Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 83 of 168
Found at i:24485157 original size:13 final size:13
Alignment explanation
Indices: 24485139--24485167 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
24485129 TGAGGTGGTA
24485139 GTTCATTTATTTG
1 GTTCATTTATTTG
24485152 GTTCATTTATTTG
1 GTTCATTTATTTG
24485165 GTT
1 GTT
24485168 ATCAATTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.07, G:0.17, T:0.62
Consensus pattern (13 bp):
GTTCATTTATTTG
Found at i:24485298 original size:16 final size:16
Alignment explanation
Indices: 24485277--24485322 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
24485267 CGTTTGGTTC
24485277 ACTGTAATGGAATAGA
1 ACTGTAATGGAATAGA
24485293 ACTGTAACT-GAATAGA
1 ACTGTAA-TGGAATAGA
*
24485309 GCTGTAATGGAATA
1 ACTGTAATGGAATA
24485323 AAGCTATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 1 0.04
16 25 0.93
17 1 0.04
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (16 bp):
ACTGTAATGGAATAGA
Found at i:24485327 original size:16 final size:16
Alignment explanation
Indices: 24485278--24485332 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
24485268 GTTTGGTTCA
24485278 CTGTAATGGAATAGAA-
1 CTGTAATGGAATA-AAG
*
24485294 CTGTAACT-GAATAGAG
1 CTGTAA-TGGAATAAAG
24485310 CTGTAATGGAATAAAG
1 CTGTAATGGAATAAAG
*
24485326 CTATAAT
1 CTGTAAT
24485333 CAATAATTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 2 0.06
16 30 0.91
17 1 0.03
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.27
Consensus pattern (16 bp):
CTGTAATGGAATAAAG
Found at i:24485609 original size:20 final size:20
Alignment explanation
Indices: 24485592--24485639 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
24485582 AATTTAATAA
24485592 AATAAAATAAAATATAATTT
1 AATAAAATAAAATATAATTT
*
24485612 AATAAAATAATATATAATTT
1 AATAAAATAAAATATAATTT
24485632 AATAAAAT
1 AATAAAAT
24485640 TCTTAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AATAAAATAAAATATAATTT
Found at i:24485610 original size:25 final size:22
Alignment explanation
Indices: 24485575--24485639 Score: 89
Period size: 25 Copynumber: 2.9 Consensus size: 22
24485565 TAATAATTAT
24485575 TAAATATAATTTAATAAAATAAAA
1 TAAATATAATTTAATAAAAT--AA
24485599 TAAAATATAATTTAATAAAATAA
1 T-AAATATAATTTAATAAAATAA
24485622 T--ATATAATTTAATAAAAT
1 TAAATATAATTTAATAAAAT
24485640 TCTTAATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
20 17 0.43
23 3 0.08
24 1 0.03
25 19 0.47
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATATAATTTAATAAAATAA
Found at i:24489829 original size:16 final size:18
Alignment explanation
Indices: 24489803--24489835 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24489793 TTAATTTAAA
24489803 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
24489820 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
24489836 CTCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:24490773 original size:24 final size:22
Alignment explanation
Indices: 24490745--24490800 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
24490735 CAACTCTTTC
24490745 CAGCAGATTTCAACTCTTTCACTT
1 CAGCAGATTTC--CTCTTTCACTT
*
24490769 CAGCAGAATT-CTCTTTCACTT
1 CAGCAGATTTCCTCTTTCACTT
*
24490790 CAGTAGATTTC
1 CAGCAGATTTC
24490801 TTCCTCGACA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 19 0.68
24 9 0.32
ACGTcount: A:0.25, C:0.27, G:0.11, T:0.38
Consensus pattern (22 bp):
CAGCAGATTTCCTCTTTCACTT
Found at i:24490784 original size:21 final size:21
Alignment explanation
Indices: 24490758--24490801 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
24490748 CAGATTTCAA
24490758 CTCTTTCACTTCAGCAGAATT
1 CTCTTTCACTTCAGCAGAATT
* *
24490779 CTCTTTCACTTCAGTAGATTT
1 CTCTTTCACTTCAGCAGAATT
24490800 CT
1 CT
24490802 TCCTCGACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.27, G:0.09, T:0.43
Consensus pattern (21 bp):
CTCTTTCACTTCAGCAGAATT
Found at i:24492847 original size:185 final size:184
Alignment explanation
Indices: 24492533--24493090 Score: 823
Period size: 185 Copynumber: 3.0 Consensus size: 184
24492523 ACTATGTTTA
* * * *
24492533 TAGTGTAAA-TTGAGACTAAAATTCTCTCTTTTCTTCATGTATGAGTATATTTGATAAGATGTGA
1 TAGTGTAAACTT-AGACCAAAA-T-TCTCTATTCTTTATGTATGATTATATTTGATAAGATGTGA
*
24492597 CATTCTTGTAATTGTATGCATGTTTCGAGAAATGTATGCGAATGAATGTATGTAATTAATTTATT
63 CATTCTTGTAATTGTATGCATGTTTCGAGGAATGTATGCGAATGAATGTATGTAATTAATTTATT
* *
24492662 GCTATGGATGATAAAGTAATTTTTCCGAATTTGTGATTCATTGAAAATAAATGTAATT
128 GCTATGGATGATAAAGTAAATTTTCCAAATTTGTGATTC-TTGAAAATAAATGTAATT
* *
24492720 TAGTGTAAACTTAGACCAAAATTCTCTATTCTTTATGTATGATTATATTTGATAAAATGTAACAT
1 TAGTGTAAACTTAGACCAAAATTCTCTATTCTTTATGTATGATTATATTTGATAAGATGTGACAT
* * *
24492785 TCTTGTAATTGTATACATGTTTCGAGGAATGTATGAGAATGAATGTATGTAATTAGTTTATTGCT
66 TCTTGTAATTGTATGCATGTTTCGAGGAATGTATGCGAATGAATGTATGTAATTAATTTATTGCT
* * * *
24492850 ATGGATGATAAAGTAAAATTTCCAAATTTATGATTCCTAGAGAATAAATGTAATT
131 ATGGATGATAAAGTAAATTTTCCAAATTTGTGATT-CTTGAAAATAAATGTAATT
* * *
24492905 TAGTGTAAACTGAGACCAAAATTCTCTCTTCTTTATGTTTGATTATATTTGATAAGATGTGACAT
1 TAGTGTAAACTTAGACCAAAATTCTCTATTCTTTATGTATGATTATATTTGATAAGATGTGACAT
* * *
24492970 TCTTGTAATTGTATGCATGTTTCGAGGAATGCATGCGAATGAATGTATGTAATTATTTTATTGCC
66 TCTTGTAATTGTATGCATGTTTCGAGGAATGTATGCGAATGAATGTATGTAATTAATTTATTGCT
* * *
24493035 GTGGATGATAAAGTAAATTTTCCAAAATTGTGATT-TTTAGAAATAAATGTAATT
131 ATGGATGATAAAGTAAATTTTCCAAATTTGTGATTCTTGA-AAATAAATGTAATT
24493089 TA
1 TA
24493091 TTATTATCTC
Statistics
Matches: 335, Mismatches: 33, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
183 2 0.01
184 15 0.04
185 297 0.89
186 2 0.01
187 17 0.05
188 2 0.01
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (184 bp):
TAGTGTAAACTTAGACCAAAATTCTCTATTCTTTATGTATGATTATATTTGATAAGATGTGACAT
TCTTGTAATTGTATGCATGTTTCGAGGAATGTATGCGAATGAATGTATGTAATTAATTTATTGCT
ATGGATGATAAAGTAAATTTTCCAAATTTGTGATTCTTGAAAATAAATGTAATT
Found at i:24493622 original size:22 final size:22
Alignment explanation
Indices: 24493590--24493632 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
24493580 ATGTTCACGC
24493590 ATATATAAGGAAA-ACATGCCAT
1 ATATATAAGGAAAGA-ATGCCAT
*
24493612 ATATATTAGGAAAGAATGCCA
1 ATATATAAGGAAAGAATGCCA
24493633 CATGCACTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.23
Consensus pattern (22 bp):
ATATATAAGGAAAGAATGCCAT
Found at i:24503403 original size:101 final size:102
Alignment explanation
Indices: 24503283--24503467 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
24503273 AAAGTGATGG
* *
24503283 TCACGTGTGTAGTAGTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGATAATGGTCACATGTGTAGT
*
24503346 AATTTGTGCAGGCTACTATGCGTACCAGATAGTTTCGA
65 AATATGTGCAGGCTACTATGCGTACCAGATAGTTTCGA
* *
24503384 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
*
24503449 CTATGTGCAGGCTACTATG
66 ATATGTGCAGGCTACTATG
24503468 TGAACCGAAC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.53
102 32 0.42
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
ATATGTGCAGGCTACTATGCGTACCAGATAGTTTCGA
Found at i:24503410 original size:51 final size:51
Alignment explanation
Indices: 24503279--24503474 Score: 209
Period size: 51 Copynumber: 3.9 Consensus size: 51
24503269 AGTGAAAGTG
* * *
24503279 ATGGTCACGTGTGTAGTAGTATGTGCAGGCTACTACGTGTACCGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * * * *
24503328 ATAGGTCGCATGTGTAGTAATTTGTGCAGGCTACTATGCGTACCAGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * * *
24503379 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* *
24503431 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
24503475 AACATCATTG
Statistics
Matches: 118, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
49 2 0.02
50 37 0.31
51 77 0.65
52 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
Found at i:24503469 original size:26 final size:26
Alignment explanation
Indices: 24503389--24503469 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
24503379 TTCGATCACG
24503389 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
24503415 CGTGTA-T-CGGATG-GTAATGG-TCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCT-ACTA
24503440 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
24503466 TGTG
1 TGTG
24503470 AACCGAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:24503522 original size:45 final size:45
Alignment explanation
Indices: 24503471--24503565 Score: 172
Period size: 45 Copynumber: 2.1 Consensus size: 45
24503461 TACTATGTGA
* *
24503471 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
24503516 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
24503561 ACCGA
1 ACCGA
24503566 GTATCTGTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:24505527 original size:16 final size:17
Alignment explanation
Indices: 24505498--24505530 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24505488 AATAAGCAGC
*
24505498 AAAATCAGAGAAAGAGA
1 AAAAACAGAGAAAGAGA
24505515 AAAAACAGA-AAAGAGA
1 AAAAACAGAGAAAGAGA
24505531 GAGGAATAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.70, C:0.06, G:0.21, T:0.03
Consensus pattern (17 bp):
AAAAACAGAGAAAGAGA
Found at i:24506381 original size:3 final size:3
Alignment explanation
Indices: 24506363--24506419 Score: 71
Period size: 3 Copynumber: 19.0 Consensus size: 3
24506353 TATTTAGTTA
* *
24506363 ATT ATT -TT AGT ATT ATT ATT ATT ATT ATT ATT ACT ATT AATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
*
24506408 ATT ACT ATT ATT
1 ATT ATT ATT ATT
24506420 TTTTTATTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:24509877 original size:21 final size:22
Alignment explanation
Indices: 24509841--24509882 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
24509831 ATTTGAGGTT
24509841 TTTAAAATCAATTTAAAATCAA
1 TTTAAAATCAATTTAAAATCAA
24509863 TTTAAAATC-ATTTAAAATCA
1 TTTAAAATCAATTTAAAATCA
24509883 TTTTTTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAAAATCAATTTAAAATCAA
Found at i:24509885 original size:10 final size:11
Alignment explanation
Indices: 24509841--24509882 Score: 77
Period size: 11 Copynumber: 3.9 Consensus size: 11
24509831 ATTTGAGGTT
24509841 TTTAAAATCAA
1 TTTAAAATCAA
24509852 TTTAAAATCAA
1 TTTAAAATCAA
24509863 TTTAAAATC-A
1 TTTAAAATCAA
24509873 TTTAAAATCA
1 TTTAAAATCA
24509883 TTTTTTGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 10 0.33
11 20 0.67
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (11 bp):
TTTAAAATCAA
Found at i:24515308 original size:45 final size:45
Alignment explanation
Indices: 24515243--24515341 Score: 123
Period size: 45 Copynumber: 2.2 Consensus size: 45
24515233 TTATTTTCAT
* *
24515243 TTCCA-TT-TCCATTTTGAGAAAACCACATTCATTTCTAAATG-A
1 TTCCATTTCTCCATATTGAGAAAACCACAATCATTTCTAAATGTA
* * *
24515285 TTCCATTTCTCCATATTGAAGAAAATCATAATCATTTCTAAATGTT
1 TTCCATTTCTCCATATTG-AGAAAACCACAATCATTTCTAAATGTA
24515331 TTCCATTTCTC
1 TTCCATTTCTC
24515342 TATTTTTATT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 5 0.10
43 2 0.04
44 8 0.17
45 22 0.46
46 11 0.23
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.41
Consensus pattern (45 bp):
TTCCATTTCTCCATATTGAGAAAACCACAATCATTTCTAAATGTA
Found at i:24521064 original size:29 final size:29
Alignment explanation
Indices: 24521032--24521102 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
24521022 ATAATGCCTA
24521032 ATAAATATAACACCGATACAAAGTACCTG
1 ATAAATATAACACCGATACAAAGTACCTG
** *
24521061 AT-AATATGGTCACCGATACATAGTACCTG
1 ATAAATAT-AACACCGATACAAAGTACCTG
24521090 ATAAATATAACAC
1 ATAAATATAACAC
24521103 TAGCACATAG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 5 0.14
29 25 0.71
30 5 0.14
ACGTcount: A:0.45, C:0.20, G:0.11, T:0.24
Consensus pattern (29 bp):
ATAAATATAACACCGATACAAAGTACCTG
Found at i:24521110 original size:29 final size:29
Alignment explanation
Indices: 24520994--24521123 Score: 95
Period size: 29 Copynumber: 4.5 Consensus size: 29
24520984 ACATAGTACC
*
24520994 TAGTACCTAATAAATATAACACTAG-CACA
1 TAGTACCTGATAAATATAACAC-AGACACA
* * * * *
24521023 TAATGCCTAATAAATATAACACCGATACA
1 TAGTACCTGATAAATATAACACAGACACA
* ** * *
24521052 AAGTACCTGAT-AATATGGTCACCGATACA
1 TAGTACCTGATAAATAT-AACACAGACACA
24521081 TAGTACCTGATAAATATAACACTAG-CACA
1 TAGTACCTGATAAATATAACAC-AGACACA
* *
24521110 TAGTGCTTGATAAA
1 TAGTACCTGATAAA
24521124 CTCTAATGAC
Statistics
Matches: 80, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
28 6 0.08
29 68 0.85
30 6 0.08
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (29 bp):
TAGTACCTGATAAATATAACACAGACACA
Found at i:24522931 original size:27 final size:26
Alignment explanation
Indices: 24522870--24522931 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
24522860 CGATAAACTG
* *
24522870 AAAGAAACGCCTTTGTGGCGTACTCT
1 AAAGAAATGCCTTTGTGGCGTACCCT
* * * *
24522896 GAAGGAATGGCTTTCGTGGTGTACCCT
1 AAAGAAATGCCTTT-GTGGCGTACCCT
24522923 AAAGAAATG
1 AAAGAAATG
24522932 TTTCTTGTGG
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (26 bp):
AAAGAAATGCCTTTGTGGCGTACCCT
Found at i:24524300 original size:10 final size:10
Alignment explanation
Indices: 24524287--24524311 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24524277 TAATTACAAA
24524287 AAATTCATAT
1 AAATTCATAT
24524297 AAATTCATAT
1 AAATTCATAT
24524307 AAATT
1 AAATT
24524312 TTGACATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTCATAT
Found at i:24525594 original size:10 final size:10
Alignment explanation
Indices: 24525579--24525617 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
24525569 TACCTTAAAA
24525579 TGTGTAGTTT
1 TGTGTAGTTT
24525589 TGTGTAG-TT
1 TGTGTAGTTT
24525598 TGTGTAGTGTT
1 TGTGTAGT-TT
24525609 T-TGTAGTTT
1 TGTGTAGTTT
24525618 AATGTTTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 11 0.41
10 13 0.48
11 3 0.11
ACGTcount: A:0.10, C:0.00, G:0.31, T:0.59
Consensus pattern (10 bp):
TGTGTAGTTT
Found at i:24525603 original size:19 final size:19
Alignment explanation
Indices: 24525579--24525617 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
24525569 TACCTTAAAA
24525579 TGTGTAGT-TTTGTGTAGTT
1 TGTGTAGTGTTT-TGTAGTT
24525598 TGTGTAGTGTTTTGTAGTT
1 TGTGTAGTGTTTTGTAGTT
24525617 T
1 T
24525618 AATGTTTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.10, C:0.00, G:0.31, T:0.59
Consensus pattern (19 bp):
TGTGTAGTGTTTTGTAGTT
Found at i:24530453 original size:17 final size:18
Alignment explanation
Indices: 24530433--24530478 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
24530423 TTTCTTTTGA
24530433 ATCACTCTTTTTT-TTTT
1 ATCACTCTTTTTTGTTTT
24530450 ATCACTCATCTTTTTGTTTT
1 ATCACTC-T-TTTTTGTTTT
24530470 -TC-CTCTTTT
1 ATCACTCTTTT
24530479 CTCCACTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 3 0.12
17 8 0.31
18 4 0.15
19 7 0.27
20 4 0.15
ACGTcount: A:0.11, C:0.22, G:0.02, T:0.65
Consensus pattern (18 bp):
ATCACTCTTTTTTGTTTT
Found at i:24533713 original size:27 final size:27
Alignment explanation
Indices: 24533683--24533737 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
24533673 TCTTCAAATT
*
24533683 CGGCTGCACCTAAATAAAACAAATGAA
1 CGGCTGCACCTAAATAAAACAAACGAA
24533710 CGGCTGCACCTAAATAAAACAAACGAA
1 CGGCTGCACCTAAATAAAACAAACGAA
24533737 C
1 C
24533738 TTCATTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.47, C:0.25, G:0.15, T:0.13
Consensus pattern (27 bp):
CGGCTGCACCTAAATAAAACAAACGAA
Found at i:24542105 original size:21 final size:22
Alignment explanation
Indices: 24542063--24542112 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
24542053 AAGGTGGAAG
*
24542063 TTATGTGACAGTTTATCTGCAA
1 TTATGTGACAGTTTATCGGCAA
*
24542085 TTATGTGACTG-TTATCGGCAA
1 TTATGTGACAGTTTATCGGCAA
*
24542106 ATATGTG
1 TTATGTG
24542113 GTGGTTTGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (22 bp):
TTATGTGACAGTTTATCGGCAA
Found at i:24542138 original size:47 final size:47
Alignment explanation
Indices: 24542085--24542174 Score: 110
Period size: 47 Copynumber: 1.9 Consensus size: 47
24542075 TTATCTGCAA
* * *
24542085 TTATGT-GACTGTTATCGGCAAATATGTGGTGGTTTGTCCACAATGTG
1 TTATGTGGACAGTTA-CAGCAAATATGTGGTGGCTTGTCCACAATGTG
* **
24542132 TTATGTGGCCAGTTACAGCATTTATGTGGTGGCTTGTCCACAA
1 TTATGTGGACAGTTACAGCAAATATGTGGTGGCTTGTCCACAA
24542175 ATGGTGTGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
47 30 0.83
48 6 0.17
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.37
Consensus pattern (47 bp):
TTATGTGGACAGTTACAGCAAATATGTGGTGGCTTGTCCACAATGTG
Found at i:24542352 original size:22 final size:22
Alignment explanation
Indices: 24542324--24542368 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
24542314 ATTATGATGA
24542324 TTGATATG-ATGAGATTGATATT
1 TTGATATGTATGAGATT-ATATT
*
24542346 TTGATATGTATGTGATTATATT
1 TTGATATGTATGAGATTATATT
24542368 T
1 T
24542369 GTGTTGATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (22 bp):
TTGATATGTATGAGATTATATT
Found at i:24547139 original size:17 final size:17
Alignment explanation
Indices: 24547113--24547145 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24547103 TAAGAGAATA
24547113 GAATAGAATAAAATAAT
1 GAATAGAATAAAATAAT
*
24547130 GAATATAATAAAATAA
1 GAATAGAATAAAATAA
24547146 AAACAAATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (17 bp):
GAATAGAATAAAATAAT
Found at i:24550086 original size:29 final size:29
Alignment explanation
Indices: 24550054--24550290 Score: 93
Period size: 29 Copynumber: 8.4 Consensus size: 29
24550044 GTCGTAATTG
24550054 TCCCTTTTCATATTCGATGGTCCAAACCA
1 TCCCTTTTCATATTCGATGGTCCAAACCA
* * *
24550083 TCCCATTTCA-A-T--A--G-CCGAAGCTA
1 TCCCTTTTCATATTCGATGGTCC-AAACCA
* * * *
24550106 TCCCATTTCATATTCGATAG-CCGAAGCTA
1 TCCCTTTTCATATTCGATGGTCC-AAACCA
* ***
24550135 TCCCTTTTCATATTCAATGGTCGTCACCA
1 TCCCTTTTCATATTCGATGGTCCAAACCA
* ***
24550164 TCCTTTTTCATAGTT-GATGGTCGTCACCA
1 TCCCTTTTCATA-TTCGATGGTCCAAACCA
* * *
24550193 TCCCTTTTCAAAGTT-TATGGT-CATCACCA
1 TCCCTTTTCATA-TTCGATGGTCCA-AACCA
* * * **
24550222 TCCCTTTTTATAATCGAT-GACCAAAGTTA
1 TCCCTTTTCATATTCGATGGTCCAAA-CCA
* * * *
24550251 TCCCTTTTCATATTCGATAGTCGAAGCTA
1 TCCCTTTTCATATTCGATGGTCCAAACCA
24550280 TCCCTTTTCAT
1 TCCCTTTTCAT
24550291 TGGTCGATGA
Statistics
Matches: 162, Mismatches: 32, Indels: 28
0.73 0.14 0.13
Matches are distributed among these distances:
22 2 0.01
23 15 0.09
24 1 0.01
25 2 0.01
27 2 0.01
28 4 0.02
29 129 0.80
30 7 0.04
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (29 bp):
TCCCTTTTCATATTCGATGGTCCAAACCA
Found at i:24562724 original size:26 final size:27
Alignment explanation
Indices: 24562695--24562747 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
24562685 ATGACCGTAA
24562695 TGCCCCTAAAGGGTAAATGACT-ATTT
1 TGCCCCTAAAGGGTAAATGACTGATTT
**
24562721 TGCCCCTCGAGGGTAAATGACTGATTT
1 TGCCCCTAAAGGGTAAATGACTGATTT
24562748 GTACTATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (27 bp):
TGCCCCTAAAGGGTAAATGACTGATTT
Found at i:24568592 original size:29 final size:29
Alignment explanation
Indices: 24568537--24568598 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
24568527 CATAATTTAA
* *
24568537 CATAAAAAGTCCCAAATGGAAATAAAGTT
1 CATAAAAAGTCCCAAATGCAAATAAAGTC
24568566 CATAAAAA-T-CCAAATGACAAATAAAAGTC
1 CATAAAAAGTCCCAAATG-CAAAT-AAAGTC
24568595 CATA
1 CATA
24568599 TTTATGTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 7 0.24
28 5 0.17
29 17 0.59
ACGTcount: A:0.55, C:0.16, G:0.10, T:0.19
Consensus pattern (29 bp):
CATAAAAAGTCCCAAATGCAAATAAAGTC
Found at i:24568998 original size:49 final size:49
Alignment explanation
Indices: 24568920--24569055 Score: 200
Period size: 49 Copynumber: 2.8 Consensus size: 49
24568910 ACACCATTTG
*
24568920 TGGACAAGCCACCACTGATATGCAAATATACTGCCACTGATAAATTTTA
1 TGGACAAGCCACCACTGATTTGCAAATATACTGCCACTGATAAATTTTA
* * * * * *
24568969 TGGACAAGCCACCATTGATTTGTATATATATTGCCATTGATAAATTTTG
1 TGGACAAGCCACCACTGATTTGCAAATATACTGCCACTGATAAATTTTA
*
24569018 TGGACAAGCCACCACTGATTTGCAGATATACTGCCACT
1 TGGACAAGCCACCACTGATTTGCAAATATACTGCCACT
24569056 ACTTTGACCT
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 75 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (49 bp):
TGGACAAGCCACCACTGATTTGCAAATATACTGCCACTGATAAATTTTA
Found at i:24585955 original size:25 final size:25
Alignment explanation
Indices: 24585895--24585955 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
24585885 CTCCTAAATT
24585895 TTAATTGAATTATCTAATTTTTCAA
1 TTAATTGAATTATCTAATTTTTCAA
*
24585920 TTTATTGAATTAT-TAATATTTT-ATA
1 TTAATTGAATTATCTAAT-TTTTCA-A
*
24585945 TTAATTAAATT
1 TTAATTGAATT
24585956 TTTTAGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 5 0.16
25 26 0.84
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (25 bp):
TTAATTGAATTATCTAATTTTTCAA
Found at i:24587823 original size:41 final size:42
Alignment explanation
Indices: 24587719--24587825 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 42
24587709 TCCATAGTTA
* *
24587719 GGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAG
1 GGGTTGCTAAGTGCTGATTCCACCGTATCCTTGAATAT-AAAG
* *
24587762 GGGTTGTTATGTGCTGATTCC-CCGTATCAC-TGAATAT-AAG
1 GGGTTGCTAAGTGCTGATTCCACCGTATC-CTTGAATATAAAG
*
24587802 GTGGTTGCTAAGTGCTCATTCCAC
1 G-GGTTGCTAAGTGCTGATTCCAC
24587826 TTAGTAACAG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
40 4 0.07
41 17 0.31
42 13 0.24
43 20 0.37
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.34
Consensus pattern (42 bp):
GGGTTGCTAAGTGCTGATTCCACCGTATCCTTGAATATAAAG
Found at i:24601407 original size:28 final size:28
Alignment explanation
Indices: 24601366--24601464 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
24601356 AGGGAGATTG
*
24601366 GCACTAAGTATGCGAGTTTAATTGTAAA
1 GCACTAAGTGTGCGAGTTTAATTGTAAA
*
24601394 GCACTAAGTGTGCGAGTTTAATGGTAAA
1 GCACTAAGTGTGCGAGTTTAATTGTAAA
* * *
24601422 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTGTAAA
24601450 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
24601465 ACTTATTAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTGTAAA
Found at i:24608694 original size:22 final size:22
Alignment explanation
Indices: 24608651--24608697 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
24608641 ATTAGGTACC
* *
24608651 ATTGTTGACGCACTTGCGCTTT
1 ATTGTCGACGCACTTGCACTTT
24608673 ATTGTCGACGCACTTTG-ACTTT
1 ATTGTCGACGCAC-TTGCACTTT
24608695 ATT
1 ATT
24608698 TTTAATACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (22 bp):
ATTGTCGACGCACTTGCACTTT
Found at i:24610847 original size:17 final size:17
Alignment explanation
Indices: 24610825--24610857 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24610815 GTTAGTGCAC
*
24610825 ATTGTCGTTGCATTTTT
1 ATTGTCATTGCATTTTT
24610842 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
24610858 AATGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:24616706 original size:19 final size:17
Alignment explanation
Indices: 24616657--24616707 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 17
24616647 TTTTAATGGT
24616657 TAAA-TAAGTAAATTAG
1 TAAATTAAGTAAATTAG
*
24616673 TAAATAAATGATAAATTAAG
1 TAAATTAA-G-TAAATT-AG
24616693 TAAAATTAAGTAAAT
1 T-AAATTAAGTAAAT
24616708 GTATCATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
16 4 0.14
17 2 0.07
18 1 0.04
19 11 0.39
20 4 0.14
21 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (17 bp):
TAAATTAAGTAAATTAG
Found at i:24617594 original size:42 final size:43
Alignment explanation
Indices: 24617547--24617650 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 43
24617537 TCCTGCGGTG
* * *
24617547 TGATTTCATCTAAGACCATGTATGGGAAATTGGCATC-ATATA
1 TGATTTCATGTAAGACCATGCATGGGAAAGTGGCATCGATATA
* * * *
24617589 TGATTTCTTGTAAGACCCTGCCTGGGACAGTGGCATCGATATA
1 TGATTTCATGTAAGACCATGCATGGGAAAGTGGCATCGATATA
* **
24617632 TTATAACATGTAAGACCAT
1 TGATTTCATGTAAGACCAT
24617651 ATTTGGGATA
Statistics
Matches: 49, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
42 30 0.61
43 19 0.39
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (43 bp):
TGATTTCATGTAAGACCATGCATGGGAAAGTGGCATCGATATA
Found at i:24618297 original size:48 final size:48
Alignment explanation
Indices: 24618202--24618302 Score: 123
Period size: 48 Copynumber: 2.1 Consensus size: 48
24618192 GATATGATGC
* * * *
24618202 TGTCAAAATTGGTGCTTAATTGCTGTCCACTTTTGAGTATATTAATGT
1 TGTCAAAATTGGTGCTTAAGTGCTGTCCACTTTTGAGCAAATCAATGT
* **
24618250 TGTCCAAATTGGTGCTTAAGTGCTGTCCTTTTTTGTA-CAAATCAATGT
1 TGTCAAAATTGGTGCTTAAGTGCTGTCCACTTTTG-AGCAAATCAATGT
24618298 TGTCA
1 TGTCA
24618303 GAATGTTCTT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
48 43 0.98
49 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (48 bp):
TGTCAAAATTGGTGCTTAAGTGCTGTCCACTTTTGAGCAAATCAATGT
Found at i:24621139 original size:50 final size:50
Alignment explanation
Indices: 24621078--24621508 Score: 517
Period size: 50 Copynumber: 8.6 Consensus size: 50
24621068 ATTTGGGTAA
* * *
24621078 AGAGGTTCCATGTAAGACAATGTCTGGGACATGGCGTTGGCACCAAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
* * *
24621128 AGAGATCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
*
24621178 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
* * * * *
24621228 AGAGGTCCCATGTAAGACCATGTTTGAGACATGGCGTTGGAACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
* * *
24621278 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
*
24621328 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
** * * * *
24621378 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
** * * * ** * *
24621428 AGAACTCTCATGTAAGACCATATTTGGGGTATGGCATTGGCAGTACAAGA--
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA--CCAAGATG
** *
24621478 A-ACATCCCATGTAAGACTATGTCTGGGACAT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACAT
24621509 AGATTTGGCA
Statistics
Matches: 327, Mismatches: 52, Indels: 5
0.85 0.14 0.01
Matches are distributed among these distances:
49 22 0.07
50 302 0.92
52 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
Found at i:24627695 original size:28 final size:28
Alignment explanation
Indices: 24627664--24627739 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 28
24627654 AACGTTTATA
* *
24627664 AAGATATATATATATATATATATAAAAT
1 AAGATACATAGATATATATATATAAAAT
*
24627692 AAGATACATAGATATATATATATATAAT
1 AAGATACATAGATATATATATATAAAAT
*
24627720 AAGATACAAAGATATATATA
1 AAGATACATAGATATATATA
24627740 AATAGCTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.34
Consensus pattern (28 bp):
AAGATACATAGATATATATATATAAAAT
Found at i:24627736 original size:2 final size:2
Alignment explanation
Indices: 24627667--24627717 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
24627657 GTTTATAAAG
* * * *
24627667 AT AT AT AT AT AT AT AT AT AT A- AA AT A- AG AT AC AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24627707 AT AT AT AT AT A
1 AT AT AT AT AT A
24627718 ATAAGATACA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (2 bp):
AT
Found at i:24627824 original size:27 final size:27
Alignment explanation
Indices: 24627794--24627848 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
24627784 TAAATAAGTA
24627794 AATATAAAA-TAAAAATATAACAATAAT
1 AATATAAAACTAAAAATATAAC-ATAAT
**
24627821 AATATAAAACTAATGATATAACATAAT
1 AATATAAAACTAAAAATATAACATAAT
24627848 A
1 A
24627849 GCGGTAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.27
Consensus pattern (27 bp):
AATATAAAACTAAAAATATAACATAAT
Found at i:24627834 original size:14 final size:13
Alignment explanation
Indices: 24627794--24627848 Score: 65
Period size: 14 Copynumber: 4.1 Consensus size: 13
24627784 TAAATAAGTA
*
24627794 AATATAAAATAAA
1 AATATAAAATAAT
24627807 AATATAACAATAAT
1 AATATAA-AATAAT
24627821 AATATAAAACTAAT
1 AATATAAAA-TAAT
* *
24627835 GATATAACATAAT
1 AATATAAAATAAT
24627848 A
1 A
24627849 GCGGTAACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
13 13 0.36
14 23 0.64
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.27
Consensus pattern (13 bp):
AATATAAAATAAT
Found at i:24630682 original size:18 final size:18
Alignment explanation
Indices: 24630659--24630695 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
24630649 GACTAACCCA
24630659 CCGAAGCTGAAAAACGAC
1 CCGAAGCTGAAAAACGAC
24630677 CCGAAGCTGAAAAACGAC
1 CCGAAGCTGAAAAACGAC
24630695 C
1 C
24630696 ATGATATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.30, G:0.22, T:0.05
Consensus pattern (18 bp):
CCGAAGCTGAAAAACGAC
Found at i:24632370 original size:51 final size:52
Alignment explanation
Indices: 24632181--24632381 Score: 216
Period size: 51 Copynumber: 4.0 Consensus size: 52
24632171 TGAAAGTGAA
* *
24632181 AGTGAT-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* * * * * *
24632231 A-AGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACGATGCGTACCGAAT
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* * * *
24632282 AGCT--TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT
1 AG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* * *
24632333 AGTGAT-GGTCACATGTGTAGTACTATGTGCAGACTACTATGTGAACCGG
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
24632382 TATCATTAAT
Statistics
Matches: 121, Mismatches: 24, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
49 3 0.02
50 39 0.32
51 78 0.64
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (52 bp):
AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
Found at i:24639318 original size:32 final size:32
Alignment explanation
Indices: 24639262--24639335 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
24639252 CAGCTGCCTT
* *
24639262 TGTTCACACCCGATGGACCATCCAACTTC-TGA
1 TGTTCACACCCGAAGGACCATCCAACTCCAT-A
* *
24639294 TGTTCACACCC-AAGGAACCTTCCAAGTCCATA
1 TGTTCACACCCGAAGG-ACCATCCAACTCCATA
24639326 TGTTCACACC
1 TGTTCACACC
24639336 AAAGACTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 3 0.08
32 32 0.89
33 1 0.03
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (32 bp):
TGTTCACACCCGAAGGACCATCCAACTCCATA
Found at i:24641954 original size:50 final size:50
Alignment explanation
Indices: 24641846--24642092 Score: 203
Period size: 50 Copynumber: 4.8 Consensus size: 50
24641836 ATTTGGGTAA
* * *
24641846 AGAGATCCCATGTAAGACCATGTCTCGGACACGACATTGGCACCATTGAGGTTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACC---GA-G--ATG
* *
24641902 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** * *
24641952 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * * *
24642002 AGA-ACTCTTATGTAAGACCATATCTGGGATATAGCATTGGTA--GTACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * * *
24642051 AAACATCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
24642093 TGTTATTATC
Statistics
Matches: 157, Mismatches: 31, Indels: 13
0.78 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 34 0.22
50 80 0.51
52 1 0.01
53 2 0.01
56 39 0.25
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:24650428 original size:175 final size:176
Alignment explanation
Indices: 24650117--24650471 Score: 498
Period size: 175 Copynumber: 2.0 Consensus size: 176
24650107 CTTCAATTAT
* * * * *
24650117 TCAATAATGGTAACATTCTCAAACTATAACAGTACCAAAAATTACGACATGGATCGGCTAGTTTA
1 TCAAAAATGGTAACATTCTCAAAATATAACAGTACAAAAAATTACGACATGGATCAGCTAGCTTA
* *
24650182 AGTTTCCAACATTTTGAAAAACATAAAAATTTCAAGAAAAGGAATAAATTAAACTAACCAAATTG
66 AGTTTCCAACATTCTGAAAAACATAAAAATTTCAAAAAAAGGAATAAATTAAACTAACCAAATTG
* * *
24650247 AAGCTTGAAAAATTGGAGCCCTAGCCATGCTTTGAGAGTTTCTCCC
131 AAGCTTGAAAAATTAGAGCCCTAGCCATGCGTCGAGAGTTTCTCCC
*
24650293 TCAAAAATGGTAACATTCTCAAAATTTAACAGTACAAAAAATTACGACATAGG-TCAGCTAGCTT
1 TCAAAAATGGTAACATTCTCAAAATATAACAGTACAAAAAATTACGACAT-GGATCAGCTAGCTT
* ** * ** * *
24650357 AATTTTCCAGGATTCTG-AAATCATAATGATTTCAAAAAAAGGACTAAATTAAACTAGCCAAATT
65 AAGTTTCCAACATTCTGAAAAACATAAAAATTTCAAAAAAAGGAATAAATTAAACTAACCAAATT
* *
24650421 GAAGCTTGAAAATTTAGAGCCCTAGCCGTGCGTCGAGAGTTTCTCCC
130 GAAGCTTGAAAAATTAGAGCCCTAGCCATGCGTCGAGAGTTTCTCCC
24650468 TCAA
1 TCAA
24650472 TGGTTTCGAT
Statistics
Matches: 157, Mismatches: 21, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
175 87 0.55
176 68 0.43
177 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (176 bp):
TCAAAAATGGTAACATTCTCAAAATATAACAGTACAAAAAATTACGACATGGATCAGCTAGCTTA
AGTTTCCAACATTCTGAAAAACATAAAAATTTCAAAAAAAGGAATAAATTAAACTAACCAAATTG
AAGCTTGAAAAATTAGAGCCCTAGCCATGCGTCGAGAGTTTCTCCC
Found at i:24651114 original size:28 final size:28
Alignment explanation
Indices: 24651074--24651133 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
24651064 CTCGGATCGT
* *
24651074 ACATATGTAGATTACGAAGTCAGTTTGC
1 ACATAAGTAGATTACGAAGTCAGTTTAC
*
24651102 ACATAAGTAGATTACGGAGTCAGTTTAC
1 ACATAAGTAGATTACGAAGTCAGTTTAC
24651130 ACAT
1 ACAT
24651134 GGATGCTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (28 bp):
ACATAAGTAGATTACGAAGTCAGTTTAC
Found at i:24651405 original size:52 final size:52
Alignment explanation
Indices: 24651349--24651492 Score: 173
Period size: 52 Copynumber: 2.8 Consensus size: 52
24651339 ACAATTCACA
* **
24651349 CATTCAATACAATGACAACTCACATATACATTTCATCACAAAA-TAGTTCAAG
1 CATTCAATACAATGAAAACTTGCATATACATTTCATCACAAAACT-GTTCAAG
* * * * ** *
24651401 CATTCGATGCAAAGAAAATTTGTGTATACATTTCATCACAAAACTGTTCATG
1 CATTCAATACAATGAAAACTTGCATATACATTTCATCACAAAACTGTTCAAG
*
24651453 CATTTAATACAATGAAAACTTGCATATACATTTCATCACA
1 CATTCAATACAATGAAAACTTGCATATACATTTCATCACA
24651493 CAAAAAATTT
Statistics
Matches: 74, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
52 73 0.99
53 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (52 bp):
CATTCAATACAATGAAAACTTGCATATACATTTCATCACAAAACTGTTCAAG
Found at i:24659148 original size:20 final size:20
Alignment explanation
Indices: 24659125--24659165 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
24659115 GAAAGCTAAA
*
24659125 TTGAGCTCGAATGAGCTGAT
1 TTGAGCTCAAATGAGCTGAT
24659145 TTGAGCTCAAATGAGCTGAT
1 TTGAGCTCAAATGAGCTGAT
24659165 T
1 T
24659166 GGGGCTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (20 bp):
TTGAGCTCAAATGAGCTGAT
Found at i:24659180 original size:20 final size:20
Alignment explanation
Indices: 24659127--24659181 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
24659117 AAGCTAAATT
* * *
24659127 GAGCTCGAATGAGCTGATTT
1 GAGCTCAAACGAGCTGATTG
*
24659147 GAGCTCAAATGAGCTGATTG
1 GAGCTCAAACGAGCTGATTG
* *
24659167 GGGCTGAAACGAGCT
1 GAGCTCAAACGAGCT
24659182 AAAGGAGCTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (20 bp):
GAGCTCAAACGAGCTGATTG
Found at i:24659578 original size:2 final size:2
Alignment explanation
Indices: 24659573--24659609 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
24659563 AAAAAAATTG
24659573 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24659610 TTTGAGAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:24660701 original size:13 final size:13
Alignment explanation
Indices: 24660673--24660728 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
24660663 TAATAAATTT
*
24660673 TTAATTTT-AATT
1 TTAATTTTAAATA
24660685 TTAATTTTAAATA
1 TTAATTTTAAATA
* *
24660698 TTAATATCAAATA
1 TTAATTTTAAATA
*
24660711 TTATAATTTTCAATA
1 -T-TAATTTTAAATA
24660726 TTA
1 TTA
24660729 TTAAATATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
12 8 0.23
13 16 0.46
14 2 0.06
15 9 0.26
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (13 bp):
TTAATTTTAAATA
Found at i:24660810 original size:30 final size:29
Alignment explanation
Indices: 24660765--24660828 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
24660755 TTAATAATAA
*
24660765 AATAAATTGTTAATA-TAATTTATTATTTT
1 AATAAATTGTTAATATTAAATT-TTATTTT
*
24660794 AATAAATTATTTAATATTAAATTTTATTTT
1 AATAAATT-GTTAATATTAAATTTTATTTT
24660824 AATAA
1 AATAA
24660829 TAAATTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 8 0.26
30 18 0.58
31 5 0.16
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (29 bp):
AATAAATTGTTAATATTAAATTTTATTTT
Found at i:24660824 original size:18 final size:18
Alignment explanation
Indices: 24660803--24660837 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
24660793 TAATAAATTA
*
24660803 TTTAATATTAAATTTTAT
1 TTTAATAATAAATTTTAT
24660821 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
24660838 AAAATAATAC
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:24662946 original size:4 final size:4
Alignment explanation
Indices: 24662937--24662986 Score: 91
Period size: 4 Copynumber: 12.5 Consensus size: 4
24662927 CAAATAATTT
*
24662937 CATA CATA CATA CACA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
24662985 CA
1 CA
24662987 CATACAGTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (4 bp):
CATA
Found at i:24664292 original size:2 final size:2
Alignment explanation
Indices: 24664285--24664323 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
24664275 AACATTATTA
24664285 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24664324 AACAATAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24672100 original size:14 final size:14
Alignment explanation
Indices: 24672081--24672110 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24672071 ATAGATTTTA
24672081 TTTTATTTCTATTT
1 TTTTATTTCTATTT
*
24672095 TTTTATTTTTATTT
1 TTTTATTTCTATTT
24672109 TT
1 TT
24672111 CCCAAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTATTTCTATTT
Found at i:24676543 original size:13 final size:13
Alignment explanation
Indices: 24676525--24676552 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24676515 TACTTTTACC
24676525 ATTATTATATATA
1 ATTATTATATATA
24676538 ATTATTATATATA
1 ATTATTATATATA
24676551 AT
1 AT
24676553 CATGTGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATTATATATA
Found at i:24679038 original size:18 final size:18
Alignment explanation
Indices: 24679015--24679049 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
24679005 TGATAAAATT
24679015 ATTGAAAATTTTCATTTG
1 ATTGAAAATTTTCATTTG
24679033 ATTGAAAATTTTCATTT
1 ATTGAAAATTTTCATTT
24679050 CAGCATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (18 bp):
ATTGAAAATTTTCATTTG
Found at i:24680139 original size:13 final size:15
Alignment explanation
Indices: 24680115--24680146 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
24680105 TTTAAGTGGA
24680115 AATATGTTAATTA-T
1 AATATGTTAATTAGT
24680129 AATAT-TTAATTAGT
1 AATATGTTAATTAGT
24680143 AATA
1 AATA
24680147 AAATAAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (15 bp):
AATATGTTAATTAGT
Found at i:24686956 original size:20 final size:20
Alignment explanation
Indices: 24686919--24686957 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24686909 CCCGCAGTTC
* * *
24686919 AAATTTTCCAACTTTTTCCT
1 AAATGTTCCAAATATTTCCT
24686939 AAATGTTCCAAATATTTCC
1 AAATGTTCCAAATATTTCC
24686958 AATTTAGTCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.23, G:0.03, T:0.44
Consensus pattern (20 bp):
AAATGTTCCAAATATTTCCT
Found at i:24686957 original size:30 final size:29
Alignment explanation
Indices: 24686918--24686975 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
24686908 CCCCGCAGTT
*
24686918 CAAATTTTCCAACTTT-TTCCTAAATGTTC
1 CAAATTTTCCAA-TTTAGTCCTAAATGTTC
24686947 CAAATATTTCCAATTTAGTCCTAAATGTT
1 CAAAT-TTTCCAATTTAGTCCTAAATGTT
24686976 TCTAAAGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.43
Consensus pattern (29 bp):
CAAATTTTCCAATTTAGTCCTAAATGTTC
Found at i:24691884 original size:20 final size:20
Alignment explanation
Indices: 24691844--24691901 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
24691834 CCCTAGTTTG
* **
24691844 CACTTCGGTGCCCTTACTCA
1 CACTTCAGTGCCCTTGTTCA
24691864 CACTTCAGTGCCCTTGTTCA
1 CACTTCAGTGCCCTTGTTCA
* * *
24691884 CACATCAATGCCCCTGTT
1 CACTTCAGTGCCCTTGTT
24691902 TGCACTTTGG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.17, C:0.38, G:0.14, T:0.31
Consensus pattern (20 bp):
CACTTCAGTGCCCTTGTTCA
Found at i:24692307 original size:24 final size:24
Alignment explanation
Indices: 24692272--24692326 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
24692262 AAGATCGAAC
24692272 ATGA-GTTAAATAAAATTGTTTGA
1 ATGATGTTAAATAAAATTGTTTGA
*
24692295 ATGATGTTAAATAAACTTGTTTGA
1 ATGATGTTAAATAAAATTGTTTGA
24692319 ATGATGTT
1 ATGATGTT
24692327 GAAAAACGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 4 0.13
24 26 0.87
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.42
Consensus pattern (24 bp):
ATGATGTTAAATAAAATTGTTTGA
Found at i:24692527 original size:275 final size:275
Alignment explanation
Indices: 24692036--24692557 Score: 1008
Period size: 275 Copynumber: 1.9 Consensus size: 275
24692026 ATTAACAAAA
*
24692036 TTGTTTGAATGATGTTGAAAACCGAATCTAAATTGGATAAATGACAGTGGAATGCCATAAATGTT
1 TTGTTTGAATGATGTTGAAAAACGAATCTAAATTGGATAAATGACAGTGGAATGCCATAAATGTT
24692101 ATATGATTCGTGTGTGAAAAACTCACCTGTTGCTGTGAAATTCTGATAGCAGGGATTTGTATAGT
66 ATATGATTCGTGTGTGAAAAACTCACCTGTTGCTGTGAAATTCTGATAGCAGGGATTTGTATAGT
24692166 AGCTAGTTCATTTGTTTAAATATGAACTGAGGTGAATTATATTGTTTAAAATGTGAATGATAATG
131 AGCTAGTTCATTTGTTTAAATATGAACTGAGGTGAATTATATTGTTTAAAATGTGAATGATAATG
24692231 GAACAAAATGACTTGAGTTATAAATGGTCAAAAGATCGAACATGAGTTAAATAAAATTGTTTGAA
196 GAACAAAATGACTTGAGTTATAAATGGTCAAAAGATCGAACATGAGTTAAATAAAATTGTTTGAA
24692296 TGATGTTAAATAAAC
261 TGATGTTAAATAAAC
*
24692311 TTGTTTGAATGATGTTGAAAAACGAATCTGAATTGGATAAATGACAGTGGAATGCCATAAATGTT
1 TTGTTTGAATGATGTTGAAAAACGAATCTAAATTGGATAAATGACAGTGGAATGCCATAAATGTT
*
24692376 ATATGATTCGTGTGTGAAAAACTCACCTGTTGCTGTGAAATTTTGATAGCAGGGATTTGTATAGT
66 ATATGATTCGTGTGTGAAAAACTCACCTGTTGCTGTGAAATTCTGATAGCAGGGATTTGTATAGT
*
24692441 AGCTAGTTCATTTGTTTAAATATGAACTGAGGTGAATTATGTTGTTTAAAATGTGAATGATAATG
131 AGCTAGTTCATTTGTTTAAATATGAACTGAGGTGAATTATATTGTTTAAAATGTGAATGATAATG
24692506 GAACAAAATGACTTGAGTTATAAATGGTCAAAAGATCGAACATGAGTTAAAT
196 GAACAAAATGACTTGAGTTATAAATGGTCAAAAGATCGAACATGAGTTAAAT
24692558 GGTTATGTTA
Statistics
Matches: 243, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
275 243 1.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.34
Consensus pattern (275 bp):
TTGTTTGAATGATGTTGAAAAACGAATCTAAATTGGATAAATGACAGTGGAATGCCATAAATGTT
ATATGATTCGTGTGTGAAAAACTCACCTGTTGCTGTGAAATTCTGATAGCAGGGATTTGTATAGT
AGCTAGTTCATTTGTTTAAATATGAACTGAGGTGAATTATATTGTTTAAAATGTGAATGATAATG
GAACAAAATGACTTGAGTTATAAATGGTCAAAAGATCGAACATGAGTTAAATAAAATTGTTTGAA
TGATGTTAAATAAAC
Found at i:24708117 original size:11 final size:11
Alignment explanation
Indices: 24708098--24708127 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24708088 AGAATGATGA
*
24708098 ATGAGTGAGGG
1 ATGATTGAGGG
24708109 ATGATTGAGGG
1 ATGATTGAGGG
24708120 ATGATTGA
1 ATGATTGA
24708128 AAAAGTGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.43, T:0.27
Consensus pattern (11 bp):
ATGATTGAGGG
Found at i:24709377 original size:46 final size:46
Alignment explanation
Indices: 24709325--24709419 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
24709315 ACAAAGAAAA
* *
24709325 AACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATG
1 AACCTCGACCCACTATAAAGAATGATAGGAACCTTAGTATATGATG
*
24709371 AACCTCGACCCACTATAAAGGATGATAGGAACCTTAGTATATGATG
1 AACCTCGACCCACTATAAAGAATGATAGGAACCTTAGTATATGATG
24709417 AAC
1 AAC
24709420 GCCACACTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (46 bp):
AACCTCGACCCACTATAAAGAATGATAGGAACCTTAGTATATGATG
Found at i:24711862 original size:33 final size:31
Alignment explanation
Indices: 24711801--24711864 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 31
24711791 ATGGCAGTGT
* *
24711801 TTATATGAAAGACCATAGCTGGGCTATGGCA
1 TTATATGAAAGACCATAACTGAGCTATGGCA
*
24711832 TTATGATGATAAGACCATAACTGAGTTATGGCA
1 TTAT-ATGA-AAGACCATAACTGAGCTATGGCA
24711865 CTACGAATGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 4 0.14
32 4 0.14
33 20 0.71
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (31 bp):
TTATATGAAAGACCATAACTGAGCTATGGCA
Found at i:24717183 original size:101 final size:102
Alignment explanation
Indices: 24717068--24717252 Score: 277
Period size: 101 Copynumber: 1.8 Consensus size: 102
24717058 AAAGTGATGG
* * *
24717068 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-AGA-A-TGATAGGTCGCATGTGTAC
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGA-ATAGTGAT-GGTCACAAGTGTAC
*
24717130 TACTATGTGTAGGCTACTATGCGTACAGGATAGCTTCGA
64 TACTATGTGCAGGCTACTATGCGTACAGGATAGCTTCGA
* *
24717169 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATAGTGATGGTCACAAGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGTGATGGTCACAAGTGTACTA
24717234 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
24717253 TGAACCGGTA
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
101 38 0.51
102 33 0.44
103 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGTGATGGTCACAAGTGTACTA
CTATGTGCAGGCTACTATGCGTACAGGATAGCTTCGA
Found at i:24717188 original size:51 final size:50
Alignment explanation
Indices: 24717065--24717250 Score: 207
Period size: 51 Copynumber: 3.7 Consensus size: 50
24717055 GTGAAAGTGA
*
24717065 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAT-GAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATAG-T
* * * * * * *
24717115 AGGTCGCATGTGTACTACTATGTGTAGGCTACTATGCGTA-CAGGATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATAG-T
* *
24717165 TCGATCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GAATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATAGT
*
24717215 GATGGTCACAAGTGTAGTACTATGTGCAGGCTACTA
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
24717251 TGTGAACCGG
Statistics
Matches: 112, Mismatches: 19, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 5 0.04
50 36 0.32
51 69 0.62
52 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATAGT
Found at i:24717499 original size:16 final size:16
Alignment explanation
Indices: 24717478--24717509 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24717468 TGATTGAAAG
*
24717478 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
24717494 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
24717510 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:24725485 original size:18 final size:19
Alignment explanation
Indices: 24725443--24725487 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
24725433 TCAAGATCTT
24725443 AAATTAATGTGGTCCAAAG
1 AAATTAATGTGGTCCAAAG
24725462 AAATTAATGTGGTCCAAA-
1 AAATTAATGTGGTCCAAAG
24725480 AAATTAAT
1 AAATTAAT
24725488 TAGTACATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.29
Consensus pattern (19 bp):
AAATTAATGTGGTCCAAAG
Found at i:24728910 original size:3 final size:3
Alignment explanation
Indices: 24728904--24728992 Score: 58
Period size: 3 Copynumber: 29.7 Consensus size: 3
24728894 CTTATATCTT
* * * *
24728904 TAA TAA TAA TAA TAA TAA TAC TTA TAA TATT TAA TAA TAA T-A CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* * * *
24728949 TAA TAA TACC T-A TAA TATT TAA TAA TAA T-A CAA TAA TAA AAA TA
1 TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA
24728993 TGTTTAACAA
Statistics
Matches: 64, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
2 3 0.05
3 56 0.88
4 5 0.08
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:24728951 original size:33 final size:33
Alignment explanation
Indices: 24728884--24728987 Score: 169
Period size: 33 Copynumber: 3.2 Consensus size: 33
24728874 AAATATGTTG
*
24728884 AATAATAATACTTAT-ATCTTTAATAATAAT--
1 AATAATAATACTTATAATATTTAATAATAATAC
24728914 AATAATAATACTTATAATATTTAATAATAATAC
1 AATAATAATACTTATAATATTTAATAATAATAC
*
24728947 AATAATAATACCTATAATATTTAATAATAATAC
1 AATAATAATACTTATAATATTTAATAATAATAC
24728980 AATAATAA
1 AATAATAA
24728988 AAATATGTTT
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
30 15 0.22
31 14 0.20
33 40 0.58
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (33 bp):
AATAATAATACTTATAATATTTAATAATAATAC
Found at i:24729994 original size:26 final size:26
Alignment explanation
Indices: 24729960--24730019 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
24729950 AATTAATAAT
24729960 ATTATAAAAATATAAAGAT-TAAATTAA
1 ATTA-AAAAATA-AAAGATATAAATTAA
* *
24729987 ATTAAAAATTAAAATATATAAATTAA
1 ATTAAAAAATAAAAGATATAAATTAA
*
24730013 ATCAAAA
1 ATTAAAA
24730020 CTAAAATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.69
27 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (26 bp):
ATTAAAAAATAAAAGATATAAATTAA
Found at i:24730027 original size:31 final size:31
Alignment explanation
Indices: 24729966--24730025 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
24729956 TAATATTATA
* *
24729966 AAAATATAAAGATTAAATTAAATTAAAAATT
1 AAAATATAAAGATTAAATAAAACTAAAAATT
24729997 AAAATATATAA-ATTAAATCAAAACTAAAA
1 AAAATATA-AAGATTAAAT-AAAACTAAAA
24730026 TTTATTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 15 0.60
32 10 0.40
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (31 bp):
AAAATATAAAGATTAAATAAAACTAAAAATT
Found at i:24731439 original size:50 final size:49
Alignment explanation
Indices: 24731376--24731479 Score: 140
Period size: 49 Copynumber: 2.1 Consensus size: 49
24731366 GTGTTCTACA
*
24731376 TTTAATTAAGTCATGCA-TA-AAAACATCTTATATGTTAATTAAGTTTGTAT
1 TTTAATTAAGTCATGCATTATAAAAC-TC--ATATGTTAAATAAGTTTGTAT
* *
24731426 TTTAATTATGTCATGCATTATGAAACTCATATGTTAAATAAGTTTGTAT
1 TTTAATTAAGTCATGCATTATAAAACTCATATGTTAAATAAGTTTGTAT
24731475 TTTAA
1 TTTAA
24731480 GACGTGCATT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
49 25 0.51
50 16 0.33
51 4 0.08
52 4 0.08
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.45
Consensus pattern (49 bp):
TTTAATTAAGTCATGCATTATAAAACTCATATGTTAAATAAGTTTGTAT
Found at i:24731514 original size:46 final size:47
Alignment explanation
Indices: 24731399--24731515 Score: 139
Period size: 49 Copynumber: 2.5 Consensus size: 47
24731389 TGCATAAAAA
* *
24731399 CATCTTATATGTTAATTAAGTTTGTATTTTAATTATGTCATGCATTATG
1 CATCTTATATGTTAATTAAGTTTGTATTTTAATGACGTCAT--ATTATG
* * * *
24731448 AAACTCATATGTTAAATAAGTTTGTATTTTAA-GACGTGCAT-TTATG
1 CATCTTATATGTTAATTAAGTTTGTATTTTAATGACGT-CATATTATG
24731494 CATCTTATATGTTAATTAAGTT
1 CATCTTATATGTTAATTAAGTT
24731516 CAAGCATAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
46 23 0.40
48 3 0.05
49 31 0.54
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.47
Consensus pattern (47 bp):
CATCTTATATGTTAATTAAGTTTGTATTTTAATGACGTCATATTATG
Found at i:24731891 original size:37 final size:37
Alignment explanation
Indices: 24731850--24731944 Score: 127
Period size: 37 Copynumber: 2.6 Consensus size: 37
24731840 CATCAAGCAT
* *
24731850 AGAGACATGACTATTCAAATACACATAGATCAAGTGA
1 AGAGACATGACTTTTCAAATACACATAGAACAAGTGA
* * * *
24731887 AGAGACATGGCTTTTCAACTAGACATGGAACAAGTGA
1 AGAGACATGACTTTTCAAATACACATAGAACAAGTGA
*
24731924 AGAAACATGACTTTTCAAATA
1 AGAGACATGACTTTTCAAATA
24731945 TCTTTCATTC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (37 bp):
AGAGACATGACTTTTCAAATACACATAGAACAAGTGA
Found at i:24735654 original size:99 final size:101
Alignment explanation
Indices: 24735541--24735761 Score: 250
Period size: 99 Copynumber: 2.2 Consensus size: 101
24735531 TATCCTATAT
** * * * * *
24735541 ATGGTCTTACATGGGAGTTCTCATATCGGTG-TCCATGCGATGTCCCAGACATGGTCTTACGGGG
1 ATGGTCTTACATGGGACCTCTAATATCGGTGCT-AACGCCATGTCCCAGACATGGTCTTACAGGG
*
24735605 GACCTCTC-TCT-TGGTGCCAACGCCATGTCCCAGAC
65 GACCTCTCATCTATGATGCCAACGCCATGTCCCAGAC
* * *
24735640 ATGGTCTTATATGGGACCTCTAATCTCGGTGCTAACGCCATGTCCCAGACATGGTCTTACATGGG
1 ATGGTCTTACATGGGACCTCTAATATCGGTGCTAACGCCATGTCCCAGACATGGTCTTACAGGGG
*
24735705 ACCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAGAC
66 ACCTCTC---ATCT--ATGATGCCAACGCCATGTCCCAGAC
*
24735746 ATGCTCTTACATGGGA
1 ATGGTCTTACATGGGA
24735762 TCTCATTCAC
Statistics
Matches: 100, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
99 60 0.60
100 1 0.01
103 3 0.03
106 36 0.36
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.28
Consensus pattern (101 bp):
ATGGTCTTACATGGGACCTCTAATATCGGTGCTAACGCCATGTCCCAGACATGGTCTTACAGGGG
ACCTCTCATCTATGATGCCAACGCCATGTCCCAGAC
Found at i:24735692 original size:50 final size:50
Alignment explanation
Indices: 24735541--24735761 Score: 230
Period size: 50 Copynumber: 4.3 Consensus size: 50
24735531 TATCCTATAT
** * * * *
24735541 ATGGTCTTACATGGGAGTTCTCATATCGGTGTCC-ATGCGATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTAATCTCGGTG-CCAACGCCATGTCCCAGAC
** * *
24735591 ATGGTCTTACGGGGGACCTCT-CTCTTGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTAATCTCGGTGCCAACGCCATGTCCCAGAC
* *
24735640 ATGGTCTTATATGGGACCTCTAATCTCGGTGCTAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTAATCTCGGTGCCAACGCCATGTCCCAGAC
* *
24735690 ATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGA-C-CTC-TAATCTC---GGTGCCAACGCCATGTCCCAGAC
*
24735746 ATGCTCTTACATGGGA
1 ATGGTCTTACATGGGA
24735762 TCTCATTCAC
Statistics
Matches: 143, Mismatches: 20, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
48 2 0.01
49 38 0.27
50 57 0.40
51 1 0.01
52 3 0.02
53 7 0.05
56 35 0.24
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTAATCTCGGTGCCAACGCCATGTCCCAGAC
Found at i:24736605 original size:21 final size:21
Alignment explanation
Indices: 24736579--24736620 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
24736569 AATGAAGAAG
24736579 ATGAGCATATTTTGCCATCTT
1 ATGAGCATATTTTGCCATCTT
24736600 ATGAGCATATTTTGCCATCTT
1 ATGAGCATATTTTGCCATCTT
24736621 TTCCCCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43
Consensus pattern (21 bp):
ATGAGCATATTTTGCCATCTT
Found at i:24740086 original size:50 final size:51
Alignment explanation
Indices: 24740027--24740157 Score: 140
Period size: 50 Copynumber: 2.6 Consensus size: 51
24740017 TATTGAGGTT
*** * *
24740027 ATGAGAGGTCCCACGTAAGACCATATCTAGGG-CATGGTGTTGGCACTGAG
1 ATGAGAGGTCCCACGTAAGACCATATCTAGGGACATGACATGGGCACCGAG
* * * *
24740077 ATGAGAGGTCCCCCATAAGACCATGTCT-GGGACATGACATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATATCTAGGGACATGACATGGGCACCGAG
** *
24740127 ATGAGAACTCCCATGTAAGACCATATCTAGG
1 ATGAGAGGTCCCACGTAAGACCATATCTAGG
24740158 ATATGGCATT
Statistics
Matches: 64, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
49 3 0.05
50 59 0.92
51 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (51 bp):
ATGAGAGGTCCCACGTAAGACCATATCTAGGGACATGACATGGGCACCGAG
Found at i:24753429 original size:16 final size:15
Alignment explanation
Indices: 24753410--24753443 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
24753400 AAATGACTTG
24753410 AAAAGAAAATAAAAAT
1 AAAAGAAAAT-AAAAT
*
24753426 AAAAGCAAATAAAAT
1 AAAAGAAAATAAAAT
24753441 AAA
1 AAA
24753444 TAAATATCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (15 bp):
AAAAGAAAATAAAAT
Found at i:24760230 original size:49 final size:49
Alignment explanation
Indices: 24760158--24760343 Score: 180
Period size: 51 Copynumber: 3.7 Consensus size: 49
24760148 GTGAAGTTGC
* *
24760158 TAGGTCACGTGTGTAGTACTATGTGTAGGCTACTACAGTACCGGAAT-GA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACAGTACC-GAATAGA
* *
24760207 TAGGTCATATGTGTAGTACTATGTGCAGGCTACTATGC-GTACCGAATAGCT
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTA--CAGTACCGAATAG-A
* * * * * *
24760258 TCGATCACATGTGTAGTAGTATGTGCAGGCTACTACGAGTGTCTG-ATAAA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTAC-AGT-ACCGAATAGA
* *
24760308 AATGGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 TA-GGTCACATGTGTAGTACTATGTGCAGGCTACTA
24760344 TGTGAACTGA
Statistics
Matches: 112, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
49 37 0.33
50 6 0.05
51 67 0.60
52 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (49 bp):
TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACAGTACCGAATAGA
Found at i:24764458 original size:20 final size:20
Alignment explanation
Indices: 24764395--24764459 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
24764385 TTGCAATGGC
24764395 ATTTCGTGTCTTCTAGATAG
1 ATTTCGTGTCTTCTAGATAG
* * *
24764415 ATTTC--CTATTCTTG-TCAGG
1 ATTTCGTGTCTTCTAGAT-A-G
24764434 CATTTCGTGTCTTCTAGATAG
1 -ATTTCGTGTCTTCTAGATAG
24764455 ATTTC
1 ATTTC
24764460 CTATTCTCTG
Statistics
Matches: 33, Mismatches: 6, Indels: 12
0.65 0.12 0.24
Matches are distributed among these distances:
17 1 0.03
18 7 0.21
19 1 0.03
20 15 0.45
21 1 0.03
22 7 0.21
23 1 0.03
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTCGTGTCTTCTAGATAG
Found at i:24773091 original size:42 final size:42
Alignment explanation
Indices: 24773032--24773115 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
24773022 TGTACCTCAA
*
24773032 TGTCACACGACATCGGTCTTTCACATAGCCTGGCGACATGGT
1 TGTCACACGACATCGGTCTTTCACATAGCCCGGCGACATGGT
24773074 TGTCACACGACATCGGTCTTTCACATAGCCCGGCGACATGGT
1 TGTCACACGACATCGGTCTTTCACATAGCCCGGCGACATGGT
24773116 CGTGTGATCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.25
Consensus pattern (42 bp):
TGTCACACGACATCGGTCTTTCACATAGCCCGGCGACATGGT
Found at i:24774136 original size:28 final size:28
Alignment explanation
Indices: 24774104--24774200 Score: 140
Period size: 28 Copynumber: 3.5 Consensus size: 28
24774094 AAACAATAGG
* *
24774104 CAATGGAAGCCTTTGTGGCAATCGATGA
1 CAATGGAAGCCTTTGTGGTAATCTATGA
*
24774132 CAATGGAAGCCTTTGTGGTAATCTATAA
1 CAATGGAAGCCTTTGTGGTAATCTATGA
* *
24774160 CAATGGAAGCCTTTGTGGTGATCTAAGA
1 CAATGGAAGCCTTTGTGGTAATCTATGA
*
24774188 AAATGGAAGCCTT
1 CAATGGAAGCCTT
24774201 CGTGACAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (28 bp):
CAATGGAAGCCTTTGTGGTAATCTATGA
Found at i:24790389 original size:44 final size:44
Alignment explanation
Indices: 24790341--24790549 Score: 147
Period size: 44 Copynumber: 4.8 Consensus size: 44
24790331 CCTCGGTTGC
* *
24790341 AGTGGAGCAGGTTAAAGATAGCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATTAAAGACAGCAGATCTTATCTCCCTAAGCAGT
* * * *
24790385 AGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCC-AAG-A-T
1 AGTGGAGCAGATTAAAGACAGCAGATCTTATC-TCCCTAAGCAGT
* * * * * *
24790427 AGTGGGAAGCAGATTTAAGCCA-CCGAACCTTGTCTCCCTAAGCAGC
1 AGT-GG-AGCAGATTAAAGACAGCAG-ATCTTATCTCCCTAAGCAGT
* * * * ** *
24790473 AGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATTAAAGACAGCAGATCTTATCTCCCTAAGCAGT
* * * *
24790517 AGTGGAGCAGATCAAAGACGGAAAATCTTATCT
1 AGTGGAGCAGATTAAAGACAGCAGATCTTATCT
24790550 TTCCAAGATA
Statistics
Matches: 120, Mismatches: 37, Indels: 16
0.69 0.21 0.09
Matches are distributed among these distances:
42 4 0.03
43 7 0.06
44 100 0.83
45 7 0.06
46 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (44 bp):
AGTGGAGCAGATTAAAGACAGCAGATCTTATCTCCCTAAGCAGT
Found at i:24790559 original size:132 final size:132
Alignment explanation
Indices: 24790339--24790638 Score: 453
Period size: 132 Copynumber: 2.3 Consensus size: 132
24790329 TCCCTCGGTT
*
24790339 GCAGTGGAGCAGGTTAAAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
1 GCAGTGGAGTAGGTTAAAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
*
24790404 GGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCGAA-CCTTGTCTCCCTAA
66 GGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACC-AAGCCTTGTCTCCCTAA
24790468 GCA
130 GCA
* * * *
24790471 GCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
1 GCAGTGGAGTAGGTTAAAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
* *
24790536 GGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTTTCCCTGAG
66 GGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAG
24790601 CA
131 CA
** *
24790603 ATAGTGGAGTAGGTTTAAA-ATTA-CAGGTCTTATCTC
1 GCAGTGGAGTAGG-TTAAAGA-TAGCAGATCTTATCTC
24790639 TCTGAAGTTG
Statistics
Matches: 150, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
131 2 0.01
132 143 0.95
133 5 0.03
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (132 bp):
GCAGTGGAGTAGGTTAAAGATAGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
GGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAG
CA
Found at i:24795079 original size:8 final size:8
Alignment explanation
Indices: 24795066--24795094 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
24795056 CACTAGAGAC
24795066 CAGTGTTA
1 CAGTGTTA
24795074 CAGTGTTA
1 CAGTGTTA
24795082 CAGTGTTA
1 CAGTGTTA
24795090 CAGTG
1 CAGTG
24795095 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:24795207 original size:23 final size:23
Alignment explanation
Indices: 24795181--24795233 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
24795171 AGTGTTATTG
24795181 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
24795204 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
24795227 ATCAGTG
1 ATCAGTG
24795234 TGGCACTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:24795697 original size:29 final size:29
Alignment explanation
Indices: 24795654--24795717 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
24795644 TTAAAATATG
*
24795654 GCATG-TATAGTGTCTTAATCATTTTTGA
1 GCATGTTATAGAGTCTTAATCATTTTTGA
24795682 GCATGTTATAGAGTCTTAATCATTTTTGA
1 GCATGTTATAGAGTCTTAATCATTTTTGA
24795711 GCATGTT
1 GCATGTT
24795718 CAAATGATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 5 0.15
29 29 0.85
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.45
Consensus pattern (29 bp):
GCATGTTATAGAGTCTTAATCATTTTTGA
Found at i:24797964 original size:47 final size:48
Alignment explanation
Indices: 24797910--24798006 Score: 162
Period size: 48 Copynumber: 2.0 Consensus size: 48
24797900 GACTTTACCA
24797910 ACCAATTCACA-ACAT-TTTAGGGTGTTTTCACTTATTAAAACTTATTT
1 ACCAATTCACATA-ATATTTAGGGTGTTTTCACTTATTAAAACTTATTT
*
24797957 ACCAATTCACATAATATTTTGGGTGTTTTCACTTATTAAAACTTATTT
1 ACCAATTCACATAATATTTAGGGTGTTTTCACTTATTAAAACTTATTT
24798005 AC
1 AC
24798007 TCATGGAATG
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
47 13 0.28
48 34 0.72
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.43
Consensus pattern (48 bp):
ACCAATTCACATAATATTTAGGGTGTTTTCACTTATTAAAACTTATTT
Found at i:24802102 original size:23 final size:23
Alignment explanation
Indices: 24802072--24802343 Score: 299
Period size: 23 Copynumber: 11.9 Consensus size: 23
24802062 TAGACATGTA
24802072 TAAAAACCCTAACCTAATTAAAT
1 TAAAAACCCTAACCTAATTAAAT
* *
24802095 TAAAAACCCTAACCTAGTTTAAT
1 TAAAAACCCTAACCTAATTAAAT
* *
24802118 TAAAAATCCTAAACCCT-A--AACT
1 TAAAAACCCT-AA-CCTAATTAAAT
24802140 TAAAAACCCTAACCTAATTAAAT
1 TAAAAACCCTAACCTAATTAAAT
*
24802163 TAAAAATCCTAACCTAATTAAAT
1 TAAAAACCCTAACCTAATTAAAT
* *
24802186 TAAAAACCCTAAACT--CTAAACT
1 TAAAAACCCTAACCTAATTAAA-T
*** *
24802208 TAAAAACCCTAACCCCCTTAACT
1 TAAAAACCCTAACCTAATTAAAT
*
24802231 TAAAAACCCTAACCTAATTAACT
1 TAAAAACCCTAACCTAATTAAAT
24802254 TAAAAACCCTAACCTAATTAAAT
1 TAAAAACCCTAACCTAATTAAAT
*
24802277 TAAAAACCCTAAACCCT-A--AACT
1 TAAAAACCCT-AA-CCTAATTAAAT
*
24802299 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTAAAT
*
24802322 TAAAAACCCTAAACTAAATTAA
1 TAAAAACCCTAACCT-AATTAA
24802344 TAATTTTACT
Statistics
Matches: 210, Mismatches: 25, Indels: 27
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.03
21 10 0.05
22 38 0.18
23 137 0.65
24 13 0.06
25 6 0.03
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (23 bp):
TAAAAACCCTAACCTAATTAAAT
Found at i:24802149 original size:45 final size:45
Alignment explanation
Indices: 24802090--24802310 Score: 176
Period size: 45 Copynumber: 4.9 Consensus size: 45
24802080 CTAACCTAAT
* *
24802090 TAAA-TTAAAAACCCTAACCTAGTTTAA-TTAAAAATCCTAAACCC
1 TAAACTTAAAAACCCTAACCTA-TTAAACTTAAAAACCCTAAACCC
*
24802134 TAAACTTAAAAACCCTAACCTAATTAAA-TTAAAAATCCT-AA-CC
1 TAAACTTAAAAACCCTAACCT-ATTAAACTTAAAAACCCTAAACCC
* * * *
24802177 TAATTAAATTAAAAACCCTAAACT-CTAAACTTAAAAACCCTAACCCCC
1 T-A--AACTTAAAAACCCTAACCTATTAAACTTAAAAACCCTAA-ACCC
*
24802225 TTAACTTAAAAACCCTAACCTAATT-AACTTAAAAACCCT-AA-CC
1 TAAACTTAAAAACCCTAACCT-ATTAAACTTAAAAACCCTAAACCC
* *
24802268 TAATTAAATTAAAAACCCTAAACC--CTAAACTTAAAAACCCTAA
1 T-A--AACTTAAAAACCCT-AACCTATTAAACTTAAAAACCCTAA
24802311 CCTAATTTAA
Statistics
Matches: 146, Mismatches: 14, Indels: 32
0.76 0.07 0.17
Matches are distributed among these distances:
43 6 0.04
44 12 0.08
45 73 0.50
46 47 0.32
47 5 0.03
48 3 0.02
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.25
Consensus pattern (45 bp):
TAAACTTAAAAACCCTAACCTATTAAACTTAAAAACCCTAAACCC
Found at i:24802151 original size:68 final size:68
Alignment explanation
Indices: 24802072--24802335 Score: 333
Period size: 68 Copynumber: 3.9 Consensus size: 68
24802062 TAGACATGTA
* *
24802072 TAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAGTTTAATTAAAAATCCTAAACCCTAA
1 TAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
24802137 ACT
66 ACT
* * *
24802140 TAAAAACCCTAACCTAATTAAATTAAAAATCCTAACCTAATTAAATTAAAAACCCTAAACTCTAA
1 TAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
24802205 ACT
66 ACT
*** *
24802208 TAAAAACCCTAACCCCCTTAACTTAAAAACCCTAACCTAA-TTAACTTAAAAACCCT-AA-CCTA
1 TAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAAACCCT-
*
24802270 ATTAAAT
64 A--AACT
*
24802277 TAAAAACCCTAAACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAAC
1 TAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAAC
24802336 TAAATTAATA
Statistics
Matches: 172, Mismatches: 15, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
66 2 0.01
67 6 0.03
68 141 0.82
69 19 0.11
70 2 0.01
71 2 0.01
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.25
Consensus pattern (68 bp):
TAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
ACT
Found at i:24802231 original size:91 final size:91
Alignment explanation
Indices: 24802072--24802343 Score: 370
Period size: 91 Copynumber: 3.0 Consensus size: 91
24802062 TAGACATGTA
* * * * *
24802072 TAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAGTTTAA-TTAAAAATCCTAA-ACCCT
1 TAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACT--CTAAACTTAAAAACCCTAACCCCCT
*
24802135 AAACTTAAAAACCCTAACCTAATTAAAT
64 TAACTTAAAAACCCTAACCTAATTAAAT
*
24802163 TAAAAATCCTAACCTAATTAAATTAAAAACCCTAAACTCTAAACTTAAAAACCCTAACCCCCTTA
1 TAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACTCTAAACTTAAAAACCCTAACCCCCTTA
*
24802228 ACTTAAAAACCCTAACCTAATTAACT
66 ACTTAAAAACCCTAACCTAATTAAAT
* ***
24802254 TAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACCTAATTT
1 TAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACTCTAAACTTAAAAACCCTAACC-CCCTT
*
24802319 AA-TTAAAAACCCTAAACTAAATTAA
65 AACTTAAAAACCCTAACCT-AATTAA
24802344 TAATTTTACT
Statistics
Matches: 163, Mismatches: 14, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
89 3 0.02
90 12 0.07
91 138 0.85
92 10 0.06
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (91 bp):
TAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACTCTAAACTTAAAAACCCTAACCCCCTTA
ACTTAAAAACCCTAACCTAATTAAAT
Found at i:24802458 original size:54 final size:54
Alignment explanation
Indices: 24802399--24802580 Score: 152
Period size: 54 Copynumber: 3.2 Consensus size: 54
24802389 CTAGTACTAA
24802399 CAATTAATAATTTTATATAATTTGATGATTTTACTAATCATTAATACAATTTAT
1 CAATTAATAATTTTATATAATTTGATGATTTTACTAATCATTAATACAATTTAT
* * * * ** * ** * *
24802453 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAAT-ATT-TTGACTGGTACTAA
1 CAATTAATAATTTTATA-T-A-AT-TTGAT-GATTT-TACTAATCATTAAT-AC-AAT-TTAT
* *
24802514 CAATTAATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTAT
1 CAATTAATAATTTTATATAATTTGATGATTTTACTAATCATTAATACAATTTAT
24802568 CAATTAATAATTT
1 CAATTAATAATTT
24802581 CACAAACTTA
Statistics
Matches: 93, Mismatches: 24, Indels: 22
0.67 0.17 0.16
Matches are distributed among these distances:
54 31 0.33
55 5 0.05
56 10 0.11
57 6 0.06
58 6 0.06
59 11 0.12
60 6 0.06
61 18 0.19
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (54 bp):
CAATTAATAATTTTATATAATTTGATGATTTTACTAATCATTAATACAATTTAT
Found at i:24802549 original size:115 final size:116
Alignment explanation
Indices: 24802338--24802580 Score: 416
Period size: 115 Copynumber: 2.1 Consensus size: 116
24802328 CCCTAAACTA
* * **
24802338 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTAGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGATTTTGACTAGTACTAACAAT
* *
24802403 TAATAATTTTATATAATTTGATGATTTTACTAATCATTAATACAATTTATC
66 TAATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTATC
*
24802454 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAAT-ATTTTGACTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGATTTTGACTAGTACTAACAAT
24802518 TAATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTATC
66 TAATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTATC
24802569 AATTAATAATTT
1 AATTAATAATTT
24802581 CACAAACTTA
Statistics
Matches: 120, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
115 78 0.65
116 42 0.35
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (116 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGATTTTGACTAGTACTAACAAT
TAATAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTATC
Found at i:24805842 original size:125 final size:125
Alignment explanation
Indices: 24805590--24805835 Score: 368
Period size: 125 Copynumber: 2.0 Consensus size: 125
24805580 CCCAAACATG
* * * *
24805590 CTACTGTAGCAAAAGCGCGTTAATGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCAACGAGGGCGCGATTTGACAAATTCTTCTAAAATAGCATCCTGC
* * *
24805655 TAGAAGCAATTTTATACTATTTGTTCAGAAACGTAAAAAAAAATTTATTTCTTCCATAAC
66 TAGAAACAATTTTATACTATTTGATCAGAAACGTAAAAAAAAATTTACTTCTTCCATAAC
*
24805715 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTGACAAATTCTTCTAAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCAACGAGGGCGCGATTTGACAAATTCTTCTAAAATAGCATCCTGC
* ***
24805780 TAGAAACGATTTTATACTATTTGATCAGAAACGTGAACTCAAAA-TTACTTCTTCCA
66 TAGAAACAATTTTATACTATTTGATCAGAAACGT-AAAAAAAAATTTACTTCTTCCA
24805836 AGACCTAAAA
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
125 102 0.94
126 6 0.06
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCAACGAGGGCGCGATTTGACAAATTCTTCTAAAATAGCATCCTGC
TAGAAACAATTTTATACTATTTGATCAGAAACGTAAAAAAAAATTTACTTCTTCCATAAC
Found at i:24813079 original size:20 final size:22
Alignment explanation
Indices: 24813054--24813104 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
24813044 CTTTAAGAAA
*
24813054 CAAGCAT-AG-ATGGACAGTTT
1 CAAGCATAAGCATGGACAATTT
24813074 CAAGCATGAAGCATGGACAATTT
1 CAAGCAT-AAGCATGGACAATTT
24813097 CAATGCAT
1 CAA-GCAT
24813105 GGAGATGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 7 0.27
22 2 0.08
23 13 0.50
24 4 0.15
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (22 bp):
CAAGCATAAGCATGGACAATTT
Found at i:24825817 original size:47 final size:47
Alignment explanation
Indices: 24825765--24825908 Score: 129
Period size: 47 Copynumber: 3.1 Consensus size: 47
24825755 ATTATTAAGA
*
24825765 ATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATTAATT
* * * * **
24825812 A-TTT-T-AAATTGTATA-AATTCATATAAGA--AAATTTATTATGAAGA
1 ATTTTATGAAATTATATATAATT-AT-TAA-ATTATATTTAATATTAATT
* * *
24825856 ATTTTATGAAATTATATATTATTATTAAATTATATGTAATAATAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATTAATT
24825903 ATTTTA
1 ATTTTA
24825909 AATTATACAA
Statistics
Matches: 72, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 23 0.32
45 8 0.11
46 8 0.11
47 27 0.38
48 3 0.04
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.49
Consensus pattern (47 bp):
ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATTAATT
Found at i:24825896 original size:91 final size:91
Alignment explanation
Indices: 24825735--24825940 Score: 331
Period size: 91 Copynumber: 2.3 Consensus size: 91
24825725 ATCTTATATG
* *
24825735 AATTCATATAAGAATATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
1 AATTCATATAAGAA-AATTTATTATGAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
* * * *
24825800 TTAATATTAATTATTTTAAATTGTATA
65 GTAATAATAATTATTTTAAATTATACA
*
24825827 AATTCATATAAGAAAATTTATTATGAAGAATTTTATGAAATTATATATTATTATTAAATTATATG
1 AATTCATATAAGAAAATTTATTATGAAGAATTTTATGAAATTATATATCATTATTAAATTATATG
24825892 TAATAATAATTATTTTAAATTATACA
66 TAATAATAATTATTTTAAATTATACA
*
24825918 AATTCATATAAGATAATTTATTA
1 AATTCATATAAGAAAATTTATTA
24825941 GTTATAATTA
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.87
92 14 0.13
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (91 bp):
AATTCATATAAGAAAATTTATTATGAAGAATTTTATGAAATTATATATCATTATTAAATTATATG
TAATAATAATTATTTTAAATTATACA
Found at i:24825909 original size:26 final size:28
Alignment explanation
Indices: 24825855--24825915 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
24825845 TATTATGAAG
* *
24825855 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
24825883 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
24825909 AATTATA
1 AATTATA
24825916 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:24825915 original size:44 final size:43
Alignment explanation
Indices: 24825773--24825915 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
24825763 GAATTTTATG
* *
24825773 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
24825817 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATGAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
24825864 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
24825908 AAATTATA
1 AAATTATA
24825916 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:24826034 original size:59 final size:57
Alignment explanation
Indices: 24825945--24826157 Score: 152
Period size: 56 Copynumber: 3.6 Consensus size: 57
24825935 TTATTAGTTA
*
24825945 TAATTATTTTAAATT-TTATTA-AG--TCATATATTTTAATTAAAATATATTTAATAT
1 TAATTA-TTTAAATTATTTTTATAGTATCATATATTTTAATTAAAATATATTTAATAT
* * **
24825999 TAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
1 TAATTATTT-AAATTAT-TTTTATAGTATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATA
24826064 T
57 T
* * * * *
24826065 TAATTATTAAGAATT-TTATTA-AAT-TCATGATATTTTAATTATAATATATTTAATAA
1 TAATTATTTA-AATTATTTTTATAGTATCAT-ATATTTTAATTAAAATATATTTAATAT
*
24826121 TAATTATGTTAATTTATATTTTATAGTATCATATATT
1 TAATTAT-TTAAATTAT-TTTTATAGTATCATATATT
24826158 ATGATTTGAG
Statistics
Matches: 121, Mismatches: 18, Indels: 35
0.70 0.10 0.20
Matches are distributed among these distances:
53 3 0.02
54 11 0.09
55 1 0.01
56 18 0.15
57 9 0.07
58 5 0.04
59 18 0.15
60 8 0.07
61 2 0.02
62 8 0.07
63 10 0.08
64 5 0.04
65 6 0.05
66 17 0.14
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (57 bp):
TAATTATTTAAATTATTTTTATAGTATCATATATTTTAATTAAAATATATTTAATAT
Found at i:24826064 original size:66 final size:64
Alignment explanation
Indices: 24825994--24826194 Score: 188
Period size: 66 Copynumber: 3.2 Consensus size: 64
24825984 AAATATATTT
24825994 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
24826059 G
64 G
* * * * * *
24826060 AATATTAATTATTAAGAATT-TTATTA-AAT-TCATGATATT-TTAATT-A-T-AA-T-ATAT-T
1 AATATTAATTATTTA-AATTATTTTTATAGTATCAT-ATATTATGATTTGAGTAAATTCATATAA
*
24826115 T
64 G
* *
24826116 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
24826181 G
64 G
*
24826182 AATATTGATTATT
1 AATATTAATTATT
24826195 AAGAATTTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 29
0.69 0.12 0.19
Matches are distributed among these distances:
56 14 0.14
57 7 0.07
58 5 0.05
59 9 0.09
60 9 0.09
61 2 0.02
62 9 0.09
63 9 0.09
64 5 0.05
65 7 0.07
66 27 0.26
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:24826104 original size:15 final size:15
Alignment explanation
Indices: 24826094--24826134 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
24826084 TAAATTCATG
24826094 ATAT-TTTAATTATA
1 ATATATTTAATTATA
*
24826108 ATATATTTAATAATA
1 ATATATTTAATTATA
24826123 AT-TATGTTAATT
1 ATATAT-TTAATT
24826135 TATATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATATTTAATTATA
Found at i:24826115 original size:122 final size:121
Alignment explanation
Indices: 24825956--24826255 Score: 498
Period size: 122 Copynumber: 2.5 Consensus size: 121
24825946 AATTATTTTA
* * *
24825956 AATTTTATT-AAGTCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTT
1 AATTTTATTAAATTCATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATT
24826019 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
24826076 AATTTTATTAAATTCATGATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
1 AATTTTATTAAATTCAT-ATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATT
*
24826141 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
65 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
24826198 AATTTTATTAAATT-ATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTCATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
24826256 ATGATTAAAT
Statistics
Matches: 168, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
120 43 0.26
121 13 0.08
122 110 0.65
123 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (121 bp):
AATTTTATTAAATTCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTT
TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:24826227 original size:18 final size:17
Alignment explanation
Indices: 24826199--24826233 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24826189 ATTATTAAGA
*
24826199 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
24826216 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
24826234 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:24826487 original size:16 final size:16
Alignment explanation
Indices: 24826466--24826520 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
24826456 TTGATTTGCT
*
24826466 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
24826482 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
* *
24826498 ATTACACATCTAATCC
1 ATTACACAGCTATTCC
*
24826514 AATACAC
1 ATTACAC
24826521 CTCTAATCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.33, C:0.33, G:0.02, T:0.33
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:24826525 original size:16 final size:16
Alignment explanation
Indices: 24826479--24826535 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
24826469 ACACAGCTTT
* *
24826479 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
* *
24826495 TCCATTACACATCTAA
1 TCCAATACACCTCTAA
24826511 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
24826527 TCCAATACA
1 TCCAATACA
24826536 GCGAACCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Done.