Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 50 of 117
Found at i:11443897 original size:19 final size:19
Alignment explanation
Indices: 11443873--11443910 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11443863 TAGGCTTATG
11443873 TGCTAGCTACACTAAGCAT
1 TGCTAGCTACACTAAGCAT
*
11443892 TGCTAGCTACTCTAAGCAT
1 TGCTAGCTACACTAAGCAT
11443911 ATGTGCCAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (19 bp):
TGCTAGCTACACTAAGCAT
Found at i:11449592 original size:24 final size:24
Alignment explanation
Indices: 11449560--11449613 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
11449550 AACATAAAAC
11449560 GAACATGTTCACTAACATGTTCAT
1 GAACATGTTCACTAACATGTTCAT
11449584 GAACATGTTCACTAACATGTTCAT
1 GAACATGTTCACTAACATGTTCAT
11449608 GAACAT
1 GAACAT
11449614 ATATAAACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.31
Consensus pattern (24 bp):
GAACATGTTCACTAACATGTTCAT
Found at i:11449612 original size:12 final size:13
Alignment explanation
Indices: 11449560--11449613 Score: 80
Period size: 12 Copynumber: 4.5 Consensus size: 13
11449550 AACATAAAAC
11449560 GAACATGTTCACT
1 GAACATGTTCACT
11449573 -AACATGTTCA-T
1 GAACATGTTCACT
11449584 GAACATGTTCACT
1 GAACATGTTCACT
11449597 -AACATGTTCA-T
1 GAACATGTTCACT
11449608 GAACAT
1 GAACAT
11449614 ATATAAACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.05
12 35 0.92
13 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.31
Consensus pattern (13 bp):
GAACATGTTCACT
Found at i:11451957 original size:30 final size:30
Alignment explanation
Indices: 11451907--11451965 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
11451897 ATGATTCAAT
*
11451907 TAAGTAAAAATAAATATTTAAAAATTTAAC
1 TAAGCAAAAATAAATATTTAAAAATTTAAC
* * *
11451937 TAAGCAAAGATAAATGTTTAAGAATTTAA
1 TAAGCAAAAATAAATATTTAAAAATTTAA
11451966 TTGCATGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.32
Consensus pattern (30 bp):
TAAGCAAAAATAAATATTTAAAAATTTAAC
Found at i:11453412 original size:32 final size:31
Alignment explanation
Indices: 11453336--11453413 Score: 74
Period size: 32 Copynumber: 2.5 Consensus size: 31
11453326 ATTATTTTAT
*
11453336 AATTAATTTTT-AT-TTAAAATTAATTATAA
1 AATTACTTTTTAATATTAAAATTAATTATAA
**
11453365 AA-TACATTTAAAATATTAAAATTTTAA-TATAA
1 AATTAC-TTTTTAATATTAAAA--TTAATTATAA
11453397 AATTACTTTTTAATATT
1 AATTACTTTTTAATATT
11453414 TTAAAATCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
28 2 0.05
29 5 0.13
30 2 0.05
31 6 0.16
32 16 0.42
33 7 0.18
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (31 bp):
AATTACTTTTTAATATTAAAATTAATTATAA
Found at i:11460688 original size:17 final size:16
Alignment explanation
Indices: 11460651--11460701 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
11460641 CTAATAACCT
11460651 AACTAAAAGAAA-TAAA
1 AACT-AAAGAAACTAAA
11460667 GAACTAAAGAAACTTAAA
1 -AACTAAAGAAAC-TAAA
*
11460685 AACT-TAGAAACTAAA
1 AACTAAAGAAACTAAA
11460700 AA
1 AA
11460702 GAAAGAAGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 6 0.19
16 13 0.42
17 8 0.26
18 4 0.13
ACGTcount: A:0.67, C:0.10, G:0.08, T:0.16
Consensus pattern (16 bp):
AACTAAAGAAACTAAA
Found at i:11462414 original size:3 final size:3
Alignment explanation
Indices: 11462406--11462442 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
11462396 GTATTGGTAT
11462406 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11462443 TTTCTTTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:11462925 original size:22 final size:22
Alignment explanation
Indices: 11462890--11462934 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
11462880 AGTTGGGATT
* *
11462890 GAAATTCTGGAAAAGGTTTGGAA
1 GAAATTCTAGAAAA-ATTTGGAA
11462913 GAAA-TCTAGAAAAATTTGGAA
1 GAAATTCTAGAAAAATTTGGAA
11462934 G
1 G
11462935 TTTCTGGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 8 0.40
23 4 0.20
ACGTcount: A:0.44, C:0.04, G:0.27, T:0.24
Consensus pattern (22 bp):
GAAATTCTAGAAAAATTTGGAA
Found at i:11463400 original size:10 final size:10
Alignment explanation
Indices: 11463385--11463409 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11463375 TTTTAAGTTT
11463385 TTATTTTATA
1 TTATTTTATA
11463395 TTATTTTATA
1 TTATTTTATA
11463405 TTATT
1 TTATT
11463410 GGTTTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTATTTTATA
Found at i:11469018 original size:120 final size:120
Alignment explanation
Indices: 11468839--11469081 Score: 256
Period size: 120 Copynumber: 2.0 Consensus size: 120
11468829 TCTTGGCTAT
* * * * * * * * *
11468839 TTTATCTTTTTGACTCGTAGTTTCATCTCGATCATTTGATCTTGGCTCAGTCTATATCATTT-TC
1 TTTATCTTTTTGACTCGCAATTTCATCCCGACCATTCGATCTCGACTCAGTCCAAATCATTTCT-
** * * * *
11468903 TAACTTGCGATTTTAT-CTCGATTAGCCATCTTTGACCTTGACTCAATCTTGGTGGC
65 TAACTCACGATTTCATCCT-GATCAGCCATCTTCGACCTTGACTCAATCTTGGTCGC
* * *
11468959 TTTATCTTTTTGACTTGCAATTTCATCCCGCCCATTCGATCTCGACTTAGTCCAAATCATTTCTT
1 TTTATCTTTTTGACTCGCAATTTCATCCCGACCATTCGATCTCGACTCAGTCCAAATCATTTCTT
* * **
11469024 GACTCACGATTTCATCCTGGTCAGCCATCTTCGACCTTGACTCGGTCTTGGTCGC
66 AACTCACGATTTCATCCTGATCAGCCATCTTCGACCTTGACTCAATCTTGGTCGC
11469079 TTT
1 TTT
11469082 TAGACTCGCG
Statistics
Matches: 99, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
120 96 0.97
121 3 0.03
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.42
Consensus pattern (120 bp):
TTTATCTTTTTGACTCGCAATTTCATCCCGACCATTCGATCTCGACTCAGTCCAAATCATTTCTT
AACTCACGATTTCATCCTGATCAGCCATCTTCGACCTTGACTCAATCTTGGTCGC
Found at i:11469533 original size:3 final size:3
Alignment explanation
Indices: 11469520--11469591 Score: 76
Period size: 3 Copynumber: 24.3 Consensus size: 3
11469510 TATTGCATGG
* * * *
11469520 TAT TA- TAT TAT TAT TAT TA- TAGT TGT TGT TGT TGT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
*
11469564 TAT TAT TAC TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
11469592 TTCCTTTCTT
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
2 4 0.06
3 57 0.92
4 1 0.02
ACGTcount: A:0.28, C:0.01, G:0.07, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:11470026 original size:21 final size:21
Alignment explanation
Indices: 11469992--11470031 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
11469982 GGATTTTGGA
11469992 TTTAGATTTTGGTTTTTGGGG
1 TTTAGATTTTGGTTTTTGGGG
11470013 TTTAG-TTTTAGGTTTTTGG
1 TTTAGATTTT-GGTTTTTGG
11470032 AGTTGGGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.10, C:0.00, G:0.30, T:0.60
Consensus pattern (21 bp):
TTTAGATTTTGGTTTTTGGGG
Found at i:11470536 original size:26 final size:23
Alignment explanation
Indices: 11470487--11470566 Score: 61
Period size: 26 Copynumber: 3.1 Consensus size: 23
11470477 CATTTTCGTT
*
11470487 TTATTTTTTTATTTGATTTGATTTCA
1 TTATTTTGTT-TTT-ATTT-ATTTCA
*
11470513 TTATTTTAAGTTTTTAATTTATTTTA
1 TTATTTT--GTTTTT-ATTTATTTCA
11470539 TTTTATTTTGTTTTTATTTATTTGCA
1 --TTATTTTGTTTTTATTTATTT-CA
11470565 TT
1 TT
11470567 TAGTAATTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
24 2 0.04
25 8 0.18
26 19 0.42
27 7 0.16
28 9 0.20
ACGTcount: A:0.20, C:0.03, G:0.06, T:0.71
Consensus pattern (23 bp):
TTATTTTGTTTTTATTTATTTCA
Found at i:11472595 original size:20 final size:19
Alignment explanation
Indices: 11472572--11472624 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
11472562 AATTTGAATC
11472572 ATATTAAATATTATTGAAAA
1 ATATT-AATATTATTGAAAA
* *
11472592 ATATTTAATATTCATTTAATA
1 ATA-TTAATATT-ATTGAAAA
11472613 ATATTAATATTA
1 ATATTAATATTA
11472625 ATTTAATAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 1 0.03
20 17 0.59
21 11 0.38
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (19 bp):
ATATTAATATTATTGAAAA
Found at i:11472610 original size:11 final size:10
Alignment explanation
Indices: 11472573--11472702 Score: 72
Period size: 11 Copynumber: 12.8 Consensus size: 10
11472563 ATTTGAATCA
*
11472573 TATTAAATAT
1 TATTTAATAT
* * *
11472583 TATTGAAAAA
1 TATTTAATAT
11472593 TATTTAATAT
1 TATTTAATAT
*
11472603 TCATTTAATAA
1 T-ATTTAATAT
11472614 TA-TTAATAT
1 TATTTAATAT
11472623 TAATTTAATA-
1 T-ATTTAATAT
* *
11472633 GATTGAATAT
1 TATTTAATAT
11472643 TATTTTAATAT
1 TA-TTTAATAT
11472654 TA---AATAT
1 TATTTAATAT
* *
11472661 TAATATAATAG
1 T-ATTTAATAT
11472672 TATTTTAATAT
1 TA-TTTAATAT
*
11472683 CATTTTAATAT
1 TA-TTTAATAT
11472694 TATTATAAT
1 TATT-TAAT
11472703 TGTAAATATT
Statistics
Matches: 92, Mismatches: 17, Indels: 21
0.71 0.13 0.16
Matches are distributed among these distances:
7 6 0.07
8 1 0.01
9 14 0.15
10 21 0.23
11 50 0.54
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (10 bp):
TATTTAATAT
Found at i:11472642 original size:40 final size:42
Alignment explanation
Indices: 11472593--11472698 Score: 118
Period size: 38 Copynumber: 2.6 Consensus size: 42
11472583 TATTGAAAAA
*
11472593 TATTT-AATATTCATTTAATAATATTAATATTAATTTAATAG
1 TATTTGAATATTCATTTAATAATATTAATATTAATATAATAG
11472634 -A-TTGAATATT-ATTT--TAATATTAAATATTAATATAATAG
1 TATTTGAATATTCATTTAATAATATT-AATATTAATATAATAG
* *
11472672 TATTTTAATA-TCATTTTAATATTATTA
1 TATTTGAATATTCA-TTTAATAATATTA
11472699 TAATTGTAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
37 7 0.13
38 15 0.28
39 8 0.15
40 14 0.26
41 3 0.06
42 1 0.02
43 6 0.11
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (42 bp):
TATTTGAATATTCATTTAATAATATTAATATTAATATAATAG
Found at i:11472693 original size:51 final size:48
Alignment explanation
Indices: 11472615--11472828 Score: 172
Period size: 51 Copynumber: 4.4 Consensus size: 48
11472605 ATTTAATAAT
* * * *
11472615 ATTAATATTAATTTAATAGA-TTGAATATTATTTTAATATTAAATATTA
1 ATTAATAATATTTTAATATATTTTAATATTA-TTTAATATTAAATATTA
*
11472663 ATATAATAGTATTTTAATATCATTTTAATATTATTATAAT-TGTAAATATTA
1 AT-TAATAATATTTTAATAT-ATTTTAATATTATT-TAATAT-TAAATATTA
** * *
11472714 ATTCAATAATATAATAATATTATTTTAATATTA---AATATTAATTTTATA
1 ATT-AATAATATTTTAATA-TATTTTAATATTATTTAATATTAAATAT-TA
* *
11472762 AGTTTATAATACTTT-ATAGTATTTTAATATTATTTATATATTAAATATTA
1 A-TTAATAATATTTTAATA-TATTTTAATATTATTTA-ATATTAAATATTA
*
11472812 ATTTAT-ATATTTTAATA
1 ATTAATAATATTTTAATA
11472829 CTTAATATTA
Statistics
Matches: 134, Mismatches: 17, Indels: 29
0.74 0.09 0.16
Matches are distributed among these distances:
47 24 0.18
48 19 0.14
49 24 0.18
50 9 0.07
51 57 0.43
52 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (48 bp):
ATTAATAATATTTTAATATATTTTAATATTATTTAATATTAAATATTA
Found at i:11472794 original size:58 final size:56
Alignment explanation
Indices: 11472744--11472858 Score: 126
Period size: 56 Copynumber: 2.0 Consensus size: 56
11472734 TATTTTAATA
* *
11472744 TTAAATATTAATTT-TATAAGTTTATAATACTTTATAGTATTTTAATATTA-TTTATATA
1 TTAAATATTAATTTATAT-A-TTT-TAATACTTAATAGTATCTTAATATTATTTTA-ATA
* * *
11472802 TTAAATATTAATTTATATATTTTAATACTTAATATTATCTTAAGAATATTTTGAATA
1 TTAAATATTAATTTATATATTTTAATACTTAATAGTATCTTAATATTATTTT-AATA
11472859 ATATTTTAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
56 21 0.43
57 9 0.18
58 16 0.33
59 3 0.06
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (56 bp):
TTAAATATTAATTTATATATTTTAATACTTAATAGTATCTTAATATTATTTTAATA
Found at i:11472863 original size:41 final size:40
Alignment explanation
Indices: 11472818--11472898 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 40
11472808 ATTAATTTAT
* *
11472818 ATATTTTAATACTT-AATA-TTATCTTAAGAATATTTTGAATA
1 ATATTTTAATA-TTAAATACTGAT-TTAAAAATATTTT-AATA
11472859 ATATTTTAATATTAAATACTGATTTAAAAATATTTTAATA
1 ATATTTTAATATTAAATACTGATTTAAAAATATTTTAATA
11472899 TGCTATATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
40 6 0.17
41 27 0.75
42 3 0.08
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (40 bp):
ATATTTTAATATTAAATACTGATTTAAAAATATTTTAATA
Found at i:11473020 original size:21 final size:20
Alignment explanation
Indices: 11472961--11473029 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 20
11472951 TAATAAACGT
* *
11472961 TAATATTAAATATTATTTAA
1 TAATATTAAATGTAATTTAA
* *
11472981 TAAT-TTTAATGTGAGTTTAA
1 TAATATTAAATGT-AATTTAA
11473001 TAATATTAAATGCTAATTTAA
1 TAATATTAAATG-TAATTTAA
11473022 TAATATTA
1 TAATATTA
11473030 TAATATTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 6 0.15
20 13 0.32
21 20 0.50
22 1 0.03
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (20 bp):
TAATATTAAATGTAATTTAA
Found at i:11473360 original size:12 final size:12
Alignment explanation
Indices: 11473343--11473367 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11473333 TGGCATTATA
11473343 AATAATTTTTTT
1 AATAATTTTTTT
11473355 AATAATTTTTTT
1 AATAATTTTTTT
11473367 A
1 A
11473368 CATATTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATAATTTTTTT
Found at i:11475731 original size:21 final size:22
Alignment explanation
Indices: 11475707--11475749 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
11475697 TATCTGTTTT
*
11475707 AATACTT-AATATTATTTTAAG
1 AATACTTAAATAATATTTTAAG
*
11475728 AATATTTAGAATAATATTTTAA
1 AATACTTA-AATAATATTTTAA
11475750 CATTAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
23 12 0.67
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (22 bp):
AATACTTAAATAATATTTTAAG
Found at i:11475934 original size:21 final size:20
Alignment explanation
Indices: 11475843--11475934 Score: 80
Period size: 21 Copynumber: 4.5 Consensus size: 20
11475833 TTTTAATATA
11475843 AATATTATTTAATAATATTT
1 AATATTATTTAATAATATTT
* * * *
11475863 ATTATTAATTTAGTAATGTTA
1 AATATT-ATTTAATAATATTT
*
11475884 AATATTAATTTGATAATATTT
1 AATATT-ATTTAATAATATTT
**
11475905 -CCA-TATTTAATAATATTTT
1 AATATTATTTAATAATA-TTT
11475924 AATATTATTTA
1 AATATTATTTA
11475935 CATTAAATTT
Statistics
Matches: 54, Mismatches: 14, Indels: 7
0.72 0.19 0.09
Matches are distributed among these distances:
18 10 0.19
19 4 0.07
20 7 0.13
21 33 0.61
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (20 bp):
AATATTATTTAATAATATTT
Found at i:11476047 original size:29 final size:28
Alignment explanation
Indices: 11475991--11476172 Score: 141
Period size: 29 Copynumber: 6.6 Consensus size: 28
11475981 AAAATATGTA
* * *
11475991 AATAATA-TTCAACATTAAATATTTATTT
1 AATAATATTTTAATATT-AATATTAATTT
*
11476019 AAGAATATTTTAAAATATT-ATATTAATTT
1 AATAATATTTT--AATATTAATATTAATTT
*
11476048 AATAATATTTTAGTATTAAGTATTAATTT
1 AATAATATTTTAATATTAA-TATTAATTT
** * *
11476077 AATAATATCCTAGTATTTAATA-TGATATT
1 AATAATATTTTAATA-TTAATATTAAT-TT
*
11476106 AATAATATTTTAATATTAAATATTAACTT
1 AATAATATTTTAATATT-AATATTAATTT
11476135 AATAATATTTT-AT-TT--TA-T--TTT
1 AATAATATTTTAATATTAATATTAATTT
11476156 AATAATATTTTAATATT
1 AATAATATTTTAATATT
11476173 TAACAATACT
Statistics
Matches: 128, Mismatches: 15, Indels: 27
0.75 0.09 0.16
Matches are distributed among these distances:
21 13 0.10
22 2 0.02
23 3 0.02
24 2 0.02
27 7 0.05
28 14 0.11
29 76 0.59
30 6 0.05
31 5 0.04
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (28 bp):
AATAATATTTTAATATTAATATTAATTT
Found at i:11476055 original size:68 final size:67
Alignment explanation
Indices: 11475909--11476055 Score: 165
Period size: 68 Copynumber: 2.2 Consensus size: 67
11475899 ATATTTCCAT
* * * * * * *
11475909 ATTTAATAATATTTTAATATTATTTACATTAAATTTTAGTTTCATAATATTTTAATATTTAATAT
1 ATTTAATAATATGTAAATAATATTAACATTAAATTTTAGTTTAAGAATATTTTAAAATTTAATAT
11475974 TA
66 TA
*
11475976 TTTTCAA-AATATGTAAATAATATTCAACATTAAATATTTA-TTTAAGAATATTTTAAAATATT-
1 ATTT-AATAATATGTAAATAATATT-AACATTAAAT-TTTAGTTTAAGAATATTTTAAAAT-TTA
11476038 ATATTA
62 ATATTA
11476044 ATTTAATAATAT
1 ATTTAATAATAT
11476056 TTTAGTATTA
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
67 19 0.29
68 41 0.62
69 6 0.09
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.50
Consensus pattern (67 bp):
ATTTAATAATATGTAAATAATATTAACATTAAATTTTAGTTTAAGAATATTTTAAAATTTAATAT
TA
Found at i:11476077 original size:58 final size:58
Alignment explanation
Indices: 11475991--11476231 Score: 170
Period size: 58 Copynumber: 4.2 Consensus size: 58
11475981 AAAATATGTA
* * * *
11475991 AATAATA-TTCAACATTAAATATTTATTTAAGAATATTTTAAAATATT-ATATTAAT-TT
1 AATAATATTTTAATATTAAATATTAATTTAATAATATTTTAAAAT-TTAATA-TAATATT
* * ** ** *
11476048 AATAATATTTTAGTATTAAGTATTAATTTAATAATATCCTAGTATTTAATATGATATT
1 AATAATATTTTAATATTAAATATTAATTTAATAATATTTTAAAATTTAATATAATATT
* ** *
11476106 AATAATATTTTAATATTAAATATTAACTTAATAATATTTTATTTTATTTTA-ATAATATT
1 AATAATATTTTAATATTAAATATTAATTTAATAATATTTTA--AAATTTAATATAATATT
* * * * * * * *
11476165 -TTAATATTTAACAATACTAAATATTAATTTCATAGTACTTTAATATTTAATATTAT-TT
1 AATAATATTT--TAATATTAAATATTAATTTAATAATATTTTAAAATTTAATATAATATT
*
11476223 AATTATATT
1 AATAATATT
11476232 AAAGTATTAT
Statistics
Matches: 144, Mismatches: 31, Indels: 16
0.75 0.16 0.08
Matches are distributed among these distances:
57 12 0.08
58 84 0.58
59 17 0.12
60 31 0.22
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (58 bp):
AATAATATTTTAATATTAAATATTAATTTAATAATATTTTAAAATTTAATATAATATT
Found at i:11476166 original size:11 final size:11
Alignment explanation
Indices: 11476133--11476170 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
11476123 AAATATTAAC
11476133 TTAATAATATT
1 TTAATAATATT
**
11476144 TT-ATTTTATT
1 TTAATAATATT
11476154 TTAATAATATT
1 TTAATAATATT
11476165 TTAATA
1 TTAATA
11476171 TTTAACAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTAATAATATT
Found at i:11476207 original size:50 final size:50
Alignment explanation
Indices: 11476104--11476209 Score: 115
Period size: 50 Copynumber: 2.1 Consensus size: 50
11476094 TAATATGATA
* * * * ** *
11476104 TTAATAATATTTTAATATTAAATATTAACTTAATAATATTTTATTTTATT
1 TTAATAATATTTTAATATTAAACAATAACTAAATAATATTTCATAGTACT
* *
11476154 TTAATAATATTTTAATATTTAACAAT-ACTAAATATTAATTTCATAGTACT
1 TTAATAATATTTTAATATTAAACAATAACTAAATAAT-ATTTCATAGTACT
11476204 TTAATA
1 TTAATA
11476210 TTTAATATTA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
49 8 0.17
50 38 0.83
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.51
Consensus pattern (50 bp):
TTAATAATATTTTAATATTAAACAATAACTAAATAATATTTCATAGTACT
Found at i:11476286 original size:14 final size:14
Alignment explanation
Indices: 11476224--11476289 Score: 54
Period size: 14 Copynumber: 4.9 Consensus size: 14
11476214 ATATTATTTA
11476224 ATTAT-ATTAA-AGT
1 ATTATAATTAATA-T
*
11476237 ATTATCAATTCAT-T
1 ATTAT-AATTAATAT
11476251 ATTA-AATTAA-AT
1 ATTATAATTAATAT
11476263 ATTATAATTAATAT
1 ATTATAATTAATAT
11476277 GATT-TAATTAATA
1 -ATTATAATTAATA
11476290 AAATAAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
12 10 0.23
13 11 0.25
14 16 0.36
15 7 0.16
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (14 bp):
ATTATAATTAATAT
Found at i:11476287 original size:27 final size:27
Alignment explanation
Indices: 11476224--11476274 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
11476214 ATATTATTTA
* *
11476224 ATTATATTAAAGTATTATCAATTCATT
1 ATTAAATTAAAGTATTATCAATTAATT
11476251 ATTAAATTAAA-TATTAT-AATTAAT
1 ATTAAATTAAAGTATTATCAATTAAT
11476275 ATGATTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 6 0.27
26 6 0.27
27 10 0.45
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (27 bp):
ATTAAATTAAAGTATTATCAATTAATT
Found at i:11476356 original size:30 final size:30
Alignment explanation
Indices: 11476313--11476382 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
11476303 TTAATTAATC
* *
11476313 ATAATAATCAAAATTAATTAAATATGTAAGG
1 ATAA-AATTAAAATTAATTAAATATATAAGG
*
11476344 ATAAAATTAAAATTAATTAAATATATGAGG
1 ATAAAATTAAAATTAATTAAATATATAAGG
*
11476374 ACAAAATTA
1 ATAAAATTA
11476383 TCCGATAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
30 31 0.89
31 4 0.11
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.31
Consensus pattern (30 bp):
ATAAAATTAAAATTAATTAAATATATAAGG
Found at i:11477322 original size:18 final size:18
Alignment explanation
Indices: 11477279--11477323 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
11477269 TTAAAAGATT
11477279 ATATATTTTTATTTTTAA
1 ATATATTTTTATTTTTAA
* *
11477297 TTAAATTTTTATTTTTAA
1 ATATATTTTTATTTTTAA
11477315 ATATATTTT
1 ATATATTTT
11477324 AAAAAATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATATATTTTTATTTTTAA
Found at i:11478764 original size:22 final size:21
Alignment explanation
Indices: 11478738--11478778 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
11478728 AAAAATTCAT
11478738 TCAGTAATAATTATTATTTCTG
1 TCAGTAATAATTATT-TTTCTG
*
11478760 TCAGTAATATTTATTTTTC
1 TCAGTAATAATTATTTTTC
11478779 AATATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.29, C:0.10, G:0.07, T:0.54
Consensus pattern (21 bp):
TCAGTAATAATTATTTTTCTG
Found at i:11481219 original size:119 final size:116
Alignment explanation
Indices: 11481023--11481243 Score: 361
Period size: 119 Copynumber: 1.9 Consensus size: 116
11481013 TTTTATTTCA
* * ** *
11481023 ATAATTATTTTTAAATTTTAAAAATATCAAATATAATTTTTTTAAAACAAATATAAATCTTAATA
1 ATAATTATTTTAAAATTTAAAAAATATCAAATATAAAATTTTCAAAACAAATATAAATCTTAATA
11481088 CACATCAAACCCAAATTTAACATAAAATTAACATAAAGTTTTTTAATTTTG
66 CACATCAAACCCAAATTTAACATAAAATTAACATAAAGTTTTTTAATTTTG
11481139 ATAATTATTATTAAAATTTAAAAAATATCAAATATAAAAAATTTTCAAAACAAATATAAATCTTA
1 ATAATTATT-TTAAAATTTAAAAAATATCAAATAT--AAAATTTTCAAAACAAATATAAATCTTA
*
11481204 ATACACATCAAACCCAAATTTACCATAAAATTAACATAAA
63 ATACACATCAAACCCAAATTTAACATAAAATTAACATAAA
11481244 TCTTATACAT
Statistics
Matches: 96, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
116 9 0.09
117 23 0.24
119 64 0.67
ACGTcount: A:0.52, C:0.11, G:0.01, T:0.36
Consensus pattern (116 bp):
ATAATTATTTTAAAATTTAAAAAATATCAAATATAAAATTTTCAAAACAAATATAAATCTTAATA
CACATCAAACCCAAATTTAACATAAAATTAACATAAAGTTTTTTAATTTTG
Found at i:11481349 original size:26 final size:26
Alignment explanation
Indices: 11481289--11481349 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
11481279 AAAACCCAAC
11481289 AAATCAAAAAACAATACTCAACAAAA
1 AAATCAAAAAACAATACTCAACAAAA
* * *
11481315 AAACCAAAAAACAGTACTCAATAAAA
1 AAATCAAAAAACAATACTCAACAAAA
11481341 AAAT-AAAAA
1 AAATCAAAAA
11481350 TTAATAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 5 0.16
26 26 0.84
ACGTcount: A:0.70, C:0.16, G:0.02, T:0.11
Consensus pattern (26 bp):
AAATCAAAAAACAATACTCAACAAAA
Found at i:11484733 original size:24 final size:24
Alignment explanation
Indices: 11484703--11484754 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
11484693 CAAGTCGTTG
*
11484703 AAAACTACCACCAAATTAAAG-AAT
1 AAAACTA-AACCAAATTAAAGAAAT
*
11484727 AAAACTAAACTAAATTAAAGAAAT
1 AAAACTAAACCAAATTAAAGAAAT
11484751 AAAA
1 AAAA
11484755 ATCATATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.65, C:0.13, G:0.04, T:0.17
Consensus pattern (24 bp):
AAAACTAAACCAAATTAAAGAAAT
Found at i:11487922 original size:17 final size:17
Alignment explanation
Indices: 11487900--11487934 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11487890 CTATAAATAG
11487900 TATGTGTTACACCATTA
1 TATGTGTTACACCATTA
*
11487917 TATGTGTTGCACCATTA
1 TATGTGTTACACCATTA
11487934 T
1 T
11487935 TATTTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (17 bp):
TATGTGTTACACCATTA
Found at i:11490385 original size:26 final size:29
Alignment explanation
Indices: 11490340--11490395 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 29
11490330 AAATATAAAT
* *
11490340 AATTGAATATGTTTTCATCCATTTATTTA
1 AATTGAATATGTTTTCATCCACTTAGTTA
11490369 AATTG-ATAT-TTTT-ATCCACTTAGTTA
1 AATTGAATATGTTTTCATCCACTTAGTTA
11490395 A
1 A
11490396 CTGGAGATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 12 0.48
27 4 0.16
28 4 0.16
29 5 0.20
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (29 bp):
AATTGAATATGTTTTCATCCACTTAGTTA
Found at i:11490879 original size:5 final size:5
Alignment explanation
Indices: 11490869--11490893 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11490859 CTTGAAATCA
11490869 TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT
11490894 ATAGACATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:11491042 original size:9 final size:9
Alignment explanation
Indices: 11491019--11491048 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11491009 AATTTTAAAT
11491019 TTATTCAAA
1 TTATTCAAA
11491028 -TATTCAAA
1 TTATTCAAA
11491036 TTATTCAAA
1 TTATTCAAA
11491045 TTAT
1 TTAT
11491049 AATTAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (9 bp):
TTATTCAAA
Found at i:11496711 original size:3 final size:3
Alignment explanation
Indices: 11496703--11496734 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
11496693 TTCTTTTTTA
11496703 ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11496735 TATTTTGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:11498932 original size:30 final size:30
Alignment explanation
Indices: 11498856--11498935 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
11498846 AAAAATGGTG
* *
11498856 AAAGGTGAAAGG-TGAAAAAAAAAAGAAAA
1 AAAGATGAAAGGAGGAAAAAAAAAAGAAAA
* ** *
11498885 AAAGA-AAAAAAAGGGAAAATAAAAAGAAAA
1 AAAGATGAAAGGA-GGAAAAAAAAAAGAAAA
11498915 AAAGATGAAAGGAGGAAAAAA
1 AAAGATGAAAGGAGGAAAAAA
11498936 GAAGACTCAA
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
28 3 0.08
29 4 0.11
30 27 0.71
31 4 0.11
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (30 bp):
AAAGATGAAAGGAGGAAAAAAAAAAGAAAA
Found at i:11500368 original size:43 final size:42
Alignment explanation
Indices: 11500320--11500401 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 42
11500310 GCTTTTGAAC
* *
11500320 TCAAATGAGAAGCTTT-GAATTTTTAGATGTGAATCTCCAAAAT
1 TCAAATGAAAAGCTTTAG-ATTTTTAGATATGAAT-TCCAAAAT
*
11500363 TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAA
1 TCAAATGAAAAGCTTTAGATTTTTAGATATGAATTCCAA
11500402 GTTTGCCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
42 5 0.14
43 29 0.83
44 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (42 bp):
TCAAATGAAAAGCTTTAGATTTTTAGATATGAATTCCAAAAT
Found at i:11500788 original size:42 final size:40
Alignment explanation
Indices: 11500701--11501078 Score: 369
Period size: 42 Copynumber: 9.2 Consensus size: 40
11500691 ATGATTGTTA
** *
11500701 AGGAGCAATTTATTTTTCAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTCAAAGTTGTGGTGCCTCTATTTAG
*
11500742 AGGAGCAATTTATTTTTCAAAGTTGTAGTTGCCTCTATTTAG
1 AGGAGCAATTTA-TTTTCAAAGTTGT-GGTGCCTCTATTTAG
* *
11500784 AGGAGCAATTTACTTTCAAAAGTTATGGTGCCTCTATTTAG
1 AGGAGCAATTTATTTTC-AAAGTTGTGGTGCCTCTATTTAG
* *
11500825 AGGAGCAATTTACTTTTCAAAAGTTGAGGTGCCTCTATTTAA
1 AGGAGCAATTTA-TTTTC-AAAGTTGTGGTGCCTCTATTTAG
*
11500867 AGGAGCAATTTACTTTCAAAGTTGTGGTGCCTCTATTTAG
1 AGGAGCAATTTATTTTCAAAGTTGTGGTGCCTCTATTTAG
*
11500907 AGGAGCAATTTACTTTTCCAAGTTGTGGTGCCTCTATTTAG
1 AGGAGCAATTTA-TTTTCAAAGTTGTGGTGCCTCTATTTAG
* * * * * * * *
11500948 AGGAGCAATTTGCTTTCCAAAGTCGTTGAGCCTTTGTTTGG
1 AGGAGCAATTT-ATTTTCAAAGTTGTGGTGCCTCTATTTAG
** ** ***
11500989 AGGAGCTTTGTTTATTTTCAAAGTCATTAAGCCTCTATTTAG
1 AGGAGC--AATTTATTTTCAAAGTTGTGGTGCCTCTATTTAG
* ** * * *
11501031 AGGAGCTTTATTTATTTTCAAAGTCATTGAGTCTCTATTTAG
1 AGGAGC--AATTTATTTTCAAAGTTGTGGTGCCTCTATTTAG
11501073 AGGAGC
1 AGGAGC
11501079 TTTGTTTATT
Statistics
Matches: 293, Mismatches: 37, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
40 33 0.11
41 121 0.41
42 136 0.46
43 3 0.01
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.39
Consensus pattern (40 bp):
AGGAGCAATTTATTTTCAAAGTTGTGGTGCCTCTATTTAG
Found at i:11500842 original size:83 final size:82
Alignment explanation
Indices: 11500701--11500970 Score: 409
Period size: 83 Copynumber: 3.3 Consensus size: 82
11500691 ATGATTGTTA
* * * *
11500701 AGGAGCAATTTATTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTT
1 AGGAGCAATTTA-CTTTCAAAGTTATGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTT
*
11500766 GTAGTTGCCTCTATTTAG
65 GTAGGTGCCTCTATTTAG
11500784 AGGAGCAATTTACTTTCAAAAGTTATGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAAGT
1 AGGAGCAATTTACTTTC-AAAGTTATGGTGCCTCTATTTAGAGGAGCAATTTACTTTTC-AAAGT
*
11500849 TG-AGGTGCCTCTATTTAA
64 TGTAGGTGCCTCTATTTAG
* *
11500867 AGGAGCAATTTACTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCCAAGTTG
1 AGGAGCAATTTACTTTCAAAGTTATGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTG
11500932 T-GGTGCCTCTATTTAG
66 TAGGTGCCTCTATTTAG
*
11500948 AGGAGCAATTTGCTTTCCAAAGT
1 AGGAGCAATTTACTTT-CAAAGT
11500971 CGTTGAGCCT
Statistics
Matches: 173, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
81 35 0.20
82 50 0.29
83 81 0.47
84 7 0.04
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.38
Consensus pattern (82 bp):
AGGAGCAATTTACTTTCAAAGTTATGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTG
TAGGTGCCTCTATTTAG
Found at i:11501079 original size:42 final size:42
Alignment explanation
Indices: 11500708--11501132 Score: 275
Period size: 42 Copynumber: 10.2 Consensus size: 42
11500698 TTAAGGAGCA
* * * *
11500708 ATTTATTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGC--A
1 ATTTA-TTTTCAAAGTCATTGAGCCTCTATTTAGAGGAGCTTT
** * * *
11500749 ATTTATTTTTCAAAGTTGTAGTTGCCTCTATTTAGAGGAGC--A
1 ATTTA-TTTTCAAAGTCATTG-AGCCTCTATTTAGAGGAGCTTT
* * * * *
11500791 ATTTACTTTCAAAAGTTATGGTGCCTCTATTTAGAGGAGC--A
1 ATTTATTTTC-AAAGTCATTGAGCCTCTATTTAGAGGAGCTTT
* * * * *
11500832 ATTTACTTTTCAAAAGTTGA-GGTGCCTCTATTTAAAGGAGC--A
1 ATTTA-TTTTC-AAAG-TCATTGAGCCTCTATTTAGAGGAGCTTT
* ** * * *
11500874 ATTTACTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGC--A
1 ATTTATTTTCAAAGTCATTGAGCCTCTATTTAGAGGAGCTTT
* ** * * *
11500914 ATTTACTTTTCCAAGTTGTGGTGCCTCTATTTAGAGGAGC--A
1 ATTTA-TTTTCAAAGTCATTGAGCCTCTATTTAGAGGAGCTTT
* * * * * *
11500955 ATTTGCTTTCCAAAGTCGTTGAGCCTTTGTTTGGAGGAGCTTT
1 ATTT-ATTTTCAAAGTCATTGAGCCTCTATTTAGAGGAGCTTT
* *
11500998 GTTTATTTTCAAAGTCATTAAGCCTCTATTTAGAGGAGCTTT
1 ATTTATTTTCAAAGTCATTGAGCCTCTATTTAGAGGAGCTTT
*
11501040 ATTTATTTTCAAAGTCATTGAGTCTCTATTTAGAGGAGCTTT
1 ATTTATTTTCAAAGTCATTGAGCCTCTATTTAGAGGAGCTTT
* *
11501082 GTTTATTTTCAAAAGTCATTGAGCCTCTATTTAGAGAAGCTTT
1 ATTTATTTTC-AAAGTCATTGAGCCTCTATTTAGAGGAGCTTT
*
11501125 -GTTATTTT
1 ATTTATTTT
11501133 TTCTTTTTAA
Statistics
Matches: 333, Mismatches: 41, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.00
40 30 0.09
41 114 0.34
42 153 0.46
43 35 0.11
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (42 bp):
ATTTATTTTCAAAGTCATTGAGCCTCTATTTAGAGGAGCTTT
Found at i:11501778 original size:16 final size:16
Alignment explanation
Indices: 11501757--11501795 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11501747 ATTATTTTTT
*
11501757 AAATATAAATATTTAA
1 AAATATAAATATATAA
*
11501773 AAATATAATTATATAA
1 AAATATAAATATATAA
*
11501789 ATATATA
1 AAATATA
11501796 TAATTAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:11501778 original size:30 final size:30
Alignment explanation
Indices: 11501742--11501802 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
11501732 CAAAATTAAT
* * * *
11501742 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATAATTATATAAATATAAATAATTA
*
11501772 AAAATATAATTATATAAATATATATAATTA
1 AAAATATAATTATATAAATATAAATAATTA
11501802 A
1 A
11501803 TTAATTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAATATAATTATATAAATATAAATAATTA
Found at i:11502915 original size:171 final size:169
Alignment explanation
Indices: 11502510--11502980 Score: 789
Period size: 171 Copynumber: 2.8 Consensus size: 169
11502500 ATTAAATACA
* * * *
11502510 AATTACCTAAGGATGATATTCTTAGAAATTTCAAATGGTAAATTTTTAAGAAATCTCTAGGTGAG
1 AATTATCTAAAGATGAGATTCTTAGAAATTTCAAATGGTAAATTTTTAATAAATCTCTAGGTGAG
* * *
11502575 AAATTTTCTCTAAATTTGGCCCAAATGGTGGAATGATTTAGATGAAATTTCAATACAAGTAATTG
66 AAATTTTCTCTAAATTTGACCCAAATGGTAGAATAATTTAGATGAAATTTCAATACAAGTAATTG
11502640 TATTCTTTCTAAATAAAAATTGGATTGAAAATATTTGAT
131 TATTCTTTCTAAATAAAAATTGGATTGAAAATATTTGAT
* *
11502679 AATTATCTAAAAATGAGATTCTTAGAAATTTAAAATGGTAAATTTTTAATAAATCTCTAGGTGAG
1 AATTATCTAAAGATGAGATTCTTAGAAATTTCAAATGGTAAATTTTTAATAAATCTCTAGGTGAG
11502744 AAATTTTCTCTAAATTTGACCCAAATGGTAGAATAATTTAGATGAAATTTCAATACAAGTAATTG
66 AAATTTTCTCTAAATTTGACCCAAATGGTAGAATAATTTAGATGAAATTTCAATACAAGTAATTG
*
11502809 TATTCTTTTCTGAATAAAAATTTGGATTGAAAATATTTGAT
131 TATTC-TTTCTAAATAAAAA-TTGGATTGAAAATATTTGAT
*
11502850 AATTATCTAAAGATGAGATTCTTAGAAATTTCAAATGGTAAATTTTTAATAAATCTCTGGGTGAG
1 AATTATCTAAAGATGAGATTCTTAGAAATTTCAAATGGTAAATTTTTAATAAATCTCTAGGTGAG
* * * *
11502915 AAATTTTCTCTAAATTTGACCCAAATTGTAGAATAATTTAAATGAAATTTCAATAAAAATAATTG
66 AAATTTTCTCTAAATTTGACCCAAATGGTAGAATAATTTAGATGAAATTTCAATACAAGTAATTG
11502980 T
131 T
11502981 CATATTATTT
Statistics
Matches: 283, Mismatches: 17, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
169 126 0.45
170 13 0.05
171 144 0.51
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (169 bp):
AATTATCTAAAGATGAGATTCTTAGAAATTTCAAATGGTAAATTTTTAATAAATCTCTAGGTGAG
AAATTTTCTCTAAATTTGACCCAAATGGTAGAATAATTTAGATGAAATTTCAATACAAGTAATTG
TATTCTTTCTAAATAAAAATTGGATTGAAAATATTTGAT
Found at i:11505695 original size:30 final size:30
Alignment explanation
Indices: 11505661--11505718 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
11505651 ACCTTTAACC
11505661 TTTAATTTAT-ATGTAAATAAACTCTTAATT
1 TTTAATTTATAAT-TAAATAAACTCTTAATT
*
11505691 TTTAATTTATAATTAAATAAACTTTTAA
1 TTTAATTTATAATTAAATAAACTCTTAA
11505719 AATACATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (30 bp):
TTTAATTTATAATTAAATAAACTCTTAATT
Found at i:11505814 original size:30 final size:28
Alignment explanation
Indices: 11505736--11505816 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 28
11505726 ATATATATTT
11505736 ATTTTATTTAGATAA-AAATAAAAAATAAA
1 ATTTTATTTA-A-AACAAATAAAAAATAAA
** *
11505765 AACTTATTTGAATAC-AATAAAAATATAAA
1 ATTTTATTT-AAAACAAATAAAAA-ATAAA
11505794 AGTTTTATTTAAAACAAATAAAA
1 A-TTTTATTTAAAACAAATAAAA
11505817 TAATTTAAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
28 9 0.22
29 18 0.44
30 14 0.34
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (28 bp):
ATTTTATTTAAAACAAATAAAAAATAAA
Found at i:11506342 original size:21 final size:20
Alignment explanation
Indices: 11506296--11506346 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
11506286 ATGAAAATTG
* *
11506296 ATTTATTGATGTGTATATTA
1 ATTTATTGATGTGCACATTA
*
11506316 ACTTTATTGATGTGACACATTT
1 A-TTTATTGATGTG-CACATTA
11506338 ATTTATTGA
1 ATTTATTGA
11506347 GATAATTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 20 0.77
22 5 0.19
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (20 bp):
ATTTATTGATGTGCACATTA
Found at i:11506823 original size:32 final size:33
Alignment explanation
Indices: 11506782--11506847 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
11506772 ATAACGATAG
** *
11506782 ATAAATATTTA-GACATGTGGTATGATTTTATT
1 ATAAATATTTATGACACATGATATGATTTTATT
11506814 ATAAATATTTATGACACATGATATGATTTTATT
1 ATAAATATTTATGACACATGATATGATTTTATT
11506847 A
1 A
11506848 GACATTTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.37
33 19 0.63
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (33 bp):
ATAAATATTTATGACACATGATATGATTTTATT
Found at i:11509658 original size:28 final size:28
Alignment explanation
Indices: 11509622--11509676 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
11509612 TAGATTTGTC
11509622 ATTACTGTGTCATTAACAAAATATTTTT
1 ATTACTGTGTCATTAACAAAATATTTTT
*
11509650 ATTAGTGTGTCATTAACAAAATATTTT
1 ATTACTGTGTCATTAACAAAATATTTT
11509677 AGGACTAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (28 bp):
ATTACTGTGTCATTAACAAAATATTTTT
Found at i:11512099 original size:17 final size:17
Alignment explanation
Indices: 11512077--11512109 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11512067 TATTGGTAAG
11512077 GGTATACATGTAAAGAA
1 GGTATACATGTAAAGAA
11512094 GGTATACATGTAAAGA
1 GGTATACATGTAAAGA
11512110 GAATACAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.24, T:0.24
Consensus pattern (17 bp):
GGTATACATGTAAAGAA
Found at i:11512240 original size:8 final size:8
Alignment explanation
Indices: 11512229--11512262 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
11512219 TTTTGGATTT
11512229 TTTATTGG
1 TTTATTGG
11512237 TTTATTGG
1 TTTATTGG
*
11512245 TTT-TTGA
1 TTTATTGG
11512252 TTTATTGG
1 TTTATTGG
11512260 TTT
1 TTT
11512263 CTTTATTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.12, C:0.00, G:0.21, T:0.68
Consensus pattern (8 bp):
TTTATTGG
Found at i:11513875 original size:12 final size:12
Alignment explanation
Indices: 11513858--11513882 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11513848 ATTCTTCATC
11513858 TCTCTCTCTCTT
1 TCTCTCTCTCTT
11513870 TCTCTCTCTCTT
1 TCTCTCTCTCTT
11513882 T
1 T
11513883 TGTTTCAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (12 bp):
TCTCTCTCTCTT
Found at i:11514308 original size:21 final size:21
Alignment explanation
Indices: 11514267--11514309 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
11514257 GAATTCTATT
*
11514267 TACACCCCACTTCCTACTATA
1 TACACCCCACTTCCTAATATA
*
11514288 TACATCCCACTT-CTAA-ATA
1 TACACCCCACTTCCTAATATA
11514307 TAC
1 TAC
11514310 CTCAAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 3 0.15
21 11 0.55
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (21 bp):
TACACCCCACTTCCTAATATA
Found at i:11515205 original size:24 final size:24
Alignment explanation
Indices: 11515178--11515226 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
11515168 TATTTATTTT
11515178 AGTA-TTA-TTTATTTTAAGATTAAA
1 AGTATTTATTTTA-TTTAA-ATTAAA
11515202 AGTATTTATTTTATTTAAATTAAA
1 AGTATTTATTTTATTTAAATTAAA
11515226 A
1 A
11515227 TTAAACGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 11 0.48
25 8 0.35
26 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (24 bp):
AGTATTTATTTTATTTAAATTAAA
Found at i:11515762 original size:17 final size:17
Alignment explanation
Indices: 11515740--11515774 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11515730 AAAATTCAAA
11515740 TTCAAATTTTGGTATAG
1 TTCAAATTTTGGTATAG
*
11515757 TTCAAATTTTTGTATAG
1 TTCAAATTTTGGTATAG
11515774 T
1 T
11515775 ATATGAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (17 bp):
TTCAAATTTTGGTATAG
Found at i:11516153 original size:79 final size:80
Alignment explanation
Indices: 11516062--11516226 Score: 305
Period size: 80 Copynumber: 2.1 Consensus size: 80
11516052 TCCCACACAG
*
11516062 AATTTTTTGAGAGTCTATGAGTGCCAATAAATATAAATATG-AAAAGTGGATGCCTAATTATTAT
1 AATTTTTTGAGAGTCTATGAGTGCCAATAAATATAAATATGAAAAACTGGATGCCTAATTATTAT
11516126 TGGCTTTGGTATCTA
66 TGGCTTTGGTATCTA
*
11516141 AATTTTTTGAGAGTCTATGAGTGCGAATAAATATAAATATGAAAAACTGGATGCCTAATTATTAT
1 AATTTTTTGAGAGTCTATGAGTGCCAATAAATATAAATATGAAAAACTGGATGCCTAATTATTAT
11516206 TGGCTTTGGTATCTA
66 TGGCTTTGGTATCTA
11516221 AATTTT
1 AATTTT
11516227 CTCTCTGTTT
Statistics
Matches: 83, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
79 40 0.48
80 43 0.52
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (80 bp):
AATTTTTTGAGAGTCTATGAGTGCCAATAAATATAAATATGAAAAACTGGATGCCTAATTATTAT
TGGCTTTGGTATCTA
Found at i:11517173 original size:2 final size:2
Alignment explanation
Indices: 11517168--11517212 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
11517158 GAGAAACCAA
11517168 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11517210 TC T
1 TC T
11517213 TGTTGGAATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:11519207 original size:2 final size:2
Alignment explanation
Indices: 11519197--11519234 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
11519187 TGTGTAAAAA
11519197 AG AG A- AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
11519235 ATTGCTTGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11533553 original size:23 final size:23
Alignment explanation
Indices: 11533526--11533571 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
11533516 GATTCCCAAA
11533526 TTGAAAATAGAAAATAAGCTCTT
1 TTGAAAATAGAAAATAAGCTCTT
11533549 TTGAAAATAGAAAATAAGCTCTT
1 TTGAAAATAGAAAATAAGCTCTT
11533572 GACTAAGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (23 bp):
TTGAAAATAGAAAATAAGCTCTT
Found at i:11540036 original size:16 final size:15
Alignment explanation
Indices: 11540015--11540080 Score: 51
Period size: 17 Copynumber: 4.0 Consensus size: 15
11540005 CATGTCCTTA
11540015 GGATTTTTAGGACTTT
1 GGATTTTTAGGA-TTT
*
11540031 GGATTTTAAGAGGATTT
1 GGATTTT--TAGGATTT
* *
11540048 GAATTTTAAGGGATTTT
1 GGATTTTTA-GGA-TTT
11540065 GGATTTTTAAGGATTT
1 GGATTTTT-AGGATTT
11540081 TAAAAACTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
15 1 0.03
16 13 0.32
17 21 0.52
18 5 0.12
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.47
Consensus pattern (15 bp):
GGATTTTTAGGATTT
Found at i:11540053 original size:17 final size:17
Alignment explanation
Indices: 11540023--11540063 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
11540013 TAGGATTTTT
*
11540023 AGGACTTTGGATTTTAAG
1 AGGA-TTTGAATTTTAAG
11540041 AGGATTTGAATTTTAAG
1 AGGATTTGAATTTTAAG
11540058 -GGATTT
1 AGGATTT
11540064 TGGATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.27
17 12 0.55
18 4 0.18
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.41
Consensus pattern (17 bp):
AGGATTTGAATTTTAAG
Found at i:11540065 original size:17 final size:17
Alignment explanation
Indices: 11540028--11540081 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
11540018 TTTTTAGGAC
*
11540028 TTTGGATTTTAAGAGGA-
1 TTTGAATTTTAAG-GGAT
11540045 TTTGAATTTTAAGGGAT
1 TTTGAATTTTAAGGGAT
*
11540062 TTTGGATTTTTAA-GGAT
1 TTT-GAATTTTAAGGGAT
11540079 TTT
1 TTT
11540082 AAAAACTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 3 0.09
17 22 0.67
18 8 0.24
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (17 bp):
TTTGAATTTTAAGGGAT
Found at i:11541955 original size:170 final size:171
Alignment explanation
Indices: 11541663--11542332 Score: 846
Period size: 170 Copynumber: 3.9 Consensus size: 171
11541653 AAGAATGACT
* * ** *
11541663 GGGATTAAACCGCAAGTCAAAAGATGACGTTAACTTGGATTGAATCACTAGTCCAAAAT-AAGAA
1 GGGATTAAACCGCAAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAGTCTGAAATAAAAAA
* * * * **
11541727 GATTGGGATTGAACAACGAGTTAGAGGATAACAACAATCGAGATTAAATTACGATTTTAAATTAA
66 GATCGGGATTGAACCACGAGTCAGAGGATAACAACAATCGAGATTAAACTGTGATTTTAAATTAA
*
11541792 AGAGATCGAGATTGAACCGTGAATTGAAGGATAAATAGATC
131 AGAGATCGAGATTGAACCGTGAATTGAAGGATAAAGAGATC
* * * * *
11541833 GGGATTAAACTGTAAGTCAGAAAATGATGTTAACTTGGATTGAATCACAAGTCTGAAAT-AATAA
1 GGGATTAAACCGCAAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAGTCTGAAATAAAAAA
* *
11541897 GATCGGGATTGAACCATGAGTCAGAGGATAACAACAATCAAGATTAAACTGTGATTTTAAATTAA
66 GATCGGGATTGAACCACGAGTCAGAGGATAACAACAATCGAGATTAAACTGTGATTTTAAATTAA
* * *
11541962 AGAGATCGAGATTGAACCTTGAGTCGGAA-GATAAAGAGATC
131 AGAGATCGAGATTGAACCGTGAAT-TGAAGGATAAAGAGATC
* * * * *
11542003 GGGATTAAA-TGCGAGTCAAAAAATGATGTTAACTTGGATTGAATCATAAGTTTGAAATAAAAAA
1 GGGATTAAACCGCAAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAGTCTGAAAT--AAAA
* *
11542067 AAGACCGGGATTGAACCACGAGTCAGAGGATAACAACAATCGAGATTAAATTGTGATTTTACAAT
64 AAGATCGGGATTGAACCACGAGTCAGAGGATAACAACAATCGAGATTAAACTGTGATTTTA-AAT
* * * * *
11542132 TAAAGAGATTGGGATTGAACCTTGAA-TCAGAGGATAAAGAGACC
128 TAAAGAGATCGAGATTGAACCGTGAATTGA-AGGATAAAGAGATC
* *
11542176 GAGATTAAACCGCAAGTCAAAAAATGACGTTAACTTGGATTGAATCATAAGTCTGAAATAAAAAA
1 GGGATTAAACCGCAAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAGTCTGAAAT-----A
* * *
11542241 AAAAAGATCGGGATTGAACCACGAGTTAGAGGATAACAATAATCGAGATTAAACTGTAATTTTAA
61 AAAAAGATCGGGATTGAACCACGAGTCAGAGGATAACAACAATCGAGATTAAACTGTGATTTT-A
*
11542306 AATTAAAGAGATTGAGATTGAACCGTG
125 AATTAAAGAGATCGAGATTGAACCGTG
11542333 GATCGAATGA
Statistics
Matches: 439, Mismatches: 49, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
169 44 0.10
170 154 0.35
171 4 0.01
172 60 0.14
173 45 0.10
174 45 0.10
177 86 0.20
178 1 0.00
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (171 bp):
GGGATTAAACCGCAAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAGTCTGAAATAAAAAA
GATCGGGATTGAACCACGAGTCAGAGGATAACAACAATCGAGATTAAACTGTGATTTTAAATTAA
AGAGATCGAGATTGAACCGTGAATTGAAGGATAAAGAGATC
Found at i:11542414 original size:69 final size:68
Alignment explanation
Indices: 11542245--11542414 Score: 198
Period size: 69 Copynumber: 2.5 Consensus size: 68
11542235 AAAAAAAAAA
* * * * * * **
11542245 AGATCGGGATTGAACCACGAGTTAGAGGATAACAATAATCGAGATTAAACTGTAATTTTAAAATT
1 AGATTGGGATTGAACCTCGA-ATCGAAGATAACAACAATCGAGATTAAACTACAATTTTAAAATT
11542310 AAAG
65 AAAG
* * *
11542314 AGATTGAGATTGAACCGT-GGATCGAATGATAACAACAATCGAGATTAAACTACGATTTTAAAAT
1 AGATTGGGATTGAACC-TCGAATCGAA-GATAACAACAATCGAGATTAAACTACAATTTTAAAAT
11542378 TAAAG
64 TAAAG
11542383 AGATTGGGATTGAACCTCGAATCGGAAGATAA
1 AGATTGGGATTGAACCTCGAATC-GAAGATAA
11542415 AAAGACCAGG
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
68 4 0.05
69 77 0.92
70 3 0.04
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.25
Consensus pattern (68 bp):
AGATTGGGATTGAACCTCGAATCGAAGATAACAACAATCGAGATTAAACTACAATTTTAAAATTA
AAG
Found at i:11542606 original size:244 final size:245
Alignment explanation
Indices: 11542095--11542685 Score: 875
Period size: 244 Copynumber: 2.4 Consensus size: 245
11542085 CGAGTCAGAG
* ** * *
11542095 GATAACAACAATCGAGATTAAATTGTGATTTTACAATTAAAGAGATTGGGATTGAACCTTGAATC
1 GATAACAACAATCGAGATTAAACTACGATTTTAAAATTAAAGAGATTGGGATTGAACCTCGAATC
* * *
11542160 AGAGGATAAAGAGACC-GAGATTAAACCGCAAGTCAAAAAATGACGTTAACTTGGATTGAATCAT
66 AGAAGATAAAAAGACCAG-GATTAAACCGCGAGTCAAAAAATGACGTTAACTTGGATTGAATCAT
* *
11542224 AAGTCTGAAATAAAAAAAAAAAGATCGGGATTGAACCACGAGTTAGAGGATAACAATAATCGAGA
130 AAGTCTGAAAT-AAAAAAAAAAGATCGGGATTGAACCACGAGTCAGAGGATAACAACAATCGAGA
* *
11542289 TTAAACTGTAATTTTAAAATTAAAGAGATTGAGATTGAACCGTGGATCGAAT
194 TTAAACTGGAATTTTAAAATTAAAGAGATTGAGATTGAACCGTGGATCGAAA
11542341 GATAACAACAATCGAGATTAAACTACGATTTTAAAATTAAAGAGATTGGGATTGAACCTCGAATC
1 GATAACAACAATCGAGATTAAACTACGATTTTAAAATTAAAGAGATTGGGATTGAACCTCGAATC
* * *
11542406 GGAAGATAAAAAGACCAGGATTAAACTGCGAGTCAAAAAATGGCGTTAACTTGGATTGAATCATA
66 AGAAGATAAAAAGACCAGGATTAAACCGCGAGTCAAAAAATGACGTTAACTTGGATTGAATCATA
*
11542471 AGTCTGAAAT-AAAAAAAAAGATCGGGATTGAACCATGAGTCAGAGGATAACAACAATCGAGATT
131 AGTCTGAAATAAAAAAAAAAGATCGGGATTGAACCACGAGTCAGAGGATAACAACAATCGAGATT
* *
11542535 AAACTGGGATTTTAAAATTAAAGAGATTGGGATTGAACCGTGGATCGAAA
196 AAACTGGAATTTTAAAATTAAAGAGATTGAGATTGAACCGTGGATCGAAA
* ** * ** *
11542585 GATAACAACAATCGAGATTAAACTACGACTTT-GGATTAAAAAGATCAGGATTGAACCCCGAATC
1 GATAACAACAATCGAGATTAAACTACGATTTTAAAATTAAAGAGATTGGGATTGAACCTCGAATC
** *
11542649 AGAA-ATTAAAAAGATTAGGATTAAACCGAGAGTCAAA
66 AGAAGA-TAAAAAGACCAGGATTAAACCGCGAGTCAAA
11542686 GGATAACAAC
Statistics
Matches: 313, Mismatches: 30, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
242 1 0.00
243 56 0.18
244 128 0.41
246 127 0.41
247 1 0.00
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.23
Consensus pattern (245 bp):
GATAACAACAATCGAGATTAAACTACGATTTTAAAATTAAAGAGATTGGGATTGAACCTCGAATC
AGAAGATAAAAAGACCAGGATTAAACCGCGAGTCAAAAAATGACGTTAACTTGGATTGAATCATA
AGTCTGAAATAAAAAAAAAAGATCGGGATTGAACCACGAGTCAGAGGATAACAACAATCGAGATT
AAACTGGAATTTTAAAATTAAAGAGATTGAGATTGAACCGTGGATCGAAA
Found at i:11542676 original size:102 final size:102
Alignment explanation
Indices: 11542549--11542844 Score: 352
Period size: 102 Copynumber: 2.9 Consensus size: 102
11542539 TGGGATTTTA
* * * **
11542549 AAATTAAAGAGATTGGGATTGAACCGTG-GATCGAAA-GATAACAACAATCGAGATTAAACTACG
1 AAATTAAAAAGATTAGGATTAAACCGTGAG-TC-AAAGGATAACAACAATCGAGATTAAACTGTG
* * * *
11542612 ACTTTGGATTAAAAAGATCAGGATTGAACCCCGAATCAG
64 ACTTTGAATTAAAGAGATCAGGATTAAACCACGAATCAG
*
11542651 AAATTAAAAAGATTAGGATTAAACCGAGAGTCAAAGGATAACAACAATCGAGATTAAACTGTGAC
1 AAATTAAAAAGATTAGGATTAAACCGTGAGTCAAAGGATAACAACAATCGAGATTAAACTGTGAC
* * *
11542716 TTTAAATTAAAGAGATCGGGATTAAACCATGAATCAG
66 TTTGAATTAAAGAGATCAGGATTAAACCACGAATCAG
* * *
11542753 AGAGA-T-AAAAGA-TCGAGATTAAATCGTGAGTCAAAGGATAACAACAATTGAGATTAAACTGT
1 A-A-ATTAAAAAGATTAG-GATTAAACCGTGAGTCAAAGGATAACAACAATCGAGATTAAACTGT
11542815 GACTTTGAATTAAAGAGAT-AGGGATTAAAC
63 GACTTTGAATTAAAGAGATCA-GGATTAAAC
11542845 TGCGAGTCAA
Statistics
Matches: 169, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
101 5 0.03
102 160 0.95
103 3 0.02
104 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.23
Consensus pattern (102 bp):
AAATTAAAAAGATTAGGATTAAACCGTGAGTCAAAGGATAACAACAATCGAGATTAAACTGTGAC
TTTGAATTAAAGAGATCAGGATTAAACCACGAATCAG
Found at i:11543972 original size:15 final size:15
Alignment explanation
Indices: 11543936--11543976 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
11543926 CACTTCCTTT
*
11543936 TTTGTTTTTTTTGTA
1 TTTGTTTTTTTTGCA
11543951 TTT-TTTTTTGTT-CA
1 TTTGTTTTTT-TTGCA
11543965 TTTGTTTTTTTT
1 TTTGTTTTTTTT
11543977 TAAGTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.05, C:0.02, G:0.10, T:0.83
Consensus pattern (15 bp):
TTTGTTTTTTTTGCA
Found at i:11553668 original size:22 final size:21
Alignment explanation
Indices: 11553641--11553689 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
11553631 TTGAAAGACC
* *
11553641 ATAAAACAAATCAATAATGTAA
1 ATAAAACAAATAAATAA-ATAA
*
11553663 ATAAAATAAATAAATAAATAA
1 ATAAAACAAATAAATAAATAA
11553684 ATAAAA
1 ATAAAA
11553690 AGGAGTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (21 bp):
ATAAAACAAATAAATAAATAA
Found at i:11553683 original size:12 final size:13
Alignment explanation
Indices: 11553660--11553688 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11553650 ATCAATAATG
11553660 TAAATAAAATAAA
1 TAAATAAAATAAA
11553673 TAAAT-AAATAAA
1 TAAATAAAATAAA
11553685 TAAA
1 TAAA
11553689 AAGGAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAAATAAA
Found at i:11555324 original size:17 final size:17
Alignment explanation
Indices: 11555279--11555341 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
11555269 TCCTTAGGAT
*
11555279 TTTTA-GGACTTTGG-A
1 TTTTAGGGATTTTGGAA
11555294 TTTTAAGAGG-TTTT-GAA
1 TTTT-AG-GGATTTTGGAA
*
11555311 TTTTAGGGGATTTTGGAT
1 TTTTA-GGGATTTTGGAA
11555329 TTTTAGGGATTTT
1 TTTTAGGGATTTT
11555342 AAAAACTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
15 4 0.10
16 5 0.13
17 21 0.54
18 9 0.23
ACGTcount: A:0.21, C:0.02, G:0.27, T:0.51
Consensus pattern (17 bp):
TTTTAGGGATTTTGGAA
Found at i:11555729 original size:21 final size:22
Alignment explanation
Indices: 11555700--11555746 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
11555690 AAACAATTAG
* *
11555700 AAAACTTATCCTA-ATAAATTT
1 AAAACTTATCATACATAAATAT
*
11555721 AAAATTTATCATACATAAATAT
1 AAAACTTATCATACATAAATAT
11555743 AAAA
1 AAAA
11555747 GATATACTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAACTTATCATACATAAATAT
Found at i:11556970 original size:28 final size:26
Alignment explanation
Indices: 11556921--11556973 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
11556911 TCTCCTATCA
*
11556921 TATATATATGTTTTTACTTTAAAAAT
1 TATATATATGTTTTTACGTTAAAAAT
*
11556947 TATATATATGTTTCTATTCGTTAAAAA
1 TATATATATGTTT-T-TACGTTAAAAA
11556974 AAATTACATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 13 0.57
27 1 0.04
28 9 0.39
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.51
Consensus pattern (26 bp):
TATATATATGTTTTTACGTTAAAAAT
Found at i:11559565 original size:73 final size:74
Alignment explanation
Indices: 11559473--11559670 Score: 215
Period size: 74 Copynumber: 2.7 Consensus size: 74
11559463 AAATTTTCAA
* * *
11559473 AAAATGGATCAATCCCTTCTGAAAATGGA-TCTATCAATTTTTTAT-CAAAAAA-CATCTCCAAT
1 AAAATAGATCGATCCCTTCT-AAAATGGATTC-ATCGATTTTTTATACAAAAAAGCATCTCCAAT
*
11559535 TTAAAACTATC
64 TTAAAACTAGC
* ** * * * ** *
11559546 AAAATAGATTGATCCCTTCTATAAAAAGATTGATCGA-TTTTTATAAAAAAAAGCTTCTTGATTT
1 AAAATAGATCGATCCCTTCTA-AAATGGATTCATCGATTTTTTATACAAAAAAGCATCTCCAATT
11559610 TAAAACTAGC
65 TAAAACTAGC
*
11559620 AAAATAGATCGATCCCTTCTAAAATGGATTCATCGATTTTTCATACAAAAA
1 AAAATAGATCGATCCCTTCTAAAATGGATTCATCGATTTTTTATACAAAAA
11559671 CTTCAATCAT
Statistics
Matches: 101, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
72 8 0.08
73 44 0.44
74 49 0.49
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.33
Consensus pattern (74 bp):
AAAATAGATCGATCCCTTCTAAAATGGATTCATCGATTTTTTATACAAAAAAGCATCTCCAATTT
AAAACTAGC
Found at i:11559702 original size:73 final size:73
Alignment explanation
Indices: 11559533--11559718 Score: 184
Period size: 73 Copynumber: 2.6 Consensus size: 73
11559523 AACATCTCCA
* * *
11559533 ATTT-AAAACTATCAAAATAGATTGATCCCTTCTATAAAAAGATTGATCGATTTTTATAAAAAAA
1 ATTTCAAAACTAGCAAAATAGATCGATCCCTTCTA-AAAAAGATTCATCGATTTTTATAAAAAAA
* *
11559597 AGCTTCTTG
65 AGCTTCATC
* ** *
11559606 ATTTTAAAACTAGCAAAATAGATCGATCCCTTCTAAAATGGATTCATCGATTTTTCAT-ACAAAA
1 ATTTCAAAACTAGCAAAATAGATCGATCCCTTCTAAAAAAGATTCATCGATTTTT-ATAAAAAAA
11559670 A-CTTCAATC
65 AGCTTC-ATC
* * * *
11559679 A-TTCAAAATTTGCTAAAATAGATCAATCTCTTC-AAAAAAG
1 ATTTCAAAACTAGC-AAAATAGATCGATCCCTTCTAAAAAAG
11559719 GGATCAATCG
Statistics
Matches: 94, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
72 18 0.19
73 46 0.49
74 30 0.32
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (73 bp):
ATTTCAAAACTAGCAAAATAGATCGATCCCTTCTAAAAAAGATTCATCGATTTTTATAAAAAAAA
GCTTCATC
Found at i:11562226 original size:28 final size:28
Alignment explanation
Indices: 11562194--11562249 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
11562184 TGATGCAGTG
*
11562194 AAAGTAACTGGAACATTATTAGCTGTAA
1 AAAGTAACCGGAACATTATTAGCTGTAA
* *
11562222 AAAGTACCCGGAATATTATTAGCTGTAA
1 AAAGTAACCGGAACATTATTAGCTGTAA
11562250 GAAATTCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (28 bp):
AAAGTAACCGGAACATTATTAGCTGTAA
Found at i:11563328 original size:92 final size:92
Alignment explanation
Indices: 11563163--11563347 Score: 280
Period size: 92 Copynumber: 2.0 Consensus size: 92
11563153 CACCCATTCA
* ** * *
11563163 GGCAGCTGGAAAGCCTCCCAGGTGTTGAATTTGGGACTCCTCTCTGTATCTTCATGATTGGTTGC
1 GGCAGCTAGAAAGCCTCCCAAATGTTGAATTTGGGACTCCTCTCTGTATCTTCATGATTGGCTAC
* *
11563228 ATTACTATTTTCGAATATTGGAGTTTT
66 ATTACTATTTTCCAAGATTGGAGTTTT
*
11563255 GGCAGCTAGAAAGCCTCCCAAATGTTGAATTTTGGACTCCTCTCTGTATCTTCATGATTGGCTAC
1 GGCAGCTAGAAAGCCTCCCAAATGTTGAATTTGGGACTCCTCTCTGTATCTTCATGATTGGCTAC
* *
11563320 ATTTCTATTTTCCAAGCTTGGAGTTTT
66 ATTACTATTTTCCAAGATTGGAGTTTT
11563347 G
1 G
11563348 TTTATCATAT
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 83 1.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (92 bp):
GGCAGCTAGAAAGCCTCCCAAATGTTGAATTTGGGACTCCTCTCTGTATCTTCATGATTGGCTAC
ATTACTATTTTCCAAGATTGGAGTTTT
Found at i:11565675 original size:29 final size:29
Alignment explanation
Indices: 11565635--11565694 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
11565625 AGACCATAAT
* *
11565635 AAAATATTTAATAT-GATATTTGAATTTTA
1 AAAATATTTAATATAG-TATTTAAATTATA
11565664 AAAAT-TTATAATATAGTATTTAAATTATA
1 AAAATATT-TAATATAGTATTTAAATTATA
11565693 AA
1 AA
11565695 TTTGTTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 2 0.07
29 24 0.89
30 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (29 bp):
AAAATATTTAATATAGTATTTAAATTATA
Found at i:11572763 original size:41 final size:40
Alignment explanation
Indices: 11572716--11572793 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 40
11572706 TTTTTTTAAT
*
11572716 TTAAAATATTAATTTA-A-TAAAAATATTATATTTATGTATAA
1 TTAAAATA-TAATTTATATTAAAAA-ATAATATTT-TGTATAA
11572757 TTAAAATATAATTTATATTAAAAAATAATATTTTGTA
1 TTAAAATATAATTTATATTAAAAAATAATATTTTGTA
11572794 AATATTATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
40 11 0.32
41 17 0.50
42 6 0.18
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (40 bp):
TTAAAATATAATTTATATTAAAAAATAATATTTTGTATAA
Found at i:11573263 original size:8 final size:8
Alignment explanation
Indices: 11573252--11573292 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
11573242 AATTTATTTA
11573252 TATATATT
1 TATATATT
11573260 TATATGA-T
1 TATAT-ATT
11573268 TATATATT
1 TATATATT
*
11573276 TAAATATT
1 TATATATT
11573284 TATAT-TT
1 TATATATT
11573291 TA
1 TA
11573293 AAAAATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
7 5 0.17
8 23 0.79
9 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (8 bp):
TATATATT
Found at i:11573476 original size:21 final size:20
Alignment explanation
Indices: 11573452--11573491 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
11573442 TTAAAATGAT
11573452 AATTTAATTATTAATATTTTA
1 AATTTAATTATTAA-ATTTTA
*
11573473 AATTTAGTTATTAAATTTT
1 AATTTAATTATTAAATTTT
11573492 CAATAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
AATTTAATTATTAAATTTTA
Found at i:11575665 original size:24 final size:25
Alignment explanation
Indices: 11575618--11575687 Score: 70
Period size: 28 Copynumber: 2.6 Consensus size: 25
11575608 TATCAAATAA
*
11575618 ATAATTAAAATTATTTGTTTATTAT
1 ATAATTAAAATTATTTATTTATTAT
*
11575643 ATAATTATAAATTTTATTTATTATATTAA
1 ATAATTA-AAA--TTATTTATT-TATTAT
11575672 ATTAA-TAAAATTATTT
1 A-TAATTAAAATTATTT
11575688 CAAAAATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
25 7 0.18
26 9 0.24
28 11 0.29
29 8 0.21
30 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (25 bp):
ATAATTAAAATTATTTATTTATTAT
Found at i:11575685 original size:26 final size:24
Alignment explanation
Indices: 11575618--11575687 Score: 63
Period size: 26 Copynumber: 2.8 Consensus size: 24
11575608 TATCAAATAA
*
11575618 ATAATTA-AAATTATTTGTTTATTAT
1 ATAATTATAAA-TA-TTATTTATTAT
*
11575643 ATAATTATAAATTTTATTTATTAT
1 ATAATTATAAATATTATTTATTAT
11575667 ATTAAATTAATAAA-ATTATTT
1 A-T-AATT-ATAAATATTATTT
11575688 CAAAAATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
24 11 0.29
25 9 0.24
26 13 0.34
27 5 0.13
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (24 bp):
ATAATTATAAATATTATTTATTAT
Found at i:11575760 original size:12 final size:12
Alignment explanation
Indices: 11575743--11575767 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11575733 GCAAAAGTTA
11575743 ATTTCCAAGAAC
1 ATTTCCAAGAAC
11575755 ATTTCCAAGAAC
1 ATTTCCAAGAAC
11575767 A
1 A
11575768 CTATAATCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (12 bp):
ATTTCCAAGAAC
Found at i:11577227 original size:140 final size:141
Alignment explanation
Indices: 11577060--11577358 Score: 485
Period size: 144 Copynumber: 2.1 Consensus size: 141
11577050 TAAAACGTAA
11577060 AAAAAAAAAACAAAAAAAAGCTTTGAAAAGTTAGCAAAAAAGTTTTGAAAAGTCCAACAAATCTT
1 AAAAAAAAAA-AAAAAAAAGCTTTGAAAAGTTAGCAAAAAAGTTTTGAAAAGTCCAACAAATCTT
* * *
11577125 GGAAAAGTT-AAA-AAAGAAAATTGAAAAGTATTAAAAATATCTTTAAAAAGTCGAAAAAAAAGA
65 GAAAAAGTTAAAAGAAAGAAAATTGAAAAATATTAAAAATATCTTTAAAAAGTCCAAAAAAAAGA
11577188 TATTTTGAACTC
130 TATTTTGAACTC
** *
11577200 AAATAAAAAAAAAAAAGTAGCTTTGAAAAGTTAGCAAAAAAGTTTTGAAAAGTCCAACAAATTTT
1 AAA-AAAAAAAAAAAAAAAGCTTTGAAAAGTTAGCAAAAAAGTTTTGAAAAGTCCAACAAATCTT
11577265 GAAAAAGTTAAAAAAGAAAGAAAATTGAAAAATATTAAAAATATCTTTAAAAAGTCCAAAAAAAA
65 GAAAAAGTT--AAAAGAAAGAAAATTGAAAAATATTAAAAATATCTTTAAAAAGTCCAAAAAAAA
11577330 GATATTTTGAACTC
128 GATATTTTGAACTC
*
11577344 ACAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAA
11577359 TCGGCTGGTC
Statistics
Matches: 147, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
140 62 0.42
141 7 0.05
143 15 0.10
144 63 0.43
ACGTcount: A:0.59, C:0.07, G:0.11, T:0.22
Consensus pattern (141 bp):
AAAAAAAAAAAAAAAAAAGCTTTGAAAAGTTAGCAAAAAAGTTTTGAAAAGTCCAACAAATCTTG
AAAAAGTTAAAAGAAAGAAAATTGAAAAATATTAAAAATATCTTTAAAAAGTCCAAAAAAAAGAT
ATTTTGAACTC
Found at i:11577229 original size:77 final size:75
Alignment explanation
Indices: 11577134--11577358 Score: 204
Period size: 77 Copynumber: 3.1 Consensus size: 75
11577124 TGGAAAAGTT
11577134 AAAAAAGAAAATTGAAAAGTATTAAAAATATCTTTAAAAAGTCGAAAAAAAAGATATTTTGAACT
1 AAAAAAGAAAATTGAAAAGTATTAAAAATATCTTTAAAAAGTC-AAAAAAAAGATATTTTGAACT
11577199 CAAATAAAAAA
65 CAAATAAAAAA
*** ** * * *
11577210 AAAAAAGTAGCTTTGAAAAGTTAGCAAAAA-AGT-TTTGAAAAGTC---CAACA-A-ATTTTGAA
1 AAAAAAG-AAAATTGAAAAG-TATTAAAAATA-TCTTTAAAAAGTCAAAAAAAAGATATTTTGAA
*
11577268 ---AAAGT-TAAAA
63 CTCAAA-TAAAAAA
* *
11577278 AAGAAAGAAAATTGAAAAATATTAAAAATATCTTTAAAAAGTCCAAAAAAAAGATATTTTGAACT
1 AAAAAAGAAAATTGAAAAGTATTAAAAATATCTTTAAAAAGT-CAAAAAAAAGATATTTTGAACT
*
11577343 CACA-AAAAAA
65 CAAATAAAAAA
11577353 AAAAAA
1 AAAAAA
11577359 TCGGCTGGTC
Statistics
Matches: 111, Mismatches: 22, Indels: 33
0.67 0.13 0.20
Matches are distributed among these distances:
66 8 0.07
67 18 0.16
68 14 0.13
69 1 0.01
71 11 0.10
72 2 0.02
73 11 0.10
75 9 0.08
76 9 0.08
77 20 0.18
78 8 0.07
ACGTcount: A:0.60, C:0.07, G:0.10, T:0.23
Consensus pattern (75 bp):
AAAAAAGAAAATTGAAAAGTATTAAAAATATCTTTAAAAAGTCAAAAAAAAGATATTTTGAACTC
AAATAAAAAA
Found at i:11585048 original size:8 final size:8
Alignment explanation
Indices: 11584988--11585133 Score: 58
Period size: 8 Copynumber: 18.5 Consensus size: 8
11584978 AAAATTTTTG
11584988 AAACCTTA
1 AAACCTTA
*
11584996 AAATC-T-
1 AAACCTTA
*
11585002 AAATCTTA
1 AAACCTTA
11585010 AAACCCTTCA
1 AAA-CCTT-A
*
11585020 AATCC-TA
1 AAACCTTA
*
11585027 AAACTCTCA
1 AAAC-CTTA
11585036 AAACCTTA
1 AAACCTTA
*
11585044 AAACCTCA
1 AAACCTTA
*
11585052 AACCCTTA
1 AAACCTTA
11585060 AAA-CTCTA
1 AAACCT-TA
11585068 AAA-CTCTA
1 AAACCT-TA
*
11585076 AATA-CTCA
1 AA-ACCTTA
11585084 AAACCTT-
1 AAACCTTA
*
11585091 AAATCTTCA
1 AAACCTT-A
*
11585100 AAA-CTCA
1 AAACCTTA
*
11585107 AAACCCTA
1 AAACCTTA
*
11585115 AAA-CTAA
1 AAACCTTA
*
11585122 AAACCTTG
1 AAACCTTA
11585130 AAAC
1 AAAC
11585134 TTCAAAATCC
Statistics
Matches: 105, Mismatches: 20, Indels: 26
0.70 0.13 0.17
Matches are distributed among these distances:
6 5 0.05
7 24 0.23
8 57 0.54
9 16 0.15
10 3 0.03
ACGTcount: A:0.49, C:0.27, G:0.01, T:0.23
Consensus pattern (8 bp):
AAACCTTA
Found at i:11585051 original size:16 final size:16
Alignment explanation
Indices: 11584988--11585103 Score: 82
Period size: 16 Copynumber: 7.2 Consensus size: 16
11584978 AAAATTTTTG
*
11584988 AAACCTTAAAA--TCT
1 AAACCTTAAAACCTCA
*
11585002 AAATCTTAAAACCCTTCA
1 AAACCTTAAAA-CC-TCA
*
11585020 AATCC-TAAAACTCTCA
1 AAACCTTAAAAC-CTCA
11585036 AAACCTTAAAACCTCA
1 AAACCTTAAAACCTCA
*
11585052 AACCCTTAAAA-CTCTA
1 AAACCTTAAAACCTC-A
11585068 AAA-CTCTAAATA-CTCA
1 AAACCT-TAAA-ACCTCA
* *
11585084 AAACCTTAAATCTTCA
1 AAACCTTAAAACCTCA
11585100 AAAC
1 AAAC
11585104 TCAAAACCCT
Statistics
Matches: 82, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
14 10 0.12
15 5 0.06
16 44 0.54
17 18 0.22
18 5 0.06
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (16 bp):
AAACCTTAAAACCTCA
Found at i:11585071 original size:32 final size:31
Alignment explanation
Indices: 11584988--11585111 Score: 112
Period size: 32 Copynumber: 3.9 Consensus size: 31
11584978 AAAATTTTTG
*
11584988 AAACCTTAAAA-TCTAAATCTTAAAACCCTTCA
1 AAACCTTAAAACTCTAAAACTTAAAA-CC-TCA
*
11585020 AATCC-TAAAACTCTCAAAACCTTAAAACCTCA
1 AAACCTTAAAACTCT-AAAA-CTTAAAACCTCA
*
11585052 AACCCTTAAAACTCTAAAACTCTAAATA-CTCA
1 AAACCTTAAAACTCTAAAACT-TAAA-ACCTCA
* *
11585084 AAACCTTAAATCT-TCAAAACTCAAAACC
1 AAACCTTAAAACTCT-AAAACTTAAAACC
11585112 CTAAAACTAA
Statistics
Matches: 78, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
30 1 0.01
31 12 0.15
32 43 0.55
33 15 0.19
34 7 0.09
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (31 bp):
AAACCTTAAAACTCTAAAACTTAAAACCTCA
Found at i:11585082 original size:9 final size:8
Alignment explanation
Indices: 11585024--11585119 Score: 60
Period size: 8 Copynumber: 12.0 Consensus size: 8
11585014 CCTTCAAATC
11585024 CTAAAACT
1 CTAAAACT
11585032 CTCAAAAC-
1 CT-AAAACT
11585040 CTTAAAAC-
1 C-TAAAACT
* *
11585048 CTCAAACC
1 CTAAAACT
11585056 CTTAAAACT
1 C-TAAAACT
11585065 CTAAAACT
1 CTAAAACT
11585073 CTAAATACT
1 CTAAA-ACT
11585082 C-AAAAC-
1 CTAAAACT
*
11585088 CTTAAA-T
1 CTAAAACT
11585095 CTTCAAAACT
1 C-T-AAAACT
*
11585105 C-AAAACC
1 CTAAAACT
11585112 CTAAAACT
1 CTAAAACT
11585120 AAAAACCTTG
Statistics
Matches: 70, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
6 1 0.01
7 17 0.24
8 31 0.44
9 19 0.27
10 2 0.03
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (8 bp):
CTAAAACT
Found at i:11585119 original size:15 final size:15
Alignment explanation
Indices: 11585032--11585187 Score: 84
Period size: 15 Copynumber: 9.6 Consensus size: 15
11585022 TCCTAAAACT
*
11585032 CTCAAAACCTTAAAA
1 CTCAAAACCCTAAAA
11585047 CCTC-AAACCCTTAAAA
1 -CTCAAAACCC-TAAAA
*
11585063 CTCTAAAACTCTAAATA
1 CTC-AAAACCCTAAA-A
11585080 CTCAAAACCTTAAATCTTCAAAA
1 CTCAAAACC------C-T-AAAA
11585103 CTCAAAACCCTAAAA
1 CTCAAAACCCTAAAA
* * *
11585118 CTAAAAACCTTGAAA
1 CTCAAAACCCTAAAA
11585133 CTTCAAAATCCC-AAAA
1 C-TCAAAA-CCCTAAAA
*
11585149 C-CAAAATCCTAAAA
1 CTCAAAACCCTAAAA
*
11585163 CCCAAAACCCTAAAA
1 CTCAAAACCCTAAAA
*
11585178 TCTCGAAACC
1 -CTCAAAACC
11585188 TTCAAATGAG
Statistics
Matches: 110, Mismatches: 13, Indels: 34
0.70 0.08 0.22
Matches are distributed among these distances:
13 2 0.02
14 10 0.09
15 37 0.34
16 34 0.31
17 12 0.11
22 1 0.01
23 11 0.10
24 3 0.03
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.19
Consensus pattern (15 bp):
CTCAAAACCCTAAAA
Found at i:11585155 original size:14 final size:15
Alignment explanation
Indices: 11585136--11585169 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
11585126 CTTGAAACTT
11585136 CAAAATCCCAAAA-C
1 CAAAATCCCAAAACC
*
11585150 CAAAATCCTAAAACC
1 CAAAATCCCAAAACC
11585165 CAAAA
1 CAAAA
11585170 CCCTAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.59, C:0.32, G:0.00, T:0.09
Consensus pattern (15 bp):
CAAAATCCCAAAACC
Found at i:11585164 original size:38 final size:38
Alignment explanation
Indices: 11585067--11585150 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 38
11585057 TTAAAACTCT
* * *
11585067 AAAACTCTAAATACTCAAAACCTTAAATCTTCAAAACTC
1 AAAACCCTAAA-ACTAAAAACCTTAAATCTTCAAAACCC
11585106 AAAACCCTAAAACTAAAAACCTTGAAA-CTTCAAAATCCC
1 AAAACCCTAAAACTAAAAACCTT-AAATCTTCAAAA-CCC
11585145 AAAACC
1 AAAACC
11585151 AAAATCCTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
38 19 0.47
39 21 0.52
ACGTcount: A:0.51, C:0.27, G:0.01, T:0.20
Consensus pattern (38 bp):
AAAACCCTAAAACTAAAAACCTTAAATCTTCAAAACCC
Found at i:11586422 original size:26 final size:25
Alignment explanation
Indices: 11586393--11586442 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
11586383 CAATTGTTGG
*
11586393 ATTTAATTGGTTTTATTTTATATTTA
1 ATTTAATTGCTTTTATTTTA-ATTTA
*
11586419 ATTTAATTTCTTTTATTTTAATTT
1 ATTTAATTGCTTTTATTTTAATTT
11586443 TTCAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (25 bp):
ATTTAATTGCTTTTATTTTAATTTA
Found at i:11591196 original size:19 final size:20
Alignment explanation
Indices: 11591167--11591204 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
11591157 CAACAAAACA
*
11591167 AAAACAGAAAAAGGAAAGAG
1 AAAACAGAAAAAAGAAAGAG
11591187 AAAA-AGAAAAAAGAAAGA
1 AAAACAGAAAAAAGAAAGA
11591205 AACGAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAACAGAAAAAAGAAAGAG
Found at i:11591325 original size:15 final size:17
Alignment explanation
Indices: 11591305--11591336 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
11591295 AAAAGGACAG
11591305 AGAAAAG-CCAA-AATT
1 AGAAAAGACCAATAATT
11591320 AGAAAAGACCAATAATT
1 AGAAAAGACCAATAATT
11591337 CAAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.59, C:0.12, G:0.12, T:0.16
Consensus pattern (17 bp):
AGAAAAGACCAATAATT
Found at i:11607114 original size:22 final size:22
Alignment explanation
Indices: 11607064--11607114 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
11607054 TGTTAGGTTG
11607064 AATTAT-ATTAAATTATTATTT
1 AATTATAATTAAATTATTATTT
**
11607085 TTTATATAATT-AATTAATTATTT
1 AAT-TATAATTAAATT-ATTATTT
11607108 AATTATA
1 AATTATA
11607115 TTTTCATTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
21 1 0.04
22 11 0.48
23 11 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
AATTATAATTAAATTATTATTT
Found at i:11609211 original size:18 final size:18
Alignment explanation
Indices: 11609162--11609211 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
11609152 TAAACATAAA
*
11609162 TTATAATAT-AATAATTT
1 TTATAATATAAATATTTT
* *
11609179 TTATATTATACATATTTT
1 TTATAATATAAATATTTT
*
11609197 TTATAAAATAAATAT
1 TTATAATATAAATAT
11609212 GATATTAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TTATAATATAAATATTTT
Found at i:11614355 original size:25 final size:25
Alignment explanation
Indices: 11614326--11614376 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
11614316 AAATCAATGG
*
11614326 TAGAATTACTAATTACATGATCTTT
1 TAGAATTACTAATTACATAATCTTT
11614351 TAGAATTACTAATTACATAATCTTT
1 TAGAATTACTAATTACATAATCTTT
11614376 T
1 T
11614377 TATAAAGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (25 bp):
TAGAATTACTAATTACATAATCTTT
Found at i:11617628 original size:21 final size:21
Alignment explanation
Indices: 11617604--11617651 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
11617594 AAAACAATAG
*
11617604 CTAAAGTACTTTGAAT-TGAAT
1 CTAAA-TACTTTGAATGTAAAT
11617625 CTAACATACTTTGAATGTAAAT
1 CTAA-ATACTTTGAATGTAAAT
11617647 CTAAA
1 CTAAA
11617652 CTAAAAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (21 bp):
CTAAATACTTTGAATGTAAAT
Found at i:11625868 original size:26 final size:23
Alignment explanation
Indices: 11625846--11625898 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 23
11625836 TTATTATTTA
11625846 TTATTTATTATTTTCTATTTTA--
1 TTATTTATTA-TTTCTATTTTATT
11625868 TT-TTTA--ATTTCTATTTTATT
1 TTATTTATTATTTCTATTTTATT
11625888 TT-TTTATTATT
1 TTATTTATTATT
11625899 ACTTTATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
18 11 0.41
19 1 0.04
20 6 0.22
21 4 0.15
22 5 0.19
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (23 bp):
TTATTTATTATTTCTATTTTATT
Found at i:11625880 original size:18 final size:18
Alignment explanation
Indices: 11625846--11625890 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
11625836 TTATTATTTA
*
11625846 TTATTTATTATTTTCTATT
1 TTATTT-TTAATTTCTATT
11625865 TTATTTTTAATTTCTATT
1 TTATTTTTAATTTCTATT
11625883 TTATTTTT
1 TTATTTTT
11625891 TTATTATTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (18 bp):
TTATTTTTAATTTCTATT
Found at i:11626394 original size:29 final size:29
Alignment explanation
Indices: 11626335--11626411 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
11626325 TTCGTTCAAG
*
11626335 TTTTTTGGATTTTTGGAATTTAAGTTGAA
1 TTTTTTGGATTTTTGGAATTTAACTTGAA
*
11626364 TTTTTTGGGATTTTTGGAGTTGT-ACTT-AA
1 TTTTTT-GGATTTTTGGAATT-TAACTTGAA
11626393 -TTTTTGG-TTTTTGGAATTT
1 TTTTTTGGATTTTTGGAATTT
11626412 CTAGGATTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
25 1 0.02
26 10 0.23
27 2 0.05
28 5 0.12
29 8 0.19
30 16 0.37
31 1 0.02
ACGTcount: A:0.18, C:0.01, G:0.22, T:0.58
Consensus pattern (29 bp):
TTTTTTGGATTTTTGGAATTTAACTTGAA
Found at i:11626866 original size:20 final size:18
Alignment explanation
Indices: 11626837--11626896 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 18
11626827 CCTGTTGTAA
11626837 TTTTTATTTTTTCTTTATT
1 TTTTTATTTTTT-TTTATT
*
11626856 TTTTCTATTTTGATTTTATT
1 TTTT-TATTTT-TTTTTATT
11626876 TTTTGT-TTTTTGTTTTATT
1 TTTT-TATTTTT-TTTTATT
11626895 TT
1 TT
11626897 ACTTTCTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
19 17 0.49
20 17 0.49
21 1 0.03
ACGTcount: A:0.10, C:0.03, G:0.05, T:0.82
Consensus pattern (18 bp):
TTTTTATTTTTTTTTATT
Found at i:11626885 original size:19 final size:20
Alignment explanation
Indices: 11626840--11626896 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
11626830 GTTGTAATTT
*
11626840 TTATTTTTTCTTTATTTTTTC
1 TTATTTTGT-TTTATTTTTTC
*
11626861 -TATTTTGATTTTATTTTTTG
1 TTATTTTG-TTTTATTTTTTC
11626881 TT-TTTTGTTTTATTTT
1 TTATTTTGTTTTATTTT
11626897 ACTTTCTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 9 0.28
20 21 0.66
21 2 0.06
ACGTcount: A:0.11, C:0.04, G:0.05, T:0.81
Consensus pattern (20 bp):
TTATTTTGTTTTATTTTTTC
Found at i:11627029 original size:26 final size:26
Alignment explanation
Indices: 11626995--11627064 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 26
11626985 AGAAAGAAAC
* *
11626995 TTTTGCATGATTTTTATTATGATATT
1 TTTTGCATGATTTTTATAATGATACT
11627021 TTTTGCATGATTTTTATAATGATACT
1 TTTTGCATGATTTTTATAATGATACT
*
11627047 TATTGCATGATTTTTATA
1 TTTTGCATGATTTTTATA
11627065 TTTATTACAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.26, C:0.06, G:0.11, T:0.57
Consensus pattern (26 bp):
TTTTGCATGATTTTTATAATGATACT
Found at i:11627063 original size:14 final size:14
Alignment explanation
Indices: 11626997--11627063 Score: 63
Period size: 14 Copynumber: 5.1 Consensus size: 14
11626987 AAAGAAACTT
11626997 TTGCATGATTTTTA
1 TTGCATGATTTTTA
11627011 TT--ATGATATTTT-
1 TTGCATGAT-TTTTA
11627023 TTGCATGATTTTTA
1 TTGCATGATTTTTA
* **
11627037 -T-AATGATACTTA
1 TTGCATGATTTTTA
11627049 TTGCATGATTTTTA
1 TTGCATGATTTTTA
11627063 T
1 T
11627064 ATTTATTACA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
12 15 0.37
13 10 0.24
14 16 0.39
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.57
Consensus pattern (14 bp):
TTGCATGATTTTTA
Found at i:11627089 original size:46 final size:45
Alignment explanation
Indices: 11627016--11627102 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 45
11627006 TTTTATTATG
* * *
11627016 ATATTTTTTGCATGATTTTTATAATGATACT-TATTGCATGATTTTT
1 ATATTTATTACATGATTTGTATAATGATA-TAT-TTGCATGATTTTT
*
11627062 ATATTTATTACATGATTTGTATTATGATATATTTGCATGAT
1 ATATTTATTACATGATTTGTATAATGATATATTTGCATGAT
11627103 ACTTTGCATG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 10 0.28
46 26 0.72
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (45 bp):
ATATTTATTACATGATTTGTATAATGATATATTTGCATGATTTTT
Found at i:11627155 original size:13 final size:13
Alignment explanation
Indices: 11627137--11627164 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11627127 TTGCATAATT
11627137 ATGATATTTTTGC
1 ATGATATTTTTGC
11627150 ATGATATTTTTGC
1 ATGATATTTTTGC
11627163 AT
1 AT
11627165 AGATTTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.07, G:0.14, T:0.54
Consensus pattern (13 bp):
ATGATATTTTTGC
Found at i:11627183 original size:32 final size:32
Alignment explanation
Indices: 11627122--11627196 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 32
11627112 GGATTTTATT
* *
11627122 TATTTTTGCATAATTATGATATTTTTGCATGA
1 TATTTTTGCATAATTATCATATTTATGCATGA
11627154 TATTTTTGCATAGATT-TCAT-TTATATGCATGA
1 TATTTTTGCATA-ATTATCATATT-TATGCATGA
* *
11627186 TGTTTGTGCAT
1 TATTTTTGCAT
11627197 GTTTTCTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 2 0.05
32 32 0.86
33 3 0.08
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.52
Consensus pattern (32 bp):
TATTTTTGCATAATTATCATATTTATGCATGA
Found at i:11628124 original size:14 final size:14
Alignment explanation
Indices: 11628105--11628144 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
11628095 AATTTATCCA
11628105 GAAATATAAAATAC
1 GAAATATAAAATAC
11628119 GAAATAT-AAATAC
1 GAAATATAAAATAC
* *
11628132 AAAATACAAAATA
1 GAAATATAAAATA
11628145 TAATAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (14 bp):
GAAATATAAAATAC
Found at i:11628135 original size:20 final size:20
Alignment explanation
Indices: 11628106--11628156 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
11628096 ATTTATCCAG
* *
11628106 AAATATAAAATACGAAATAT
1 AAATAAAAAATACAAAATAT
*
11628126 AAATACAAAATACAAAATAT
1 AAATAAAAAATACAAAATAT
11628146 -AATAAAAAATA
1 AAATAAAAAATA
11628157 TACCAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.22
Consensus pattern (20 bp):
AAATAAAAAATACAAAATAT
Found at i:11628171 original size:12 final size:11
Alignment explanation
Indices: 11628134--11628175 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
11628124 ATAAATACAA
11628134 AATACAAAATAT
1 AATACAAAA-AT
11628146 AATA-AAAAAT
1 AATACAAAAAT
11628156 -ATACCAAAAAT
1 AATA-CAAAAAT
11628167 AATACAAAA
1 AATACAAAA
11628176 TGCAAAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
9 3 0.11
10 2 0.07
11 15 0.56
12 7 0.26
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (11 bp):
AATACAAAAAT
Found at i:11632309 original size:12 final size:12
Alignment explanation
Indices: 11632292--11632316 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11632282 AAAAATGAAG
11632292 AATTGCAAGAAA
1 AATTGCAAGAAA
11632304 AATTGCAAGAAA
1 AATTGCAAGAAA
11632316 A
1 A
11632317 TGAATAAGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.16, T:0.16
Consensus pattern (12 bp):
AATTGCAAGAAA
Found at i:11639232 original size:27 final size:28
Alignment explanation
Indices: 11639187--11639249 Score: 92
Period size: 27 Copynumber: 2.2 Consensus size: 28
11639177 GATTGAACCT
*
11639187 ATTACTCTAAAGGCTTCAAATGAGCATCG
1 ATTA-TCTAAAGGCTTCAAATGAGCATCA
*
11639216 ATTATCTAAA-GCTTCAAATGGGCATCA
1 ATTATCTAAAGGCTTCAAATGAGCATCA
11639243 ATTATCT
1 ATTATCT
11639250 TTGTGATGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.69
28 6 0.19
29 4 0.12
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (28 bp):
ATTATCTAAAGGCTTCAAATGAGCATCA
Found at i:11640058 original size:9 final size:9
Alignment explanation
Indices: 11640046--11640094 Score: 75
Period size: 9 Copynumber: 5.7 Consensus size: 9
11640036 AAAAAGAAGA
11640046 AAAAAAGTG
1 AAAAAAGTG
11640055 -AAAAAGTG
1 AAAAAAGTG
*
11640063 AAAAAGGTG
1 AAAAAAGTG
11640072 AAAAAAGTG
1 AAAAAAGTG
11640081 AAAAAA-TG
1 AAAAAAGTG
11640089 AAAAAA
1 AAAAAA
11640095 AAAAAAGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
8 16 0.43
9 21 0.57
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.10
Consensus pattern (9 bp):
AAAAAAGTG
Done.