Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 62 of 106
Found at i:11253782 original size:22 final size:22
Alignment explanation
Indices: 11253757--11253799 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11253747 AATAATTATT
*
11253757 TTATATTTAAAT-ATATTAAAAA
1 TTATATTAAAATAATA-TAAAAA
11253779 TTATATTAAAATAATATAAAA
1 TTATATTAAAATAATATAAAA
11253800 TAAAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTATATTAAAATAATATAAAAA
Found at i:11257847 original size:28 final size:31
Alignment explanation
Indices: 11257816--11257880 Score: 82
Period size: 32 Copynumber: 2.2 Consensus size: 31
11257806 TAATACGATC
*
11257816 ATTTAAATT-TAAAATT-TT-TTATTATAAT
1 ATTTAAATTATAAAATTATTATTAATATAAT
*
11257844 ATTTAAATTATAAATTTATTAATTAATATAAT
1 ATTTAAATTATAAAATTATT-ATTAATATAAT
11257876 ATTTA
1 ATTTA
11257881 TTTATAATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 9 0.29
29 6 0.19
30 2 0.06
32 14 0.45
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
ATTTAAATTATAAAATTATTATTAATATAAT
Found at i:11257987 original size:17 final size:18
Alignment explanation
Indices: 11257944--11257998 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
11257934 TTTTACATTA
11257944 TAAATAAATATTATATTAA-T
1 TAAATAAATATTA-A--AATT
*
11257964 T-AATAAAT-TTATAATT
1 TAAATAAATATTAAAATT
11257980 TAAATAAATATTAAAATT
1 TAAATAAATATTAAAATT
11257998 T
1 T
11257999 TTAAATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 2 0.07
16 2 0.07
17 7 0.23
18 11 0.37
19 7 0.23
20 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATAAATATTAAAATT
Found at i:11258001 original size:27 final size:30
Alignment explanation
Indices: 11257971--11258039 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 30
11257961 AATTAATAAA
11257971 TTTATAATTTAAATAA-ATATTAAA-A-TT
1 TTTATAATTTAAATAACATATTAAATATTT
*
11257998 TTTA-AATTTTATATAACATATTAAATATTT
1 TTTATAA-TTTAAATAACATATTAAATATTT
11258028 TATTATAATTTA
1 T-TTATAATTTA
11258040 TAAATCATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
26 2 0.06
27 12 0.34
28 8 0.23
29 1 0.03
30 3 0.09
31 7 0.20
32 2 0.06
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (30 bp):
TTTATAATTTAAATAACATATTAAATATTT
Found at i:11258771 original size:16 final size:16
Alignment explanation
Indices: 11258752--11258785 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
11258742 ATATATAAAA
11258752 TATTT-ATTTTATTATT
1 TATTTAATTTTA-TATT
11258768 TATTTAATTTTATATT
1 TATTTAATTTTATATT
11258784 TA
1 TA
11258786 AGAGAGGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTTAATTTTATATT
Found at i:11259051 original size:13 final size:14
Alignment explanation
Indices: 11259035--11259068 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
11259025 ATAAAATAAA
11259035 AAAATAT-TTTTAT
1 AAAATATATTTTAT
11259048 AAAATATATTTTAT
1 AAAATATATTTTAT
11259062 AAGAATA
1 AA-AATA
11259069 AGGGATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 8 0.42
15 4 0.21
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (14 bp):
AAAATATATTTTAT
Found at i:11260658 original size:8 final size:8
Alignment explanation
Indices: 11260645--11260671 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
11260635 TATATTTGGT
11260645 TTAGAAGA
1 TTAGAAGA
11260653 TTAGAAGA
1 TTAGAAGA
11260661 TTAGAAGA
1 TTAGAAGA
11260669 TTA
1 TTA
11260672 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (8 bp):
TTAGAAGA
Found at i:11260762 original size:26 final size:25
Alignment explanation
Indices: 11260726--11260798 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 25
11260716 ATCTTTTAAA
*
11260726 AAATATTTAAATATCTTTAAGTATGT
1 AAATA-TTAAATATCTTTAAATATGT
11260752 AAATATGTAAATATCTTTAATAATATGT
1 AAATAT-TAAATATCTTT-A-AATATGT
*
11260780 AATTATTAAATATCTTTAA
1 AAATATTAAATATCTTTAA
11260799 TAATTTGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
25 2 0.05
26 17 0.40
27 12 0.29
28 11 0.26
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (25 bp):
AAATATTAAATATCTTTAAATATGT
Found at i:11260781 original size:20 final size:21
Alignment explanation
Indices: 11260695--11260745 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
11260685 TTTATTATAT
11260695 TATCTTT-AATAATATGTAAA
1 TATCTTTAAATAATATGTAAA
* *
11260715 TATCTTTTAAAAAATATTTAAA
1 TATC-TTTAAATAATATGTAAA
11260737 TATCTTTAA
1 TATCTTTAA
11260746 GTATGTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 4 0.15
21 8 0.30
22 15 0.56
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (21 bp):
TATCTTTAAATAATATGTAAA
Found at i:11260797 original size:27 final size:27
Alignment explanation
Indices: 11260726--11260802 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
11260716 ATCTTTTAAA
*
11260726 AAATATTTAAATATCTTT-A-AGTATGT
1 AAATA-TTAAATATCTTTAATAATATGT
11260752 AAATATGTAAATATCTTTAATAATATGT
1 AAATAT-TAAATATCTTTAATAATATGT
*
11260780 AATTATTAAATATCTTTAATAAT
1 AAATATTAAATATCTTTAATAAT
11260803 TTGTTTAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
25 1 0.02
26 16 0.35
27 18 0.39
28 11 0.24
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (27 bp):
AAATATTAAATATCTTTAATAATATGT
Found at i:11261053 original size:37 final size:37
Alignment explanation
Indices: 11260999--11261073 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 37
11260989 GCCCTCAAAA
11260999 TAAAATTTATATATAATAATATTAAT-CAAATGTATTT
1 TAAAATTTATATATAATAATATT-ATGCAAATGTATTT
* *
11261036 TAAATTTTATATGTAATAATATTATGCAAATGTATTT
1 TAAAATTTATATATAATAATATTATGCAAATGTATTT
11261073 T
1 T
11261074 GCATTTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 2 0.06
37 33 0.94
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (37 bp):
TAAAATTTATATATAATAATATTATGCAAATGTATTT
Found at i:11261290 original size:71 final size:71
Alignment explanation
Indices: 11261119--11261455 Score: 231
Period size: 71 Copynumber: 4.7 Consensus size: 71
11261109 TATTAAGTTC
* * * *
11261119 TTTTATTTTAAAAACATGATTTTTATTGAAATTTCAATATTTTAAAAGTGAAGTTTCAATATCAG
1 TTTTATTTTAAAAACATGATTTTTATT-AAATTTCAAAATTTTAAAA-TAAAGTTTCAACATCAA
**
11261184 TTATGTTT
64 TTATCATT
* * * *
11261192 TTTTATTTAAAAAACA--ATTTTTGTTAAAATTTCAAAAATTTAAACACAAAGTTTCAACATCAA
1 TTTTATTTTAAAAACATGATTTTTATT-AAATTTCAAAATTTTAAA-ATAAAGTTTCAACATCAA
11261255 TTA-CATT
64 TTATCATT
** * * **
11261262 TTTTATTTTAAAAACATGACATTT-TTAAATTTTAATAATTTTAAAAATAAAATTTCAACATTTA
1 TTTTATTTTAAAAACATGATTTTTATTAAATTTCAA-AATTTT-AAAATAAAGTTTCAACATCAA
* *
11261326 CTAT-GTT
64 TTATCATT
* * * * * * * * *
11261333 TTTAATCTTAAAAATATAATTTTGT-TAAAATTTCATAATTTTGTAAATAAAATTTCAATATCCA
1 TTTTATTTTAAAAACATGATTTT-TATTAAATTTCAAAATTTT-AAAATAAAGTTTCAACAT-CA
*
11261397 A-TGT-ATT
63 ATTATCATT
* * * *
11261404 TTTTATCTTAAAAACATGATATTTATTAAATTTTTAAAATTTCAAAAATAAA
1 TTTTATTTTAAAAACATGATTTTTATTAAA-TTTCAAAATTT-TAAAATAAA
11261456 ATCAAAATAT
Statistics
Matches: 206, Mismatches: 47, Indels: 23
0.75 0.17 0.08
Matches are distributed among these distances:
70 26 0.13
71 131 0.64
72 34 0.17
73 15 0.07
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.46
Consensus pattern (71 bp):
TTTTATTTTAAAAACATGATTTTTATTAAATTTCAAAATTTTAAAATAAAGTTTCAACATCAATT
ATCATT
Found at i:11261331 original size:142 final size:143
Alignment explanation
Indices: 11261119--11261457 Score: 374
Period size: 142 Copynumber: 2.4 Consensus size: 143
11261109 TATTAAGTTC
* * * * * *
11261119 TTTTATTTTAAAAACATGATTTTTATTGAAATTTCAAT-ATTTTAAAAGTGAAGTTTCAATATCA
1 TTTTATTTTAAAAACATGATATTTATT-AAATTTTAATAATTTTAAAAATAAAATTTCAACATCA
* *
11261183 GTTATGTTTTTTTAT-TTAAAAA-ACAATTTTTGTTAAAATTTCA-AAAATT-TAAACACAAAGT
65 GCTATG-TTTTTAATCTTAAAAATACAA-TTTTGTTAAAATTTCATAAAATTGTAAACA-AAA-T
11261244 TTCAACAT-CAAT-TACATT
126 TTCAACATCCAATGT--ATT
* *
11261262 TTTTATTTTAAAAACATGACATTT-TTAAATTTTAATAATTTTAAAAATAAAATTTCAACATTTA
1 TTTTATTTTAAAAACATGATATTTATTAAATTTTAATAATTTTAAAAATAAAATTTCAACA-TCA
* ** *
11261326 -CTATGTTTTTAATCTTAAAAATATAATTTTGTTAAAATTTCATAATTTTGTAAATAAAATTTCA
65 GCTATGTTTTTAATCTTAAAAATACAATTTTGTTAAAATTTCATAAAATTGTAAACAAAATTTCA
*
11261390 ATATCCAATGTATT
130 ACATCCAATGTATT
* *
11261404 TTTTATCTTAAAAACATGATATTTATTAAATTTTTAA-AATTTCAAAAATAAAAT
1 TTTTATTTTAAAAACATGATATTTATTAAA-TTTTAATAATTTTAAAAATAAAAT
11261458 CAAAATATTC
Statistics
Matches: 168, Mismatches: 18, Indels: 20
0.82 0.09 0.10
Matches are distributed among these distances:
141 16 0.10
142 81 0.48
143 59 0.35
144 12 0.07
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.46
Consensus pattern (143 bp):
TTTTATTTTAAAAACATGATATTTATTAAATTTTAATAATTTTAAAAATAAAATTTCAACATCAG
CTATGTTTTTAATCTTAAAAATACAATTTTGTTAAAATTTCATAAAATTGTAAACAAAATTTCAA
CATCCAATGTATT
Found at i:11261362 original size:17 final size:19
Alignment explanation
Indices: 11261340--11261376 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
11261330 GTTTTTAATC
11261340 TTAAAA-AT-ATAATTTTG
1 TTAAAATATCATAATTTTG
*
11261357 TTAAAATTTCATAATTTTG
1 TTAAAATATCATAATTTTG
11261376 T
1 T
11261377 AAATAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 1 0.06
19 10 0.59
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TTAAAATATCATAATTTTG
Found at i:11261481 original size:71 final size:71
Alignment explanation
Indices: 11261254--11261512 Score: 206
Period size: 71 Copynumber: 3.6 Consensus size: 71
11261244 TTCAACATCA
* *
11261254 ATTACATTTTTTATTTTAAAAACATGACATTT-TT-AAATTTTAATAATTTTAAAAATAAAATTT
1 ATTACA-TTTTTATCTTAAAAACATGATATTTGTTAAAATTTTAA-AATTTTAAAAATAAAA--T
*
11261317 CAACAT-TT-
62 CAAAATATTC
* ** * * * * ** ***
11261325 ACTATGTTTTTAATCTTAAAAATATAAT-TTTGTTAAAATTTCATAATTTTGTAAATAAAATTTC
1 ATTACATTTTT-ATCTTAAAAACATGATATTTGTTAAAATTTTAAAATTTTAAAAATAAAATCAA
*
11261389 AATATCC
65 AATATTC
* * * *
11261396 AATGTA-TTTTTTATCTTAAAAACATGATATTTATTAAATTTTTAAAATTTCAAAAATAAAATCA
1 -AT-TACATTTTTATCTTAAAAACATGATATTTGTTAAAATTTTAAAATTTTAAAAATAAAATCA
11261460 AAATATTC
64 AAATATTC
** *
11261468 ATTACATTTTTATCTTAAAAATGTGATTTTTGTTAAAATTTTAAA
1 ATTACATTTTTATCTTAAAAACATGATATTTGTTAAAATTTTAAA
11261513 GGTTTGAAAT
Statistics
Matches: 142, Mismatches: 37, Indels: 18
0.72 0.19 0.09
Matches are distributed among these distances:
69 3 0.02
70 11 0.08
71 81 0.57
72 45 0.32
73 2 0.01
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (71 bp):
ATTACATTTTTATCTTAAAAACATGATATTTGTTAAAATTTTAAAATTTTAAAAATAAAATCAAA
ATATTC
Found at i:11261483 original size:142 final size:139
Alignment explanation
Indices: 11261191--11261508 Score: 344
Period size: 142 Copynumber: 2.2 Consensus size: 139
11261181 CAGTTATGTT
*
11261191 TTTTTAT-TTAAAAA-ACAATTTTTGTTAAAATTTCAAAAATTTAAACACAAAGTTTCAACATCA
1 TTTTTATCTTAAAAATATAA-TTTTGTTAAAATTTCAAAAATTTAAACACAAAGTTTCAACATCA
* *
11261254 ATTACATTTTTTATTTTAAAAACATGACATTTTTAAATTTTAATAATTTTAAAAATAAAATTTCA
65 ATTA-ATTTTTTATCTTAAAAACATGACATTTTTAAATTTTAATAATTTCAAAAATAAAA-TTCA
* **
11261319 ACATTTACTATG
128 AAATTTACTACA
** * *
11261331 TTTTTAATCTTAAAAATATAATTTTGTTAAAATTTCATAATTTTGTAAATA-AAA-TTTCAATAT
1 TTTTT-ATCTTAAAAATATAATTTTGTTAAAATTTCA-AAAATT-TAAACACAAAGTTTCAACAT
*
11261394 CCAATGT-ATTTTTTATCTTAAAAACATGATATTTATTAAATTTTTAA-AATTTCAAAAATAAAA
63 -CAAT-TAATTTTTTATCTTAAAAACATGACATTT-TTAAA-TTTTAATAATTTCAAAAATAAAA
*
11261457 -TCAAAATATTCATTACA
124 TTCAAAAT-TT-ACTACA
* *
11261474 TTTTTATCTTAAAAATGTGATTTTTGTTAAAATTT
1 TTTTTATCTTAAAAATAT-AATTTTGTTAAAATTT
11261509 TAAAGGTTTG
Statistics
Matches: 152, Mismatches: 14, Indels: 21
0.81 0.07 0.11
Matches are distributed among these distances:
140 5 0.03
141 8 0.05
142 70 0.46
143 57 0.38
144 12 0.08
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (139 bp):
TTTTTATCTTAAAAATATAATTTTGTTAAAATTTCAAAAATTTAAACACAAAGTTTCAACATCAA
TTAATTTTTTATCTTAAAAACATGACATTTTTAAATTTTAATAATTTCAAAAATAAAATTCAAAA
TTTACTACA
Found at i:11261568 original size:17 final size:16
Alignment explanation
Indices: 11261542--11261620 Score: 63
Period size: 16 Copynumber: 4.9 Consensus size: 16
11261532 TTTCAATCTC
11261542 AATACATTTAATATTAA
1 AATA-ATTTAATATTAA
*
11261559 AATAATTTTAAT-TTCA
1 AATAA-TTTAATATTAA
* *
11261575 TATAATTTAATATTAT
1 AATAATTTAATATTAA
* * *
11261591 CATATTTTTAAT-TTTA
1 AATA-ATTTAATATTAA
11261607 AATAATTTAATATT
1 AATAATTTAATATT
11261621 GTTTAAAATA
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
15 12 0.25
16 20 0.42
17 16 0.33
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (16 bp):
AATAATTTAATATTAA
Found at i:11261583 original size:32 final size:32
Alignment explanation
Indices: 11261542--11261620 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 32
11261532 TTTCAATCTC
11261542 AATACATTTAATATTAAAATAATTTTAATTTCA
1 AATA-ATTTAATATTAAAATAATTTTAATTTCA
* ** * *
11261575 TATAATTTAATATTATCATATTTTTAATTTTA
1 AATAATTTAATATTAAAATAATTTTAATTTCA
11261607 AATAATTTAATATT
1 AATAATTTAATATT
11261621 GTTTAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
32 37 0.93
33 3 0.08
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (32 bp):
AATAATTTAATATTAAAATAATTTTAATTTCA
Found at i:11265325 original size:29 final size:29
Alignment explanation
Indices: 11265293--11265356 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 29
11265283 CTTTCTTATC
*
11265293 AAAATAAAATATATTAT-ATTTA-ATAATTT
1 AAAATAAAAT-TATTATAAATTATAT-ATTT
11265322 AAAAT-AAATTATTATAAATTATATATTT
1 AAAATAAAATTATTATAAATTATATATTT
11265350 AAAATAA
1 AAAATAA
11265357 TTTTAACAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
27 6 0.19
28 17 0.55
29 8 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (29 bp):
AAAATAAAATTATTATAAATTATATATTT
Found at i:11272695 original size:19 final size:20
Alignment explanation
Indices: 11272673--11272718 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
11272663 CTCTAAGGCC
11272673 TTAATTTTAATA-TTTAATA
1 TTAATTTTAATATTTTAATA
**
11272692 TTAAAATTAATATTTTTAATA
1 TTAATTTTAATA-TTTTAATA
11272713 TTAATT
1 TTAATT
11272719 ACCAGAGATG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
19 10 0.48
21 11 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTAATTTTAATATTTTAATA
Found at i:11274969 original size:161 final size:157
Alignment explanation
Indices: 11274189--11276348 Score: 985
Period size: 161 Copynumber: 13.6 Consensus size: 157
11274179 AAACTTGCAC
* * * * * *
11274189 TTTATGTCTATTTGAGACTTTTT-TGTATCGTTAAAAGGTAAAAATATAAATTTATAGTTATTTT
1 TTTATGTCTGTTTTAGACTTTTTATG-CT-GTT-AAAGG-AAAAATATAAGTTTGTAGTTATTAT
* * * * * * * *
11274253 TTTGTTTTAACAGTTTAGATAGCTTCAATATATAATATTAAACTTGTTTGAATGATTGAACTT-A
62 TCTATTTTAACA-TTTAGATAGCTTCAATACATGATATTAAACTTATCTAAATGATTAAACTTGA
*** *
11274317 GTTTTCACAATTGATATGTGTGAAAAAGTTACG-
126 -TTTTCATGGTTGATATG-ATGAAAAAGTTACGA
* * * * * * ** *
11274350 TTCATGT-TCG-TTTAGGAC-TTTTGTGCCGTTAAAAGATAAAATACAAATTTACAGTTATTGTT
1 TTTATGTCT-GTTTTA-GACTTTTTATGCTGTTAAAGGA-AAAATATAAGTTTGTAGTTATTATT
** * * *
11274412 CTATTTTAGA-AGTTTAGATATATTCAATATATGATATTAAACTTGT-TCAAATGATTGAACTT-
63 CTATTTTA-ACA-TTTAGATAGCTTCAATACATGATATTAAACTTATCT-AAATGATTAAACTTG
* *
11274474 AGTTTTCA----CGAT-TGAT----ATGTTACGA
125 A-TTTTCATGGTTGATATGATGAAAAAGTTACGA
* * * * * * *
11274499 TTTGTGTTTGTTTAAGACTTTTTATGCCGTTAAAAGGCAAAATTGTAAGTTTGTAGTTATTGTTC
1 TTTATGTCTGTTTTAGACTTTTTATGCTGTT-AAAGG-AAAAATATAAGTTTGTAGTTATTATTC
*
11274564 TATTTTAACAATTTAGATAGCTTCAATACATGATATTAAACATTTTC-AAATGATTAAACTTGAT
64 TATTTTAAC-ATTTAGATAGCTTCAATACATGATATTAAAC-TTATCTAAATGATTAAACTTGAT
* *
11274628 TTTCATAGTTGATAT-ATGTAAAAAAGTTACAA
127 TTTCATGGTTGATATGATG--AAAAAGTTACGA
** *
11274660 TTTATGTCTG-TTTAGGACTTTTTATGCTGACAAAAGGCAAAAAAAGATACAAGTTTGTAGTTA-
1 TTTATGTCTGTTTTA-GACTTTTTATGCTG-TTAAAGG----AAAA-ATATAAGTTTGTAGTTAT
* * * * *
11274723 TATTTCTATTTTAATAATTTAAATAGTTTCAATACATGATATTAAACTTATTTCAATGATTAAAC
59 TA-TTCTATTTTAA-CATTTAGATAGCTTCAATACATGATATTAAACTTATCTAAATGATTAAAC
* * *
11274788 TTGGTTTTTACT-ATTGATATGAGTGAAAAAAGTTACGA
122 TTGATTTTCA-TGGTTGATATGA-TG-AAAAAGTTACGA
* * ** *
11274826 TCTATGTCTGTTTTAGACTTTTTATGTTGTTAAAGGGTAAATTTATAGTTATGTAGTTATTATTC
1 TTTATGTCTGTTTTAGACTTTTTATGCTGTTAAAGGAAAAATATA-AGTT-TGTAGTTATTATTC
* * * * *
11274891 TATTTTAACATTTAGATAGCTTAAATACATAATATTAAACTTGTCTAAATGATTGAACATGATTT
64 TATTTTAACATTTAGATAGCTTCAATACATGATATTAAACTTATCTAAATGATTAAACTTGATTT
* * *
11274956 TCATGGTTGATATGTGTGAAAAGGTTAAGA
129 TCATGGTTGATATG-ATGAAAAAGTTACGA
* * * ** *
11274986 TTTATGT-TTTTTTAAGATTTTTTATGTTGTTGAAAGGCAAAAATGCAAGTTTGTAGTTATTTTT
1 TTTATGTCTGTTTT-AGACTTTTTATGCTGTT-AAAGG-AAAAATATAAGTTTGTAGTTATTATT
* * * * * * *
11275050 TTGTTTTAACAGTTAAGATAGCTTCAATACATGATATTAAACTTATCCAAATAATTGAACTTGGT
63 CTATTTTAACA-TTTAGATAGCTTCAATACATGATATTAAACTTATCTAAATGATTAAACTTGAT
* **
11275115 TTTCATGGTTTATATGTATGAAAAAGTTACCT
127 TTTCATGGTTGATATG-ATGAAAAAGTTACGA
* * * * * * ** *
11275147 TTTATATCTGTTTAAAACTTTTTGTGCTATTAAAAGGAAAAAATACAAGTTTACAGTTATTGTTC
1 TTTATGTCTGTTTTAGACTTTTTATGCTGTT-AAAGG-AAAAATATAAGTTTGTAGTTATTATTC
* * *
11275212 TATTTTAACAATTTAGATAGCTTCAATACATTATATTAAACTTA-GT---T--TT-CAC--GATT
64 TATTTTAAC-ATTTAGATAGCTTCAATACATGATATTAAACTTATCTAAATGATTAAACTTGATT
*
11275268 GAT-AT-G-TG---TGA--AAAAA-TTACGA
128 -TTCATGGTTGATATGATGAAAAAGTTACGA
* * * *
11275290 TTTAGGTCTATTTCAGACTTTTTAT-CTGTTAAAGGGTAAAATTATAA-TTATGTAGTTATTATT
1 TTTATGTCTGTTTTAGACTTTTTATGCTGTTAAA-GG-AAAAATATAAGTT-TGTAGTTATTATT
* ** * * * ** *
11275353 CTATTTTAACAGTTTAGATAGCTTAAATACACAATATTAAACTTGTTTGAATGATTGCACTTGTT
63 CTATTTTAACA-TTTAGATAGCTTCAATACATGATATTAAACTTATCTAAATGATTAAACTTGAT
* ** *
11275418 TTTCATTGTTGATACGTG-TGAAAAAAGTTGTGG
127 TTTCATGGTTGATA--TGATG-AAAAAGTTACGA
* * * * * ** *
11275451 TTTATATTTG-TTTAGGA-TCTTTTATGCTGTTGAAAAGTAACAATACAAGTTTACAGTTATTGT
1 TTTATGTCTGTTTTA-GACT-TTTTATGCTGTT--AAAGGAAAAATATAAGTTTGTAGTTATTAT
* * * * * *
11275514 TTTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTCCAAATTATTGAACTTGG
62 TCTATTTTAACA-TTTAGATAGCTTCAATACATGATATTAAACTTATCTAAATGATTAAACTTGA
* *
11275579 TTTCCATGGTAT-ATATGTGTGAAAAAGTTATCG-
126 TTTTCATGGT-TGATATG-ATGAAAAAGTTA-CGA
* * * *
11275612 TTTATG-CT-TGTTTATGACTTTTTATGCCGTTAAAGGGTACAAAA-GTAATTTTGTAGTT-GTA
1 TTTATGTCTGT-TTTA-GACTTTTTATGCTGTTAAA-GG-A-AAAATATAAGTTTGTAGTTATTA
* * * * * * *
11275673 TT-TATGTTTTAATAGTTTATATAGCTTAAATATATGATATTAAACTTGT-T---TGAAT-GA--
61 TTCTA--TTTTAACA-TTTAGATAGCTTCAATACATGATATTAAACTTATCTAAATGATTAAACT
*
11275730 TGA-TTTC-TAGAATTGATATGTATGAAAAAGTTACCG-
123 TGATTTTCAT-G-GTTGATATG-ATGAAAAAGTTA-CGA
* *** * * * *
11275766 TTTATGTTTG-TTTAGAAAATTT-TGTCTGTTAAAAGGTAAAAATGTAAATTTATAGTTATTGTT
1 TTTATGTCTGTTTTAGACTTTTTATG-CTGTT-AAAGG-AAAAATATAAGTTTGTAGTTATTATT
* * * * * ** *
11275829 CTATTTTAAAATTTGGATAGCTTCAATATATGATATTAAACTTATCCAAATGATTGATGTT-CTT
63 CTATTTTAACATTTAGATAGCTTCAATACATGATATTAAACTTATCTAAATGATTAAACTTGATT
11275893 TTCGATGGTTGATAT-ATGTAAAAAAGTTATC-A
128 TTC-ATGGTTGATATGATG--AAAAAGTTA-CGA
* * * * *
11275925 -TT-TGTCTG-CTTATGA-TATCTTGTACTGTTAAAAGGCAAAAATATAATTTTGCT-GTTA-TA
1 TTTATGTCTGTTTTA-GACT-TTTTATGCTGTT-AAAGG-AAAAATATAAGTTTG-TAGTTATTA
* * * * ** * *
11275984 TTCTATTTTAACAATTTAGATAGCTTAAATATATAATATTAAATTTATCCGAATGATTGAATTTG
61 TTCTATTTTAAC-ATTTAGATAGCTTCAATACATGATATTAAACTTATCTAAATGATTAAACTTG
*** * * *
11276049 ATTTTCACAATTAATATGTGTGAAAAAAATTATCG-
125 ATTTTCATGGTTGATATG-ATG-AAAAAGTTA-CGA
** ** *
11276084 TTTATGTCTG-TTTAGTACTTTTTATGCAATTAAAGGGTCAAATATAATTTTGTA--TATATATT
1 TTTATGTCTGTTTTAG-ACTTTTTATGCTGTTAAA-GGAAAAATATAAGTTTGTAGTTAT-TA-T
* * * * * *
11276146 TATATTTTAACAGTTTAGATAGCTTAAATACATGATATTAAACTTATATGAATGTTTGAACTT-A
62 TCTATTTTAACA-TTTAGATAGCTTCAATACATGATATTAAACTTATCTAAATGATTAAACTTGA
** *** * *
11276210 CTTGCCACACTTGATATACAT-AAATAAGTTATGA
126 -TTTTCATGGTTGATAT-GATGAAA-AAGTTACGA
* * * * ** * **
11276244 TTTATATCTGTTTAAGACTTTTTGTAACAT-CAAAAGGCAAAAAAATAAGTTTACAGTTATTATT
1 TTTATGTCTGTTTTAGACTTTTTAT-GC-TGTTAAAGG-AAAAATATAAGTTTGTAGTTATTATT
* *
11276308 ATATTTTAACAATTTAGATAGC-TCTAGTACATGATATTAAA
63 CTATTTTAAC-ATTTAGATAGCTTC-AATACATGATATTAAA
11276349 TTTTTTCGAA
Statistics
Matches: 1557, Mismatches: 293, Indels: 298
0.72 0.14 0.14
Matches are distributed among these distances:
141 6 0.00
142 63 0.04
143 24 0.02
144 5 0.00
146 2 0.00
147 2 0.00
148 9 0.01
149 12 0.01
150 18 0.01
151 83 0.05
152 50 0.03
153 42 0.03
154 43 0.03
155 10 0.01
156 6 0.00
157 29 0.02
158 174 0.11
159 59 0.04
160 135 0.09
161 511 0.33
162 127 0.08
163 9 0.01
164 11 0.01
165 85 0.05
166 36 0.02
167 6 0.00
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.43
Consensus pattern (157 bp):
TTTATGTCTGTTTTAGACTTTTTATGCTGTTAAAGGAAAAATATAAGTTTGTAGTTATTATTCTA
TTTTAACATTTAGATAGCTTCAATACATGATATTAAACTTATCTAAATGATTAAACTTGATTTTC
ATGGTTGATATGATGAAAAAGTTACGA
Found at i:11275242 original size:322 final size:321
Alignment explanation
Indices: 11274218--11276190 Score: 1370
Period size: 322 Copynumber: 6.2 Consensus size: 321
11274208 TTTTTGTATC
* * * * *
11274218 GTTAAAAGGTAAAAATATAAATTTATAGTTATTTTTTTGTTTTAACAGTTTAGATAGCTTCAATA
1 GTTAAAAGGTAAAAATATAAGTTTATAGTTATTGTTCTATTTTAACAATTTAGATAGCTTCAATA
* * * * * ***
11274283 TATAATATTAAACTTGTTTGAATGATTGAAC-TTAGTTTTCACAATTGATATGTGTGAAAAAGTT
66 CATGATATTAAACTTGTCTAAATGATTGAACATGA-TTTTCATGGTTGATATGTGTGAAAAAGTT
* * * * * * **
11274347 ACG-TTCATGTTCGTTTAGGAC-TTTTGTGCCGTTAAAAG-ATAAAATACAAATTTACAGTTATT
130 ACGATTTATGTTTGTTTAAGACTTTTTATGCTGTTAAAGGCA-AAAATACAAATTTGTAGTTATT
* ** *
11274409 GTTCTATTTTAGA-AGTTTAGATATATTCAATATATGATATTAAACTTGTTCAAATGATTGAACT
194 TTTCTATTTTA-ACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCAAATGATTGAACT
* * * * * * *
11274473 TAGTTTTCACGATTGATATGT-T----ACG--A---TTTGTGTTTGTTTAAGACTTTTTATGCC
258 TGGTTTTCATGATTGATATGTATGAAAAAGTTACCGTTTATATCTGTTTAAGACTTTTTATGCT
* * * *
11274527 GTTAAAAGGCAAAATTGTAAGTTTGTAGTTATTGTTCTATTTTAACAATTTAGATAGCTTCAATA
1 GTTAAAAGGTAAAAATATAAGTTTATAGTTATTGTTCTATTTTAACAATTTAGATAGCTTCAATA
* * * * * *
11274592 CATGATATTAAACATTTTC-AAATGATTAAACTTGATTTTCATAGTTGATATATGTAAAAAAGTT
66 CATGATATTAAAC-TTGTCTAAATGATTGAACATGATTTTCATGGTTGATATGTGTGAAAAAGTT
* * * ** *
11274656 ACAATTTATGTCTGTTTAGGACTTTTTATGCTGACAAAAGGCAAAAAAAGATACAAGTTTGTAGT
130 ACGATTTATGTTTGTTTAAGACTTTTTATGCTG-TTAAAGGC---AAAA-ATACAAATTTGTAGT
* * * * * * *
11274721 TATATTTCTATTTTAATAATTTAAATAGTTTCAATACATGATATTAAACTTATTTC-AATGATTA
190 TATTTTTCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTT-GTTCAAATGATTG
* * * *
11274785 AACTTGGTTTTTACT-ATTGATATG-AGTGAAAAAAGTTA-CGATCTATGTCTGTTTTAGACTTT
254 AACTTGGTTTTCA-TGATTGATATGTA-TG-AAAAAGTTACCG-TTTATATCTGTTTAAGACTTT
*
11274847 TTATGTT
315 TTATGCT
* ** * * *
11274854 GTTAAAGGGTAAATTTAT-AGTTATGTAGTTATTATTCTATTTTAAC-ATTTAGATAGCTTAAAT
1 GTTAAAAGGTAAAAATATAAGTT-TATAGTTATTGTTCTATTTTAACAATTTAGATAGCTTCAAT
* *
11274917 ACATAATATTAAACTTGTCTAAATGATTGAACATGATTTTCATGGTTGATATGTGTGAAAAGGTT
65 ACATGATATTAAACTTGTCTAAATGATTGAACATGATTTTCATGGTTGATATGTGTGAAAAAGTT
* * * * * *
11274982 AAGATTTATGTTTTTTTAAGATTTTTTATGTTGTTGAAAGGCAAAAATGCAAGTTTGTAGTTATT
130 ACGATTTATGTTTGTTTAAGACTTTTTATGCTGTT-AAAGGCAAAAATACAAATTTGTAGTTATT
* * * * * *
11275047 TTTTTGTTTTAACAGTTAAGATAGCTTCAATACATGATATTAAACTTATCCAAATAATTGAACTT
194 TTTCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCAAATGATTGAACTT
* * * * *
11275112 GGTTTTCATGGTTTATATGTATGAAAAAGTTACCTTTTATATCTGTTTAAAACTTTTTGTGCT
259 GGTTTTCATGATTGATATGTATGAAAAAGTTACCGTTTATATCTGTTTAAGACTTTTTATGCT
* * * *
11275175 ATTAAAAGGAAAAAATACAAGTTTACAGTTATTGTTCTATTTTAACAATTTAGATAGCTTCAATA
1 GTTAAAAGGTAAAAATATAAGTTTATAGTTATTGTTCTATTTTAACAATTTAGATAGCTTCAATA
* * * *
11275240 CAT--TA-T--A----T-TAAA--CTT----A-G-TTTTCACGATTGATATGTGTGAAAAAATTA
66 CATGATATTAAACTTGTCTAAATGATTGAACATGATTTTCATGGTTGATATGTGTGAAAAAGTTA
* * * * * * *
11275287 CGATTTAGGTCTATTTCAGACTTTTTAT-CTGTTAAAGGGTAAAATTA-TAATTATGTAGTTATT
131 CGATTTATGTTTGTTTAAGACTTTTTATGCTGTTAAA-GGCAAAAATACAAATT-TGTAGTTATT
* * ** ** *
11275350 ATTCTATTTTAACAGTTTAGATAGCTTAAATACACAATATTAAACTTGTTTGAATGATTGCACTT
194 TTTCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCAAATGATTGAACTT
* * * *** * *
11275415 GTTTTTCATTG-TTGATACGTGTGAAAAAAGTTGTGGTTTATATTTGTTTAGGA-TCTTTTATGC
259 GGTTTTCA-TGATTGATATGTATG-AAAAAGTTACCGTTTATATCTGTTTAAGACT-TTTTATGC
11275478 T
321 T
* * * * *
11275479 GTTGAAAA-GTAACAATACAAGTTTACAGTTATTGTTTTATTTTAACAGTTTAGATAGCTTCAAT
1 GTT-AAAAGGTAAAAATATAAGTTTATAGTTATTGTTCTATTTTAACAATTTAGATAGCTTCAAT
* * * * *
11275543 ACATGATATTAAACTTGTCCAAATTATTGAACTTGGTTTCCATGGTAT-ATATGTGTGAAAAAGT
65 ACATGATATTAAACTTGTCTAAATGATTGAACATGATTTTCATGGT-TGATATGTGTGAAAAAGT
* * * * *
11275607 TATCG-TTTATGCTTGTTTATGACTTTTTATGCCGTTAAAGGGTACAAAAGT--AATTTTGTAGT
129 TA-CGATTTATGTTTGTTTAAGACTTTTTATGCTGTTAAA-GG--CAAAAATACAAATTTGTAGT
* * * * * * * * **
11275669 TGTATTTATGTTTTAATAGTTTATATAGCTTAAATATATGATATTAAACTTGTTTGAATGA-TG-
190 TATTTTTCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCAAATGATTGA
* * * ***
11275732 A--T--TTCT-A-GAATTGATATGTATGAAAAAGTTACCGTTTATGTTTGTTT-AGAAAATTT-T
255 ACTTGGTTTTCATG-ATTGATATGTATGAAAAAGTTACCGTTTATATCTGTTTAAGACTTTTTAT
11275789 GTCT
319 G-CT
* * *
11275793 GTTAAAAGGTAAAAATGTAAATTTATAGTTATTGTTCTATTTTAA-AATTTGGATAGCTTCAATA
1 GTTAAAAGGTAAAAATATAAGTTTATAGTTATTGTTCTATTTTAACAATTTAGATAGCTTCAATA
* * * ** ** * *
11275857 TATGATATTAAACTTATCCAAATGATTG-ATGTTCTTTTCGATGGTTGATATATGTAAAAAAGTT
66 CATGATATTAAACTTGTCTAAATGATTGAACATGATTTTC-ATGGTTGATATGTGTGAAAAAGTT
* * * * * * * *
11275921 ATC-A-TT-TGTCTGCTTATGA-TATCTTGTACTGTTAAAAGGCAAAAATATAATTTTGCT-GTT
130 A-CGATTTATGTTTGTTTAAGACT-TTTTATGCTGTT-AAAGGCAAAAATACAAATTTG-TAGTT
* * * * * * * * *
11275981 A-TATTCTATTTTAACAATTTAGATAGCTTAAATATATAATATTAAATTTATCCGAATGATTGAA
191 ATTTTTCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCAAATGATTGAA
* * ** * * * * *
11276045 TTTGATTTTCACAATTAATATGTGTGAAAAAAATTATCGTTTATGTCTGTTT-AGTACTTTTTAT
256 CTTGGTTTTCATGATTGATATGTATG-AAAAAGTTACCGTTTATATCTGTTTAAG-ACTTTTTAT
*
11276109 GCA
319 GCT
* * * * * * * *
11276112 ATTAAAGGGT-CAAATATAATTTTGTA-TATATAT-TTATATTTTAACAGTTTAGATAGCTTAAA
1 GTTAAAAGGTAAAAATATAAGTTTATAGT-TAT-TGTTCTATTTTAACAATTTAGATAGCTTCAA
11276174 TACATGATATTAAACTT
64 TACATGATATTAAACTT
11276191 ATATGAATGT
Statistics
Matches: 1321, Mismatches: 253, Indels: 170
0.76 0.15 0.10
Matches are distributed among these distances:
302 6 0.00
303 90 0.07
304 138 0.10
305 5 0.00
306 3 0.00
307 1 0.00
309 111 0.08
310 69 0.05
311 40 0.03
312 22 0.02
313 73 0.06
314 46 0.03
315 25 0.02
316 98 0.07
317 21 0.02
318 49 0.04
319 46 0.03
320 4 0.00
321 68 0.05
322 156 0.12
323 75 0.06
324 4 0.00
325 9 0.01
326 104 0.08
327 58 0.04
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.43
Consensus pattern (321 bp):
GTTAAAAGGTAAAAATATAAGTTTATAGTTATTGTTCTATTTTAACAATTTAGATAGCTTCAATA
CATGATATTAAACTTGTCTAAATGATTGAACATGATTTTCATGGTTGATATGTGTGAAAAAGTTA
CGATTTATGTTTGTTTAAGACTTTTTATGCTGTTAAAGGCAAAAATACAAATTTGTAGTTATTTT
TCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCAAATGATTGAACTTGG
TTTTCATGATTGATATGTATGAAAAAGTTACCGTTTATATCTGTTTAAGACTTTTTATGCT
Found at i:11275699 original size:465 final size:463
Alignment explanation
Indices: 11274781--11275723 Score: 1203
Period size: 465 Copynumber: 2.0 Consensus size: 463
11274771 TATTTCAATG
* * * * *
11274781 ATTAAACTTGGTTTTTACTATTGATATGAGTGAAAAAAGTTACGATCTATGTCTGTTTTAGACTT
1 ATTAAACTT-GTTTTCACGATTGATATGAGTGAAAAAAGTTACGATCTAGGTCTATTTCAGACTT
* * *
11274846 TTTATGTTGTTAAAGGGTAAATTTATAGTTATGTAGTTATTATTCTATTTTAACATTTAGATAGC
65 TTTATGCTGTTAAAGGGTAAAATTATAATTATGTAGTTATTATTCTATTTTAACATTTAGATAGC
* *
11274911 TTAAATACATAATATTAAACTTGTCTAAATGATTGAACATGATTTTCATGGTTGATATGTGTGAA
130 TTAAATACACAATATTAAACTTGTCTAAATGATTGAACATGATTTTCATGGTTGATACGTGTGAA
* * * * * * * **
11274976 AAGGTTAAGATTTATGTTTTTTTAAGATTTTTTATGTTGTTGAAAGGCAAAAATGCAAGTTTGTA
195 AAAGTTAAGATTTATATTTGTTTAAGATCTTTTATGCTGTTGAAAAGCAAAAATACAAGTTTACA
* *
11275041 GTTATTTTTTTGTTTTAACAGTTAAGATAGCTTCAATACATGATATTAAACTTATCCAAATAATT
260 GTTATTGTTTTATTTTAACAGTTAAGATAGCTTCAATACATGATATTAAACTTATCCAAATAATT
* * * *
11275106 GAACTTGGTTTTCATGGTTTATATGTATGAAAAAGTTACCTTTTATATCTGTTTAAAACTTTTTG
325 GAACTTGGTTTCCATGGTATATATGTATGAAAAAGTTACCGTTTATATCTGTTTAAAACTTTTTA
* * *
11275171 TGCTATTAAAAGGAAAAAATACAAGTTTACAGTTATTGTTCTATTTTAACAATTTAGATAGCTTC
390 TGCCATTAAAAGGAAAAAATA-AAGTTTACAGTTATTGTTATATTTTAACAATTTAGATAGCTTA
*
11275236 AATACATTAT
454 AATACATGAT
* *
11275246 ATTAAACTTAGTTTTCACGATTGATATGTGTGAAAAAA-TTACGATTTAGGTCTATTTCAGACTT
1 ATTAAACTT-GTTTTCACGATTGATATGAGTGAAAAAAGTTACGATCTAGGTCTATTTCAGACTT
11275310 TTTAT-CTGTTAAAGGGTAAAATTATAATTATGTAGTTATTATTCTATTTTAACAGTTTAGATAG
65 TTTATGCTGTTAAAGGGTAAAATTATAATTATGTAGTTATTATTCTATTTTAACA-TTTAGATAG
* * * * * *
11275374 CTTAAATACACAATATTAAACTTGTTTGAATGATTGCACTTGTTTTTCATTGTTGATACGTGTGA
129 CTTAAATACACAATATTAAACTTGTCTAAATGATTGAACATGATTTTCATGGTTGATACGTGTG-
** * * * *
11275439 AAAAAGTTGTGGTTTATATTTGTTTAGGATCTTTTATGCTGTTGAAAAGTAACAATACAAGTTTA
193 AAAAAGTTAAGATTTATATTTGTTTAAGATCTTTTATGCTGTTGAAAAGCAAAAATACAAGTTTA
* * *
11275504 CAGTTATTGTTTTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGTCCAAATTA
258 CAGTTATTGTTTTATTTTAACAGTTAAGATAGCTTCAATACATGATATTAAACTTATCCAAATAA
* * * **
11275569 TTGAACTTGGTTTCCATGGTATATATGTGTGAAAAAGTTATCGTTTAT-GCTTGTTTATGACTTT
323 TTGAACTTGGTTTCCATGGTATATATGTATGAAAAAGTTACCGTTTATATC-TGTTTAAAACTTT
* * * * ** * * * * *
11275633 TTATGCCGTTAAAGGGTACAAAAGT-AATTTTGTAGTTGTAT-TTATGTTTTAATAGTTTATATA
387 TTATGCCATTAAAAGG-A-AAAAATAAAGTTTACAGTTAT-TGTTATATTTTAACAATTTAGATA
*
11275696 GCTTAAATATATGAT
449 GCTTAAATACATGAT
11275711 ATTAAACTTGTTT
1 ATTAAACTTGTTT
11275724 GAATGATGAT
Statistics
Matches: 408, Mismatches: 64, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
463 46 0.11
464 97 0.24
465 258 0.63
466 2 0.00
467 5 0.01
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (463 bp):
ATTAAACTTGTTTTCACGATTGATATGAGTGAAAAAAGTTACGATCTAGGTCTATTTCAGACTTT
TTATGCTGTTAAAGGGTAAAATTATAATTATGTAGTTATTATTCTATTTTAACATTTAGATAGCT
TAAATACACAATATTAAACTTGTCTAAATGATTGAACATGATTTTCATGGTTGATACGTGTGAAA
AAGTTAAGATTTATATTTGTTTAAGATCTTTTATGCTGTTGAAAAGCAAAAATACAAGTTTACAG
TTATTGTTTTATTTTAACAGTTAAGATAGCTTCAATACATGATATTAAACTTATCCAAATAATTG
AACTTGGTTTCCATGGTATATATGTATGAAAAAGTTACCGTTTATATCTGTTTAAAACTTTTTAT
GCCATTAAAAGGAAAAAATAAAGTTTACAGTTATTGTTATATTTTAACAATTTAGATAGCTTAAA
TACATGAT
Found at i:11280152 original size:20 final size:19
Alignment explanation
Indices: 11280137--11280176 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11280127 CTATTATAAT
11280137 TAAATAAAAAAAATTAAAA
1 TAAATAAAAAAAATTAAAA
*
11280156 TAAATAAAAATGAATTAAAA
1 TAAATAAAAA-AAATTAAAA
11280176 T
1 T
11280177 TCATAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (19 bp):
TAAATAAAAAAAATTAAAA
Found at i:11289590 original size:34 final size:33
Alignment explanation
Indices: 11289547--11289621 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 33
11289537 ATTCGAGCTC
* *
11289547 CTTAGAAATGAATTTTCAG-TAAGCCTTTAAGGCT
1 CTTA-AAATGAATTTT-AGAAAAGCCTTAAAGGCT
* *
11289581 CTCTAAAATGTATTTTTGAAAAGCCTTAAAGGCT
1 CT-TAAAATGAATTTTAGAAAAGCCTTAAAGGCT
11289615 CTTAAAA
1 CTTAAAA
11289622 GCTCTTGGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
33 6 0.17
34 27 0.77
35 2 0.06
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (33 bp):
CTTAAAATGAATTTTAGAAAAGCCTTAAAGGCT
Found at i:11289708 original size:34 final size:34
Alignment explanation
Indices: 11289641--11289713 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
11289631 AATCCATTTT
* * *
11289641 CATTTTTGAGAAGCCTTAAAGGCTATTGTAAATC
1 CATTTATGAGAAGCCTTAAAGGCTATCGAAAATC
* **
11289675 CATTTATGAGAAGCCTTTAAGTTTATCGAAAATC
1 CATTTATGAGAAGCCTTAAAGGCTATCGAAAATC
11289709 CATTT
1 CATTT
11289714 TCGAGAAACC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (34 bp):
CATTTATGAGAAGCCTTAAAGGCTATCGAAAATC
Found at i:11289798 original size:34 final size:34
Alignment explanation
Indices: 11289727--11289809 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 34
11289717 AGAAACCTCA
**
11289727 TTTCTAAAAATATAACATAAATTTCAAAATTTTAT
1 TTTC-AAAAATATAACATAAATTTCAAAATTGGAT
* *
11289762 TTTCAAAAATATATCATAATTTTCAGAAA-TGGAT
1 TTTCAAAAATATAACATAAATTTCA-AAATTGGAT
* *
11289796 TTTCGAAAACATAA
1 TTTCAAAAATATAA
11289810 AAAATCTAGA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
34 33 0.82
35 7 0.17
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.39
Consensus pattern (34 bp):
TTTCAAAAATATAACATAAATTTCAAAATTGGAT
Found at i:11291552 original size:17 final size:17
Alignment explanation
Indices: 11291507--11291559 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
11291497 GTATTTTAAT
11291507 TTTTTTATATAATAAAA
1 TTTTTTATATAATAAAA
* *
11291524 TTTTATGTATAATAAAA
1 TTTTTTATATAATAAAA
* *
11291541 TTTTTTAAATAAAAAAA
1 TTTTTTATATAATAAAA
11291558 TT
1 TT
11291560 AAGCTTTTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
TTTTTTATATAATAAAA
Found at i:11294526 original size:22 final size:22
Alignment explanation
Indices: 11294436--11294756 Score: 83
Period size: 22 Copynumber: 15.2 Consensus size: 22
11294426 TAACATAAGT
* *
11294436 TAAATTAAAGATAACTTAACA-
1 TAAATTAATGATAACTTAATAG
**
11294457 TAAA--AAGGTGATAACTTGGTAG
1 TAAATTAA--TGATAACTTAATAG
* * * * * *
11294479 TTAATTATTGATGACGTAGTAA
1 TAAATTAATGATAACTTAATAG
11294501 TAAATTAATGATAACTTAATAG
1 TAAATTAATGATAACTTAATAG
* *
11294523 TAAATTAGTGATAATTTAATAG
1 TAAATTAATGATAACTTAATAG
* *
11294545 TTAATT--TCAGT--C-TAATAG
1 TAAATTAATGA-TAACTTAATAG
11294563 T-AATTAATTGAT-A--T--TAG
1 TAAATTAA-TGATAACTTAATAG
* * *
11294580 TAAA-TAATAAATAATTTAGTAG
1 TAAATTAAT-GATAACTTAATAG
* * * * * *
11294602 TGAATCAATTATAAATTAGTAA
1 TAAATTAATGATAACTTAATAG
* *
11294624 TAAA-TAATTGATAATTTAGTAG
1 TAAATTAA-TGATAACTTAATAG
* * * * *
11294646 TTATTTATTGAAAACTTAAAAG
1 TAAATTAATGATAACTTAATAG
*
11294668 TAAATCAAT-ATAACTTAATAG
1 TAAATTAATGATAACTTAATAG
* * *
11294689 TAAA-TCATCAATAA--TAATAA
1 TAAATTAAT-GATAACTTAATAG
*
11294709 TTAATTAATGATAACTTAATAG
1 TAAATTAATGATAACTTAATAG
* *
11294731 TAAA-TCATGCATAATTTAATA-
1 TAAATTAATG-ATAACTTAATAG
11294752 TAAAT
1 TAAAT
11294757 CGGTAATAAC
Statistics
Matches: 217, Mismatches: 56, Indels: 53
0.67 0.17 0.16
Matches are distributed among these distances:
16 1 0.00
17 13 0.06
18 10 0.05
19 4 0.02
20 19 0.09
21 41 0.19
22 123 0.57
23 5 0.02
24 1 0.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.37
Consensus pattern (22 bp):
TAAATTAATGATAACTTAATAG
Found at i:11294780 original size:43 final size:44
Alignment explanation
Indices: 11294677--11294801 Score: 125
Period size: 43 Copynumber: 2.9 Consensus size: 44
11294667 GTAAATCAAT
* *** *
11294677 ATAACTTAATAGTAAATCATCA-ATAA--TAATAATTAATTAATG
1 ATAACTTAATAGTAAATCAT-AGATAATTTAATAATAAATCGGTA
11294719 ATAACTTAATAGTAAATCAT-GCATAATTTAAT-ATAAATCGGTA
1 ATAACTTAATAGTAAATCATAG-ATAATTTAATAATAAATCGGTA
** *
11294762 ATAACTTGGTAGTAAATCATAGATAATTTAGTAATAAATC
1 ATAACTTAATAGTAAATCATAGATAATTTAATAATAAATC
11294802 AATGATAATT
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
42 24 0.35
43 33 0.48
44 12 0.17
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.35
Consensus pattern (44 bp):
ATAACTTAATAGTAAATCATAGATAATTTAATAATAAATCGGTA
Found at i:11294808 original size:22 final size:22
Alignment explanation
Indices: 11294590--11294910 Score: 90
Period size: 22 Copynumber: 14.8 Consensus size: 22
11294580 TAAATAATAA
* * *
11294590 ATAATTTAGTAGTGAATCAATT
1 ATAATTTAGTAATAAATCAATG
*
11294612 ATAAATTAGTAATAAAT-AATTG
1 ATAATTTAGTAATAAATCAA-TG
* * * * *
11294634 ATAATTTAGTAGTTATTTATTG
1 ATAATTTAGTAATAAATCAATG
* * *
11294656 AAAACTTA-AAAGTAAATCAAT-
1 ATAATTTAGTAA-TAAATCAATG
* * * *
11294677 ATAACTTAATAGTAAATC-ATCA
1 ATAATTTAGTAATAAATCAAT-G
* * *
11294699 ATAA--TAATAATTAATTAATG
1 ATAATTTAGTAATAAATCAATG
* * *
11294719 ATAACTTAATAGTAAATC-ATG
1 ATAATTTAGTAATAAATCAATG
* ** *
11294740 CATAATTTAAT-ATAAATCGGTA
1 -ATAATTTAGTAATAAATCAATG
* * *
11294762 ATAACTTGGTAGTAAATC-ATAG
1 ATAATTTAGTAATAAATCAAT-G
11294784 ATAATTTAGTAATAAATCAATG
1 ATAATTTAGTAATAAATCAATG
* * *
11294806 ATAATTTTA-TGACAAAT-AATTT
1 ATAA-TTTAGTAATAAATCAA-TG
* * * *
11294828 AAAACTAAGTAGTAAATCAATG
1 ATAATTTAGTAATAAATCAATG
** * *
11294850 ATAACATAATAATAAAT-ATATA
1 ATAATTTAGTAATAAATCA-ATG
* * *
11294872 ATAATATAATAATAAATCATTG
1 ATAATTTAGTAATAAATCAATG
*
11294894 ATAATTTAGTAGTAAAT
1 ATAATTTAGTAATAAAT
11294911 TCATAACATT
Statistics
Matches: 217, Mismatches: 62, Indels: 40
0.68 0.19 0.13
Matches are distributed among these distances:
20 15 0.07
21 40 0.18
22 152 0.70
23 10 0.05
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.36
Consensus pattern (22 bp):
ATAATTTAGTAATAAATCAATG
Found at i:11294872 original size:11 final size:12
Alignment explanation
Indices: 11294855--11294888 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
11294845 CAATGATAAC
11294855 ATAATAATAAAT
1 ATAATAATAAAT
11294867 AT-ATAAT-AAT
1 ATAATAATAAAT
11294877 ATAATAATAAAT
1 ATAATAATAAAT
11294889 CATTGATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.25
11 10 0.50
12 5 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATAATAAAT
Found at i:11294942 original size:19 final size:19
Alignment explanation
Indices: 11294902--11294965 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
11294892 TGATAATTTA
* *
11294902 GTAGTAAATT-CATAACATT
1 GTAGTAAATTAC-TAATAAT
11294921 GTAGTAAATTACTAATAAT
1 GTAGTAAATTACTAATAAT
*
11294940 GTAATAGAAATTACTAATAAT
1 GTAGT--AAATTACTAATAAT
*
11294961 TTAGT
1 GTAGT
11294966 TGTAAAATAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 19 0.51
20 1 0.03
21 17 0.46
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (19 bp):
GTAGTAAATTACTAATAAT
Found at i:11295204 original size:22 final size:22
Alignment explanation
Indices: 11295016--11295208 Score: 101
Period size: 22 Copynumber: 8.8 Consensus size: 22
11295006 TAATAACTTT
* *
11295016 TAGTAAATAATTGGTAAATTAG
1 TAGTAAATCATTGATAAATTAG
*
11295038 TAGTAAATCAATT-ATAACGTTA-
1 TAGTAAATC-ATTGATAA-ATTAG
* ** *
11295060 TAATAAATCATCAATAACTTAG
1 TAGTAAATCATTGATAAATTAG
* *
11295082 TAGTAAAGT-ACT-A-ACAATTCAA
1 TAGTAAA-TCATTGATA-AATT-AG
* * *
11295104 T-GATAAATCATTAATAACTTAA
1 TAG-TAAATCATTGATAAATTAG
* * *
11295126 TAGCAAATCATTCATTAATTAG
1 TAGTAAATCATTGATAAATTAG
* * *
11295148 TAGCAAATTATTCATAAATTAG
1 TAGTAAATCATTGATAAATTAG
* *
11295170 TAATACATCATTGATAAATTAG
1 TAGTAAATCATTGATAAATTAG
*
11295192 TAGTAAATAATTGATAA
1 TAGTAAATCATTGATAA
11295209 TTATCAATCA
Statistics
Matches: 131, Mismatches: 28, Indels: 24
0.72 0.15 0.13
Matches are distributed among these distances:
20 1 0.01
21 11 0.08
22 106 0.81
23 12 0.09
24 1 0.01
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (22 bp):
TAGTAAATCATTGATAAATTAG
Found at i:11295503 original size:21 final size:19
Alignment explanation
Indices: 11295470--11295544 Score: 52
Period size: 21 Copynumber: 4.1 Consensus size: 19
11295460 AATATATTAG
**
11295470 TAAATTAATGATAGTTTAA
1 TAAATTAATGATAACTTAA
11295489 TAAATATAATTGATAACTTAA
1 TAAAT-TAA-TGATAACTTAA
* *
11295510 T-AA-TAAT-TTAA--TAG
1 TAAATTAATGATAACTTAA
*
11295524 TAAATTAGTGATAACTTAA
1 TAAATTAATGATAACTTAA
11295543 TA
1 TA
11295545 GTAAATCACT
Statistics
Matches: 42, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
14 3 0.07
15 2 0.05
16 6 0.14
17 4 0.10
18 3 0.07
19 9 0.21
20 5 0.12
21 10 0.24
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (19 bp):
TAAATTAATGATAACTTAA
Found at i:11295718 original size:21 final size:21
Alignment explanation
Indices: 11295681--11295733 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
11295671 CTTAATAGTG
*
11295681 GTTAATTATAAAAAACTTAATA
1 GTTAATTAT-GAAAACTTAATA
*
11295703 GTTAATTATGAAAACTTGATA
1 GTTAATTATGAAAACTTAATA
*
11295724 GTAAATTATG
1 GTTAATTATG
11295734 GATAATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 19 0.68
22 9 0.32
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (21 bp):
GTTAATTATGAAAACTTAATA
Found at i:11295806 original size:22 final size:22
Alignment explanation
Indices: 11295725--11295816 Score: 73
Period size: 22 Copynumber: 4.2 Consensus size: 22
11295715 AACTTGATAG
* *
11295725 TAAATTATGGATAATTTAAT-A
1 TAAATCATGGATAATTTTATAA
* * *
11295746 TACATCA-GTGACAATTTAATAA
1 TAAATCATG-GATAATTTTATAA
*
11295768 TAAATCATGGTTAATTTTATAA
1 TAAATCATGGATAATTTTATAA
* *
11295790 TAAATC-TGTGATGATTTTATAG
1 TAAATCATG-GATAATTTTATAA
11295812 TAAAT
1 TAAAT
11295817 AATCAAAAAC
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
20 1 0.02
21 17 0.30
22 38 0.67
23 1 0.02
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.41
Consensus pattern (22 bp):
TAAATCATGGATAATTTTATAA
Found at i:11296012 original size:33 final size:33
Alignment explanation
Indices: 11295975--11296085 Score: 100
Period size: 33 Copynumber: 3.4 Consensus size: 33
11295965 TAACTTAATT
* *
11295975 AATTATTAATAACTTTGTAGTAAATTATCAACA
1 AATTATTAGTAACTTAGTAGTAAATTATCAACA
* * * *
11296008 AATTAATAGTAAATAAGTTA-TAACTTTAT-AACA
1 AATTATTAGTAACTTAG-TAGTAA-ATTATCAACA
* *
11296041 AATCATTAGTAACTTAGTAGTAAATTATCAATA
1 AATTATTAGTAACTTAGTAGTAAATTATCAACA
* *
11296074 ATTTAGTAGTAA
1 AATTATTAGTAA
11296086 ATCAGTAATA
Statistics
Matches: 59, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
32 6 0.10
33 47 0.80
34 6 0.10
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.38
Consensus pattern (33 bp):
AATTATTAGTAACTTAGTAGTAAATTATCAACA
Found at i:11296063 original size:11 final size:11
Alignment explanation
Indices: 11296047--11296111 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
11296037 AACAAATCAT
*
11296047 TAGTAACTTAG
1 TAGTAAATTAG
11296058 TAGTAAATTA-
1 TAGTAAATTAG
* *
11296068 TCAATAATTTAG
1 T-AGTAAATTAG
*
11296080 TAGTAAATCAG
1 TAGTAAATTAG
* *
11296091 TAATAACTTAG
1 TAGTAAATTAG
*
11296102 TAATAAATTA
1 TAGTAAATTA
11296112 TTCATAAGTT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
10 1 0.02
11 40 0.95
12 1 0.02
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (11 bp):
TAGTAAATTAG
Found at i:11296065 original size:22 final size:22
Alignment explanation
Indices: 11296040--11296220 Score: 104
Period size: 22 Copynumber: 8.3 Consensus size: 22
11296030 ACTTTATAAC
11296040 AAATCATTAGTAACTTAGTAGT
1 AAATCATTAGTAACTTAGTAGT
* * * *
11296062 AAATTATCAATAATTTAGTAGT
1 AAATCATTAGTAACTTAGTAGT
* * *
11296084 AAATCAGTAATAACTTAGTAAT
1 AAATCATTAGTAACTTAGTAGT
* *
11296106 AAATTATTCA-TAAGTTAGTCA-T
1 AAATCATT-AGTAACTTAGT-AGT
* *
11296128 AAATCATTCA-TAAGTTAGTTGT
1 AAATCATT-AGTAACTTAGTAGT
* * * *
11296150 AAATCAATACTAA-TTTGAAGT
1 AAATCATTAGTAACTTAGTAGT
*
11296171 AAATCATT-GATAATTTAGTAGT
1 AAATCATTAG-TAACTTAGTAGT
* * *
11296193 ATATCATT-GATAACTTAATAAT
1 AAATCATTAG-TAACTTAGTAGT
11296215 AAATCA
1 AAATCA
11296221 ATGATAATTT
Statistics
Matches: 126, Mismatches: 27, Indels: 12
0.76 0.16 0.07
Matches are distributed among these distances:
21 16 0.13
22 108 0.86
23 2 0.02
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (22 bp):
AAATCATTAGTAACTTAGTAGT
Found at i:11296088 original size:44 final size:44
Alignment explanation
Indices: 11296040--11296193 Score: 131
Period size: 44 Copynumber: 3.5 Consensus size: 44
11296030 ACTTTATAAC
11296040 AAATCATTAGTAACTTAGTAGTAAATTATCAATAATTTAGTAGT
1 AAATCATTAGTAACTTAGTAGTAAATTATCAATAATTTAGTAGT
* * * *
11296084 AAATCAGTAATAACTTAGTAATAAATTATTC-ATAAGTTAGTCA-T
1 AAATCATTAGTAACTTAGTAGTAAATTA-TCAATAATTTAGT-AGT
* * * * *
11296128 AAATCATTCA-TAAGTTAGTTGTAAATCAAT-ACTAATTT-GAAGT
1 AAATCATT-AGTAACTTAGTAGTAAAT-TATCAATAATTTAGTAGT
*
11296171 AAATCATT-GATAATTTAGTAGTA
1 AAATCATTAG-TAACTTAGTAGTA
11296194 TATCATTGAT
Statistics
Matches: 88, Mismatches: 14, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 21 0.24
44 61 0.69
45 5 0.06
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.38
Consensus pattern (44 bp):
AAATCATTAGTAACTTAGTAGTAAATTATCAATAATTTAGTAGT
Found at i:11296124 original size:66 final size:65
Alignment explanation
Indices: 11295944--11296155 Score: 184
Period size: 66 Copynumber: 3.3 Consensus size: 65
11295934 AATTTAGTTA
* * * * *
11295944 AAATTAGTAGTAATTTAGTAGTAAC--T-TAATTAATTATTAATAACTTTGTAGTAAATTATCAA
1 AAATTAGTAGTAAATCAGTAATAACTTTATAATAAATTATT-ATAACTTAGTAGTAAATTATCAA
*
11296006 C
65 T
* * * * *
11296007 AAATTAATAGTAAATAAGTTATAACTTTATAACAAATCATTAGTAACTTAGTAGTAAATTATCAA
1 AAATTAGTAGTAAATCAGTAATAACTTTATAATAAATTATTA-TAACTTAGTAGTAAATTATCAA
11296072 T
65 T
* * *
11296073 AATTTAGTAGTAAATCAGTAATAAC-TTAGTAATAAATTATTCATAAGTTAGTCA-TAAATCATT
1 AAATTAGTAGTAAATCAGTAATAACTTTA-TAATAAATTATT-ATAACTTAGT-AGTAAATTA-T
11296136 C-AT
62 CAAT
* *
11296139 AAGTTAGTTGTAAATCA
1 AAATTAGTAGTAAATCA
11296156 ATACTAATTT
Statistics
Matches: 121, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
63 20 0.17
65 5 0.04
66 92 0.76
67 4 0.03
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (65 bp):
AAATTAGTAGTAAATCAGTAATAACTTTATAATAAATTATTATAACTTAGTAGTAAATTATCAAT
Found at i:11296225 original size:22 final size:22
Alignment explanation
Indices: 11296071--11296249 Score: 92
Period size: 22 Copynumber: 8.2 Consensus size: 22
11296061 TAAATTATCA
* * * *
11296071 ATAATTTAGTAGTAAATCAGTA
1 ATAATTTAATAATAAATCATTG
* * * *
11296093 ATAACTTAGTAATAAATTATTC
1 ATAATTTAATAATAAATCATTG
* * * *
11296115 ATAAGTTAGTCATAAATCATTC
1 ATAATTTAATAATAAATCATTG
* * ** *
11296137 ATAAGTTAGTTGTAAATCAAT-
1 ATAATTTAATAATAAATCATTG
* *
11296158 ACTAATTTGA-AGTAAATCATTG
1 A-TAATTTAATAATAAATCATTG
* * *
11296180 ATAATTTAGTAGTATATCATTG
1 ATAATTTAATAATAAATCATTG
* *
11296202 ATAACTTAATAATAAATCAATG
1 ATAATTTAATAATAAATCATTG
* * *
11296224 ATAATTTAATTATCAATCACTG
1 ATAATTTAATAATAAATCATTG
11296246 ATAA
1 ATAA
11296250 ATTTTTTTAT
Statistics
Matches: 126, Mismatches: 28, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
21 16 0.13
22 110 0.87
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.38
Consensus pattern (22 bp):
ATAATTTAATAATAAATCATTG
Found at i:11296593 original size:21 final size:21
Alignment explanation
Indices: 11296568--11296629 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
11296558 ATTAACATTT
* *
11296568 TATAAAAAATTTCTAAAATTA
1 TATAAAAAATTACCAAAATTA
**
11296589 TATAAATGATTACCAAAATTA
1 TATAAAAAATTACCAAAATTA
* **
11296610 TATCAAAGGTTACCAAAATT
1 TATAAAAAATTACCAAAATT
11296630 TTATCAAAGG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.34
Consensus pattern (21 bp):
TATAAAAAATTACCAAAATTA
Found at i:11296634 original size:21 final size:21
Alignment explanation
Indices: 11296582--11296649 Score: 93
Period size: 21 Copynumber: 3.2 Consensus size: 21
11296572 AAAAATTTCT
*
11296582 AAAATTATAT-AAATGATTACC
1 AAAATTATATCAAA-GGTTACC
11296603 AAAATTATATCAAAGGTTACC
1 AAAATTATATCAAAGGTTACC
* *
11296624 AAAATTTTATCAAAGGTTATC
1 AAAATTATATCAAAGGTTACC
11296645 AAAAT
1 AAAAT
11296650 CAAAATTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
21 40 0.93
22 3 0.07
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAATTATATCAAAGGTTACC
Found at i:11298351 original size:15 final size:17
Alignment explanation
Indices: 11298327--11298361 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
11298317 ATTGATTAAA
*
11298327 TTATTTTAAAT-ATATT
1 TTATTTAAAATAATATT
11298343 TTATTTAAAATAATATT
1 TTATTTAAAATAATATT
11298360 TT
1 TT
11298362 TTATTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATTTAAAATAATATT
Found at i:11305410 original size:114 final size:115
Alignment explanation
Indices: 11305283--11305495 Score: 338
Period size: 114 Copynumber: 1.9 Consensus size: 115
11305273 AAAAAAATAC
* * * * *
11305283 TAAAAGTGGTTGACTAAACACTTTATAAAATTTTAATTCTAAAAATATTAAAAGCAATTGATTAA
1 TAAAAGTGATTGACTAAACACTTAACAAAATTTTAATTCCAAAAATATTAAAAACAATTGATTAA
*
11305348 AATATCATTAGTAA-TTTTTTATGCTAATTTAGTTAGACTGAAAAAGTGT
66 AATATCATTAGTAATTTTTTTATACTAATTTAGTTAGACTGAAAAAGTGT
**
11305397 TAAAAGTGATTGACTAAACACTTAACAAAATTTTAATTCCAAAAATATTAAAAATGATTGATTAA
1 TAAAAGTGATTGACTAAACACTTAACAAAATTTTAATTCCAAAAATATTAAAAACAATTGATTAA
*
11305462 AATATCATTAGTAATTTTTTTATATTAATTTAGT
66 AATATCATTAGTAATTTTTTTATACTAATTTAGT
11305496 AATAAATCAT
Statistics
Matches: 89, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
114 72 0.81
115 17 0.19
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.39
Consensus pattern (115 bp):
TAAAAGTGATTGACTAAACACTTAACAAAATTTTAATTCCAAAAATATTAAAAACAATTGATTAA
AATATCATTAGTAATTTTTTTATACTAATTTAGTTAGACTGAAAAAGTGT
Found at i:11305599 original size:22 final size:22
Alignment explanation
Indices: 11305550--11305599 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
11305540 AGTAAATTGC
11305550 TAATAACATAATAATAAATTAA
1 TAATAACATAATAATAAATTAA
* * * * *
11305572 TGATAACTTAATTATTAATTAT
1 TAATAACATAATAATAAATTAA
11305594 TAATAA
1 TAATAA
11305600 ATTTTCTTAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (22 bp):
TAATAACATAATAATAAATTAA
Found at i:11305971 original size:34 final size:35
Alignment explanation
Indices: 11305933--11306003 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 35
11305923 ATTTTTTAAA
** * *
11305933 TTATGTATTTTAATATTTTTT-ATATAATAAAAAT
1 TTATGTATAATAAAATTTTTTAATATAAGAAAAAT
11305967 TTATGTATAATAAAATTTTTTAAATATAAGAAAAAT
1 TTATGTATAATAAAATTTTTT-AATATAAGAAAAAT
11306003 T
1 T
11306004 AAGCTTTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 18 0.58
36 13 0.42
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.49
Consensus pattern (35 bp):
TTATGTATAATAAAATTTTTTAATATAAGAAAAAT
Found at i:11307306 original size:12 final size:12
Alignment explanation
Indices: 11307289--11307313 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11307279 AGTGCAAATT
11307289 TTATAAACACAA
1 TTATAAACACAA
11307301 TTATAAACACAA
1 TTATAAACACAA
11307313 T
1 T
11307314 GAAAATTTAA
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:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (12 bp):
TTATAAACACAA
Found at i:11308122 original size:22 final size:22
Alignment explanation
Indices: 11308097--11308413 Score: 88
Period size: 22 Copynumber: 14.6 Consensus size: 22
11308087 GACTTGGTAA
*
11308097 TAAATTAGTAATAACTTAATAG
1 TAAATTAATAATAACTTAATAG
* * *
11308119 TAAATGAATGATAATTTAATAG
1 TAAATTAATAATAACTTAATAG
* * * * **
11308141 TCAA-TAGTTGATAATTTTTTAG
1 TAAATTA-ATAATAACTTAATAG
* *
11308163 TAAA-TATGTAATAA-TATAATAA
1 TAAATTA-ATAATAACT-TAATAG
* *
11308185 TATATGT-ATAAT-ACTTCAATGG
1 TAAAT-TAATAATAACTT-AATAG
*
11308207 TAAATTAATTATAA-TATAATTA-
1 TAAATTAATAATAACT-TAA-TAG
** * * * *
11308229 TAAATGCATAATAGCATAGTAT
1 TAAATTAATAATAACTTAATAG
*
11308251 TAAATTAA-AGATAACTTAACA-
1 TAAATTAATA-ATAACTTAATAG
* * *
11308272 AAAAATAAGTAATAACTTAAAAG
1 TAAATTAA-TAATAACTTAATAG
* * * *
11308295 TTAATTATTAATAACCTAATAA
1 TAAATTAATAATAACTTAATAG
* * *
11308317 TAAATCAATGATAACTTAATAA
1 TAAATTAATAATAACTTAATAG
* * *
11308339 TAAATGAATGATAATTTAATAG
1 TAAATTAATAATAACTTAATAG
*
11308361 TAAA-TAAT--TGA--TAATAG
1 TAAATTAATAATAACTTAATAG
*
11308378 TAAA-TAATAAATAACTTAGTAG
1 TAAATTAAT-AATAACTTAATAG
* *
11308400 TAAATCAATTATAA
1 TAAATTAATAATAA
11308414 AGTAGTGATA
Statistics
Matches: 214, Mismatches: 59, Indels: 44
0.68 0.19 0.14
Matches are distributed among these distances:
17 14 0.07
19 2 0.01
20 2 0.01
21 17 0.08
22 167 0.78
23 11 0.05
24 1 0.00
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (22 bp):
TAAATTAATAATAACTTAATAG
Found at i:11308391 original size:17 final size:17
Alignment explanation
Indices: 11308355--11308391 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
11308345 AATGATAATT
**
11308355 TAATAGTAAATAATTGA
1 TAATAGTAAATAATAAA
11308372 TAATAGTAAATAATAAA
1 TAATAGTAAATAATAAA
11308389 TAA
1 TAA
11308392 CTTAGTAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (17 bp):
TAATAGTAAATAATAAA
Found at i:11308419 original size:22 final size:22
Alignment explanation
Indices: 11308375--11308444 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
11308365 TAATTGATAA
** **
11308375 TAGTAAATAATAAATAACTTAG
1 TAGTAAATAATTGATAAAGTAG
11308397 TAGTAAATCAATT-ATAAAGTAG
1 TAGTAAAT-AATTGATAAAGTAG
**
11308419 T-GATAAATAATTGATAATTTAG
1 TAG-TAAATAATTGATAAAGTAG
11308441 TAGT
1 TAGT
11308445 TACCAATTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
21 5 0.13
22 30 0.77
23 4 0.10
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (22 bp):
TAGTAAATAATTGATAAAGTAG
Found at i:11308669 original size:19 final size:18
Alignment explanation
Indices: 11308642--11308679 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
11308632 TTAAGTAGTA
*
11308642 AAATAATAATAATATAAT
1 AAATAATAAAAATATAAT
11308660 AAATATATAAAAATATAAT
1 AAATA-ATAAAAATATAAT
11308679 A
1 A
11308680 TAAATCATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATAATAAAAATATAAT
Found at i:11308734 original size:22 final size:21
Alignment explanation
Indices: 11308699--11308747 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
11308689 GATAATTTAG
* *
11308699 TAATAATTTCATAGTAAATCAC
1 TAATAATGTAATAG-AAATCAC
* *
11308721 TAATAATGTAATAGAAATTAT
1 TAATAATGTAATAGAAATCAC
11308742 TAATAA
1 TAATAA
11308748 CTTTGTTGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (21 bp):
TAATAATGTAATAGAAATCAC
Found at i:11308821 original size:44 final size:44
Alignment explanation
Indices: 11308776--11308861 Score: 104
Period size: 44 Copynumber: 1.9 Consensus size: 44
11308766 ATAATTTGGT
* *
11308776 AATAAATTATTTAATCA-TTAATAACTTTT-TAGTAAATTATCGGTA
1 AATAAA-TATTAAATCAGTT-ATAA-TTTTATAATAAATTATCGGTA
*
11308821 AATTAATATTAAATCAGTTATAATTTTATAATAAATTATCG
1 AATAAATATTAAATCAGTTATAATTTTATAATAAATTATCG
11308862 ATAACTTAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
43 4 0.11
44 25 0.69
45 7 0.19
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (44 bp):
AATAAATATTAAATCAGTTATAATTTTATAATAAATTATCGGTA
Found at i:11309324 original size:11 final size:11
Alignment explanation
Indices: 11309308--11309346 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
11309298 AGTTGATAAT
11309308 TAATAACTTAA
1 TAATAACTTAA
* *
11309319 TAATAAATCAA
1 TAATAACTTAA
*
11309330 TGATAACTTAA
1 TAATAACTTAA
11309341 TAATAA
1 TAATAA
11309347 ATTATAGATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (11 bp):
TAATAACTTAA
Found at i:11316720 original size:22 final size:22
Alignment explanation
Indices: 11316695--11316742 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
11316685 AACTTAGTAG
*
11316695 TAGTTAATCATCAATAGCTTAA
1 TAGTTAATCATCAATAACTTAA
**
11316717 TAGTTAATCATTGATAACTTAA
1 TAGTTAATCATCAATAACTTAA
11316739 TAGT
1 TAGT
11316743 AAATTATACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (22 bp):
TAGTTAATCATCAATAACTTAA
Found at i:11316755 original size:22 final size:22
Alignment explanation
Indices: 11316606--11316761 Score: 61
Period size: 22 Copynumber: 7.0 Consensus size: 22
11316596 ATAAATTGAG
*
11316606 TAGTAAATCATAAATAACTTAA
1 TAGTAAATCATACATAACTTAA
* * * *
11316628 TACTAAATCA-ATGATAATTTAG
1 TAGTAAATCATA-CATAACTTAA
* * *
11316650 TAGTTAATTATTAGA-AACTTAA
1 TAGTAAATCA-TACATAACTTAA
* * *
11316672 AAGTAAA--AAATATAACTTAGTA
1 TAGTAAATCATACATAACTTA--A
* *
11316694 GTAGTTAATCAT-CAATAGCTTAA
1 -TAGTAAATCATAC-ATAACTTAA
* **
11316717 TAGTTAATCATTGATAACTTAA
1 TAGTAAATCATACATAACTTAA
* *
11316739 TAGTAAATTATACATAATTTAA
1 TAGTAAATCATACATAACTTAA
11316761 T
1 T
11316762 TTTAACAATA
Statistics
Matches: 98, Mismatches: 25, Indels: 22
0.68 0.17 0.15
Matches are distributed among these distances:
19 2 0.02
20 7 0.07
21 1 0.01
22 71 0.72
23 8 0.08
24 1 0.01
25 8 0.08
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (22 bp):
TAGTAAATCATACATAACTTAA
Found at i:11316981 original size:22 final size:22
Alignment explanation
Indices: 11316954--11317007 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
11316944 AATAGCGTAA
11316954 TAGTAAATTACTAATAATTTAG
1 TAGTAAATTACTAATAATTTAG
* *
11316976 TTGTAAATTAGTAATAATTTAG
1 TAGTAAATTACTAATAATTTAG
11316998 TAGTAAATTA
1 TAGTAAATTA
11317008 ATTAATCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (22 bp):
TAGTAAATTACTAATAATTTAG
Found at i:11317119 original size:22 final size:22
Alignment explanation
Indices: 11317089--11317177 Score: 88
Period size: 22 Copynumber: 4.0 Consensus size: 22
11317079 CAAAAATGAT
*
11317089 TAGTAAATCATTTATAATTTAA
1 TAGTAAATCATTGATAATTTAA
* ** * *
11317111 TGGTAAATCATTTTTAAATTAG
1 TAGTAAATCATTGATAATTTAA
* * *
11317133 TAGTACATCATTGATAACTTGA
1 TAGTAAATCATTGATAATTTAA
*
11317155 TAGTAAATAATTGATAATTTAA
1 TAGTAAATCATTGATAATTTAA
11317177 T
1 T
11317178 TGTCAATTAT
Statistics
Matches: 52, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.43
Consensus pattern (22 bp):
TAGTAAATCATTGATAATTTAA
Found at i:11317499 original size:22 final size:22
Alignment explanation
Indices: 11317476--11317954 Score: 187
Period size: 22 Copynumber: 21.7 Consensus size: 22
11317466 AACTTAGTAC
* *
11317476 TTAATAATAAATCAATAATAAC
1 TTAATAATAAATTAATAATAAT
* * *
11317498 TTAATAGTAAATTAGTGATAAT
1 TTAATAATAAATTAATAATAAT
* *
11317520 TTAATAATAAATTAGT-TTCAAT
1 TTAATAATAAATTAATAAT-AAT
11317542 TTAATAAT-AATTAATTAATAAAT
1 TTAATAATAAATTAA-TAAT-AAT
* * *
11317565 TTAATAGTAAA-TCATGAATAAC
1 TTAATAATAAATTAAT-AATAAT
* *
11317587 TTAATAGA-AAATCAATGATAAT
1 TTAATA-ATAAATTAATAATAAT
* * * *
11317609 TTAATAGTTAATTATTAAAAAT
1 TTAATAATAAATTAATAATAAT
*
11317631 TTAA-AAGTAAATTAAT-ATAAC
1 TTAATAA-TAAATTAATAATAAT
*
11317652 TTAATAATAGTTAA-TCATCAATAAT
1 TTAATAATA---AATTAAT-AATAAT
* * *
11317677 TTAATAGTTAATTAATGATAAT
1 TTAATAATAAATTAATAATAAT
* *
11317699 TTAATAGTAAATT-ATGGATAAT
1 TTAATAATAAATTAAT-AATAAT
* *
11317721 TTAAT-ATAAATTAATGATAAC
1 TTAATAATAAATTAATAATAAT
* * * **
11317742 TTCATAATGAA-TCATGGTTAAT
1 TTAATAATAAATTAAT-AATAAT
* *
11317764 TTTATAATAAATCT-ATGATAAT
1 TTAATAATAAAT-TAATAATAAT
** * * *
11317786 TTTGTAGTAAA-TAATAAAAAA
1 TTAATAATAAATTAATAATAAT
*
11317807 TTAAGTAATAAATTAATGATAAT
1 TTAA-TAATAAATTAATAATAAT
* * * ** *
11317830 ATAGTAGTAAATGCATAATAAC
1 TTAATAATAAATTAATAATAAT
* * * *
11317852 ATAATAGTAAATTATTGATAAT
1 TTAATAATAAATTAATAATAAT
* * *
11317874 TTAGAT-ATAAATTATTGATAAG
1 TTA-ATAATAAATTAATAATAAT
* * * *
11317896 TTAGTAGTAAATCACTAATAAT
1 TTAATAATAAATTAATAATAAT
* *
11317918 TTAATTATAAA-TAATTGATAA-
1 TTAATAATAAATTAA-TAATAAT
*
11317939 TTAGTAATAAATTAAT
1 TTAATAATAAATTAAT
11317955 TAATCATTGA
Statistics
Matches: 341, Mismatches: 87, Indels: 59
0.70 0.18 0.12
Matches are distributed among these distances:
20 1 0.00
21 55 0.16
22 232 0.68
23 37 0.11
24 5 0.01
25 11 0.03
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.39
Consensus pattern (22 bp):
TTAATAATAAATTAATAATAAT
Found at i:11317503 original size:11 final size:11
Alignment explanation
Indices: 11317476--11317954 Score: 94
Period size: 11 Copynumber: 43.5 Consensus size: 11
11317466 AACTTAGTAC
11317476 TTAATAATAAA
1 TTAATAATAAA
* *
11317487 TCAATAATAAC
1 TTAATAATAAA
*
11317498 TTAATAGTAAA
1 TTAATAATAAA
* * *
11317509 TTAGTGATAAT
1 TTAATAATAAA
11317520 TTAATAATAAA
1 TTAATAATAAA
* * *
11317531 TTAGT-TTCAAT
1 TTAATAAT-AAA
11317542 TTAATAAT-AA
1 TTAATAATAAA
11317552 TTAATTAATAAA
1 TTAA-TAATAAA
*
11317564 TTTAATAGTAAA
1 -TTAATAATAAA
* *
11317576 -TCATGAATAAC
1 TTAAT-AATAAA
11317587 TTAATAGA-AAA
1 TTAATA-ATAAA
* * *
11317598 TCAATGATAAT
1 TTAATAATAAA
* *
11317609 TTAATAGTTAA
1 TTAATAATAAA
*
11317620 TTATTAA-AAA
1 TTAATAATAAA
11317630 TTTAA-AAGTAAA
1 -TTAATAA-TAAA
*
11317642 TTAAT-ATAAC
1 TTAATAATAAA
11317652 TTAATAATAGTTAA
1 TTAATAATA---AA
* *
11317666 -TCATCAATAAT
1 TTAAT-AATAAA
* *
11317677 TTAATAGTTAA
1 TTAATAATAAA
* *
11317688 TTAATGATAAT
1 TTAATAATAAA
*
11317699 TTAATAGTAAA
1 TTAATAATAAA
* *
11317710 TT-ATGGATAAT
1 TTAAT-AATAAA
11317721 TTAAT-ATAAA
1 TTAATAATAAA
* *
11317731 TTAATGATAAC
1 TTAATAATAAA
* *
11317742 TTCATAATGAA
1 TTAATAATAAA
* ** *
11317753 -TCATGGTTAAT
1 TTAAT-AATAAA
*
11317764 TTTATAATAAA
1 TTAATAATAAA
* *
11317775 TCT-ATGATAAT
1 T-TAATAATAAA
** *
11317786 TTTGTAGTAAA
1 TTAATAATAAA
*
11317797 -TAATAAAAAA
1 TTAATAATAAA
11317807 TTAAGTAATAAA
1 TTAA-TAATAAA
*
11317819 TTAATGAT-AA
1 TTAATAATAAA
* *
11317829 TATAGTAGTAAA
1 T-TAATAATAAA
**
11317841 TGCATAATAACA
1 TTAATAATAA-A
*
11317853 -TAATAGTAAA
1 TTAATAATAAA
* * *
11317863 TTATTGATAAT
1 TTAATAATAAA
11317874 TTAGAT-ATAAA
1 TTA-ATAATAAA
* * *
11317885 TTATTGATAAG
1 TTAATAATAAA
* *
11317896 TTAGTAGTAAA
1 TTAATAATAAA
* * *
11317907 TCACTAATAAT
1 TTAATAATAAA
*
11317918 TTAATTATAAA
1 TTAATAATAAA
*
11317929 -TAATTGAT-AA
1 TTAA-TAATAAA
*
11317939 TTAGTAATAAA
1 TTAATAATAAA
11317950 TTAAT
1 TTAAT
11317955 TAATCATTGA
Statistics
Matches: 317, Mismatches: 114, Indels: 74
0.63 0.23 0.15
Matches are distributed among these distances:
10 57 0.18
11 208 0.66
12 40 0.13
13 7 0.02
14 5 0.02
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.39
Consensus pattern (11 bp):
TTAATAATAAA
Found at i:11317529 original size:44 final size:44
Alignment explanation
Indices: 11317476--11317954 Score: 248
Period size: 44 Copynumber: 10.9 Consensus size: 44
11317466 AACTTAGTAC
* *
11317476 TTAATAATAAATCAATAATAACTTAATAGTAAATTAGTGATAAT
1 TTAATAATAAATCAATAATAATTTAATAGTAAATTAATGATAAT
* * * * *
11317520 TTAATAATAAATTAGT-TTCAATTTAATAAT-AATTAATTAATAAAT
1 TTAATAATAAATCAATAAT-AATTTAATAGTAAATTAA-TGAT-AAT
* * * *
11317565 TTAATAGTAAATC-ATGAATAACTTAATAGAAAATCAATGATAAT
1 TTAATAATAAATCAAT-AATAATTTAATAGTAAATTAATGATAAT
* * * * * * *
11317609 TTAATAGTTAATTATTAAAAATTTAAAAGTAAATTAAT-ATAAC
1 TTAATAATAAATCAATAATAATTTAATAGTAAATTAATGATAAT
*
11317652 TTAATAATAGTTAATC-ATCAATAATTTAATAGTTAATTAATGATAAT
1 TTAATAATA---AATCAAT-AATAATTTAATAGTAAATTAATGATAAT
* * * *
11317699 TTAATAGTAAAT-TATGGATAATTTAATA-TAAATTAATGATAAC
1 TTAATAATAAATCAAT-AATAATTTAATAGTAAATTAATGATAAT
* * ** * *
11317742 TTCATAATGAATC-ATGGTTAATTTTATAATAAATCT-ATGATAAT
1 TTAATAATAAATCAAT-AATAATTTAATAGTAAAT-TAATGATAAT
** * * * *
11317786 TTTGTAGTAAAT-AATAAAAAATTAAGTAATAAATTAATGATAAT
1 TTAATAATAAATCAATAATAATTTAA-TAGTAAATTAATGATAAT
* * * ** *
11317830 ATAGTAGTAAATGC-ATAATAACATAATAGTAAATTATTGATAAT
1 TTAATAATAAAT-CAATAATAATTTAATAGTAAATTAATGATAAT
* * * * * * * *
11317874 TTAGAT-ATAAATTATTGATAAGTTAGTAGTAAATCACTAATAAT
1 TTA-ATAATAAATCAATAATAATTTAATAGTAAATTAATGATAAT
* * * *
11317918 TTAATTATAAAT-AATTGATAA-TTAGTAATAAATTAAT
1 TTAATAATAAATCAA-TAATAATTTAATAGTAAATTAAT
11317955 TAATCATTGA
Statistics
Matches: 334, Mismatches: 76, Indels: 51
0.72 0.16 0.11
Matches are distributed among these distances:
43 74 0.22
44 182 0.54
45 38 0.11
46 28 0.08
47 12 0.04
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.39
Consensus pattern (44 bp):
TTAATAATAAATCAATAATAATTTAATAGTAAATTAATGATAAT
Found at i:11317668 original size:68 final size:66
Alignment explanation
Indices: 11317539--11317712 Score: 178
Period size: 68 Copynumber: 2.6 Consensus size: 66
11317529 AATTAGTTTC
* *
11317539 AATTTAATA-ATAATTAATTAATAAATTTAATAGTAAA-TCATGAATAACTTAATAGAAAATCAA
1 AATTTAATAGTTAATT-ATTAA-AAATTTAATAGTAAATTAAT-AATAACTTAATAGAAAATC-A
*
11317602 T-GAT
62 TCAAT
*
11317606 AATTTAATAGTTAATTATTAAAAATTTAAAAGTAAATTAAT-ATAACTTAATA-ATAGTTAATCA
1 AATTTAATAGTTAATTATTAAAAATTTAATAGTAAATTAATAATAACTTAATAGA-A---AATCA
11317669 TCAAT
62 TCAAT
* * *
11317674 AATTTAATAGTTAATTAATGATAATTTAATAGTAAATTA
1 AATTTAATAGTTAATTATTAAAAATTTAATAGTAAATTA
11317713 TGGATAATTT
Statistics
Matches: 92, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
64 1 0.01
65 12 0.13
66 14 0.15
67 19 0.21
68 46 0.50
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (66 bp):
AATTTAATAGTTAATTATTAAAAATTTAATAGTAAATTAATAATAACTTAATAGAAAATCATCAA
T
Found at i:11317682 original size:90 final size:90
Alignment explanation
Indices: 11317477--11317888 Score: 289
Period size: 90 Copynumber: 4.6 Consensus size: 90
11317467 ACTTAGTACT
* * * * * ***
11317477 TAATAATAAATCAAT-AATAACTTAATAGTAAATTAGTGATAATTTAATAATAAATTA-GTTTCA
1 TAATAGTAAATC-ATCAATAACTTAATAGAAAATCAATGATAATTTAATAGTAAATTATG-AAAA
* *
11317540 ATTTAATAAT-AATTAATTAATAAATT--
64 ATTTAA-AATAAATTAA-TGATAACTTAA
* * *
11317566 TAATAGTAAATCATGAATAACTTAATAGAAAATCAATGATAATTTAATAGTTAATTATTAAAAAT
1 TAATAGTAAATCATCAATAACTTAATAGAAAATCAATGATAATTTAATAGTAAATTATGAAAAAT
11317631 TTAAAAGTAAATTAAT-ATAACTTAA
66 TTAAAA-TAAATTAATGATAACTTAA
* * ** * * *
11317656 TAATAGTTAATCATCAATAATTTAATAGTTAATTAATGATAATTTAATAGTAAATTATGGATAAT
1 TAATAGTAAATCATCAATAACTTAATAGAAAATCAATGATAATTTAATAGTAAATTATGAAAAAT
* *
11317721 TTAATATAAATTAATGATAACTTCA
66 TTAAAATAAATTAATGATAACTTAA
*** * * * ** *
11317746 TAAT-G--AATCATGGTTAATTTTATA-ATAAATCTATGATAATTTTGTAGTAAATAAT-AAAAA
1 TAATAGTAAATCATCAATAACTTAATAGA-AAATCAATGATAATTTAATAGTAAATTATGAAAAA
*
11317806 ATTAAGTAATAAATTAATGATAA--T-A
65 TTTAA--AATAAATTAATGATAACTTAA
* * * * *
11317831 TAGTAGTAAATGCAT-AATAACATAATAGTAAATTATTGATAATTTAGATA-TAAATTAT
1 TAATAGTAAAT-CATCAATAACTTAATAGAAAATCAATGATAATTTA-ATAGTAAATTAT
11317889 TGATAAGTTA
Statistics
Matches: 256, Mismatches: 51, Indels: 33
0.75 0.15 0.10
Matches are distributed among these distances:
85 4 0.02
86 9 0.04
87 38 0.15
88 55 0.21
89 72 0.28
90 78 0.30
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.39
Consensus pattern (90 bp):
TAATAGTAAATCATCAATAACTTAATAGAAAATCAATGATAATTTAATAGTAAATTATGAAAAAT
TTAAAATAAATTAATGATAACTTAA
Found at i:11317985 original size:21 final size:21
Alignment explanation
Indices: 11317961--11318001 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11317951 TAATTAATCA
* *
11317961 TTGATAACTTTATAGTAAATT
1 TTGATAAATTAATAGTAAATT
11317982 TTGATAAATTAATAGTAAAT
1 TTGATAAATTAATAGTAAAT
11318002 CAGTTATAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (21 bp):
TTGATAAATTAATAGTAAATT
Found at i:11318050 original size:22 final size:21
Alignment explanation
Indices: 11318020--11318090 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
11318010 ACTTTATAAC
*
11318020 AATTCATCAGTAACTTAGCAATA
1 AATT-ATCA-TAACTTAACAATA
*
11318043 AATTATCAATAATTTAACAATA
1 AATTATC-ATAACTTAACAATA
* *
11318065 AATTAGTCATAACTTAATAGTA
1 AATTA-TCATAACTTAACAATA
11318087 AATT
1 AATT
11318091 TTTTATAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 34 0.83
23 7 0.17
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (21 bp):
AATTATCATAACTTAACAATA
Found at i:11318132 original size:33 final size:33
Alignment explanation
Indices: 11318052--11318133 Score: 78
Period size: 33 Copynumber: 2.5 Consensus size: 33
11318042 AAATTATCAA
* * *
11318052 TAATTTAACAATAAATTAGTCATAACTTAATAG
1 TAATTTAATAATAAATTAGTCATAAATTAATAC
* *
11318085 TAAATTT-TTTATAAATTAGT-AGTAAATTAATAC
1 T-AATTTAATAATAAATTAGTCA-TAAATTAATAC
*
11318118 TAATTTAGTAATAAAT
1 TAATTTAATAATAAAT
11318134 CATTGAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
32 6 0.15
33 28 0.72
34 5 0.13
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (33 bp):
TAATTTAATAATAAATTAGTCATAAATTAATAC
Found at i:11318133 original size:44 final size:44
Alignment explanation
Indices: 11318030--11318178 Score: 113
Period size: 44 Copynumber: 3.4 Consensus size: 44
11318020 AATTCATCAG
* * * * * * *
11318030 TAACTTAGCAATAAATTA-TCAATAATTTAACAATAAATTAGTCA
1 TAACTTAGTAATAAATCATTGAA-AATTTAGCAGTAAATTAATAA
* * ** * * *
11318074 TAACTTAATAGTAAATTTTTTATAAA-TTAGTAGTAAATTAATAC
1 TAACTTAGTAATAAATCATTGA-AAATTTAGCAGTAAATTAATAA
* *
11318118 TAATTTAGTAATAAATCATTGAAAATTTAGCAGTATATTAATAA
1 TAACTTAGTAATAAATCATTGAAAATTTAGCAGTAAATTAATAA
*
11318162 TAGCTTAGTAATAAATC
1 TAACTTAGTAATAAATC
11318179 GTTAGTAACA
Statistics
Matches: 80, Mismatches: 22, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
43 3 0.04
44 72 0.90
45 4 0.05
46 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (44 bp):
TAACTTAGTAATAAATCATTGAAAATTTAGCAGTAAATTAATAA
Found at i:11318537 original size:22 final size:22
Alignment explanation
Indices: 11318512--11318574 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
11318502 ATCATAAGTT
11318512 ATCAAAAAATTACTAAAATTAC
1 ATCAAAAAATTACTAAAATTAC
* * * **
11318534 ATCAAGAGATTACTCAAATTTT
1 ATCAAAAAATTACTAAAATTAC
*
11318556 ATC-AAAAATTACCAAAATT
1 ATCAAAAAATTACTAAAATT
11318575 TATCCAAGGT
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
21 12 0.38
22 20 0.62
ACGTcount: A:0.52, C:0.14, G:0.03, T:0.30
Consensus pattern (22 bp):
ATCAAAAAATTACTAAAATTAC
Found at i:11318576 original size:20 final size:20
Alignment explanation
Indices: 11318510--11318603 Score: 71
Period size: 20 Copynumber: 4.5 Consensus size: 20
11318500 ATATCATAAG
*
11318510 TTATCAAAAAATTACTAAAAT
1 TTATC-AAAAATTACCAAAAT
* * *
11318531 TACATCAAGAGATTACTCAAATT
1 T-TATCAA-AAATTAC-CAAAAT
11318554 TTATCAAAAATTACCAAAAT
1 TTATCAAAAATTACCAAAAT
* ** *
11318574 TTATCCAAGGTTACTAAAATT
1 TTATCAAAAATTACCAAAA-T
11318595 TTATCAAAA
1 TTATCAAAA
11318604 GTTATTAAAA
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
20 20 0.36
21 17 0.30
22 14 0.25
23 5 0.09
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (20 bp):
TTATCAAAAATTACCAAAAT
Found at i:11318599 original size:41 final size:43
Alignment explanation
Indices: 11318510--11318603 Score: 122
Period size: 41 Copynumber: 2.2 Consensus size: 43
11318500 ATATCATAAG
* *
11318510 TTATCAAAAAATTACTAAAATTACATCAAGAGATTACTCAAATT
1 TTATC-AAAAATTACCAAAATTACATCAAGAGATTACTAAAATT
*
11318554 TTATCAAAAATTACCAAAATT-TATCCAAG-G-TTACTAAAATT
1 TTATCAAAAATTACCAAAATTACAT-CAAGAGATTACTAAAATT
11318595 TTATCAAAA
1 TTATCAAAA
11318604 GTTATTAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
41 19 0.41
42 3 0.07
43 19 0.41
44 5 0.11
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (43 bp):
TTATCAAAAATTACCAAAATTACATCAAGAGATTACTAAAATT
Found at i:11318607 original size:21 final size:21
Alignment explanation
Indices: 11318510--11318614 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
11318500 ATATCATAAG
*
11318510 TTATCAAAAAATTACTAAAATT
1 TTATC-AAAAGTTACTAAAATT
** * *
11318532 ACATCAAGAGATTACTCAAATT
1 TTATCAAAAG-TTACTAAAATT
* *
11318554 TTATCAAAAATTACCAAAA-T
1 TTATCAAAAGTTACTAAAATT
* *
11318574 TTATCCAAGGTTACTAAAATT
1 TTATCAAAAGTTACTAAAATT
*
11318595 TTATCAAAAGTTATTAAAAT
1 TTATCAAAAGTTACTAAAAT
11318615 CAAAATTATA
Statistics
Matches: 63, Mismatches: 18, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.25
21 28 0.44
22 19 0.30
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (21 bp):
TTATCAAAAGTTACTAAAATT
Found at i:11318618 original size:16 final size:16
Alignment explanation
Indices: 11318597--11318629 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11318587 CTAAAATTTT
11318597 ATCAAAAGTTAT-TAAA
1 ATCAAAA-TTATATAAA
11318613 ATCAAAATTATATAAA
1 ATCAAAATTATATAAA
11318629 A
1 A
11318630 ATTTATCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (16 bp):
ATCAAAATTATATAAA
Found at i:11318800 original size:15 final size:15
Alignment explanation
Indices: 11318780--11318811 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11318770 ACTAATTATT
*
11318780 ATGAATGTACAATAA
1 ATGAATGAACAATAA
11318795 ATGAATGAACAATAA
1 ATGAATGAACAATAA
11318810 AT
1 AT
11318812 AAACCTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (15 bp):
ATGAATGAACAATAA
Found at i:11319415 original size:13 final size:14
Alignment explanation
Indices: 11319399--11319427 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11319389 TAAAAAACGG
11319399 GAGAAAAAA-AAAA
1 GAGAAAAAAGAAAA
11319412 GAGAAAAAAGAAAA
1 GAGAAAAAAGAAAA
11319426 GA
1 GA
11319428 AAAGGAAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
GAGAAAAAAGAAAA
Found at i:11325461 original size:2 final size:2
Alignment explanation
Indices: 11325454--11325482 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11325444 CTTAAAAATT
11325454 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11325483 TCAATAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11326458 original size:8 final size:8
Alignment explanation
Indices: 11326421--11326491 Score: 60
Period size: 8 Copynumber: 9.2 Consensus size: 8
11326411 GCACATTGAT
11326421 ATATATTA
1 ATATATTA
*
11326429 ATAATATTT
1 AT-ATATTA
11326438 A-ATA-TA
1 ATATATTA
11326444 ATATATTA
1 ATATATTA
*
11326452 TTATATT-
1 ATATATTA
* *
11326459 ATTTGTTA
1 ATATATTA
11326467 ATATATT-
1 ATATATTA
11326474 ATATATTA
1 ATATATTA
*
11326482 ATATAATA
1 ATATATTA
11326490 AT
1 AT
11326492 TGTAACATCA
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
6 2 0.04
7 17 0.35
8 24 0.49
9 6 0.12
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (8 bp):
ATATATTA
Found at i:11326461 original size:25 final size:23
Alignment explanation
Indices: 11326419--11326481 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 23
11326409 AAGCACATTG
*
11326419 ATATA-TATTAATAATATTTAATATA
1 ATATATTATT-ATATTATTT-AT-TA
*
11326444 ATATATTATTATATTATTTGTTA
1 ATATATTATTATATTATTTATTA
11326467 ATATATTA-TATATTA
1 ATATATTATTATATTA
11326482 ATATAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 7 0.20
23 10 0.29
24 1 0.03
25 13 0.37
26 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
ATATATTATTATATTATTTATTA
Found at i:11326485 original size:28 final size:26
Alignment explanation
Indices: 11326419--11326486 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 26
11326409 AAGCACATTG
11326419 ATATATATTAATA-ATATTTAATATA
1 ATATATATTAATATATATTTAATATA
*
11326444 ATATATTATT-ATATTATTTGTTAATATA
1 ATATA-TATTAATA-TATAT-TTAATATA
*
11326472 TTATATATTAATATA
1 ATATATATTAATATA
11326487 ATAATTGTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
25 8 0.22
26 4 0.11
27 9 0.25
28 15 0.42
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (26 bp):
ATATATATTAATATATATTTAATATA
Found at i:11327536 original size:33 final size:33
Alignment explanation
Indices: 11327494--11327560 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
11327484 TTAATTTGTT
*
11327494 TTATAGATACTATATAGTTATATAAGTTATAGA
1 TTATAGATACTATATAGTTATATAAGGTATAGA
11327527 TTATAGATACTATATAGTTATATAAGGTATAGA
1 TTATAGATACTATATAGTTATATAAGGTATAGA
11327560 T
1 T
11327561 CGTCTGCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (33 bp):
TTATAGATACTATATAGTTATATAAGGTATAGA
Found at i:11329984 original size:196 final size:196
Alignment explanation
Indices: 11329650--11330036 Score: 555
Period size: 196 Copynumber: 2.0 Consensus size: 196
11329640 AAATGAAAAA
* *
11329650 TAACTAGGGAATGATTTCAAATCAACTTCTGCTGATATTGTCAAGTTATTGTCAGATTGGTCCAG
1 TAACTAGGGAATGAATTCAAATCAACTTCTGCTGATATTGTCAAGCTATTGTCAGATTGGTCCAG
** * *
11329715 CTCTATCTGGGGCAAATTTTCAATTAAGCCTTAAGCACCCAATAACATTAGAGAAGTGGCAAGAA
66 CTCTATCTAAGGCAAATTTTCAATTAAACCTTAACCACCCAATAACATTAGAGAAGTGGCAAGAA
*
11329780 ACTTGCTAT-CTATCCTGCCTAGCAAGATGGCGACAAAGCTCGAAAGAGCACTGTGTACAAATTG
131 ACTTGCTATCCT-TCCTGCCTAGCAAGATGGCGACAAAGCTCGAAAGAGCACAGTGTACAAATTG
11329844 AC
195 AC
* *
11329846 TAACTAGGGAATGAATTCAAATCTACTTCTG-TGGATATTGTCAAGCTATTGTCAGATTGGTCCT
1 TAACTAGGGAATGAATTCAAATCAACTTCTGCT-GATATTGTCAAGCTATTGTCAGATTGGTCCA
* * * * * *
11329910 GTTCTATGTAAGGCAAAATTTT-AATTAAACCTTCACCATCCGATAACATTTGAGAAGTGGCAAG
65 GCTCTATCTAAGGC-AAATTTTCAATTAAACCTTAACCACCCAATAACATTAGAGAAGTGGCAAG
* * * *
11329974 AAACTTGCTATCCTTCTTGGCTAGCTAGATGGCGTCAAAGCTCGAAAGAGCACAGTGTACAAA
129 AAACTTGCTATCCTTCCTGCCTAGCAAGATGGCGACAAAGCTCGAAAGAGCACAGTGTACAAA
11330037 GTGAATCAAG
Statistics
Matches: 169, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
195 1 0.01
196 159 0.94
197 9 0.05
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (196 bp):
TAACTAGGGAATGAATTCAAATCAACTTCTGCTGATATTGTCAAGCTATTGTCAGATTGGTCCAG
CTCTATCTAAGGCAAATTTTCAATTAAACCTTAACCACCCAATAACATTAGAGAAGTGGCAAGAA
ACTTGCTATCCTTCCTGCCTAGCAAGATGGCGACAAAGCTCGAAAGAGCACAGTGTACAAATTGA
C
Found at i:11333328 original size:15 final size:15
Alignment explanation
Indices: 11333304--11333359 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 15
11333294 GCACCTTTTT
*
11333304 TTTATCATTTTATAA
1 TTTATAATTTTATAA
11333319 TTTATAA-TTTATAA
1 TTTATAATTTTATAA
11333333 TTT-TAACATTTTATATA
1 TTTAT-A-ATTTTATA-A
*
11333350 TTTATTATTT
1 TTTATAATTT
11333360 GAACAGATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 11 0.32
15 7 0.21
16 10 0.29
17 4 0.12
18 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTATAATTTTATAA
Found at i:11333359 original size:24 final size:23
Alignment explanation
Indices: 11333319--11333364 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
11333309 CATTTTATAA
*
11333319 TTTATAATTTATAATTTTAACAT
1 TTTATAATTTATAATTTGAACAT
*
11333342 TTTATATATTTATTATTTGAACA
1 TTTATA-ATTTATAATTTGAACA
11333365 GATATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTATAATTTATAATTTGAACAT
Found at i:11334406 original size:16 final size:17
Alignment explanation
Indices: 11334377--11334418 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
11334367 ACCTGTAGAT
*
11334377 GAAAAATGAATTA-TTGA
1 GAAAAAT-ATTTATTTGA
*
11334394 TAAAAATATTTATTTGA
1 GAAAAATATTTATTTGA
11334411 GAAAAATA
1 GAAAAATA
11334419 CCTTTATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (17 bp):
GAAAAATATTTATTTGA
Found at i:11338230 original size:23 final size:24
Alignment explanation
Indices: 11338181--11338235 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
11338171 AATAAAAATT
* * **
11338181 TATTTTTTTAATTTTTTTCTTTTA
1 TATTTATTTAATTTTTTTCATAAA
11338205 TATTTATTTAATTTTTTT-ATAAA
1 TATTTATTTAATTTTTTTCATAAA
*
11338228 TATATATT
1 TATTTATT
11338236 AATATATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (24 bp):
TATTTATTTAATTTTTTTCATAAA
Found at i:11340532 original size:18 final size:19
Alignment explanation
Indices: 11340502--11340543 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
11340492 TATTTTATTT
*
11340502 TATA-AAAATTTAA-AAAA
1 TATATAAAAGTTAATAAAA
11340519 TATATAAAAGTTAATAAAA
1 TATATAAAAGTTAATAAAA
11340538 -ATATAA
1 TATATAA
11340544 TTCAGTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 4 0.18
18 14 0.64
19 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
TATATAAAAGTTAATAAAA
Found at i:11352241 original size:2 final size:2
Alignment explanation
Indices: 11352234--11352282 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
11352224 TGAAAGAATT
* * * * *
11352234 TA TA TA TA TA CA TA TA CA TA CA AA CA 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 TA TA TA TA TA
11352276 TA TA TA T
1 TA TA TA T
11352283 TAGATACTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (2 bp):
TA
Found at i:11358536 original size:14 final size:14
Alignment explanation
Indices: 11358519--11358548 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11358509 TCAATATTAC
11358519 AAACAAAATACCCT
1 AAACAAAATACCCT
*
11358533 AAACAAAATATCCT
1 AAACAAAATACCCT
11358547 AA
1 AA
11358549 CTCAATTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (14 bp):
AAACAAAATACCCT
Found at i:11361814 original size:17 final size:17
Alignment explanation
Indices: 11361774--11361815 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
11361764 CTTTAATCTT
* *
11361774 CAATAAAATATATCATA
1 CAATAATATATATAATA
11361791 -AAGTAATATATATAATA
1 CAA-TAATATATATAATA
11361808 CAATAATA
1 CAATAATA
11361816 GCTTTCACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 2 0.10
17 17 0.81
18 2 0.10
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (17 bp):
CAATAATATATATAATA
Found at i:11363132 original size:19 final size:17
Alignment explanation
Indices: 11363108--11363146 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
11363098 TAAAAATTAT
11363108 ATTAAAATAATATAAAAAA
1 ATTAAAA-AATA-AAAAAA
*
11363127 ATTAAAAATTAAAAAAA
1 ATTAAAAAATAAAAAAA
11363144 ATT
1 ATT
11363147 GATGAACTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
ATTAAAAAATAAAAAAA
Found at i:11366481 original size:6 final size:6
Alignment explanation
Indices: 11366425--11366514 Score: 52
Period size: 6 Copynumber: 15.8 Consensus size: 6
11366415 TAAATAATAA
* * **
11366425 ATAATT ATAA-- A-AATT ATAAAT ATATTT ATAATTT ATTTTT ATAATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAA-TT ATAATT ATAATT
*
11366471 -T--TT ATAATT ATAATT A-AATT ATAATA ATAATATT ATAATT -TAAT
1 ATAATT ATAATT ATAATT ATAATT ATAATT AT-A-ATT ATAATT ATAAT
11366515 ATTATTAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 21
0.67 0.11 0.22
Matches are distributed among these distances:
3 4 0.06
4 2 0.03
5 11 0.17
6 37 0.58
7 6 0.09
8 4 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
ATAATT
Found at i:11366516 original size:13 final size:13
Alignment explanation
Indices: 11366450--11366519 Score: 63
Period size: 13 Copynumber: 5.3 Consensus size: 13
11366440 ATAAATATAT
* *
11366450 TTATAATTTATTT
1 TTATAATTTAATA
*
11366463 TTATAATTTTTATAA
1 TTATAA-TTTAAT-A
11366478 TTATAA-TTAA-A
1 TTATAATTTAATA
*
11366489 TTATAATAATAATA
1 TTATAAT-TTAATA
11366503 TTATAATTTAATA
1 TTATAATTTAATA
11366516 TTAT
1 TTAT
11366520 TAAATATAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
11 7 0.15
13 21 0.46
14 12 0.26
15 6 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATAATTTAATA
Found at i:11366520 original size:16 final size:15
Alignment explanation
Indices: 11366495--11366556 Score: 70
Period size: 16 Copynumber: 4.0 Consensus size: 15
11366485 TAAATTATAA
*
11366495 TAATAATATTATAATT
1 TAATATTATTA-AATT
*
11366511 TAATATTATTAAATA
1 TAATATTATTAAATT
*
11366526 TAATGTTATTAAATAT
1 TAATATTATTAAAT-T
*
11366542 TAATATGATTAAATT
1 TAATATTATTAAATT
11366557 AAAATATAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
15 17 0.44
16 22 0.56
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TAATATTATTAAATT
Found at i:11366529 original size:31 final size:31
Alignment explanation
Indices: 11366494--11366589 Score: 101
Period size: 31 Copynumber: 3.2 Consensus size: 31
11366484 TTAAATTATA
*
11366494 ATAATAATATTATAATTTAATATTATTAAAT
1 ATAATAATATTATAATTTAATATGATTAAAT
**
11366525 ATAATGTTATTA-AATATTAATATGATTAAAT
1 ATAATAATATTATAAT-TTAATATGATTAAAT
* *
11366556 -TAA-AATATAAT-TTTTAATATGATTAAAAT
1 ATAATAATATTATAATTTAATATGATT-AAAT
11366585 ATAAT
1 ATAAT
11366590 CAAATAGAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
28 11 0.21
29 9 0.17
30 9 0.17
31 24 0.45
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (31 bp):
ATAATAATATTATAATTTAATATGATTAAAT
Found at i:11366609 original size:24 final size:24
Alignment explanation
Indices: 11366577--11366626 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
11366567 TTTTAATATG
11366577 ATTAAAATATAATCAAATAGAATT
1 ATTAAAATATAATCAAATAGAATT
11366601 ATTAAAATATAATCAAATAGAATT
1 ATTAAAATATAATCAAATAGAATT
11366625 AT
1 AT
11366627 ATTATTCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (24 bp):
ATTAAAATATAATCAAATAGAATT
Found at i:11366675 original size:12 final size:12
Alignment explanation
Indices: 11366658--11366684 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11366648 ATATTCTATT
11366658 AATATTAGATTG
1 AATATTAGATTG
11366670 AATATTAGATTG
1 AATATTAGATTG
11366682 AAT
1 AAT
11366685 CTACCATTAT
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:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (12 bp):
AATATTAGATTG
Found at i:11366705 original size:10 final size:10
Alignment explanation
Indices: 11366690--11366719 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
11366680 TGAATCTACC
11366690 ATTATTATAT
1 ATTATTATAT
11366700 ATTATTATAT
1 ATTATTATAT
*
11366710 ATCATTATAT
1 ATTATTATAT
11366720 TAAATATGGC
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:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (10 bp):
ATTATTATAT
Found at i:11368785 original size:7 final size:7
Alignment explanation
Indices: 11368773--11368799 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
11368763 TTACAATCTA
11368773 AACAAGC
1 AACAAGC
11368780 AACAAGC
1 AACAAGC
11368787 AACAAGC
1 AACAAGC
11368794 AACAAG
1 AACAAG
11368800 TCATAAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.26, G:0.15, T:0.00
Consensus pattern (7 bp):
AACAAGC
Found at i:11369553 original size:3 final size:3
Alignment explanation
Indices: 11369541--11369575 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
11369531 TTCCTTGTTC
11369541 CTT C-T CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
11369576 AGGAATCCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:11383343 original size:40 final size:40
Alignment explanation
Indices: 11383288--11383368 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
11383278 CCTTTCAAGG
*
11383288 TACCTAAATAGAATTAAATAACCTCTTTATCTCTTTTTTT
1 TACCTAAATAAAATTAAATAACCTCTTTATCTCTTTTTTT
*
11383328 TACCTAAATAAAATTAAATAACCTCTTTGTCTCTTTTTTT
1 TACCTAAATAAAATTAAATAACCTCTTTATCTCTTTTTTT
11383368 T
1 T
11383369 TTTTTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.48
Consensus pattern (40 bp):
TACCTAAATAAAATTAAATAACCTCTTTATCTCTTTTTTT
Found at i:11383843 original size:9 final size:9
Alignment explanation
Indices: 11383829--11383854 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
11383819 GCAAACAAGA
11383829 GTTGGGTCG
1 GTTGGGTCG
11383838 GTTGGGTCG
1 GTTGGGTCG
11383847 GTTGGGTC
1 GTTGGGTC
11383855 ATTAGATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.54, T:0.35
Consensus pattern (9 bp):
GTTGGGTCG
Found at i:11385193 original size:99 final size:99
Alignment explanation
Indices: 11385019--11385197 Score: 304
Period size: 99 Copynumber: 1.8 Consensus size: 99
11385009 GGCGTGAGAT
* *
11385019 GTATTTAATTGTTCTGTAGCTTGCACTTTGAGATCTGTGTATTATATAGTCTGTTGGGTTGTTTT
1 GTATTTAATTGTTCTGTAGCTTGCACTTTGAGATCTATCTATTATATAGTCTGTTGGGTTGTTTT
11385084 GTGCTACAAACTGCAACACAGGTATAAGAACCTC
66 GTGCTACAAACTGCAACACAGGTATAAGAACCTC
* * *
11385118 GTATTTAATTGTTCTGTGGCTTGCACTTTGAGATCTATCTATTATATATTCTGTTGGGTTTTTTT
1 GTATTTAATTGTTCTGTAGCTTGCACTTTGAGATCTATCTATTATATAGTCTGTTGGGTTGTTTT
*
11385183 GTGCTTCAAACTGCA
66 GTGCTACAAACTGCA
11385198 CACCATATCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
99 74 1.00
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.44
Consensus pattern (99 bp):
GTATTTAATTGTTCTGTAGCTTGCACTTTGAGATCTATCTATTATATAGTCTGTTGGGTTGTTTT
GTGCTACAAACTGCAACACAGGTATAAGAACCTC
Found at i:11400265 original size:26 final size:26
Alignment explanation
Indices: 11400236--11400300 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
11400226 TTATATATAA
11400236 ATCAAATATAATATAA-AATTATTAT-C
1 ATCAAATATAAT-TAATAATT-TTATGC
* * *
11400262 ATCATATTTTATTAATAATTTTATGC
1 ATCAAATATAATTAATAATTTTATGC
11400288 ATCAAATATAATT
1 ATCAAATATAATT
11400301 TATATATATT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
25 7 0.23
26 24 0.77
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.45
Consensus pattern (26 bp):
ATCAAATATAATTAATAATTTTATGC
Found at i:11406503 original size:37 final size:36
Alignment explanation
Indices: 11406432--11406504 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
11406422 AATCTTGTTA
*
11406432 ATAATTATTTATTAAAATTATCTTAAATACATAATTT
1 ATAATTATTTATTAAAATTA-CTTAAATAAATAATTT
*
11406469 ATAATTATTTATTTTAAATTA-TTAAATATAATAATT
1 ATAATTATTTA-TTAAAATTACTTAAATA-AATAATT
11406505 AAATTTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.22
37 17 0.53
38 8 0.25
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (36 bp):
ATAATTATTTATTAAAATTACTTAAATAAATAATTT
Found at i:11406695 original size:30 final size:31
Alignment explanation
Indices: 11406640--11406699 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
11406630 ATTATATTTT
* *
11406640 ATATAAAAATAATATATTATAATTTTTATTA
1 ATATAAAAATAATAAAATATAATTTTTATTA
*
11406671 ATATAAAAAT-ATAAAATGTAATTTTTATT
1 ATATAAAAATAATAAAATATAATTTTTATT
11406700 TTATTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (31 bp):
ATATAAAAATAATAAAATATAATTTTTATTA
Found at i:11406778 original size:25 final size:25
Alignment explanation
Indices: 11406710--11406779 Score: 83
Period size: 24 Copynumber: 2.8 Consensus size: 25
11406700 TTATTAAATT
*
11406710 TATTTATAATTATTTTAA-AATTTTA
1 TATTTAT-ATTATTTTAATATTTTTA
*
11406735 -AATTATATTGATTTT-ATATTTTTA
1 TATTTATATT-ATTTTAATATTTTTA
11406759 TATTTATATTATTTTAATATT
1 TATTTATATTATTTTAATATT
11406780 CGTATCGTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 4 0.11
24 21 0.55
25 13 0.34
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (25 bp):
TATTTATATTATTTTAATATTTTTA
Found at i:11409970 original size:31 final size:31
Alignment explanation
Indices: 11409934--11409996 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
11409924 TTAAAAATAG
* * * *
11409934 TATATTTATTTTAGATCTTTTATGTACTTTA
1 TATATTTATTTAAAATATTTTATATACTTTA
11409965 TATATTTATTTAAAATATTTTATATACTTTA
1 TATATTTATTTAAAATATTTTATATACTTTA
11409996 T
1 T
11409997 TTTATAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (31 bp):
TATATTTATTTAAAATATTTTATATACTTTA
Found at i:11410745 original size:3 final size:3
Alignment explanation
Indices: 11410737--11410771 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
11410727 CTCAAGCTTT
*
11410737 TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
11410772 TAAAAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11410782 original size:15 final size:14
Alignment explanation
Indices: 11410737--11410792 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 14
11410727 CTCAAGCTTT
*
11410737 TAATAATAATAATAA
1 TAAT-ATAAAAATAA
*
11410752 TAATAGTAATAATAA
1 TAATA-TAAAAATAA
11410767 TAATATAAAAATTAA
1 TAATATAAAAA-TAA
11410782 TTAAT-TAAAAA
1 -TAATATAAAAA
11410793 AAGAAAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
14 6 0.16
15 27 0.73
16 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (14 bp):
TAATATAAAAATAA
Found at i:11411141 original size:11 final size:11
Alignment explanation
Indices: 11411122--11411154 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
11411112 GAACCTTTGC
11411122 AAAAA-AAAAA
1 AAAAACAAAAA
11411132 AAAAACAAAAA
1 AAAAACAAAAA
*
11411143 AAAACCAAAAA
1 AAAAACAAAAA
11411154 A
1 A
11411155 CAAGAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAACAAAAA
Found at i:11411166 original size:11 final size:10
Alignment explanation
Indices: 11411122--11411165 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
11411112 GAACCTTTGC
11411122 AAAAAA-AAA
1 AAAAAACAAA
11411131 AAAAAACAAA
1 AAAAAACAAA
11411141 AAAAAACCAAA
1 AAAAAA-CAAA
* *
11411152 AAACAAGAAA
1 AAAAAACAAA
11411162 AAAA
1 AAAA
11411166 CCTCTATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
9 6 0.20
10 15 0.50
11 9 0.30
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:11411166 original size:19 final size:18
Alignment explanation
Indices: 11411121--11411195 Score: 75
Period size: 18 Copynumber: 4.3 Consensus size: 18
11411111 AGAACCTTTG
11411121 CAAAAAAAAA--AAAAAA
1 CAAAAAAAAACCAAAAAA
11411137 CAAAAAAAAACCAAAAAA
1 CAAAAAAAAACCAAAAAA
*** *
11411155 CAAGAAAAAAACCTCTATA
1 CAA-AAAAAAACCAAAAAA
*
11411174 -AAAAAAAAACCCAAAAA
1 CAAAAAAAAACCAAAAAA
11411191 CAAAA
1 CAAAA
11411196 CCCACTTCCC
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
16 10 0.21
17 11 0.23
18 15 0.32
19 11 0.23
ACGTcount: A:0.79, C:0.16, G:0.01, T:0.04
Consensus pattern (18 bp):
CAAAAAAAAACCAAAAAA
Found at i:11412267 original size:16 final size:15
Alignment explanation
Indices: 11412242--11412302 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 15
11412232 AATTTTTTTT
11412242 ATTAAATAAAATGAAA
1 ATTAAATAAAAT-AAA
* *
11412258 ATTAACTAAAA-AATT
1 ATTAAATAAAATAA-A
11412273 ATTAAATAAAATAAAA
1 ATTAAATAAAAT-AAA
*
11412289 ATTAATTAAAATAA
1 ATTAAATAAAATAA
11412303 GAAATATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
14 2 0.05
15 12 0.32
16 21 0.57
17 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (15 bp):
ATTAAATAAAATAAA
Found at i:11412275 original size:31 final size:31
Alignment explanation
Indices: 11412240--11412299 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
11412230 AAAATTTTTT
*
11412240 TTATTAAATAAAATGAAAATTAACTAAAAAA
1 TTATTAAATAAAATAAAAATTAACTAAAAAA
*
11412271 TTATTAAATAAAATAAAAATTAATTAAAA
1 TTATTAAATAAAATAAAAATTAACTAAAA
11412300 TAAGAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (31 bp):
TTATTAAATAAAATAAAAATTAACTAAAAAA
Found at i:11412487 original size:3 final size:3
Alignment explanation
Indices: 11412479--11412513 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
11412469 CTTTTCTTCA
11412479 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11412514 AACAACCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11412780 original size:17 final size:17
Alignment explanation
Indices: 11412758--11412791 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11412748 GATTAATCTT
*
11412758 TTTAAAAAATAAAAAAA
1 TTTAAAAAAGAAAAAAA
11412775 TTTAAAAAAGAAAAAAA
1 TTTAAAAAAGAAAAAAA
11412792 GGGTGAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
TTTAAAAAAGAAAAAAA
Found at i:11413848 original size:19 final size:19
Alignment explanation
Indices: 11413824--11413865 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11413814 AAACCAAAAC
** *
11413824 AAAAATAAAGGAAAAATAA
1 AAAAATAAAAAAAAAACAA
11413843 AAAAATAAAAAAAAAACAA
1 AAAAATAAAAAAAAAACAA
11413862 AAAA
1 AAAA
11413866 GGAATTTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.86, C:0.02, G:0.05, T:0.07
Consensus pattern (19 bp):
AAAAATAAAAAAAAAACAA
Found at i:11422980 original size:50 final size:48
Alignment explanation
Indices: 11422838--11423090 Score: 204
Period size: 50 Copynumber: 5.2 Consensus size: 48
11422828 AATCATGAAA
* *
11422838 ATGAGCTTTTTAATCAGATTTTTTTTAAAGTTGTCCAGTCTCTAATGAG
1 ATGAGCTTTTTAATCAGA-TTTTTTTAAAGTTGTCAAGCCTCTAATGAG
* *** * * *
11422887 AGGAGCTTTTTTGCCATATTTTTTTAATGTTATCAAGCCTCTAATGAG
1 ATGAGCTTTTTAATCAGATTTTTTTAAAGTTGTCAAGCCTCTAATGAG
* * * *
11422935 ATGAGCTTTTTATTTAGATTTTTTTAAAAAGTTGTTAAGCCTCTAATGAA
1 ATGAGCTTTTTAATCAGATTTTTTT--AAAGTTGTCAAGCCTCTAATGAG
* * * * * * *
11422985 ATGAGCATTTCAATCAAATTTTTTAAAAAAATTATCAAGCTTCTAATGAG
1 ATGAGCTTTTTAATCAGATTTTTT--TAAAGTTGTCAAGCCTCTAATGAG
* ** * * * *
11423035 AGGAGCTTTCCAATCA-AATTTTTTAAAGTTGTTAA-CCTTTGATGAG
1 ATGAGCTTTTTAATCAGATTTTTTTAAAGTTGTCAAGCCTCTAATGAG
11423081 ATGAGCTTTT
1 ATGAGCTTTT
11423091 CATTATTTCA
Statistics
Matches: 157, Mismatches: 43, Indels: 11
0.74 0.20 0.05
Matches are distributed among these distances:
46 16 0.10
47 8 0.05
48 45 0.29
49 19 0.12
50 69 0.44
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (48 bp):
ATGAGCTTTTTAATCAGATTTTTTTAAAGTTGTCAAGCCTCTAATGAG
Done.