Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 18 of 218
Found at i:6232371 original size:14 final size:14
Alignment explanation
Indices: 6232352--6232379 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6232342 ACCGCTCAAA
6232352 ACCATTGCTACATT
1 ACCATTGCTACATT
6232366 ACCATTGCTACATT
1 ACCATTGCTACATT
6232380 TTACAACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (14 bp):
ACCATTGCTACATT
Found at i:6233315 original size:30 final size:31
Alignment explanation
Indices: 6233279--6233343 Score: 105
Period size: 30 Copynumber: 2.1 Consensus size: 31
6233269 GTCAATAAAT
*
6233279 TATTCAAAACTTTTCATTTAAGTCA-CTAAC
1 TATTCAAAACTTTTCATTTAAGTCACCGAAC
*
6233309 TATTCAAAACTTTTTATTTAAGTCACCGAAC
1 TATTCAAAACTTTTCATTTAAGTCACCGAAC
6233340 TATT
1 TATT
6233344 AAGTTTCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (31 bp):
TATTCAAAACTTTTCATTTAAGTCACCGAAC
Found at i:6245194 original size:24 final size:24
Alignment explanation
Indices: 6245166--6245217 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
6245156 TTAGTAAGTC
* *
6245166 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
6245190 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
6245214 AAAT
1 AAAT
6245218 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:6250721 original size:21 final size:22
Alignment explanation
Indices: 6250692--6250738 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
6250682 CAGAAGGAGT
*
6250692 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6250714 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6250735 GAGT
1 GAGT
6250739 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:6260108 original size:14 final size:14
Alignment explanation
Indices: 6260083--6260123 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
6260073 ATATGAAGAA
6260083 TATTACTTAAAATTAT
1 TATTA-TTAAAATT-T
6260099 TATT-TTAAAATTT
1 TATTATTAAAATTT
6260112 TATTATTAAAAT
1 TATTATTAAAAT
6260124 AAAATTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.21
14 15 0.62
16 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (14 bp):
TATTATTAAAATTT
Found at i:6265338 original size:51 final size:50
Alignment explanation
Indices: 6265258--6265476 Score: 194
Period size: 51 Copynumber: 4.3 Consensus size: 50
6265248 TTAACACGTA
*
6265258 TGTAGTACTAAGTGCAGGCTACTACGTGTATC-GATAGATAATGGTCACATG
1 TGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGAT--TGGTCACATG
* * * *
6265309 TGTAGTACTATGTGCAGGCTACTATGTGTA-CCGAATGGCCTTGGTCA-AGTG
1 TGTAGTACTATGTGCAGGCTACTACGTGTATCAG-ATAG-ATTGGTCACA-TG
* * * * * **
6265360 TGTAGTACTATGTGCAAGCTACTACGTGAATCGGA-AGGCTTGATCATGTG
1 TGTAGTACTATGTGCAGGCTACTACGTGTATCAGATA-GATTGGTCACATG
* * *
6265410 TGTAGTACTATGTGTAGGCTACTACGTGTATCAGATGACAATGGTCACATG
1 TGTAGTACTATGTGCAGGCTACTACGTGTATCAGAT-AGATTGGTCACATG
* *
6265461 GGTGGTACTATGTGCA
1 TGTAGTACTATGTGCA
6265477 AACCACCGAA
Statistics
Matches: 135, Mismatches: 24, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
50 42 0.31
51 86 0.64
52 6 0.04
53 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (50 bp):
TGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGATTGGTCACATG
Found at i:6265431 original size:50 final size:51
Alignment explanation
Indices: 6265307--6265437 Score: 176
Period size: 50 Copynumber: 2.6 Consensus size: 51
6265297 AATGGTCACA
* * *
6265307 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGGCCTTGGTCAAG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAATGGCCTTGATCAAG
* * *
6265358 TGTGTAGTACTATGTGCAAGCTACTACGTGAATCGGAA-GG-CTTGATCATG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGAA-CCGAATGGCCTTGATCAAG
*
6265408 TGTGTAGTACTATGTGTAGGCTACTACGTG
1 TGTGTAGTACTATGTGCAGGCTACTACGTG
6265438 TATCAGATGA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
50 36 0.51
51 31 0.44
52 4 0.06
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAATGGCCTTGATCAAG
Found at i:6269257 original size:43 final size:43
Alignment explanation
Indices: 6269207--6269295 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
6269197 TACGACTTTC
6269207 TCTTTTTCTGGGTTTATGGGTTTTTAGTTGTTTCTTTGATGGT
1 TCTTTTTCTGGGTTTATGGGTTTTTAGTTGTTTCTTTGATGGT
6269250 TCTTTTTCTGGGTTTATGGGTTTTTAGTTGTTTCTTTGATGGT
1 TCTTTTTCTGGGTTTATGGGTTTTTAGTTGTTTCTTTGATGGT
6269293 TCT
1 TCT
6269296 AGTTGCATGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.07, C:0.08, G:0.25, T:0.61
Consensus pattern (43 bp):
TCTTTTTCTGGGTTTATGGGTTTTTAGTTGTTTCTTTGATGGT
Found at i:6280186 original size:21 final size:21
Alignment explanation
Indices: 6280160--6280203 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
6280150 TGATTTGAAG
6280160 ATAAATAGACAGTTGGAGAGA
1 ATAAATAGACAGTTGGAGAGA
6280181 ATAAATAGACAGTTGGAGAGA
1 ATAAATAGACAGTTGGAGAGA
6280202 AT
1 AT
6280204 CCCAGGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.05, G:0.27, T:0.20
Consensus pattern (21 bp):
ATAAATAGACAGTTGGAGAGA
Found at i:6286899 original size:20 final size:20
Alignment explanation
Indices: 6286874--6286911 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6286864 TTTGGTTATC
6286874 ACATGTTCAAATATCTAACT
1 ACATGTTCAAATATCTAACT
**
6286894 ACATGTTTGAATATCTAA
1 ACATGTTCAAATATCTAA
6286912 TCCCATTGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (20 bp):
ACATGTTCAAATATCTAACT
Found at i:6289652 original size:7 final size:7
Alignment explanation
Indices: 6289618--6289650 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
6289608 TTATCTGATT
6289618 AGTGACA
1 AGTGACA
6289625 AGTGACA
1 AGTGACA
6289632 AGTGACA
1 AGTGACA
*
6289639 AGTGATA
1 AGTGACA
6289646 AGTGA
1 AGTGA
6289651 TAGCTTTAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.42, C:0.09, G:0.30, T:0.18
Consensus pattern (7 bp):
AGTGACA
Found at i:6289664 original size:58 final size:58
Alignment explanation
Indices: 6289574--6289694 Score: 206
Period size: 58 Copynumber: 2.1 Consensus size: 58
6289564 ACTTCTGATC
* * *
6289574 AGTGACAAGTGATGAGTGGTAGCTTTAGCTACACTTATCTGATTAGTGACAAGTGACA
1 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
*
6289632 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGATA
1 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
6289690 AGTGA
1 AGTGA
6289695 TAGCTTTAGC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (58 bp):
AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
Found at i:6289695 original size:44 final size:44
Alignment explanation
Indices: 6289632--6289740 Score: 191
Period size: 44 Copynumber: 2.5 Consensus size: 44
6289622 ACAAGTGACA
6289632 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
6289676 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
* * *
6289720 AGGGACAAATGACAAGTGATA
1 AGTGACAAGTGATAAGTGATA
6289741 AATGTGATCC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (44 bp):
AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
Found at i:6294596 original size:19 final size:19
Alignment explanation
Indices: 6294574--6294638 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
6294564 ATATCCAATG
6294574 TTCCATTTCATATATCTAT
1 TTCCATTTCATATATCTAT
* *
6294593 TTCCATATAACTGAT-TCATAT
1 TTCCATTTCA-T-ATATC-TAT
**
6294614 AACCATTTCATATATCTAT
1 TTCCATTTCATATATCTAT
6294633 TTCCAT
1 TTCCAT
6294639 ATAACCATTT
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 17 0.50
20 6 0.18
21 11 0.32
ACGTcount: A:0.31, C:0.22, G:0.02, T:0.46
Consensus pattern (19 bp):
TTCCATTTCATATATCTAT
Found at i:6294623 original size:13 final size:13
Alignment explanation
Indices: 6294576--6294669 Score: 73
Period size: 13 Copynumber: 7.0 Consensus size: 13
6294566 ATCCAATGTT
*
6294576 CCATTTCATATAT
1 CCATTTCATATAA
*
6294589 CTATTTCCATATAA
1 CCATTT-CATATAA
*
6294603 CTGA-TTCATATAA
1 C-CATTTCATATAA
*
6294616 CCATTTCATATAT
1 CCATTTCATATAA
*
6294629 CTATTTCCATATAA
1 CCATTT-CATATAA
* *
6294643 CCATTTAATATAT
1 CCATTTCATATAA
*
6294656 CTACTTTCATATAA
1 CCA-TTTCATATAA
6294670 TCGATTCATA
Statistics
Matches: 63, Mismatches: 13, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
12 1 0.02
13 33 0.52
14 28 0.44
15 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.01, T:0.44
Consensus pattern (13 bp):
CCATTTCATATAA
Found at i:6294639 original size:27 final size:27
Alignment explanation
Indices: 6294607--6294669 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 27
6294597 ATATAACTGA
*
6294607 TTCATATAACCATTTCATATATCTA-T
1 TTCATATAACCATTTAATATATCTACT
6294633 TTCCATATAACCATTTAATATATCTACT
1 TT-CATATAACCATTTAATATATCTACT
6294661 TTCATATAA
1 TTCATATAA
6294670 TCGATTCATA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 2 0.06
27 29 0.85
28 3 0.09
ACGTcount: A:0.37, C:0.19, G:0.00, T:0.44
Consensus pattern (27 bp):
TTCATATAACCATTTAATATATCTACT
Found at i:6294654 original size:40 final size:40
Alignment explanation
Indices: 6294576--6294668 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 40
6294566 ATCCAATGTT
* *
6294576 CCATTTCATATATCTATTTCCATATAACTGATTCATATAA
1 CCATTTCATATATCTATTTCCATATAACTCATTAATATAA
*
6294616 CCATTTCATATATCTATTTCCATATAAC-CATTTAATATAT
1 CCATTTCATATATCTATTTCCATATAACTCA-TTAATATAA
*
6294656 CTACTTTCATATA
1 CCA-TTTCATATA
6294669 ATCGATTCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
39 1 0.02
40 37 0.79
41 9 0.19
ACGTcount: A:0.34, C:0.20, G:0.01, T:0.44
Consensus pattern (40 bp):
CCATTTCATATATCTATTTCCATATAACTCATTAATATAA
Found at i:6299819 original size:14 final size:15
Alignment explanation
Indices: 6299802--6299830 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6299792 AAATATGTTG
6299802 GTGAAATA-ATAGAA
1 GTGAAATACATAGAA
6299816 GTGAAATACATAGAA
1 GTGAAATACATAGAA
6299831 ATTTGATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.03, G:0.21, T:0.21
Consensus pattern (15 bp):
GTGAAATACATAGAA
Found at i:6306477 original size:11 final size:11
Alignment explanation
Indices: 6306420--6306534 Score: 52
Period size: 10 Copynumber: 10.7 Consensus size: 11
6306410 ATTATCAAAC
6306420 TATAAAAATAT
1 TATAAAAATAT
*
6306431 TA-AAATATA-
1 TATAAAAATAT
6306440 TATAAAAAT-T
1 TATAAAAATAT
* *
6306450 GATATAAA-AT
1 TATAAAAATAT
6306460 TAT--AAATAT
1 TATAAAAATAT
6306469 TATAAAAATA-
1 TATAAAAATAT
6306479 TA-AAAGTCTAATAAAT
1 TATAAA----AAT--AT
*
6306495 TATAAAAAAAT
1 TATAAAAATAT
6306506 TATAAAACATAT
1 TATAAAA-ATAT
*
6306518 T-T-AAAATTT
1 TATAAAAATAT
6306527 TATAAAAA
1 TATAAAAA
6306535 CGTATGAAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 34
0.65 0.07 0.28
Matches are distributed among these distances:
8 3 0.04
9 14 0.18
10 26 0.33
11 21 0.27
12 4 0.05
13 5 0.06
15 1 0.01
16 2 0.03
17 3 0.04
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (11 bp):
TATAAAAATAT
Found at i:6306562 original size:9 final size:9
Alignment explanation
Indices: 6306406--6306592 Score: 96
Period size: 9 Copynumber: 19.7 Consensus size: 9
6306396 AAAAATCAGA
6306406 AAAAATTAT
1 AAAAATTAT
* *
6306415 -CAAACTAT
1 AAAAATTAT
6306423 AAAAA-TATT
1 AAAAATTA-T
6306432 AAAATATATAT
1 AAAA-AT-TAT
6306443 AAAAATTGAT
1 AAAAATT-AT
6306453 ATAAAATTAT
1 A-AAAATTAT
*
6306463 AAATATTAT
1 AAAAATTAT
6306472 AAAAA-TAT
1 AAAAATTAT
*
6306480 AAAAGTCTA-
1 AAAAAT-TAT
*
6306489 ATAAATTAT
1 AAAAATTAT
6306498 AAAAAAATTAT
1 --AAAAATTAT
*
6306509 AAAACATATTT
1 AAAA-AT-TAT
*
6306520 AAAATTTTAT
1 AAAA-ATTAT
*
6306530 AAAAACGTAT
1 AAAAA-TTAT
*
6306540 GAAAATTCTAT
1 -AAAAAT-TAT
6306551 AAAAATTAT
1 AAAAATTAT
*
6306560 AAAAAGTAT
1 AAAAATTAT
*
6306569 -TAAATTAT
1 AAAAATTAT
*
6306577 ATAAACTTAT
1 A-AAAATTAT
6306587 AAAAAT
1 AAAAAT
6306593 AAAAAAAAAT
Statistics
Matches: 135, Mismatches: 24, Indels: 38
0.69 0.12 0.19
Matches are distributed among these distances:
8 23 0.17
9 43 0.32
10 34 0.25
11 33 0.24
12 2 0.01
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:6306564 original size:10 final size:10
Alignment explanation
Indices: 6306432--6306610 Score: 56
Period size: 10 Copynumber: 18.3 Consensus size: 10
6306422 TAAAAATATT
6306432 AAAATATATATA
1 AAAAT-TATA-A
*
6306444 AAAATTGATAT
1 AAAATT-ATAA
6306455 AAAATTAT-A
1 AAAATTATAA
*
6306464 AATATTAT-A
1 AAAATTATAA
6306473 AAAA-TAT--
1 AAAATTATAA
* *
6306480 AAAAGTCTAA
1 AAAATTATAA
*
6306490 TAAATTATAAA
1 AAAATTAT-AA
6306501 AAAATTATAA
1 AAAATTATAA
6306511 AACATATT-TAA
1 AA-A-ATTATAA
**
6306522 AATTTTATAA
1 AAAATTATAA
** *
6306532 AAACGTAT-G
1 AAAATTATAA
*
6306541 AAAATTCTATA
1 AAAATTATA-A
6306552 AAAATTAT-A
1 AAAATTATAA
*
6306561 AAAAGTAT--
1 AAAATTATAA
* *
6306569 TAAATTATAT
1 AAAATTATAA
*
6306579 AAACTTAT-A
1 AAAATTATAA
* *
6306588 AAAATAAAAA
1 AAAATTATAA
*
6306598 AAAATCATAA
1 AAAATTATAA
6306608 AAA
1 AAA
6306611 CTTTAATTGA
Statistics
Matches: 123, Mismatches: 31, Indels: 28
0.68 0.17 0.15
Matches are distributed among these distances:
7 4 0.03
8 11 0.09
9 31 0.25
10 37 0.30
11 29 0.24
12 11 0.09
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (10 bp):
AAAATTATAA
Found at i:6306564 original size:20 final size:19
Alignment explanation
Indices: 6306385--6306592 Score: 99
Period size: 20 Copynumber: 10.9 Consensus size: 19
6306375 TATTTTTCTC
* *
6306385 ATAAAAATAT-TAAAAATC
1 ATAAAAATTTATAAAAATT
* * * *
6306403 AGAAAAAATTAT-CAAACT
1 ATAAAAATTTATAAAAATT
*
6306421 ATAAAAATATTA-AAATATAT
1 ATAAAAAT-TTATAAAAAT-T
*
6306441 ATAAAAATTGATATAAAATT
1 ATAAAAATTTATA-AAAATT
*
6306461 ATAAATA-TTATAAAAA-T
1 ATAAAAATTTATAAAAATT
* * *
6306478 ATAAAAGTCTA-ATAAATT
1 ATAAAAATTTATAAAAATT
*
6306496 ATAAAAAAATTATAAAACATAT
1 AT-AAAAATTTATAAAA-AT-T
* * *
6306518 TTAAAATTTTATAAAAACGT
1 ATAAAAATTTATAAAAA-TT
*
6306538 ATGAAAATTCTATAAAAATT
1 ATAAAAATT-TATAAAAATT
* *
6306558 ATAAAAA-GTAT-TAAATT
1 ATAAAAATTTATAAAAATT
* *
6306575 ATATAAACTTATAAAAAT
1 ATAAAAATTTATAAAAAT
6306593 AAAAAAAAAT
Statistics
Matches: 137, Mismatches: 37, Indels: 31
0.67 0.18 0.15
Matches are distributed among these distances:
17 21 0.15
18 31 0.23
19 22 0.16
20 35 0.26
21 26 0.19
22 2 0.01
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.33
Consensus pattern (19 bp):
ATAAAAATTTATAAAAATT
Found at i:6311829 original size:98 final size:98
Alignment explanation
Indices: 6311658--6311837 Score: 315
Period size: 98 Copynumber: 1.8 Consensus size: 98
6311648 GTGCAATAAA
* * *
6311658 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATGCGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTACGGCACAATT
*
6311723 CCTCTAAAATCTCAAACTCAGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
6311756 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTACGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTACGGCACAATT
*
6311821 CCTTTAAAATCCCAAAC
66 CCTCTAAAATCCCAAAC
6311838 AATATTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 77 1.00
ACGTcount: A:0.39, C:0.26, G:0.09, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTACGGCACAATT
CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
Found at i:6317822 original size:29 final size:31
Alignment explanation
Indices: 6317771--6317832 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
6317761 AGTCTATATC
*
6317771 TTTATAATTTTTGAAGGATTAAATTA-AATT
1 TTTATAATTTTTGAAGGATTAAAGTATAATT
*
6317801 TTTATAA-TTTT-AAGAGTTTAAAGTATAATT
1 TTTATAATTTTTGAAG-GATTAAAGTATAATT
6317831 TT
1 TT
6317833 ATCTTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 3 0.11
29 12 0.43
30 13 0.46
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (31 bp):
TTTATAATTTTTGAAGGATTAAAGTATAATT
Found at i:6318473 original size:19 final size:20
Alignment explanation
Indices: 6318428--6318481 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
6318418 ATTTTTAATT
6318428 TAATTTTATAATTTTTATGC
1 TAATTTTATAATTTTTATGC
**
6318448 TTTTTTTATAATTTTT-TG-
1 TAATTTTATAATTTTTATGC
*
6318466 TAAATTTTATTATTTT
1 T-AATTTTATAATTTT
6318482 GCAAATTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 1 0.04
19 13 0.46
20 14 0.50
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.69
Consensus pattern (20 bp):
TAATTTTATAATTTTTATGC
Found at i:6319196 original size:29 final size:29
Alignment explanation
Indices: 6319131--6319197 Score: 71
Period size: 30 Copynumber: 2.3 Consensus size: 29
6319121 AATTTTTAAA
* * *
6319131 TTTAAAAAAGTAAAATTACACTTTGACCT
1 TTTAAAAAAATAAAATTACAATTTAACCT
** *
6319160 TTTAAAAAAAATAAAATTTTAATTTAATCT
1 TTT-AAAAAAATAAAATTACAATTTAACCT
6319190 TTTAAAAA
1 TTTAAAAA
6319198 TTATAAAGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.39
Consensus pattern (29 bp):
TTTAAAAAAATAAAATTACAATTTAACCT
Found at i:6322267 original size:21 final size:21
Alignment explanation
Indices: 6322241--6322281 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6322231 AATAATGAAA
*
6322241 ATAAAAAAATTAAATTAATAC
1 ATAAAAAAATTAAACTAATAC
**
6322262 ATAAAACTATTAAACTAATA
1 ATAAAAAAATTAAACTAATA
6322282 TACAAATTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (21 bp):
ATAAAAAAATTAAACTAATAC
Found at i:6329219 original size:16 final size:16
Alignment explanation
Indices: 6329198--6329249 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
6329188 TTTGGTTCGC
*
6329198 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
6329214 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
6329230 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
6329246 TGTA
1 TGTA
6329250 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:6329463 original size:16 final size:16
Alignment explanation
Indices: 6329426--6329467 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6329416 TTAATCATAT
6329426 TTAAACATA-ATTATAA
1 TTAAA-ATATATTATAA
*
6329442 TT-AAATATATTTTAA
1 TTAAAATATATTATAA
6329457 TTAAAATATAT
1 TTAAAATATAT
6329468 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:6329473 original size:18 final size:17
Alignment explanation
Indices: 6329432--6329475 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
6329422 ATATTTAAAC
6329432 ATAATTATAATTAAATAT
1 ATAATT-TAATTAAATAT
6329450 AT--TTTAATTAAAATAT
1 ATAATTTAATT-AAATAT
6329466 ATAATTTAAT
1 ATAATTTAAT
6329476 AAAGTTCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 5 0.22
16 10 0.43
18 8 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATAATTTAATTAAATAT
Found at i:6329617 original size:156 final size:156
Alignment explanation
Indices: 6329333--6329803 Score: 789
Period size: 156 Copynumber: 3.0 Consensus size: 156
6329323 TAGAATACCC
*
6329333 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
6329398 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
*
6329463 TATATAATTTAATAAAGTTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
6329489 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
6329554 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
6329619 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
* * *
6329645 TTAGAAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * * * ****
6329710 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATACATTATAATTTTGG
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
6329775 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTT-ATAA
6329802 TT
1 TT
6329804 CATATTCTTA
Statistics
Matches: 297, Mismatches: 17, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
156 291 0.98
157 6 0.02
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:6329623 original size:18 final size:17
Alignment explanation
Indices: 6329602--6329636 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6329592 TTATTATTAA
*
6329602 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6329620 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6329637 TCTTATAATT
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:6334047 original size:16 final size:16
Alignment explanation
Indices: 6334026--6334065 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
6334016 AGAGTTAGAG
6334026 GTTTTCTATAACCTAA
1 GTTTTCTATAACCTAA
6334042 GTTTTCTATAACCTAA
1 GTTTTCTATAACCTAA
6334058 GTTTTCTA
1 GTTTTCTA
6334066 GAGTTCCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.47
Consensus pattern (16 bp):
GTTTTCTATAACCTAA
Found at i:6336479 original size:18 final size:18
Alignment explanation
Indices: 6336456--6336492 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6336446 TGGATTTCAA
6336456 GTTGGGAGGGCAAATTAG
1 GTTGGGAGGGCAAATTAG
6336474 GTTGGGAGGGCAAATTAG
1 GTTGGGAGGGCAAATTAG
6336492 G
1 G
6336493 GTGTGAGATG
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:0.27, C:0.05, G:0.46, T:0.22
Consensus pattern (18 bp):
GTTGGGAGGGCAAATTAG
Found at i:6339847 original size:11 final size:11
Alignment explanation
Indices: 6339833--6339905 Score: 57
Period size: 11 Copynumber: 6.9 Consensus size: 11
6339823 ATAAAAAATT
6339833 TATTTTAAAAA
1 TATTTTAAAAA
6339844 TATTTT--AAA
1 TATTTTAAAAA
*
6339853 -A-TTAAAAAA
1 TATTTTAAAAA
6339862 GTATTTTTAAAAA
1 -TA-TTTTAAAAA
*
6339875 -AATTTAAAAA
1 TATTTTAAAAA
*
6339885 AATTTTAAAAA
1 TATTTTAAAAA
*
6339896 AATTTTAAAA
1 TATTTTAAAA
6339906 TTAACAAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
7 2 0.04
8 1 0.02
9 6 0.12
10 8 0.16
11 27 0.53
13 7 0.14
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:6339859 original size:31 final size:31
Alignment explanation
Indices: 6339819--6339885 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
6339809 AAATTAAAAC
* * *
6339819 AAAAATAAAAAA-TTTATTTTAAAAATATTTT
1 AAAAATAAAAAAGTAT-TTTTAAAAAAATTTA
*
6339850 AAAATTAAAAAAGTATTTTTAAAAAAATTTA
1 AAAAATAAAAAAGTATTTTTAAAAAAATTTA
6339881 AAAAA
1 AAAAA
6339886 ATTTTAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (31 bp):
AAAAATAAAAAAGTATTTTTAAAAAAATTTA
Found at i:6339882 original size:10 final size:10
Alignment explanation
Indices: 6339867--6339924 Score: 68
Period size: 10 Copynumber: 6.0 Consensus size: 10
6339857 AAAAAGTATT
6339867 TTTAAAAAAA
1 TTTAAAAAAA
6339877 TTTAAAAAAA
1 TTTAAAAAAA
6339887 TTTTAAAAAAA
1 -TTTAAAAAAA
*
6339898 TTT--TAAAA
1 TTTAAAAAAA
*
6339906 -TTAACAAAA
1 TTTAAAAAAA
6339915 TTTAAAAAAA
1 TTTAAAAAAA
6339925 GTCTTTTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
7 2 0.05
8 4 0.10
9 4 0.10
10 21 0.51
11 10 0.24
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (10 bp):
TTTAAAAAAA
Found at i:6339920 original size:16 final size:17
Alignment explanation
Indices: 6339837--6339921 Score: 54
Period size: 17 Copynumber: 5.0 Consensus size: 17
6339827 AAAATTTATT
*
6339837 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTTAAAA
*
6339854 TTAAAAAAGTATTT----
1 TTAAAAAAAT-TTTAAAA
*
6339868 TTAAAAAAATTTAAAAAAA
1 TTAAAAAAATTT--TAAAA
6339887 TTTTAAAAAAATTTTAAAA
1 --TTAAAAAAATTTTAAAA
*
6339906 TTAACAAAA-TTTAAAA
1 TTAAAAAAATTTTAAAA
6339922 AAAGTCTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 19
0.68 0.08 0.24
Matches are distributed among these distances:
13 2 0.04
14 9 0.17
16 7 0.13
17 16 0.30
18 3 0.06
19 4 0.08
21 12 0.23
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (17 bp):
TTAAAAAAATTTTAAAA
Found at i:6339922 original size:17 final size:17
Alignment explanation
Indices: 6339868--6339922 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 17
6339858 AAAAGTATTT
6339868 TTAAAAAAATTTAAAAAAA
1 TTAAAAAAATTT--AAAAA
*
6339887 TTTTAAAAAAATTTTAAAA
1 --TTAAAAAAATTTAAAAA
*
6339906 TTAACAAAATTTAAAAA
1 TTAAAAAAATTTAAAAA
6339923 AAGTCTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 15 0.48
19 4 0.13
21 12 0.39
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAAAAAATTTAAAAA
Found at i:6339937 original size:11 final size:11
Alignment explanation
Indices: 6339921--6339946 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6339911 AAAATTTAAA
6339921 AAAAGTCTTTT
1 AAAAGTCTTTT
6339932 AAAAGTCTTTT
1 AAAAGTCTTTT
6339943 AAAA
1 AAAA
6339947 ATAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTCTTTT
Found at i:6342131 original size:13 final size:13
Alignment explanation
Indices: 6342113--6342138 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6342103 AGGATGAATC
6342113 AAATGAAAATAAA
1 AAATGAAAATAAA
6342126 AAATGAAAATAAA
1 AAATGAAAATAAA
6342139 TGAATAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
AAATGAAAATAAA
Found at i:6344578 original size:26 final size:25
Alignment explanation
Indices: 6344529--6344595 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
6344519 TTTGATAATG
* *
6344529 AATACCTTTGTGGTAATCTGTAAAGA
1 AATACCTTTGTGGTAAACTCTAAA-A
*
6344555 GATACCTTTGTGGTATAAC-CTAAAA
1 AATACCTTTGTGGTA-AACTCTAAAA
*
6344580 AAGTGCCTTTGTGGTA
1 AA-TACCTTTGTGGTA
6344596 GTTTTCGTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
25 2 0.06
26 30 0.88
27 2 0.06
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.34
Consensus pattern (25 bp):
AATACCTTTGTGGTAAACTCTAAAA
Found at i:6347450 original size:23 final size:25
Alignment explanation
Indices: 6347408--6347457 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
6347398 AACACTGATG
* *
6347408 TGAGTTAATCTTTTACTTGTTTAAT
1 TGAGTTAATCTTTGACTTGTTAAAT
6347433 TGAGTTAAT-TTTGA-TTGTTAAAT
1 TGAGTTAATCTTTGACTTGTTAAAT
6347456 TG
1 TG
6347458 TCTTCCTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 10 0.43
24 4 0.17
25 9 0.39
ACGTcount: A:0.26, C:0.04, G:0.16, T:0.54
Consensus pattern (25 bp):
TGAGTTAATCTTTGACTTGTTAAAT
Found at i:6348862 original size:14 final size:14
Alignment explanation
Indices: 6348798--6348863 Score: 51
Period size: 15 Copynumber: 4.5 Consensus size: 14
6348788 AATATTATAT
*
6348798 TTTTAAAATTTTCA
1 TTTTAAAATTTTTA
*
6348812 TTTATAAAATTTATA
1 TTT-TAAAATTTTTA
** * *
6348827 TGATAACATTTTATTT
1 TTTTAA-AATTT-TTA
6348843 TTTTAAAATTTTTA
1 TTTTAAAATTTTTA
6348857 TTTTAAA
1 TTTTAAA
6348864 TTTAATTATA
Statistics
Matches: 38, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
14 15 0.39
15 18 0.47
16 5 0.13
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (14 bp):
TTTTAAAATTTTTA
Found at i:6351491 original size:3 final size:3
Alignment explanation
Indices: 6351483--6351511 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6351473 AAGGGGCAAG
6351483 CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
6351512 GTTAATAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:6354728 original size:31 final size:29
Alignment explanation
Indices: 6354660--6354730 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
6354650 CTCAGGTTAC
*
6354660 ATTTTAGTCACTTATGTTTGAAATGTTAT
1 ATTTTAGTCACTTATGTTTGAAATGTAAT
* ***
6354689 GTTTTAGTCACTTATGTTATCGCGTTGTAAT
1 ATTTTAGTCACTTATGTT-T-GAAATGTAAT
6354720 ATTTTAGTCAC
1 ATTTTAGTCAC
6354731 GGAGTCGTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 17 0.50
30 1 0.03
31 16 0.47
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.49
Consensus pattern (29 bp):
ATTTTAGTCACTTATGTTTGAAATGTAAT
Found at i:6356057 original size:2 final size:2
Alignment explanation
Indices: 6356050--6356084 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6356040 AAACTTTCCA
6356050 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6356085 ATATATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:6361841 original size:77 final size:77
Alignment explanation
Indices: 6361722--6361873 Score: 286
Period size: 77 Copynumber: 2.0 Consensus size: 77
6361712 TCTTAAAGTT
6361722 TTATGTCAATAAAATTTTATACATTTCAAGTTCAAAGATTAAAATATATCTAATTGTCAAGTTCA
1 TTATGTCAATAAAATTTTATACATTTCAAGTTCAAAGATTAAAATATATCTAATTGTCAAGTTCA
*
6361787 ATTATTAAAGAG
66 ACTATTAAAGAG
*
6361799 TTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGTCAAGTTCA
1 TTATGTCAATAAAATTTTATACATTTCAAGTTCAAAGATTAAAATATATCTAATTGTCAAGTTCA
6361864 ACTATTAAAG
66 ACTATTAAAG
6361874 TGGACAAAAA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (77 bp):
TTATGTCAATAAAATTTTATACATTTCAAGTTCAAAGATTAAAATATATCTAATTGTCAAGTTCA
ACTATTAAAGAG
Found at i:6362242 original size:18 final size:20
Alignment explanation
Indices: 6362201--6362243 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
6362191 TATATTAAGA
*
6362201 ATTTTATTAAATTATATATT
1 ATTTTATTAAATAATATATT
6362221 -TTTTATT-AATAATA-ATT
1 ATTTTATTAAATAATATATT
6362238 ATTTTA
1 ATTTTA
6362244 AATTATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.14
18 11 0.52
19 7 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTTATTAAATAATATATT
Found at i:6362257 original size:11 final size:11
Alignment explanation
Indices: 6362234--6362266 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
6362224 TATTAATAAT
6362234 AATTATT-TTA
1 AATTATTATTA
6362244 AATTATTATTA
1 AATTATTATTA
6362255 AATTATTTATTA
1 AATTA-TTATTA
6362267 TTTATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 8 0.38
12 6 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
AATTATTATTA
Found at i:6362458 original size:45 final size:44
Alignment explanation
Indices: 6362364--6362517 Score: 212
Period size: 45 Copynumber: 3.6 Consensus size: 44
6362354 TTTTTCCTTC
*
6362364 TGCTATTACGCCTCTATTCCATT-C---AACCAAACACA-AGAA-
1 TGCTATTACGCCTCTATTCCATTACATTAACCAAACA-ATTGAAT
*
6362403 TACTATTACGCCTCTATTCCATTACATTTAACCAAACAATTGAAT
1 TGCTATTACGCCTCTATTCCATTACA-TTAACCAAACAATTGAAT
6362448 TGCTATTACGCCTCTATTCCATTACATTCAACCAAACAATTGAAT
1 TGCTATTACGCCTCTATTCCATTACATT-AACCAAACAATTGAAT
*
6362493 TGCTATTACGTCTCTATTCCATTAC
1 TGCTATTACGCCTCTATTCCATTAC
6362518 GCCTCTATTC
Statistics
Matches: 103, Mismatches: 4, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
39 22 0.21
40 1 0.01
43 1 0.01
44 14 0.14
45 65 0.63
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.34
Consensus pattern (44 bp):
TGCTATTACGCCTCTATTCCATTACATTAACCAAACAATTGAAT
Found at i:6362518 original size:16 final size:16
Alignment explanation
Indices: 6362497--6362533 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
6362487 TTGAATTGCT
*
6362497 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
6362513 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
6362529 ATTAC
1 ATTAC
6362534 AGCGAACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.32, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:6368342 original size:30 final size:30
Alignment explanation
Indices: 6368303--6368372 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
6368293 TTTTTTATTC
6368303 AAATAATATTAAAAA-ATAATTAATTACGAAA
1 AAAT-ATATTAAAAACAT-ATTAATTACGAAA
*
6368334 AAATATATTAAAAACATATTAATTATGAAA
1 AAATATATTAAAAACATATTAATTACGAAA
*
6368364 ATATATATT
1 AAATATATT
6368373 TATTATAGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 30 0.83
31 6 0.17
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (30 bp):
AAATATATTAAAAACATATTAATTACGAAA
Found at i:6375470 original size:24 final size:25
Alignment explanation
Indices: 6375423--6375471 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
6375413 TAAAATAATG
* * *
6375423 TAAACTAATCAGAGTTTGATTGAAA
1 TAAACTAAACAGAGTTTAACTGAAA
6375448 TAAA-TAAACAGAGTTTAACTGAAA
1 TAAACTAAACAGAGTTTAACTGAAA
6375472 AATTATTTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (25 bp):
TAAACTAAACAGAGTTTAACTGAAA
Found at i:6376339 original size:12 final size:12
Alignment explanation
Indices: 6376322--6376348 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6376312 AAAAACCCCA
6376322 CATCACCATCAT
1 CATCACCATCAT
6376334 CATCACCATCAT
1 CATCACCATCAT
6376346 CAT
1 CAT
6376349 GAAGGCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.41, G:0.00, T:0.26
Consensus pattern (12 bp):
CATCACCATCAT
Found at i:6380719 original size:7 final size:7
Alignment explanation
Indices: 6380667--6380731 Score: 51
Period size: 7 Copynumber: 8.4 Consensus size: 7
6380657 TAAAGTTAAA
6380667 ATATATAT
1 ATATAT-T
6380675 ATATATT
1 ATATATT
6380682 ATAATATT
1 AT-ATATT
*
6380690 ATATCTT
1 ATATATT
6380697 A-ATTATT
1 ATA-TATT
6380704 AAGTATATAT
1 -A-TATAT-T
6380714 ATTATATT
1 A-TATATT
6380722 ATATATT
1 ATATATT
6380729 ATA
1 ATA
6380732 ATAAGTAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
6 1 0.02
7 20 0.42
8 16 0.33
9 9 0.19
10 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (7 bp):
ATATATT
Found at i:6380744 original size:30 final size:32
Alignment explanation
Indices: 6380685--6380744 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
6380675 ATATATTATA
* * *
6380685 ATATTATATCTTAATTATTAAGTATATATATT
1 ATATTATATATTAATTAATAAGTAAATATATT
6380717 ATATTATATATT-A-TAATAAGTAAATATA
1 ATATTATATATTAATTAATAAGTAAATATA
6380745 ATAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.52
31 1 0.04
32 11 0.44
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (32 bp):
ATATTATATATTAATTAATAAGTAAATATATT
Found at i:6380783 original size:16 final size:15
Alignment explanation
Indices: 6380767--6380796 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
6380757 AACAAAAAGA
6380767 AATAGAAAGAAACAG
1 AATAGAAAGAAACAG
6380782 AATAGAAACGAAACA
1 AATAGAAA-GAAACA
6380797 AGGAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.67, C:0.10, G:0.17, T:0.07
Consensus pattern (15 bp):
AATAGAAAGAAACAG
Found at i:6380787 original size:15 final size:16
Alignment explanation
Indices: 6380754--6380796 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
6380744 AATAAATAAA
*
6380754 AGAAAC-AAAAAGAAAT
1 AGAAACGAAACAG-AAT
6380770 AGAAA-GAAACAGAAT
1 AGAAACGAAACAGAAT
6380785 AGAAACGAAACA
1 AGAAACGAAACA
6380797 AGGAGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.70, C:0.09, G:0.16, T:0.05
Consensus pattern (16 bp):
AGAAACGAAACAGAAT
Found at i:6380814 original size:26 final size:25
Alignment explanation
Indices: 6380771--6380837 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 25
6380761 AAAAGAAATA
*
6380771 GAAAGAAACAGAATAGAAACGAAACAAGG
1 GAAAGAAA-A-AA-AGAAAAGAAA-AAGG
6380800 AGAAA-AAAAAAAGAAAAGAAAAAGG
1 -GAAAGAAAAAAAGAAAAGAAAAAGG
*
6380825 GAAAGAAAGAAAG
1 GAAAGAAAAAAAG
6380838 GAGAAATTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
24 4 0.12
25 11 0.32
26 9 0.26
27 2 0.06
28 1 0.03
29 3 0.09
30 4 0.12
ACGTcount: A:0.70, C:0.04, G:0.24, T:0.01
Consensus pattern (25 bp):
GAAAGAAAAAAAGAAAAGAAAAAGG
Found at i:6384462 original size:58 final size:58
Alignment explanation
Indices: 6384395--6384512 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
6384385 TCATAATAAC
6384395 ATAACTACCCAAAATGGATTGTCGTATCTTTAGCAATAAACATAATTATTCAATAGAT
1 ATAACTACCCAAAATGGATTGTCGTATCTTTAGCAATAAACATAATTATTCAATAGAT
6384453 ATAACTACCCAAAATGGATTGTCGTATCTTTAGCAATAAACATAATTATTCAATAGAT
1 ATAACTACCCAAAATGGATTGTCGTATCTTTAGCAATAAACATAATTATTCAATAGAT
6384511 AT
1 AT
6384513 CTACTTGAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (58 bp):
ATAACTACCCAAAATGGATTGTCGTATCTTTAGCAATAAACATAATTATTCAATAGAT
Found at i:6387150 original size:43 final size:43
Alignment explanation
Indices: 6387097--6387189 Score: 125
Period size: 43 Copynumber: 2.2 Consensus size: 43
6387087 TGCAAAATAT
* **
6387097 GCCGGTATAGAACATGACCTTTAGCGGTGCTTTT-TCCACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGACGCTTTTAT-CACAAAC
* *
6387140 GCCGCTATAGAACTTGACTTTTAGCGACGCTTTTATCACAAAC
1 GCCGCTATAGAACATGACCTTTAGCGACGCTTTTATCACAAAC
6387183 GCCGCTA
1 GCCGCTA
6387190 AATAACATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 43 0.98
44 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (43 bp):
GCCGCTATAGAACATGACCTTTAGCGACGCTTTTATCACAAAC
Found at i:6387203 original size:43 final size:43
Alignment explanation
Indices: 6387105--6387203 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 43
6387095 ATGCCGGTAT
* ** *
6387105 AGAACATGACCTTTAGCGGTGCTTTTTCCACAAACGCCGCTAT
1 AGAACATGACTTTTAGCGACGCTTTTTCCACAAACGCCGCTAA
*
6387148 AGAACTTGACTTTTAGCGACGCTTTTAT-CACAAACGCCGCTAA
1 AGAACATGACTTTTAGCGACGCTTTT-TCCACAAACGCCGCTAA
* *
6387191 ATAACATAACTTT
1 AGAACATGACTTT
6387204 CGAATTTTAG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (43 bp):
AGAACATGACTTTTAGCGACGCTTTTTCCACAAACGCCGCTAA
Found at i:6396048 original size:6 final size:6
Alignment explanation
Indices: 6396039--6396089 Score: 66
Period size: 6 Copynumber: 8.2 Consensus size: 6
6396029 TTTAATATTC
* *
6396039 ATATAA ATATAA TGATATAA ATATAA ATATAA ATATTA ATATTA ATATAA
1 ATATAA ATATAA --ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
6396089 A
1 A
6396090 ATTTAAGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 35 0.85
8 6 0.15
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (6 bp):
ATATAA
Found at i:6396095 original size:18 final size:18
Alignment explanation
Indices: 6396032--6396089 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
6396022 ATATTTATTT
*
6396032 AATATTCATATAAATATA
1 AATATTAATATAAATATA
*
6396050 ATGATATAAATATAAATATA
1 A--ATATTAATATAAATATA
*
6396070 AATATTAATATTAATATA
1 AATATTAATATAAATATA
6396088 AA
1 AA
6396090 ATTTAAGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 18 0.53
20 16 0.47
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
AATATTAATATAAATATA
Found at i:6400216 original size:16 final size:16
Alignment explanation
Indices: 6400183--6400216 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6400173 AAAACAAATG
*
6400183 AAATAAAAGAATAGAA
1 AAATAAAAGAACAGAA
*
6400199 AAATAAAAGAACATAA
1 AAATAAAAGAACAGAA
6400215 AA
1 AA
6400217 GAAACAGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (16 bp):
AAATAAAAGAACAGAA
Found at i:6401983 original size:280 final size:279
Alignment explanation
Indices: 6401474--6402032 Score: 967
Period size: 280 Copynumber: 2.0 Consensus size: 279
6401464 AAAATCTTAG
*
6401474 ATTTTTATGCTTATGCAGCCTCAAATTTGGCAATTGGCATAATTGCCCATTTGACCCCTTTATTT
1 ATTTTTATACTTATGCAGCCTCAAATTTGGCAATTGGCATAATTGCCCATTTGACCCCTTTATTT
*
6401539 TCCTTTAATCTATAATTAAACTTTCACTTCTATTATAATTTAATCCTTTTTACTAATTACTCTTA
66 TCCTTTAATCTATAATGAAACTTTCACTTCTATTATAATTTAATCCTTTTTACTAATTACTCTTA
*
6401604 ATTAGACTAAATTCACCTAATTAATACCTATTTAAGCACCAAACTAAATTCATAATTACTTCTAA
131 ATTAGACTAAATTCACCTAATTAATACCTATTTAAGCACCAAACTAAATTCATAATTACGTCTAA
* *
6401669 TAATTATTTTCGAACTCAATTTATTAAGACGGAGGCCCGATATTATAC-TTTTCTGATGCCCGTG
196 TAATTATTTTCGAACTCAATTTACTAAAACGGAGGCCCGATATTATACTTTTTC-GATGCCCGTG
*
6401733 AATTTTGGGTCATTACATTT
260 AATTTTGAGTCATTACATTT
*
6401753 ATTTTTATACTTATGCCGCCTCAAATTTGGCAATTGGCATAATTGCCCATTTGACCCCTATTATT
1 ATTTTTATACTTATGCAGCCTCAAATTTGGCAATTGGCATAATTGCCCATTTGACCCCT-TTATT
* * *
6401818 TTCCTTTAATCTATAGTGAAACTTTCAGTTCTATTATAATTTAATCTTTTTTACTAATTACTCTT
65 TTCCTTTAATCTATAATGAAACTTTCACTTCTATTATAATTTAATCCTTTTTACTAATTACTCTT
*
6401883 AATTAGACTAAATTCACCTAATTAATACCTATTTAAGCACCAAACTAAATTCGTAATTACGTCTA
130 AATTAGACTAAATTCACCTAATTAATACCTATTTAAGCACCAAACTAAATTCATAATTACGTCTA
* *
6401948 ATAATTATTTTTGAACTTAATTTACTAAAACGGAGGCCCGATATTATACTTTTTCGATGCCCGTG
195 ATAATTATTTTCGAACTCAATTTACTAAAACGGAGGCCCGATATTATACTTTTTCGATGCCCGTG
*
6402013 AATTTTGAGTGATTACATTT
260 AATTTTGAGTCATTACATTT
6402033 TAATTTCCAA
Statistics
Matches: 264, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
279 57 0.22
280 202 0.77
281 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (279 bp):
ATTTTTATACTTATGCAGCCTCAAATTTGGCAATTGGCATAATTGCCCATTTGACCCCTTTATTT
TCCTTTAATCTATAATGAAACTTTCACTTCTATTATAATTTAATCCTTTTTACTAATTACTCTTA
ATTAGACTAAATTCACCTAATTAATACCTATTTAAGCACCAAACTAAATTCATAATTACGTCTAA
TAATTATTTTCGAACTCAATTTACTAAAACGGAGGCCCGATATTATACTTTTTCGATGCCCGTGA
ATTTTGAGTCATTACATTT
Found at i:6406532 original size:774 final size:774
Alignment explanation
Indices: 6405360--6406909 Score: 3082
Period size: 774 Copynumber: 2.0 Consensus size: 774
6405350 CGATGCCAAC
*
6405360 AATCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTATTTTAAATAGGGTCTTACACA
1 AATCCAGACGTGGTCTTAAATGTAATCAAATATCGATGCCACTATTTTAAATAGGGTCTTACACA
6405425 AAATCATATACAATGCAAATGTATCCTAATTATTCCTATGGTTAGCATGGGGCTTTCAGACGTCG
66 AAATCATATACAATGCAAATGTATCCTAATTATTCCTATGGTTAGCATGGGGCTTTCAGACGTCG
6405490 TAATTCGATCGAATCGAGCTCGTAATTAATTCTCCCATGTTTATATCAAATTTGGCATTTACCCA
131 TAATTCGATCGAATCGAGCTCGTAATTAATTCTCCCATGTTTATATCAAATTTGGCATTTACCCA
6405555 AGTATAATTAATAATGCAATTCAGTACTTACAAATCATATGCATTCGAAATTAACGACATTTATT
196 AGTATAATTAATAATGCAATTCAGTACTTACAAATCATATGCATTCGAAATTAACGACATTTATT
6405620 TACTTATAAACTTACCTCGGATGAAGACGAATTGACTGGGACGACCATTCGACAACTTTTGATTT
261 TACTTATAAACTTACCTCGGATGAAGACGAATTGACTGGGACGACCATTCGACAACTTTTGATTT
6405685 CCTCCGATCCAAATTCGATTTATTTTCTTGTTCTAATTTAATACAAATTTAACTTATTTAATAAC
326 CCTCCGATCCAAATTCGATTTATTTTCTTGTTCTAATTTAATACAAATTTAACTTATTTAATAAC
6405750 ATATTCACTCAAATTTATTCCAAAAAACATAAATGAGAAAATTGCATTTTAGCCCTTAACATTTC
391 ATATTCACTCAAATTTATTCCAAAAAACATAAATGAGAAAATTGCATTTTAGCCCTTAACATTTC
6405815 ATATTTTTAATAATTTAGTCCATATTTCACAAAATACAAAATACACATAATTTAAAAAATATCTA
456 ATATTTTTAATAATTTAGTCCATATTTCACAAAATACAAAATACACATAATTTAAAAAATATCTA
6405880 GCTTGGCCGAATATTCCTATAGCTCATATAAGTCCACACATTTCATTCATTTCACATTTTAGCCC
521 GCTTGGCCGAATATTCCTATAGCTCATATAAGTCCACACATTTCATTCATTTCACATTTTAGCCC
6405945 CTCAATTTTATTATTTTCACAAATAAATCCTTAATTTGGATTTTTATTAAAATTACTTAACAAAA
586 CTCAATTTTATTATTTTCACAAATAAATCCTTAATTTGGATTTTTATTAAAATTACTTAACAAAA
6406010 TTTAATAATCTATCAACAAATATTTATTTTTCATCATCAACAACAATTTCATCACATTATCAACA
651 TTTAATAATCTATCAACAAATATTTATTTTTCATCATCAACAACAATTTCATCACATTATCAACA
6406075 ATGGAACTTCTCAAAATCATAATCAATTCCAAAATTAACAAATGGGCTAGGTAATATAT
716 ATGGAACTTCTCAAAATCATAATCAATTCCAAAATTAACAAATGGGCTAGGTAATATAT
6406134 AATCCAGACGTGGTCTTAAATGTAATCAAATATCGATGCCACTATTTTAAATAGGGTCTTACACA
1 AATCCAGACGTGGTCTTAAATGTAATCAAATATCGATGCCACTATTTTAAATAGGGTCTTACACA
6406199 AAATCATATACAATGCAAATGTATCCTAATTATTCCTATGGTTAGCATGGGGCTTTCAGACGTCG
66 AAATCATATACAATGCAAATGTATCCTAATTATTCCTATGGTTAGCATGGGGCTTTCAGACGTCG
6406264 TAATTCGATCGAATCGAGCTCGTAATTAATTCTCCCATGTTTATATCAAATTTGGCATTTACCCA
131 TAATTCGATCGAATCGAGCTCGTAATTAATTCTCCCATGTTTATATCAAATTTGGCATTTACCCA
6406329 AGTATAATTAATAATGCAATTCAGTACTTACAAATCATATGCATTCGAAATTAACGACATTTATT
196 AGTATAATTAATAATGCAATTCAGTACTTACAAATCATATGCATTCGAAATTAACGACATTTATT
6406394 TACTTATAAACTTACCTCGGATGAAGACGAATTGACTGGGACGACCATTCGACAACTTTTGATTT
261 TACTTATAAACTTACCTCGGATGAAGACGAATTGACTGGGACGACCATTCGACAACTTTTGATTT
6406459 CCTCCGATCCAAATTCGATTTATTTTCTTGTTCTAATTTAATACAAATTTAACTTATTTAATAAC
326 CCTCCGATCCAAATTCGATTTATTTTCTTGTTCTAATTTAATACAAATTTAACTTATTTAATAAC
6406524 ATATTCACTCAAATTTATTCCAAAAAACATAAATGAGAAAATTGCATTTTAGCCCTTAACATTTC
391 ATATTCACTCAAATTTATTCCAAAAAACATAAATGAGAAAATTGCATTTTAGCCCTTAACATTTC
6406589 ATATTTTTAATAATTTAGTCCATATTTCACAAAATACAAAATACACATAATTTAAAAAATATCTA
456 ATATTTTTAATAATTTAGTCCATATTTCACAAAATACAAAATACACATAATTTAAAAAATATCTA
*
6406654 GCTTGGCCGAATATTCCTATAGCTCATATAAGTCTACACATTTCATTCATTTCACATTTTAGCCC
521 GCTTGGCCGAATATTCCTATAGCTCATATAAGTCCACACATTTCATTCATTTCACATTTTAGCCC
6406719 CTCAATTTTATTATTTTCACAAATAAATCCTTAATTTGGATTTTTATTAAAATTACTTAACAAAA
586 CTCAATTTTATTATTTTCACAAATAAATCCTTAATTTGGATTTTTATTAAAATTACTTAACAAAA
6406784 TTTAATAATCTATCAACAAATATTTATTTTTCATCATCAACAACAATTTCATCACATTATCAACA
651 TTTAATAATCTATCAACAAATATTTATTTTTCATCATCAACAACAATTTCATCACATTATCAACA
6406849 ATGGAACTTCTCAAAATCATAATCAATTCCAAAATTAACAAATGGGCTAGGTAATATAT
716 ATGGAACTTCTCAAAATCATAATCAATTCCAAAATTAACAAATGGGCTAGGTAATATAT
6406908 AA
1 AA
6406910 AGCAACAATT
Statistics
Matches: 774, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
774 774 1.00
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (774 bp):
AATCCAGACGTGGTCTTAAATGTAATCAAATATCGATGCCACTATTTTAAATAGGGTCTTACACA
AAATCATATACAATGCAAATGTATCCTAATTATTCCTATGGTTAGCATGGGGCTTTCAGACGTCG
TAATTCGATCGAATCGAGCTCGTAATTAATTCTCCCATGTTTATATCAAATTTGGCATTTACCCA
AGTATAATTAATAATGCAATTCAGTACTTACAAATCATATGCATTCGAAATTAACGACATTTATT
TACTTATAAACTTACCTCGGATGAAGACGAATTGACTGGGACGACCATTCGACAACTTTTGATTT
CCTCCGATCCAAATTCGATTTATTTTCTTGTTCTAATTTAATACAAATTTAACTTATTTAATAAC
ATATTCACTCAAATTTATTCCAAAAAACATAAATGAGAAAATTGCATTTTAGCCCTTAACATTTC
ATATTTTTAATAATTTAGTCCATATTTCACAAAATACAAAATACACATAATTTAAAAAATATCTA
GCTTGGCCGAATATTCCTATAGCTCATATAAGTCCACACATTTCATTCATTTCACATTTTAGCCC
CTCAATTTTATTATTTTCACAAATAAATCCTTAATTTGGATTTTTATTAAAATTACTTAACAAAA
TTTAATAATCTATCAACAAATATTTATTTTTCATCATCAACAACAATTTCATCACATTATCAACA
ATGGAACTTCTCAAAATCATAATCAATTCCAAAATTAACAAATGGGCTAGGTAATATAT
Found at i:6410095 original size:3 final size:3
Alignment explanation
Indices: 6410087--6410124 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
6410077 ATGCATTAGT
*
6410087 TAA TAA TAA TAA TATA TTA TAA TAA T-A TAA TAA TAA TA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA
6410125 TTTAATTCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.87
4 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:6410119 original size:11 final size:11
Alignment explanation
Indices: 6410089--6410125 Score: 56
Period size: 11 Copynumber: 3.2 Consensus size: 11
6410079 GCATTAGTTA
6410089 ATAATAATAAT
1 ATAATAATAAT
6410100 ATATTATAATAAT
1 ATA--ATAATAAT
6410113 ATAATAATAAT
1 ATAATAATAAT
6410124 AT
1 AT
6410126 TTAATTCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 13 0.54
13 11 0.46
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:6410130 original size:13 final size:13
Alignment explanation
Indices: 6410090--6410130 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
6410080 CATTAGTTAA
6410090 TAATAATAATATAT
1 TAATAATAATAT-T
6410104 T-ATAATAATA--
1 TAATAATAATATT
6410114 TAATAATAATATT
1 TAATAATAATATT
6410127 TAAT
1 TAAT
6410131 TCACAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
10 1 0.04
11 9 0.38
13 13 0.54
14 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATAATAATATT
Found at i:6410323 original size:16 final size:17
Alignment explanation
Indices: 6410287--6410323 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
6410277 TAATATAATT
6410287 TATAATATTTTAATTAA
1 TATAATATTTTAATTAA
*
6410304 -ATAATATTTTTA-TAA
1 TATAATATTTTAATTAA
6410319 TATAA
1 TATAA
6410324 ATCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATATTTTAATTAA
Found at i:6414665 original size:26 final size:26
Alignment explanation
Indices: 6414635--6414723 Score: 117
Period size: 26 Copynumber: 3.4 Consensus size: 26
6414625 GCAACTCTTA
* * *
6414635 TGAGCGTCCCG-TTATATGGCTCTTCG
1 TGAGCTTCCCGATTA-AAGGCTCTTTG
6414661 TGAGCTTCCCGATTAAAGGCTCTTTG
1 TGAGCTTCCCGATTAAAGGCTCTTTG
**
6414687 TGAGCTTTTCGATTAAAGGCTCTTTG
1 TGAGCTTCCCGATTAAAGGCTCTTTG
6414713 TGAGCTTCCCG
1 TGAGCTTCCCG
6414724 TTAGTGCTCG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 52 0.95
27 3 0.05
ACGTcount: A:0.16, C:0.24, G:0.25, T:0.36
Consensus pattern (26 bp):
TGAGCTTCCCGATTAAAGGCTCTTTG
Found at i:6414806 original size:24 final size:24
Alignment explanation
Indices: 6414770--6414822 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
6414760 TGGTGCTTCT
*
6414770 CGTTAATTACTCTTCGGAGCTACC
1 CGTTAATTACTCTTCGAAGCTACC
* * *
6414794 TGTTAATTGCTCTTTGAAGCTACC
1 CGTTAATTACTCTTCGAAGCTACC
6414818 CGTTA
1 CGTTA
6414823 TAGACTCTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.38
Consensus pattern (24 bp):
CGTTAATTACTCTTCGAAGCTACC
Found at i:6414830 original size:24 final size:25
Alignment explanation
Indices: 6414803--6414849 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6414793 CTGTTAATTG
6414803 CTCTTTG-AAGCTACCCGTTATAGA
1 CTCTTTGTAAGCTACCCGTTATAGA
* *
6414827 CTCTTTGTGAGCTTCCCGTTATA
1 CTCTTTGTAAGCTACCCGTTATA
6414850 TTACCCGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (25 bp):
CTCTTTGTAAGCTACCCGTTATAGA
Found at i:6414864 original size:25 final size:25
Alignment explanation
Indices: 6414836--6414893 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
6414826 ACTCTTTGTG
*
6414836 AGCTTCCCGTTATATTACCCGGATA
1 AGCTTCCCGTTATATTACCCAGATA
* **
6414861 AGCTTTCCGTTATATTGTCCAGATA
1 AGCTTCCCGTTATATTACCCAGATA
6414886 AGCTTCCC
1 AGCTTCCC
6414894 ATTACAAGGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (25 bp):
AGCTTCCCGTTATATTACCCAGATA
Found at i:6420383 original size:24 final size:24
Alignment explanation
Indices: 6420355--6420406 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
6420345 TTAGTAAGTC
* *
6420355 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
6420379 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
6420403 AAAT
1 AAAT
6420407 CTTTTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:6422144 original size:21 final size:22
Alignment explanation
Indices: 6422118--6422164 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
6422108 CTCTGCTCAA
*
6422118 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
6422139 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
6422161 ACTC
1 ACTC
6422165 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:6431586 original size:140 final size:138
Alignment explanation
Indices: 6431328--6431607 Score: 384
Period size: 140 Copynumber: 2.0 Consensus size: 138
6431318 TATAACAAAA
* * * * *
6431328 GTCGACATAGTGTTGGACAAAACTGACTTTTATTTAAGCGTTGCCTTAAGCATGCATATCCCGAC
1 GTCGACATAGTGTTGGACAAAACAGACTCTTATTTAACCGTTGCCTCAAGCATGCATATCCCAAC
* * *
6431393 CCTTATACAAAGAGTTGGCTAAAGCATATATTGACAATTCTATCTCAAAACTTAGGAAAGTTTTG
66 CCTTATACAAAGAGTTGGCCAAAGCATATATCGACAATTCTATCTCAAAACTTA--AAAGTGTTG
6431458 GCCCAAAAGT
129 GCCCAAAAGT
* *
6431468 GTCGGCATAGTGTTGGACAAAACAGACTCTTATTTAACCGTTGCCTCAAGCATGGATATCCCAAC
1 GTCGACATAGTGTTGGACAAAACAGACTCTTATTTAACCGTTGCCTCAAGCATGCATATCCCAAC
* * * *
6431533 TCTTATACAAAGAGTTGGCCAAAGCGTATATCGGCAAGTT-TATC-CTAACACTTAAAAGTGTTG
66 CCTTATACAAAGAGTTGGCCAAAGCATATATCGACAA-TTCTATCTC-AAAACTTAAAAGTGTTG
6431596 GCCCAAAAGT
129 GCCCAAAAGT
6431606 GT
1 GT
6431608 TGTCTTAGGA
Statistics
Matches: 124, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
138 20 0.16
139 1 0.01
140 101 0.81
141 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (138 bp):
GTCGACATAGTGTTGGACAAAACAGACTCTTATTTAACCGTTGCCTCAAGCATGCATATCCCAAC
CCTTATACAAAGAGTTGGCCAAAGCATATATCGACAATTCTATCTCAAAACTTAAAAGTGTTGGC
CCAAAAGT
Found at i:6453321 original size:23 final size:23
Alignment explanation
Indices: 6453295--6453390 Score: 147
Period size: 23 Copynumber: 4.2 Consensus size: 23
6453285 GTTATTGATT
*
6453295 AGTGGTAACTACGGCTACATATC
1 AGTGGTAGCTACGGCTACATATC
* *
6453318 AGTGGTAGCTTCGGCTACATTTC
1 AGTGGTAGCTACGGCTACATATC
*
6453341 AGTGGTAGCTACGGCTACGTATC
1 AGTGGTAGCTACGGCTACATATC
*
6453364 AGTGGTAGCTTCGGCTACATATC
1 AGTGGTAGCTACGGCTACATATC
6453387 AGTG
1 AGTG
6453391 TGGCACTTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 65 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (23 bp):
AGTGGTAGCTACGGCTACATATC
Found at i:6453364 original size:46 final size:46
Alignment explanation
Indices: 6453295--6453390 Score: 165
Period size: 46 Copynumber: 2.1 Consensus size: 46
6453285 GTTATTGATT
*
6453295 AGTGGTAACTACGGCTACATATCAGTGGTAGCTTCGGCTACATTTC
1 AGTGGTAACTACGGCTACATATCAGTGGTAGCTTCGGCTACATATC
* *
6453341 AGTGGTAGCTACGGCTACGTATCAGTGGTAGCTTCGGCTACATATC
1 AGTGGTAACTACGGCTACATATCAGTGGTAGCTTCGGCTACATATC
6453387 AGTG
1 AGTG
6453391 TGGCACTTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
AGTGGTAACTACGGCTACATATCAGTGGTAGCTTCGGCTACATATC
Found at i:6455965 original size:23 final size:23
Alignment explanation
Indices: 6455918--6455996 Score: 90
Period size: 23 Copynumber: 3.5 Consensus size: 23
6455908 ATCAGTATAG
6455918 ACACATAAGTGCTTG-AA-ACGAC
1 ACACA-AAGTGCTTGAAATACGAC
*
6455940 ACACGAAGTGCTTGAAATACGAC
1 ACACAAAGTGCTTGAAATACGAC
* * *
6455963 ACATAAAGTGCCTGAAATACAAC
1 ACACAAAGTGCTTGAAATACGAC
*
6455986 ACATAAAGTGC
1 ACACAAAGTGC
6455997 CTGATCGGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.18
22 6 0.12
23 35 0.70
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.18
Consensus pattern (23 bp):
ACACAAAGTGCTTGAAATACGAC
Found at i:6455997 original size:23 final size:23
Alignment explanation
Indices: 6455945--6456000 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
6455935 ACGACACACG
* *
6455945 AAGTGCTTGAAATACGACACATA
1 AAGTGCCTGAAATACAACACATA
6455968 AAGTGCCTGAAATACAACACATA
1 AAGTGCCTGAAATACAACACATA
6455991 AAGTGCCTGA
1 AAGTGCCTGA
6456001 TCGGTAAAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.20
Consensus pattern (23 bp):
AAGTGCCTGAAATACAACACATA
Found at i:6456724 original size:15 final size:13
Alignment explanation
Indices: 6456685--6456711 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6456675 TAATTACAAC
6456685 AATAATTTAATAT
1 AATAATTTAATAT
6456698 AATAATTTAATAT
1 AATAATTTAATAT
6456711 A
1 A
6456712 TATCTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATAATTTAATAT
Found at i:6456884 original size:28 final size:30
Alignment explanation
Indices: 6456847--6456914 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 30
6456837 ATTATTTAAT
*
6456847 TAATAAATATCT-TTTACTT-AATAATAAA-
1 TAATAAATATCTATTTAATTAAATAA-AAAG
6456875 TAATAAATATCTATTTAATTAAATAAAAAG
1 TAATAAATATCTATTTAATTAAATAAAAAG
6456905 TAATTAAATA
1 TAA-TAAATA
6456915 AATCTATTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
28 12 0.34
29 9 0.26
30 8 0.23
31 6 0.17
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (30 bp):
TAATAAATATCTATTTAATTAAATAAAAAG
Found at i:6477919 original size:32 final size:32
Alignment explanation
Indices: 6477883--6477967 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
6477873 TAACACAGAT
* * *
6477883 CGTGTGGCCCACATGGCCATACCTATCTTGCC
1 CGTGTGACCCACACGACCATACCTATCTTGCC
* *
6477915 CGTGTGACTCACACGACCATATCTATCTTGCC
1 CGTGTGACCCACACGACCATACCTATCTTGCC
* * *
6477947 TGTGTAATCACACACGACCAT
1 CGTGTGA-CCCACACGACCAT
6477968 GTGGTGTACA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 32 0.73
33 12 0.27
ACGTcount: A:0.22, C:0.34, G:0.18, T:0.26
Consensus pattern (32 bp):
CGTGTGACCCACACGACCATACCTATCTTGCC
Found at i:6477966 original size:33 final size:32
Alignment explanation
Indices: 6477899--6477967 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
6477889 GCCCACATGG
* *
6477899 CCATACCTATCTTGCCCGTGTGACTCACACGA
1 CCATACCTATCTTGCCCGTGTAACACACACGA
* *
6477931 CCATATCTATCTTGCCTGTGTAATCACACACGA
1 CCATACCTATCTTGCCCGTGTAA-CACACACGA
6477964 CCAT
1 CCAT
6477968 GTGGTGTACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 20 0.62
33 12 0.38
ACGTcount: A:0.25, C:0.35, G:0.13, T:0.28
Consensus pattern (32 bp):
CCATACCTATCTTGCCCGTGTAACACACACGA
Found at i:6482254 original size:16 final size:15
Alignment explanation
Indices: 6482215--6482262 Score: 71
Period size: 16 Copynumber: 3.2 Consensus size: 15
6482205 GCATATGGAT
6482215 ATAAAAATAATAA-A
1 ATAAAAATAATAATA
*
6482229 ATGAAAATAATAATA
1 ATAAAAATAATAATA
6482244 ATAATAAATAATAATA
1 ATAA-AAATAATAATA
6482260 ATA
1 ATA
6482263 CAATGTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 12 0.40
15 4 0.13
16 14 0.47
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (15 bp):
ATAAAAATAATAATA
Found at i:6482255 original size:13 final size:13
Alignment explanation
Indices: 6482237--6482262 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6482227 AAATGAAAAT
6482237 AATAATAATAATA
1 AATAATAATAATA
6482250 AATAATAATAATA
1 AATAATAATAATA
6482263 CAATGTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:6482277 original size:3 final size:3
Alignment explanation
Indices: 6482215--6482262 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
6482205 GCATATGGAT
*
6482215 ATA AAA ATA ATA A-A ATGA A-A ATA ATA ATA ATA ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA AT-A ATA ATA ATA
6482260 ATA
1 ATA
6482263 CAATGTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 4 0.10
3 30 0.77
4 5 0.13
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:6485304 original size:19 final size:18
Alignment explanation
Indices: 6485255--6485305 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
6485245 AATTAAAATC
*
6485255 TTCAAAAAATATAAAAAA
1 TTCAAAAAATTTAAAAAA
6485273 -TCACAAAATATTTAGAAAAA
1 TTCA-AAAA-ATTTA-AAAAA
6485293 TTCAAAAAATTTA
1 TTCAAAAAATTTA
6485306 TAGTTAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 3 0.11
18 4 0.14
19 9 0.32
20 9 0.32
21 3 0.11
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (18 bp):
TTCAAAAAATTTAAAAAA
Found at i:6485342 original size:16 final size:16
Alignment explanation
Indices: 6485321--6485360 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
6485311 AAAATTTTAG
*
6485321 GAAAAT-TAAAAACTTT
1 GAAAATATAAAAA-TTC
6485337 GAAAATATAAAAATTC
1 GAAAATATAAAAATTC
6485353 GAAAATAT
1 GAAAATAT
6485361 TTAACAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (16 bp):
GAAAATATAAAAATTC
Found at i:6485376 original size:19 final size:20
Alignment explanation
Indices: 6485354--6485395 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
6485344 TAAAAATTCG
6485354 AAAATATTTAACAAA-TCAA
1 AAAATATTTAACAAATTCAA
* *
6485373 AAAATATTTTAGAAATTCAA
1 AAAATATTTAACAAATTCAA
6485393 AAA
1 AAA
6485396 GTAAAATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAATATTTAACAAATTCAA
Found at i:6485454 original size:21 final size:20
Alignment explanation
Indices: 6485429--6485511 Score: 71
Period size: 20 Copynumber: 4.2 Consensus size: 20
6485419 GATGATTTAA
*
6485429 TTTTTATATTTTTCTAAGTTT
1 TTTTTATATTTTTC-AAATTT
*
6485450 TTTTTATAGTTTTCAAATTT
1 TTTTTATATTTTTCAAATTT
* *
6485470 TTTGTA-ATTTTATAAAATTT
1 TTTTTATATTTT-TCAAATTT
***
6485490 TAAATATATTTTT-AAATTT
1 TTTTTATATTTTTCAAATTT
6485509 TTT
1 TTT
6485512 ATTTCTTAAC
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
19 11 0.22
20 21 0.42
21 18 0.36
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTTTATATTTTTCAAATTT
Found at i:6485470 original size:20 final size:21
Alignment explanation
Indices: 6485429--6485472 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6485419 GATGATTTAA
* *
6485429 TTTTTATATTTTTCTAAGTTT
1 TTTTTATAGTTTTCTAAATTT
6485450 TTTTTATAGTTTTC-AAATTT
1 TTTTTATAGTTTTCTAAATTT
6485470 TTT
1 TTT
6485473 GTAATTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (21 bp):
TTTTTATAGTTTTCTAAATTT
Found at i:6485559 original size:18 final size:19
Alignment explanation
Indices: 6485536--6485581 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
6485526 TTTTAAAATG
*
6485536 ATTTTTGAGTTTTTTTAT-
1 ATTTTTGAATTTTTTTATA
*
6485554 ATTTTTTAATTTTTTTATA
1 ATTTTTGAATTTTTTTATA
6485573 ATTTTTGAA
1 ATTTTTGAA
6485582 ATCTAGCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.70
Consensus pattern (19 bp):
ATTTTTGAATTTTTTTATA
Found at i:6486089 original size:19 final size:18
Alignment explanation
Indices: 6486065--6486105 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
6486055 ATGATTAACG
*
6486065 TTAATTAATTAATGTTTAA
1 TTAATTAATTAAAG-TTAA
*
6486084 TTAATTCATTAAAGTTAA
1 TTAATTAATTAAAGTTAA
6486102 TTAA
1 TTAA
6486106 GGTTTCATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (18 bp):
TTAATTAATTAAAGTTAA
Found at i:6494598 original size:57 final size:56
Alignment explanation
Indices: 6494521--6494712 Score: 168
Period size: 57 Copynumber: 3.5 Consensus size: 56
6494511 GAGTAATGTA
*
6494521 GCGTAAGACTAT--ATGAAAGATGTCATGATAGCATAGTACATGGTAAAGGTATATG
1 GCGTAAGACCATGGATGAAAGATGTCATGATAG-ATAGTACATGGTAAAGGTATATG
* * * *
6494576 GCGTAAGACCATGGATGAAAGAT-AC-T-AT-GACAGT-C-TGGTATAAGGTACATA
1 GCGTAAGACCATGGATGAAAGATGTCATGATAGATAGTACATGGTA-AAGGTATATG
* * * *
6494627 GCGTAAGACCATGGACGAAAGATGTCATGATAGTGTGGTACATGTTAACA-GTATATG
1 GCGTAAGACCATGGATGAAAGATGTCATGATAG-ATAGTACATGGTAA-AGGTATATG
* * * *
6494684 GCGTAATACTATGGATGATAGATGCCATG
1 GCGTAAGACCATGGATGAAAGATGTCATG
6494713 GCAGTTTGGT
Statistics
Matches: 108, Mismatches: 18, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
50 5 0.05
51 31 0.29
52 5 0.05
53 2 0.02
54 4 0.04
55 13 0.12
56 3 0.03
57 40 0.37
58 5 0.05
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (56 bp):
GCGTAAGACCATGGATGAAAGATGTCATGATAGATAGTACATGGTAAAGGTATATG
Found at i:6494683 original size:108 final size:108
Alignment explanation
Indices: 6494484--6494764 Score: 338
Period size: 108 Copynumber: 2.6 Consensus size: 108
6494474 GTTACACTGA
*
6494484 ATGAAAGATGCCATGGCAGTCTGGTATGA-GTA-ATGTAGCGTAAGACTAT--ATGAAAGATGTC
1 ATGAAAGATGCCATGGCAGTCTGGTATGAGGTACA--TAGCGTAAGACCATGGATGAAAGATGTC
6494545 ATGATAGCATAGTACATGGTAAAGGTATATGGCGTAAGACCATGG
64 ATGATAGCATAGTACATGGTAAAGGTATATGGCGTAAGACCATGG
* * * * *
6494590 ATGAAAGATACTATGACAGTCTGGTATAAGGTACATAGCGTAAGACCATGGACGAAAGATGTCAT
1 ATGAAAGATGCCATGGCAGTCTGGTATGAGGTACATAGCGTAAGACCATGGATGAAAGATGTCAT
** * * * *
6494655 GATAGTGTGGTACATGTTAACA-GTATATGGCGTAATACTATGG
66 GATAGCATAGTACATGGTAA-AGGTATATGGCGTAAGACCATGG
* * ** * *
6494698 ATGATAGATGCCATGGCAGTTTGGTATGAGGTACGCAGTGTAATACCATGGATGAAAGATGTCAT
1 ATGAAAGATGCCATGGCAGTCTGGTATGAGGTACATAGCGTAAGACCATGGATGAAAGATGTCAT
6494763 GA
66 GA
6494765 CAGCTCGATA
Statistics
Matches: 147, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
106 38 0.26
107 3 0.02
108 105 0.71
109 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (108 bp):
ATGAAAGATGCCATGGCAGTCTGGTATGAGGTACATAGCGTAAGACCATGGATGAAAGATGTCAT
GATAGCATAGTACATGGTAAAGGTATATGGCGTAAGACCATGG
Found at i:6497312 original size:43 final size:43
Alignment explanation
Indices: 6497257--6497351 Score: 172
Period size: 43 Copynumber: 2.2 Consensus size: 43
6497247 GGGACACATG
6497257 CCCGTGTGGCCAAGCCGTGTGTCTCACACGGTCAAGAGACACA
1 CCCGTGTGGCCAAGCCGTGTGTCTCACACGGTCAAGAGACACA
*
6497300 CCCGTGTGGCCAAGCCGTGTGTCTCACACGGTCAAGAGACACG
1 CCCGTGTGGCCAAGCCGTGTGTCTCACACGGTCAAGAGACACA
*
6497343 TCCGTGTGG
1 CCCGTGTGG
6497352 GCATTCAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.20, C:0.32, G:0.31, T:0.18
Consensus pattern (43 bp):
CCCGTGTGGCCAAGCCGTGTGTCTCACACGGTCAAGAGACACA
Found at i:6499838 original size:21 final size:21
Alignment explanation
Indices: 6499814--6499860 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
6499804 CAAATAATGC
6499814 AATAAACCTAAAGAAAATTAA
1 AATAAACCTAAAGAAAATTAA
6499835 AATAAACCTAAAGAAAATTAA
1 AATAAACCTAAAGAAAATTAA
6499856 AATAA
1 AATAA
6499861 CATTTTAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.68, C:0.09, G:0.04, T:0.19
Consensus pattern (21 bp):
AATAAACCTAAAGAAAATTAA
Found at i:6500420 original size:10 final size:10
Alignment explanation
Indices: 6500298--6500450 Score: 65
Period size: 10 Copynumber: 15.6 Consensus size: 10
6500288 AATTATAAAA
6500298 ATAAAAACTA-
1 ATAAAAA-TAT
*
6500308 ATAAAACT-T
1 ATAAAAATAT
* *
6500317 ATTAAAATTT
1 ATAAAAATAT
6500327 AATAAAAA-AT
1 -ATAAAAATAT
6500337 -TAAAAAT-T
1 ATAAAAATAT
*
6500345 -TAATAAAAAT
1 ATAA-AAATAT
*
6500355 ATACAAATAT
1 ATAAAAATAT
* *
6500365 -TTAAAATTT
1 ATAAAAATAT
6500374 ATTAAAAAT-T
1 A-TAAAAATAT
*
6500384 AGAAAAATAT
1 ATAAAAATAT
*
6500394 ATATAAAATCGT
1 ATA-AAAAT-AT
6500406 A-AAAAATAT
1 ATAAAAATAT
* *
6500415 ATAAAATTTT
1 ATAAAAATAT
6500425 ATAAAAATCAT
1 ATAAAAAT-AT
*
6500436 AAAAAAAT-T
1 ATAAAAATAT
6500445 ATAAAA
1 ATAAAA
6500451 TGCATAAAAA
Statistics
Matches: 107, Mismatches: 22, Indels: 29
0.68 0.14 0.18
Matches are distributed among these distances:
8 10 0.09
9 30 0.28
10 37 0.35
11 28 0.26
12 2 0.02
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (10 bp):
ATAAAAATAT
Found at i:6500421 original size:30 final size:30
Alignment explanation
Indices: 6500377--6500451 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
6500367 AAAATTTATT
* * *
6500377 AAAAATTAGAAAAATATATATAAAATCGT-A
1 AAAAATTATAAAATTATATA-AAAATCATAA
*
6500407 AAAAATATATAAAATTTTATAAAAATCATAA
1 AAAAAT-TATAAAATTATATAAAAATCATAA
6500438 AAAAATTATAAAAT
1 AAAAATTATAAAAT
6500452 GCATAAAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 21 0.54
31 18 0.46
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (30 bp):
AAAAATTATAAAATTATATAAAAATCATAA
Found at i:6500421 original size:50 final size:50
Alignment explanation
Indices: 6500359--6500460 Score: 127
Period size: 50 Copynumber: 2.0 Consensus size: 50
6500349 AAAAATATAC
* * * *
6500359 AAATATTTAAAA-TTTATTAAAAATTAGAAAAATATATATAAAAT-CGTAAA
1 AAATATATAAAATTTTA-TAAAAATCAGAAAAAAAT-TATAAAATGCATAAA
*
6500409 AAATATATAAAATTTTATAAAAATCATAAAAAAATTATAAAATGCATAAA
1 AAATATATAAAATTTTATAAAAATCAGAAAAAAATTATAAAATGCATAAA
6500459 AA
1 AA
6500461 GACCTTTTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
49 8 0.18
50 33 0.73
51 4 0.09
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (50 bp):
AAATATATAAAATTTTATAAAAATCAGAAAAAAATTATAAAATGCATAAA
Found at i:6500430 original size:19 final size:19
Alignment explanation
Indices: 6500319--6500439 Score: 61
Period size: 19 Copynumber: 6.3 Consensus size: 19
6500309 TAAAACTTAT
* *
6500319 TAAAATTTAATAAAAAAT-
1 TAAAATTTTATAAAATATA
*
6500337 TAAAAATTTAATAAAA-ATA
1 T-AAAATTTTATAAAATATA
* *
6500356 TACAAATATT-TAAAATTTA
1 TA-AAATTTTATAAAATATA
** *
6500375 TTAAAAATTAGAAAAATATATA
1 -T-AAAATTTTATAAA-ATATA
** *
6500397 TAAAATCGTAAAAAATATA
1 TAAAATTTTATAAAATATA
6500416 TAAAATTTTATAAAA-ATCA
1 TAAAATTTTATAAAATAT-A
6500435 TAAAA
1 TAAAA
6500440 AAATTATAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
18 11 0.14
19 45 0.56
20 15 0.19
21 5 0.06
22 4 0.05
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
TAAAATTTTATAAAATATA
Found at i:6500451 original size:39 final size:37
Alignment explanation
Indices: 6500332--6500451 Score: 93
Period size: 41 Copynumber: 3.1 Consensus size: 37
6500322 AATTTAATAA
* * *
6500332 AAAATTA-AAAATTTAATAAAAATATACAAATATT-T
1 AAAATTATAAAATTTTATAAAAATATAAAAAAATTAT
* * * *
6500367 AAAATTTATTAAAA-ATTAGAAAAATATATATAAAATCGTAA
1 AAAA-TTA-TAAAATTTTATAAAAATATA-AAAAAAT--TAT
6500408 AAAATATATAAAATTTTATAAAAATCATAAAAAAATTAT
1 AAAAT-TATAAAATTTTATAAAAAT-ATAAAAAAATTAT
6500447 AAAAT
1 AAAAT
6500452 GCATAAAAAG
Statistics
Matches: 64, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
35 4 0.06
36 3 0.05
37 11 0.17
38 8 0.12
39 7 0.11
40 7 0.11
41 21 0.33
42 3 0.05
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.33
Consensus pattern (37 bp):
AAAATTATAAAATTTTATAAAAATATAAAAAAATTAT
Found at i:6500456 original size:20 final size:20
Alignment explanation
Indices: 6500423--6500460 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6500413 ATATAAAATT
6500423 TTATAAAAATCATAAAAAAA
1 TTATAAAAATCATAAAAAAA
6500443 TTAT-AAAATGCATAAAAA
1 TTATAAAAAT-CATAAAAA
6500461 GACCTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (20 bp):
TTATAAAAATCATAAAAAAA
Found at i:6500800 original size:9 final size:9
Alignment explanation
Indices: 6500725--6500801 Score: 50
Period size: 9 Copynumber: 8.4 Consensus size: 9
6500715 ATAAATTTTC
*
6500725 TTTTATGAT
1 TTTTATTAT
*
6500734 TTTTATAAT
1 TTTTATTAT
*
6500743 TTTTATTAAAA
1 TTTTATT--AT
*
6500754 TTTAATTAT
1 TTTTATTAT
* *
6500763 TTTTATAAC
1 TTTTATTAT
6500772 TTTTATTGAT
1 TTTTATT-AT
*
6500782 TTTTA--GT
1 TTTTATTAT
6500789 TTTTATTAT
1 TTTTATTAT
6500798 TTTT
1 TTTT
6500802 GCCACATATC
Statistics
Matches: 51, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
7 6 0.12
9 32 0.63
10 6 0.12
11 7 0.14
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.68
Consensus pattern (9 bp):
TTTTATTAT
Found at i:6515072 original size:18 final size:18
Alignment explanation
Indices: 6515049--6515105 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
6515039 CCCAACTACT
*
6515049 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
6515067 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
6515085 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
6515103 GTA
1 GTA
6515106 AACGGTCGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:6523526 original size:22 final size:23
Alignment explanation
Indices: 6523492--6523534 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
6523482 AACAGAGATT
*
6523492 TTAAAAAGGAAAA-AAAAAAACC
1 TTAAAAAGAAAAACAAAAAAACC
*
6523514 TTAAAACGAAAAACAAAAAAA
1 TTAAAAAGAAAAACAAAAAAA
6523535 TGGTTAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.74, C:0.09, G:0.07, T:0.09
Consensus pattern (23 bp):
TTAAAAAGAAAAACAAAAAAACC
Found at i:6526884 original size:30 final size:30
Alignment explanation
Indices: 6526848--6526913 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
6526838 TTGCCTTGTT
6526848 CTTGCAAACTTCCTCAATGTGGCCAAGTTG
1 CTTGCAAACTTCCTCAATGTGGCCAAGTTG
*
6526878 CTTGCAAACTTTCTCAATGTGGCCAAGTTG
1 CTTGCAAACTTCCTCAATGTGGCCAAGTTG
6526908 CTTGCA
1 CTTGCA
6526914 GCTTCTACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (30 bp):
CTTGCAAACTTCCTCAATGTGGCCAAGTTG
Found at i:6530288 original size:17 final size:18
Alignment explanation
Indices: 6530262--6530300 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
6530252 GTTTTTGTGG
6530262 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
6530278 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
6530296 AAAAT
1 AAAAT
6530301 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:6530477 original size:15 final size:15
Alignment explanation
Indices: 6530457--6530487 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6530447 AAAATAATAT
6530457 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
6530472 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
6530487 A
1 A
6530488 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:6533856 original size:15 final size:15
Alignment explanation
Indices: 6533846--6533875 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6533836 TCCCTTCTTG
6533846 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
6533861 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
6533876 TCGATCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:6534643 original size:17 final size:18
Alignment explanation
Indices: 6534617--6534655 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
6534607 CAAATTGTGG
6534617 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
6534633 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
6534651 AAAAT
1 AAAAT
6534656 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:6534832 original size:15 final size:15
Alignment explanation
Indices: 6534812--6534842 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6534802 AAAACAATAT
6534812 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
6534827 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
6534842 A
1 A
6534843 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:6540529 original size:2 final size:2
Alignment explanation
Indices: 6540522--6540553 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6540512 GTTTTATGTT
6540522 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6540554 ATAAGTGCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6548363 original size:19 final size:19
Alignment explanation
Indices: 6548325--6548364 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6548315 AACAAAATAT
**
6548325 ATAAATATATTAAATTAAA
1 ATAAATATATTAAAAAAAA
*
6548344 ATAAATATTTTAAAAAAAA
1 ATAAATATATTAAAAAAAA
6548363 AT
1 AT
6548365 TAAAAATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAAATATATTAAAAAAAA
Found at i:6549036 original size:20 final size:20
Alignment explanation
Indices: 6549011--6549071 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
6549001 TATTGTTGCA
6549011 CCACCATGCTGCTGTCCCTT
1 CCACCATGCTGCTGTCCCTT
*
6549031 CCACCATGCTGTTGTCCCTT
1 CCACCATGCTGCTGTCCCTT
* *
6549051 CCACCAGGCTGCTCTCCCTT
1 CCACCATGCTGCTGTCCCTT
6549071 C
1 C
6549072 AATGAGAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.10, C:0.46, G:0.15, T:0.30
Consensus pattern (20 bp):
CCACCATGCTGCTGTCCCTT
Found at i:6549291 original size:60 final size:61
Alignment explanation
Indices: 6549210--6549330 Score: 190
Period size: 60 Copynumber: 2.0 Consensus size: 61
6549200 AATGTAATTT
* * * *
6549210 TTTTTTGCTTTTTATAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAA
1 TTTTTTGCTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAAGATTAAGTTATAA
*
6549271 TTTTTTG-TGTTTGTAATTATTTTAAAATTAATTTATTAGTAATTTAAGATTAAGTTATAA
1 TTTTTTGCTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAAGATTAAGTTATAA
6549331 ATTGTTCTGT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
60 48 0.87
61 7 0.13
ACGTcount: A:0.33, C:0.01, G:0.10, T:0.56
Consensus pattern (61 bp):
TTTTTTGCTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAAGATTAAGTTATAA
Done.