Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold156
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: 2697547
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 4 of 14
Found at i:740291 original size:20 final size:20
Alignment explanation
Indices: 740268--740306 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
740258 ATAAAATATT
740268 ATAAAATATGATATGTATAA
1 ATAAAATATGATATGTATAA
* * *
740288 ATAAATTATTATATTTATA
1 ATAAAATATGATATGTATA
740307 TGTAAATAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
ATAAAATATGATATGTATAA
Found at i:740811 original size:13 final size:14
Alignment explanation
Indices: 740787--740816 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
740777 ATTAGTTTAT
740787 ATAATTTATTAAAA
1 ATAATTTATTAAAA
740801 ATAATTT-TTAAAA
1 ATAATTTATTAAAA
740814 ATA
1 ATA
740817 TAAATTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAATTTATTAAAA
Found at i:741079 original size:2 final size:2
Alignment explanation
Indices: 741072--741097 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
741062 TCAAACAAGC
741072 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
741098 TACAAAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:741416 original size:15 final size:15
Alignment explanation
Indices: 741352--741431 Score: 53
Period size: 15 Copynumber: 5.4 Consensus size: 15
741342 TCTTTTTCTT
741352 AATTTAAAA-ATA-A
1 AATTTAAAATATATA
*
741365 AATTTAAAATGTAATTA
1 AATTTAAAATAT-A-TA
*
741382 AA-ATAAAATATATA
1 AATTTAAAATATATA
*
741396 ATTTTAAAACTAT-TA
1 AATTTAAAA-TATATA
*
741411 AATTT-AAATTTATA
1 AATTTAAAATATATA
741425 TAATTTA
1 -AATTTA
741432 TATAAATTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 15
0.70 0.10 0.21
Matches are distributed among these distances:
13 11 0.22
14 9 0.18
15 18 0.35
16 10 0.20
17 3 0.06
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (15 bp):
AATTTAAAATATATA
Found at i:741479 original size:14 final size:16
Alignment explanation
Indices: 741449--741496 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
741439 TTTAAGAAAA
741449 TAATATTTA-ATAATTT
1 TAATATTTATA-AATTT
741465 TAA-ATTT-TAAATTT
1 TAATATTTATAAATTT
741479 TAATATTTATAAACTTT
1 TAATATTTATAAA-TTT
741496 T
1 T
741497 CTCTTATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
14 8 0.29
15 9 0.32
16 7 0.25
17 4 0.14
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATATTTATAAATTT
Found at i:742962 original size:3 final size:3
Alignment explanation
Indices: 742956--743009 Score: 63
Period size: 3 Copynumber: 17.0 Consensus size: 3
742946 TATTATTTAC
* *
742956 AAT AAT AAT AACA AAT AAT AAT AAT AAT AAT AAT AAT AAAT ATT ATAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT A-AT
743004 AAT AAT
1 AAT AAT
743010 TTTATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
3 37 0.84
4 7 0.16
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:742983 original size:9 final size:9
Alignment explanation
Indices: 742956--743009 Score: 63
Period size: 10 Copynumber: 5.7 Consensus size: 9
742946 TATTATTTAC
742956 AATAATAAT
1 AATAATAAT
*
742965 AACAAATAAT
1 AA-TAATAAT
742975 AATAATAAT
1 AATAATAAT
742984 AATAATAAT
1 AATAATAAT
*
742993 AAATATTATAT
1 -AATAATA-AT
743004 AATAAT
1 AATAAT
743010 TTTATTTATC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
9 17 0.45
10 19 0.50
11 2 0.05
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (9 bp):
AATAATAAT
Found at i:743329 original size:16 final size:16
Alignment explanation
Indices: 743310--743340 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
743300 TTTTATAGAA
743310 TATAACTTTTTAAAAT
1 TATAACTTTTTAAAAT
*
743326 TATAATTTTTTAAAA
1 TATAACTTTTTAAAA
743341 AATTTAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TATAACTTTTTAAAAT
Found at i:753019 original size:17 final size:16
Alignment explanation
Indices: 752999--753044 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
752989 TTTAATATTT
752999 ATAAAATTTTTAATTAA
1 ATAAAATTTTTAATT-A
*
753016 ATAAAA-TTATAATTA
1 ATAAAATTTTTAATTA
753031 ATAAAATTTATTAA
1 ATAAAATTT-TTAA
753045 AAAATAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 7 0.28
16 9 0.36
17 9 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATAAAATTTTTAATTA
Found at i:753030 original size:16 final size:15
Alignment explanation
Indices: 752999--753049 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
752989 TTTAATATTT
*
752999 ATAAAATTTTTAATTAA
1 ATAAAA-TTATAATT-A
753016 ATAAAATTATAATTA
1 ATAAAATTATAATTA
753031 ATAAAATT-T-ATTA
1 ATAAAATTATAATTA
753044 A-AAAAT
1 ATAAAAT
753050 AATATAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
12 5 0.15
13 5 0.15
14 1 0.03
15 9 0.27
16 7 0.21
17 6 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAAAATTATAATTA
Found at i:753483 original size:20 final size:21
Alignment explanation
Indices: 753438--753499 Score: 53
Period size: 20 Copynumber: 3.0 Consensus size: 21
753428 TGCATATCAT
*
753438 ATAAATATACATATATATATA
1 ATAAATATACATATATATAAA
753459 A-AAATATACATGA-A-ATAAA
1 ATAAATATACAT-ATATATAAA
753478 ATAAATTATTA-ATATATA-AAA
1 ATAAA-TA-TACATATATATAAA
753499 A
1 A
753500 GTTTATATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
19 5 0.15
20 15 0.44
21 11 0.32
22 3 0.09
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (21 bp):
ATAAATATACATATATATAAA
Found at i:753739 original size:16 final size:17
Alignment explanation
Indices: 753718--753750 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
753708 ATAGTTAATG
753718 ATATTTTTAATT-TTTT
1 ATATTTTTAATTATTTT
753734 ATATTTTTAATTATTTT
1 ATATTTTTAATTATTTT
753751 TAATAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
ATATTTTTAATTATTTT
Found at i:753748 original size:10 final size:9
Alignment explanation
Indices: 753718--753755 Score: 53
Period size: 8 Copynumber: 4.3 Consensus size: 9
753708 ATAGTTAATG
753718 ATATTTTTA
1 ATATTTTTA
753727 AT-TTTTT-
1 ATATTTTTA
753734 ATATTTTTA
1 ATATTTTTA
753743 ATTATTTTTA
1 A-TATTTTTA
753753 ATA
1 ATA
753756 AAACTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
7 2 0.08
8 10 0.38
9 5 0.19
10 9 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
ATATTTTTA
Found at i:754016 original size:24 final size:23
Alignment explanation
Indices: 753945--754023 Score: 74
Period size: 22 Copynumber: 3.5 Consensus size: 23
753935 ATACTACTTT
* * *
753945 AATATACAAAA-AATAAAAATAT
1 AATATAAAAAATAATTAAAATAG
* *
753967 AACAT-AAAAATAATTAAAATAT
1 AATATAAAAAATAATTAAAATAG
753989 AATATAAAAAATGAA-TAAAATACG
1 AATATAAAAAAT-AATTAAAATA-G
754013 AATATAAAAAA
1 AATATAAAAAA
754024 ATATATATGT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
21 4 0.08
22 18 0.38
23 13 0.27
24 13 0.27
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.23
Consensus pattern (23 bp):
AATATAAAAAATAATTAAAATAG
Found at i:754170 original size:12 final size:12
Alignment explanation
Indices: 754153--754195 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
754143 ATTTTATTTT
754153 AATAATATAAAA
1 AATAATATAAAA
754165 AATAATATAAATA
1 AATAATATAAA-A
*
754178 CAATATTTATAAAA
1 -AATA-ATATAAAA
754192 AATA
1 AATA
754196 TTTAAACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 11 0.41
13 5 0.19
14 5 0.19
15 6 0.22
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (12 bp):
AATAATATAAAA
Found at i:754208 original size:26 final size:27
Alignment explanation
Indices: 754158--754209 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
754148 ATTTTAATAA
*
754158 TATAAAAAATAATATAAATACAATATT
1 TATAAAAAATAATATAAACACAATATT
* *
754185 TATAAAAAAT-ATTTAAACATAATAT
1 TATAAAAAATAATATAAACACAATAT
754210 GAAAATGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (27 bp):
TATAAAAAATAATATAAACACAATATT
Found at i:754209 original size:13 final size:13
Alignment explanation
Indices: 754158--754199 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
754148 ATTTTAATAA
*
754158 TATAAAAAATA-A
1 TATAAAAAATATT
754170 TATAAATACAATATT
1 TATAAA-A-AATATT
754185 TATAAAAAATATT
1 TATAAAAAATATT
754198 TA
1 TA
754200 AACATAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 6 0.23
13 9 0.35
14 5 0.19
15 6 0.23
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (13 bp):
TATAAAAAATATT
Found at i:754230 original size:21 final size:21
Alignment explanation
Indices: 754206--754262 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
754196 TTTAAACATA
*
754206 ATATGAAAATGATATATATAT
1 ATATGAAAATGATATATATAC
* *
754227 ATATG-ATACGAATATATATAC
1 ATATGAAAATG-ATATATATAC
*
754248 ATATAAAAAT-ATATA
1 ATATGAAAATGATATA
754263 AAAAAAATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
20 8 0.29
21 18 0.64
22 2 0.07
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (21 bp):
ATATGAAAATGATATATATAC
Found at i:754287 original size:19 final size:19
Alignment explanation
Indices: 754263--754301 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
754253 AAAATATATA
754263 AAAAAAATTAT-TAATAAAT
1 AAAAAAATTATGTAA-AAAT
*
754282 AAAAAATTTATGTAAAAAT
1 AAAAAAATTATGTAAAAAT
754301 A
1 A
754302 TAATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAAAAATTATGTAAAAAT
Found at i:754341 original size:14 final size:15
Alignment explanation
Indices: 754317--754345 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
754307 TTTAAATAAA
754317 AAATAACATAAATAT
1 AAATAACATAAATAT
754332 AAAT-ACATAAATAT
1 AAATAACATAAATAT
754346 TTTTTCCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATAACATAAATAT
Found at i:754366 original size:8 final size:8
Alignment explanation
Indices: 754353--754391 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
754343 TATTTTTTCC
754353 TTTCTTTT
1 TTTCTTTT
754361 TTTC--TT
1 TTTCTTTT
754367 TTTCTTTT
1 TTTCTTTT
*
754375 TTTCTTTC
1 TTTCTTTT
754383 TTTCTTTT
1 TTTCTTTT
754391 T
1 T
754392 CGATTGAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 6 0.22
8 21 0.78
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTCTTTT
Found at i:754748 original size:23 final size:24
Alignment explanation
Indices: 754722--754769 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
754712 TGAGTTTAAA
754722 AAATTTTAA-AATATAATATTTTG
1 AAATTTTAATAATATAATATTTTG
754745 AAATTTTAATTCAATATAATATTTT
1 AAATTTTAA-T-AATATAATATTTT
754770 TTAAAAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.41
26 13 0.59
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
AAATTTTAATAATATAATATTTTG
Found at i:773519 original size:24 final size:24
Alignment explanation
Indices: 773453--773524 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
773443 AAAATTTTGT
* *
773453 TATTTTGTATTTTTTATACA-AAAA
1 TATTTTATATTTTTTA-AAATAAAA
* **
773477 -A-TTTATATTTTATGTAATAAAA
1 TATTTTATATTTTTTAAAATAAAA
773499 TATTTTATATTTTTTAAAATAAAA
1 TATTTTATATTTTTTAAAATAAAA
773523 TA
1 TA
773525 CAAATATTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
21 1 0.03
22 14 0.38
23 2 0.05
24 20 0.54
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (24 bp):
TATTTTATATTTTTTAAAATAAAA
Found at i:773544 original size:22 final size:25
Alignment explanation
Indices: 773504--773556 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
773494 TAAAATATTT
*
773504 TATATTTTTTAAAATAAAAT-ACAA
1 TATATTTTGTAAAATAAAATAACAA
*
773528 -ATATTTTGTATAA-AAAATAACAA
1 TATATTTTGTAAAATAAAATAACAA
773551 TATATT
1 TATATT
773557 ATATTACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 5 0.20
23 15 0.60
24 5 0.20
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (25 bp):
TATATTTTGTAAAATAAAATAACAA
Found at i:773592 original size:22 final size:21
Alignment explanation
Indices: 773472--773592 Score: 61
Period size: 23 Copynumber: 5.4 Consensus size: 21
773462 TTTTTTATAC
773472 AAAAAAT-TT-ATATTTTATGT
1 AAAAAATATTCATATTTTAT-T
*
773492 AATAAAATATTTTATATTTT-TT
1 AA-AAAATA-TTCATATTTTATT
* * *
773514 AAAATAAAATACAAATATTTTGTAT
1 AAAA-AATATTC--ATATTTTAT-T
*
773539 AAAAAATA-ACAATATATTATATT
1 AAAAAATATTC-ATAT-TT-TATT
*
773562 ACAAAATATTCATATTTTATGT
1 AAAAAATATTCATATTTTAT-T
773584 AAAAAATAT
1 AAAAAATAT
773593 AAAAATAATA
Statistics
Matches: 80, Mismatches: 8, Indels: 24
0.71 0.07 0.21
Matches are distributed among these distances:
20 2 0.03
21 11 0.14
22 22 0.28
23 26 0.32
24 14 0.17
25 5 0.06
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.43
Consensus pattern (21 bp):
AAAAAATATTCATATTTTATT
Found at i:780891 original size:18 final size:19
Alignment explanation
Indices: 780870--780905 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
780860 ACCATTTTGC
780870 TTTTC-CCTTTTCTTTTTT
1 TTTTCACCTTTTCTTTTTT
*
780888 TTTTCACTTTTTCTTTTT
1 TTTTCACCTTTTCTTTTT
780906 GACGATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCACCTTTTCTTTTTT
Found at i:781374 original size:15 final size:16
Alignment explanation
Indices: 781354--781383 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
781344 ATTTAAAAAA
781354 TTAAATATAT-TTATT
1 TTAAATATATATTATT
781369 TTAAATATATATTAT
1 TTAAATATATATTAT
781384 ATTATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTAAATATATATTATT
Found at i:783063 original size:28 final size:28
Alignment explanation
Indices: 783032--783096 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
783022 AATTTATTAT
* *
783032 TTAATTAATTTTTTAT-ATATTTTAAAAA
1 TTAATT-ATTATTTATAAAATTTTAAAAA
783060 TTAATT-TTATTTATAAAATTTTAAAAA
1 TTAATTATTATTTATAAAATTTTAAAAA
*
783087 TTTATTATTA
1 TTAATTATTA
783097 ATATATCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 7 0.22
27 16 0.50
28 9 0.28
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TTAATTATTATTTATAAAATTTTAAAAA
Found at i:783101 original size:27 final size:27
Alignment explanation
Indices: 783034--783107 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
783024 TTTATTATTT
*
783034 AATTAATTTT-T-TAT-ATATTTTAAA
1 AATTAATTTTATATATAAAATTTTAAA
*
783058 AATTAATTTTATTTATAAAATTTTAAA
1 AATTAATTTTATATATAAAATTTTAAA
* *
783085 AATTTATTATTAATATATCAAAT
1 AATTAATT-TT-ATATATAAAAT
783108 AAATTTTCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 10 0.24
25 1 0.02
26 3 0.07
27 16 0.39
28 2 0.05
29 9 0.22
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (27 bp):
AATTAATTTTATATATAAAATTTTAAA
Found at i:786570 original size:6 final size:6
Alignment explanation
Indices: 786559--786587 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
786549 AGAAAACCCA
786559 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
786588 CCACTCTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:786808 original size:14 final size:14
Alignment explanation
Indices: 786789--786821 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
786779 AGACAAAAGG
*
786789 ATATAAATGGTAAA
1 ATATAAATAGTAAA
786803 ATATAAATAGTAAA
1 ATATAAATAGTAAA
786817 A-ATAA
1 ATATAA
786822 TTTTAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (14 bp):
ATATAAATAGTAAA
Found at i:787216 original size:22 final size:22
Alignment explanation
Indices: 787191--787233 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
787181 TATTATATTT
*
787191 TTTAATAA-AAATAATATCATAA
1 TTTAATAATAAA-AATAGCATAA
787213 TTTAATAATAAAAATAGCATA
1 TTTAATAATAAAAATAGCATA
787234 TATATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (22 bp):
TTTAATAATAAAAATAGCATAA
Found at i:787262 original size:21 final size:21
Alignment explanation
Indices: 787236--787278 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
787226 ATAGCATATA
787236 TATTAAAAT-TTTAATTTAAAT
1 TATTAAAATATTT-ATTTAAAT
*
787257 TATTAAAATATTTTTTTAAAT
1 TATTAAAATATTTATTTAAAT
787278 T
1 T
787279 GATGATGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTAAAATATTTATTTAAAT
Found at i:787874 original size:15 final size:13
Alignment explanation
Indices: 787835--787882 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
787825 TTGATGAAAT
*
787835 TTAATTATTTTTA
1 TTAATTATTTTGA
*
787848 TTAATTAATTTGA
1 TTAATTATTTTGA
787861 TTAAAATTATTTTGA
1 TT--AATTATTTTGA
*
787876 TTGATTA
1 TTAATTA
787883 AAATAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 17 0.59
15 12 0.41
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (13 bp):
TTAATTATTTTGA
Found at i:795548 original size:19 final size:19
Alignment explanation
Indices: 795519--795583 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
795509 AACAACTACC
*
795519 ACAACTTAATTAATAATTAA
1 ACAA-TTAATTAATAATCAA
**
795539 TTAATTAATTAATAATCAA
1 ACAATTAATTAATAATCAA
795558 ACAATTAATTAATAA--AA
1 ACAATTAATTAATAATCAA
795575 A-AATTAATT
1 ACAATTAATT
795584 CCTTCTTGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
16 8 0.20
17 3 0.08
19 27 0.68
20 2 0.05
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (19 bp):
ACAATTAATTAATAATCAA
Found at i:795583 original size:4 final size:4
Alignment explanation
Indices: 795524--795570 Score: 53
Period size: 4 Copynumber: 12.2 Consensus size: 4
795514 CTACCACAAC
* **
795524 TTAA TTAA -TAA TTAA TTAA TTAA TTAA -TAA TCAA ACAA TTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA
795570 T
1 T
795571 AAAAAAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 6 0.16
4 31 0.84
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (4 bp):
TTAA
Found at i:796015 original size:2 final size:2
Alignment explanation
Indices: 796008--796032 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
795998 CATTTAACTT
796008 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
796033 TACCTTAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:799507 original size:109 final size:109
Alignment explanation
Indices: 799361--799573 Score: 275
Period size: 109 Copynumber: 1.9 Consensus size: 109
799351 CAAATCAAGG
* ** * **
799361 AGTATTATATACTCGAAAAAATTATTATTCGGGATGTCAAGAGTGAATGCTCATAAAATTGTCTT
1 AGTAGTATATACTCGAAAAAATTATTATTCGAAATGTCAAGAATGAATGCTCATAAAATTGTCCG
* *
799426 TCTATGATGTTTATG-CATTCTGATAATGATGCCATAGCTGTGT
66 TCTATGATGGTTATGTCATTATGATAATGATGCCATAGCTGTGT
* * * *
799469 AGTAGTATATACTTGGAACAAATTTTTATTCGAAATGTCAAGAATGAATGCTCATAAAGTTGTCC
1 AGTAGTATATAC-TCGAAAAAATTATTATTCGAAATGTCAAGAATGAATGCTCATAAAATTGTCC
**
799534 GTCTATGATGGTTATGTTTGTTATGATAATGATGCCATAG
65 GTCTATGATGGTTATG-TCATTATGATAATGATGCCATAG
799574 GCCAGAGCTA
Statistics
Matches: 88, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
108 11 0.12
109 58 0.66
111 19 0.22
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (109 bp):
AGTAGTATATACTCGAAAAAATTATTATTCGAAATGTCAAGAATGAATGCTCATAAAATTGTCCG
TCTATGATGGTTATGTCATTATGATAATGATGCCATAGCTGTGT
Found at i:800147 original size:2 final size:2
Alignment explanation
Indices: 800140--800168 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
800130 ATCTCCCTCC
800140 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
800169 CCCCCATTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:802550 original size:3 final size:3
Alignment explanation
Indices: 802542--802578 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
802532 GACATTTTTA
802542 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
802579 TTTTAATGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:802963 original size:21 final size:21
Alignment explanation
Indices: 802917--802963 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
802907 AATATATTTT
* *
802917 AAAATTTAATAAAAATAAGTA
1 AAAAATTAATAAAAATAAATA
* *
802938 TAAAATTAATAAAATTAAATA
1 AAAAATTAATAAAAATAAATA
802959 AAAAA
1 AAAAA
802964 GTTTTTTTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (21 bp):
AAAAATTAATAAAAATAAATA
Found at i:807770 original size:16 final size:16
Alignment explanation
Indices: 807746--807782 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
807736 TGCAAGGCAC
807746 TTAAATTTAAATTAAA
1 TTAAATTTAAATTAAA
* *
807762 TTAAGTTTAAATTAAC
1 TTAAATTTAAATTAAA
807778 TTAAA
1 TTAAA
807783 AATTTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:807852 original size:40 final size:39
Alignment explanation
Indices: 807778--807874 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 39
807768 TTAAATTAAC
*
807778 TTAAAAATTTATTTTTATTAATCGAATTATATTAAAAAGT
1 TTAAAAATTAATTTTTATTAATC-AATTATATTAAAAAGT
*
807818 TTAAAAATTAATTTTATATTAAT-ATTTATGATT--AAA-T
1 TTAAAAATTAATTTT-TATTAATCAATTAT-ATTAAAAAGT
*
807855 TTAATAAAATAATTTTTATT
1 TTAA-AAATTAATTTTTATT
807875 TTTTAAATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
37 9 0.18
38 13 0.25
39 5 0.10
40 17 0.33
41 7 0.14
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (39 bp):
TTAAAAATTAATTTTTATTAATCAATTATATTAAAAAGT
Found at i:808264 original size:36 final size:38
Alignment explanation
Indices: 808208--808281 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
808198 TTTATTTTAA
808208 AAAATAATTAATATTGA-TTTTAA-TTTATAAAATTTT
1 AAAATAATTAATATTGATTTTTAATTTTATAAAATTTT
*
808244 AAAATAATT-AT-TTAGTATTTTTAATTTTATAAATTTTT
1 AAAATAATTAATATT-G-ATTTTTAATTTTATAAAATTTT
808282 TTTAAAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
34 2 0.06
35 3 0.09
36 10 0.30
37 6 0.18
38 12 0.36
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (38 bp):
AAAATAATTAATATTGATTTTTAATTTTATAAAATTTT
Found at i:808300 original size:21 final size:20
Alignment explanation
Indices: 808273--808315 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
808263 TTTAATTTTA
808273 TAAAT-TTTTT-TTAAAAATT
1 TAAATATTTTTATT-AAAATT
808292 TAAATATTTTTATTAAAATT
1 TAAATATTTTTATTAAAATT
808312 TAAA
1 TAAA
808316 AATTATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.23
20 15 0.68
21 2 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TAAATATTTTTATTAAAATT
Found at i:808341 original size:28 final size:28
Alignment explanation
Indices: 808280--808347 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
808270 TTATAAATTT
808280 TTTTTAAAAATTTAAATATTTTTATTAA
1 TTTTTAAAAATTTAAATATTTTTATTAA
** *
808308 AATTTAAAAA-TTATAATA-TTTTATTTTA
1 TTTTTAAAAATTTA-AATATTTTTA-TTAA
808336 TTTTTATAAAAT
1 TTTTTA-AAAAT
808348 ATTTATTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
27 8 0.26
28 19 0.61
29 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTTTAAAAATTTAAATATTTTTATTAA
Found at i:808368 original size:21 final size:23
Alignment explanation
Indices: 808322--808367 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
808312 TAAAAATTAT
* *
808322 AATATTTTATTTTATTTTTATAA
1 AATATTTTATTATATTTTAATAA
808345 AATA-TTTATTATATTTTAATAA
1 AATATTTTATTATATTTTAATAA
808367 A
1 A
808368 TTAAATATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
AATATTTTATTATATTTTAATAA
Found at i:808372 original size:27 final size:26
Alignment explanation
Indices: 808281--808372 Score: 66
Period size: 27 Copynumber: 3.5 Consensus size: 26
808271 TATAAATTTT
* *
808281 TTTTAAAAATTTAAATATTTTTATTAAA
1 TTTTAAAAA-TTAAA-ATATTTATTATA
* * *
808309 ATTTAAAAATTATAATATTTTATTTTA
1 TTTTAAAAATTAAAATA-TTTATTATA
*
808336 TTTT---TA-TAAAATATTTATTATA
1 TTTTAAAAATTAAAATATTTATTATA
808358 TTTTAATAAATTAAA
1 TTTTAA-AAATTAAA
808373 TATACCGTGA
Statistics
Matches: 48, Mismatches: 10, Indels: 13
0.68 0.14 0.18
Matches are distributed among these distances:
22 12 0.25
23 6 0.12
24 1 0.02
26 3 0.06
27 18 0.38
28 8 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TTTTAAAAATTAAAATATTTATTATA
Found at i:809219 original size:20 final size:20
Alignment explanation
Indices: 809190--809230 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
809180 TCAGTTAAGA
*
809190 TTTTTTTTTTA-TAATTATT
1 TTTTTTTTTTAGTAATAATT
809209 TTTTTTATTTTAGTAATAATT
1 TTTTTT-TTTTAGTAATAATT
809230 T
1 T
809231 AGTTTCTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 5 0.26
21 8 0.42
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTTTTTTTAGTAATAATT
Found at i:818025 original size:18 final size:18
Alignment explanation
Indices: 818002--818036 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
817992 AGTTTTGATA
818002 ATTTATATATTTTATTAT
1 ATTTATATATTTTATTAT
*
818020 ATTTATTTATTTTATTA
1 ATTTATATATTTTATTA
818037 AATTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTATATATTTTATTAT
Found at i:822065 original size:33 final size:34
Alignment explanation
Indices: 822014--822095 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 34
822004 TTTTAGTTTC
*
822014 TAATATATTTT-ATTATTTAATATAAATATAAA-A
1 TAATA-ATTTTAATAATTTAATATAAATATAAATA
* * *
822047 TAATAATTTTAATAATTTATTTTTAATATAAATA
1 TAATAATTTTAATAATTTAATATAAATATAAATA
822081 TAATTTAATTTTAAT
1 TAA--TAATTTTAAT
822096 TATTATCTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
32 5 0.12
33 22 0.54
34 4 0.10
36 10 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (34 bp):
TAATAATTTTAATAATTTAATATAAATATAAATA
Found at i:822151 original size:32 final size:32
Alignment explanation
Indices: 822038--822159 Score: 110
Period size: 32 Copynumber: 3.8 Consensus size: 32
822028 ATTTAATATA
822038 AATATAAA-ATAATAATTTTAATAATTTATT-TTT
1 AATATAAATATAAT--TTTTAATAA-TTATTATTT
* *
822071 AATATAAATATAATTTAATT-TTAATTATTATCT
1 AATATAAATATAATTT--TTAATAATTATTATTT
* * *
822104 AACAT-AATGTAATTTTTCATAACTTATTATTT
1 AATATAAATATAATTTTTAATAA-TTATTATTT
822136 AATATAAATAT-ATTTTTAATAATT
1 AATATAAATATAATTTTTAATAATT
822160 TTTAATTATG
Statistics
Matches: 73, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
30 2 0.03
31 5 0.07
32 38 0.52
33 21 0.29
34 7 0.10
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (32 bp):
AATATAAATATAATTTTTAATAATTATTATTT
Found at i:822590 original size:23 final size:22
Alignment explanation
Indices: 822538--822614 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 22
822528 TAATAAGAAA
*
822538 AAAATAAAAATAA--AATATTTTG
1 AAAA-AAAAATAAGTAAT-TTTTT
*
822560 AAAGAAAAAATATAGGTATTTTTTT
1 AAA-AAAAAATA-A-GTAATTTTTT
*
822585 AAAAAATAAATAATTAATTTTTT
1 AAAAAA-AAATAAGTAATTTTTT
822608 AAAAAAA
1 AAAAAAA
822615 TATTCTATCA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
22 11 0.24
23 16 0.36
24 4 0.09
25 12 0.27
26 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (22 bp):
AAAAAAAAATAAGTAATTTTTT
Found at i:822731 original size:27 final size:25
Alignment explanation
Indices: 822674--822731 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 25
822664 ATTATAATTT
* *
822674 TTTTAATTTTAAATTAAATTAATAT
1 TTTTAATTTTAAATTAAATTAAAAA
*
822699 TATTTAATTTATAATTTAAATTCAAAAA
1 T-TTTAATTT-TAAATTAAATT-AAAAA
822727 TTTTA
1 TTTTA
822732 TTATTAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 1 0.04
26 8 0.30
27 14 0.52
28 4 0.15
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
TTTTAATTTTAAATTAAATTAAAAA
Found at i:822777 original size:13 final size:13
Alignment explanation
Indices: 822759--822783 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
822749 CTCGGCAAAT
822759 AATAATAATAATA
1 AATAATAATAATA
822772 AATAATAATAAT
1 AATAATAATAAT
822784 TAGTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:823464 original size:17 final size:18
Alignment explanation
Indices: 823424--823464 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
823414 AATACAGTAT
*
823424 TAATA-TTTAAATTTATA
1 TAATATTTTAAATTTAAA
*
823441 TATTATTTTAAA-TTAAA
1 TAATATTTTAAATTTAAA
823458 TAATATT
1 TAATATT
823465 ATTTTATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATATTTTAAATTTAAA
Found at i:823569 original size:22 final size:22
Alignment explanation
Indices: 823534--823591 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
823524 TATCATAATG
823534 TATAAATATATAAATTATTAAAA
1 TATAAA-ATATAAATTATTAAAA
*
823557 TATAAAATATAAATTTTTAAAA
1 TATAAAATATAAATTATTAAAA
*
823579 TA-AAAAAATAAAT
1 TATAAAATATAAAT
823592 CTCAAATGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 10 0.30
22 17 0.52
23 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
TATAAAATATAAATTATTAAAA
Found at i:823806 original size:2 final size:2
Alignment explanation
Indices: 823801--823838 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
823791 TAGATGATGA
*
823801 AT AT AT GT 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
823839 TAATATTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:824177 original size:27 final size:28
Alignment explanation
Indices: 824119--824178 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
824109 ATAATTTTAC
* *
824119 TTTATAAAAATATTTTATTTAAATTTAA
1 TTTATAAAAATATTTTATATAAATATAA
824147 -TTATAAAATATATTTT-TAT-AATATAA
1 TTTATAAAA-ATATTTTATATAAATATAA
824173 TTTATA
1 TTTATA
824179 TTTAATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 6 0.21
27 15 0.54
28 7 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TTTATAAAAATATTTTATATAAATATAA
Found at i:828054 original size:2 final size:2
Alignment explanation
Indices: 828049--828089 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
828039 TTTCTTAATA
828049 AT 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 AT A
828090 ATCATGAGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:829685 original size:3 final size:3
Alignment explanation
Indices: 829672--829711 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
829662 GAGGAACTTG
829672 AGA AGGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA A-GA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
829712 GGTTGGAGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:830710 original size:43 final size:43
Alignment explanation
Indices: 830649--830735 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
830639 TGTTTGCAAG
*
830649 TAACTTTGAGATTTAATTCAGTTAATTTATATAAATATAATCA
1 TAACTTTGAAATTTAATTCAGTTAATTTATATAAATATAATCA
830692 TAACTTTGAAATTTAATTCAGTTAATTTATATAAATATAATCA
1 TAACTTTGAAATTTAATTCAGTTAATTTATATAAATATAATCA
830735 T
1 T
830736 TTTTAATAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.45
Consensus pattern (43 bp):
TAACTTTGAAATTTAATTCAGTTAATTTATATAAATATAATCA
Found at i:833137 original size:2 final size:2
Alignment explanation
Indices: 833130--833176 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
833120 CAAGAATTTC
* * *
833130 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
833172 TA TA T
1 TA TA T
833177 GTATGTATGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:833177 original size:14 final size:14
Alignment explanation
Indices: 833130--833242 Score: 116
Period size: 14 Copynumber: 8.6 Consensus size: 14
833120 CAAGAATTTC
* * *
833130 TATATATATATATA
1 TATATGTATGTATG
* * *
833144 TATATATATATATA
1 TATATGTATGTATG
833158 TATATGTATGTATG
1 TATATGTATGTATG
833172 TATATGTATGTATG
1 TATATGTATGTATG
833186 --TATGTA--TATG
1 TATATGTATGTATG
833196 --TATGTATGTATG
1 TATATGTATGTATG
833208 TATATGTATGTATG
1 TATATGTATGTATG
833222 --TATGTATGTATG
1 TATATGTATGTATG
833234 TATATGTAT
1 TATATGTAT
833243 TGTGTTCAAC
Statistics
Matches: 90, Mismatches: 3, Indels: 12
0.86 0.03 0.11
Matches are distributed among these distances:
10 10 0.11
12 22 0.24
14 58 0.64
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (14 bp):
TATATGTATGTATG
Found at i:833181 original size:4 final size:4
Alignment explanation
Indices: 833160--833236 Score: 112
Period size: 4 Copynumber: 20.8 Consensus size: 4
833150 TATATATATA
833160 TATG TATG TATG TA-- TATG TATG TATG TATG TA-- TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
833204 TATG TA-- TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
833237 ATGTATTGTG
Statistics
Matches: 67, Mismatches: 0, Indels: 12
0.85 0.00 0.15
Matches are distributed among these distances:
2 6 0.09
4 61 0.91
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:833217 original size:22 final size:22
Alignment explanation
Indices: 833146--833242 Score: 131
Period size: 22 Copynumber: 4.4 Consensus size: 22
833136 TATATATATA
* * *
833146 TATATATATATATATATGTATG
1 TATATGTATGTATGTATGTATG
* *
833168 TATGTATATGTATGTATGTATG
1 TATATGTATGTATGTATGTATG
*
833190 TATATGTATGTATGTATGTATA
1 TATATGTATGTATGTATGTATG
*
833212 TGTATGTATGTATGTATGTATG
1 TATATGTATGTATGTATGTATG
833234 TATATGTAT
1 TATATGTAT
833243 TGTGTTCAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 66 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.51
Consensus pattern (22 bp):
TATATGTATGTATGTATGTATG
Found at i:833242 original size:18 final size:18
Alignment explanation
Indices: 833154--833236 Score: 143
Period size: 18 Copynumber: 4.7 Consensus size: 18
833144 TATATATATA
*
833154 TATATATATGTATGTATG
1 TATATGTATGTATGTATG
833172 TATATGTATGTATGTATG
1 TATATGTATGTATGTATG
833190 TATATGTATGTATGTATG
1 TATATGTATGTATGTATG
833208 TATATGTATGTATGTATG
1 TATATGTATGTATGTATG
833226 --TATGTATGTAT
1 TATATGTATGTAT
833237 ATGTATTGTG
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
16 11 0.17
18 53 0.83
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (18 bp):
TATATGTATGTATGTATG
Found at i:837961 original size:13 final size:13
Alignment explanation
Indices: 837941--837974 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
837931 TTTACTTTAA
*
837941 AATT-TTTATTTT
1 AATTATTTATTAT
837953 AATTATTTATTAT
1 AATTATTTATTAT
837966 AATTATTTA
1 AATTATTTA
837975 CGCAATCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
AATTATTTATTAT
Found at i:839544 original size:2 final size:2
Alignment explanation
Indices: 839537--839566 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
839527 TGTCTGATTC
839537 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
839567 TGTATCTGAA
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:841170 original size:23 final size:22
Alignment explanation
Indices: 841121--841174 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
841111 TATAATTAAA
*
841121 AAATAA-ATTTTAATTATATTT
1 AAATAATATTTTAATTAAATTT
*
841142 ATAATAATATTTATATTTAAATTT
1 A-AATAATATTT-TAATTAAATTT
841166 AAATAATAT
1 AAATAATAT
841175 AATATTCACA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 1 0.04
22 5 0.18
23 12 0.43
24 10 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AAATAATATTTTAATTAAATTT
Found at i:841807 original size:15 final size:16
Alignment explanation
Indices: 841782--841813 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
841772 AAATATATCT
841782 ATATAATATATATTAA
1 ATATAATATATATTAA
841798 ATATAA-ATATATTAA
1 ATATAATATATATTAA
841813 A
1 A
841814 AAAAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATATAATATATATTAA
Found at i:843058 original size:2 final size:2
Alignment explanation
Indices: 843045--843103 Score: 73
Period size: 2 Copynumber: 29.5 Consensus size: 2
843035 AATACCATAA
* * * * *
843045 AT AT AA AT AT AT AT AT AT GT AT AT AT AT AT AT GT GT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
843087 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
843104 GTATCAGCGT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (2 bp):
AT
Found at i:844670 original size:2 final size:2
Alignment explanation
Indices: 844658--844690 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
844648 AATTTAAGTG
*
844658 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
844691 GTTTAGATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:844733 original size:21 final size:18
Alignment explanation
Indices: 844692--844745 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
844682 TATATATATG
* *
844692 TTTAGATATTTTTAGTTTT
1 TTTATATATTTTTAG-TCT
844711 TTTATATATTTTGATAGTCT
1 TTTATATATTTT--TAGTCT
844731 TTTATCATATTTTTA
1 TTTAT-ATATTTTTA
844746 TTTAAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 13 0.43
20 7 0.23
21 10 0.33
ACGTcount: A:0.24, C:0.04, G:0.07, T:0.65
Consensus pattern (18 bp):
TTTATATATTTTTAGTCT
Found at i:844770 original size:17 final size:17
Alignment explanation
Indices: 844748--844801 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
844738 TATTTTTATT
844748 TAAATATATATTAAATA
1 TAAATATATATTAAATA
*
844765 TAAATAT-T-TTTAA-A
1 TAAATATATATTAAATA
* *
844779 -AAATAAATATTAAATT
1 TAAATATATATTAAATA
844795 TAAATAT
1 TAAATAT
844802 TAATTTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
13 5 0.18
14 2 0.07
15 8 0.29
16 1 0.04
17 12 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATATATATTAAATA
Found at i:845441 original size:25 final size:23
Alignment explanation
Indices: 845412--845472 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 23
845402 TAATTTGAAT
845412 ATATAAATATGTCAAAATTTATAT-A
1 ATATAAATAT-T--AAATTTATATAA
845437 ATATAAATTATTAAATTTATATAA
1 ATATAAA-TATTAAATTTATATAA
845461 ATATATAATATT
1 ATATA-AATATT
845473 TTAAATATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
23 10 0.30
24 10 0.30
25 10 0.30
26 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
ATATAAATATTAAATTTATATAA
Found at i:848110 original size:20 final size:20
Alignment explanation
Indices: 848073--848111 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
848063 TTAATTAATT
**
848073 AACTAATTAATTTTGAAAGA
1 AACTAATTAATTAAGAAAGA
848093 AACTAATTAATTAAGAAAG
1 AACTAATTAATTAAGAAAG
848112 GAAATAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.31
Consensus pattern (20 bp):
AACTAATTAATTAAGAAAGA
Found at i:848414 original size:21 final size:22
Alignment explanation
Indices: 848385--848429 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
848375 ACATGAATAT
*
848385 ATATATATATATTA-ATTTTAA
1 ATATATATATATTATATTTAAA
*
848406 ATATTTATATATTATATTTAAA
1 ATATATATATATTATATTTAAA
848428 AT
1 AT
848430 TTTTGACAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATATATATATTATATTTAAA
Found at i:866123 original size:16 final size:16
Alignment explanation
Indices: 866102--866132 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
866092 GAAGAAATCT
866102 CAATCAAGAAATGGAA
1 CAATCAAGAAATGGAA
866118 CAATCAAGAAATGGA
1 CAATCAAGAAATGGA
866133 GTTTTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.13, G:0.19, T:0.13
Consensus pattern (16 bp):
CAATCAAGAAATGGAA
Found at i:866256 original size:3 final size:3
Alignment explanation
Indices: 866248--866273 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
866238 TTTTACGGAC
866248 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
866274 CACATTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:866732 original size:27 final size:28
Alignment explanation
Indices: 866704--866758 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
866694 TACATTTGAA
*
866704 TTATAATATTTACAATTTATTTT-TAAAT
1 TTATAA-ATATACAATTTATTTTGTAAAT
* *
866732 TTTTAAATATACAATTTCTTTTGTAAA
1 TTATAAATATACAATTTATTTTGTAAA
866759 AAAATCAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (28 bp):
TTATAAATATACAATTTATTTTGTAAAT
Found at i:877935 original size:2 final size:2
Alignment explanation
Indices: 877928--877974 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
877918 GGTAGCCAAC
877928 TA TA TA TA TA 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 TA TA TA TA TA
877970 TA TA T
1 TA TA T
877975 GAACCTTTTC
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:878343 original size:24 final size:24
Alignment explanation
Indices: 878289--878343 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
878279 CTTGAAACTC
* *
878289 ATTTT-TTTAAAAATTTTATTATT
1 ATTTTATTTAAAAATTATATTAAT
***
878312 AAAATATTTAAAAATTATATTAAT
1 ATTTTATTTAAAAATTATATTAAT
878336 ATTTTATT
1 ATTTTATT
878344 ATTTAAAAAT
Statistics
Matches: 23, Mismatches: 8, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATTTTATTTAAAAATTATATTAAT
Found at i:878370 original size:27 final size:28
Alignment explanation
Indices: 878316--878382 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 28
878306 ATTATTAAAA
* **
878316 TATTTAAAAAT-TATATTAATATTTTAT
1 TATTTAAAAATATATATGAATATAATAT
878343 TATTTAAAAATATATATGAAT-TAATAT
1 TATTTAAAAATATATATGAATATAATAT
**
878370 TAAATAAAAATAT
1 TATTTAAAAATAT
878383 TATTTAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 26 0.76
28 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (28 bp):
TATTTAAAAATATATATGAATATAATAT
Found at i:879138 original size:2 final size:2
Alignment explanation
Indices: 879131--879172 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
879121 GGATTAAATT
*
879131 TA TA TA TA TG 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 TA TA TA TA TA
879173 GAGAGAGAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:879177 original size:2 final size:2
Alignment explanation
Indices: 879172--879208 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
879162 ATATATATAT
879172 AG AG 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 A
879209 TAGTGATTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:879655 original size:14 final size:13
Alignment explanation
Indices: 879633--879662 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
879623 AAGTAAAAGC
879633 AAAAAAAAAATAA
1 AAAAAAAAAATAA
879646 AAAAATAAAAATAA
1 AAAAA-AAAAATAA
879660 AAA
1 AAA
879663 GGTGAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (13 bp):
AAAAAAAAAATAA
Found at i:888800 original size:26 final size:26
Alignment explanation
Indices: 888771--888836 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
888761 TATTTAAATA
**
888771 ATATTAAAATATTAATAATTTTATTT
1 ATATTAAAATATTAATAATTAAATTT
* * *
888797 ATATTTATATATTTTATAATTAAATTT
1 ATATTAAAATA-TTAATAATTAAATTT
*
888824 A-AATAAAATATTA
1 ATATTAAAATATTA
888837 TTAAATAATA
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
25 2 0.07
26 15 0.50
27 13 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
ATATTAAAATATTAATAATTAAATTT
Found at i:899651 original size:23 final size:24
Alignment explanation
Indices: 899609--899673 Score: 70
Period size: 25 Copynumber: 2.9 Consensus size: 24
899599 TATTTGATAT
899609 AAATATA-TTTA-ATTT-T-TTAA
1 AAATATATTTTATATTTATATTAA
899629 AAA-A-ATTTTATTATTTATATTAA
1 AAATATATTTTA-TATTTATATTAA
899652 AAATTATATTTTATATTTATAT
1 AAA-TATATTTTATATTTATAT
899674 CCGAATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
18 1 0.03
19 5 0.14
20 3 0.08
21 4 0.11
22 1 0.03
23 7 0.19
25 10 0.27
26 6 0.16
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
AAATATATTTTATATTTATATTAA
Found at i:900445 original size:12 final size:14
Alignment explanation
Indices: 900428--900459 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
900418 AATTATGTTC
900428 TTTTAAATA-TT-T
1 TTTTAAATACTTAT
900440 TTTTAAATACTTAT
1 TTTTAAATACTTAT
900454 TTTTAA
1 TTTTAA
900460 TTTATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.50
13 2 0.11
14 7 0.39
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTAAATACTTAT
Found at i:908802 original size:22 final size:20
Alignment explanation
Indices: 908764--908804 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
908754 TATAGAATTT
*
908764 TTCTTTCCATTCTTTTTCTA
1 TTCTTTCCATTCATTTTCTA
908784 TTCTTTCTCTATTCATTTTCT
1 TTCTTTC-C-ATTCATTTTCT
908805 GCTTTCTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 1 0.06
22 10 0.56
ACGTcount: A:0.10, C:0.24, G:0.00, T:0.66
Consensus pattern (20 bp):
TTCTTTCCATTCATTTTCTA
Found at i:908993 original size:17 final size:17
Alignment explanation
Indices: 908971--909024 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
908961 ACATCTAATT
908971 TTATTTAAAATTTTAAA
1 TTATTTAAAATTTTAAA
* * *
908988 TTATTTATATTTATTAAT
1 TTATTTAAAATT-TTAAA
*
909006 TTATTTAATATATTTAAA
1 TTATTTAAAAT-TTTAAA
909024 T
1 T
909025 ATAAATATAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
17 10 0.36
18 17 0.61
19 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATTTAAAATTTTAAA
Found at i:909052 original size:14 final size:15
Alignment explanation
Indices: 909008--909056 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 15
908998 TTATTAATTT
909008 ATTTAATATATTTAA
1 ATTTAATATATTTAA
* **
909023 ATATAA-ATATAAAA
1 ATTTAATATATTTAA
909037 ATTTAATA-ATTTAA
1 ATTTAATATATTTAA
909051 ATTTAA
1 ATTTAA
909057 AAAAAATTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
14 21 0.78
15 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTTAATATATTTAA
Found at i:914380 original size:29 final size:28
Alignment explanation
Indices: 914324--914388 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
914314 TATCAATTTT
*
914324 TTATAAATATAAAATATTTTAAATATAA
1 TTATAAATATAAAATATTATAAATATAA
914352 TTATAATATAATAAAATA-TATAAATATAA
1 TTATAA-AT-ATAAAATATTATAAATATAA
*
914381 -CATAAATA
1 TTATAAATA
914389 ATCGAAGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 1 0.03
27 2 0.06
28 10 0.30
29 12 0.36
30 8 0.24
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (28 bp):
TTATAAATATAAAATATTATAAATATAA
Found at i:914956 original size:22 final size:22
Alignment explanation
Indices: 914931--914975 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
914921 TAAATAAACT
914931 TAAT-TTTTAAACATAATTAATA
1 TAATATTTTAAACAT-ATTAATA
* *
914953 TAATATTTTTAATATATTAATA
1 TAATATTTTAAACATATTAATA
914975 T
1 T
914976 TCATGTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TAATATTTTAAACATATTAATA
Found at i:916499 original size:2 final size:2
Alignment explanation
Indices: 916492--916526 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
916482 AATTTGAGTG
916492 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
916527 TTATCGCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:916759 original size:6 final size:6
Alignment explanation
Indices: 916748--916826 Score: 87
Period size: 6 Copynumber: 13.8 Consensus size: 6
916738 TGATAATTTA
* * *
916748 TATATT TATA-T TATATT TATATAT TTTA-T CATATT TA-ATA TAT-TT
1 TATATT TATATT TATATT TATAT-T TATATT TATATT TATATT TATATT
916793 TATATT TATATT TATATT TATATT TATA-T TATAT
1 TATATT TATATT TATATT TATATT TATATT TATAT
916827 AAAATTTAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
5 21 0.34
6 36 0.59
7 4 0.07
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (6 bp):
TATATT
Found at i:916767 original size:19 final size:18
Alignment explanation
Indices: 916743--916827 Score: 93
Period size: 19 Copynumber: 4.5 Consensus size: 18
916733 AAATATGATA
916743 ATTTATATATTTATATTAT
1 ATTTATATATTTATATT-T
*
916762 ATTTATATATTT-TATCAT
1 ATTTATATATTTATAT-TT
916780 ATTTAATATATTTTATATTT
1 ATTT-ATATA-TTTATATTT
916800 ATATT-TATATTTATATTT
1 AT-TTATATATTTATATTT
916818 ATATTATATA
1 AT-TTATATA
916828 AAATTTAAGA
Statistics
Matches: 58, Mismatches: 2, Indels: 12
0.81 0.03 0.17
Matches are distributed among these distances:
18 22 0.38
19 25 0.43
20 6 0.10
21 5 0.09
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTATATATTTATATTT
Found at i:916784 original size:9 final size:8
Alignment explanation
Indices: 916743--916821 Score: 63
Period size: 9 Copynumber: 9.0 Consensus size: 8
916733 AAATATGATA
916743 ATTTATAT
1 ATTTATAT
916751 ATTTATATTAT
1 A-TT-TA-TAT
916762 ATTTATAT
1 ATTTATAT
916770 ATTTTATCAT
1 A-TTTAT-AT
916780 ATTTAATAT
1 ATTT-ATAT
916789 ATTT-TAT
1 ATTTATAT
916796 ATTTATAT
1 ATTTATAT
916804 -TTATATTTAT
1 ATT-TA--TAT
916814 ATTTATAT
1 ATTTATAT
916822 TATATAAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 22
0.73 0.00 0.27
Matches are distributed among these distances:
7 9 0.15
8 13 0.22
9 18 0.30
10 14 0.23
11 6 0.10
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (8 bp):
ATTTATAT
Found at i:917168 original size:22 final size:22
Alignment explanation
Indices: 917137--917184 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
917127 TCAAATAACA
917137 AAATGATAACTAAACTAATCTT
1 AAATGATAACTAAACTAATCTT
*
917159 AAATGGTAACTAAACTAATCTT
1 AAATGATAACTAAACTAATCTT
917181 AAAT
1 AAAT
917185 AAGTAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (22 bp):
AAATGATAACTAAACTAATCTT
Found at i:917913 original size:6 final size:6
Alignment explanation
Indices: 917904--918039 Score: 53
Period size: 6 Copynumber: 22.7 Consensus size: 6
917894 CCTGCACCAG
* * * * * * * *
917904 CTCCAC CTCCAA ATCCAC CACCAG CGCCAG CTCCAC CTCCGA- GTCCGC
1 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCC-AC CTCCAC
* * * * *
917952 CTCCGC CTCCAC CTCCAC CACCAAA C-CCGC CTCCAC CTCCAG CTCCAC
1 CTCCAC CTCCAC CTCCAC CTCC-AC CTCCAC CTCCAC CTCCAC CTCCAC
* * * * **
918000 CGCCAC CACCTA- GTCCAC CTCCAG CTCCTG CTCCAC CTCC
1 CTCCAC CTCC-AC CTCCAC CTCCAC CTCCAC CTCCAC CTCC
918040 GAACCCGCCA
Statistics
Matches: 95, Mismatches: 29, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
5 2 0.02
6 89 0.94
7 4 0.04
ACGTcount: A:0.18, C:0.58, G:0.10, T:0.14
Consensus pattern (6 bp):
CTCCAC
Found at i:917915 original size:30 final size:30
Alignment explanation
Indices: 917879--917943 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
917869 TCATGGGAAT
*
917879 CCTCCAAGA-CCACCACCTGCACCAGCTCCA
1 CCTCCAA-ATCCACCACCAGCACCAGCTCCA
*
917909 CCTCCAAATCCACCACCAGCGCCAGCTCCA
1 CCTCCAAATCCACCACCAGCACCAGCTCCA
917939 CCTCC
1 CCTCC
917944 GAGTCCGCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 31 0.97
ACGTcount: A:0.25, C:0.55, G:0.09, T:0.11
Consensus pattern (30 bp):
CCTCCAAATCCACCACCAGCACCAGCTCCA
Found at i:918021 original size:36 final size:36
Alignment explanation
Indices: 917958--918036 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
917948 CCGCCTCCGC
* *
917958 CTCCACCTCCACCACCAAACCCGCCTCCACCTCCAG
1 CTCCACCGCCACCACCAAACCCACCTCCACCTCCAG
* ** * *
917994 CTCCACCGCCACCACCTAGTCCACCTCCAGCTCCTG
1 CTCCACCGCCACCACCAAACCCACCTCCACCTCCAG
918030 CTCCACC
1 CTCCACC
918037 TCCGAACCCG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.59, G:0.08, T:0.14
Consensus pattern (36 bp):
CTCCACCGCCACCACCAAACCCACCTCCACCTCCAG
Found at i:918037 original size:18 final size:18
Alignment explanation
Indices: 917981--918039 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
917971 ACCAAACCCG
*
917981 CCTCCACCTCCAGCTCCA
1 CCTCCACCTCCTGCTCCA
* *
917999 CCGCCACCACCTAG-TCCA
1 CCTCCACCTCCT-GCTCCA
*
918017 CCTCCAGCTCCTGCTCCA
1 CCTCCACCTCCTGCTCCA
918035 CCTCC
1 CCTCC
918040 GAACCCGCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 1 0.03
18 31 0.94
19 1 0.03
ACGTcount: A:0.15, C:0.59, G:0.08, T:0.17
Consensus pattern (18 bp):
CCTCCACCTCCTGCTCCA
Found at i:918140 original size:24 final size:25
Alignment explanation
Indices: 918083--918144 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 25
918073 ACCGCCACCT
*
918083 AGTCCACCACCACCACCTCCTCCGA
1 AGTCCACCACCTCCACCTCCTCCGA
* *
918108 A-CCCTCCACCTCCACCTCCTCC-A
1 AGTCCACCACCTCCACCTCCTCCGA
918131 AGTCCACCACCTCC
1 AGTCCACCACCTCC
918145 GCCGAGCCCC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 2 0.06
24 28 0.90
25 1 0.03
ACGTcount: A:0.21, C:0.60, G:0.05, T:0.15
Consensus pattern (25 bp):
AGTCCACCACCTCCACCTCCTCCGA
Found at i:918165 original size:24 final size:24
Alignment explanation
Indices: 918138--918184 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
918128 CCAAGTCCAC
*
918138 CACCTCCGCCGAGC-CCCCCACCAG
1 CACCACCGCC-AGCACCCCCACCAG
*
918162 CACCAGCGCCAGCACCCCCACCA
1 CACCACCGCCAGCACCCCCACCA
918185 AATCCAGCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.21, C:0.62, G:0.15, T:0.02
Consensus pattern (24 bp):
CACCACCGCCAGCACCCCCACCAG
Found at i:918200 original size:18 final size:16
Alignment explanation
Indices: 918179--918234 Score: 51
Period size: 18 Copynumber: 3.3 Consensus size: 16
918169 GCCAGCACCC
918179 CCACCAAATCCAGCTCCA
1 CCACCAAA-CCA-CTCCA
*
918197 CCACCTAACCCACCTCCA
1 CCACC-AAACCA-CTCCA
*
918215 CCGCCAAACC-CTCCA
1 CCACCAAACCACTCCA
918230 CCACC
1 CCACC
918235 TCCGCCTCCT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 9 0.28
17 4 0.12
18 17 0.53
19 2 0.06
ACGTcount: A:0.29, C:0.59, G:0.04, T:0.09
Consensus pattern (16 bp):
CCACCAAACCACTCCA
Found at i:919669 original size:2 final size:2
Alignment explanation
Indices: 919662--919693 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
919652 CCAAAAGTCA
919662 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
919694 TTTAAAATAT
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:920565 original size:33 final size:33
Alignment explanation
Indices: 920523--920591 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
920513 CAGAGATATG
*
920523 AAACCCAAATCAGAAGCTGACCCAAACCCTGCA
1 AAACCCAAATCAGAAGCTAACCCAAACCCTGCA
920556 AAACCCAAATCAGAAGCTAACCCAAACCCTGCA
1 AAACCCAAATCAGAAGCTAACCCAAACCCTGCA
920589 AAA
1 AAA
920592 GTGTTTTGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.46, C:0.35, G:0.10, T:0.09
Consensus pattern (33 bp):
AAACCCAAATCAGAAGCTAACCCAAACCCTGCA
Found at i:922117 original size:39 final size:39
Alignment explanation
Indices: 922069--922152 Score: 132
Period size: 39 Copynumber: 2.1 Consensus size: 39
922059 TTATGTTACT
* *
922069 TGAGCTCGAGTACGAGTGTTAAATACAAGTATGTATCTAG
1 TGAG-TCGAGCACGAGTGTTAAATACAAATATGTATCTAG
*
922109 TGAGTCGAGCATGAGTGTTAAATACAAATATGTATCTAG
1 TGAGTCGAGCACGAGTGTTAAATACAAATATGTATCTAG
922148 TGAGT
1 TGAGT
922153 ATATTTAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 37 0.90
40 4 0.10
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (39 bp):
TGAGTCGAGCACGAGTGTTAAATACAAATATGTATCTAG
Found at i:923326 original size:138 final size:138
Alignment explanation
Indices: 923078--923356 Score: 549
Period size: 138 Copynumber: 2.0 Consensus size: 138
923068 TAAGAATGCC
923078 AAACAAATACATCAAGAAGTGAAATCACTCCACTCAAATGAGTACCACGAGAAATACAAGTTCAT
1 AAACAAATACATCAAGAAGTGAAATCACTCCACTCAAATGAGTACCACGAGAAATACAAGTTCAT
923143 TCAAGCATACTCCATTGTGTATTAAATGAATCAATGTTGATATCACAAAGTAAAACCCAACCAGC
66 TCAAGCATACTCCATTGTGTATTAAATGAATCAATGTTGATATCACAAAGTAAAACCCAACCAGC
923208 AAGAAACT
131 AAGAAACT
923216 AAACAAATACATCAAGAAGTGAAATCACTCCACTCAAATGAGTACCACGAGAAATACAAGTTCAT
1 AAACAAATACATCAAGAAGTGAAATCACTCCACTCAAATGAGTACCACGAGAAATACAAGTTCAT
*
923281 TCAAGCATACTCCATTGTGTATTAAATGAATCAATGTTGATATCACAAAGTAAAACCCAACCAGG
66 TCAAGCATACTCCATTGTGTATTAAATGAATCAATGTTGATATCACAAAGTAAAACCCAACCAGC
923346 AAGAAACT
131 AAGAAACT
923354 AAA
1 AAA
923357 ATGCAGCAAA
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 140 1.00
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.22
Consensus pattern (138 bp):
AAACAAATACATCAAGAAGTGAAATCACTCCACTCAAATGAGTACCACGAGAAATACAAGTTCAT
TCAAGCATACTCCATTGTGTATTAAATGAATCAATGTTGATATCACAAAGTAAAACCCAACCAGC
AAGAAACT
Found at i:926239 original size:4 final size:4
Alignment explanation
Indices: 926230--926255 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
926220 TTTAAAACTA
926230 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
926256 TGCATTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:928182 original size:22 final size:22
Alignment explanation
Indices: 928157--928201 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
928147 ATTTTTTAAT
*
928157 ATTTATATTATA-ATATTATATA
1 ATTTAT-TTATATATAATATATA
*
928179 ATTTATTTTTATATAATATATA
1 ATTTATTTATATATAATATATA
928201 A
1 A
928202 AAATAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTTATTTATATATAATATATA
Found at i:928766 original size:16 final size:18
Alignment explanation
Indices: 928734--928771 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
928724 TTTTAAAAAA
928734 ATTTTGTAAATATATATT
1 ATTTTGTAAATATATATT
928752 ATTTT-TAAA-ATATATT
1 ATTTTGTAAATATATATT
928768 ATTT
1 ATTT
928772 ATATTTAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.55
17 4 0.20
18 5 0.25
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
ATTTTGTAAATATATATT
Found at i:928773 original size:20 final size:18
Alignment explanation
Indices: 928741--928779 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
928731 AAAATTTTGT
*
928741 AAATATATATTATTTTTA
1 AAATATATATTATATTTA
928759 AAATATATTATTTATATTTA
1 AAATATA-TA-TTATATTTA
928779 A
1 A
928780 TGCTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATATATATTATATTTA
Found at i:929459 original size:17 final size:17
Alignment explanation
Indices: 929439--929479 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
929429 TAACATATTC
929439 ATATATTTATGTTATGT
1 ATATATTTATGTTATGT
*
929456 ATATTTTTATGTTATGT
1 ATATATTTATGTTATGT
929473 A-ATATTT
1 ATATATTT
929480 TAATTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (17 bp):
ATATATTTATGTTATGT
Found at i:931079 original size:2 final size:2
Alignment explanation
Indices: 931072--931101 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
931062 AGATTGTGGT
931072 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
931102 GATAAAGTTA
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):
TA
Found at i:931361 original size:2 final size:2
Alignment explanation
Indices: 931354--931385 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
931344 TTAATTAGTA
*
931354 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
931386 GGAGCAAGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:933815 original size:11 final size:11
Alignment explanation
Indices: 933793--933830 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
933783 GAAATAATTT
933793 TAAAAAACTAAA
1 TAAAAAA-TAAA
933805 TAAAAAATAAA
1 TAAAAAATAAA
933816 TAAAACAAT-AA
1 TAAAA-AATAAA
933827 TAAA
1 TAAA
933831 GGATAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (11 bp):
TAAAAAATAAA
Found at i:934326 original size:2 final size:2
Alignment explanation
Indices: 934321--934353 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
934311 GAGAAAAAAT
934321 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
934354 TAATTGTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.