Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 36 of 240
Found at i:12754248 original size:4 final size:4
Alignment explanation
Indices: 12754239--12754263 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
12754229 TGTACGTTAA
12754239 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
12754264 CAATTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:12764557 original size:17 final size:18
Alignment explanation
Indices: 12764537--12764576 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
12764527 AATAAATTTT
12764537 AAAAAATCATT-AAAAT-
1 AAAAAATCATTAAAAATG
*
12764553 AAAAAATCCTTAAAAATG
1 AAAAAATCATTAAAAATG
12764571 AAAAAA
1 AAAAAA
12764577 AAATCCCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
17 5 0.24
18 6 0.29
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (18 bp):
AAAAAATCATTAAAAATG
Found at i:12787813 original size:27 final size:26
Alignment explanation
Indices: 12787774--12787844 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 26
12787764 GCAACTTGGC
* *
12787774 AAACCCAGTTCGCCACACAAACTGGG
1 AAACCCAGCTCGCCAAACAAACTGGG
*
12787800 AAACCTCAGCTCGCCAAACAATCTGGTG
1 AAACC-CAGCTCGCCAAACAAACTGG-G
* *
12787828 AACCCCTAGCTTGCCAA
1 AAACCC-AGCTCGCCAA
12787845 CACATTAGCG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 5 0.14
27 18 0.49
28 14 0.38
ACGTcount: A:0.32, C:0.35, G:0.17, T:0.15
Consensus pattern (26 bp):
AAACCCAGCTCGCCAAACAAACTGGG
Found at i:12790486 original size:565 final size:565
Alignment explanation
Indices: 12789417--12790550 Score: 2259
Period size: 565 Copynumber: 2.0 Consensus size: 565
12789407 TCGGGTTTGA
12789417 TTATGTCATAGTTCTATAATTAATTCAAATTAGGTTTATCATTGGATGAACTACATTGCTGATAT
1 TTATGTCATAGTTCTATAATTAATTCAAATTAGGTTTATCATTGGATGAACTACATTGCTGATAT
12789482 TGACCCCAAAAAAGAAACGGTAGGTATAGCTAGTCCGTGAACAGCCAACCATCGCACTGTAAAAA
66 TGACCCCAAAAAAGAAACGGTAGGTATAGCTAGTCCGTGAACAGCCAACCATCGCACTGTAAAAA
12789547 TTGGATAGGTTCGATCTATGGTCATTAGGACCTCCTAAAAAGTTCTACTAAATTCATCGAGTTGT
131 TTGGATAGGTTCGATCTATGGTCATTAGGACCTCCTAAAAAGTTCTACTAAATTCATCGAGTTGT
12789612 TCCAAAGAATTAAATCGGTCAATTATTAATGGAATTCCTTGCTGGCTCTCTGTAAATTACTTGTT
196 TCCAAAGAATTAAATCGGTCAATTATTAATGGAATTCCTTGCTGGCTCTCTGTAAATTACTTGTT
12789677 TGGACGAGGGCTTCCAAACACATCATAAGCTAAACCTATGTTGACGAATAACCAACCCGCAATGA
261 TGGACGAGGGCTTCCAAACACATCATAAGCTAAACCTATGTTGACGAATAACCAACCCGCAATGA
12789742 ATAGGGAAGGTATAGTAATACTTAATATTTATTACTTTTTATAGAGAAAGGTATTTTTTAAATTA
326 ATAGGGAAGGTATAGTAATACTTAATATTTATTACTTTTTATAGAGAAAGGTATTTTTTAAATTA
*
12789807 AATTGGTACCCGGTTAACTCGTAGCACCAACTCAATTAGAAGCTTAATATAAATATAGATAACGA
391 AATTAGTACCCGGTTAACTCGTAGCACCAACTCAATTAGAAGCTTAATATAAATATAGATAACGA
12789872 TAGAAATACAAATATGAGAGCAGAAAATGATAAATGAAACGAAGCAGGATAATAAATATTTATAT
456 TAGAAATACAAATATGAGAGCAGAAAATGATAAATGAAACGAAGCAGGATAATAAATATTTATAT
12789937 TATTAAAATATTCATATTTATTTATTTATAATTTAAACTATATAT
521 TATTAAAATATTCATATTTATTTATTTATAATTTAAACTATATAT
12789982 TTATGTCATAGTTCTATAATTAATTCAAATTAGGTTTATCATTGGATGAACTACATTGCTGATAT
1 TTATGTCATAGTTCTATAATTAATTCAAATTAGGTTTATCATTGGATGAACTACATTGCTGATAT
12790047 TGACCCCAAAAAAGAAACGGTAGGTATAGCTAGTCCGTGAACAGCCAACCATCGCACTGTAAAAA
66 TGACCCCAAAAAAGAAACGGTAGGTATAGCTAGTCCGTGAACAGCCAACCATCGCACTGTAAAAA
12790112 TTGGATAGGTTCGATCTATGGTCATTAGGACCTCCTAAAAAGTTCTACTAAATTCATCGAGTTGT
131 TTGGATAGGTTCGATCTATGGTCATTAGGACCTCCTAAAAAGTTCTACTAAATTCATCGAGTTGT
12790177 TCCAAAGAATTAAATCGGTCAATTATTAATGGAATTCCTTGCTGGCTCTCTGTAAATTACTTGTT
196 TCCAAAGAATTAAATCGGTCAATTATTAATGGAATTCCTTGCTGGCTCTCTGTAAATTACTTGTT
12790242 TGGACGAGGGCTTCCAAACACATCATAAGCTAAACCTATGTTGACGAATAACCAACCCGCAATGA
261 TGGACGAGGGCTTCCAAACACATCATAAGCTAAACCTATGTTGACGAATAACCAACCCGCAATGA
12790307 ATAGGGAAGGTATAGTAATACTTAATATTTATTACTTTTTATAGAGAAAGGTATTTTTTAAATTA
326 ATAGGGAAGGTATAGTAATACTTAATATTTATTACTTTTTATAGAGAAAGGTATTTTTTAAATTA
12790372 AATTAGTACCCGGTTAACTCGTAGCACCAACTCAATTAGAAGCTTAATATAAATATAGATAACGA
391 AATTAGTACCCGGTTAACTCGTAGCACCAACTCAATTAGAAGCTTAATATAAATATAGATAACGA
12790437 TAGAAATACAAATATGAGAGCAGAAAATGATAAATGAAACGAAGCAGGATAATAAATATTTATAT
456 TAGAAATACAAATATGAGAGCAGAAAATGATAAATGAAACGAAGCAGGATAATAAATATTTATAT
12790502 TATTAAAATATTCATATTTATTTATTTATAATTTAAACTATATAT
521 TATTAAAATATTCATATTTATTTATTTATAATTTAAACTATATAT
12790547 TTAT
1 TTAT
12790551 TATTAAAATA
Statistics
Matches: 568, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
565 568 1.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (565 bp):
TTATGTCATAGTTCTATAATTAATTCAAATTAGGTTTATCATTGGATGAACTACATTGCTGATAT
TGACCCCAAAAAAGAAACGGTAGGTATAGCTAGTCCGTGAACAGCCAACCATCGCACTGTAAAAA
TTGGATAGGTTCGATCTATGGTCATTAGGACCTCCTAAAAAGTTCTACTAAATTCATCGAGTTGT
TCCAAAGAATTAAATCGGTCAATTATTAATGGAATTCCTTGCTGGCTCTCTGTAAATTACTTGTT
TGGACGAGGGCTTCCAAACACATCATAAGCTAAACCTATGTTGACGAATAACCAACCCGCAATGA
ATAGGGAAGGTATAGTAATACTTAATATTTATTACTTTTTATAGAGAAAGGTATTTTTTAAATTA
AATTAGTACCCGGTTAACTCGTAGCACCAACTCAATTAGAAGCTTAATATAAATATAGATAACGA
TAGAAATACAAATATGAGAGCAGAAAATGATAAATGAAACGAAGCAGGATAATAAATATTTATAT
TATTAAAATATTCATATTTATTTATTTATAATTTAAACTATATAT
Found at i:12790569 original size:24 final size:25
Alignment explanation
Indices: 12790499--12790570 Score: 64
Period size: 24 Copynumber: 3.0 Consensus size: 25
12790489 TAAATATTTA
*
12790499 TATTATTAAAATATTCATATT-TATT
1 TATTATTAAAATATT-AAATTATATT
*
12790524 TA-T-TTATAAT-TTAAACTATATATT
1 TATTATTAAAATATTAAA-T-TATATT
12790548 TATTATTAAAATATT-AATTATAT
1 TATTATTAAAATATTAAATTATAT
12790571 AAACAATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
21 2 0.05
22 3 0.08
23 7 0.18
24 12 0.32
25 4 0.11
26 8 0.21
27 2 0.05
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (25 bp):
TATTATTAAAATATTAAATTATATT
Found at i:12790569 original size:26 final size:25
Alignment explanation
Indices: 12790499--12790571 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 25
12790489 TAAATATTTA
* *
12790499 TATTATTAAAATATTCATATTTATT
1 TATTATTAAAATATTAATATATATT
*
12790524 TA-T-TTATAAT-TTAAACTATATATT
1 TATTATTAAAATATT-AA-TATATATT
12790548 TATTATTAAAATATTAATTATATA
1 TATTATTAAAATATTAA-TATATA
12790572 AACAATAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
22 2 0.05
23 7 0.18
24 10 0.26
25 3 0.08
26 14 0.37
27 2 0.05
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (25 bp):
TATTATTAAAATATTAATATATATT
Found at i:12793180 original size:25 final size:25
Alignment explanation
Indices: 12793118--12793182 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
12793108 TCTAAAAACT
*
12793118 AAAAATTTTAAAATTAAAAAATATAT
1 AAAAA-TTTAAAATTAAAAAATATAG
*
12793144 AAAAATTAAAAATT-AAAAATATAG
1 AAAAATTTAAAATTAAAAAATATAG
*
12793168 AAGAATTCTAAAATT
1 AAAAATT-TAAAATT
12793183 TGATGTTATC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 15 0.44
25 14 0.41
26 5 0.15
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (25 bp):
AAAAATTTAAAATTAAAAAATATAG
Found at i:12793180 original size:33 final size:33
Alignment explanation
Indices: 12793106--12793180 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
12793096 CAATTGATGT
*
12793106 TATCTAAAAACTAAAAATTTTAAAATTAAAAAA
1 TATCTAAAAACTAAAAATTTAAAAATTAAAAAA
* * *
12793139 TATATAAAAATTAAAAA-TTAAAAATATAGAAGAA
1 TATCTAAAAACTAAAAATTTAAAAAT-TA-AAAAA
12793173 T-TCTAAAA
1 TATCTAAAA
12793181 TTTGATGTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
32 7 0.20
33 23 0.66
34 5 0.14
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (33 bp):
TATCTAAAAACTAAAAATTTAAAAATTAAAAAA
Found at i:12793603 original size:16 final size:15
Alignment explanation
Indices: 12793580--12793609 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
12793570 AAAAATCTTT
12793580 AAATTTTAAAAATAA
1 AAATTTTAAAAATAA
12793595 AAATGTTTAAAAATA
1 AAAT-TTTAAAAATA
12793610 TTTTAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AAATTTTAAAAATAA
Found at i:12797601 original size:36 final size:36
Alignment explanation
Indices: 12797559--12797638 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
12797549 TTTTATCTTG
* *
12797559 AACCCCAAACCCATAACCTCAAACCTTTGAGCCCTA
1 AACCCCAAACCCATAACCTCAAACATTTGAACCCTA
* *** *
12797595 AGCCCCAAACTTGTAGCCTCAAACATTTGAACCCTA
1 AACCCCAAACCCATAACCTCAAACATTTGAACCCTA
12797631 AACCCCAA
1 AACCCCAA
12797639 GCTTGTAACA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.39, G:0.07, T:0.17
Consensus pattern (36 bp):
AACCCCAAACCCATAACCTCAAACATTTGAACCCTA
Found at i:12797644 original size:36 final size:36
Alignment explanation
Indices: 12797575--12797645 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
12797565 AAACCCATAA
* * *
12797575 CCTCAAACCTTTGAGCCCTAAGCCCCAAACTTGTAG
1 CCTCAAACATTTGAACCCTAAACCCCAAACTTGTAG
*
12797611 CCTCAAACATTTGAACCCTAAACCCCAAGCTTGTA
1 CCTCAAACATTTGAACCCTAAACCCCAAACTTGTA
12797646 ACATGTAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.31, C:0.35, G:0.11, T:0.23
Consensus pattern (36 bp):
CCTCAAACATTTGAACCCTAAACCCCAAACTTGTAG
Found at i:12802163 original size:15 final size:15
Alignment explanation
Indices: 12802136--12802173 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
12802126 TGCTTAATAA
12802136 TTTAATT-AATTAAT
1 TTTAATTAAATTAAT
12802150 TTTAATTAAATTAAT
1 TTTAATTAAATTAAT
*
12802165 TATAATTAA
1 TTTAATTAA
12802174 TTATGAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTAATTAAATTAAT
Found at i:12802171 original size:10 final size:10
Alignment explanation
Indices: 12802133--12802177 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
12802123 TTATGCTTAA
12802133 TAATT-TAAT
1 TAATTATAAT
*
12802142 TAATTA-ATTT
1 TAATTATA-AT
12802152 TAATTA-AAT
1 TAATTATAAT
12802161 TAATTATAAT
1 TAATTATAAT
12802171 TAATTAT
1 TAATTAT
12802178 GAATATAAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 13 0.42
10 18 0.58
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TAATTATAAT
Found at i:12802173 original size:19 final size:19
Alignment explanation
Indices: 12802133--12802176 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
12802123 TTATGCTTAA
* *
12802133 TAATTTAATTAATTAATTT
1 TAATTAAATTAATTAATAT
12802152 TAATTAAATTAATT-ATAAT
1 TAATTAAATTAATTAAT-AT
12802171 TAATTA
1 TAATTA
12802177 TGAATATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATTAAATTAATTAATAT
Found at i:12804445 original size:21 final size:21
Alignment explanation
Indices: 12804388--12804446 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
12804378 GGTTGAACGG
* * *
12804388 AAACTCATAAGAGCTGAATGA
1 AAACTCATATGAGTTAAATGA
12804409 AAAC-CTATTATG-GTTAAATGA
1 AAACTC-A-TATGAGTTAAATGA
12804430 AAACTCATATGAGTTAA
1 AAACTCATATGAGTTAA
12804447 CAGAAGCTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 5 0.16
21 22 0.71
22 4 0.13
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (21 bp):
AAACTCATATGAGTTAAATGA
Found at i:12804677 original size:46 final size:46
Alignment explanation
Indices: 12804610--12804705 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 46
12804600 TCATTTCAAT
* * * *
12804610 TAAT-AATTTAACAATATTTCATTTTTCAATAATATGCTAAATACA
1 TAATAAATTTAACAACACTTCATTTTTCAAAAATATACTAAATACA
* *
12804655 TAATAAATTTAACAACACTTCATTTTTTAAAAATATATTAAATACA
1 TAATAAATTTAACAACACTTCATTTTTCAAAAATATACTAAATACA
12804701 TAATA
1 TAATA
12804706 TCATTCATCA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 4 0.09
46 40 0.91
ACGTcount: A:0.48, C:0.10, G:0.01, T:0.41
Consensus pattern (46 bp):
TAATAAATTTAACAACACTTCATTTTTCAAAAATATACTAAATACA
Found at i:12805798 original size:13 final size:13
Alignment explanation
Indices: 12805780--12805819 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
12805770 CTAAACCGCA
12805780 TATATCATACATT
1 TATATCATACATT
* *
12805793 TATATCA-ACCTA
1 TATATCATACATT
12805805 TATATCATACATT
1 TATATCATACATT
12805818 TA
1 TA
12805820 GCCACACAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.42
Consensus pattern (13 bp):
TATATCATACATT
Found at i:12805810 original size:12 final size:13
Alignment explanation
Indices: 12805779--12805816 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
12805769 TCTAAACCGC
12805779 ATATATCATACAT
1 ATATATCATACAT
* *
12805792 TTATATCA-ACCT
1 ATATATCATACAT
12805804 ATATATCATACAT
1 ATATATCATACAT
12805817 TTAGCCACAC
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (13 bp):
ATATATCATACAT
Found at i:12807097 original size:5 final size:5
Alignment explanation
Indices: 12807089--12807171 Score: 57
Period size: 5 Copynumber: 16.6 Consensus size: 5
12807079 TAATTTAAAA
* *
12807089 TATAT TATAT TATAT TATAT T-TACT TA-AT TA-AT AAT-T GTGTTAT
1 TATAT TATAT TATAT TATAT TATA-T TATAT TATAT TATAT -T-ATAT
* * *
12807133 TATAT TATAT GATTAT AATAT TATAT AATAT TATAT TAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT TAT
12807172 TATATATATA
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
4 9 0.15
5 46 0.74
6 6 0.10
7 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (5 bp):
TATAT
Found at i:12807165 original size:18 final size:20
Alignment explanation
Indices: 12807130--12807180 Score: 70
Period size: 18 Copynumber: 2.6 Consensus size: 20
12807120 ATAATTGTGT
12807130 TATTATATTATATGATTATAA
1 TATTATA-TATATGATTATAA
*
12807151 TATTATATA-AT-ATTATAT
1 TATTATATATATGATTATAA
12807169 TATTATATATAT
1 TATTATATATAT
12807181 AAAACAACAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 15 0.54
19 4 0.14
20 2 0.07
21 7 0.25
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TATTATATATATGATTATAA
Found at i:12808317 original size:22 final size:22
Alignment explanation
Indices: 12808292--12808405 Score: 111
Period size: 22 Copynumber: 5.0 Consensus size: 22
12808282 CTTTCTGATA
*
12808292 TTTAGCACGTCAGTGCTCTCTG
1 TTTAGCACATCAGTGCTCTCTG
*
12808314 TTTAGCACATCTGTGCTCTCTG
1 TTTAGCACATCAGTGCTCTCTG
* *
12808336 ATTATTAGCACGTCAATGCTCTCTG
1 --T-TTAGCACATCAGTGCTCTCTG
* * *
12808361 TTTAACACATCTGTGCTTTCTG
1 TTTAGCACATCAGTGCTCTCTG
* * *
12808383 TATAGCACTTTAGTGCTCTCTG
1 TTTAGCACATCAGTGCTCTCTG
12808405 T
1 T
12808406 CCATTAGTTC
Statistics
Matches: 73, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
22 53 0.73
23 1 0.01
24 1 0.01
25 18 0.25
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.40
Consensus pattern (22 bp):
TTTAGCACATCAGTGCTCTCTG
Found at i:12808356 original size:47 final size:47
Alignment explanation
Indices: 12808285--12808382 Score: 153
Period size: 47 Copynumber: 2.1 Consensus size: 47
12808275 TAGCGCGCTT
* *
12808285 TCTGATATTTAGCACGTCAGTGCTCTCTGTTTAGCACATCTGTGCTC
1 TCTGATATTTAGCACGTCAATGCTCTCTGTTTAACACATCTGTGCTC
*
12808332 TCTGAT-TATTAGCACGTCAATGCTCTCTGTTTAACACATCTGTGCTT
1 TCTGATAT-TTAGCACGTCAATGCTCTCTGTTTAACACATCTGTGCTC
12808379 TCTG
1 TCTG
12808383 TATAGCACTT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 1 0.02
47 46 0.98
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.40
Consensus pattern (47 bp):
TCTGATATTTAGCACGTCAATGCTCTCTGTTTAACACATCTGTGCTC
Found at i:12814073 original size:24 final size:24
Alignment explanation
Indices: 12814026--12814073 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
12814016 ATTATGAATT
*
12814026 AAATAAATCTAATTTTTTCTAAAA
1 AAATAAATCTAATTTTTTCGAAAA
12814050 AAATAAATCTAATTTTATT-GAAAA
1 AAATAAATCTAATTTT-TTCGAAAA
12814074 TTGATTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (24 bp):
AAATAAATCTAATTTTTTCGAAAA
Found at i:12814318 original size:13 final size:13
Alignment explanation
Indices: 12814300--12814329 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
12814290 TTTCAATTTT
12814300 TTTATTACAATTA
1 TTTATTACAATTA
*
12814313 TTTATTATAATTA
1 TTTATTACAATTA
12814326 TTTA
1 TTTA
12814330 AGCGTAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTATTACAATTA
Found at i:12819403 original size:14 final size:14
Alignment explanation
Indices: 12819384--12819410 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12819374 AACACTTTTC
12819384 CTTAAAATTGTCTT
1 CTTAAAATTGTCTT
12819398 CTTAAAATTGTCT
1 CTTAAAATTGTCT
12819411 ACTCAATTTT
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:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (14 bp):
CTTAAAATTGTCTT
Found at i:12820668 original size:71 final size:71
Alignment explanation
Indices: 12820549--12820690 Score: 214
Period size: 71 Copynumber: 2.0 Consensus size: 71
12820539 TTTGGTAAGG
* * * *
12820549 TTAAAAACAACGATGATGGTGAGATTAATTACTATAGCTGTAAGATAAAAATTTTTACCATACCA
1 TTAAAAACAACGATGACGGTGAGATTAATTACTATAGCTATAAGATAAAAAATTTCACCATACCA
12820614 TAACCA
66 TAACCA
* *
12820620 TTAAAACCAACGATGACGGTG-GTATTAATTACTATAGCTATAATATAAAAAATTTCACCATACC
1 TTAAAAACAACGATGACGGTGAG-ATTAATTACTATAGCTATAAGATAAAAAATTTCACCATACC
12820684 ATAACCA
65 ATAACCA
12820691 CCCACGAAAG
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 1 0.02
71 63 0.98
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (71 bp):
TTAAAAACAACGATGACGGTGAGATTAATTACTATAGCTATAAGATAAAAAATTTCACCATACCA
TAACCA
Found at i:12821054 original size:23 final size:25
Alignment explanation
Indices: 12821016--12821064 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
12821006 TATATAAAAT
*
12821016 AATTATAAAATTTATAT-TATTTTA
1 AATTATAAAATATATATATATTTTA
12821040 AATTA-AAAATATATATATATTTTA
1 AATTATAAAATATATATATATTTTA
12821064 A
1 A
12821065 TTTTTGTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AATTATAAAATATATATATATTTTA
Found at i:12821066 original size:23 final size:23
Alignment explanation
Indices: 12821015--12821066 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
12821005 ATATATAAAA
*
12821015 TAATTATAAAATTTATATTATTT
1 TAATTATAAAATATATATTATTT
12821038 TAAATTA-AAAATATATATATATTT
1 T-AATTATAAAATATATAT-TATTT
12821062 TAATT
1 TAATT
12821067 TTTGTGCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TAATTATAAAATATATATTATTT
Found at i:12825367 original size:61 final size:60
Alignment explanation
Indices: 12825297--12825474 Score: 161
Period size: 61 Copynumber: 3.0 Consensus size: 60
12825287 TTGTTAAATT
*
12825297 ATATTTAATAATAATAATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGA
1 ATATTTAATAATAATAATTTTATA-TATTATATATTATGATTTTAATAAATTCATATAAGA
* * * * * *
12825358 ATATTTAATACTAAGAATTTTATTAAATTATATATT-T--TTGTTAAATTATATTTA-ATAATA
1 ATATTTAATAATAATAATTTTA-TATATTATATATTATGATT-TT-AA-TAAATTCATATAAGA
* * *
12825418 ATTATTTTA-AATTAT-ATTTTATAATATTATATATTATAATTTTAATAAATTCATATA
1 A-TATTTAATAATAATAATTTTAT-ATATTATATATTATGATTTTAATAAATTCATATA
12825475 TTTTATCAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
58 3 0.03
59 25 0.27
60 17 0.18
61 44 0.47
62 4 0.04
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (60 bp):
ATATTTAATAATAATAATTTTATATATTATATATTATGATTTTAATAAATTCATATAAGA
Found at i:12825427 original size:26 final size:25
Alignment explanation
Indices: 12825389--12825447 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
12825379 ATTAAATTAT
*
12825389 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
12825415 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
12825441 ATATTAT
1 ATATTAT
12825448 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:12825446 original size:15 final size:15
Alignment explanation
Indices: 12825402--12825457 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
12825392 TTTTTGTTAA
*
12825402 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
12825417 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
12825428 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
12825443 ATTATATATTATAAT
1 ATTATATTTTATAAT
12825458 TTTAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:12825473 original size:24 final size:22
Alignment explanation
Indices: 12825428--12825496 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
12825418 ATTATTTTAA
12825428 ATTATATTTTATAATATTATAT
1 ATTATATTTTATAATATTATAT
* *
12825450 ATTATAATTT-TAATA-AAT-T
1 ATTATATTTTATAATATTATAT
12825469 CA-TATATTTTATCAA-ATTATAT
1 -ATTATATTTTAT-AATATTATAT
12825491 ATTATA
1 ATTATA
12825497 AAAAATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
19 8 0.22
20 5 0.14
21 10 0.27
22 14 0.38
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATATTTTATAATATTATAT
Found at i:12825492 original size:17 final size:17
Alignment explanation
Indices: 12825374--12825513 Score: 61
Period size: 17 Copynumber: 8.6 Consensus size: 17
12825364 AATACTAAGA
*
12825374 ATTTTATTAAATTATAT
1 ATTTTAATAAATTATAT
**
12825391 ATTTTTGTTAAA-T-TAT
1 A-TTTTAATAAATTATAT
*
12825407 A-TTTAAT-AATAAT-T
1 ATTTTAATAAATTATAT
* *
12825421 ATTTTAAATTATATTTTAT
1 ATTTT-AA-TAAATTATAT
* *
12825440 AATATT-ATATATTATA-
1 -ATTTTAATAAATTATAT
12825456 ATTTTAATAAATTCATAT
1 ATTTTAATAAATT-ATAT
12825474 ATTTT-ATCAAATTATAT
1 ATTTTAAT-AAATTATAT
*
12825491 ATTATAA-AAA--ATAT
1 ATTTTAATAAATTATAT
12825505 A-TTTAATAA
1 ATTTTAATAA
12825514 TAATTATGTT
Statistics
Matches: 95, Mismatches: 13, Indels: 33
0.67 0.09 0.23
Matches are distributed among these distances:
13 6 0.06
14 13 0.14
15 8 0.08
16 15 0.16
17 24 0.25
18 24 0.25
19 1 0.01
20 4 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
ATTTTAATAAATTATAT
Found at i:12825762 original size:16 final size:16
Alignment explanation
Indices: 12825741--12825808 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
12825731 GATTTGCTAT
12825741 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
12825757 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
12825773 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
12825789 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
12825805 TACA
1 TACA
12825809 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:12829126 original size:51 final size:51
Alignment explanation
Indices: 12829042--12829308 Score: 387
Period size: 51 Copynumber: 5.3 Consensus size: 51
12829032 ACTTCTGATC
* * *
12829042 AGTGACAAGTGATAAGT-AGTAGCTTCAGTTACACTTATCTGATCAATGACA
1 AGTGGCAAGTGATAAGTGA-TAGCTTCAGCTACACTTATCTGATCAGTGACA
*
12829093 AGTAGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
1 AGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
* * *
12829144 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
*
12829195 AGTGGCAAGTGATAAGT-AGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGGCAAGTGATAAGTGA-TAGCTTCAGCTACACTTATCTGATCAGTGACA
* *
12829246 AGTGGCAAGTGATAAGTGGTAGCTT-AGCTACACTTATCTGATCAGGGACA
1 AGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
**
12829296 AGTGATAAGTGAT
1 AGTGGCAAGTGAT
12829309 CATACGTAAG
Statistics
Matches: 199, Mismatches: 14, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
50 35 0.18
51 163 0.82
52 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (51 bp):
AGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
Found at i:12832293 original size:3 final size:3
Alignment explanation
Indices: 12832285--12832311 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
12832275 TGCATTACTG
12832285 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
12832312 TTGTGTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:12833687 original size:3 final size:3
Alignment explanation
Indices: 12833679--12833706 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12833669 AAGAGATATG
12833679 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
12833707 TGCTTTTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:12834475 original size:3 final size:3
Alignment explanation
Indices: 12834467--12834510 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
12834457 AACTCTTGAG
12834467 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
12834511 GGTTTTGTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:12842152 original size:28 final size:28
Alignment explanation
Indices: 12842098--12842152 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
12842088 ATCAGACTCG
* * *
12842098 TCTTTCGGGGTTTTCTCTTGTTTTTCTT
1 TCTTTCGGAGTTTTCTCTTCTTCTTCTT
12842126 TCTTT-GGAGTTTTCTTCTTCTTCTTCT
1 TCTTTCGGAGTTTTC-TCTTCTTCTTCT
12842153 CAGGCATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.02, C:0.20, G:0.15, T:0.64
Consensus pattern (28 bp):
TCTTTCGGAGTTTTCTCTTCTTCTTCTT
Found at i:12847799 original size:5 final size:5
Alignment explanation
Indices: 12847791--12847835 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
12847781 TTTTATTATG
12847791 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
12847836 AACCTCTGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:12892047 original size:98 final size:98
Alignment explanation
Indices: 12891873--12892069 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
12891863 TTACAATAAA
*
12891873 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
12891938 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
12891971 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
12892036 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
12892069 A
1 A
12892070 TTATTTTTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:12893386 original size:19 final size:19
Alignment explanation
Indices: 12893362--12893474 Score: 145
Period size: 19 Copynumber: 5.8 Consensus size: 19
12893352 AATCATATAT
12893362 TCTAAGATTGTATATCATA
1 TCTAAGATTGTATATCATA
* *
12893381 TCTAAGATTATATATCATC
1 TCTAAGATTGTATATCATA
* *
12893400 TCTAAGATTGCATAGCATA
1 TCTAAGATTGTATATCATA
12893419 TCTAAGATTGCATATATCATA
1 TCTAAGATTG--TATATCATA
** *
12893440 TCTTGGATTGCATATCATA
1 TCTAAGATTGTATATCATA
12893459 TCTAAGATTGTATATC
1 TCTAAGATTGTATATC
12893475 CTCAAAATTA
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
19 63 0.81
21 15 0.19
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGTATATCATA
Found at i:12893449 original size:40 final size:39
Alignment explanation
Indices: 12893362--12893474 Score: 158
Period size: 40 Copynumber: 2.9 Consensus size: 39
12893352 AATCATATAT
* *
12893362 TCTAAGATTGTATATCATATCTAAGATT-ATATATCATC
1 TCTAAGATTGCATATCATATCTAAGATTGATATATCATA
*
12893400 TCTAAGATTGCATAGCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTG-ATATATCATA
**
12893440 TCTTGGATTGCATATCATATCTAAGATTG-TATATC
1 TCTAAGATTGCATATCATATCTAAGATTGATATATC
12893475 CTCAAAATTA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
38 32 0.48
40 35 0.52
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (39 bp):
TCTAAGATTGCATATCATATCTAAGATTGATATATCATA
Found at i:12893789 original size:44 final size:43
Alignment explanation
Indices: 12893687--12894458 Score: 391
Period size: 44 Copynumber: 17.7 Consensus size: 43
12893677 CTTCAATCTA
*
12893687 CTCCACTGCAACTTTAGGGAGATAAGACTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTT-AGTCTG
* *
12893732 C-CTCACTGTAACTTCA-GGAGGATAAGACTTGCTTCCTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTTAGTCTG
* * *
12893776 CTCCATTGCAACTTCAGGGAGATAAGACTAG-ATGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-CTTAGTCTG
* * * * * *
12893817 CT-CTCTGTAACTTCAGAGAGATAAGATCTGTG-ATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCATCTTAGTCTG
* * * *
12893860 CTCTACTGCAACTTCAGGGAGATAGGATTATCGGC-T-TTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCATCTTAGTCTG
*
12893904 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTT-AGTCTG
* * *
12893949 C-CTCATTGTAACTTCA-GGAGGATAAGACTTGCGTACTTAGTCTTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTTAGTC-TG
* * * *
12893994 -TCCACCGCAACTTCAGGGAGATAAGACTAG-ATGC-GA-TATG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-CTTAGTCTG
* * * * * * *
12894034 CT-CTCTGTAACTTCAGAGAGATAAGA-TCTGTAATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TG-CATCTTAGTCTG
* *
12894077 CTCCACTGCAACTTCAGGGAGATAGGA-TTGTCGA-CTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-C-ATC-TTAGTCTG
* *
12894121 CTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTT-AGTCTG
* *
12894166 C-CTCACTGTAACTTCA-GGAGAATAAGACTTGCTTACTTAGTCTTG
1 CTC-CACTGCAACTTCAGGGAG-ATAAGACTTGCAT-CTTAGTC-TG
* * *
12894211 -TCCACCGCAACTTCAGGGAGATAAGACTAG-ATGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-CTTAGTCTG
* * * * * * *
12894251 CT-CTCTGTAACTTCAGAGAGATAAGA-TCTGTAATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TG-CATCTTAGTCTG
* * **
12894294 CTCCACTGTAACTTCAGGGAGATAGGA-TTGTCGGCTTTA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATC-TTAGTCTG
* * *
12894337 CTCCACTACAACTT-AGGAAGATAAGATTTGCCATCTTCAGTCTGG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTT-AGTCT-G
* * * * *
12894382 CCCTCACTGGTAACTTTA-GAAGGATAAGACTTGCTTACTTAGTCTG
1 CTC-CACT-GCAACTTCAGGGA-GATAAGACTTGCAT-CTTAGTCTG
* *
12894428 CTCCACCTGCCAACATCAAGGAGATAAGACT
1 CTCCA-CTG-CAACTTCAGGGAGATAAGACT
12894459 AGATTACGAT
Statistics
Matches: 563, Mismatches: 103, Indels: 121
0.72 0.13 0.15
Matches are distributed among these distances:
39 2 0.00
40 66 0.12
41 14 0.02
42 26 0.05
43 51 0.09
44 234 0.42
45 116 0.21
46 23 0.04
47 17 0.03
48 14 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCATCTTAGTCTG
Found at i:12894020 original size:217 final size:217
Alignment explanation
Indices: 12893676--12894511 Score: 1322
Period size: 217 Copynumber: 3.8 Consensus size: 217
12893666 AGGAATTAGT
* * * * *
12893676 GCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGACTTGCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
* **
12893741 AACTTCAGGAGGATAAGACTTGCTTCCTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACCGCAACTTCAGGGAGATAAGACTA
* *
12893806 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCTACTGCAA
131 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
*
12893871 CTTCAGGGAGATAGGATTATCG
196 CTTCAGGGAGATAGGATTGTCG
* *
12893893 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCATTGT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
*
12893958 AACTTCAGGAGGATAAGACTTGCGTACTTAGTCTTG-TCCACCGCAACTTCAGGGAGATAAGACT
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTC-TGCTCCACCGCAACTTCAGGGAGATAAGACT
*
12894022 AGATGCGATATGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCA
130 AGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCA
12894087 ACTTCAGGGAGATAGGATTGTCG
195 ACTTCAGGGAGATAGGATTGTCG
*
12894110 ACTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
*
12894175 AACTTCAGGAGAATAAGACTTGCTTACTTAGTCTTG-TCCACCGCAACTTCAGGGAGATAAGACT
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTC-TGCTCCACCGCAACTTCAGGGAGATAAGACT
*
12894239 AGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGTA
130 AGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCA
12894304 ACTTCAGGGAGATAGGATTGTCG
195 ACTTCAGGGAGATAGGATTGTCG
*
12894327 GCTTT-ATCTGCTCCACTACAACTT-AGGAAGATAAGATTTGCCATCTTCAGTCTGGCCCTCACT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCT-G-CCTCACT
* * * *
12894390 GGTAACTTTAGAAGGATAAGACTTGCTTACTTAGTCTGCTCCACCTGCCAACATCAAGGAGATAA
64 -GTAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACC-G-CAACTTCAGGGAGATAA
* * *
12894455 GACTAGATTACGATCTTCTCTCTGTAACTTCAGA-AGGATAAGATCTGTGATTTTAAT
126 GACTAGA-TGCGATCTGCTCTCTGTAACTTCAGAGA-GATAAGATCTGTAATTTTAAT
12894512 NNNNNNNNNN
Statistics
Matches: 580, Mismatches: 30, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
215 29 0.05
216 19 0.03
217 424 0.73
218 40 0.07
219 1 0.00
220 23 0.04
221 44 0.08
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (217 bp):
GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACCGCAACTTCAGGGAGATAAGACTA
GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
CTTCAGGGAGATAGGATTGTCG
Found at i:12921764 original size:25 final size:25
Alignment explanation
Indices: 12921736--12921865 Score: 97
Period size: 25 Copynumber: 5.2 Consensus size: 25
12921726 GGACACACCA
12921736 TAGCTCTCATGAGCTTCCCGATATT
1 TAGCTCTCATGAGCTTCCCGATATT
*
12921761 TAGCTCGCATGAGCTTCCC-A-ATT
1 TAGCTCTCATGAGCTTCCCGATATT
* * * *
12921784 TCAGCTCTTATGAGCTTCTCAATATA
1 T-AGCTCTCATGAGCTTCCCGATATT
* * * * *
12921810 CAGCT-TGCATAAGCTTTCTGTTATT
1 TAGCTCT-CATGAGCTTCCCGATATT
* *
12921835 TAGCT-TACATGAGCTTCCCGTTATA
1 TAGCTCT-CATGAGCTTCCCGATATT
12921860 TAGCTC
1 TAGCTC
12921866 GGAAGAACTT
Statistics
Matches: 80, Mismatches: 20, Indels: 9
0.73 0.18 0.08
Matches are distributed among these distances:
23 4 0.05
24 17 0.21
25 57 0.71
26 2 0.03
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.37
Consensus pattern (25 bp):
TAGCTCTCATGAGCTTCCCGATATT
Found at i:12921796 original size:24 final size:23
Alignment explanation
Indices: 12921736--12921806 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 23
12921726 GGACACACCA
12921736 TAGCTCTCATGAGCTTCCCGATATT
1 TAGCTCTCATGAGCTTCCC-A-ATT
*
12921761 TAGCTCGCATGAGCTTCCCAATT
1 TAGCTCTCATGAGCTTCCCAATT
* *
12921784 TCAGCTCTTATGAGCTTCTCAAT
1 T-AGCTCTCATGAGCTTCCCAAT
12921807 ATACAGCTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
23 4 0.10
24 19 0.46
25 18 0.44
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.35
Consensus pattern (23 bp):
TAGCTCTCATGAGCTTCCCAATT
Found at i:12923187 original size:88 final size:88
Alignment explanation
Indices: 12923015--12923175 Score: 252
Period size: 88 Copynumber: 1.8 Consensus size: 88
12923005 AAGACCGGTG
* * * * *
12923015 TCTTCGATCTGCTTCGCTGCCAGTGCAGGAAGGCAAAATCTGTCATTTTTAACCTACTCCACTGC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAAATCTGTCATTTTCAACCTACTCCACTGC
12923080 TGCTCAGGTGGACAAGGCTGGTA
66 TGCTCAGGTGGACAAGGCTGGTA
*
12923103 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTG-CTATTTTCAACCTACTCCACTG
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAAATCTGTC-ATTTTCAACCTACTCCACTG
12923167 CTGCTCAGG
65 CTGCTCAGG
12923176 GAGATAAGGC
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
87 1 0.02
88 65 0.98
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (88 bp):
TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAAATCTGTCATTTTCAACCTACTCCACTGC
TGCTCAGGTGGACAAGGCTGGTA
Found at i:12924449 original size:17 final size:16
Alignment explanation
Indices: 12924418--12924459 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
12924408 GAATTTAGAA
12924418 GAATTTTTGAATTAGT
1 GAATTTTTGAATTAGT
*
12924434 GAATTTTGTGATTTAGT
1 GAATTTT-TGAATTAGT
12924451 GAATTTTTG
1 GAATTTTTG
12924460 CGATTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.52
Consensus pattern (16 bp):
GAATTTTTGAATTAGT
Found at i:12925755 original size:46 final size:46
Alignment explanation
Indices: 12925688--12925826 Score: 215
Period size: 46 Copynumber: 3.0 Consensus size: 46
12925678 TGGCAAAGTG
* *
12925688 TGAAAAGTAAGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTA
1 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTA
*
12925734 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTG
1 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTA
** * *
12925780 TGAAAAGTAGGTATGGTAATTCCGTGAAGAAAGCCATACTGAGTTA
1 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTA
12925826 T
1 T
12925827 AGCAATGTGA
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.28
Consensus pattern (46 bp):
TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTA
Found at i:12927220 original size:23 final size:23
Alignment explanation
Indices: 12927194--12927240 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
12927184 AACTCAAATC
12927194 TCCTTTGGTCTCAAAGCGCCCTT
1 TCCTTTGGTCTCAAAGCGCCCTT
12927217 TCCTTTGGTCTCAAAGCGCCCTT
1 TCCTTTGGTCTCAAAGCGCCCTT
12927240 T
1 T
12927241 GTGGGTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.13, C:0.34, G:0.17, T:0.36
Consensus pattern (23 bp):
TCCTTTGGTCTCAAAGCGCCCTT
Found at i:12937250 original size:21 final size:21
Alignment explanation
Indices: 12937224--12937276 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
12937214 CGCTATTTCT
*
12937224 AATCTCACTGCTACAATACCC
1 AATCTCACTGCTACAATAACC
* * * *
12937245 AATCTCACCGCTATAGTAACT
1 AATCTCACTGCTACAATAACC
12937266 AATCTCACTGC
1 AATCTCACTGC
12937277 CACCGCTGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.34, G:0.08, T:0.26
Consensus pattern (21 bp):
AATCTCACTGCTACAATAACC
Found at i:12937600 original size:27 final size:27
Alignment explanation
Indices: 12937569--12937621 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
12937559 CCAATGAACC
*
12937569 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACATAGCAACCCCTTG
12937596 GGGGAATCAGCACATAGCAACCCCTT
1 GGGGAATCAGCACATAGCAACCCCTT
12937622 TTCACATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.17
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTTG
Found at i:12937698 original size:104 final size:103
Alignment explanation
Indices: 12937432--12937685 Score: 395
Period size: 103 Copynumber: 2.5 Consensus size: 103
12937422 TAACCGTTAT
* * * *
12937432 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGAGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGG
12937497 AATCAGCACATAGCAACTCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAACTCCCTTTTCATTTCAAAGATA
* *
12937535 CGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTTGGGG
1 TGGTGGATCA-CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGGG
*
12937599 GAATCAGCACATAGCAAC-CCCTTTTCACATTTCACAGATA
65 GAATCAGCACATAGCAACTCCCTTTT--CATTTCAAAGATA
*
12937639 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCAC
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCAC
12937686 ACAACAACCC
Statistics
Matches: 137, Mismatches: 10, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
102 7 0.05
103 75 0.55
104 54 0.39
105 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (103 bp):
TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGG
AATCAGCACATAGCAACTCCCTTTTCATTTCAAAGATA
Found at i:12945103 original size:22 final size:20
Alignment explanation
Indices: 12945071--12945112 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
12945061 AAAGAAAAGT
*
12945071 AAAAAAAAAAACTTTGATGG
1 AAAAAAAAAAACGTTGATGG
12945091 AAAAAATAGAAAACGTTGATGG
1 AAAAAA-A-AAAACGTTGATGG
12945113 CTAAAGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 1 0.05
22 12 0.63
ACGTcount: A:0.57, C:0.05, G:0.19, T:0.19
Consensus pattern (20 bp):
AAAAAAAAAAACGTTGATGG
Found at i:12945355 original size:21 final size:21
Alignment explanation
Indices: 12945329--12945381 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
12945319 CGCTATTTCT
*
12945329 AATCTCACTGCTACAATACCC
1 AATCTCACTGCTACAATAACC
* * * *
12945350 AATCTCACCGCTATAGTAACT
1 AATCTCACTGCTACAATAACC
12945371 AATCTCACTGC
1 AATCTCACTGC
12945382 CACCGCTGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.34, G:0.08, T:0.26
Consensus pattern (21 bp):
AATCTCACTGCTACAATAACC
Found at i:12945785 original size:104 final size:104
Alignment explanation
Indices: 12945538--12945905 Score: 607
Period size: 103 Copynumber: 3.6 Consensus size: 104
12945528 AACCGTTATT
* * * *
12945538 GGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGTACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
*
12945603 ATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
12945641 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
12945706 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
12945745 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
* *
12945809 ATCAGCACATAGCAACCCCTTTTCACATTTCAAAGATAT
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* * **
12945848 GGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
12945906 TTATATACAA
Statistics
Matches: 252, Mismatches: 11, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
103 178 0.71
104 74 0.29
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:12945807 original size:26 final size:26
Alignment explanation
Indices: 12945777--12945828 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
12945767 ACCAATGAAC
*
12945777 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
12945803 CGGGGAATCAGCACATAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
12945829 TTTCACATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:12949568 original size:19 final size:18
Alignment explanation
Indices: 12949535--12949574 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
12949525 ATGTATATGC
12949535 ATATATTAAAATATGTAT
1 ATATATTAAAATATGTAT
*
12949553 ATATATGTATAATATGTAT
1 ATATAT-TAAAATATGTAT
12949572 ATA
1 ATA
12949575 AAAAAATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (18 bp):
ATATATTAAAATATGTAT
Found at i:12951073 original size:16 final size:16
Alignment explanation
Indices: 12951052--12951103 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
12951042 TTTGGTTTGC
12951052 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
12951068 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
12951084 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
12951100 TGTA
1 TGTA
12951104 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:12951189 original size:39 final size:41
Alignment explanation
Indices: 12951087--12951193 Score: 110
Period size: 39 Copynumber: 2.6 Consensus size: 41
12951077 TTAGAGGTGT
12951087 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAATA
1 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG---A
* * * ***
12951131 TAATGGAATATAGGCGTAATAG-TAATCTTGTGTTTGGTTG-
1 -AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGA
12951171 AATGGAATAGAGGTGTAATAGCA
1 AATGGAATAGAGGTGTAATAGCA
12951194 TAATGGAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
39 19 0.37
44 14 0.27
45 19 0.37
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.32
Consensus pattern (41 bp):
AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGA
Found at i:12951360 original size:18 final size:17
Alignment explanation
Indices: 12951339--12951373 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12951329 TTATTATTAA
*
12951339 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
12951357 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
12951374 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:12951697 original size:26 final size:26
Alignment explanation
Indices: 12951667--12951824 Score: 83
Period size: 26 Copynumber: 6.5 Consensus size: 26
12951657 AATACTATAT
12951667 AATATAATTTAAAATAATTATTATTA
1 AATATAATTTAAAATAATTATTATTA
*
12951693 AATATAATTTAATAA-AAATA-TA-T-
1 AATATAATTTAA-AATAATTATTATTA
* ** *
12951716 AATTTAA--TAAAATTCTTAATATTA
1 AATATAATTTAAAATAATTATTATTA
* * *
12951740 AATAT--TCTT-ATATGAATT-TAATAA
1 AATATAAT-TTAAAAT-AATTATTATTA
* * *
12951764 AATCATAA--T-ATATAA-TACTATAA
1 AAT-ATAATTTAAAATAATTATTATTA
12951787 AATATAATTTAAAATAATTATTATTA
1 AATATAATTTAAAATAATTATTATTA
12951813 AATATAATTTAA
1 AATATAATTTAA
12951825 TAAAATATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 34
0.66 0.11 0.23
Matches are distributed among these distances:
20 2 0.02
21 5 0.05
22 7 0.07
23 16 0.16
24 20 0.20
25 12 0.12
26 34 0.35
27 2 0.02
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.43
Consensus pattern (26 bp):
AATATAATTTAAAATAATTATTATTA
Found at i:12951708 original size:236 final size:237
Alignment explanation
Indices: 12951317--12951842 Score: 867
Period size: 236 Copynumber: 2.2 Consensus size: 237
12951307 ATTTAATCAT
*
12951317 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAA-ATAA-TATTATTAAATATAATTTAA-TAAAATATATAATTTAATAAAATTCTTAATA
* * * * * *
12951382 ATCAATATTTTATCTGAATTTACTAAAATAATAATATATGATACTATAAAATATATTTTAACATA
63 ATAAATATTTTATATGAATTTAATAAAATAATAATATATAATACTATAAAATATAATTTAAAATA
12951447 ATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCT
128 ATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCT
**
12951512 TATATGAATTTTCTAAAATAATAATATATAATACTATAAAATATA
193 TATATGAATTTAATAAAATAATAATATATAATACTATAAAATATA
* *
12951557 ATTTAACAT-A-ATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTCTTAATATTA
1 ATTTAAAATAATATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTCTTAATAATA
* *
12951620 AATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAATTTAAAATAAT
66 AATATT-TTATATGAATTTAATAAAATAATAATATATAATACTATAAAATATAATTTAAAATAAT
12951685 TATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTA
130 TATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTA
*
12951750 TATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
195 TATGAATTTAATAAAATAATAATATATAATACTATAAAATATA
12951793 ATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAAT
1 ATTTAAAATAA-TATTATTAAATATAATTTAATAAAATATATAATTTAAT
12951843 CTAAAGTTTG
Statistics
Matches: 267, Mismatches: 15, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
235 38 0.14
236 182 0.68
237 1 0.00
238 1 0.00
239 39 0.15
240 6 0.02
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.44
Consensus pattern (237 bp):
ATTTAAAATAATATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTCTTAATAATA
AATATTTTATATGAATTTAATAAAATAATAATATATAATACTATAAAATATAATTTAAAATAATT
ATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAT
ATGAATTTAATAAAATAATAATATATAATACTATAAAATATA
Found at i:12951754 original size:120 final size:119
Alignment explanation
Indices: 12951317--12951842 Score: 862
Period size: 120 Copynumber: 4.4 Consensus size: 119
12951307 ATTTAATCAT
*
12951317 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAA-ATAATTATTATTAAATATAATTTAA-TAAAATATATAATTTAATAAAATTCTTAATA
* * * * *
12951382 ATCAATATT-TTATCTGAATTTACTAAAATAATAATATATGATACTATAAAATATA
64 TTAAATATTCTTATATGAATTTAATAAAATAATAATATATAATACTATAAAATATA
* *
12951437 TTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAAAATAATTATTATTAAATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATAT
**
12951502 TAAATATTCTTATATGAATTTTCTAAAATAATAATATATAATACTATAAAATATA
65 TAAATATTCTTATATGAATTTAATAAAATAATAATATATAATACTATAAAATATA
*
12951557 ATTTAACAT-A--ATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTCTTAATATT
1 ATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTCTTAATATT
* *
12951619 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
66 AAATATTCTTATATGAATTTAATAAAATAATAATATATAATACTATAAAATATA
12951673 ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAAAATAATTATTATTAAATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATAT
*
12951738 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
65 TAAATATTCTTATATGAATTTAATAAAATAATAATATATAATACTATAAAATATA
12951793 ATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAAT
1 ATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAAT
12951843 CTAAAGTTTG
Statistics
Matches: 385, Mismatches: 15, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
116 90 0.23
117 21 0.05
118 1 0.00
119 99 0.26
120 174 0.45
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.44
Consensus pattern (119 bp):
ATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTAATAAAATAATAATATATAATACTATAAAATATA
Found at i:12958548 original size:62 final size:62
Alignment explanation
Indices: 12958451--12958597 Score: 267
Period size: 62 Copynumber: 2.4 Consensus size: 62
12958441 GAAGGTTGAG
* * *
12958451 CAGAAGCTCATGAGAGCTAAACGGAAACGTATAAGGGTTGAATGGAAACTCATATGAGTTAA
1 CAGAAGCTCGTGAGAGCTAAACGGAAACCTATAAGGGTTGAACGGAAACTCATATGAGTTAA
12958513 CAGAAGCTCGTGAGAGCTAAACGGAAACCTATAAGGGTTGAACGGAAACTCATATGAGTTAA
1 CAGAAGCTCGTGAGAGCTAAACGGAAACCTATAAGGGTTGAACGGAAACTCATATGAGTTAA
12958575 CAGAAGCTCGTGAGAGCTAAACG
1 CAGAAGCTCGTGAGAGCTAAACG
12958598 AAAAGTAAAC
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 82 1.00
ACGTcount: A:0.39, C:0.16, G:0.27, T:0.19
Consensus pattern (62 bp):
CAGAAGCTCGTGAGAGCTAAACGGAAACCTATAAGGGTTGAACGGAAACTCATATGAGTTAA
Found at i:12960010 original size:25 final size:25
Alignment explanation
Indices: 12959978--12960029 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
12959968 GTAAGTTGAC
12959978 AATGATTTAGATATGTAAATCAATG
1 AATGATTTAGATATGTAAATCAATG
12960003 AATGATTTAGATATGTAAATCAATG
1 AATGATTTAGATATGTAAATCAATG
12960028 AA
1 AA
12960030 GAGAGATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (25 bp):
AATGATTTAGATATGTAAATCAATG
Found at i:12964682 original size:23 final size:23
Alignment explanation
Indices: 12964656--12964702 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
12964646 ATGCCAGTTC
12964656 TAATCACACAAATTTCCTCTTCT
1 TAATCACACAAATTTCCTCTTCT
12964679 TAATCACACAAATTTCCTCTTCT
1 TAATCACACAAATTTCCTCTTCT
12964702 T
1 T
12964703 CTTCTTCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (23 bp):
TAATCACACAAATTTCCTCTTCT
Found at i:12976304 original size:18 final size:17
Alignment explanation
Indices: 12976277--12976310 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
12976267 GTGGTAAAAG
12976277 ATATTTATATTATTATT
1 ATATTTATATTATTATT
12976294 ATATATTATATTATTAT
1 ATAT-TTATATTATTAT
12976311 ACACAANNNN
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATTTATATTATTATT
Found at i:12987342 original size:23 final size:25
Alignment explanation
Indices: 12987316--12987365 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
12987306 GTAAGTTGAC
12987316 AATGATTTA-ATATGTAAATC-ATG
1 AATGATTTAGATATGTAAATCAATG
12987339 AATGATTTAGATATGTAAATCAATG
1 AATGATTTAGATATGTAAATCAATG
12987364 AA
1 AA
12987366 GAGAGATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 9 0.36
24 11 0.44
25 5 0.20
ACGTcount: A:0.46, C:0.04, G:0.14, T:0.36
Consensus pattern (25 bp):
AATGATTTAGATATGTAAATCAATG
Found at i:12991967 original size:23 final size:23
Alignment explanation
Indices: 12991941--12991987 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
12991931 ATGCCAGTTC
12991941 TAATCACACAAATTTCCTCTTCT
1 TAATCACACAAATTTCCTCTTCT
12991964 TAATCACACAAATTTCCTCTTCT
1 TAATCACACAAATTTCCTCTTCT
12991987 T
1 T
12991988 CTTCTTCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (23 bp):
TAATCACACAAATTTCCTCTTCT
Found at i:13009659 original size:18 final size:18
Alignment explanation
Indices: 13009638--13009724 Score: 129
Period size: 18 Copynumber: 4.8 Consensus size: 18
13009628 CGTTTACGAT
13009638 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGGC
*
13009656 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGC
*
13009674 ACTATTCACGTATACGAC
1 ACTATTCACGTATACGGC
* *
13009692 ACTATTTACGTATACGGT
1 ACTATTCACGTATACGGC
*
13009710 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
13009725 AGTAGTTGGG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (18 bp):
ACTATTCACGTATACGGC
Found at i:13009684 original size:36 final size:36
Alignment explanation
Indices: 13009632--13009724 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
13009622 TACGACCGTT
* *
13009632 TACGATACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGACACTATTCACGTA
*
13009668 TACGGTACTATTCACGTATACGACACTATTTACGTA
1 TACGGTACTATTCACGTATACGACACTATTCACGTA
*
13009704 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
13009725 AGTAGTTGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGACACTATTCACGTA
Found at i:13028612 original size:50 final size:49
Alignment explanation
Indices: 13028499--13028681 Score: 228
Period size: 50 Copynumber: 3.7 Consensus size: 49
13028489 TCACATATCG
* * *
13028499 GTGCCGATGCCATATCCCAGACATGGTCTTACACTGGCACTCATCT--C
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCTGCC
** * * *
13028546 AAGCCGATGCCATGTCCCAAACATGGTCTCACACTGACTCTCCTCTGCCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCTG-CC
* *
13028596 GTGCCGATGCCATGTCCCAGACATGGTCTTACACT-AGCACTCCTCGGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCCTCTG-CC
13028646 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTG
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTG
13028682 GCACACTCAC
Statistics
Matches: 115, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
47 38 0.33
49 1 0.01
50 76 0.66
ACGTcount: A:0.20, C:0.35, G:0.20, T:0.25
Consensus pattern (49 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCTGCC
Found at i:13028709 original size:100 final size:97
Alignment explanation
Indices: 13028499--13028695 Score: 243
Period size: 97 Copynumber: 2.0 Consensus size: 97
13028489 TCACATATCG
* * *
13028499 GTGCCGATGCCATATCCCAGACATGGTCTTACACTGGCACTCATCTCAAGCCGATGCCATGTCCC
1 GTGCCGATACCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCAAGCCGATGCCATGTCCC
* *
13028564 AAACATGGTCTCACACTGACTCTCCTCTGCCC
66 AAACATGGTCTCACACTGACACTCCACTGCCC
* * **
13028596 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCGATGCCATGT
1 GTGCCGATACCATGTCCCAGACATGGTCTTACACTAGCACTCATC--TC-AAGCCGATGCCATGT
* *
13028661 CCCAGACATGGTCTTACACTGGCACACT-CACTGCC
63 CCCAAACATGGTCTCACACT-G-ACACTCCACTGCC
13028696 ATGGTCCAAC
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
97 42 0.49
99 2 0.02
100 31 0.36
101 7 0.08
102 4 0.05
ACGTcount: A:0.20, C:0.36, G:0.20, T:0.24
Consensus pattern (97 bp):
GTGCCGATACCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCAAGCCGATGCCATGTCCC
AAACATGGTCTCACACTGACACTCCACTGCCC
Found at i:13033967 original size:146 final size:147
Alignment explanation
Indices: 13033644--13034079 Score: 698
Period size: 146 Copynumber: 3.0 Consensus size: 147
13033634 ACTTTAATGG
* * * * *
13033644 AAGTCACATTCCAAATGTTTTAAAACTGACATTTTAAGTCTCACCACTCCTTTTTGGAAGTATAG
1 AAGTTACATTCCAAATGTTTTAAAACTGCCATTTTAAGTCTCACCAGTCTTTTTTGAAAGTATAG
*
13033709 TTATAAATTAATGTGTTTACTATAAGAAATTATTTTATGGACTCTTTTCACCACATCATCCATAG
66 TTATAAATTAATGTGTTTAC-ATGAGAAATTATTTTATGGACTCTTTTCACCACATCATCCATAG
13033774 TCCTGCCCAATTTCATGA
130 TCCTGCCCAATTTCATGA
*
13033792 AAGTTAGATTCCAAATGTTTTAAAACTGCCATTTTAAGTCTCACCAGTCTTTTTTGAAAGTATAG
1 AAGTTACATTCCAAATGTTTTAAAACTGCCATTTTAAGTCTCACCAGTCTTTTTTGAAAGTATAG
* * * *
13033857 TTATAAATTAATGTGTTTATCATGAGAAA-T-TTTTAGGGACTCTTTTCGCCACATCAACCATGG
66 TTATAAATTAATGTGTTTA-CATGAGAAATTATTTTATGGACTCTTTTCACCACATCATCCATAG
13033920 TCCTGCCCAATTTCATGA
130 TCCTGCCCAATTTCATGA
*
13033938 AAGTTACATTCCAAATGTTTTAAAACTGCCATTTTAAGTCTCACTAGTCTTTTTTGAAAGTATAG
1 AAGTTACATTCCAAATGTTTTAAAACTGCCATTTTAAGTCTCACCAGTCTTTTTTGAAAGTATAG
*
13034003 TTATAAATTAATGTGTTTACCATGAGAAATTATTTTATTGACTC-TTTCTACCACATCATCCATA
66 TTATAAATTAATGTGTTTA-CATGAGAAATTATTTTATGGACTCTTTTC-ACCACATCATCCATA
13034067 GTCCTGCCCAATT
129 GTCCTGCCCAATT
13034080 AAAAGAAGAC
Statistics
Matches: 265, Mismatches: 19, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
146 138 0.52
147 6 0.02
148 120 0.45
149 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.39
Consensus pattern (147 bp):
AAGTTACATTCCAAATGTTTTAAAACTGCCATTTTAAGTCTCACCAGTCTTTTTTGAAAGTATAG
TTATAAATTAATGTGTTTACATGAGAAATTATTTTATGGACTCTTTTCACCACATCATCCATAGT
CCTGCCCAATTTCATGA
Found at i:13039851 original size:29 final size:30
Alignment explanation
Indices: 13039786--13039853 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 30
13039776 TTGTTTATTA
*
13039786 TTTCTTA-TAATTATTATTTTATTTTTCTAG
1 TTTCTTATTAATTATTA-TTTATTTTTCAAG
*
13039816 -TTATTATTAATTAATTA-TTATTTTT-AAG
1 TTTCTTATTAATT-ATTATTTATTTTTCAAG
13039844 TTTCTTATTA
1 TTTCTTATTA
13039854 TTCTTAGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
28 2 0.06
29 21 0.66
30 5 0.16
31 4 0.12
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (30 bp):
TTTCTTATTAATTATTATTTATTTTTCAAG
Found at i:13040131 original size:12 final size:12
Alignment explanation
Indices: 13040099--13040137 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
13040089 TTGCTTATCA
13040099 TTATTATTAATTGT
1 TTATTATT-ATT-T
*
13040113 ATATTATTATTT
1 TTATTATTATTT
13040125 TTATTATTATTT
1 TTATTATTATTT
13040137 T
1 T
13040138 AGTTTTCCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 13 0.57
13 3 0.13
14 7 0.30
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:13040183 original size:16 final size:15
Alignment explanation
Indices: 13040152--13040185 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
13040142 TTCCATTTCG
*
13040152 TTTCTTATTTTTATT
1 TTTCTTATTATTATT
13040167 TTTCTTCATTATTATT
1 TTTCTT-ATTATTATT
13040183 TTT
1 TTT
13040186 TGTACTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTCTTATTATTATT
Found at i:13047946 original size:26 final size:24
Alignment explanation
Indices: 13047886--13047949 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 24
13047876 AAATAAAAAT
*
13047886 ATTATCGTATTAATATTAAAATGA
1 ATTATCGTATTAAAATTAAAATGA
* * *
13047910 TTATATTGTATTGAAAATTAAATCTGA
1 AT-TATCGTATT-AAAATTAAA-ATGA
13047937 ATTATCGTATTAA
1 ATTATCGTATTAA
13047950 TTATGATATA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
24 1 0.03
25 10 0.32
26 16 0.52
27 4 0.13
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (24 bp):
ATTATCGTATTAAAATTAAAATGA
Found at i:13055522 original size:7 final size:7
Alignment explanation
Indices: 13055512--13055548 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
13055502 CCTTCCCCTC
13055512 CCCATTT
1 CCCATTT
13055519 CCCATTT
1 CCCATTT
13055526 CCCATTT
1 CCCATTT
13055533 CCCATTT
1 CCCATTT
13055540 CCCATTT
1 CCCATTT
13055547 CC
1 CC
13055549 TCGACCCCGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.14, C:0.46, G:0.00, T:0.41
Consensus pattern (7 bp):
CCCATTT
Found at i:13060670 original size:6 final size:6
Alignment explanation
Indices: 13060659--13060692 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
13060649 GGTTGCAAAA
* *
13060659 ATGACG ATGACG ATGATG ATGACG ATGAGG ATGA
1 ATGACG ATGACG ATGACG ATGACG ATGACG ATGA
13060693 TGTTTCTTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (6 bp):
ATGACG
Found at i:13060682 original size:18 final size:18
Alignment explanation
Indices: 13060659--13060694 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13060649 GGTTGCAAAA
13060659 ATGACGATGACGATGATG
1 ATGACGATGACGATGATG
*
13060677 ATGACGATGAGGATGATG
1 ATGACGATGACGATGATG
13060695 TTTCTTCGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.08, G:0.36, T:0.22
Consensus pattern (18 bp):
ATGACGATGACGATGATG
Found at i:13061335 original size:37 final size:37
Alignment explanation
Indices: 13061285--13061356 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
13061275 TAAACTCATA
*
13061285 ATTAATTAAATAGTAAGTGAATTCTAATTTAATGGTG
1 ATTAATTAAATAGTAAGTGAATTCTAATCTAATGGTG
*
13061322 ATTAATTAAATAGTTAGTGAATTCTAATCTAATGG
1 ATTAATTAAATAGTAAGTGAATTCTAATCTAATGG
13061357 AAAAAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.40
Consensus pattern (37 bp):
ATTAATTAAATAGTAAGTGAATTCTAATCTAATGGTG
Found at i:13062684 original size:5 final size:5
Alignment explanation
Indices: 13062674--13062706 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
13062664 AAAACTCATA
13062674 AAAAT AAAAT AAAAT AAAAT AAAAT AAATAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AA
13062707 CTAGTCATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:13066885 original size:49 final size:49
Alignment explanation
Indices: 13066828--13066931 Score: 156
Period size: 49 Copynumber: 2.1 Consensus size: 49
13066818 TCATGTGTTA
* * *
13066828 TAATTTTATACAA-TGTTGAGCTTCTGATTCATGATATTTAACTTAATTT
1 TAATTTTATA-AAGTGTTCACCTTCTGATTCATGATATTAAACTTAATTT
*
13066877 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTCTGATTCATGATATTAAACTTAATTT
13066926 TAATTT
1 TAATTT
13066932 GTTTTTTTCT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 2 0.04
49 48 0.96
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTCTGATTCATGATATTAAACTTAATTT
Found at i:13068142 original size:9 final size:9
Alignment explanation
Indices: 13068128--13068155 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
13068118 TTATGACATA
13068128 GAATTTCAT
1 GAATTTCAT
13068137 GAATTTCAT
1 GAATTTCAT
13068146 GAATTTCAT
1 GAATTTCAT
13068155 G
1 G
13068156 TACCCTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (9 bp):
GAATTTCAT
Found at i:13068463 original size:120 final size:120
Alignment explanation
Indices: 13068328--13069163 Score: 1465
Period size: 120 Copynumber: 7.0 Consensus size: 120
13068318 TAGATTATAC
* *
13068328 ATTAT-TTTTATAGCATTACATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
13068392 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
*
13068447 ATTATATTTTATAGCATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
13068512 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
13068567 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
13068632 AAATTTATTAAATTAT-T-TTTTTATTAAATTATATTTAA-AATAATTAAT-TTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT-ATGTTAA
13068684 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC---TAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
* *
13068746 AATTTTATTAAATTATATATTTTTACTAAATTATATTTTTAATAATAATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATAATTATGTTAA
* *
13068803 ATTATATTTTATAGTATTATATATTATGGTTTTAGTAAATTCATTTAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
13068868 AATTTTATTAAATTATATATTTTTATTAAA-TATAATTTAATAATAATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTAT-ATTTAATAATAATTATGTTAA
*
13068923 ATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
13068988 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
*
13069043 ATTATATTTTATAGTATTATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
13069108 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
13069163 A
1 A
13069164 ATATGATTAA
Statistics
Matches: 691, Mismatches: 13, Indels: 25
0.95 0.02 0.03
Matches are distributed among these distances:
114 35 0.05
115 1 0.00
116 15 0.02
117 53 0.08
118 30 0.04
119 58 0.08
120 443 0.64
121 6 0.01
122 50 0.07
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (120 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
Found at i:13068769 original size:18 final size:17
Alignment explanation
Indices: 13068748--13068785 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
13068738 ATATTAAGAA
*
13068748 TTTTATTAAATTATATAT
1 TTTTACTAAATTATAT-T
13068766 TTTTACTAAATTATATT
1 TTTTACTAAATTATATT
13068783 TTT
1 TTT
13068786 AATAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTACTAAATTATATT
Found at i:13068909 original size:47 final size:44
Alignment explanation
Indices: 13068853--13069149 Score: 138
Period size: 38 Copynumber: 7.2 Consensus size: 44
13068843 TCATTTAAGA
13068853 ATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAAT
1 ATATTTAATATTAAGAATTTTATTAAATTATATA-TTTTA-TAAAT
* *
13068899 ATAATTT-A-A-TAATAATTATT-TTAAA-T-TATATTTTAT-AGT
1 AT-ATTTAATATTAAGAATT-TTATTAAATTATATATTTTATAAAT
* * * *
13068938 AT-TAT-ATATTATG-ATTTTATTAAATT-CATA---TA-AGA-
1 ATATTTAATATTAAGAATTTTATTAAATTATATATTTTATAAAT
13068973 ATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTTAATATTAAGAATTTTATTAAATTATATA-TTTTA-TAAA-T
* *
13069020 ATATTT-A-A-TAATAATTATT-TTAAA-T-TATATTTTAT-AGT
1 ATATTTAATATTAAGAATT-TTATTAAATTATATATTTTATAAAT
* * ** *
13069058 AT-TAT-ATATTATG-ATTTTAGAAAATTCATATA------AGA-
1 ATATTTAATATTAAGAATTTTATTAAATT-ATATATTTTATAAAT
13069093 ATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTTAATATTAAGAATTTTATTAAATTATATA-TTTTA-TAAA-T
13069140 ATATTTAATA
1 ATATTTAATA
13069150 ATAATTATGT
Statistics
Matches: 185, Mismatches: 26, Indels: 79
0.64 0.09 0.27
Matches are distributed among these distances:
35 4 0.02
36 6 0.03
37 29 0.16
38 43 0.23
39 17 0.09
40 2 0.01
41 14 0.08
42 8 0.04
43 4 0.02
44 24 0.13
45 10 0.05
46 4 0.02
47 20 0.11
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (44 bp):
ATATTTAATATTAAGAATTTTATTAAATTATATATTTTATAAAT
Found at i:13069368 original size:44 final size:45
Alignment explanation
Indices: 13069314--13069401 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
13069304 ATTACATTCA
*
13069314 TCAACCAAACACA-AGAA-TACTATTACGCCTCTATTCCATTACAT
1 TCAACCAAACA-ATAGAATTACTATTACGCCTCTATTCAATTACAT
* *
13069358 TCAACCAAACAATTGAATTACTATTACGCTTCTATTCAATTACA
1 TCAACCAAACAATAGAATTACTATTACGCCTCTATTCAATTACA
13069402 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
43 1 0.03
44 14 0.36
45 24 0.62
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.31
Consensus pattern (45 bp):
TCAACCAAACAATAGAATTACTATTACGCCTCTATTCAATTACAT
Found at i:13075225 original size:8 final size:10
Alignment explanation
Indices: 13075198--13075227 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
13075188 CTTGCGTCTA
13075198 ATACATATAT
1 ATACATATAT
13075208 ATACATATAT
1 ATACATATAT
*
13075218 ATAAATATAT
1 ATACATATAT
13075228 TAAAACATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (10 bp):
ATACATATAT
Found at i:13085229 original size:22 final size:22
Alignment explanation
Indices: 13085204--13085246 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
13085194 CTCCGATTAT
13085204 TAGCACATTAGTGCTCTCTGTA
1 TAGCACATTAGTGCTCTCTGTA
* *
13085226 TAGCACTTTAGTGCTTTCTGT
1 TAGCACATTAGTGCTCTCTGT
13085247 TTAATAGTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.42
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCTGTA
Found at i:13085488 original size:12 final size:12
Alignment explanation
Indices: 13085471--13085495 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13085461 AAATATGTAA
13085471 AAAGAAATTGTG
1 AAAGAAATTGTG
13085483 AAAGAAATTGTG
1 AAAGAAATTGTG
13085495 A
1 A
13085496 GGAAATCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (12 bp):
AAAGAAATTGTG
Found at i:13090346 original size:15 final size:14
Alignment explanation
Indices: 13090325--13090365 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
13090315 GCTTGGGGAA
*
13090325 GAAAAAATAAAAGG
1 GAAAAAAAAAAAGG
*
13090339 GAAAAAAAGAAAGG
1 GAAAAAAAAAAAGG
*
13090353 GAGAAAAAAAAAG
1 GAAAAAAAAAAAG
13090366 AAAAGGCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.02
Consensus pattern (14 bp):
GAAAAAAAAAAAGG
Found at i:13093070 original size:25 final size:25
Alignment explanation
Indices: 13093039--13093111 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
13093029 GCTCTCCTTC
*
13093039 GAGCCATATAACAAGAAGCTGATGT
1 GAGCCATATAACAAGAAGCTCATGT
* *
13093064 GAGCCATGTAACAAGAAGCTCATTT
1 GAGCCATATAACAAGAAGCTCATGT
** **
13093089 GAGCTGTATAACGGGAAGCTCAT
1 GAGCCATATAACAAGAAGCTCAT
13093112 AAAAGCCGTA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (25 bp):
GAGCCATATAACAAGAAGCTCATGT
Found at i:13097535 original size:28 final size:28
Alignment explanation
Indices: 13097493--13097546 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
13097483 ATATTGATTA
*
13097493 TAATTAGATTATTTGGTAAGAATAAAAT
1 TAATTACATTATTTGGTAAGAATAAAAT
*
13097521 TAATTACATTGTTTGGTAAGAATAAA
1 TAATTACATTATTTGGTAAGAATAAA
13097547 TTTTAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.15, T:0.39
Consensus pattern (28 bp):
TAATTACATTATTTGGTAAGAATAAAAT
Found at i:13098382 original size:20 final size:20
Alignment explanation
Indices: 13098359--13098404 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
13098349 AATAAACACC
13098359 AAAAATTTATTTTAAAAATA
1 AAAAATTTATTTTAAAAATA
* *
13098379 AAAAAATTATTTTAAAATTA
1 AAAAATTTATTTTAAAAATA
13098399 AAAAAT
1 AAAAAT
13098405 AAAAATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAATTTATTTTAAAAATA
Found at i:13108149 original size:3 final size:3
Alignment explanation
Indices: 13108141--13108216 Score: 57
Period size: 3 Copynumber: 25.3 Consensus size: 3
13108131 ATATGAAAGT
* * * *
13108141 ATA ATA ATA ATA ATAA ATT GTA ATA TTA AT- ATGC ATA ATA A-A ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
* * *
13108186 ATA ATC ATA ATA ATC ATA ATA ATA ATG ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13108217 CAAAAATAAC
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
2 4 0.07
3 47 0.84
4 5 0.09
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:13108473 original size:4 final size:4
Alignment explanation
Indices: 13108464--13108566 Score: 57
Period size: 4 Copynumber: 25.8 Consensus size: 4
13108454 AAAGGAATTA
* * * * * *
13108464 AAAT AAAT AAGT AAAT GAAT GAAT -AAT ATAT AAAT AAGT AAAT AAGT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * ** *
13108511 AAGT AAAT GAAT AAAAT CAAAG GAAT -AAT AAAT AAAT ATGT AAAT AAAA
1 AAAT AAAT AAAT -AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
13108560 AAAT AAA
1 AAAT AAA
13108567 AGGAAACCGT
Statistics
Matches: 75, Mismatches: 21, Indels: 6
0.74 0.21 0.06
Matches are distributed among these distances:
3 6 0.08
4 63 0.84
5 6 0.08
ACGTcount: A:0.65, C:0.01, G:0.10, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:13109558 original size:26 final size:27
Alignment explanation
Indices: 13109529--13109586 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
13109519 TTCTTTTAAC
13109529 TCTTTACTTTTTTTGTAT-TCTATTTT-
1 TCTTTACTTTTTTTGTATATCT-TTTTG
**
13109555 TCTTTGTTTTTTTTGTATATCTTTTTG
1 TCTTTACTTTTTTTGTATATCTTTTTG
13109582 TCTTT
1 TCTTT
13109587 TTTACGTTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.09, C:0.10, G:0.07, T:0.74
Consensus pattern (27 bp):
TCTTTACTTTTTTTGTATATCTTTTTG
Found at i:13110813 original size:27 final size:27
Alignment explanation
Indices: 13110783--13110834 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
13110773 AATGCCATAA
* *
13110783 AGGATTTTAAAATAGAAATTGAAACAC
1 AGGATTTGAAAATAAAAATTGAAACAC
*
13110810 AGGATTTGCAAATAAAAATTGAAAC
1 AGGATTTGAAAATAAAAATTGAAAC
13110835 GCAACAGTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.52, C:0.08, G:0.15, T:0.25
Consensus pattern (27 bp):
AGGATTTGAAAATAAAAATTGAAACAC
Found at i:13122439 original size:22 final size:23
Alignment explanation
Indices: 13122411--13122458 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
13122401 TCACAAGAAA
*
13122411 CAAAGAAACTC-ATAAT-AATCTT
1 CAAAGAAAC-CAAAAATGAATCTT
13122433 CAAAGAAACCAAAAATGAATCTT
1 CAAAGAAACCAAAAATGAATCTT
13122456 CAA
1 CAA
13122459 TCTTGATGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 1 0.04
22 13 0.57
23 9 0.39
ACGTcount: A:0.54, C:0.19, G:0.06, T:0.21
Consensus pattern (23 bp):
CAAAGAAACCAAAAATGAATCTT
Found at i:13130479 original size:46 final size:46
Alignment explanation
Indices: 13130426--13130515 Score: 180
Period size: 46 Copynumber: 2.0 Consensus size: 46
13130416 ATGAATCGAG
13130426 TTAGTTCAAGTAAGTCAAATGAGCCTATTTAATTAGTTGACCTCTA
1 TTAGTTCAAGTAAGTCAAATGAGCCTATTTAATTAGTTGACCTCTA
13130472 TTAGTTCAAGTAAGTCAAATGAGCCTATTTAATTAGTTGACCTC
1 TTAGTTCAAGTAAGTCAAATGAGCCTATTTAATTAGTTGACCTC
13130516 CATAAAACGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (46 bp):
TTAGTTCAAGTAAGTCAAATGAGCCTATTTAATTAGTTGACCTCTA
Found at i:13131777 original size:32 final size:30
Alignment explanation
Indices: 13131725--13131790 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
13131715 CGTTTTGGTA
13131725 ACTAAATTATTAAAACTTTTTAATTTAAGTC
1 ACTAAATTATTAAAACTTTTT-ATTTAAGTC
* * *
13131756 ACTAAATTATTTAAAAGTTTTTGTTTGAGTC
1 ACTAAATTA-TTAAAACTTTTTATTTAAGTC
13131787 ACTA
1 ACTA
13131791 GGTTAGTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 20 0.65
32 11 0.35
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (30 bp):
ACTAAATTATTAAAACTTTTTATTTAAGTC
Found at i:13133594 original size:22 final size:22
Alignment explanation
Indices: 13133569--13133610 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13133559 GGAATAATAT
*
13133569 TTTATAAAATAGTAACAAAATG
1 TTTATAAAATAGTAAAAAAATG
* *
13133591 TTTATAGAATTGTAAAAAAA
1 TTTATAAAATAGTAAAAAAA
13133611 AAGATATTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.33
Consensus pattern (22 bp):
TTTATAAAATAGTAAAAAAATG
Found at i:13133849 original size:9 final size:9
Alignment explanation
Indices: 13133832--13133868 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
13133822 TGAGTTTTCG
13133832 AATTCGAAT
1 AATTCGAAT
*
13133841 AACTCGAAT
1 AATTCGAAT
13133850 AATTCGAAT
1 AATTCGAAT
13133859 AATTCGAAT
1 AATTCGAAT
13133868 A
1 A
13133869 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:13135111 original size:18 final size:18
Alignment explanation
Indices: 13135069--13135112 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
13135059 AATCAAATGT
*
13135069 TACAAAAAAATGCAAAAA
1 TACAAAAAAATACAAAAA
* *
13135087 AAGAAAAAAATACAAAAA
1 TACAAAAAAATACAAAAA
13135105 TACAAAAA
1 TACAAAAA
13135113 TACCTATAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.77, C:0.09, G:0.05, T:0.09
Consensus pattern (18 bp):
TACAAAAAAATACAAAAA
Found at i:13136024 original size:7 final size:7
Alignment explanation
Indices: 13136008--13136041 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
13135998 CTAGGATTTC
13136008 AAAA-AA
1 AAAACAA
13136014 AAAACAA
1 AAAACAA
13136021 AAAACAA
1 AAAACAA
13136028 AAAAC-A
1 AAAACAA
13136034 AAAACAA
1 AAAACAA
13136041 A
1 A
13136042 GAGGAGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 10 0.38
7 16 0.62
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAACAA
Found at i:13136029 original size:13 final size:14
Alignment explanation
Indices: 13136008--13136041 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
13135998 CTAGGATTTC
13136008 AAAA-AAAAAACAA
1 AAAACAAAAAACAA
13136021 AAAACAAAAAAC-A
1 AAAACAAAAAACAA
13136034 AAAACAAA
1 AAAACAAA
13136042 GAGGAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAACAAAAAACAA
Found at i:13136323 original size:30 final size:31
Alignment explanation
Indices: 13136258--13136315 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
13136248 CTATTTTAAT
*
13136258 AAAATCCATATAATGAATCACAATTATAAAA
1 AAAATCCATATAATGAATCACAATTACAAAA
*
13136289 AAAAT-CATATAATG-ATCATAATTACAA
1 AAAATCCATATAATGAATCACAATTACAA
13136316 TACAAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 11 0.44
30 9 0.36
31 5 0.20
ACGTcount: A:0.57, C:0.12, G:0.03, T:0.28
Consensus pattern (31 bp):
AAAATCCATATAATGAATCACAATTACAAAA
Found at i:13138513 original size:21 final size:21
Alignment explanation
Indices: 13138487--13138536 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
13138477 ATCGCTATCA
13138487 GAAGCTCAATAGAGCTGAACG
1 GAAGCTCAATAGAGCTGAACG
13138508 GAAGCTCAATAGAGCTGAACG
1 GAAGCTCAATAGAGCTGAACG
*
13138529 GAAACTCA
1 GAAGCTCA
13138537 TATGGGTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.14
Consensus pattern (21 bp):
GAAGCTCAATAGAGCTGAACG
Found at i:13139422 original size:40 final size:40
Alignment explanation
Indices: 13139332--13139422 Score: 101
Period size: 40 Copynumber: 2.3 Consensus size: 40
13139322 TGTGTGTCCA
* * * *
13139332 TGTTTGTACTTCAGTACCCCTGAATGCATATACATGCCCT
1 TGTTTGTACTTCAGTACCCCTAAATACACATACATGCCCC
* * * *
13139372 TATTTGTACTTCGGTACCCCTAAATACACATGCGTGCCCC
1 TGTTTGTACTTCAGTACCCCTAAATACACATACATGCCCC
*
13139412 TGTTTATACTT
1 TGTTTGTACTT
13139423 TGGCAACCCT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.36
Consensus pattern (40 bp):
TGTTTGTACTTCAGTACCCCTAAATACACATACATGCCCC
Found at i:13141034 original size:5 final size:5
Alignment explanation
Indices: 13141020--13141070 Score: 95
Period size: 5 Copynumber: 10.4 Consensus size: 5
13141010 CTTAGTTTAT
13141020 ATAT- ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
13141069 AT
1 AT
13141071 GTGAAAAGAC
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.09
5 42 0.91
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:13142235 original size:25 final size:25
Alignment explanation
Indices: 13142207--13142282 Score: 66
Period size: 28 Copynumber: 3.0 Consensus size: 25
13142197 GAAAGTGAAA
13142207 GTGATGGTCACGTGTGTAGTACTAT
1 GTGATGGTCACGTGTGTAGTACTAT
* * * *
13142232 GTGAAGGCTACTACGTGTATCGGA-TA-
1 GTGATGG-T-C-ACGTGTGTAGTACTAT
*
13142258 GTGATGGTCACATGTGTAGTACTAT
1 GTGATGGTCACGTGTGTAGTACTAT
13142283 ATGCAGGCTA
Statistics
Matches: 37, Mismatches: 9, Indels: 10
0.66 0.16 0.18
Matches are distributed among these distances:
23 8 0.22
24 3 0.08
25 7 0.19
26 7 0.19
27 3 0.08
28 9 0.24
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.33
Consensus pattern (25 bp):
GTGATGGTCACGTGTGTAGTACTAT
Found at i:13142261 original size:51 final size:51
Alignment explanation
Indices: 13142206--13142305 Score: 155
Period size: 51 Copynumber: 2.0 Consensus size: 51
13142196 TGAAAGTGAA
* * *
13142206 AGTGATGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAT
1 AGTGATGGTCACATGTGTAGTACTATATGAAGGCTACTACGTGAATCGGAT
* *
13142257 AGTGATGGTCACATGTGTAGTACTATATGCAGGCTACTATGTGAATCGG
1 AGTGATGGTCACATGTGTAGTACTATATGAAGGCTACTACGTGAATCGG
13142306 TATCATTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.31
Consensus pattern (51 bp):
AGTGATGGTCACATGTGTAGTACTATATGAAGGCTACTACGTGAATCGGAT
Found at i:13142543 original size:16 final size:16
Alignment explanation
Indices: 13142522--13142553 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13142512 TGATTGAAAG
*
13142522 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
13142538 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
13142554 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:13161465 original size:61 final size:60
Alignment explanation
Indices: 13161395--13161572 Score: 161
Period size: 61 Copynumber: 3.0 Consensus size: 60
13161385 TTGTTAAATT
*
13161395 ATATTTAATAATAATAATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGA
1 ATATTTAATAATAATAATTTTATA-TATTATATATTATGATTTTAATAAATTCATATAAGA
* * * * * *
13161456 ATATTTAATACTAAGAATTTTATTAAATTATATATT-T--TTGTTAAATTATATTTA-ATAATA
1 ATATTTAATAATAATAATTTTA-TATATTATATATTATGATT-TT-AA-TAAATTCATATAAGA
* * *
13161516 ATTATTTTA-AATTAT-ATTTTATAATATTATATATTATAATTTTAATAAATTCATATA
1 A-TATTTAATAATAATAATTTTAT-ATATTATATATTATGATTTTAATAAATTCATATA
13161573 TTTTATCAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
58 3 0.03
59 25 0.27
60 17 0.18
61 44 0.47
62 4 0.04
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (60 bp):
ATATTTAATAATAATAATTTTATATATTATATATTATGATTTTAATAAATTCATATAAGA
Found at i:13161525 original size:26 final size:25
Alignment explanation
Indices: 13161487--13161545 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
13161477 ATTAAATTAT
*
13161487 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
13161513 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
13161539 ATATTAT
1 ATATTAT
13161546 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:13161544 original size:15 final size:15
Alignment explanation
Indices: 13161500--13161555 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
13161490 TTTTTGTTAA
*
13161500 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
13161515 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
13161526 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
13161541 ATTATATATTATAAT
1 ATTATATTTTATAAT
13161556 TTTAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Done.