Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000295.1 Hibiscus syriacus cultivar Beakdansim tig00000541_pilon, 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: 2017499
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
File 1 of 9
Found at i:6725 original size:29 final size:29
Alignment explanation
Indices: 6684--6746 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
6674 ATGATAATAC
*
6684 TAATTATACAAATAACATTTATTTATAAT
1 TAATTATACAAATAACATTTATTCATAAT
** *
6713 TAATTATGTAAATAACATTTATTCATGAT
1 TAATTATACAAATAACATTTATTCATAAT
6742 TAATT
1 TAATT
6747 CATGAGATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.46
Consensus pattern (29 bp):
TAATTATACAAATAACATTTATTCATAAT
Found at i:7284 original size:60 final size:60
Alignment explanation
Indices: 7163--7301 Score: 158
Period size: 60 Copynumber: 2.3 Consensus size: 60
7153 CCAAATTATA
* * * *
7163 ACCCTCATTTTAAATTAGTCATTAAATTTTTGAAGATTCTAATTTGGTCCTTGTAACATG
1 ACCCTCATTTTAAATTAGTCATTAAATTTTTGAACATTCTAATTTGATCCCTGAAACATG
* * * *
7223 ACTCTCATTTTAAATTAGTCCTTAAACTTTTT-AACATTTTAATTTTATCCCT-AAACTATG
1 ACCCTCATTTTAAATTAGTCATTAAA-TTTTTGAACATTCTAATTTGATCCCTGAAAC-ATG
7283 ACCCTC-TTTCTAAATTAGT
1 ACCCTCATTT-TAAATTAGT
7302 TTCCAAACTT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
59 6 0.09
60 56 0.84
61 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.45
Consensus pattern (60 bp):
ACCCTCATTTTAAATTAGTCATTAAATTTTTGAACATTCTAATTTGATCCCTGAAACATG
Found at i:7551 original size:60 final size:61
Alignment explanation
Indices: 7447--7567 Score: 154
Period size: 60 Copynumber: 2.0 Consensus size: 61
7437 TTTTTTGGGT
* * * * * * *
7447 TGAAATTGGAATGTTCAAAAAGTTTATGGACCAATTTAGAATGAAGGTCATAGTTTGAGGA
1 TGAAATTGAAATATTCAAAAAGTTTAGGGACCAATTTAAAATGAAGATCACACTTTGAGGA
* *
7508 TGAAATTGAAATATTTAAAAA-TTTAGGGATCAATTTAAAATGAAGATCACACTTTGAGGA
1 TGAAATTGAAATATTCAAAAAGTTTAGGGACCAATTTAAAATGAAGATCACACTTTGAGGA
7568 CATGTGATGT
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
60 33 0.65
61 18 0.35
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (61 bp):
TGAAATTGAAATATTCAAAAAGTTTAGGGACCAATTTAAAATGAAGATCACACTTTGAGGA
Found at i:10476 original size:5 final size:5
Alignment explanation
Indices: 10466--10652 Score: 110
Period size: 5 Copynumber: 38.0 Consensus size: 5
10456 CAAAATAAAT
*
10466 ATATA ATATA ATATA ATATA ATATA ATA-A ATAT- ATATA CTATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
* * *
10514 ATAT- ATA-A TGTACA ATA-A TATATA ATATA ATAATA CTATA ATAT-
1 ATATA ATATA -ATATA ATATA -ATATA ATATA AT-ATA ATATA ATATA
* * *
10558 ATAATA TATAATA ATATA CTATATA ATAAA ATAT- ATATT ATATA TTAT-
1 AT-ATA -AT-ATA ATATA --ATATA ATATA ATATA ATATA ATATA ATATA
* * * *
10606 ATATT ATATG CTAT- ATA-A TATATA ATATA ATAT- -TATA CTATA ATATA
1 ATATA ATATA ATATA ATATA -ATATA ATATA ATATA ATATA ATATA ATATA
10653 TAATAACACT
Statistics
Matches: 147, Mismatches: 15, Indels: 40
0.73 0.07 0.20
Matches are distributed among these distances:
3 3 0.02
4 23 0.16
5 101 0.69
6 9 0.06
7 11 0.07
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:10532 original size:40 final size:39
Alignment explanation
Indices: 10466--10729 Score: 162
Period size: 40 Copynumber: 6.4 Consensus size: 39
10456 CAAAATAAAT
10466 ATATAATAT-A-ATATAATATAATATAATAAATATATATA
1 ATATAATATAATATATAATATAA-ATAATAAATATATATA
* * *
10504 CTATAATATAATATATAATGTACAATAATATATA-ATATA
1 ATATAATATAATATATAATATA-AATAATAAATATATATA
* *
10543 ATAATACTATAATATATAATATATAATAATATACTATATAATA
1 AT-ATAATATAATATATAATATA-AATAATA-AATATAT-ATA
* * * ** *
10586 AAATATATATTATATATTATATATTATATGCTATATAATATATA
1 ATATA-ATATAATATA-TA-ATA-TAAATAATAAAT-ATATATA
* *
10630 ATATAATATTATACTATAATAT--ATAATAACACTCTATATA
1 ATATAATATAATA-TATAATATAAATAATAA-A-TATATATA
* * *
10670 ATAT-ATACAATATATAACATAATATAATAATACGCTATATATT
1 ATATAATATAATATATAATATAA-ATAATAA-A---TATATATA
*
10713 ATATAATATACTATATA
1 ATATAATATAATATATA
10730 CTACTATAAT
Statistics
Matches: 175, Mismatches: 30, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
38 15 0.09
39 17 0.10
40 54 0.31
41 13 0.07
42 8 0.05
43 33 0.19
44 22 0.13
45 11 0.06
46 2 0.01
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (39 bp):
ATATAATATAATATATAATATAAATAATAAATATATATA
Found at i:10572 original size:62 final size:59
Alignment explanation
Indices: 10471--10700 Score: 174
Period size: 62 Copynumber: 3.8 Consensus size: 59
10461 TAAATATATA
*
10471 ATATAATATAAT-ATAATATAATAAATATATATACTATAATATAATATATAATGTACAATAAT
1 ATATAATATAATAAT-ATATAATATATATATATA--ATAATATAATATATAAT-TACAATAAT
*
10533 ATATAATATAATAATACTATAATATATAATATATAATAATATACTATATAA-T--AA-AAT
1 ATATAATATAATAATA-TATAATATAT-ATATATAATAATATAATATATAATTACAATAAT
* * * * * *
10590 ATATATTAT-ATATTATATATTATATGCTATATAAT-ATATAATATAATATTATACTATAAT
1 ATATAATATAATAATATATAATATAT-ATATATAATAATATAATAT-ATAAT-TACAATAAT
* * *
10650 ATATAATA-ACACT-CTATATAATATATACA-ATATATAACATAATATAATAAT
1 ATATAATATA-A-TAATATATAATATATATATATA-ATAATATAATAT-ATAAT
10701 ACGCTATATA
Statistics
Matches: 137, Mismatches: 17, Indels: 29
0.75 0.09 0.16
Matches are distributed among these distances:
54 8 0.06
55 20 0.15
56 5 0.04
57 12 0.09
58 2 0.01
59 4 0.03
60 14 0.10
61 25 0.18
62 29 0.21
63 11 0.08
64 7 0.05
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (59 bp):
ATATAATATAATAATATATAATATATATATATAATAATATAATATATAATTACAATAAT
Found at i:10673 original size:20 final size:20
Alignment explanation
Indices: 10624--10729 Score: 58
Period size: 20 Copynumber: 5.3 Consensus size: 20
10614 TGCTATATAA
**
10624 TATATAATATAATATTATAC
1 TATATAATATAATAACATAC
10644 TATA-ATATATAATAACACT-C
1 TATATA-ATATAATAACA-TAC
* *
10664 TATATAATATATACAATATA-
1 TATATAATATA-ATAACATAC
* * **
10684 TAACATAATATAATAATACGC
1 T-ATATAATATAATAACATAC
* *
10705 TATATATTAT-ATAATATAC
1 TATATAATATAATAACATAC
10724 TATATA
1 TATATA
10730 CTACTATAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
19 14 0.21
20 37 0.55
21 16 0.24
ACGTcount: A:0.51, C:0.08, G:0.01, T:0.40
Consensus pattern (20 bp):
TATATAATATAATAACATAC
Found at i:10676 original size:7 final size:7
Alignment explanation
Indices: 10463--10657 Score: 150
Period size: 7 Copynumber: 26.6 Consensus size: 7
10453 AATCAAAATA
10463 AATATAT
1 AATATAT
10470 AATATA-
1 AATATAT
10476 ATATAATAT
1 A-AT-ATAT
10485 AATATAAT
1 AATAT-AT
10493 AA-ATAT
1 AATATAT
10499 -ATATACT
1 AATATA-T
10506 -ATAATAT
1 AAT-ATAT
10513 AATATAT
1 AATATAT
*
10520 AATGTACAAT
1 AA--TA-TAT
10530 AATATAT
1 AATATAT
10537 AATATAAT
1 AATAT-AT
10545 AATACTAT
1 AATA-TAT
10553 AATATAT
1 AATATAT
10560 AATATAT
1 AATATAT
10567 AATAATAT
1 AAT-ATAT
*
10575 ACTATAT
1 AATATAT
10582 AATA-A-
1 AATATAT
10587 AATATAT
1 AATATAT
*
10594 ATTATAT
1 AATATAT
*
10601 ATTATAT
1 AATATAT
*
10608 ATTATAT
1 AATATAT
**
10615 GCTATAT
1 AATATAT
10622 AATATAT
1 AATATAT
10629 AATATAAT
1 AATAT-AT
10637 ATTATACTAT
1 A--ATA-TAT
10647 AATATAT
1 AATATAT
10654 AATA
1 AATA
10658 ACACTCTATA
Statistics
Matches: 159, Mismatches: 9, Indels: 40
0.76 0.04 0.19
Matches are distributed among these distances:
5 5 0.03
6 8 0.05
7 91 0.57
8 40 0.25
9 4 0.03
10 10 0.06
11 1 0.01
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (7 bp):
AATATAT
Found at i:10720 original size:19 final size:20
Alignment explanation
Indices: 10696--10739 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
10686 ACATAATATA
* *
10696 ATAATACGCTATATATTA-T
1 ATAATACACTATATACTACT
*
10715 ATAATATACTATATACTACT
1 ATAATACACTATATACTACT
10735 ATAAT
1 ATAAT
10740 TTATATTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.41
Consensus pattern (20 bp):
ATAATACACTATATACTACT
Found at i:10722 original size:27 final size:28
Alignment explanation
Indices: 10465--10657 Score: 62
Period size: 27 Copynumber: 7.3 Consensus size: 28
10455 TCAAAATAAA
*
10465 TATATAATATAAT-ATAATA-TA-ATAT
1 TATATAATATAATAATACTACTATATAT
* *
10490 AATA-AATAT-AT-ATACTA-TAATATAA
1 TATATAATATAATAATACTACT-ATATAT
*
10515 TATATAATGTACAATAATA-TA-TA-ATAT
1 TATATAA--TATAATAATACTACTATATAT
* * *
10542 AATAATACTATAAT-ATA-TAATATATAAT
1 TAT-ATAATATAATAATACTACTATAT-AT
* * * *
10570 AATATACTAT-ATAATA-AAATATATAT
1 TATATAATATAATAATACTACTATATAT
* * * *
10596 TATATATTATATATTATA-TGCTATATAA
1 TATATAATATA-ATAATACTACTATATAT
*
10624 TATATAATATAATATTA-TACTATA-A-
1 TATATAATATAATAATACTACTATATAT
10649 TATATAATA
1 TATATAATA
10658 ACACTCTATA
Statistics
Matches: 133, Mismatches: 21, Indels: 28
0.73 0.12 0.15
Matches are distributed among these distances:
23 8 0.06
24 6 0.05
25 23 0.17
26 22 0.17
27 34 0.26
28 32 0.24
29 5 0.04
30 3 0.02
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (28 bp):
TATATAATATAATAATACTACTATATAT
Found at i:11152 original size:13 final size:14
Alignment explanation
Indices: 11129--11160 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
11119 CCGTTAACCG
11129 TTGACTAGTTGACT
1 TTGACTAGTTGACT
11143 TTGA-TAGTTGACT
1 TTGACTAGTTGACT
11156 TTGAC
1 TTGAC
11161 CGTTAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.22, C:0.12, G:0.22, T:0.44
Consensus pattern (14 bp):
TTGACTAGTTGACT
Found at i:12258 original size:24 final size:24
Alignment explanation
Indices: 12231--12294 Score: 67
Period size: 28 Copynumber: 2.5 Consensus size: 24
12221 TAAATAAAAT
12231 ATGTAAAAATATG-TATATAATATA
1 ATGTAAAAATATGATATATAATA-A
12255 ATGTATAATATGATATGATATATAATAA
1 ATGTA-AA-A--ATATGATATATAATAA
*
12283 ATATAAAAATAT
1 ATGTAAAAATAT
12295 ATTATTATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
24 9 0.26
25 2 0.06
26 2 0.06
27 2 0.06
28 10 0.29
29 9 0.26
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.38
Consensus pattern (24 bp):
ATGTAAAAATATGATATATAATAA
Found at i:12270 original size:17 final size:17
Alignment explanation
Indices: 12245--12288 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
12235 AAAAATATGT
*
12245 ATATAATATAATGTATA
1 ATATAATATAATATATA
* *
12262 ATATGATATGATATATA
1 ATATAATATAATATATA
12279 ATA-AATATAA
1 ATATAATATAA
12289 AAATATATTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.39
Consensus pattern (17 bp):
ATATAATATAATATATA
Found at i:12303 original size:27 final size:26
Alignment explanation
Indices: 12273--12345 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 26
12263 TATGATATGA
12273 TATATAATAAATATAAAAATATATTAT
1 TATATAATAAATATAAAAATATA-TAT
* * *
12300 TATAT-GTTAATA-ATAAATATATAT
1 TATATAATAAATATAAAAATATATAT
* *
12324 GATATACTAAATATAAATAATA
1 TATATAATAAATATAAA-AATA
12346 GTGTATAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
24 7 0.19
25 13 0.36
26 7 0.19
27 9 0.25
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (26 bp):
TATATAATAAATATAAAAATATATAT
Found at i:12339 original size:24 final size:24
Alignment explanation
Indices: 12239--12342 Score: 73
Period size: 27 Copynumber: 4.0 Consensus size: 24
12229 ATATGTAAAA
*
12239 ATATGTATATAATATAATGTATAATAT
1 ATATG-ATATAATA-AATATA-AATAT
*
12266 GATATGATATATAATAAATATAAAAAT
1 -ATATG--ATATAATAAATATAAATAT
* * *
12293 ATATTATTATATGTTAATAATAAATAT
1 ATATGA-TATA-ATAAAT-ATAAATAT
*
12320 ATATGATATACTAAATATAAATA
1 ATATGATATAATAAATATAAATA
12343 ATAGTGTATA
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
24 8 0.13
25 8 0.13
26 12 0.19
27 16 0.25
28 10 0.16
29 9 0.14
ACGTcount: A:0.53, C:0.01, G:0.06, T:0.40
Consensus pattern (24 bp):
ATATGATATAATAAATATAAATAT
Found at i:12442 original size:3 final size:3
Alignment explanation
Indices: 12427--12469 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
12417 GTTTCTAATG
12427 TAT TAT T-T ATAT TAT TAT TAT TAT TAT T-T ATAT TAT TAT TAT T
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT T
12470 TAATATATAC
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 2 0.06
3 32 0.89
4 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:12447 original size:15 final size:16
Alignment explanation
Indices: 12427--12471 Score: 65
Period size: 15 Copynumber: 2.8 Consensus size: 16
12417 GTTTCTAATG
12427 TATTATTTATATTATTAT
1 TATTA-TTAT-TTATTAT
12445 TATTATTATTTA-TAT
1 TATTATTATTTATTAT
12460 TATTATTATTTA
1 TATTATTATTTA
12472 ATATATACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.56
16 3 0.11
17 4 0.15
18 5 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTATTATTTATTAT
Found at i:12453 original size:21 final size:21
Alignment explanation
Indices: 12427--12469 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
12417 GTTTCTAATG
12427 TATTATTTATATTATTATTAT
1 TATTATTTATATTATTATTAT
12448 TATTATTTATATTATTATTAT
1 TATTATTTATATTATTATTAT
12469 T
1 T
12470 TAATATATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TATTATTTATATTATTATTAT
Found at i:16027 original size:17 final size:17
Alignment explanation
Indices: 16005--16046 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
15995 AAGAAAGGTG
16005 GGTCAACACTTTAAGGA
1 GGTCAACACTTTAAGGA
16022 GGTCAACACTTTAAGGA
1 GGTCAACACTTTAAGGA
*
16039 GTTCAACA
1 GGTCAACA
16047 ACGACTACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (17 bp):
GGTCAACACTTTAAGGA
Found at i:19569 original size:6 final size:6
Alignment explanation
Indices: 19535--19651 Score: 83
Period size: 7 Copynumber: 17.5 Consensus size: 6
19525 AAAAAGATAG
*
19535 AAAAGA TAAAA-A AAGAGA AAAAGGAA AAAAGA AAAGAGAA AATATAGA
1 AAAAGA -AAAAGA AAAAGA AAAA-G-A AAAAGA AAA-AG-A AA-A-AGA
* *
19583 AAAAGA AGAAGAA AAAAGA GAAAGAGA AAGATGA AAAAGAA AAAAGAA
1 AAAAGA AAAAG-A AAAAGA -AAA-AGA AA-AAGA AAAAG-A AAAAG-A
19631 AAAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAA
19652 TAAATCAAGT
Statistics
Matches: 92, Mismatches: 7, Indels: 23
0.75 0.06 0.19
Matches are distributed among these distances:
5 3 0.03
6 35 0.38
7 36 0.39
8 15 0.16
9 3 0.03
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:19571 original size:21 final size:20
Alignment explanation
Indices: 19545--19651 Score: 112
Period size: 21 Copynumber: 5.2 Consensus size: 20
19535 AAAAGATAAA
19545 AAAAGAGAAAAAGGAAAAAAG
1 AAAAGAGAAAAA-GAAAAAAG
*
19566 AAAAGAGAAAATATAGAAAAAG
1 AAAAGAGAAAA-AGA-AAAAAG
*
19588 AAGAAGA-AAAAAG-AGAAAG
1 AA-AAGAGAAAAAGAAAAAAG
19607 AGAAAGATGAAAAAGAAAAAAG
1 A-AAAGA-GAAAAAGAAAAAAG
*
19629 AAAAAAGAAAAAG-AAAAAG
1 AAAAGAGAAAAAGAAAAAAG
19648 AAAA
1 AAAA
19652 TAAATCAAGT
Statistics
Matches: 74, Mismatches: 5, Indels: 16
0.78 0.05 0.17
Matches are distributed among these distances:
19 20 0.27
20 8 0.11
21 23 0.31
22 19 0.26
23 4 0.05
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.03
Consensus pattern (20 bp):
AAAAGAGAAAAAGAAAAAAG
Found at i:19597 original size:35 final size:35
Alignment explanation
Indices: 19533--19645 Score: 133
Period size: 35 Copynumber: 3.2 Consensus size: 35
19523 ATAAAAAGAT
*
19533 AGAAAAGATAAAAAAAGAGAAAAAGGAAAAAAGAAAAG
1 AGAAAAGAT-GAAAAAGA-AAAAA-GAAAAAAGAAAAG
* *
19571 AGAAAATATAGAAAAAG-AAGAAGAAAAAAGAGAAAG
1 AGAAAAGAT-GAAAAAGAAAAAAGAAAAAAGA-AAAG
19607 AG-AAAGATGAAAAAGAAAAAAGAAAAAAGAAAA-
1 AGAAAAGATGAAAAAGAAAAAAGAAAAAAGAAAAG
19640 AGAAAA
1 AGAAAA
19646 AGAAAATAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
33 2 0.03
34 13 0.19
35 27 0.40
36 10 0.15
38 15 0.22
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (35 bp):
AGAAAAGATGAAAAAGAAAAAAGAAAAAAGAAAAG
Found at i:22017 original size:4 final size:4
Alignment explanation
Indices: 22008--22039 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
21998 TAAATCATTT
22008 CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA
22040 ATTCTTACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:22832 original size:20 final size:20
Alignment explanation
Indices: 22785--22839 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
22775 CCCAAATTTG
* * * *
22785 GTAAGTCCTTAGAGACATTA
1 GTAAGTCTTTCGAGCCATCA
22805 GTAAGTCTTTCGAGCCATCA
1 GTAAGTCTTTCGAGCCATCA
22825 GTAAGTCTTTCGAGC
1 GTAAGTCTTTCGAGC
22840 ATGATGCTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (20 bp):
GTAAGTCTTTCGAGCCATCA
Found at i:23214 original size:232 final size:233
Alignment explanation
Indices: 22805--23297 Score: 740
Period size: 232 Copynumber: 2.1 Consensus size: 233
22795 AGAGACATTA
* * *
22805 GTAAGTCTTTCGAGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTCTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
* * * *
22870 AGTCTTTCCAGCAAGATGATAAGTCCTTCGGACCATCCATAAGACTTTTGGGCAAGATATTTTCA
66 AGTCTTTCAAGCAAGATAATAAGTCCTTCGGACCATCCACAAGACCTTTGGGCAAGATATTTTCA
* *
22935 CAAGTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTAAAAATTGAA-ATTTTTTAAAAGTA
131 CAAGTTTTCGAAAAATGAGAAAAGTTTCTCAATGAAATCTAAAAATTGAATATTTTTTAAAAGTA
*
22999 AGAAAACTTTCTTAGCTAGTAAACTATTTCCAAAATTG
196 AGAAAACTTTCTTACCTAGTAAACTATTTCCAAAATTG
23037 GTAAGTCCTTCGGGCCATCAGTAAGTCTCTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTCTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
* * *
23102 AGTCTTTCAAGCAAGAGTAAT-AGTTCTTC-GAGCCATCCACAAGACCTTTGGGCATGATGTTTT
66 AGTCTTTCAAGCAAGA-TAATAAGTCCTTCGGA-CCATCCACAAGACCTTTGGGCAAGATATTTT
* * * * * *
23165 CACATGTTTTTGAAAAATGAGAAAAGTTTCTCAATGAAATTTGAAAATTGAATTTTTTTTTTAAA
129 CACAAGTTTTCGAAAAATGAGAAAAGTTTCTCAATGAAATCTAAAAATTGAA-TATTTTTTAAAA
*
23230 GTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
193 GTAAGAAAACTTTCTTACCTAGTAAACTATTTCCAAAATTG
* *
23271 GTAAGTCCTTTGGGACATCAGTAAGTC
1 GTAAGTCCTTCGGGCCATCAGTAAGTC
23298 ATTCGGGCCA
Statistics
Matches: 235, Mismatches: 22, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
231 2 0.01
232 157 0.67
233 3 0.01
234 73 0.31
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (233 bp):
GTAAGTCCTTCGGGCCATCAGTAAGTCTCTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
AGTCTTTCAAGCAAGATAATAAGTCCTTCGGACCATCCACAAGACCTTTGGGCAAGATATTTTCA
CAAGTTTTCGAAAAATGAGAAAAGTTTCTCAATGAAATCTAAAAATTGAATATTTTTTAAAAGTA
AGAAAACTTTCTTACCTAGTAAACTATTTCCAAAATTG
Found at i:23296 original size:20 final size:20
Alignment explanation
Indices: 23271--23322 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
23261 TCCAAAATTG
* *
23271 GTAAGTCCTTTGGGACATCA
1 GTAAGTCATTCGGGACATCA
*
23291 GTAAGTCATTCGGGCCATCA
1 GTAAGTCATTCGGGACATCA
*
23311 GTAAGTCTTTCG
1 GTAAGTCATTCG
23323 AGCATGATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (20 bp):
GTAAGTCATTCGGGACATCA
Found at i:24123 original size:134 final size:134
Alignment explanation
Indices: 23883--24127 Score: 337
Period size: 134 Copynumber: 1.8 Consensus size: 134
23873 AGAGAAGAAA
* * *
23883 AACAAATCTACCTCGATTCAATCTTCCCTGAATAACAGTGAAATGAATCAACATCCCCAGATCTG
1 AACAAATCTACCTCGATTCAATCTTCCCTGAAGAACAATGAAATGAATCAACATCCCCAGATATG
* *** * *
23948 ATTTTCCCTCAAGAAGAAGTGTAACATATCCCACTCTTTCAAGATTTGATATTTCCTGAGTAACA
66 ATTTTCCCTCAAGAAAAAGAAAAACAGAACCCACTCTTTCAAGATTTGATATTTCCTGAGTAACA
24013 GTGG
131 GTGG
* * * * * *
24017 AACAAGTCTACCTCGATTCAATCTTCCCTGAAGAATAATGAAATGAATCAACGTCCTCATATATT
1 AACAAATCTACCTCGATTCAATCTTCCCTGAAGAACAATGAAATGAATCAACATCCCCAGATATG
* *
24082 ATTTTCCTTCAAGAAAAAGAAAAACAGAACCCTCTCTTTCAAGATT
66 ATTTTCCCTCAAGAAAAAGAAAAACAGAACCCACTCTTTCAAGATT
24128 AAATATTCCC
Statistics
Matches: 94, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
134 94 1.00
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (134 bp):
AACAAATCTACCTCGATTCAATCTTCCCTGAAGAACAATGAAATGAATCAACATCCCCAGATATG
ATTTTCCCTCAAGAAAAAGAAAAACAGAACCCACTCTTTCAAGATTTGATATTTCCTGAGTAACA
GTGG
Found at i:24201 original size:93 final size:91
Alignment explanation
Indices: 24031--24245 Score: 225
Period size: 93 Copynumber: 2.3 Consensus size: 91
24021 AGTCTACCTC
* * * * * * * *
24031 GATTCAATCTTCCCTGAAGAATAATGAAATGAATCAACGTCCTCATATATTATTTTCCTTCAAGA
1 GATTAAATATTCCCT-AAGAACAGTGGAATGAATCAACGTCCTCATATATGATTTCCCCTCAAGA
24096 AAAAGAAAAACAGAACCCTCTCTTTCAA
65 AAAAG-AAAACAGAACCCTCTCTTTCAA
* *
24124 GATTAAATATTCCCTAAAGAACAGTGGAATGAATCAATGTCCTCATATCTGATTTCCCCTCAAGA
1 GATTAAATATTCCCT-AAGAACAGTGGAATGAATCAACGTCCTCATATATGATTTCCCCTCAAGA
* * *
24189 AGAAATG-TAACAGATCTCTCTCTTTCAA
65 A-AAA-GAAAACAGAACCCTCTCTTTCAA
** *
24217 GATTTGATATTCCCTTAGTAACAGTGGAA
1 GATTAAATATTCCCTAAG-AACAGTGGAA
24246 CAAGTCTGCC
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
92 2 0.02
93 96 0.94
94 3 0.03
95 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (91 bp):
GATTAAATATTCCCTAAGAACAGTGGAATGAATCAACGTCCTCATATATGATTTCCCCTCAAGAA
AAAGAAAACAGAACCCTCTCTTTCAA
Found at i:24379 original size:133 final size:136
Alignment explanation
Indices: 24124--24690 Score: 628
Period size: 134 Copynumber: 4.2 Consensus size: 136
24114 TCTCTTTCAA
* * * * *
24124 GATTAAATATTCCCTAAAGAACAGT-GGAATGAATC-A-ATGTCCTCATATCTGATTTCCCCTCA
1 GATTCAATCTTCCCTGAAGAACAGTAGGAATAAATCAACAT-TCC-CATATCTGATTTTCCCTCA
** * *
24186 AGAAGAAATGTAACAGATCTCTCTCTTTCAAGATTTGATATTCCCT-T-AGTAACAGTGGAACAA
64 AGAAGAAGCGAAACAGATCCCTCTCTTTCAAGATTTGATATT-CCTATGAGTAACAGTGGAACAA
*
24249 GTCTGCCTC
128 GTCTACCTC
* * *
24258 GATTCAATCTTCCTTGAAGAACAGTAGAAAT-AATCAACATTTCCATATCTGA-TTTCCCTCAAG
1 GATTCAATCTTCCCTGAAGAACAGTAGGAATAAATCAACATTCCCATATCTGATTTTCCCTCAAG
* * *
24321 AAGAAGCGAAATAGATCCCTCTCTCTCAAGATTTGATATT-CTATGAGTAATAGTGGAACAAGTC
66 AAGAAGCGAAACAGATCCCTCTCTTTCAAGATTTGATATTCCTATGAGTAACAGTGGAACAAGTC
*
24385 TGCCTC
131 TACCTC
* * * * * *
24391 GATTCAATCTTCCCTGAAGAA-AG-ATGGAATGAATCAACGTCCCCAGATCTGATTTTTCCTTAA
1 GATTCAATCTTCCCTGAAGAACAGTA-GGAATAAATCAACATTCCCATATCTGATTTTCCCTCAA
* * * * *
24454 GAAGAAGC-AGAACATATCCCTCTCTTTCAATATTTGATATTCCT-TGAGTGACAATGGAACAAT
65 GAAGAAGCGA-AACAGATCCCTCTCTTTCAAGATTTGATATTCCTATGAGTAACAGTGGAACAAG
24517 TCTACCTC
129 TCTACCTC
* * *
24525 GATTCAATCTTCCCTGAAGAACAAT-GGAATAAATCAA-AGTCCCAATATCTAATTTTCCCTCAA
1 GATTCAATCTTCCCTGAAGAACAGTAGGAATAAATCAACATTCCC-ATATCTGATTTTCCCTCAA
* * * *
24588 TAAGAAGCGGAACAGATCCTTCTCTTTCAAGATTTGATATTTCCTA--AGTGACAGTGGAACAAG
65 GAAGAAGCGAAACAGATCCCTCTCTTTCAAGATTTGATA-TTCCTATGAGTAACAGTGGAACAAG
24651 TCTACCTC
129 TCTACCTC
*
24659 GATTCAATCTTCCCTAAAGAACAGT-GGAATAA
1 GATTCAATCTTCCCTGAAGAACAGTAGGAATAA
24691 GTGAACGTTT
Statistics
Matches: 368, Mismatches: 49, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
131 3 0.01
132 7 0.02
133 109 0.30
134 232 0.63
135 15 0.04
136 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.30
Consensus pattern (136 bp):
GATTCAATCTTCCCTGAAGAACAGTAGGAATAAATCAACATTCCCATATCTGATTTTCCCTCAAG
AAGAAGCGAAACAGATCCCTCTCTTTCAAGATTTGATATTCCTATGAGTAACAGTGGAACAAGTC
TACCTC
Found at i:24887 original size:3 final size:3
Alignment explanation
Indices: 24872--24908 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
24862 GGTTCTAATG
24872 TAT TAT T-T ATAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT T
24909 TAATATATAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 1 0.03
3 30 0.94
4 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:27010 original size:13 final size:14
Alignment explanation
Indices: 26992--27027 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
26982 ATATCACCTT
26992 TTATTTT-TTAAAA
1 TTATTTTATTAAAA
27005 TTATTTTTATTAAAA
1 TTA-TTTTATTAAAA
27020 TTATTTTA
1 TTATTTTA
27028 AAAGATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 9 0.43
15 9 0.43
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATTTTATTAAAA
Found at i:27019 original size:15 final size:14
Alignment explanation
Indices: 26995--27026 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
26985 TCACCTTTTA
26995 TTTTTTAAAATTAT
1 TTTTTTAAAATTAT
27009 TTTTATTAAAATTAT
1 TTTT-TTAAAATTAT
27024 TTT
1 TTT
27027 AAAAGATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTTTAAAATTAT
Found at i:27840 original size:22 final size:22
Alignment explanation
Indices: 27815--27909 Score: 79
Period size: 23 Copynumber: 4.3 Consensus size: 22
27805 CACCACTGCT
27815 CACATAATTTG-CATCGAAGTGA-
1 CACATAATTTGTC-TCGAA-TGAC
27837 CACAT-ATTTGTCTCGAATGAC
1 CACATAATTTGTCTCGAATGAC
* *
27858 CACATAGGTTTGTCCCGAATGAC
1 CACATA-ATTTGTCTCGAATGAC
* * * *
27881 CACATAGGTTTGTGTTGAAGGAC
1 CACATA-ATTTGTCTCGAATGAC
27904 CACATA
1 CACATA
27910 GAACCCTTGA
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
20 3 0.05
21 15 0.24
22 6 0.10
23 39 0.62
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (22 bp):
CACATAATTTGTCTCGAATGAC
Found at i:27876 original size:23 final size:23
Alignment explanation
Indices: 27843--27893 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
27833 GTGACACATA
*
27843 TTTGTCTCGAATGACCACATAGG
1 TTTGTCCCGAATGACCACATAGG
27866 TTTGTCCCGAATGACCACATAGG
1 TTTGTCCCGAATGACCACATAGG
27889 TTTGT
1 TTTGT
27894 GTTGAAGGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (23 bp):
TTTGTCCCGAATGACCACATAGG
Found at i:27904 original size:23 final size:23
Alignment explanation
Indices: 27843--27910 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
27833 GTGACACATA
* *
27843 TTTGTCTCGAATGACCACATAGG
1 TTTGTCCCGAAGGACCACATAGG
*
27866 TTTGTCCCGAATGACCACATAGG
1 TTTGTCCCGAAGGACCACATAGG
***
27889 TTTGTGTTGAAGGACCACATAG
1 TTTGTCCCGAAGGACCACATAG
27911 AACCCTTGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (23 bp):
TTTGTCCCGAAGGACCACATAGG
Found at i:28574 original size:20 final size:20
Alignment explanation
Indices: 28547--28598 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
28537 ATTTCAATTA
*
28547 TAGTATCGATACCTTCCTC-T
1 TAGTATCGATACC-TCCACAT
*
28567 TGGTATCGATACCTCCACAT
1 TAGTATCGATACCTCCACAT
28587 TAGTATCGATAC
1 TAGTATCGATAC
28599 TTCTTCAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (20 bp):
TAGTATCGATACCTCCACAT
Found at i:31987 original size:20 final size:19
Alignment explanation
Indices: 31953--32006 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 19
31943 ATACATAAAC
*
31953 TAAAATTATAATAAAAATA
1 TAAAATTAAAATAAAAATA
31972 TAAAATTACAAATAAAAATA
1 TAAAATTA-AAATAAAAATA
*
31992 T--AATTATAATAAAAA
1 TAAAATTAAAATAAAAA
32007 AGTTTAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 8 0.25
18 5 0.16
19 8 0.25
20 11 0.34
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAAATTAAAATAAAAATA
Found at i:32186 original size:19 final size:19
Alignment explanation
Indices: 32162--32201 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
32152 AAACTACATA
* *
32162 TTTAATTACTCAATTATTT
1 TTTAATCACTCAACTATTT
*
32181 TTTAATCATTCAACTATTT
1 TTTAATCACTCAACTATTT
32200 TT
1 TT
32202 ATTTTTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTAATCACTCAACTATTT
Found at i:33065 original size:29 final size:29
Alignment explanation
Indices: 32995--33096 Score: 82
Period size: 29 Copynumber: 3.5 Consensus size: 29
32985 GTACTGACAT
* * * **
32995 TAAAAATATTTTTTATTTTTATTTTAAAT
1 TAAAAATATATTTTATTGTTATTTGAACC
* * *
33024 TATTAAATCTATTTTATTGTTGTCTT-AACC
1 TA-AAAATATATTTTATTGTTAT-TTGAACC
* *
33054 TAAAAATATATTTTATTTTTATTTGAACT
1 TAAAAATATATTTTATTGTTATTTGAACC
33083 TAAAAATAT-TTTTA
1 TAAAAATATATTTTA
33097 AAGCATAAAG
Statistics
Matches: 58, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
28 7 0.12
29 30 0.52
30 19 0.33
31 2 0.03
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (29 bp):
TAAAAATATATTTTATTGTTATTTGAACC
Found at i:36362 original size:13 final size:13
Alignment explanation
Indices: 36344--36368 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36334 GCCATGCCAC
36344 ATTGATTATGAAT
1 ATTGATTATGAAT
36357 ATTGATTATGAA
1 ATTGATTATGAA
36369 ACTAATGGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
ATTGATTATGAAT
Found at i:36962 original size:19 final size:20
Alignment explanation
Indices: 36923--36963 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
36913 AACATAATGT
36923 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
*
36943 CCAGGGGGTACCGATTCCCC
1 CCAGGGGGTACAGATTCCCC
36963 C
1 C
36964 TGTTTAACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.39, G:0.29, T:0.15
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:39201 original size:17 final size:17
Alignment explanation
Indices: 39179--39220 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
39169 ACATGTGCAT
39179 GCCTTGTGACCAGCCAA
1 GCCTTGTGACCAGCCAA
39196 GCCTTGTGACCAGCCAA
1 GCCTTGTGACCAGCCAA
*
39213 GCCATGTG
1 GCCTTGTG
39221 TTATGCGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.21, C:0.33, G:0.26, T:0.19
Consensus pattern (17 bp):
GCCTTGTGACCAGCCAA
Found at i:45160 original size:41 final size:42
Alignment explanation
Indices: 45099--45201 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 42
45089 ATTGTTTTTA
* * * *
45099 CATCTTGCCCG-AAGGTCTTATGGATGACCCAAAGGACTT-AT
1 CATCTTGCTCGAAAGG-CTTATAGATGACCCAAACGACTTAAG
*
45140 CATCTTGCTCGAAAGGCTTATAGATGACCCAAACGATTTAAG
1 CATCTTGCTCGAAAGGCTTATAGATGACCCAAACGACTTAAG
* *
45182 CATCATGCTCGAAAGACTTA
1 CATCTTGCTCGAAAGGCTTA
45202 CTGATGGCCC
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 30 0.57
42 23 0.43
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.26
Consensus pattern (42 bp):
CATCTTGCTCGAAAGGCTTATAGATGACCCAAACGACTTAAG
Found at i:45683 original size:54 final size:54
Alignment explanation
Indices: 45617--45970 Score: 329
Period size: 54 Copynumber: 6.6 Consensus size: 54
45607 GTAATTTACC
* * * * * * * *
45617 AACTTACTATGAATTACATGGGTTACACACCCAATACCAATACGAAAATTCATA
1 AACTTATTATGAATTTCATAGGTTGCACACACAATGCCAATATGGAAATTCATA
* * * *
45671 AACTTGTTATGAATTTCGTAGGTTGTACACACAGTGCCAATATGGAAATTCATA
1 AACTTATTATGAATTTCATAGGTTGCACACACAATGCCAATATGGAAATTCATA
* * * *
45725 AACTTATTCTGAATTTCTTAAGTTGCATACACAATGCCAATATGGAAA-TCATA
1 AACTTATTATGAATTTCATAGGTTGCACACACAATGCCAATATGGAAATTCATA
* * *
45778 AACTTATTATGAATTTCTTAAGTTGCACACA-AAGTGTCAATA-GGTAAATTCATA
1 AACTTATTATGAATTTCATAGGTTGCACACACAA-TGCCAATATGG-AAATTCATA
* * * ** * **
45832 AACTTATTATGGATTTCTTAAGTTGCGTACACAGTGCCAATACAGAAATTCATA
1 AACTTATTATGAATTTCATAGGTTGCACACACAATGCCAATATGGAAATTCATA
* * * * * * *
45886 ACCTTATTATGATTTTC-TGAAGTTACACACACAGTGCTAATACGGAAATTCATA
1 AACTTATTATGAATTTCAT-AGGTTGCACACACAATGCCAATATGGAAATTCATA
* *
45940 AACTTATTATGAATTTCTTAAGTTGCACACA
1 AACTTATTATGAATTTCATAGGTTGCACACA
45971 TAGTGCCCAT
Statistics
Matches: 254, Mismatches: 39, Indels: 14
0.83 0.13 0.05
Matches are distributed among these distances:
52 4 0.02
53 45 0.18
54 202 0.80
55 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (54 bp):
AACTTATTATGAATTTCATAGGTTGCACACACAATGCCAATATGGAAATTCATA
Found at i:45808 original size:107 final size:107
Alignment explanation
Indices: 45648--45966 Score: 433
Period size: 107 Copynumber: 3.0 Consensus size: 107
45638 GTTACACACC
* * * * * *
45648 CAATACCAATACGAAAATTCATAAACTTGTTATGAATTTCGTAGGTTGTACACACAGTGCCAATA
1 CAATGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTGCCAATA
*
45713 TGGAAATTCATAAACTTATTCTGAATTTCTTAAGTTGCATACA
66 -GGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCATACA
* * *
45756 CAATGCCAATATGGAAA-TCATAAACTTATTATGAATTTCTTAAGTTGCACACAAAGTGTCAATA
1 CAATGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTGCCAATA
* *
45820 GGTAAATTCATAAACTTATTATGGATTTCTTAAGTTGCGTACA
66 GG-AAATTCATAAACTTATTATGAATTTCTTAAGTTGCATACA
* * * * * * *
45863 CAGTGCCAATACAGAAATTCATAACCTTATTATGATTTTCTGAAGTTACACACACAGTGCTAATA
1 CAATGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTGCCAATA
45928 CGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCA
66 -GGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCA
45967 CACATAGTGC
Statistics
Matches: 184, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
106 2 0.01
107 92 0.50
108 88 0.48
109 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (107 bp):
CAATGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTGCCAATA
GGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCATACA
Found at i:45976 original size:54 final size:54
Alignment explanation
Indices: 45653--45977 Score: 429
Period size: 54 Copynumber: 6.0 Consensus size: 54
45643 ACACCCAATA
* * * * *
45653 CCAATACGAAAATTCATAAACTTGTTATGAATTTCGTAGGTTGTACACACAGTG
1 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTG
* * * *
45707 CCAATATGGAAATTCATAAACTTATTCTGAATTTCTTAAGTTGCATACACAATG
1 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTG
* *
45761 CCAATATGGAAA-TCATAAACTTATTATGAATTTCTTAAGTTGCACACAAAGTG
1 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTG
* * **
45814 TCAATA-GGTAAATTCATAAACTTATTATGGATTTCTTAAGTTGCGTACACAGTG
1 CCAATACGG-AAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTG
* * * * *
45868 CCAATACAGAAATTCATAACCTTATTATGATTTTCTGAAGTTACACACACAGTG
1 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTG
* *
45922 CTAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACATAGTG
1 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTG
45976 CC
1 CC
45978 CATTCGATAA
Statistics
Matches: 233, Mismatches: 35, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
52 2 0.01
53 45 0.19
54 185 0.79
55 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (54 bp):
CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGTTGCACACACAGTG
Found at i:48459 original size:13 final size:12
Alignment explanation
Indices: 48441--48493 Score: 63
Period size: 12 Copynumber: 4.2 Consensus size: 12
48431 ATTTTATTTT
48441 AAAATTTTGAAA
1 AAAATTTTGAAA
48453 AAGAATTTTG-AA
1 AA-AATTTTGAAA
*
48465 AAAATATTTAATAA
1 AAAAT-TTTGA-AA
48479 AAAATTTTGAAA
1 AAAATTTTGAAA
48491 AAA
1 AAA
48494 TATTGCCCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
11 3 0.09
12 14 0.40
13 11 0.31
14 7 0.20
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
AAAATTTTGAAA
Found at i:76763 original size:10 final size:9
Alignment explanation
Indices: 76747--76788 Score: 59
Period size: 9 Copynumber: 4.6 Consensus size: 9
76737 GTTTTGTCTC
76747 TTTTTTTCT
1 TTTTTTTCT
76756 TTTCTTTTCTT
1 TTT-TTTTC-T
76767 TTTTTTTCT
1 TTTTTTTCT
76776 TTTTTTT-T
1 TTTTTTTCT
76784 TTTTT
1 TTTTT
76789 GAACTGAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 6 0.19
9 11 0.35
10 10 0.32
11 4 0.13
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:76788 original size:5 final size:5
Alignment explanation
Indices: 76750--76786 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
76740 TTGTCTCTTT
*
76750 TTTTC TTTTC TTTTC TTTTT TTTTC TTTT- TTTT- TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
76787 TTGAACTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
4 8 0.27
5 22 0.73
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (5 bp):
TTTTC
Found at i:76788 original size:15 final size:15
Alignment explanation
Indices: 76747--76788 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
76737 GTTTTGTCTC
*
76747 TTTTTTTCTTTTCTT
1 TTTTTTTTTTTTCTT
*
76762 TTCTTTTTTTTTCTT
1 TTTTTTTTTTTTCTT
76777 TTTTTTTTTTTT
1 TTTTTTTTTTTT
76789 GAACTGAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTTTTTTTTCTT
Found at i:77524 original size:5 final size:5
Alignment explanation
Indices: 77504--77561 Score: 50
Period size: 5 Copynumber: 11.4 Consensus size: 5
77494 ACAAGCCTGC
*
77504 AATAA TAATAA AATAA CATAA AA-ATA AATAA AATAAA AATAGA AAT-A
1 AATAA -AATAA AATAA AATAA AATA-A AATAA AAT-AA AATA-A AATAA
77551 AAT-A AATAA AA
1 AATAA AATAA AA
77562 GGTTCGGACG
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
4 9 0.20
5 21 0.47
6 15 0.33
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:77526 original size:10 final size:9
Alignment explanation
Indices: 77510--77561 Score: 54
Period size: 8 Copynumber: 5.8 Consensus size: 9
77500 CTGCAATAAT
77510 AATAAAATA
1 AATAAAATA
77519 ACATAAAAATA
1 A-AT-AAAATA
77530 AATAAAATA
1 AATAAAATA
* *
77539 AA-AATAGA
1 AATAAAATA
77547 AAT-AAATA
1 AATAAAATA
77555 AATAAAA
1 AATAAAA
77562 GGTTCGGACG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
8 12 0.34
9 12 0.34
10 4 0.11
11 7 0.20
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (9 bp):
AATAAAATA
Found at i:77527 original size:11 final size:10
Alignment explanation
Indices: 77513--77556 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
77503 CAATAATAAT
77513 AAAATAACATA
1 AAAATAA-ATA
77524 AAAATAAATA
1 AAAATAAATA
*
77534 AAATAAAAATA
1 AAA-ATAAATA
*
77545 GAAATAAATA
1 AAAATAAATA
77555 AA
1 AA
77557 TAAAAGGTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
10 13 0.46
11 15 0.54
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (10 bp):
AAAATAAATA
Found at i:77529 original size:16 final size:15
Alignment explanation
Indices: 77504--77556 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 15
77494 ACAAGCCTGC
*
77504 AATAATAATAAAATA
1 AATAAAAATAAAATA
77519 ACATAAAAAT-AAATAA
1 A-ATAAAAATAAAAT-A
77535 AATAAAAATAGAAATA
1 AATAAAAATA-AAATA
77551 AATAAA
1 AATAAA
77557 TAAAAGGTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
15 13 0.39
16 16 0.48
17 4 0.12
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (15 bp):
AATAAAAATAAAATA
Found at i:77551 original size:21 final size:21
Alignment explanation
Indices: 77510--77561 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
77500 CTGCAATAAT
*
77510 AATAAAAT-AACATAAAAATA
1 AATAAAATAAAAATAAAAATA
*
77530 AATAAAATAAAAATAGAAATA
1 AATAAAATAAAAATAAAAATA
77551 AAT-AAATAAAA
1 AATAAAATAAAA
77562 GGTTCGGACG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (21 bp):
AATAAAATAAAAATAAAAATA
Found at i:77658 original size:30 final size:30
Alignment explanation
Indices: 77601--77689 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
77591 ATATTATATT
77601 CTTAAATTATTAAATATATTATATTCTTAC
1 CTTAAATTATTAAATATATTATATTCTTAC
* *
77631 CTTAAATTATTAAATATAATT-TTTTCTTAT
1 CTTAAATTATTAAATAT-ATTATATTCTTAC
* * * * *
77661 TTTAACTTAATATATATATTTTATTCTTA
1 CTTAAATTATTAAATATATTATATTCTTA
77690 TCTAACTTAC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 3 0.06
30 44 0.88
31 3 0.06
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (30 bp):
CTTAAATTATTAAATATATTATATTCTTAC
Found at i:77659 original size:25 final size:28
Alignment explanation
Indices: 77589--77659 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 28
77579 GTGTCGACAC
*
77589 ATATATTATATTCTTAAATTATTAAATAT
1 ATATATTCT-TTCTTAAATTATTAAATAT
*
77618 ATTATATTCTTACCTTAAATTATTAAATAT
1 A-TATATTCTT-TCTTAAATTATTAAATAT
77648 A-AT-TT-TTTCTTA
1 ATATATTCTTTCTTA
77660 TTTTAACTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
25 4 0.11
26 2 0.05
27 2 0.05
28 2 0.05
29 2 0.05
30 25 0.68
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (28 bp):
ATATATTCTTTCTTAAATTATTAAATAT
Found at i:77690 original size:30 final size:29
Alignment explanation
Indices: 77612--77805 Score: 144
Period size: 29 Copynumber: 6.5 Consensus size: 29
77602 TTAAATTATT
* ** * *
77612 AAATATATTATATTCTTACCTTAAATTATT
1 AAATATATTTTATTCTTATTTTAACTTA-A
77642 AAATATAATTTT-TTCTTATTTTAACTTAA
1 AAATAT-ATTTTATTCTTATTTTAACTTAA
* *
77671 TATATATATTTTATTCTTA-TCTAACTTACA
1 -AAATATATTTTATTCTTATTTTAACTTA-A
* * *
77701 AATGTAAATTTTAATT-TTAATTTTAATTTAA
1 AA-ATATATTTT-ATTCTT-ATTTTAACTTAA
* *
77732 AAATGAATATTTTATTATTATTTTAATTTAA
1 AAAT--ATATTTTATTCTTATTTTAACTTAA
* *
77763 AAATATATTTTACTT-TTATCTTAACTGAA
1 AAATATATTTTA-TTCTTATTTTAACTTAA
77792 AAATATATTTTATT
1 AAATATATTTTATT
77806 TTTTACCTTA
Statistics
Matches: 135, Mismatches: 17, Indels: 26
0.76 0.10 0.15
Matches are distributed among these distances:
28 2 0.01
29 45 0.33
30 43 0.32
31 30 0.22
32 15 0.11
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (29 bp):
AAATATATTTTATTCTTATTTTAACTTAA
Found at i:77822 original size:91 final size:87
Alignment explanation
Indices: 77612--77824 Score: 191
Period size: 91 Copynumber: 2.4 Consensus size: 87
77602 TTAAATTATT
* * * * *
77612 AAATATATTATATTCTTACCTTAAATTATTAAATATAATTTTTTCTTATTTTAACTTAATATATA
1 AAATATATTTTATTTTTACCTT-AATT-TTAAAAATAATTTTTTATTATTTTAACTTAATAAATA
*
77677 TATTTTATTCTTATCTAACTTACA
64 TATTTTATTCTTATCTAACTGACA
* * * ** *
77701 AATGTAAATTTTAATTTTAATTTTAA-TTTAAAAATGAATATTTTATTATTATTTTAATTTAA-A
1 AA-ATATATTTT-ATTTTTACCTTAATTTTAAAAAT--A-ATTTT-TTATTATTTTAACTTAATA
77764 AATATATTTTACTT-TTATCTTAACTGA-A
60 AATATATTTTA-TTCTTATC-TAACTGACA
77792 AAATATATTTTATTTTTTACCTTAATTTTAAAA
1 AAATATATTTTA-TTTTTACCTTAATTTTAAAA
77825 TGTTGTAAGA
Statistics
Matches: 97, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
88 7 0.07
89 4 0.04
90 25 0.26
91 38 0.39
92 23 0.24
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (87 bp):
AAATATATTTTATTTTTACCTTAATTTTAAAAATAATTTTTTATTATTTTAACTTAATAAATATA
TTTTATTCTTATCTAACTGACA
Found at i:77825 original size:30 final size:29
Alignment explanation
Indices: 77612--77825 Score: 135
Period size: 30 Copynumber: 7.1 Consensus size: 29
77602 TTAAATTATT
* * * * *
77612 AAATATATTATATTCTTACCTTAAATTATT
1 AAATATATTTTATTTTTATCTTAATTTA-A
* * *
77642 AAATATAATTTT-TTCTTATTTTAACTTAA
1 AAATAT-ATTTTATTTTTATCTTAATTTAA
* * *
77671 TATATATATTTTATTCTTATC-TAACTTACA
1 -AAATATATTTTATTTTTATCTTAATTTA-A
* * * *
77701 AATGTAAATTTTAATTTTAATTTTAATTTAA
1 AA-ATATATTTT-ATTTTTATCTTAATTTAA
* *
77732 AAATGAATATTTTATTATTATTTTAATTTAA
1 AAAT--ATATTTTATTTTTATCTTAATTTAA
* * *
77763 AAATATATTTTACTTTTATCTTAACTGAA
1 AAATATATTTTATTTTTATCTTAATTTAA
* *
77792 AAATATATTTTATTTTTTACCTTAATTTTA
1 AAATATATTTTA-TTTTTATCTTAATTTAA
77822 AAAT
1 AAAT
77826 GTTGTAAGAA
Statistics
Matches: 146, Mismatches: 28, Indels: 20
0.75 0.14 0.10
Matches are distributed among these distances:
29 45 0.31
30 56 0.38
31 33 0.23
32 12 0.08
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (29 bp):
AAATATATTTTATTTTTATCTTAATTTAA
Found at i:77865 original size:31 final size:30
Alignment explanation
Indices: 77830--78011 Score: 176
Period size: 29 Copynumber: 6.1 Consensus size: 30
77820 TAAAATGTTG
*
77830 TAAGAATAAAATATAAATATTTAAGTTAAGA
1 TAAGAATAAAATAT-AATTTTTAAGTTAAGA
* *
77861 TAAGAATAAATTATACTTTTTTAAGTTAAGA
1 TAAGAATAAAATATA-ATTTTTAAGTTAAGA
* * * *
77892 TAAGACTAGAATA-GATTTTTAAGTTAAAA
1 TAAGAATAAAATATAATTTTTAAGTTAAGA
* *
77921 TAAGAATAAAATAT-ATTTTTAAGTCAATA
1 TAAGAATAAAATATAATTTTTAAGTTAAGA
*
77950 TAAGAATAAAATAT-ATTTTATAATTTAAGA
1 TAAGAATAAAATATAATTTT-TAAGTTAAGA
* *
77980 TTA-AATAAAA-ATATATTTTTATTGTTAAGA
1 TAAGAATAAAATATA-ATTTTTA-AGTTAAGA
78010 TA
1 TA
78012 TTAATTTAAT
Statistics
Matches: 125, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
28 2 0.02
29 65 0.52
30 22 0.18
31 36 0.29
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.39
Consensus pattern (30 bp):
TAAGAATAAAATATAATTTTTAAGTTAAGA
Found at i:79176 original size:14 final size:14
Alignment explanation
Indices: 79152--79206 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
79142 TCTGTAATCC
*
79152 ATTCGTTTATGTTT
1 ATTCTTTTATGTTT
79166 ATT-TCTTTATGTTT
1 ATTCT-TTTATGTTT
*
79180 ATTCTTTTATGTTC
1 ATTCTTTTATGTTT
*
79194 GTTCTTTTATGTT
1 ATTCTTTTATGTT
79207 CAACCGCAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 35 0.97
15 1 0.03
ACGTcount: A:0.13, C:0.09, G:0.11, T:0.67
Consensus pattern (14 bp):
ATTCTTTTATGTTT
Found at i:81380 original size:2 final size:2
Alignment explanation
Indices: 81373--81450 Score: 149
Period size: 2 Copynumber: 39.5 Consensus size: 2
81363 AATCGTGAAC
81373 AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
81414 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
81451 ATCAATTATT
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 74 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82355 original size:16 final size:16
Alignment explanation
Indices: 82334--82364 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
82324 TTAGTTCATG
*
82334 ATTTCCTTATTCATTC
1 ATTTCCTCATTCATTC
82350 ATTTCCTCATTCATT
1 ATTTCCTCATTCATT
82365 TTAAGCTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTCCTCATTCATTC
Found at i:84075 original size:13 final size:13
Alignment explanation
Indices: 84057--84090 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
84047 CATATCCGAT
84057 TTTTCTTTTAGAA
1 TTTTCTTTTAGAA
84070 TTTTCTTTTAGAA
1 TTTTCTTTTAGAA
84083 TTTTCTTT
1 TTTTCTTT
84091 AAAAGGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.68
Consensus pattern (13 bp):
TTTTCTTTTAGAA
Found at i:87214 original size:16 final size:17
Alignment explanation
Indices: 87188--87220 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
87178 TTATATTGTA
87188 GAAAAATAGAAAAAAAT
1 GAAAAATAGAAAAAAAT
87205 GAAAAA-AGAAAAAAAT
1 GAAAAATAGAAAAAAAT
87221 ATTAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (17 bp):
GAAAAATAGAAAAAAAT
Found at i:87255 original size:20 final size:22
Alignment explanation
Indices: 87230--87272 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
87220 TATTAATATA
87230 ATAATA-ATAACAAA-ATAAAT
1 ATAATAGATAACAAAGATAAAT
87250 ATAATAGATAACAAAGATAAAT
1 ATAATAGATAACAAAGATAAAT
87272 A
1 A
87273 AAAGTTAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.29
21 8 0.38
22 7 0.33
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (22 bp):
ATAATAGATAACAAAGATAAAT
Found at i:87273 original size:20 final size:19
Alignment explanation
Indices: 87224--87270 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 19
87214 AAAAAATATT
*
87224 AATATAATAATAATAACAA
1 AATAAAATAATAATAACAA
87243 AATAAATATAATAGATAACAA
1 AATAAA-ATAATA-ATAACAA
87264 AGATAAA
1 A-ATAAA
87271 TAAAAGTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 5 0.21
20 6 0.25
21 8 0.33
22 5 0.21
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (19 bp):
AATAAAATAATAATAACAA
Found at i:87547 original size:20 final size:20
Alignment explanation
Indices: 87522--87560 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
87512 TGACATACGA
87522 ATACGAGCCATACAAGCCAT
1 ATACGAGCCATACAAGCCAT
*
87542 ATACGAGCCATACGAGCCA
1 ATACGAGCCATACAAGCCA
87561 ATGGAGAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (20 bp):
ATACGAGCCATACAAGCCAT
Found at i:87554 original size:9 final size:9
Alignment explanation
Indices: 87522--87560 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
87512 TGACATACGA
87522 ATACGAGCC
1 ATACGAGCC
*
87531 ATACAAGCC
1 ATACGAGCC
87540 ATATACGAGCC
1 --ATACGAGCC
87551 ATACGAGCC
1 ATACGAGCC
87560 A
1 A
87561 ATGGAGAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 18 0.69
11 8 0.31
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (9 bp):
ATACGAGCC
Found at i:87611 original size:29 final size:29
Alignment explanation
Indices: 87567--87641 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
87557 GCCAATGGAG
* ** *
87567 AGGTCGCCATGCAGTCTGGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCATGT
*
87596 AGGTCGTCATGTAGTCCCGGCGACCATGT
1 AGGTCGCCATGTAGTCCCGGCGACCATGT
87625 AGGTCGCCATGTAGTCC
1 AGGTCGCCATGTAGTCC
87642 TAGCTCACGA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.16, C:0.28, G:0.32, T:0.24
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCATGT
Found at i:88007 original size:25 final size:26
Alignment explanation
Indices: 87958--88008 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
87948 CTTGGTCGCC
* *
87958 GAGATTGCAACCGAAGAAAGGAAGAA
1 GAGACTGCAACCGAAGAAAGAAAGAA
*
87984 GAGACTGCAGCCG-AGAAAGAAAGAA
1 GAGACTGCAACCGAAGAAAGAAAGAA
88009 AGGGAGAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.49, C:0.14, G:0.31, T:0.06
Consensus pattern (26 bp):
GAGACTGCAACCGAAGAAAGAAAGAA
Found at i:88209 original size:41 final size:41
Alignment explanation
Indices: 88164--88252 Score: 92
Period size: 41 Copynumber: 2.2 Consensus size: 41
88154 TATATGATTG
* *
88164 TTAGTTTAAG-TT-ATAGTATACATAAATTAAAAATTATTTAA
1 TTAGTTTAAGTTTGATAGT-TACAT-AATTAAAAAATAATTAA
* * * *
88205 TTAGTATATGTTTGATAGTTATATAGTTAAAAAATAATTAA
1 TTAGTTTAAGTTTGATAGTTACATAATTAAAAAATAATTAA
88246 TTAGTTT
1 TTAGTTT
88253 GTTTTGTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 28 0.72
42 6 0.15
43 5 0.13
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.46
Consensus pattern (41 bp):
TTAGTTTAAGTTTGATAGTTACATAATTAAAAAATAATTAA
Found at i:88295 original size:44 final size:46
Alignment explanation
Indices: 88232--88322 Score: 134
Period size: 44 Copynumber: 2.0 Consensus size: 46
88222 GTTATATAGT
*
88232 TAAAAAATAATTAATTAGTTTGT-TTTGTT-AATAGTT-AGTTATA
1 TAAAAAATAATTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATA
*
88275 TAAAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATA
1 TAAAAAA-TAATTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATA
88322 T
1 T
88323 TTGTTTGTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 7 0.17
44 15 0.36
45 5 0.12
46 7 0.17
47 8 0.19
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (46 bp):
TAAAAAATAATTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATA
Found at i:88399 original size:32 final size:33
Alignment explanation
Indices: 88363--88439 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 33
88353 TTAGTTAGTA
88363 AGTTTATTAGTAG-TATA-TTATAATGAAAA-AAT
1 AGTTTATTAGTAGTTATAGTTAT-AT-AAAAGAAT
*
88395 AGTTTATTAGTTAGTTTTAGTTATATAAAAGAAT
1 AGTTTATTAG-TAGTTATAGTTATATAAAAGAAT
*
88429 ATTTTATTAGT
1 AGTTTATTAGT
88440 TGTTTAAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
32 10 0.26
33 8 0.21
34 17 0.44
35 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (33 bp):
AGTTTATTAGTAGTTATAGTTATATAAAAGAAT
Found at i:88498 original size:8 final size:8
Alignment explanation
Indices: 88485--88511 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
88475 TTTAAAAAGT
88485 TTAGTTTA
1 TTAGTTTA
88493 TTAGTTTA
1 TTAGTTTA
88501 TTAGTTTA
1 TTAGTTTA
88509 TTA
1 TTA
88512 TATTATAAGT
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:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (8 bp):
TTAGTTTA
Found at i:88517 original size:16 final size:16
Alignment explanation
Indices: 88485--88531 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
88475 TTTAAAAAGT
88485 TTAGTTTATTAGT-TTA
1 TTAGTTTATTA-TATTA
88501 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
88517 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
88532 AAGTTTAGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:88526 original size:15 final size:14
Alignment explanation
Indices: 88506--88536 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
88496 GTTTATTAGT
88506 TTATTATATTATAAG
1 TTATTATATTA-AAG
88521 TTATTATATTAAAG
1 TTATTATATTAAAG
88535 TT
1 TT
88537 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:90710 original size:17 final size:17
Alignment explanation
Indices: 90688--90720 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
90678 CAATGATTTT
*
90688 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
90705 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
90721 AATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:90737 original size:24 final size:22
Alignment explanation
Indices: 90705--90773 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
90695 AAATCATTAC
90705 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
* *
90727 TAGTAAATCAACTATTTTAAATCA-T
1 TAGT--ATCAAATA-ATTAAAT-ATT
90752 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
90774 AACAATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
21 1 0.03
22 11 0.29
23 7 0.18
24 7 0.18
25 11 0.29
26 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (22 bp):
TAGTATCAAATAATTAAATATT
Found at i:90949 original size:14 final size:13
Alignment explanation
Indices: 90912--91292 Score: 105
Period size: 12 Copynumber: 30.5 Consensus size: 13
90902 TTAGTATTCT
90912 ATAATTATTAGT-A
1 ATAATTATTA-TAA
90925 ATAATTA-T-TAA
1 ATAATTATTATAA
* *
90936 ATCATTAGTATTAA
1 ATAATTATTA-TAA
*
90950 ATCATTATTATAA
1 ATAATTATTATAA
90963 ATAATTATTATAA
1 ATAATTATTATAA
*
90976 ATAATTA--CTAA
1 ATAATTATTATAA
90987 ATAA-TA--ACTAA
1 ATAATTATTA-TAA
90998 ATAATTATTATAAA
1 ATAATTATTAT-AA
*
91012 ATCATTATTAT-A
1 ATAATTATTATAA
*
91024 ATGATTATTATCAA
1 ATAATTATTAT-AA
* *
91038 ATCATTA--CTAA
1 ATAATTATTATAA
* * * *
91049 ATCATCA-AATCA
1 ATAATTATTATAA
* *
91061 TTAAATATT-TAA
1 ATAATTATTATAA
*
91073 ATCATTA-T-TAA
1 ATAATTATTATAA
* *
91084 ATCATTTTTAT-A
1 ATAATTATTATAA
*
91096 ATGATTATTACTAA
1 ATAATTATTA-TAA
*
91110 ATCATTATTAT-A
1 ATAATTATTATAA
*
91122 ATGATTATTATCAA
1 ATAATTATTAT-AA
* *
91136 ATCATTACTAT-A
1 ATAATTATTATAA
*
91148 ATGATTATTATCAA
1 ATAATTATTAT-AA
* *
91162 ATCATTA--CTAA
1 ATAATTATTATAA
* * * *
91173 ATCATCA-AATCA
1 ATAATTATTATAA
* *
91185 TTAAATATT-TAA
1 ATAATTATTATAA
*
91197 ATCATTA-T-TAA
1 ATAATTATTATAA
* *
91208 ATCATTTTTAT-A
1 ATAATTATTATAA
*
91220 ATGATTATTACTAA
1 ATAATTATTA-TAA
*
91234 ATCATTATTAT-A
1 ATAATTATTATAA
*
91246 ATGATTATTATCAA
1 ATAATTATTAT-AA
* *
91260 ATCATTACTAT-A
1 ATAATTATTATAA
*
91272 ATGATTATTATCAA
1 ATAATTATTAT-AA
*
91286 ATCATTA
1 ATAATTA
91293 CTAAATCATC
Statistics
Matches: 283, Mismatches: 54, Indels: 61
0.71 0.14 0.15
Matches are distributed among these distances:
10 3 0.01
11 57 0.20
12 101 0.36
13 36 0.13
14 86 0.30
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (13 bp):
ATAATTATTATAA
Found at i:90968 original size:51 final size:48
Alignment explanation
Indices: 90912--91033 Score: 138
Period size: 48 Copynumber: 2.5 Consensus size: 48
90902 TTAGTATTCT
* * *
90912 ATAATTATTAGTAATAATTATTAAATCATTAGTATTAAATCATTATTAT-AA
1 ATAATTATTA-TAATAATTATTAAAT-AATA--ACTAAATAATTATTATAAA
*
90963 ATAATTATTATAAATAATTACTAAATAATAACTAAATAATTATTATAAA
1 ATAATTATTAT-AATAATTATTAAATAATAACTAAATAATTATTATAAA
* *
91012 ATCATTATTATAATGATTATTA
1 ATAATTATTATAATAATTATTA
91034 TCAAATCATT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
48 23 0.37
49 12 0.19
50 4 0.06
51 23 0.37
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (48 bp):
ATAATTATTATAATAATTATTAAATAATAACTAAATAATTATTATAAA
Found at i:90982 original size:26 final size:25
Alignment explanation
Indices: 90915--91292 Score: 254
Period size: 26 Copynumber: 15.2 Consensus size: 25
90905 GTATTCTATA
*
90915 ATTATTAGTAATAATTA-T-TAAATC
1 ATTATTA-TAATGATTATTATAAATC
* * *
90939 ATTAGTATTAAATCATTATTATAAATA
1 ATTATTA-T-AATGATTATTATAAATC
* *
90966 ATTATTATAA--ATAATTACTAAATA
1 ATTATTATAATGATTATTA-TAAATC
* * *
90990 ATAACTA-AATAATTATTATAAAATC
1 ATTATTATAATGATTATTAT-AAATC
91015 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTAT-AAATC
* * * *
91041 ATTACTA-AATCATCAAATCATTAAAT-
1 ATTATTATAATGAT--TATTA-TAAATC
*
91067 A-T-TTA-AATCATTA-T-TAAATC
1 ATTATTATAATGATTATTATAAATC
*
91087 ATTTTTATAATGATTATTACTAAATC
1 ATTATTATAATGATTATTA-TAAATC
91113 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTAT-AAATC
*
91139 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTAT-AAATC
* * * *
91165 ATTACTA-AATCATCAAATCATTAAAT-
1 ATTATTATAATGAT--TATTA-TAAATC
*
91191 A-T-TTA-AATCATTA-T-TAAATC
1 ATTATTATAATGATTATTATAAATC
*
91211 ATTTTTATAATGATTATTACTAAATC
1 ATTATTATAATGATTATTA-TAAATC
91237 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTAT-AAATC
*
91263 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTAT-AAATC
91289 ATTA
1 ATTA
91293 CTAAATCATC
Statistics
Matches: 291, Mismatches: 33, Indels: 58
0.76 0.09 0.15
Matches are distributed among these distances:
19 10 0.03
20 2 0.01
21 2 0.01
22 8 0.03
23 22 0.08
24 37 0.13
25 38 0.13
26 145 0.50
27 25 0.09
28 2 0.01
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (25 bp):
ATTATTATAATGATTATTATAAATC
Found at i:91161 original size:124 final size:124
Alignment explanation
Indices: 90934--91350 Score: 682
Period size: 124 Copynumber: 3.4 Consensus size: 124
90924 AATAATTATT
* * * * * *
90934 AAATCATT-AGTA-TTAAATCATTATTATAAATAATTATTATAA--ATAATTACTAAATAATAAC
1 AAATCATTAAATATTTAAATCATTA-T-TAAATAATTTTTATAATGATTATTACTAAATCATTAT
* * *
90995 TA-AATAATTATTATAAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATC
64 TATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATC
*
91055 AAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTA
1 AAATCATTAAATATTTAAATCATTATTAAATAATTTTTATAATGATTATTACTAAATCATTATTA
91120 TAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATC
66 TAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATC
*
91179 AAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTA
1 AAATCATTAAATATTTAAATCATTATTAAATAATTTTTATAATGATTATTACTAAATCATTATTA
91244 TAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATC
66 TAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATC
91303 AAATCATTAAATATTTAAATCATTATTAAATAATTTTTATAATGATTA
1 AAATCATTAAATATTTAAATCATTATTAAATAATTTTTATAATGATTA
91351 ATAAATACAT
Statistics
Matches: 280, Mismatches: 11, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
121 22 0.08
122 4 0.01
123 28 0.10
124 226 0.81
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (124 bp):
AAATCATTAAATATTTAAATCATTATTAAATAATTTTTATAATGATTATTACTAAATCATTATTA
TAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATC
Found at i:94740 original size:28 final size:28
Alignment explanation
Indices: 94675--94740 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
94665 TTTATATAAT
*
94675 ATAATATATAACTTAAACTAATAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
94703 AT-ATACTATAACTTAAACTAACAAACTA
1 ATAATA-TATAACTTAAACTAACAAACTA
*
94731 ATAATTTATA
1 ATAATATATA
94741 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 3 0.09
28 29 0.85
29 2 0.06
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:94743 original size:21 final size:21
Alignment explanation
Indices: 94696--94758 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
94686 CTTAAACTAA
* *
94696 TAAACTAATATACT-ATAACT
1 TAAACTAACAAACTAATAACT
*
94716 TAAACTAACAAACTAATAATT
1 TAAACTAACAAACTAATAACT
*
94737 TATACTAACAAACTAATTAACT
1 TAAACTAACAAACTAA-TAACT
94759 AGATTTTAGT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
20 12 0.33
21 20 0.56
22 4 0.11
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAACTAACAAACTAATAACT
Found at i:95146 original size:21 final size:21
Alignment explanation
Indices: 95120--95191 Score: 83
Period size: 21 Copynumber: 3.3 Consensus size: 21
95110 ACGCAACTAT
95120 GGATGCAACACATGCAGCTAC
1 GGATGCAACACATGCAGCTAC
* *
95141 GGATGCAAGAATCTAT-CAGCTAT
1 GGATGCAA-CA-C-ATGCAGCTAC
*
95164 GGATGCAACGCATGCAGCTAC
1 GGATGCAACACATGCAGCTAC
95185 GGATGCA
1 GGATGCA
95192 GGAATCTCCT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
20 2 0.05
21 22 0.52
22 1 0.02
23 15 0.36
24 2 0.05
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (21 bp):
GGATGCAACACATGCAGCTAC
Found at i:95206 original size:32 final size:32
Alignment explanation
Indices: 95170--95231 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
95160 CTATGGATGC
*
95170 AACGCATGCAGCTACGGATGCAGGAATCTCCT
1 AACGCATGCAGCTACGGATGCAAGAATCTCCT
95202 AACGCATGCAGCTACGGATGCAAGAATCTC
1 AACGCATGCAGCTACGGATGCAAGAATCTC
95232 TCATCTAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (32 bp):
AACGCATGCAGCTACGGATGCAAGAATCTCCT
Found at i:95361 original size:20 final size:20
Alignment explanation
Indices: 95336--95373 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
95326 ACGTACATGG
*
95336 CCCATGCACAGTTCCCACGT
1 CCCATGCACAGCTCCCACGT
95356 CCCATGCACAGCTCCCAC
1 CCCATGCACAGCTCCCAC
95374 ATGCATCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.50, G:0.13, T:0.16
Consensus pattern (20 bp):
CCCATGCACAGCTCCCACGT
Found at i:95492 original size:29 final size:29
Alignment explanation
Indices: 95459--95562 Score: 181
Period size: 29 Copynumber: 3.6 Consensus size: 29
95449 AACACCACAC
*
95459 AGGTCGCTCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
*
95488 AGGTCGCCCGGATGCCATGGAGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
95517 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
*
95546 AGCTCGCCCGGATGCCA
1 AGGTCGCCCGGATGCCA
95563 CTGTAGAATT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGGCGACCTCCA
Found at i:96761 original size:21 final size:21
Alignment explanation
Indices: 96735--96780 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
96725 GTCCCTGCAA
*
96735 AATAATAA-AAAATTTAATAAT
1 AATAATAATAAAATATAAT-AT
96756 AATAATAATAAAATATAATAT
1 AATAATAATAAAATATAATAT
96777 AATA
1 AATA
96781 TATTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AATAATAATAAAATATAATAT
Found at i:97145 original size:84 final size:85
Alignment explanation
Indices: 97026--97186 Score: 218
Period size: 84 Copynumber: 1.9 Consensus size: 85
97016 ACTCGTCAGT
* * *
97026 TTTTGGTTGGCAGATAGCCCTTCTTGACTTAAGCTAT-TCTGCAAATAATGTGCCTTGGAGCTGA
1 TTTTGGTTGGCAAATAGCCCTTCTTGACTTAAGCTATGT-TGCAAATAATATACCTTGGAGCTGA
97090 GCGTAGTCGAACTTGAAGGTC
65 GCGTAGTCGAACTTGAAGGTC
* * * *
97111 TTTT-GTTGGCAAATAGCCCTTCTTGTCTTGAGCTATGTTGTAAATGATATACCTTGGAGCTGAG
1 TTTTGGTTGGCAAATAGCCCTTCTTGACTTAAGCTATGTTGCAAATAATATACCTTGGAGCTGAG
* *
97175 TGTATTCGAACT
66 CGTAGTCGAACT
97187 CAAAGGTTTG
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
84 61 0.92
85 5 0.08
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.36
Consensus pattern (85 bp):
TTTTGGTTGGCAAATAGCCCTTCTTGACTTAAGCTATGTTGCAAATAATATACCTTGGAGCTGAG
CGTAGTCGAACTTGAAGGTC
Found at i:97288 original size:22 final size:22
Alignment explanation
Indices: 97253--97297 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
97243 AGAAACTGTC
* * *
97253 TCAAGGGAGGCAAAATTTTGTT
1 TCAAGAGAGACAAAACTTTGTT
97275 TCAAGAGAGACAAAACTTTGTT
1 TCAAGAGAGACAAAACTTTGTT
97297 T
1 T
97298 TGAGCAAGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (22 bp):
TCAAGAGAGACAAAACTTTGTT
Found at i:98280 original size:106 final size:105
Alignment explanation
Indices: 98100--98316 Score: 287
Period size: 106 Copynumber: 2.0 Consensus size: 105
98090 TTGAAATCCA
* *
98100 AGCTTGTGCTGTTTCGAGTCCAATATCCTTCATCGTGAAGTTGAAATTGGCTCTGAAACTAGGAA
1 AGCTTGTGCTGTCTCGAGTCCAATATCCTTCATCGTGAAGTTGAAATTGACTCTGAAACTA-GAA
98165 ATTGTTTGTTGACAGTCAATCGCTCC-TTCGCTGTGAAGTTG
65 ATTGTTTGTTGACAGTCAATCGC-CCTTTCGCTGTGAAGTTG
* *
98206 AGCTTGTGCTGTCTCGAGTCTAATATCCTTC-GCTGTGAAGTTGAAATTGACTCTGAATGAAACT
1 AGCTTGTGCTGTCTCGAGTCCAATATCCTTCATC-GTGAAGTTGAAATTGACTC----TGAAACT
*
98270 -GAAATGTTGTTTGTTGACAGTCAGTCGCCCTTTCGCTGTGAAGTTG
61 AGAAA--TTGTTTGTTGACAGTCAATCGCCCTTTCGCTGTGAAGTTG
98316 A
1 A
98317 ACAACCACCA
Statistics
Matches: 98, Mismatches: 5, Indels: 12
0.85 0.04 0.10
Matches are distributed among these distances:
105 1 0.01
106 47 0.48
108 4 0.04
109 2 0.02
110 44 0.45
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (105 bp):
AGCTTGTGCTGTCTCGAGTCCAATATCCTTCATCGTGAAGTTGAAATTGACTCTGAAACTAGAAA
TTGTTTGTTGACAGTCAATCGCCCTTTCGCTGTGAAGTTG
Found at i:98699 original size:240 final size:240
Alignment explanation
Indices: 98276--98745 Score: 834
Period size: 240 Copynumber: 2.0 Consensus size: 240
98266 AACTGAAATG
*
98276 TTGTTTGTTGACAGTCAGTCGCCCTTTCGCTGTGAAGTTGAACAACCACCATCAACTTTTGAATG
1 TTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAACAACCACCATCAACTTTTGAATG
*
98341 TGCTTTTGAATCGAGGATCTTTCGTCGTGAAGTTGAAACTTGACTCAAAAGGCTGCAAAAAATTA
66 TGCTTTTGAATCGAGGATCTTTCGTCGTGAAGTTGAAACTTGACTCAAAAGGCTACAAAAAATTA
98406 TGTATACTAAAAATGATAAATGCAATGCTCTTAAATATGTCTAAGATGCATGCAACATGAATGAG
131 TGTATACTAAAAATGATAAATGCAATGCTCTTAAATATGTCTAAGATGCATGCAACATGAATGAG
98471 TTATGTTTTATCTCTT-AGATTGGAGTCTAGTGTTTAACTAAAAAA
196 TTATGTTTTATCTCTTGA-ATTGGAGTCTAGTGTTTAACTAAAAAA
98516 TTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAACAACCACCATCAACTTTTGAATG
1 TTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAACAACCACCATCAACTTTTGAATG
*
98581 TGCTTTTGAATCGAGGATCTTTCGTCGTGAAGTTGAAACTTGACTCAAAAGGTTACAAAAAATTA
66 TGCTTTTGAATCGAGGATCTTTCGTCGTGAAGTTGAAACTTGACTCAAAAGGCTACAAAAAATTA
* * ** *
98646 TGTATGCTGAAAATGATAAATGTGATGCTCTTAAATATGTGTAAGATGCATGCAACATGAATGAG
131 TGTATACTAAAAATGATAAATGCAATGCTCTTAAATATGTCTAAGATGCATGCAACATGAATGAG
* *
98711 TTATGTTTTATCTCTTGAATTTGAGTCTCGTGTTT
196 TTATGTTTTATCTCTTGAATTGGAGTCTAGTGTTT
98746 TGTCTGCCAA
Statistics
Matches: 219, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
240 218 1.00
241 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (240 bp):
TTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAACAACCACCATCAACTTTTGAATG
TGCTTTTGAATCGAGGATCTTTCGTCGTGAAGTTGAAACTTGACTCAAAAGGCTACAAAAAATTA
TGTATACTAAAAATGATAAATGCAATGCTCTTAAATATGTCTAAGATGCATGCAACATGAATGAG
TTATGTTTTATCTCTTGAATTGGAGTCTAGTGTTTAACTAAAAAA
Found at i:101160 original size:14 final size:14
Alignment explanation
Indices: 101131--101159 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
101121 AAATGATGAT
101131 AATGATGAGAACAA
1 AATGATGAGAACAA
101145 AATGA-GAGAACAA
1 AATGATGAGAACAA
101158 AA
1 AA
101160 AATAAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.62, C:0.07, G:0.21, T:0.10
Consensus pattern (14 bp):
AATGATGAGAACAA
Found at i:102285 original size:21 final size:21
Alignment explanation
Indices: 102254--102295 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
102244 ATTAATATAC
102254 TAATAATAACAAA-ATAAATA
1 TAATAATAACAAAGATAAATA
102274 TAATAGATAACAAAGATAAATA
1 TAATA-ATAACAAAGATAAATA
102296 AAAGTTAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 8 0.40
22 7 0.35
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.24
Consensus pattern (21 bp):
TAATAATAACAAAGATAAATA
Found at i:112661 original size:6 final size:6
Alignment explanation
Indices: 112650--112682 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
112640 AAGACCCATA
112650 GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT GGT
1 GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT GGT
112683 TATGATACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.36, T:0.33
Consensus pattern (6 bp):
GGTCAT
Found at i:119261 original size:32 final size:32
Alignment explanation
Indices: 119220--119348 Score: 113
Period size: 32 Copynumber: 4.1 Consensus size: 32
119210 GATATGATAT
* *
119220 ATGTCACATCATCATTTTTTA-TAACGTGTCAC
1 ATGTCACATCATCA-TTTTTACTGACGTGACAC
*
119252 ATGTCACATCATCATTTTTTA-TGATGTGACAC
1 ATGTCACATCATCA-TTTTTACTGACGTGACAC
* * * *
119284 AT-T-ACGTCATTATTTTTATTGACGTGACAT
1 ATGTCACATCATCATTTTTACTGACGTGACAC
* * * *
119314 ATGTTACATCATCACTTTTACTCACGTGTCAC
1 ATGTCACATCATCATTTTTACTGACGTGACAC
119346 ATG
1 ATG
119349 CCATGTCATC
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
29 6 0.08
30 18 0.22
31 2 0.03
32 54 0.68
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (32 bp):
ATGTCACATCATCATTTTTACTGACGTGACAC
Found at i:119678 original size:7 final size:7
Alignment explanation
Indices: 119666--119724 Score: 118
Period size: 7 Copynumber: 8.4 Consensus size: 7
119656 CTATATTATG
119666 TAATTGA
1 TAATTGA
119673 TAATTGA
1 TAATTGA
119680 TAATTGA
1 TAATTGA
119687 TAATTGA
1 TAATTGA
119694 TAATTGA
1 TAATTGA
119701 TAATTGA
1 TAATTGA
119708 TAATTGA
1 TAATTGA
119715 TAATTGA
1 TAATTGA
119722 TAA
1 TAA
119725 ATAAATATTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (7 bp):
TAATTGA
Found at i:130068 original size:20 final size:20
Alignment explanation
Indices: 130039--130077 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
130029 AGAGCTCATA
*
130039 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
130059 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
130078 GTGGTGGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:132866 original size:13 final size:13
Alignment explanation
Indices: 132848--132872 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
132838 ACTATACTTC
132848 TGAAAATTATTGT
1 TGAAAATTATTGT
132861 TGAAAATTATTG
1 TGAAAATTATTG
132873 AAATAAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
TGAAAATTATTGT
Found at i:134279 original size:41 final size:41
Alignment explanation
Indices: 134234--134326 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 41
134224 GGTTGTTATA
*
134234 TAGTGGTGTTTTTAGAAAAAT-ACTGCTATATACGCGTACTT
1 TAGTGGTGTTTTTAGAAAAATGAC-GCTACATACGCGTACTT
* * * *
134275 TAGTGGTGATTTTGGGAAAATGACGCTACATATGCGTACTT
1 TAGTGGTGTTTTTAGAAAAATGACGCTACATACGCGTACTT
*
134316 TAGTGGCGTTT
1 TAGTGGTGTTT
134327 GTGTAGCAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 42 0.95
42 2 0.05
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.38
Consensus pattern (41 bp):
TAGTGGTGTTTTTAGAAAAATGACGCTACATACGCGTACTT
Found at i:135731 original size:5 final size:5
Alignment explanation
Indices: 135694--135729 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
135684 TTCTCAATTT
135694 AAAT- AAATA AAATA AAATA AAATA AAATA AATATA A
1 AAATA AAATA AAATA AAATA AAATA AAATA AA-ATA A
135730 TAGTATAGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 22 0.73
6 4 0.13
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:137317 original size:22 final size:21
Alignment explanation
Indices: 137275--137317 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
137265 TTTTATTTGC
**
137275 CTCCCTTTTGTATCACTCACT
1 CTCCCTTTTGTATCAAACACT
*
137296 CTCCCTTTTTTATTCAAACACT
1 CTCCCTTTTGTA-TCAAACACT
137318 TATTTCCTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.19, C:0.35, G:0.02, T:0.44
Consensus pattern (21 bp):
CTCCCTTTTGTATCAAACACT
Found at i:137365 original size:15 final size:14
Alignment explanation
Indices: 137339--137382 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
137329 TTTTTTCATA
137339 TTTC-TTTT-TTTT
1 TTTCTTTTTCTTTT
137351 TTTCGTTTTTCTTTT
1 TTTC-TTTTTCTTTT
137366 TTTCTTTTTCTTTT
1 TTTCTTTTTCTTTT
137380 TTT
1 TTT
137383 AAATTCCTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.14
14 17 0.59
15 8 0.28
ACGTcount: A:0.00, C:0.11, G:0.02, T:0.86
Consensus pattern (14 bp):
TTTCTTTTTCTTTT
Found at i:137379 original size:19 final size:19
Alignment explanation
Indices: 137329--137373 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
137319 ATTTCCTCTC
*
137329 TTTTTTCATATTTCTTTTT
1 TTTTTTCATTTTTCTTTTT
*
137348 TTTTTTCGTTTTTCTTTTT
1 TTTTTTCATTTTTCTTTTT
137367 TTCTTTT
1 TT-TTTT
137374 TCTTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.82
Consensus pattern (19 bp):
TTTTTTCATTTTTCTTTTT
Found at i:142729 original size:14 final size:14
Alignment explanation
Indices: 142710--142742 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
142700 TTATTACTGT
*
142710 TATTATTTTATTTA
1 TATTATTTTATTCA
142724 TATTATTTTATTCA
1 TATTATTTTATTCA
142738 TATTA
1 TATTA
142743 ATAGAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTATTTTATTCA
Found at i:144512 original size:32 final size:32
Alignment explanation
Indices: 144471--144531 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
144461 ACCTTCTCAG
*
144471 GATGGTTTTGCGTCATCTTCAAGCTTAATTGA
1 GATGGTTTTGCATCATCTTCAAGCTTAATTGA
*
144503 GATGGTTTTGCATCATCTTCAATCTTAAT
1 GATGGTTTTGCATCATCTTCAAGCTTAAT
144532 ATTGTGCCTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (32 bp):
GATGGTTTTGCATCATCTTCAAGCTTAATTGA
Found at i:145548 original size:29 final size:28
Alignment explanation
Indices: 145490--145550 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
145480 TATGTTAACT
*
145490 TCTTTTTTTGTGGGAGCCTGCGATAACA
1 TCTTTTTTTGTGGGAGCCTGCGACAACA
* *
145518 TCTTTTTTTCTTGGGA-CCTTGCGACATCA
1 TCTTTTTTT-GTGGGAGCC-TGCGACAACA
145547 TCTT
1 TCTT
145551 CAGGGATTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (28 bp):
TCTTTTTTTGTGGGAGCCTGCGACAACA
Found at i:167783 original size:67 final size:67
Alignment explanation
Indices: 167706--168783 Score: 1346
Period size: 67 Copynumber: 16.1 Consensus size: 67
167696 GAGTTATCAA
* * * * *
167706 TGCCTTTGAGGCCTAACTGTGTATTGATAAAAAGGTGTCAATTATGCCAGTTAGATGGAAGACTA
1 TGCCTTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTA
167771 AG
66 AG
* * ** * ** *
167773 TGTCATTGAGGCCTAGTTGTGCAATTTACAGAAAGGTGTCAATTATTACAGTTAAATGAAAGGCT
1 TGCCTTTGAGGCCTAACTGTGC-ATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCT
167838 AAG
65 AAG
* * * * **
167841 TGCCTTTAAGGCCTAACTGTGTATTGATAGAAAGGTGTCAATCATGTTAGTTAGATGAAAGGCTA
1 TGCCTTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTA
167906 AG
66 AG
* * * *
167908 TGCCTTTGAGGCCTAGCTGTGCATTTGATAGAAAGGTGTCAGTTATGCAAGTTAGATGAAAGGCT
1 TGCCTTTGAGGCCTAACTGTGCA-TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCT
167973 AAG
65 AAG
*
167976 TGCCTTTGAGGCCTAACTGTGCATTGATAG-AAGTGTGTCAATTATGCCAGTTAGATGAAAGGCT
1 TGCCTTTGAGGCCTAACTGTGCATTGACAGAAAG-GTGTCAATTATGCCAGTTAGATGAAAGGCT
168040 AAG
65 AAG
* * * * *
168043 TGTCTTTGAGGCCTAACTCTGCATTGACAGAAAAGTGTTAATTATGCCAGTTAGATGAAAGGTTA
1 TGCCTTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTA
*
168108 AT
66 AG
* * * *
168110 TGCCTTTGAGGCCTAGCTGTGTATTTGACAGAAAGGTGTCAATTATGTCAATTAGATGAAAGGCT
1 TGCCTTTGAGGCCTAACTGTGCA-TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCT
168175 AAG
65 AAG
* * *
168178 TGCCTTTCAGGCCTAACTGTGCATTGACAAAAAGGTGTCAATTATGACAGTTAGATGAAAGGCTA
1 TGCCTTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTA
168243 AG
66 AG
* ** * * * * *
168245 TGCCTTT-AAG--TAAAAG-AC-TAGA-TGGAAGGTGTCAATTATGCCAGTTAGATGGAAGGCTA
1 TGCCTTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTA
168304 AG
66 AG
* * *
168306 TGCCTTTGAGGCCTAGCTGTGCATTTTACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCT
1 TGCCTTTGAGGCCTAACTGTGCA-TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCT
*
168371 ACG
65 AAG
* * *
168374 TGCCTTTAAGGCCTAACTGTGCATTGATAGAAAGGTGTCAATTATG-CAGTAAGATGAAAGGCTA
1 TGCCTTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTA
168438 AG
66 AG
* * * * *
168440 TGCCTTTGAGTCCTAGCTGTGCATTTGACAGAAAGGTGTTAGTTATGCCAGTTAGATGAAAGGGT
1 TGCCTTTGAGGCCTAACTGTGCA-TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCT
168505 AAG
65 AAG
* * * * *
168508 TGCCTTTGACGCGTAACTATGTATTGACAG-AAGTATGTCAATTATGCCAGTTAGATGAAAGGCT
1 TGCCTTTGAGGCCTAACTGTGCATTGACAGAAAG-GTGTCAATTATGCCAGTTAGATGAAAGGCT
168572 AAG
65 AAG
* * * * *
168575 TGCCATTGAGGCCTAACTCTGCATTGACAGAAAGGTGTCAATTATGCCAATTAGATAAAAGGTTA
1 TGCCTTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTA
168640 AG
66 AG
* * * *
168642 TGCCTTTGAGGCCTAACTATGTATTTGACAGAAAGGTGTCAATTATGTCACTTAGATGAAAGGCT
1 TGCCTTTGAGGCCTAACTGTGCA-TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCT
168707 AAG
65 AAG
* * * *
168710 TGCCTTTGAGGCCTAACTGTGCATTAACAAAAAGGTGTCAATTATTCCAGCTAGATGAAAGGCTA
1 TGCCTTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTA
168775 AG
66 AG
168777 TGCCTTT
1 TGCCTTT
168784 AAGTAAAAGA
Statistics
Matches: 864, Mismatches: 130, Indels: 34
0.84 0.13 0.03
Matches are distributed among these distances:
61 41 0.05
62 5 0.01
63 1 0.00
64 7 0.01
65 1 0.00
66 46 0.05
67 434 0.50
68 329 0.38
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (67 bp):
TGCCTTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTA
AG
Found at i:167948 original size:135 final size:134
Alignment explanation
Indices: 167706--168783 Score: 1391
Period size: 135 Copynumber: 8.1 Consensus size: 134
167696 GAGTTATCAA
* * *
167706 TGCCTTTGAGGCCTAACTGTGTATTGATAAAAAGGTGTCAATTATGCCAGTTAGATGGAAGACTA
1 TGCCTTTGAGGCCTAACTGTGTATTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTA
* * ** * ** *
167771 AGTGTCATTGAGGCCTAGTTGTGCAATTTACAGAAAGGTGTCAATTATTACAGTTAAATGAAAGG
66 AGTGCCTTTGAGGCCTAACTGTGC-ATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
167836 CTAAG
130 CTAAG
* * **
167841 TGCCTTTAAGGCCTAACTGTGTATTGATAGAAAGGTGTCAATCATGTTAGTTAGATGAAAGGCTA
1 TGCCTTTGAGGCCTAACTGTGTATTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTA
* * * *
167906 AGTGCCTTTGAGGCCTAGCTGTGCATTTGATAGAAAGGTGTCAGTTATGCAAGTTAGATGAAAGG
66 AGTGCCTTTGAGGCCTAACTGTGCA-TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
167971 CTAAG
130 CTAAG
*
167976 TGCCTTTGAGGCCTAACTGTGCATTGATAG-AAGTGTGTCAATTATGCCAGTTAGATGAAAGGCT
1 TGCCTTTGAGGCCTAACTGTGTATTGATAGAAAG-GTGTCAATTATGCCAGTTAGATGAAAGGCT
* * * *
168040 AAGTGTCTTTGAGGCCTAACTCTGCATTGACAGAAAAGTGTTAATTATGCCAGTTAGATGAAAGG
65 AAGTGCCTTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
* *
168105 TTAAT
130 CTAAG
* * * *
168110 TGCCTTTGAGGCCTAGCTGTGTATTTGACAGAAAGGTGTCAATTATGTCAATTAGATGAAAGGCT
1 TGCCTTTGAGGCCTAACTGTGTA-TTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCT
* * *
168175 AAGTGCCTTTCAGGCCTAACTGTGCATTGACAAAAAGGTGTCAATTATGACAGTTAGATGAAAGG
65 AAGTGCCTTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
168240 CTAAG
130 CTAAG
* ** ** * *
168245 TGCCTTT-AAG--TAAAAGACTA--GAT-GGAAGGTGTCAATTATGCCAGTTAGATGGAAGGCTA
1 TGCCTTTGAGGCCTAACTGTGTATTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTA
* * *
168304 AGTGCCTTTGAGGCCTAGCTGTGCATTTTACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
66 AGTGCCTTTGAGGCCTAACTGTGCA-TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
*
168369 CTACG
130 CTAAG
* * *
168374 TGCCTTTAAGGCCTAACTGTGCATTGATAGAAAGGTGTCAATTATG-CAGTAAGATGAAAGGCTA
1 TGCCTTTGAGGCCTAACTGTGTATTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTA
* * * *
168438 AGTGCCTTTGAGTCCTAGCTGTGCATTTGACAGAAAGGTGTTAGTTATGCCAGTTAGATGAAAGG
66 AGTGCCTTTGAGGCCTAACTGTGCA-TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
*
168503 GTAAG
130 CTAAG
* * * * *
168508 TGCCTTTGACGCGTAACTATGTATTGACAG-AAGTATGTCAATTATGCCAGTTAGATGAAAGGCT
1 TGCCTTTGAGGCCTAACTGTGTATTGATAGAAAG-GTGTCAATTATGCCAGTTAGATGAAAGGCT
* * * *
168572 AAGTGCCATTGAGGCCTAACTCTGCATTGACAGAAAGGTGTCAATTATGCCAATTAGATAAAAGG
65 AAGTGCCTTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
*
168637 TTAAG
130 CTAAG
* * * *
168642 TGCCTTTGAGGCCTAACTATGTATTTGACAGAAAGGTGTCAATTATGTCACTTAGATGAAAGGCT
1 TGCCTTTGAGGCCTAACTGTGTA-TTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCT
* * * *
168707 AAGTGCCTTTGAGGCCTAACTGTGCATTAACAAAAAGGTGTCAATTATTCCAGCTAGATGAAAGG
65 AAGTGCCTTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
168772 CTAAG
130 CTAAG
168777 TGCCTTT
1 TGCCTTT
168784 AAGTAAAAGA
Statistics
Matches: 819, Mismatches: 109, Indels: 30
0.85 0.11 0.03
Matches are distributed among these distances:
128 55 0.07
129 50 0.06
130 2 0.00
132 10 0.01
133 3 0.00
134 241 0.29
135 452 0.55
136 6 0.01
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (134 bp):
TGCCTTTGAGGCCTAACTGTGTATTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTA
AGTGCCTTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGC
TAAG
Found at i:168057 original size:202 final size:201
Alignment explanation
Indices: 167706--168783 Score: 1346
Period size: 202 Copynumber: 5.4 Consensus size: 201
167696 GAGTTATCAA
* * * *
167706 TGCCTTTGAGGCCTAACTGTGTATTGATAAAAAGGTGTCAATTATGCCAGTTAGATGGAAGACTA
1 TGCCTTTGAGGCCTAACTGTGCATTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTA
* * ** * * *
167771 AGTGTCATTGAGGCCTAGTTGTGCAATTTACAGAAAGGTGTCAATTATTACAGTTAAATGAAAGG
66 AGTGCCTTTGAGGCCTAACTGTGC-ATTGACAGAAAGGTGTCAATTATGACAGTTAGATGAAAGG
* * * **
167836 CTAAGTGCCTTTAAGGCCTAACTGTGTATTGATAGAAAGGTGTCAATCATGTTAGTTAGATGAAA
130 CTAAGTGCCTTTGAGGCCTAACTGTGTATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
167901 GGCTAAG
195 GGCTAAG
* * * * *
167908 TGCCTTTGAGGCCTAGCTGTGCATTTGATAGAAAGGTGTCAGTTATGCAAGTTAGATGAAAGGCT
1 TGCCTTTGAGGCCTAACTGTGCA-TTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCT
* *
167973 AAGTGCCTTTGAGGCCTAACTGTGCATTGATAG-AAGTGTGTCAATTATGCCAGTTAGATGAAAG
65 AAGTGCCTTTGAGGCCTAACTGTGCATTGACAGAAAG-GTGTCAATTATGACAGTTAGATGAAAG
* * * * *
168037 GCTAAGTGTCTTTGAGGCCTAACTCTGCATTGACAGAAAAGTGTTAATTATGCCAGTTAGATGAA
129 GCTAAGTGCCTTTGAGGCCTAACTGTGTATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
168102 AGGTTAAT
194 AGGCTAAG
* * * * *
168110 TGCCTTTGAGGCCTAGCTGTGTATTTGACAGAAAGGTGTCAATTATGTCAATTAGATGAAAGGCT
1 TGCCTTTGAGGCCTAACTGTGCA-TTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCT
* *
168175 AAGTGCCTTTCAGGCCTAACTGTGCATTGACAAAAAGGTGTCAATTATGACAGTTAGATGAAAGG
65 AAGTGCCTTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGACAGTTAGATGAAAGG
* ** ** * * *
168240 CTAAGTGCCTTT-AAG--TAAAAGACTA--GA-TGGAAGGTGTCAATTATGCCAGTTAGATGGAA
130 CTAAGTGCCTTTGAGGCCTAACTGTGTATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
168299 GGCTAAG
195 GGCTAAG
* *
168306 TGCCTTTGAGGCCTAGCTGTGCATTTTACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCT
1 TGCCTTTGAGGCCTAACTGTGCA-TTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCT
* * * *
168371 ACGTGCCTTTAAGGCCTAACTGTGCATTGATAGAAAGGTGTCAATTATG-CAGTAAGATGAAAGG
65 AAGTGCCTTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGACAGTTAGATGAAAGG
* * * * *
168435 CTAAGTGCCTTTGAGTCCTAGCTGTGCATTTGACAGAAAGGTGTTAGTTATGCCAGTTAGATGAA
130 CTAAGTGCCTTTGAGGCCTAACTGTGTA-TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
168500 AGGGTAAG
194 AGGCTAAG
* * * * * *
168508 TGCCTTTGACGCGTAACTATGTATTGAC-AGAAGTATGTCAATTATGCCAGTTAGATGAAAGGCT
1 TGCCTTTGAGGCCTAACTGTGCATTGACAAAAAG-GTGTCAATTATGCCAGTTAGATGAAAGGCT
* * * * *
168572 AAGTGCCATTGAGGCCTAACTCTGCATTGACAGAAAGGTGTCAATTATGCCAATTAGATAAAAGG
65 AAGTGCCTTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGACAGTTAGATGAAAGG
* * * *
168637 TTAAGTGCCTTTGAGGCCTAACTATGTATTTGACAGAAAGGTGTCAATTATGTCACTTAGATGAA
130 CTAAGTGCCTTTGAGGCCTAACTGTGTA-TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
168702 AGGCTAAG
194 AGGCTAAG
* * *
168710 TGCCTTTGAGGCCTAACTGTGCATTAACAAAAAGGTGTCAATTATTCCAGCTAGATGAAAGGCTA
1 TGCCTTTGAGGCCTAACTGTGCATTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTA
168775 AGTGCCTTT
66 AGTGCCTTT
168784 AAGTAAAAGA
Statistics
Matches: 750, Mismatches: 113, Indels: 26
0.84 0.13 0.03
Matches are distributed among these distances:
195 26 0.03
196 138 0.18
197 2 0.00
198 4 0.01
199 4 0.01
200 4 0.01
201 84 0.11
202 424 0.57
203 64 0.09
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (201 bp):
TGCCTTTGAGGCCTAACTGTGCATTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTA
AGTGCCTTTGAGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGACAGTTAGATGAAAGGC
TAAGTGCCTTTGAGGCCTAACTGTGTATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GCTAAG
Found at i:168964 original size:91 final size:92
Alignment explanation
Indices: 168807--169311 Score: 653
Period size: 91 Copynumber: 5.5 Consensus size: 92
168797 GATGTATAAC
* * *
168807 AATGCATAATAGTGTATAAAAGGGCATGAAAGGATGCCATGAATGAAATGCATAATAGCATAT-A
1 AATGCATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCATATAA
* **
168871 AAGCGCATGAAAGGAAACCATAAATGA
66 AAGGGCATGAAAGGATGCCATAAATGA
* * ** * * * *
168898 AATGCATAATAGCATATAAAA-GGCATGAAATGATTTCATAAAGGAAATGTATACTAGCGTATTA
1 AATGCATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCATATAA
* * *
168962 AAGGGCATGAAAGGATGCAATATATTA
66 AAGGGCATGAAAGGATGCCATAAATGA
* * * *
168989 AATGTATAATAGCGTATAAAAGGGAATAAAAGGATGCCATAAATGAAATGCATAATTA-CATATA
1 AATGCATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAA-TAGCATATA
169053 AAA-GGCATGAAAGGATGCCATAAATGA
65 AAAGGGCATGAAAGGATGCCATAAATGA
* * * *
169080 AATGTATAATAGCGTATAAAAGGGCATGAAAGTATGCCATAAATGAAATATATAATAGCGTATAA
1 AATGCATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCATATAA
169145 AAGGGCATGAAAGGATGCCATAAATGA
66 AAGGGCATGAAAGGATGCCATAAATGA
** * * * *
169172 AATATATAATAGCATATAAAA-GGCATGAAAGGATACCGTAAATGAAATTTATAATAGCATATAA
1 AATGCATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCATATAA
*
169236 AAGGGTATGAAAGGATGCCATAAATGA
66 AAGGGCATGAAAGGATGCCATAAATGA
**
169263 AATGCATAATAGCGTATAAAA-GGCATGAAAATATGCCATAAATGAAATG
1 AATGCATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAAATGAAATG
169312 CATAGGGGTA
Statistics
Matches: 356, Mismatches: 53, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
90 35 0.10
91 244 0.69
92 75 0.21
93 2 0.01
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.23
Consensus pattern (92 bp):
AATGCATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCATATAA
AAGGGCATGAAAGGATGCCATAAATGA
Found at i:168992 original size:46 final size:46
Alignment explanation
Indices: 168807--169311 Score: 572
Period size: 46 Copynumber: 11.1 Consensus size: 46
168797 GATGTATAAC
* * * *
168807 AATGCATAATAGTGTATAAAAGGGCATGAAAGGATGCCATGAATGA
1 AATGTATAATAGCGTATTAAAGGGCATGAAAGGATGCCATAAATGA
* * * **
168853 AATGCATAATAGCATA-TAAAGCGCATGAAAGGAAACCATAAATGA
1 AATGTATAATAGCGTATTAAAGGGCATGAAAGGATGCCATAAATGA
* * * * ** *
168898 AATGCATAATAGCATA-TAAAAGGCATGAAATGATTTCATAAAGGA
1 AATGTATAATAGCGTATTAAAGGGCATGAAAGGATGCCATAAATGA
* * * *
168943 AATGTATACTAGCGTATTAAAGGGCATGAAAGGATGCAATATATTA
1 AATGTATAATAGCGTATTAAAGGGCATGAAAGGATGCCATAAATGA
* * *
168989 AATGTATAATAGCGTATAAAAGGGAATAAAAGGATGCCATAAATGA
1 AATGTATAATAGCGTATTAAAGGGCATGAAAGGATGCCATAAATGA
* * *
169035 AATGCATAATTA-CATA-TAAAAGGCATGAAAGGATGCCATAAATGA
1 AATGTATAA-TAGCGTATTAAAGGGCATGAAAGGATGCCATAAATGA
* *
169080 AATGTATAATAGCGTATAAAAGGGCATGAAAGTATGCCATAAATGA
1 AATGTATAATAGCGTATTAAAGGGCATGAAAGGATGCCATAAATGA
* *
169126 AATATATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAAATGA
1 AATGTATAATAGCGTATTAAAGGGCATGAAAGGATGCCATAAATGA
* * * * *
169172 AATATATAATAGCATA-TAAAAGGCATGAAAGGATACCGTAAATGA
1 AATGTATAATAGCGTATTAAAGGGCATGAAAGGATGCCATAAATGA
* * * *
169217 AATTTATAATAGCATATAAAAGGGTATGAAAGGATGCCATAAATGA
1 AATGTATAATAGCGTATTAAAGGGCATGAAAGGATGCCATAAATGA
* * **
169263 AATGCATAATAGCGTA-TAAAAGGCATGAAAATATGCCATAAATGA
1 AATGTATAATAGCGTATTAAAGGGCATGAAAGGATGCCATAAATGA
169308 AATG
1 AATG
169312 CATAGGGGTA
Statistics
Matches: 390, Mismatches: 64, Indels: 11
0.84 0.14 0.02
Matches are distributed among these distances:
44 2 0.01
45 179 0.46
46 207 0.53
47 2 0.01
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.23
Consensus pattern (46 bp):
AATGTATAATAGCGTATTAAAGGGCATGAAAGGATGCCATAAATGA
Found at i:169075 original size:137 final size:137
Alignment explanation
Indices: 168807--169315 Score: 693
Period size: 137 Copynumber: 3.7 Consensus size: 137
168797 GATGTATAAC
* * * *
168807 AATGCATAATAGTGTATAAAAGGGCATGAAAGGATGCCATGAATGAAATGCATAATAGCATAT-A
1 AATGTATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAAATGAAATGCATAATAGCGTATAA
* * ** * **
168871 AAGCGCATGAAAGGAAACCATAAATGAAATGCATAATAGCATATAAAAGGCATGAAATGATTTCA
66 AAGGGCATAAAAGGATGCCATAAATGAAATGCATAATAGCATATAAAAGGCATGAAAGGATACCA
*
168936 TAAAGGA
131 TAAATGA
* * * * * *
168943 AATGTATACTAGCGTATTAAAGGGCATGAAAGGATGCAATATATTAAATGTATAATAGCGTATAA
1 AATGTATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAAATGAAATGCATAATAGCGTATAA
* *
169008 AAGGGAATAAAAGGATGCCATAAATGAAATGCATAATTA-CATATAAAAGGCATGAAAGGATGCC
66 AAGGGCATAAAAGGATGCCATAAATGAAATGCATAA-TAGCATATAAAAGGCATGAAAGGATACC
169072 ATAAATGA
130 ATAAATGA
* **
169080 AATGTATAATAGCGTATAAAAGGGCATGAAAGTATGCCATAAATGAAATATATAATAGCGTATAA
1 AATGTATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAAATGAAATGCATAATAGCGTATAA
* ** *
169145 AAGGGCATGAAAGGATGCCATAAATGAAATATATAATAGCATATAAAAGGCATGAAAGGATACCG
66 AAGGGCATAAAAGGATGCCATAAATGAAATGCATAATAGCATATAAAAGGCATGAAAGGATACCA
169210 TAAATGA
131 TAAATGA
* * *
169217 AATTTATAATAGCATATAAAAGGGTATGAAAGGATGCCATAAATGAAATGCATAATAGCGTATAA
1 AATGTATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAAATGAAATGCATAATAGCGTATAA
*
169282 AA-GGCATGAAAA-TATGCCATAAATGAAATGCATA
66 AAGGGCAT-AAAAGGATGCCATAAATGAAATGCATA
169316 GGGGTACATT
Statistics
Matches: 327, Mismatches: 42, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
136 79 0.24
137 246 0.75
138 2 0.01
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.23
Consensus pattern (137 bp):
AATGTATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAAATGAAATGCATAATAGCGTATAA
AAGGGCATAAAAGGATGCCATAAATGAAATGCATAATAGCATATAAAAGGCATGAAAGGATACCA
TAAATGA
Found at i:174612 original size:13 final size:13
Alignment explanation
Indices: 174594--174623 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
174584 GCCGGTCAAC
*
174594 GGTCAACCGGTCG
1 GGTCAACAGGTCG
174607 GGTCAACAGGTCG
1 GGTCAACAGGTCG
174620 GGTC
1 GGTC
174624 GGGTCAACGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.27, G:0.40, T:0.17
Consensus pattern (13 bp):
GGTCAACAGGTCG
Found at i:174625 original size:18 final size:18
Alignment explanation
Indices: 174602--174646 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
174592 ACGGTCAACC
174602 GGTCGGGTCAACAGGTCG
1 GGTCGGGTCAACAGGTCG
*
174620 GGTCGGGTCAACGGGTCG
1 GGTCGGGTCAACAGGTCG
174638 GGTCGGGTC
1 GGTCGGGTC
174647 GTGTTATGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.11, C:0.22, G:0.49, T:0.18
Consensus pattern (18 bp):
GGTCGGGTCAACAGGTCG
Found at i:177853 original size:67 final size:67
Alignment explanation
Indices: 177774--177912 Score: 242
Period size: 67 Copynumber: 2.1 Consensus size: 67
177764 AAAAGATTAA
* **
177774 AGGCCTAACTGTGCATTGACATAAAGGTGTCAATTATGGCAGTTAGATGAAAGGCTAAGTGCCTT
1 AGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTT
177839 TG
66 TG
*
177841 AGGCCTAACTGTGCATTGACAGAAAGGTTTCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTT
1 AGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTT
177906 TG
66 TG
177908 AGGCC
1 AGGCC
177913 AATAAATGTA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (67 bp):
AGGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTT
TG
Found at i:178553 original size:45 final size:45
Alignment explanation
Indices: 178496--178672 Score: 311
Period size: 45 Copynumber: 3.9 Consensus size: 45
178486 AATTTTATAT
* * *
178496 CAATATACTTACCATATA-TCTCATAAGCTCTTAGGCTTATTTTAC
1 CAATATACTTACCATTTATTC-CATAAGCTCGTAAGCTTATTTTAC
178541 CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTAC
178586 CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTAC
178631 CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
1 CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
178673 GCATGCTTAC
Statistics
Matches: 128, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
45 126 0.98
46 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (45 bp):
CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTAC
Done.