1 AGCTCGTATGAGCATAC
22830759 ATGTACAGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 34 0.94
26 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCGATTCAC
Found at i:22833822 original size:27 final size:27
Alignment explanation
Indices: 22833816--22833936 Score: 163
Period size: 27 Copynumber: 4.5 Consensus size: 27
22833806 CCCTTCATAA
*
22833816 TTCGCCACTAAGGCTATTCTCTTAGAG
1 TTCGCCACAAAGGCTATTCTCTTAGAG
22833843 TTCGCCACAAAGGCTATTCTCTTAGAG
1 TTCGCCACAAAGGCTATTCTCTTAGAG
*
22833870 TTCGCCACAAAGGCTATTCT-TCCAGAG
1 TTCGCCACAAAGGCTATTCTCT-TAGAG
* * *
22833897 TTTGCCACAAAGGCTTTTCTCCTAGAG
1 TTCGCCACAAAGGCTATTCTCTTAGAG
**
22833924 TTTACCACAAAGG
1 TTCGCCACAAAGG
22833937 TTTTTCTTCC
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
26 1 0.01
27 84 0.99
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (27 bp):
TTCGCCACAAAGGCTATTCTCTTAGAG
Found at i:22833941 original size:27 final size:27
Alignment explanation
Indices: 22833819--22833970 Score: 146
Period size: 27 Copynumber: 5.6 Consensus size: 27
22833809 TTCATAATTC
* * * *
22833819 GCCACTAAGGCTATTCTCTTAGAGTTC
1 GCCACAAAGGCTTTTCTCCTAGAGTTT
* * *
22833846 GCCACAAAGGCTATTCTCTTAGAGTTC
1 GCCACAAAGGCTTTTCTCCTAGAGTTT
*
22833873 GCCACAAAGGCTATTCTTCC-AGAGTTT
1 GCCACAAAGGCTTTTC-TCCTAGAGTTT
22833900 GCCACAAAGGCTTTTCTCCTAGAGTTT
1 GCCACAAAGGCTTTTCTCCTAGAGTTT
* * **
22833927 ACCACAAAGGTTTTTCTTCC-AGTCTTT
1 GCCACAAAGGCTTTTC-TCCTAGAGTTT
* *
22833954 ACCAAAAAGGCTTTTCT
1 GCCACAAAGGCTTTTCT
22833971 TTCCTGAGGT
Statistics
Matches: 112, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
26 4 0.04
27 103 0.92
28 5 0.04
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (27 bp):
GCCACAAAGGCTTTTCTCCTAGAGTTT
Found at i:22837017 original size:42 final size:42
Alignment explanation
Indices: 22836907--22836988 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
22836897 TCAAAATTGG
* * *
22836907 GACACACAGCCGTGTCCCAGC-CTGTGTAACTCATTGACTTGA
1 GACACACGGCTGTGTCTCAGCTC-GTGTAACTCATTGACTTGA
22836949 GACACACGGCTGTGTCTCAGCTCGTGTAACTCATTGACTT
1 GACACACGGCTGTGTCTCAGCTCGTGTAACTCATTGACTT
22836989 AGGTCACATG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 35 0.97
43 1 0.03
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (42 bp):
GACACACGGCTGTGTCTCAGCTCGTGTAACTCATTGACTTGA
Found at i:22837820 original size:22 final size:22
Alignment explanation
Indices: 22837778--22837825 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
22837768 TATTCAATTA
**
22837778 CATGATATTACCATTTCTATTT
1 CATGATATTACCACATCTATTT
22837800 CATGCATATTACCACAT-TATTT
1 CATG-ATATTACCACATCTATTT
22837822 CATG
1 CATG
22837826 TTATGTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.29, C:0.21, G:0.06, T:0.44
Consensus pattern (22 bp):
CATGATATTACCACATCTATTT
Found at i:22842348 original size:79 final size:80
Alignment explanation
Indices: 22842212--22842396 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
22842202 TTGAATGATG
* *
22842212 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
22842277 GTGCGAGATACTA-A
66 GTGCGAGATACTATA
* * * **
22842291 TTCCGGGCTAAG-CCCGAAGGTATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGG-ATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
22842353 ATTGTGCGAGTTACTATA
63 ATTGTGCGAGATACTATA
* *
22842371 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGG-ATTTG
22842397 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATA
Found at i:22842403 original size:40 final size:39
Alignment explanation
Indices: 22842213--22842396 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
22842203 TGAATGATGT
* * *
22842213 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
22842252 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
22842293 CCGGGCTAAG-CCCGAAGGTATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
22842331 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
22842372 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
22842397 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
39 33 0.27
40 78 0.64
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22842418 original size:79 final size:79
Alignment explanation
Indices: 22842213--22842429 Score: 192
Period size: 79 Copynumber: 2.7 Consensus size: 79
22842203 TGAATGATGT
** * * * ** *
22842213 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCAAT
*
22842276 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
* ** *
22842293 CCGGGCTAAGCCCGAAGGTATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGT
*
22842358 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
22842372 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
22842430 TACGTGATTT
Statistics
Matches: 115, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.62
80 41 0.36
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGT
GCGAGATACTAATA
Found at i:22858438 original size:40 final size:38
Alignment explanation
Indices: 22858381--22858584 Score: 196
Period size: 40 Copynumber: 5.1 Consensus size: 38
22858371 TTGAATGATG
*
22858381 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGT-ACTAAA
* *
22858421 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAG-TACTAAA
* *
22858461 TTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAG-TACTAAA
* *
22858500 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAG-TACTA-AA
* ** *
22858541 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTA-CTAAA
22858580 TCCGG
1 TCCGG
22858585 TTAAATTCCG
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
39 37 0.27
40 91 0.65
41 11 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (38 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTACTAAA
Found at i:22858517 original size:79 final size:81
Alignment explanation
Indices: 22858382--22858565 Score: 234
Period size: 79 Copynumber: 2.3 Consensus size: 81
22858372 TGAATGATGT
*
22858382 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCAATT
*
22858446 GTGCGAGATACTA-ATT
66 GTGCGAGATACTATA-A
* * * **
22858462 TCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAAT
*
22858524 TGTGCGAGTTACTATAA
65 TGTGCGAGATACTATAA
*
22858541 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
22858566 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.64
80 31 0.34
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATAA
Found at i:22858587 original size:79 final size:79
Alignment explanation
Indices: 22858382--22858598 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
22858372 TGAATGATGT
** * * ** *
22858382 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCAAT
*
22858445 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
* ** *
22858462 TCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGT
*
22858527 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
22858541 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
22858599 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 72 0.62
80 41 0.35
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCAATTGT
GCGAGATACTAATA
Found at i:22867137 original size:50 final size:50
Alignment explanation
Indices: 22867078--22867461 Score: 517
Period size: 50 Copynumber: 7.7 Consensus size: 50
22867068 AATATGTGAG
* *
22867078 CCATGTAAGACCATGTCTGGGACATAG-AGTTGGCTCCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCA-TTGGCACCGAGATGAGAGGTC
*
22867128 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* **
22867178 CCATGTAAGACCATGTCTGGGAAATGGTGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
22867228 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA-ATGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGA-GGTC
*
22867278 CCATGTAAGACCATGTCTGGGACATGGCATTGACACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
** * * **
22867328 CCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* * * * **
22867378 CCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACA-GAAAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG-AGAGGTC
*
22867427 CCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA
22867462 TGTTATTATC
Statistics
Matches: 302, Mismatches: 27, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
48 2 0.01
49 40 0.13
50 259 0.86
51 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
Found at i:22876695 original size:44 final size:46
Alignment explanation
Indices: 22876630--22876758 Score: 147
Period size: 49 Copynumber: 2.7 Consensus size: 46
22876620 ATGCACTAAT
* * *
22876630 GAACAGAGAGCACTAAAGTGCTATA-CAGAGAGCA-CAGATGTGCTA
1 GAACAGAGAGCACTAATGTGCTAAATCAGAGAGCACCA-ACGTGCTA
22876675 -AACAGAGAGCACTAATGTGCTAAAATCAGAGAGCACCAACGTGCTA
1 GAACAGAGAGCACTAATGTGCT-AAATCAGAGAGCACCAACGTGCTA
*
22876721 GTAGTCAGAGAGCACTAATGTGCTAATAATCAGAGAGC
1 G-A-ACAGAGAGCACTAATGTGCT-A-AATCAGAGAGC
22876759 GCGCTAAAGT
Statistics
Matches: 73, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
44 20 0.27
45 2 0.03
46 16 0.22
47 2 0.03
48 1 0.01
49 21 0.29
50 11 0.15
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.17
Consensus pattern (46 bp):
GAACAGAGAGCACTAATGTGCTAAATCAGAGAGCACCAACGTGCTA
Found at i:22876734 original size:25 final size:24
Alignment explanation
Indices: 22876633--22876758 Score: 145
Period size: 22 Copynumber: 5.3 Consensus size: 24
22876623 CACTAATGAA
*
22876633 CAGAGAGCACTAAAGTGCTAT-A-
1 CAGAGAGCACTAATGTGCTATAAT
22876655 CAGAGAGCAC-AGATGTGCTA-AA-
1 CAGAGAGCACTA-ATGTGCTATAAT
*
22876677 CAGAGAGCACTAATGTGCTAAAAT
1 CAGAGAGCACTAATGTGCTATAAT
* * *
22876701 CAGAGAGCACCAACGTGCTAGTAGT
1 CAGAGAGCACTAATGTGCTA-TAAT
22876726 CAGAGAGCACTAATGTGCTAATAAT
1 CAGAGAGCACTAATGTGCT-ATAAT
22876751 CAGAGAGC
1 CAGAGAGC
22876759 GCGCTAAAGT
Statistics
Matches: 89, Mismatches: 8, Indels: 11
0.82 0.07 0.10
Matches are distributed among these distances:
21 1 0.01
22 36 0.40
23 3 0.03
24 18 0.20
25 30 0.34
26 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (24 bp):
CAGAGAGCACTAATGTGCTATAAT
Found at i:22883915 original size:24 final size:24
Alignment explanation
Indices: 22883844--22883969 Score: 120
Period size: 22 Copynumber: 5.3 Consensus size: 24
22883834 CACTAATGAA
* *
22883844 CAGAGAGCACTAAAGTGCT-ATA-
1 CAGAGAGCACTAACGTGCTAAAAT
*
22883866 CAGAGAGCAC-AGATGTGCT-AAA-
1 CAGAGAGCACTA-ACGTGCTAAAAT
22883888 CAGAGAGCACTAACGTGCTAAAAT
1 CAGAGAGCACTAACGTGCTAAAAT
* * *
22883912 CAGAGAGCACCAACGTGCTAGTAGT
1 CAGAGAGCACTAACGTGCTA-AAAT
22883937 CAGAGAGCACTGAA-GTGCTAATAAT
1 CAGAGAGCACT-AACGTGCTAA-AAT
22883962 CAGAGAGC
1 CAGAGAGC
22883970 GCGCTAAAGT
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
21 1 0.01
22 34 0.39
23 4 0.05
24 19 0.22
25 28 0.32
26 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (24 bp):
CAGAGAGCACTAACGTGCTAAAAT
Found at i:22883979 original size:27 final size:26
Alignment explanation
Indices: 22883888--22883979 Score: 75
Period size: 25 Copynumber: 3.7 Consensus size: 26
22883878 ATGTGCTAAA
* *
22883888 CAGAGAGC-ACTAACGTGCTAA-AAT
1 CAGAGAGCGCCTAAAGTGCTAATAAT
* * * *
22883912 CAGAGAGCACC-AACGTGCTAGTAGT
1 CAGAGAGCGCCTAAAGTGCTAATAAT
* *
22883937 CAGAGAGC-ACTGAAGTGCTAATAAT
1 CAGAGAGCGCCTAAAGTGCTAATAAT
22883962 CAGAGAGCGCGCTAAAGT
1 CAGAGAGCGC-CTAAAGT
22883980 TCCTTAATGG
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
24 18 0.34
25 29 0.55
27 6 0.11
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.16
Consensus pattern (26 bp):
CAGAGAGCGCCTAAAGTGCTAATAAT
Found at i:22885052 original size:5 final size:5
Alignment explanation
Indices: 22885034--22885073 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
22885024 TGTTTTATGT
*
22885034 ATATA ATAATA ATATA ATATT ATAATA ATATA ATATA ATA
1 ATATA AT-ATA ATATA ATATA AT-ATA ATATA ATATA ATA
22885074 ACTTACTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 22 0.71
6 9 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:22885058 original size:16 final size:16
Alignment explanation
Indices: 22885034--22885074 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
22885024 TGTTTTATGT
22885034 ATATAATAATAATATA
1 ATATAATAATAATATA
*
22885050 ATATTATAATAATATA
1 ATATAATAATAATATA
22885066 ATATAATAA
1 ATATAATAA
22885075 CTTACTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATAATAATAATATA
Found at i:22885074 original size:8 final size:8
Alignment explanation
Indices: 22885039--22885068 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
22885029 TATGTATATA
22885039 ATAATAAT
1 ATAATAAT
*
22885047 ATAATATT
1 ATAATAAT
22885055 ATAATAAT
1 ATAATAAT
22885063 ATAATA
1 ATAATA
22885069 TAATAACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATAAT
Found at i:22888509 original size:23 final size:24
Alignment explanation
Indices: 22888472--22888516 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
22888462 AAGAAATTGA
*
22888472 TAATTTTTCTTCTTTTCTTGTATT
1 TAATTTTTCTACTTTTCTTGTATT
*
22888496 TAATTTTT-TACTTTTTTTGTA
1 TAATTTTTCTACTTTTCTTGTA
22888517 CAAACTTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.16, C:0.09, G:0.04, T:0.71
Consensus pattern (24 bp):
TAATTTTTCTACTTTTCTTGTATT
Found at i:22891462 original size:25 final size:25
Alignment explanation
Indices: 22891431--22891651 Score: 114
Period size: 25 Copynumber: 8.6 Consensus size: 25
22891421 TAGATAACAC
22891431 GCCACAAAGGCTTTTCAGAAGATCA
1 GCCACAAAGGCTTTTCAGAAGATCA
* *
22891456 GTCACAAAAAAGCTTTTCTAGATA-A-CA
1 G-C-CACAAAGGCTTTTC-AGA-AGATCA
* * *
22891483 CACCACAAAGGCTTTTCACAAGATTA
1 -GCCACAAAGGCTTTTCAGAAGATCA
* *
22891509 GCCACAAAGGCTTTTCCA-AAAAACA
1 GCCACAAAGGCTTTT-CAGAAGATCA
* *
22891534 TGCCACAAAGGC-TTTCACAAGATTA
1 -GCCACAAAGGCTTTTCAGAAGATCA
* * *
22891559 GCCATAAAGGTTTTTCCATATA-A-CA
1 GCCACAAAGGCTTTT-CAGA-AGATCA
*
22891584 TGCCACAAAGGC-TTTCACAAGATAACA
1 -GCCACAAAGGCTTTTCAGAAGAT--CA
* * * *
22891611 TACCACAAAGTCTTTTCACAAGATTA
1 -GCCACAAAGGCTTTTCAGAAGATCA
*
22891637 GCTACAAAGGCTTTT
1 GCCACAAAGGCTTTT
22891652 TCACGTAAGC
Statistics
Matches: 150, Mismatches: 27, Indels: 38
0.70 0.13 0.18
Matches are distributed among these distances:
23 1 0.01
24 16 0.11
25 48 0.32
26 41 0.27
27 28 0.19
28 15 0.10
29 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (25 bp):
GCCACAAAGGCTTTTCAGAAGATCA
Found at i:22891545 original size:26 final size:26
Alignment explanation
Indices: 22891509--22891627 Score: 93
Period size: 26 Copynumber: 4.6 Consensus size: 26
22891499 CACAAGATTA
22891509 GCCACAAAGGCTTTTCCAAAAAACAT
1 GCCACAAAGGCTTTTCCAAAAAACAT
* * *
22891535 GCCACAAAGGC-TTT-CACAAGA-TT
1 GCCACAAAGGCTTTTCCAAAAAACAT
* * * *
22891558 AGCCATAAAGGTTTTTCCATATAACAT
1 -GCCACAAAGGCTTTTCCAAAAAACAT
*
22891585 GCCACAAAGGC-TTTCACAAGATAACAT
1 GCCACAAAGGCTTTTC-CAA-AAAACAT
* *
22891612 ACCACAAAGTCTTTTC
1 GCCACAAAGGCTTTTC
22891628 ACAAGATTAG
Statistics
Matches: 72, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
23 1 0.01
24 14 0.19
25 10 0.14
26 26 0.36
27 17 0.24
28 4 0.06
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (26 bp):
GCCACAAAGGCTTTTCCAAAAAACAT
Found at i:22891568 original size:50 final size:51
Alignment explanation
Indices: 22891424--22891606 Score: 217
Period size: 50 Copynumber: 3.6 Consensus size: 51
22891414 GATTTTCTAG
* * * * *
22891424 ATAACACGCCACAAAGGCTTTTCAGAAGATCAGTCACAAAAAAGCTTTTCTAG
1 ATAACACGCCACAAAGGCTTTTCACAAGATTAG-C-CAAAAAGGCTTTTCCAA
* *
22891477 ATAACACACCACAAAGGCTTTTCACAAGATTAGCCACAAAGGCTTTTCCAA
1 ATAACACGCCACAAAGGCTTTTCACAAGATTAGCCAAAAAGGCTTTTCCAA
* * * * *
22891528 AAAACATGCCACAAAGGC-TTTCACAAGATTAGCCATAAAGGTTTTTCCAT
1 ATAACACGCCACAAAGGCTTTTCACAAGATTAGCCAAAAAGGCTTTTCCAA
*
22891578 ATAACATGCCACAAAGGC-TTTCACAAGAT
1 ATAACACGCCACAAAGGCTTTTCACAAGAT
22891607 AACATACCAC
Statistics
Matches: 116, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
50 57 0.49
51 28 0.24
52 1 0.01
53 30 0.26
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.23
Consensus pattern (51 bp):
ATAACACGCCACAAAGGCTTTTCACAAGATTAGCCAAAAAGGCTTTTCCAA
Found at i:22891637 original size:78 final size:77
Alignment explanation
Indices: 22891509--22891653 Score: 204
Period size: 78 Copynumber: 1.9 Consensus size: 77
22891499 CACAAGATTA
* *
22891509 GCCACAAAGGCTTTTCCAAAAAACATGCCACAAAGGCTTTCACAAGATTAGCCATAAAGG-TTTT
1 GCCACAAAGGCTTTTCCAAAAAACATACCACAAAGGCTTTCACAAGATTAGCCACAAAGGCTTTT
22891573 TCCATATAACAT
66 TCCATATAACAT
* * *
22891585 GCCACAAAGGC-TTTCACAAGATAACATACCACAAAGTCTTTTCACAAGATTAGCTACAAAGGCT
1 GCCACAAAGGCTTTTC-CAA-AAAACATACCACAAAGGC-TTTCACAAGATTAGCCACAAAGGCT
22891649 TTTTC
63 TTTTC
22891654 ACGTAAGCTG
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
75 4 0.07
76 14 0.23
77 15 0.25
78 21 0.35
79 6 0.10
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (77 bp):
GCCACAAAGGCTTTTCCAAAAAACATACCACAAAGGCTTTCACAAGATTAGCCACAAAGGCTTTT
TCCATATAACAT
Found at i:22897225 original size:6 final size:6
Alignment explanation
Indices: 22897209--22897243 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
22897199 TTAAATATAC
22897209 AAAACT AAAAACT AAAACT AAAACT AAAACT AAAA
1 AAAACT -AAAACT AAAACT AAAACT AAAACT AAAA
22897244 GCTCCCAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAACT
Found at i:22900274 original size:21 final size:21
Alignment explanation
Indices: 22900248--22900294 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
22900238 ATAAAATCTC
*
22900248 CTAATACTTATCCTAATAAAA
1 CTAATACATATCCTAATAAAA
* *
22900269 CTAATACATCTTCTAATAAAA
1 CTAATACATATCCTAATAAAA
22900290 -TAATA
1 CTAATA
22900295 ACTAATGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (21 bp):
CTAATACATATCCTAATAAAA
Found at i:22902143 original size:23 final size:24
Alignment explanation
Indices: 22902098--22902143 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
22902088 GTTGTCTGTA
22902098 CACAACGCTATTGAGTGGCTTTGC
1 CACAACGCTATTGAGTGGCTTTGC
22902122 CACAACG-TATTTGAGTGG-TTTG
1 CACAACGCTA-TTGAGTGGCTTTG
22902144 ACCATAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.33
Consensus pattern (24 bp):
CACAACGCTATTGAGTGGCTTTGC
Found at i:22905130 original size:39 final size:39
Alignment explanation
Indices: 22905087--22905204 Score: 175
Period size: 39 Copynumber: 3.0 Consensus size: 39
22905077 TGTTTGTACA
* *
22905087 TACGTGCCCCTGTTATACTTCGGTACCCCTGATCGCACT
1 TACGTGCCCCTGTTGTACTTCAGTACCCCTGATCGCACT
22905126 TACGTGCCCCTGTTGTACTTCAGTACCCCTGATCGCACT
1 TACGTGCCCCTGTTGTACTTCAGTACCCCTGATCGCACT
* * *
22905165 TACGTGCCCTTGTTGTACTTCTA-TACCCCTAATAGCACT
1 TACGTGCCCCTGTTGTACTTC-AGTACCCCTGATCGCACT
22905204 T
1 T
22905205 TCATCTCGTG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
39 72 0.99
40 1 0.01
ACGTcount: A:0.17, C:0.34, G:0.16, T:0.33
Consensus pattern (39 bp):
TACGTGCCCCTGTTGTACTTCAGTACCCCTGATCGCACT
Found at i:22905135 original size:20 final size:20
Alignment explanation
Indices: 22905112--22905173 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
22905102 TACTTCGGTA
22905112 CCCCTGATCGCACTTACGTG
1 CCCCTGATCGCACTTACGTG
* * *
22905132 CCCCTG-TTGTACTT-CAGTA
1 CCCCTGATCGCACTTAC-GTG
22905151 CCCCTGATCGCACTTACGTG
1 CCCCTGATCGCACTTACGTG
22905171 CCC
1 CCC
22905174 TTGTTGTACT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
18 1 0.03
19 14 0.42
20 17 0.52
21 1 0.03
ACGTcount: A:0.15, C:0.40, G:0.18, T:0.27
Consensus pattern (20 bp):
CCCCTGATCGCACTTACGTG
Found at i:22905154 original size:19 final size:20
Alignment explanation
Indices: 22905070--22905184 Score: 78
Period size: 19 Copynumber: 5.9 Consensus size: 20
22905060 GTATATAATT
* *
22905070 GTACCCCTGTTTGTACATAC
1 GTACCCCTGATTGTACTTAC
* *
22905090 GTGCCCCTG-TTATACTT-C
1 GTACCCCTGATTGTACTTAC
* *
22905108 GGTACCCCTGATCGCACTTAC
1 -GTACCCCTGATTGTACTTAC
*
22905129 GTGCCCCTG-TTGTACTT-C
1 GTACCCCTGATTGTACTTAC
* *
22905147 AGTACCCCTGATCGCACTTAC
1 -GTACCCCTGATTGTACTTAC
* *
22905168 GTGCCCTTG-TTGTACTT
1 GTACCCCTGATTGTACTT
22905185 CTATACCCCT
Statistics
Matches: 72, Mismatches: 17, Indels: 13
0.71 0.17 0.13
Matches are distributed among these distances:
18 2 0.03
19 34 0.47
20 34 0.47
21 2 0.03
ACGTcount: A:0.15, C:0.33, G:0.18, T:0.34
Consensus pattern (20 bp):
GTACCCCTGATTGTACTTAC
Found at i:22907242 original size:10 final size:10
Alignment explanation
Indices: 22907227--22907275 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
22907217 ATTAACATAT
22907227 TTAATTTTAA
1 TTAATTTTAA
22907237 TTAATTTTATAA
1 TTAA-TTT-TAA
*
22907249 TTAATTTTGA
1 TTAATTTTAA
*
22907259 TTAATTTTGA
1 TTAATTTTAA
22907269 TT-ATTTT
1 TTAATTTT
22907276 CGACAGATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
9 5 0.14
10 18 0.50
11 6 0.17
12 7 0.19
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:22915463 original size:17 final size:18
Alignment explanation
Indices: 22915441--22915474 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22915431 AATATGTGCA
22915441 ACAAAA-TAAAAAAAATC
1 ACAAAAGTAAAAAAAATC
*
22915458 ACAAAAGTAAGAAAAAT
1 ACAAAAGTAAAAAAAAT
22915475 GAGTAGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.12
Consensus pattern (18 bp):
ACAAAAGTAAAAAAAATC
Found at i:22926651 original size:63 final size:63
Alignment explanation
Indices: 22926579--22926708 Score: 251
Period size: 63 Copynumber: 2.1 Consensus size: 63
22926569 TAATGATTTG
*
22926579 ACAAGTGACAGGAATCAAAGGAATTTAGGTTTCCAAAGAAAATTGAATGGAAGAGTTGGGAGA
1 ACAAGTGACAAGAATCAAAGGAATTTAGGTTTCCAAAGAAAATTGAATGGAAGAGTTGGGAGA
22926642 ACAAGTGACAAGAATCAAAGGAATTTAGGTTTCCAAAGAAAATTGAATGGAAGAGTTGGGAGA
1 ACAAGTGACAAGAATCAAAGGAATTTAGGTTTCCAAAGAAAATTGAATGGAAGAGTTGGGAGA
22926705 ACAA
1 ACAA
22926709 AGGGATGGCA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.45, C:0.08, G:0.27, T:0.20
Consensus pattern (63 bp):
ACAAGTGACAAGAATCAAAGGAATTTAGGTTTCCAAAGAAAATTGAATGGAAGAGTTGGGAGA
Found at i:22928103 original size:29 final size:29
Alignment explanation
Indices: 22928010--22928133 Score: 72
Period size: 29 Copynumber: 4.2 Consensus size: 29
22928000 GAAAGGAATG
* * *
22928010 CCTTTATGGGAAAACTCTAGACAGGAAAG
1 CCTTTATGGAAAAACTCTAAACAGGAAAT
* ** *
22928039 CCTTTGTGGAGAGTACTGGATATAA-AGG-AAT
1 CCTTTATGGA-AAAACT--CTA-AACAGGAAAT
22928070 ACCTTTATGGAAAAACTCTAAACAGGAAAT
1 -CCTTTATGGAAAAACTCTAAACAGGAAAT
* * * * * *
22928100 CCTTTGTAGCACAACTCTAGAGAGGAAAT
1 CCTTTATGGAAAAACTCTAAACAGGAAAT
22928129 CCTTT
1 CCTTT
22928134 GCGATGAGTA
Statistics
Matches: 71, Mismatches: 17, Indels: 14
0.70 0.17 0.14
Matches are distributed among these distances:
28 2 0.03
29 41 0.58
30 7 0.10
31 6 0.08
32 14 0.20
33 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (29 bp):
CCTTTATGGAAAAACTCTAAACAGGAAAT
Found at i:22928158 original size:61 final size:60
Alignment explanation
Indices: 22928093--22928234 Score: 169
Period size: 61 Copynumber: 2.4 Consensus size: 60
22928083 AACTCTAAAC
* * *
22928093 AGGAAATCCTTTGTAGCACAACTCTAGAGAGGAAATCCTTTGCGATGAGTACTGGATATAA
1 AGGAAATCCTTTGTAGCACAAATCTAGAGAGGAAAACCTTTG-GACGAGTACTGGATATAA
* * * *
22928154 AGG-AATACCTTTGTTGCACAAATCTAGATAGGAAAACCTTTGTACGAGTACTTGATATAA
1 AGGAAAT-CCTTTGTAGCACAAATCTAGAGAGGAAAACCTTTGGACGAGTACTGGATATAA
** *
22928214 AGGAACGCCTTTGTGGCACAA
1 AGGAAATCCTTTGTAGCACAA
22928235 GGAAAAATCA
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
60 34 0.49
61 35 0.51
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.27
Consensus pattern (60 bp):
AGGAAATCCTTTGTAGCACAAATCTAGAGAGGAAAACCTTTGGACGAGTACTGGATATAA
Found at i:22928187 original size:90 final size:90
Alignment explanation
Indices: 22928022--22928197 Score: 239
Period size: 90 Copynumber: 2.0 Consensus size: 90
22928012 TTTATGGGAA
* *
22928022 AACTCTAGACAGGAAAGCCTTTGTGGAGAGTACTGGATATAAAGGAATACCTTTATGGAAAAACT
1 AACTCTAGACAGGAAAGCCTTTGTCGAGAGTACTGGATATAAAGGAATACCTTTATGCAAAAACT
*
22928087 CTAAACAGGAAATCCTTTGTAGCAC
66 CTAAACAGGAAAACCTTTGTAGCAC
* * * *
22928112 AACTCTAGAGAGGAAATCCTTTG-CGATGAGTACTGGATATAAAGGAATACCTTTGTTGCACAAA
1 AACTCTAGACAGGAAAGCCTTTGTCGA-GAGTACTGGATATAAAGGAATACCTTT-ATGCAAAAA
* *
22928176 -TCTAGATAGGAAAACCTTTGTA
64 CTCTAAACAGGAAAACCTTTGTA
22928198 CGAGTACTTG
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
89 2 0.03
90 67 0.89
91 6 0.08
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (90 bp):
AACTCTAGACAGGAAAGCCTTTGTCGAGAGTACTGGATATAAAGGAATACCTTTATGCAAAAACT
CTAAACAGGAAAACCTTTGTAGCAC
Found at i:22928233 original size:60 final size:61
Alignment explanation
Indices: 22928100--22928234 Score: 173
Period size: 60 Copynumber: 2.2 Consensus size: 61
22928090 AACAGGAAAT
* * * *
22928100 CCTTTGTAGCACAACTCTAGAGAGGAAATCCTTTGCGATGAGTACTGGATATAAAGGAATA
1 CCTTTGTAGCACAAATCTAGAGAGGAAAACCTTTGCGACGAGTACTGGATATAAAGGAACA
* * * * *
22928161 CCTTTGTTGCACAAATCTAGATAGGAAAACCTTTG-TACGAGTACTTGATATAAAGGAACG
1 CCTTTGTAGCACAAATCTAGAGAGGAAAACCTTTGCGACGAGTACTGGATATAAAGGAACA
*
22928221 CCTTTGTGGCACAA
1 CCTTTGTAGCACAA
22928235 GGAAAAATCA
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
60 33 0.52
61 31 0.48
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (61 bp):
CCTTTGTAGCACAAATCTAGAGAGGAAAACCTTTGCGACGAGTACTGGATATAAAGGAACA
Found at i:22937624 original size:12 final size:12
Alignment explanation
Indices: 22937609--22937638 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22937599 AGCCACAAGC
22937609 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
22937621 CCGTGTGCTAGG
1 CCGTGTGCCAGG
22937633 CCGTGT
1 CCGTGT
22937639 AACTGCCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:22940598 original size:23 final size:23
Alignment explanation
Indices: 22940572--22940619 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
22940562 TTCCCCTTGT
22940572 TAAGGTAAGATCTACATCTTACA
1 TAAGGTAAGATCTACATCTTACA
22940595 TAAGGTAAGATCTACATCTTACA
1 TAAGGTAAGATCTACATCTTACA
22940618 TA
1 TA
22940620 CTAAGCTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (23 bp):
TAAGGTAAGATCTACATCTTACA
Found at i:22943199 original size:50 final size:50
Alignment explanation
Indices: 22943095--22943287 Score: 197
Period size: 50 Copynumber: 3.7 Consensus size: 50
22943085 GGTCATGAGA
* * * *
22943095 TCCCATGTAAGACCATGTTTGGGACATGGAATTGGCATCATTGAGACTACGAGAGG
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA-C--CGAGA-T--GAGAGG
* * *
22943151 TCTCATGTAAGGCCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAGAGG
** * * * **
22943201 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAGAGG
*
22943251 TCCCATGTAAGACCATGTCTAGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA
22943288 GTACAGGAAA
Statistics
Matches: 115, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
50 78 0.68
52 1 0.01
53 4 0.03
55 1 0.01
56 31 0.27
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:22943588 original size:20 final size:20
Alignment explanation
Indices: 22943550--22943588 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22943540 TAAGCAAGCA
*
22943550 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGAAAGTG
*
22943570 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAACAAGAAAGT
22943589 AAAGATCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGAAAGTG
Found at i:22949440 original size:15 final size:15
Alignment explanation
Indices: 22949420--22949448 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22949410 ATTAAATAAG
22949420 CTAAATTTTCTATTT
1 CTAAATTTTCTATTT
22949435 CTAAATTTTCTATT
1 CTAAATTTTCTATT
22949449 ATAGATCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.59
Consensus pattern (15 bp):
CTAAATTTTCTATTT
Found at i:22949857 original size:49 final size:50
Alignment explanation
Indices: 22949736--22949925 Score: 184
Period size: 49 Copynumber: 3.7 Consensus size: 50
22949726 GGTCATGAGA
* * **
22949736 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGACTATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAAC
* * * **
22949792 TCTCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAGGGC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
* *
22949842 TCCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
* * * *
22949891 TCCCATGTAAGACCATATCTGGGATAAGGCATTGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGG
22949926 AAGTACAAGA
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
49 43 0.37
50 34 0.29
53 3 0.03
55 1 0.01
56 35 0.30
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
Found at i:22950228 original size:20 final size:20
Alignment explanation
Indices: 22950190--22950228 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22950180 TAAGCAAGCA
*
22950190 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGAAAGTG
*
22950210 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAACAAGAAAGT
22950229 AAAGATCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGAAAGTG
Found at i:22966583 original size:27 final size:27
Alignment explanation
Indices: 22966553--22966730 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
22966543 ATATCGAGTC
* * * *
22966553 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
22966580 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22966607 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
22966635 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
22966662 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
22966689 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22966716 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22966731 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:22966692 original size:82 final size:81
Alignment explanation
Indices: 22966574--22966729 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
22966564 TGCTATATAA
*
22966574 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
22966639 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
22966656 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
22966720 CACTTAGTGC
65 CACTTAGTGC
22966730 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:22976370 original size:58 final size:58
Alignment explanation
Indices: 22976271--22976389 Score: 211
Period size: 58 Copynumber: 2.1 Consensus size: 58
22976261 AAGTGTGGCG
* *
22976271 TTCGTTATACCTTTGGTTCCTATCTCGTTAGATAGTGGGTCAAGGTTTATTTGTTGAT
1 TTCGCTATACCTTTGGTTCCTATCTCGTTAGATAGTAGGTCAAGGTTTATTTGTTGAT
*
22976329 TTCGCTATACCTTTGGTTCCTATCTCGTTAGATAGTAGGTCAAGTTTTATTTGTTGAT
1 TTCGCTATACCTTTGGTTCCTATCTCGTTAGATAGTAGGTCAAGGTTTATTTGTTGAT
22976387 TTC
1 TTC
22976390 ATTTTTCATT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.18, C:0.15, G:0.20, T:0.47
Consensus pattern (58 bp):
TTCGCTATACCTTTGGTTCCTATCTCGTTAGATAGTAGGTCAAGGTTTATTTGTTGAT
Found at i:22978253 original size:43 final size:43
Alignment explanation
Indices: 22978205--22978293 Score: 133
Period size: 43 Copynumber: 2.1 Consensus size: 43
22978195 TTTTAAAAAT
* * * *
22978205 AAATGCCGCTATAGATCATGACCTTTAGCGGCGCTTCTACCAC
1 AAATGCCGCTAAAGAACATGACCTTTAGCGACGCTTATACCAC
*
22978248 AAATGCCTCTAAAGAACATGACCTTTAGCGACGCTTATACCAC
1 AAATGCCGCTAAAGAACATGACCTTTAGCGACGCTTATACCAC
22978291 AAA
1 AAA
22978294 CACCACTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (43 bp):
AAATGCCGCTAAAGAACATGACCTTTAGCGACGCTTATACCAC
Found at i:22982856 original size:21 final size:21
Alignment explanation
Indices: 22982832--22982883 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
22982822 CGAATCCATA
* * *
22982832 AACCCTAAATCCCTAACTCTT
1 AACCCTAAACCCCTAACCCCT
22982853 AACCTCT-AACCCCTAACCCCT
1 AACC-CTAAACCCCTAACCCCT
22982874 AACCCATAAA
1 AACCC-TAAA
22982884 AATTAAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (21 bp):
AACCCTAAACCCCTAACCCCT
Done.