Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold212
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: 1080337
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 7 of 10
Found at i:739956 original size:5 final size:5
Alignment explanation
Indices: 739939--739998 Score: 52
Period size: 5 Copynumber: 12.0 Consensus size: 5
739929 TTTATATTCG
* ** *
739939 TTAAT TATAAT TTAATT TTAAA AAAAT -TAA- TTAAT TTAAT TCAAT TTAAT
1 TTAAT T-TAAT TTAA-T TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT
739989 TTAAT TTAAT
1 TTAAT TTAAT
739999 AAAAAAATTA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
4 5 0.11
5 29 0.66
6 10 0.23
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (5 bp):
TTAAT
Found at i:740060 original size:16 final size:16
Alignment explanation
Indices: 740048--740092 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
740038 CAATAATCTG
*
740048 AATTTAAAATAATTTA
1 AATTTAAAATAATATA
*
740064 AATATAAAATAATATA
1 AATTTAAAATAATATA
740080 AATTTAAAATAAT
1 AATTTAAAATAAT
740093 TAATATGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTTAAAATAATATA
Found at i:740097 original size:23 final size:22
Alignment explanation
Indices: 740058--740111 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 22
740048 AATTTAAAAT
740058 AATTTAAATATAAAATAAT-ATA
1 AATTTAAATATAAAAT-ATGATA
740080 AATTTAAA-ATAATTAATATGATA
1 AATTTAAATATAA--AATATGATA
740103 AATTTAAAT
1 AATTTAAAT
740112 GTTAACCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 4 0.14
22 10 0.36
23 14 0.50
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
AATTTAAATATAAAATATGATA
Found at i:740202 original size:15 final size:16
Alignment explanation
Indices: 740182--740214 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
740172 AGTGAAATAT
740182 AAAATAA-TTTAATTC
1 AAAATAACTTTAATTC
740197 AAAATAACTTTTAATTC
1 AAAATAAC-TTTAATTC
740214 A
1 A
740215 CTTAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAATAACTTTAATTC
Found at i:740444 original size:27 final size:27
Alignment explanation
Indices: 740427--740484 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
740417 ATTAATTTTT
*
740427 AATACATTAATTTTTTAATGTTATTCA
1 AATACATTAATTTTTTAATGTAATTCA
* *
740454 AATACATTAATTTTTTAATGTTATTTA
1 AATACATTAATTTTTTAATGTAATTCA
740481 AATA
1 AATA
740485 TATTTATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (27 bp):
AATACATTAATTTTTTAATGTAATTCA
Found at i:741095 original size:3 final size:3
Alignment explanation
Indices: 741087--741116 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
741077 AATACTCCAT
741087 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
741117 TTTTTGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:741538 original size:20 final size:21
Alignment explanation
Indices: 741513--741552 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
741503 AATAAAAAAA
741513 ATAT-TTTTAT-ATT-AATTT
1 ATATATTTTATAATTAAATTT
741531 ATATATTTTATAATTAAATTT
1 ATATATTTTATAATTAAATTT
741552 A
1 A
741553 AATAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 6 0.32
20 3 0.16
21 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:742007 original size:19 final size:18
Alignment explanation
Indices: 741985--742052 Score: 58
Period size: 15 Copynumber: 4.0 Consensus size: 18
741975 TTAAATTTTA
741985 AAAAAATAATTAATTT-AT
1 AAAAAAT-ATTAATTTAAT
*
742003 -TAAAAT-TTAATTTAAT
1 AAAAAATATTAATTTAAT
742019 AAAAAATTATTAA-TT--T
1 AAAAAA-TATTAATTTAAT
*
742035 AAAAATTATTAATTTAAT
1 AAAAAATATTAATTTAAT
742053 TTAAAATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
15 13 0.32
16 10 0.25
17 9 0.22
18 4 0.10
19 4 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAAAATATTAATTTAAT
Found at i:742038 original size:15 final size:15
Alignment explanation
Indices: 742020--742051 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
742010 TAATTTAATA
742020 AAAAATTATTAATTT
1 AAAAATTATTAATTT
742035 AAAAATTATTAATTT
1 AAAAATTATTAATTT
742050 AA
1 AA
742052 TTTAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AAAAATTATTAATTT
Found at i:742047 original size:34 final size:33
Alignment explanation
Indices: 741985--742110 Score: 111
Period size: 34 Copynumber: 3.8 Consensus size: 33
741975 TTAAATTTTA
*
741985 AAAAAATAATTAATTTATTAAAATTTAATTTAA-T
1 AAAAAATTATTAATTTA--AAAATTTAATTTAATT
742019 AAAAAATTATTAATTTAAAAATTATTAATTTAATTT
1 AAAAAATTATTAATTTAAAAA-T-TTAATTTAA-TT
* *
742055 AAAATAATT-TAAATTT-AAAA--TAATTTAAAT
1 AAAA-AATTATTAATTTAAAAATTTAATTTAATT
*
742085 -AAAAATAATTAATTTAATAAATTTAA
1 AAAAAATTATTAATTTAA-AAATTTAA
742111 GTATTAAACA
Statistics
Matches: 77, Mismatches: 5, Indels: 21
0.75 0.05 0.20
Matches are distributed among these distances:
28 3 0.04
29 9 0.12
30 2 0.03
31 11 0.14
32 4 0.05
33 4 0.05
34 25 0.32
35 4 0.05
36 11 0.14
37 4 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (33 bp):
AAAAAATTATTAATTTAAAAATTTAATTTAATT
Found at i:742062 original size:15 final size:15
Alignment explanation
Indices: 742044--742239 Score: 123
Period size: 15 Copynumber: 12.4 Consensus size: 15
742034 TAAAAATTAT
742044 TAATTTAATTTAAAA
1 TAATTTAATTTAAAA
742059 TAATTTAAATTTAAAA
1 TAATTT-AATTTAAAA
* *
742075 TAATTTAAATAAAAA
1 TAATTTAATTTAAAA
*
742090 TAA-TTAATTTAATA
1 TAATTTAATTTAAAA
742104 -AATTTAAGTATTAAACA
1 TAATTTAA-T-TTAAA-A
*
742121 TAA-ATAATTTAAAA
1 TAATTTAATTTAAAA
742135 TTAATTAACTCAAATCTT-AAA
1 -TAATT---T--AAT-TTAAAA
*
742156 TGATATTT-ACTTAAAA
1 T-A-ATTTAATTTAAAA
742172 TAATTTAAATTTAAAA
1 TAATTT-AATTTAAAA
*
742188 TAATTTAAAATTAAAA
1 TAATTT-AATTTAAAA
* *
742204 TAATTTAAATAAAAA
1 TAATTTAATTTAAAA
* * *
742219 TAAATTAACTCAAAA
1 TAATTTAATTTAAAA
742234 TAATTT
1 TAATTT
742240 TTAATTCACT
Statistics
Matches: 146, Mismatches: 16, Indels: 38
0.73 0.08 0.19
Matches are distributed among these distances:
13 2 0.01
14 17 0.12
15 53 0.36
16 53 0.36
17 4 0.03
18 2 0.01
19 2 0.01
20 1 0.01
21 7 0.05
22 5 0.03
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.40
Consensus pattern (15 bp):
TAATTTAATTTAAAA
Found at i:742071 original size:16 final size:16
Alignment explanation
Indices: 742044--742239 Score: 128
Period size: 16 Copynumber: 12.4 Consensus size: 16
742034 TAAAAATTAT
742044 TAATTT-AATTTAAAA
1 TAATTTAAATTTAAAA
742059 TAATTTAAATTTAAAA
1 TAATTTAAATTTAAAA
*
742075 TAATTTAAA-TAAAAA
1 TAATTTAAATTTAAAA
*
742090 TAA-TT-AATTTAATA
1 TAATTTAAATTTAAAA
*
742104 -AATTTAAGTATTAAACA
1 TAATTTAAAT-TTAAA-A
*
742121 TAA-AT-AATTTAAAA
1 TAATTTAAATTTAAAA
742135 TTAATTAACTCAAATCTT-AAA
1 -TAATT---T-AAAT-TTAAAA
*
742156 TGATATTT--ACTTAAAA
1 T-A-ATTTAAATTTAAAA
742172 TAATTTAAATTTAAAA
1 TAATTTAAATTTAAAA
*
742188 TAATTTAAAATTAAAA
1 TAATTTAAATTTAAAA
*
742204 TAATTTAAA-TAAAAA
1 TAATTTAAATTTAAAA
* * *
742219 TAAATT-AACTCAAAA
1 TAATTTAAATTTAAAA
742234 TAATTT
1 TAATTT
742240 TTAATTCACT
Statistics
Matches: 145, Mismatches: 15, Indels: 42
0.72 0.07 0.21
Matches are distributed among these distances:
13 4 0.03
14 15 0.10
15 47 0.32
16 60 0.41
17 2 0.01
18 2 0.01
19 2 0.01
20 1 0.01
21 7 0.05
22 5 0.03
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.40
Consensus pattern (16 bp):
TAATTTAAATTTAAAA
Found at i:742368 original size:51 final size:51
Alignment explanation
Indices: 742277--742374 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 51
742267 TAATACGTAT
*
742277 TAATTATAAAAAAATAAAATAATATAAATATCATAATATTTTAATTTTATA
1 TAATTATAAAAAAATAAAATAATATAAATATCATAATATTTCAATTTTATA
* * * * * *
742328 TAATTTTAAAAAATTAAAATAATATTATTATCGTATTATTTCAATTT
1 TAATTATAAAAAAATAAAATAATATAAATATCATAATATTTCAATTT
742375 ATAACAATCT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (51 bp):
TAATTATAAAAAAATAAAATAATATAAATATCATAATATTTCAATTTTATA
Found at i:743041 original size:19 final size:18
Alignment explanation
Indices: 743005--743043 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
742995 TGTATATATA
**
743005 TTTATATCTATTTTATTT
1 TTTATATCTATTAAATTT
743023 TTTATATCATATTAAATTT
1 TTTATATC-TATTAAATTT
743042 TT
1 TT
743044 AATTATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATATCTATTAAATTT
Found at i:743721 original size:18 final size:20
Alignment explanation
Indices: 743689--743727 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
743679 TATTTAAAAT
*
743689 TATTAAAAATATTATTTTTA
1 TATTAAAAATATTATATTTA
743709 TATT-AAAAT-TTATATTTA
1 TATTAAAAATATTATATTTA
743727 T
1 T
743728 TTATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 5 0.28
20 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTAAAAATATTATATTTA
Found at i:744349 original size:2 final size:2
Alignment explanation
Indices: 744342--744388 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
744332 AGTACTTGCA
744342 AT AT AT AT AT AT AT AT AT 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
744384 AT AT A
1 AT AT A
744389 ATGCCATTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:744750 original size:5 final size:5
Alignment explanation
Indices: 744732--744766 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
744722 AACAAATATT
744732 TTTAA TTTAAAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTT--AA TTTAA TTTAA TTTAA TTTAA TTT
744767 GTTGGGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 23 0.82
7 5 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:745420 original size:16 final size:16
Alignment explanation
Indices: 745395--745435 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
745385 TTTTAAAAAA
*
745395 TAAATAAATTATTAAT
1 TAAATTAATTATTAAT
*
745411 TAAATTAATTTTTAAT
1 TAAATTAATTATTAAT
745427 TAAATTAAT
1 TAAATTAAT
745436 ATAACTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAAATTAATTATTAAT
Found at i:745861 original size:15 final size:15
Alignment explanation
Indices: 745791--745858 Score: 54
Period size: 14 Copynumber: 4.7 Consensus size: 15
745781 TGTGATAATT
*
745791 TTTTTAAATA-ATTA
1 TTTTTAAAAATATTA
*
745805 TTATTTAAAAAAATTA
1 TT-TTTAAAAATATTA
*
745821 TATTTT--ATATATTA
1 T-TTTTAAAAATATTA
*
745835 TTTTTAAGAATATT-
1 TTTTTAAAAATATTA
745849 TTTTTAAAAA
1 TTTTTAAAAA
745859 ATAATATATT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
13 4 0.09
14 18 0.42
15 12 0.28
16 8 0.19
17 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (15 bp):
TTTTTAAAAATATTA
Found at i:748001 original size:20 final size:18
Alignment explanation
Indices: 747958--748003 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 18
747948 TATGTATAGC
*
747958 ATATAAAAT-TTAAATAT
1 ATATAATATCTTAAATAT
747975 ATATAATATCTTAAATAT
1 ATATAATATCTTAAATAT
747993 GATTATAATAT
1 -A-TATAATAT
748004 AAAAATAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 8 0.32
18 8 0.32
19 1 0.04
20 8 0.32
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
ATATAATATCTTAAATAT
Found at i:752933 original size:20 final size:20
Alignment explanation
Indices: 752910--752976 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
752900 TTTATTTATT
752910 TATTTAAATAAAATTTTAAA
1 TATTTAAATAAAATTTTAAA
* *
752930 TATTTATAA-ATAATTTT-TA
1 TATTTA-AATAAAATTTTAAA
*
752949 -ATTTAAAT-AAATATTAAA
1 TATTTAAATAAAATTTTAAA
752967 TATATTAAAT
1 TAT-TTAAAT
752977 TATTAATAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
17 7 0.19
18 6 0.16
19 3 0.08
20 19 0.51
21 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TATTTAAATAAAATTTTAAA
Found at i:752965 original size:16 final size:16
Alignment explanation
Indices: 752926--752999 Score: 55
Period size: 16 Copynumber: 4.7 Consensus size: 16
752916 AATAAAATTT
752926 TAAATATT--TATAAA
1 TAAATATTAATATAAA
* * *
752940 TAATTTTTAATTTAAA
1 TAAATATTAATATAAA
*
752956 TAAATATTAA-ATATAT
1 TAAATATTAATATA-AA
*
752972 TAAATTATTAATAAAAA
1 TAAA-TATTAATATAAA
*
752989 TATATATTAAT
1 TAAATATTAAT
753000 TTAATATTAT
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
14 6 0.13
15 2 0.04
16 25 0.56
17 10 0.22
18 2 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAATATTAATATAAA
Found at i:755066 original size:20 final size:19
Alignment explanation
Indices: 755026--755074 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 19
755016 AATTAAATTT
755026 ATATAA-AATAAATTATTA
1 ATATAATAATAAATTATTA
755044 ATATAATAA-AAATTATATAA
1 ATATAATAATAAATTAT-T-A
755064 ATATATATAAT
1 ATATA-ATAAT
755075 TTTAAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 13 0.50
19 3 0.12
20 6 0.23
21 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATATAATAATAAATTATTA
Found at i:755999 original size:23 final size:22
Alignment explanation
Indices: 755928--756004 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
755918 ATTAAATTTG
* *
755928 TATAAAATATTTAATAATTTAAA
1 TATAATATATTTAAT-ATTTAAT
* *
755951 T-TAATATAATATAATA-ATAAT
1 TATAATAT-ATTTAATATTTAAT
*
755972 AATAATGATATTTAATATTTAAT
1 TATAAT-ATATTTAATATTTAAT
755995 TATAA-ATATT
1 TATAATATATT
756005 ATTATAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
21 8 0.19
22 17 0.40
23 17 0.40
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (22 bp):
TATAATATATTTAATATTTAAT
Found at i:756465 original size:16 final size:15
Alignment explanation
Indices: 756446--756480 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
756436 AAAATATAAA
756446 AATATAAAATAATTAT
1 AATATAAAATAA-TAT
*
756462 AATATAAAATTATAT
1 AATATAAAATAATAT
756477 AATA
1 AATA
756481 AAATTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATATAAAATAATAT
Found at i:756472 original size:13 final size:13
Alignment explanation
Indices: 756438--756487 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
756428 TTTAATAAAA
*
756438 AATATAAAAATAT
1 AATATAAAATTAT
*
756451 AA-A-ATAATTAT
1 AATATAAAATTAT
756462 AATATAAAATTAT
1 AATATAAAATTAT
756475 -ATAATAAAATTAT
1 AAT-ATAAAATTAT
756488 TTATTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 8 0.26
12 4 0.13
13 19 0.61
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATATAAAATTAT
Found at i:756536 original size:27 final size:24
Alignment explanation
Indices: 756492--756550 Score: 59
Period size: 28 Copynumber: 2.3 Consensus size: 24
756482 AATTATTTAT
756492 TTATTTT-AAAAATATAT-AATATA
1 TTATTTTAAAAAATATATAAATA-A
756515 TTATTTTAAAAAATGATTTATAAATAA
1 TTATTTTAAAAAAT-A--TATAAATAA
756542 TTACTTTTA
1 TTA-TTTTA
756551 TCATTCAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 7 0.23
24 6 0.20
25 1 0.03
27 7 0.23
28 9 0.30
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (24 bp):
TTATTTTAAAAAATATATAAATAA
Found at i:757196 original size:21 final size:21
Alignment explanation
Indices: 757159--757198 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
757149 ATTTTTTTAA
*
757159 TTAAATTAAATTGAATAAAAT
1 TTAAATTAAATTAAATAAAAT
757180 TTAAATTTAAA-TAAATAAA
1 TTAAA-TTAAATTAAATAAA
757199 TAAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
TTAAATTAAATTAAATAAAAT
Found at i:762353 original size:13 final size:15
Alignment explanation
Indices: 762325--762397 Score: 52
Period size: 13 Copynumber: 5.2 Consensus size: 15
762315 TAAATATCTT
762325 TAAATTTATATAATA
1 TAAATTTATATAATA
762340 TAAA-TTAT-TAATA
1 TAAATTTATATAATA
* *
762353 T--ATTAAAATAATA
1 TAAATTTATATAATA
762366 -AAATTATTATATAATA
1 TAAA-T-TTATATAATA
*
762382 -AAATATATA-AATA
1 TAAATTTATATAATA
762395 TAA
1 TAA
762398 TAATTAAGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 15
0.70 0.08 0.23
Matches are distributed among these distances:
11 1 0.02
12 2 0.04
13 15 0.33
14 11 0.24
15 6 0.13
16 11 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAAATTTATATAATA
Found at i:762377 original size:24 final size:25
Alignment explanation
Indices: 762334--762392 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 25
762324 TTAAATTTAT
*
762334 ATAATATAAATTATTAATATATTAAA
1 ATAATA-AAATTATTAATATAATAAA
762360 ATAATAAAATTATT-ATATAATAAA
1 ATAATAAAATTATTAATATAATAAA
762384 ATATATAAA
1 ATA-ATAAA
762393 TATAATAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
24 12 0.39
25 13 0.42
26 6 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
ATAATAAAATTATTAATATAATAAA
Found at i:762381 original size:16 final size:18
Alignment explanation
Indices: 762337--762400 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 18
762327 AATTTATATA
* *
762337 ATATAAAT-TATTAATAT
1 ATATAAATATAATAAAAT
762354 AT-TAAA-ATAATAAAAT
1 ATATAAATATAATAAAAT
*
762370 -TAT-TATATAATAAAAT
1 ATATAAATATAATAAAAT
762386 ATATAAATATAATAA
1 ATATAAATATAATAA
762401 TTAAGTATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
15 2 0.05
16 22 0.58
17 5 0.13
18 9 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATAAATATAATAAAAT
Found at i:762393 original size:24 final size:25
Alignment explanation
Indices: 762337--762393 Score: 82
Period size: 24 Copynumber: 2.3 Consensus size: 25
762327 AATTTATATA
*
762337 ATATAAATTATTAATATATTAAAAT
1 ATATAAATTATTAATATAATAAAAT
762362 A-ATAAAATTATT-ATATAATAAAAT
1 ATAT-AAATTATTAATATAATAAAAT
762386 ATATAAAT
1 ATATAAAT
762394 ATAATAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 18 0.62
25 11 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
ATATAAATTATTAATATAATAAAAT
Found at i:762627 original size:19 final size:18
Alignment explanation
Indices: 762603--762646 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
762593 AAATATCTTA
*
762603 AAAATAATTATAATAAAAT
1 AAAATAA-TATAAAAAAAT
762622 AAAAT-ATATAAAAAAAT
1 AAAATAATATAAAAAAAT
762639 ATAAATAA
1 A-AAATAA
762647 CAAAATGCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 11 0.50
18 5 0.23
19 6 0.27
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATAATATAAAAAAAT
Found at i:766224 original size:2 final size:2
Alignment explanation
Indices: 766217--766246 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
766207 GATCCTCCAG
766217 AT AT AT 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
766247 GAAAAGCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:768031 original size:23 final size:22
Alignment explanation
Indices: 767997--768040 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
767987 TAAAAGCTTT
* * *
767997 AATTTACTATAACAGTGTATGG
1 AATTTACAATAAAAATGTATGG
768019 AATTGTACAATAAAAATGTATG
1 AATT-TACAATAAAAATGTATG
768041 AAATGCAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (22 bp):
AATTTACAATAAAAATGTATGG
Found at i:768798 original size:2 final size:2
Alignment explanation
Indices: 768791--768822 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
768781 AACCACTGAC
768791 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
768823 ATACTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:770282 original size:17 final size:17
Alignment explanation
Indices: 770241--770283 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
770231 AATATAAAAT
770241 AATTAAAA-TATAATTA
1 AATTAAAATTATAATTA
* * *
770257 ATTTTAAATTATTATTA
1 AATTAAAATTATAATTA
770274 AATTAAAATT
1 AATTAAAATT
770284 TAAAGTAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTAAAATTATAATTA
Found at i:770363 original size:23 final size:23
Alignment explanation
Indices: 770321--770368 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
770311 TTTTAAATAT
770321 TTAATATATATTTATATATTAAA
1 TTAATATATATTTATATATTAAA
*
770344 TTAAT-TATATTTTTATTATTAAA
1 TTAATATATATTTATA-TATTAAA
770367 TT
1 TT
770369 TAAATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTAATATATATTTATATATTAAA
Found at i:770375 original size:22 final size:24
Alignment explanation
Indices: 770319--770378 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
770309 ATTTTTAAAT
*
770319 ATTTAATATATATTTATATATTAA
1 ATTTAATATATTTTTATATATTAA
770343 A-TTAATTATATTTTTAT-TATTAA
1 ATTTAA-TATATTTTTATATATTAA
770366 ATTTAA-ATATTTT
1 ATTTAATATATTTT
770379 CAATTACATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 7 0.21
23 11 0.33
24 15 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
ATTTAATATATTTTTATATATTAA
Found at i:770384 original size:23 final size:22
Alignment explanation
Indices: 770321--770384 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 22
770311 TTTTAAATAT
770321 TTAATATATATTT-ATATATTAAA
1 TTAATATAT-TTTAAT-TATTAAA
*
770344 TTAATTATATTTTTATTATTAAA
1 TTAA-TATATTTTAATTATTAAA
770367 TTTAA-ATATTTTCAATTA
1 -TTAATATATTTT-AATTA
770385 CATTCTCTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
22 7 0.19
23 18 0.50
24 11 0.31
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATATATTTTAATTATTAAA
Found at i:770869 original size:24 final size:24
Alignment explanation
Indices: 770825--770899 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
770815 TAATATTAAT
* *
770825 ATATATTAGTATT-AATATATTTTA
1 ATATATTA-TTTTAAATTTATTTTA
770849 ATATATTATTTTAAATTTA--TT-
1 ATATATTATTTTAAATTTATTTTA
770870 A-ATATT-TTTTAAATATTATTTTA
1 ATATATTATTTTAAAT-TTATTTTA
770893 TATATAT
1 -ATATAT
770900 AACTTATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
19 8 0.19
20 8 0.19
21 1 0.02
22 4 0.10
23 3 0.07
24 14 0.33
25 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (24 bp):
ATATATTATTTTAAATTTATTTTA
Found at i:770874 original size:20 final size:20
Alignment explanation
Indices: 770851--770889 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
770841 ATATTTTAAT
770851 ATATTATTTTAAAT-TTATTA
1 ATATT-TTTTAAATATTATTA
770871 ATATTTTTTAAATATTATT
1 ATATTTTTTAAATATTATT
770890 TTATATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATTTTTTAAATATTATTA
Found at i:770886 original size:17 final size:19
Alignment explanation
Indices: 770851--770887 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
770841 ATATTTTAAT
770851 ATATTATTTTAAATTTATTA
1 ATATTATTTTAAA-TTATTA
770871 ATATT-TTTTAAA-TATTA
1 ATATTATTTTAAATTATTA
770888 TTTTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.29
19 7 0.41
20 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATATTATTTTAAATTATTA
Found at i:770899 original size:14 final size:14
Alignment explanation
Indices: 770798--770899 Score: 54
Period size: 14 Copynumber: 7.4 Consensus size: 14
770788 TTGTCAATAA
770798 ATATATTATTTT-T
1 ATATATTATTTTAT
* *
770811 AT-TATAATATTAAT
1 ATATATTAT-TTTAT
* *
770825 ATATATTAGTAT-T
1 ATATATTATTTTAT
770838 A-ATA-TATTTTA-
1 ATATATTATTTTAT
770849 ATATATTATTTTAAAT
1 ATATATTATTTT--AT
* * *
770865 TTATTAATATTTTTT
1 ATA-TATTATTTTAT
*
770880 AAATATTATTTTAT
1 ATATATTATTTTAT
770894 ATATAT
1 ATATAT
770900 AACTTATTTT
Statistics
Matches: 63, Mismatches: 16, Indels: 19
0.64 0.16 0.19
Matches are distributed among these distances:
11 5 0.08
12 11 0.17
13 12 0.19
14 18 0.29
15 7 0.11
16 2 0.03
17 8 0.13
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (14 bp):
ATATATTATTTTAT
Found at i:770914 original size:31 final size:31
Alignment explanation
Indices: 770795--770899 Score: 97
Period size: 31 Copynumber: 3.3 Consensus size: 31
770785 ATTTTGTCAA
* *
770795 TAAATATATT-AT-TTTTATTATAATATTAATA
1 TAAATATATTAATATTTT-TTA-AATATTATTT
* *
770826 TATATTAGTATTAATATATTTTAATATATTATTT
1 TA-AATA-TATTAATATTTTTTAA-ATATTATTT
*
770860 TAAATTTATTAATATTTTTTAAATATTATTT
1 TAAATATATTAATATTTTTTAAATATTATTT
*
770891 TATATATAT
1 TAAATATAT
770900 AACTTATTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
31 18 0.30
32 18 0.30
33 7 0.12
34 14 0.23
35 3 0.05
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (31 bp):
TAAATATATTAATATTTTTTAAATATTATTT
Found at i:785751 original size:134 final size:134
Alignment explanation
Indices: 785511--785775 Score: 417
Period size: 134 Copynumber: 2.0 Consensus size: 134
785501 ATGTGTGTCA
* * *
785511 GATTTGAGTATATATTTGACATGATATGCTCAATTTTTTTCGAAGTTTTTCCATATATTTGAGTA
1 GATTTGAGTATATATCTGACATGATATACTCAATTTTTTTCCAAGTTTTTCCATATATTTGAGTA
*
785576 TCTTCCCCTCATACCTATGTCCGAATATATATTGGGCACAAGTACTTTAGGAAAAATGAAGAATC
66 TCTTCCCCTCATACCTATGTCCAAATATATATTGGGCACAAGTACTTTAGGAAAAATGAAGAATC
785641 CGTG
131 CGTG
* * * *
785645 GATTTGAGTATGTGTCTGACATGGGTATACTCAA-TTTTTTCCTAGTTTTTCCATATATTTGAGT
1 GATTTGAGTATATATCTGACAT-GATATACTCAATTTTTTTCCAAGTTTTTCCATATATTTGAGT
*
785709 ATCATTCCCC-CATACTTATGTCCAAATATATATTGGGCACAAGTACTTTAGGAAAAATGAAGAA
65 ATC-TTCCCCTCATACCTATGTCCAAATATATATTGGGCACAAGTACTTTAGGAAAAATGAAGAA
785773 TCC
129 TCC
785776 ATGTAAAGCT
Statistics
Matches: 120, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
134 105 0.88
135 15 0.12
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (134 bp):
GATTTGAGTATATATCTGACATGATATACTCAATTTTTTTCCAAGTTTTTCCATATATTTGAGTA
TCTTCCCCTCATACCTATGTCCAAATATATATTGGGCACAAGTACTTTAGGAAAAATGAAGAATC
CGTG
Found at i:787594 original size:10 final size:10
Alignment explanation
Indices: 787581--787614 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
787571 AATCTATATG
*
787581 ATATAATATA
1 ATATAACATA
787591 ATATAACATAA
1 ATATAACAT-A
787602 ATATAACATA
1 ATATAACATA
787612 ATA
1 ATA
787615 CATTGGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (10 bp):
ATATAACATA
Found at i:788131 original size:27 final size:27
Alignment explanation
Indices: 788073--788131 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
788063 ATTTATACAA
* *
788073 TATAATTATTAATATATTAAAATTTAT
1 TATAAATATTAATATATTAAAATTAAT
* *
788100 CATAAATATTAATAT-TTTAAATATAAT
1 TATAAATATTAATATATTAAAAT-TAAT
788127 TATAA
1 TATAA
788132 TAAAATATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
TATAAATATTAATATATTAAAATTAAT
Found at i:788146 original size:16 final size:18
Alignment explanation
Indices: 788118--788159 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
788108 TTAATATTTT
788118 AAATATA-ATTATAA-TA
1 AAATATATATTATAATTA
*
788134 AAATATATA-TATAATTT
1 AAATATATATTATAATTA
788151 AAATATATA
1 AAATATATA
788160 AATTATCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATATATATTATAATTA
Found at i:788993 original size:20 final size:20
Alignment explanation
Indices: 788968--789015 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
788958 TTTTTTTATC
*
788968 AATTTAAATTGATATA-ATTT
1 AATTTAAATTAATATATA-TT
*
788988 AATTTAAATTAATATTTATT
1 AATTTAAATTAATATATATT
789008 AATTTAAA
1 AATTTAAA
789016 AATATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
AATTTAAATTAATATATATT
Found at i:789030 original size:16 final size:18
Alignment explanation
Indices: 788986--789031 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
788976 TTGATATAAT
788986 TTAATTTAAATTAATATTTA
1 TTAATTTAAA--AATATTTA
789006 TTAATTTAAAAATATTT-
1 TTAATTTAAAAATATTTA
789023 TT-ATTTAAA
1 TTAATTTAAA
789032 TTTAATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.27
17 2 0.08
18 7 0.27
20 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAATTTAAAAATATTTA
Found at i:789090 original size:50 final size:47
Alignment explanation
Indices: 788983--789108 Score: 139
Period size: 49 Copynumber: 2.6 Consensus size: 47
788973 AAATTGATAT
** *
788983 AATTTAATT-TAAATTAATATTTATTAATTTAAAAATATTTTTATTTA
1 AATTTAATTATAAA-TAATAAATATTAATATAAAAATATTTTTATTTA
*
789030 AATTTAATTATAAAATATATAAATATTAATATAAAAATAATTTTTAATTTT
1 AATTTAATTAT-AAATA-ATAAATATTAATATAAAAAT-ATTTTT-ATTTA
* *
789081 TA-TTAATTATAAATAATAAATATAAATA
1 AATTTAATTATAAATAATAAATATTAATA
789109 AATCGAATCG
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
47 9 0.13
48 15 0.22
49 25 0.37
50 14 0.21
51 5 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (47 bp):
AATTTAATTATAAATAATAAATATTAATATAAAAATATTTTTATTTA
Found at i:789301 original size:2 final size:2
Alignment explanation
Indices: 789294--789331 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
789284 AAGGTAACTT
* *
789294 TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
789332 ATTATAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:789332 original size:6 final size:6
Alignment explanation
Indices: 789297--789380 Score: 68
Period size: 6 Copynumber: 14.3 Consensus size: 6
789287 GTAACTTTAT
* * * *
789297 ATATAT ATATAT ATATAT ATATAA ATATAA ATATAA TTATAA A-ATTAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATA-TAA
* *
789345 ATAT-A ATA-AA AT-TAT GTATAA ATATATA ATATAA AT
1 ATATAA ATATAA ATATAA ATATAA ATATA-A ATATAA AT
789381 TATTAATGTA
Statistics
Matches: 65, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
5 10 0.15
6 48 0.74
7 7 0.11
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (6 bp):
ATATAA
Found at i:789387 original size:13 final size:13
Alignment explanation
Indices: 789294--789380 Score: 71
Period size: 14 Copynumber: 7.1 Consensus size: 13
789284 AAGGTAACTT
*
789294 TATATATATATATA
1 TATATA-ATATAAA
789308 TATATATATATAAA
1 TATATA-ATATAAA
789322 TATA-AATAT-AA
1 TATATAATATAAA
* *
789333 T-TATAAAATTAA
1 TATATAATATAAA
789345 -ATATAATA-AAA
1 TATATAATATAAA
*
789356 T-TAT-GTATAAA
1 TATATAATATAAA
789367 TATATAATATAAA
1 TATATAATATAAA
789380 T
1 T
789381 TATTAATGTA
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
10 4 0.07
11 16 0.27
12 15 0.25
13 8 0.13
14 17 0.28
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (13 bp):
TATATAATATAAA
Found at i:789440 original size:20 final size:20
Alignment explanation
Indices: 789307--789446 Score: 53
Period size: 20 Copynumber: 7.0 Consensus size: 20
789297 ATATATATAT
789307 ATATATATATATAAATAT-AA
1 ATATATATA-ATAAATATAAA
* *
789327 ATATA-ATTATAAA-ATTAA
1 ATATATATAATAAATATAAA
*
789345 ATATA-ATAA-AATTATGTATAA
1 ATATATATAATAA--ATATA-AA
*
789366 ATATATA-ATATAAAT-TATTA
1 ATATATATA-ATAAATATA-AA
* * * *
789386 ATGTAT-TAAAAAAAATATAT
1 ATATATATAATAAATATA-AA
**
789406 ATATAATATTTTAAATATAAA
1 ATAT-ATATAATAAATATAAA
789427 ATATATATAATAAATTATAA
1 ATATATATAATAAA-TATAA
789447 TTTTATTTAT
Statistics
Matches: 89, Mismatches: 18, Indels: 25
0.67 0.14 0.19
Matches are distributed among these distances:
17 4 0.04
18 15 0.17
19 7 0.08
20 30 0.34
21 22 0.25
22 9 0.10
23 2 0.02
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (20 bp):
ATATATATAATAAATATAAA
Found at i:793458 original size:18 final size:20
Alignment explanation
Indices: 793425--793461 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
793415 AATATAATTT
793425 TTAAAAATATTTTAAATATA
1 TTAAAAATATTTTAAATATA
793445 TTAAAAA-A-TTTAAATAT
1 TTAAAAATATTTTAAATAT
793462 TCATATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAAAAATATTTTAAATATA
Found at i:799774 original size:21 final size:21
Alignment explanation
Indices: 799732--799773 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
799722 TAAATTAATA
799732 ATTTTTATTATATATATTTTT
1 ATTTTTATTATATATATTTTT
799753 ATTTTTATCGTAT-TATATTTT
1 ATTTTTAT--TATATATATTTT
799774 AAATTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 8 0.42
23 3 0.16
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (21 bp):
ATTTTTATTATATATATTTTT
Found at i:800598 original size:16 final size:20
Alignment explanation
Indices: 800566--800613 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 20
800556 GTTCATATTC
*
800566 TATTTTTAAAAATTT-AA-T
1 TATTTTTAATAATTTAAACT
800584 T-TTTTTAATAA-TTAAACT
1 TATTTTTAATAATTTAAACT
800602 TATTTTTAATAA
1 TATTTTTAATAA
800614 GTTATTTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 2 0.08
17 11 0.42
18 3 0.12
19 10 0.38
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTTTTAATAATTTAAACT
Found at i:802483 original size:16 final size:16
Alignment explanation
Indices: 802448--802488 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
802438 AAAGAATGTT
*
802448 AATAATTTT-GATTTA
1 AATAATTTTAGATTCA
802463 AATAATTTTAGATTCA
1 AATAATTTTAGATTCA
*
802479 GATAATTTTA
1 AATAATTTTA
802489 AAATAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (16 bp):
AATAATTTTAGATTCA
Found at i:803275 original size:11 final size:11
Alignment explanation
Indices: 803240--803280 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
803230 ATAGATAATA
*
803240 TTATTTAAATT
1 TTATATAAATT
803251 TTA-AT-AATT
1 TTATATAAATT
*
803260 ATATATAAATT
1 TTATATAAATT
803271 TTATATAAAT
1 TTATATAAAT
803281 AATAAACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 6 0.24
10 3 0.12
11 16 0.64
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TTATATAAATT
Found at i:803579 original size:17 final size:18
Alignment explanation
Indices: 803546--803590 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
803536 AAAAATTATT
*
803546 ATATATTTT-ACTTTTAA
1 ATATATTTTAATTTTTAA
*
803563 TTAT-TTTTAATTTTTAA
1 ATATATTTTAATTTTTAA
803580 ATATATTTTAA
1 ATATATTTTAA
803591 AAATTATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 4 0.17
17 13 0.57
18 6 0.26
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
ATATATTTTAATTTTTAA
Found at i:803933 original size:17 final size:19
Alignment explanation
Indices: 803906--803945 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
803896 ATATTTTTTG
*
803906 TTTTAACAAAATTACTT-T
1 TTTTAACAAAAATACTTAT
803924 TTTTAA-AAAAATACTTAT
1 TTTTAACAAAAATACTTAT
803942 TTTT
1 TTTT
803946 CTTTAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAACAAAAATACTTAT
Found at i:803956 original size:21 final size:20
Alignment explanation
Indices: 803915--803967 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
803905 GTTTTAACAA
803915 AATTACTTTTTTTAAAAAAAT
1 AATTA-TTTTTTTAAAAAAAT
* *
803936 ACTTATTTTTCTTTAAAAAAT
1 AATTATTTTT-TTAAAAAAAT
803957 AATTATCTTTT
1 AATTAT-TTTT
803968 GGAAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 18 0.67
22 4 0.15
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.53
Consensus pattern (20 bp):
AATTATTTTTTTAAAAAAAT
Found at i:805492 original size:2 final size:2
Alignment explanation
Indices: 805480--805514 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
805470 CTCTATATGC
805480 AT AT CAT AT AT 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
805515 GAATATGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:806627 original size:21 final size:22
Alignment explanation
Indices: 806586--806628 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
806576 AAAGCATCAA
* *
806586 ATTGATCTAAAATTTTTATTTT
1 ATTGATCGAAAATTATTATTTT
806608 ATTGATCGAAAA-TATTATTTT
1 ATTGATCGAAAATTATTATTTT
806629 TTTAATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (22 bp):
ATTGATCGAAAATTATTATTTT
Found at i:807138 original size:2 final size:2
Alignment explanation
Indices: 807118--807175 Score: 89
Period size: 2 Copynumber: 28.5 Consensus size: 2
807108 AATAAAGTGT
* *
807118 TA TA TCA TA TA TG TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
807161 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
807176 TAATTTATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 51 0.96
3 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:809072 original size:34 final size:34
Alignment explanation
Indices: 809009--809078 Score: 81
Period size: 34 Copynumber: 2.0 Consensus size: 34
808999 TTTTATTTAG
* *
809009 ATTTAAAATTAATATAATTTAATTTAATTTA-ATT
1 ATTTAAAATTAATAAAATTTAA-TAAATTTATATT
809043 ATTTAAAATTAATAAAAAATTTAA-AAATTTATATT
1 ATTTAAAATTAAT--AAAATTTAATAAATTTATATT
809078 A
1 A
809079 ATATTTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
34 19 0.61
35 4 0.13
36 8 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (34 bp):
ATTTAAAATTAATAAAATTTAATAAATTTATATT
Found at i:809096 original size:21 final size:21
Alignment explanation
Indices: 809070--809110 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
809060 AATTTAAAAA
809070 TTTAT-ATTAATATTTATATAT
1 TTTATAATTAA-ATTTATATAT
809091 TTTATAATTAAATTTATATA
1 TTTATAATTAAATTTATATA
809111 AAAATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTATAATTAAATTTATATAT
Found at i:810290 original size:33 final size:33
Alignment explanation
Indices: 810253--810320 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
810243 AGAAAAAAAA
*
810253 ATTATCTTGAATTTAAT-AGTATTGAAGATAAAT
1 ATTATCTTGAATTTAATGA-TATTAAAGATAAAT
* *
810286 ATTATTTTTAATTTAATGATATTAAAGATAAAT
1 ATTATCTTGAATTTAATGATATTAAAGATAAAT
810319 AT
1 AT
810321 CATTCCAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.44, C:0.01, G:0.09, T:0.46
Consensus pattern (33 bp):
ATTATCTTGAATTTAATGATATTAAAGATAAAT
Found at i:813388 original size:25 final size:25
Alignment explanation
Indices: 813332--813390 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
813322 AGAATAGATC
*
813332 TTTAT-ATTTTTTATTAATATTATTT
1 TTTATAATTTTTTA-TAATATTATAT
813357 TTTATAATTTTTTA-AATAATTATAT
1 TTTATAATTTTTTATAAT-ATTATAT
813382 TTTATAATT
1 TTTATAATT
813391 AAATTTAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 3 0.10
25 20 0.65
26 8 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTATAATTTTTTATAATATTATAT
Found at i:813397 original size:27 final size:25
Alignment explanation
Indices: 813350--813428 Score: 70
Period size: 25 Copynumber: 3.1 Consensus size: 25
813340 TTTTATTAAT
* *
813350 ATTATTTTTTATAATTTTTTAAATA
1 ATTATATTTTATAATTATTTAAATA
813375 ATTATATTTTATAATTAAATTTAAATA
1 ATTATATTTTATAATT--ATTTAAATA
** * *
813402 AAAATATTATTTTTATTA-TTAAATA
1 ATTATATT-TTATAATTATTTAAATA
813427 AT
1 AT
813429 AATTATAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
25 23 0.52
26 1 0.02
27 14 0.32
28 6 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
ATTATATTTTATAATTATTTAAATA
Found at i:813439 original size:17 final size:18
Alignment explanation
Indices: 813414--813450 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
813404 AATATTATTT
*
813414 TTATTATTAAAT-AATAA
1 TTATAATTAAATCAATAA
813431 TTATAATTAAATCAATAA
1 TTATAATTAAATCAATAA
813449 TT
1 TT
813451 TAAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TTATAATTAAATCAATAA
Found at i:813961 original size:29 final size:30
Alignment explanation
Indices: 813904--814009 Score: 105
Period size: 29 Copynumber: 3.7 Consensus size: 30
813894 TTCTTTTGAT
* *
813904 TTTATAATTTTTAA-AT-TT-AT-ATTAAA
1 TTTATAAATTTTAATATATTAATAATTATA
* *
813930 TTTATATATTTTATTATATTAA-AATTATA
1 TTTATAAATTTTAATATATTAATAATTATA
*
813959 TTTATAAATTTTAATATGTTAATAATTTATA
1 TTTATAAATTTTAATATATTAATAA-TTATA
* *
813990 TATATAAATTTTAAAATATT
1 TTTATAAATTTTAATATATT
814010 TATATTTTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
26 11 0.17
27 2 0.03
28 2 0.03
29 25 0.39
30 2 0.03
31 22 0.34
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (30 bp):
TTTATAAATTTTAATATATTAATAATTATA
Found at i:813996 original size:31 final size:29
Alignment explanation
Indices: 813932--814009 Score: 93
Period size: 31 Copynumber: 2.6 Consensus size: 29
813922 ATATTAAATT
* * *
813932 TATATATTTTATTATATTAAAATTATATT
1 TATAAATTTTAATATATTAAAATTATATA
*
813961 TATAAATTTTAATATGTTAATAATTTATATA
1 TATAAATTTTAATATATTAA-AA-TTATATA
*
813992 TATAAATTTTAAAATATT
1 TATAAATTTTAATATATT
814010 TATATTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 17 0.41
30 2 0.05
31 22 0.54
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (29 bp):
TATAAATTTTAATATATTAAAATTATATA
Found at i:814326 original size:21 final size:21
Alignment explanation
Indices: 814302--814341 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
814292 TATTTTTAAT
*
814302 TAAAT-TTAATTATAAAATATA
1 TAAATATTAA-TAAAAAATATA
814323 TAAATATTAATAAAAAATA
1 TAAATATTAATAAAAAATA
814342 ATTTTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAATATTAATAAAAAATATA
Found at i:814557 original size:7 final size:7
Alignment explanation
Indices: 814547--814574 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
814537 TTATAAATAA
814547 TAAATTT
1 TAAATTT
814554 TAAATTT
1 TAAATTT
814561 TAAATTT
1 TAAATTT
814568 TAAATTT
1 TAAATTT
814575 ATTAAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TAAATTT
Found at i:814564 original size:21 final size:21
Alignment explanation
Indices: 814535--814574 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
814525 GTACGAAAAG
814535 AATTATAAATAATAAATTTTA
1 AATTATAAATAATAAATTTTA
* **
814556 AATTTTAAATTTTAAATTT
1 AATTATAAATAATAAATTT
814575 ATTAAATATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATTATAAATAATAAATTTTA
Found at i:814686 original size:3 final size:3
Alignment explanation
Indices: 814678--814710 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
814668 TTTAATGTAA
814678 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
814711 AAATAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:816037 original size:13 final size:13
Alignment explanation
Indices: 816019--816118 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 13
816009 ATAATGCATT
816019 TATATTATATTTA
1 TATATTATATTTA
*
816032 TATATTTTATTTA
1 TATATTATATTTA
*
816045 TTAAAATTATATTTAA
1 -T-ATATTATATTT-A
*
816061 AATATTATATTTTTA
1 TATATTATA--TTTA
**
816076 TATATT-TAAATA
1 TATATTATATTTA
816088 TATATTATTCATTTA
1 TATATTA-T-ATTTA
816103 TAT-TATATATTTA
1 TATAT-TATATTTA
816116 TAT
1 TAT
816119 TATTTTTTAA
Statistics
Matches: 68, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
12 8 0.12
13 20 0.29
14 13 0.19
15 23 0.34
16 4 0.06
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (13 bp):
TATATTATATTTA
Found at i:816076 original size:22 final size:22
Alignment explanation
Indices: 816051--816093 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
816041 TTTATTAAAA
816051 TTATAT-TTAAAATATTATATTT
1 TTATATATTAAAATA-TATATTT
*
816073 TTATATATTTAAATATATATT
1 TTATATATTAAAATATATATT
816094 ATTCATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATATATTAAAATATATATTT
Found at i:816104 original size:35 final size:33
Alignment explanation
Indices: 816018--816106 Score: 90
Period size: 35 Copynumber: 2.6 Consensus size: 33
816008 GATAATGCAT
*
816018 TTATATTA-TATTTATATATTTTATTTATTAAAA
1 TTATATTATTATTTATAT-TTTTATATATTAAAA
** *
816051 TTATATTTAAAATATTATATTTTTATATATTTAAA
1 TTATA-TTATTAT-TTATATTTTTATATATTAAAA
816086 TATATATTATTCATTTATATT
1 T-TATATTATT-ATTTATATT
816107 ATATATTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
33 5 0.11
34 3 0.07
35 26 0.57
36 12 0.26
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (33 bp):
TTATATTATTATTTATATTTTTATATATTAAAA
Found at i:816119 original size:13 final size:13
Alignment explanation
Indices: 816062--816121 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
816052 TATATTTAAA
*
816062 ATATTATATTTTT
1 ATATTATATATTT
* * *
816075 ATATATTTAAATAT
1 ATAT-TATATATTT
816089 ATATTAT-TCATTT
1 ATATTATAT-ATTT
816102 ATATTATATATTT
1 ATATTATATATTT
816115 ATATTAT
1 ATATTAT
816122 TTTTTAATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
13 27 0.73
14 10 0.27
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (13 bp):
ATATTATATATTT
Found at i:816435 original size:25 final size:23
Alignment explanation
Indices: 816375--816437 Score: 63
Period size: 26 Copynumber: 2.5 Consensus size: 23
816365 GATCTTTGAA
*
816375 TTATAATTTAAAATTTAAAATTTT
1 TTATAAATT-AAATTTAAAATTTT
816399 TTATTAATAATTAAATTTAAATTATTTT
1 TTA-T-A-AATTAAATTTAAA--ATTTT
816427 TTATAAATTAA
1 TTATAAATTAA
816438 TAAAATATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
24 3 0.09
25 7 0.21
26 11 0.33
27 4 0.12
28 8 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTATAAATTAAATTTAAAATTTT
Found at i:818537 original size:21 final size:21
Alignment explanation
Indices: 818513--818555 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
818503 ATCGATTGAG
818513 GATTTACAATTAGATAAGTAA
1 GATTTACAATTAGATAAGTAA
**
818534 GATTTGTAATTAGATAAGTAA
1 GATTTACAATTAGATAAGTAA
818555 G
1 G
818556 TGTATGTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.19, T:0.35
Consensus pattern (21 bp):
GATTTACAATTAGATAAGTAA
Found at i:819278 original size:20 final size:20
Alignment explanation
Indices: 819246--819316 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
819236 TTTTACCCAG
*
819246 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
819266 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
819286 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
819306 ATGTATCGATA
1 ATGTATCGATA
819317 TATTATGTCT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:822849 original size:12 final size:12
Alignment explanation
Indices: 822832--822859 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
822822 CAAAAACATA
822832 TAAATATTGAAT
1 TAAATATTGAAT
822844 TAAATATTGAAT
1 TAAATATTGAAT
822856 TAAA
1 TAAA
822860 CACATCTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (12 bp):
TAAATATTGAAT
Found at i:825027 original size:6 final size:6
Alignment explanation
Indices: 825007--825059 Score: 65
Period size: 6 Copynumber: 9.2 Consensus size: 6
824997 TTGATAATTA
* * *
825007 ATATTT ACA-TT ATATTT ATATTT ATATTT ATTTTT ATA-TT ATAATT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
825053 ATATTT A
1 ATATTT A
825060 AAAATATTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
5 9 0.22
6 31 0.77
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (6 bp):
ATATTT
Found at i:825035 original size:23 final size:23
Alignment explanation
Indices: 825000--825060 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
824990 TGTAAATTTG
825000 ATAATTAATATTTACATTATAT-TT
1 ATAATT-ATATTTA-ATTATATATT
* * *
825024 ATATTTATATTTATTTTTATATT
1 ATAATTATATTTAATTATATATT
825047 ATAATTATATTTAA
1 ATAATTATATTTAA
825061 AAATATTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 5 0.16
23 21 0.68
24 5 0.16
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
ATAATTATATTTAATTATATATT
Found at i:825067 original size:29 final size:30
Alignment explanation
Indices: 825008--825081 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 30
824998 TGATAATTAA
* * * **
825008 TATTTACATTATATTTATATTTATATTTAT
1 TATTTATATTATAATTATATTTAAAAATAT
825038 T-TTTATATTATAATTATATTTAAAAATAT
1 TATTTATATTATAATTATATTTAAAAATAT
*
825067 TATATATATTTATAA
1 TATTTATA-TTATAA
825082 AAATTTTGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 24 0.67
30 6 0.17
31 6 0.17
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (30 bp):
TATTTATATTATAATTATATTTAAAAATAT
Found at i:825068 original size:21 final size:20
Alignment explanation
Indices: 825042--825097 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
825032 ATTTATTTTT
825042 ATATTATAATTATATTTA-AAA
1 ATATTAT-A-TATATTTATAAA
825063 ATATTATATATATTTATAAA
1 ATATTATATATATTTATAAA
*
825083 A-ATTTTGATATATTT
1 ATATTAT-ATATATTT
825098 TTAATTTGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 12 0.38
20 13 0.41
21 7 0.22
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
ATATTATATATATTTATAAA
Found at i:825093 original size:22 final size:21
Alignment explanation
Indices: 825042--825100 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
825032 ATTTATTTTT
825042 ATATTATA-ATTATATT-TAAAA
1 ATATTATATA-TAT-TTATAAAA
825063 ATATTATATATATTTATAAAA
1 ATATTATATATATTTATAAAA
* *
825084 ATTTTGATATATTTTTA
1 ATATT-ATATATATTTA
825101 ATTTGTATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 2 0.06
21 20 0.61
22 11 0.33
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
ATATTATATATATTTATAAAA
Found at i:825339 original size:3 final size:3
Alignment explanation
Indices: 825327--825365 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
825317 TTTTTTTAAA
*
825327 ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
825366 TTGGGATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:825562 original size:19 final size:19
Alignment explanation
Indices: 825540--825631 Score: 72
Period size: 19 Copynumber: 5.0 Consensus size: 19
825530 TTATATGTTG
*
825540 ATATTTATATTATTATTTT
1 ATATTTATAATATTATTTT
*
825559 ATATTTAAAATATTATATTT
1 ATATTTATAATATTAT-TTT
*
825579 -T-TATATAA-ATT-TTTT
1 ATATTTATAATATTATTTT
825594 ATATATTAATAAT-TTATTTT
1 ATAT-TT-ATAATATTATTTT
825614 AT-TTTAT-ATATATATTTT
1 ATATTTATAATAT-TATTTT
825632 TATACGTATG
Statistics
Matches: 59, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
15 3 0.05
16 4 0.07
17 7 0.12
18 14 0.24
19 22 0.37
20 9 0.15
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
ATATTTATAATATTATTTT
Found at i:825861 original size:17 final size:17
Alignment explanation
Indices: 825841--825875 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
825831 GCATATTAAT
*
825841 TTATATATATATATATA
1 TTATATATACATATATA
*
825858 TTATCTATACATATATA
1 TTATATATACATATATA
825875 T
1 T
825876 AAAATTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATATATACATATATA
Found at i:827532 original size:23 final size:23
Alignment explanation
Indices: 827489--827548 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
827479 AAATAAAAAT
*
827489 TTTAATAATTTAAATTAATTTAA
1 TTTAATAAATTAAATTAATTTAA
*
827512 TTTAATAAATTATTATT-ATTTAA
1 TTTAATAAATTA-AATTAATTTAA
* *
827535 -ATAATAAATAAAAT
1 TTTAATAAATTAAAT
827549 ATTTTTAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 2 0.06
22 9 0.29
23 17 0.55
24 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTAATAAATTAAATTAATTTAA
Found at i:827563 original size:20 final size:23
Alignment explanation
Indices: 827525--827565 Score: 61
Period size: 20 Copynumber: 1.9 Consensus size: 23
827515 AATAAATTAT
827525 TATTATTTAAATAATAAATAAAA
1 TATTATTTAAATAATAAATAAAA
827548 TATT-TTTAAA-AA-AAATAA
1 TATTATTTAAATAATAAATAA
827566 TTATAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
22 6 0.33
23 4 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TATTATTTAAATAATAAATAAAA
Found at i:827840 original size:2 final size:2
Alignment explanation
Indices: 827833--827864 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
827823 AAGGTATTTA
827833 AT AT AT AT 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
827865 TGCATGAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:828519 original size:3 final size:3
Alignment explanation
Indices: 828511--828548 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
828501 GCACAAAAGA
828511 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
828549 GTTTTGGTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:830140 original size:7 final size:7
Alignment explanation
Indices: 830109--830139 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
830099 AAAAATAATA
830109 TTTAAAT
1 TTTAAAT
830116 TTTAAAT
1 TTTAAAT
830123 TTTAAAT
1 TTTAAAT
830130 TTTAATAT
1 TTTAA-AT
830138 TT
1 TT
830140 ATAATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.83
8 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTAAAT
Found at i:830140 original size:14 final size:14
Alignment explanation
Indices: 830104--830147 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
830094 TCTTAAAAAA
830104 TAATATTTAAATTT
1 TAATATTTAAATTT
830118 TAA-ATTTTAAATTT
1 TAATA-TTTAAATTT
830132 TAATATTTATAATTT
1 TAATATTTA-AATTT
830147 T
1 T
830148 TTATTTTACC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 1 0.04
14 19 0.70
15 7 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATATTTAAATTT
Found at i:830153 original size:22 final size:20
Alignment explanation
Indices: 830106--830155 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
830096 TTAAAAAATA
*
830106 ATATTTAAATTTTAAATTTT
1 ATATTTTAATTTTAAATTTT
*
830126 AAATTTTAATATTTATAATTTT
1 ATATTTTAAT-TTTA-AATTTT
*
830148 TTATTTTA
1 ATATTTTA
830156 CCCATAGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 8 0.33
21 4 0.17
22 12 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATTTTAATTTTAAATTTT
Found at i:830662 original size:3 final size:3
Alignment explanation
Indices: 830654--830687 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
830644 GGATAAAGGC
*
830654 TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
830688 GTTTTTTGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:830783 original size:26 final size:25
Alignment explanation
Indices: 830746--830794 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
830736 AATTAAAATT
*
830746 TATTATTATATTTTATTATGATTGA
1 TATTATTATATTTTATTAAGATTGA
* *
830771 TATTTTTATTATTTTTTTAAGATT
1 TATTATTA-TATTTTATTAAGATT
830795 TAACGTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (25 bp):
TATTATTATATTTTATTAAGATTGA
Found at i:831540 original size:36 final size:35
Alignment explanation
Indices: 831444--831540 Score: 90
Period size: 36 Copynumber: 2.7 Consensus size: 35
831434 AAATTAATAT
*
831444 AATATTATTGTAATAATAATAATTATTATATATTAAA
1 AATATTATTATAATAATAAT--TTATTATATATTAAA
* * *
831481 AATAATTATTGATAA-ATTTATTTATTAT-TTTATAAA
1 AAT-ATTATT-ATAATAATAATTTATTATATAT-TAAA
831517 AATATTATTATATATAATAATTTA
1 AATATTATTATA-ATAATAATTTA
831541 AAAAAATTAG
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
34 3 0.06
35 9 0.18
36 21 0.43
37 3 0.06
38 10 0.20
39 3 0.06
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (35 bp):
AATATTATTATAATAATAATTTATTATATATTAAA
Found at i:831990 original size:16 final size:14
Alignment explanation
Indices: 831969--832023 Score: 56
Period size: 16 Copynumber: 3.6 Consensus size: 14
831959 CAATTAATTG
831969 TTTTTGATAAAATAA
1 TTTTTGATAAAA-AA
*
831984 TTCTTTGAAAAAAACTA
1 TT-TTTGATAAAAA--A
832001 TTTTTGATAAAAAAA
1 TTTTTGAT-AAAAAA
832016 TTTTTGAT
1 TTTTTGAT
832024 GGAATATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
15 12 0.35
16 14 0.41
17 8 0.24
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (14 bp):
TTTTTGATAAAAAA
Found at i:832991 original size:3 final size:3
Alignment explanation
Indices: 832983--833007 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
832973 GCAATGTATC
832983 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
833008 CCAATTAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:833174 original size:24 final size:23
Alignment explanation
Indices: 833147--833198 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
833137 TATTTTTAAA
*
833147 TATTTTATAATTTAAGATTAATCT
1 TATTTTAAAATTTAAGATT-ATCT
* *
833171 TATTTGAAAATTTATGATTATCT
1 TATTTTAAAATTTAAGATTATCT
833194 T-TTTT
1 TATTTT
833199 CACGGATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 3 0.12
23 5 0.21
24 16 0.67
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.58
Consensus pattern (23 bp):
TATTTTAAAATTTAAGATTATCT
Found at i:834028 original size:20 final size:19
Alignment explanation
Indices: 833984--834029 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
833974 TGTCTTAAGT
833984 AAAAAAATAATAAAAATAA
1 AAAAAAATAATAAAAATAA
* *
834003 ATAAAAAATAATTAATAATTA
1 A-AAAAAATAA-TAAAAATAA
834024 AAAAAA
1 AAAAAA
834030 TATATTTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 14 0.61
21 8 0.35
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAAAATAATAAAAATAA
Found at i:836057 original size:2 final size:2
Alignment explanation
Indices: 836050--836088 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
836040 ATTTCAGGAA
836050 AT 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 AT A
836089 AAACCTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:841345 original size:20 final size:20
Alignment explanation
Indices: 841308--841352 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
841298 AACCAACACG
*
841308 AACTAGTTTATAATAGTACT
1 AACTAGTTTATAATAGTACA
*
841328 AACTAGTTT-TGATCAGTACA
1 AACTAGTTTATAAT-AGTACA
841348 AACTA
1 AACTA
841353 TATGAACCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (20 bp):
AACTAGTTTATAATAGTACA
Found at i:842339 original size:21 final size:21
Alignment explanation
Indices: 842315--842354 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
842305 ATTAAAATAT
842315 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
842336 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
842355 AATAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:844638 original size:22 final size:23
Alignment explanation
Indices: 844601--844646 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
844591 TGTTTACATT
* *
844601 TGTTTGTTTATTGTTCATTAACA
1 TGTTTGTTAATTGTTCATGAACA
844624 TGTTT-TTAATTGTTCATGAACA
1 TGTTTGTTAATTGTTCATGAACA
844646 T
1 T
844647 ATTCGATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.24, C:0.09, G:0.13, T:0.54
Consensus pattern (23 bp):
TGTTTGTTAATTGTTCATGAACA
Found at i:845797 original size:148 final size:146
Alignment explanation
Indices: 845481--845849 Score: 390
Period size: 148 Copynumber: 2.5 Consensus size: 146
845471 AAAAGATCAA
* * * * **
845481 GTGGCACATTTGTTTCTCATTCCATGCCGGCTTATGCTTAGTGGTATGATCAATTTCTCAATTAC
1 GTGGCACATGTATCTCTCATTCCATACC-GCTTATGCTTAGTGGTA-GATCAATTTCTCAACAAC
* * ** ** *
845546 TTAATAGATAGAACTGAGACTTAACTCAGTCGGTTCATAAAGCCACTTTTAAAGGGTGGTATACA
64 CTAATAGATTGAACAAAGACTTAACTCAGTAAGTTCATAAAGCCACTCTTAAAGGGTGGTATACA
*
845611 GCATGTCCGGATTCAAAG
129 ACATGTCCGGATTCAAAG
*
845629 GTGGCACATGTGTCTCTCATTCCATAACCGCTTATGCTTAGTGGTAGGATCAATTTCTCAACAAC
1 GTGGCACATGTATCTCTCATTCCAT-ACCGCTTATGCTTAGTGGTA-GATCAATTTCTCAACAAC
* * * ** * *
845694 CTAAAAGATTGAACAAAGAGTTAACTCCA-TAAGTTTATACCGTCAC-CTTAAGGGGTGGTATAC
64 CTAATAGATTGAACAAAGACTTAACT-CAGTAAGTTCATAAAGCCACTCTTAAAGGGTGGTATAC
**
845757 AACATGTCCGGATTTGAAG
128 AACATGTCCGGATTCAAAG
* * *
845776 GTGGCACATGTATGTCATCATTCCATACTGGCTTATGCTTA---GT-GATCAACTTCTCAACAAC
1 GTGGCACATGTATCTC-TCATTCCATAC-CGCTTATGCTTAGTGGTAGATCAATTTCTCAACAAC
845837 CTAATAGATTGAA
64 CTAATAGATTGAA
845850 GCGAAACTTA
Statistics
Matches: 189, Mismatches: 28, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
143 29 0.15
145 2 0.01
147 47 0.25
148 107 0.57
149 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (146 bp):
GTGGCACATGTATCTCTCATTCCATACCGCTTATGCTTAGTGGTAGATCAATTTCTCAACAACCT
AATAGATTGAACAAAGACTTAACTCAGTAAGTTCATAAAGCCACTCTTAAAGGGTGGTATACAAC
ATGTCCGGATTCAAAG
Found at i:846977 original size:25 final size:24
Alignment explanation
Indices: 846915--847021 Score: 67
Period size: 25 Copynumber: 4.1 Consensus size: 24
846905 AGTCTCACTG
*
846915 TTAAT-TT-AATTTGATAAATTTAA
1 TTAATATTAAATTTTAT-AATTTAA
846938 TTAATATTAAATTTTATAATTTAAA
1 TTAATATTAAATTTTATAATTT-AA
*
846963 TTAATAATT-ATTTTTATTTAAATTTAA
1 TTAAT-ATTAAATTTTA--T-AATTTAA
846990 TTATAAAATATATAAATTTTAATAATTTAA
1 -T-T--AATAT-TAAATTTT-ATAATTTAA
847020 TT
1 TT
847022 TTTAATAGTA
Statistics
Matches: 67, Mismatches: 3, Indels: 23
0.72 0.03 0.25
Matches are distributed among these distances:
23 5 0.07
24 7 0.10
25 20 0.30
26 3 0.04
27 3 0.04
28 7 0.10
29 2 0.03
30 9 0.13
31 5 0.07
32 5 0.07
33 1 0.01
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (24 bp):
TTAATATTAAATTTTATAATTTAA
Found at i:847203 original size:15 final size:14
Alignment explanation
Indices: 847133--847207 Score: 57
Period size: 15 Copynumber: 5.4 Consensus size: 14
847123 TTTATTTACT
**
847133 ATATATAAAAT-TT
1 ATATATAAAATAAA
847146 ATATA-AAAATAAA
1 ATATATAAAATAAA
*
847159 ATATTTTAAAAT-AA
1 ATA-TATAAAATAAA
* *
847173 TTATGATATAATAAA
1 ATAT-ATAAAATAAA
847188 ATATATAAATATAAA
1 ATATATAAA-ATAAA
847203 ATATA
1 ATATA
847208 AATAGATGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
12 5 0.10
13 9 0.19
14 14 0.29
15 20 0.42
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (14 bp):
ATATATAAAATAAA
Found at i:847530 original size:3 final size:3
Alignment explanation
Indices: 847522--847553 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
847512 AAATAAATTC
847522 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
847554 GTAGTAGTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:847958 original size:16 final size:16
Alignment explanation
Indices: 847939--848038 Score: 78
Period size: 16 Copynumber: 6.2 Consensus size: 16
847929 ATAAAAAATT
847939 AAATAATTTAAATTTA
1 AAATAATTTAAATTTA
* *
847955 AAATAGTTTATATTTA
1 AAATAATTTAAATTTA
*
847971 CAATGAA-TTAAATTTAA
1 AAAT-AATTTAAATTT-A
* *
847988 AAAAAAATTAAATTTA
1 AAATAATTTAAATTTA
* * *
848004 ATATTA-TTAAACTTA
1 AAATAATTTAAATTTA
**
848019 AAATAATTCGAATTTA
1 AAATAATTTAAATTTA
848035 AAAT
1 AAAT
848039 GACATAAACA
Statistics
Matches: 64, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
15 12 0.19
16 40 0.62
17 12 0.19
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (16 bp):
AAATAATTTAAATTTA
Found at i:849769 original size:18 final size:18
Alignment explanation
Indices: 849726--849769 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
849716 TATGAGTATC
* *
849726 AAATATAAATATTTAAAA
1 AAATATAAAAAATTAAAA
*
849744 AAAAATAAAAAATTAAAA
1 AAATATAAAAAATTAAAA
*
849762 TAATATAA
1 AAATATAA
849770 CTTAAAAGAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AAATATAAAAAATTAAAA
Found at i:850352 original size:9 final size:9
Alignment explanation
Indices: 850327--850407 Score: 53
Period size: 9 Copynumber: 8.8 Consensus size: 9
850317 TTAATTAAAT
*
850327 TTAATTTAA
1 TTAATTTGA
850336 TTAATTTGA
1 TTAATTTGA
850345 TTAATTTGA
1 TTAATTTGA
*
850354 TTTAAGTT--
1 -TTAATTTGA
850362 TT-ATTTGA
1 TTAATTTGA
850370 TTTAGAGTATTGA
1 -TTA-A-T-TTGA
*
850383 TTTAA-TTAA
1 -TTAATTTGA
850392 TTAATTTGA
1 TTAATTTGA
850401 TTAATTT
1 TTAATTT
850408 TTTATTATTA
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
6 3 0.05
7 2 0.03
8 4 0.07
9 32 0.55
10 6 0.10
11 1 0.02
12 2 0.03
13 8 0.14
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (9 bp):
TTAATTTGA
Done.