Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold11
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: 5230303
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 140504 characters in sequence are not A, C, G, or T
File 16 of 29
Found at i:2206600 original size:18 final size:18
Alignment explanation
Indices: 2206577--2206613 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2206567 CAAAAGATAG
2206577 AAACTTTGCCTCTGAGGA
1 AAACTTTGCCTCTGAGGA
2206595 AAACTTTGCCTCTGAGGA
1 AAACTTTGCCTCTGAGGA
2206613 A
1 A
2206614 CTTGAGCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (18 bp):
AAACTTTGCCTCTGAGGA
Found at i:2207320 original size:20 final size:20
Alignment explanation
Indices: 2207295--2207333 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2207285 GTAATTTTAA
*
2207295 ATATAATTATAAAAATATAT
1 ATATAATAATAAAAATATAT
*
2207315 ATATAATAATTAAAATATA
1 ATATAATAATAAAAATATA
2207334 ATAAAAATTT
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATAATAATAAAAATATAT
Found at i:2207360 original size:28 final size:31
Alignment explanation
Indices: 2207329--2207405 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 31
2207319 AATAATTAAA
* *
2207329 ATATAATA-AAA-ATTTATAT-TTTAAATTT
1 ATATAATATAAATATTAATATATTAAAATTT
2207357 ATATAATATAAATTATTAATATATTAAAATTT
1 ATATAATATAAA-TATTAATATATTAAAATTT
2207389 ATATAAATATAAATATT
1 ATAT-AATATAAATATT
2207406 TAAAATATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
28 8 0.19
29 3 0.07
31 7 0.17
32 16 0.38
33 8 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
ATATAATATAAATATTAATATATTAAAATTT
Found at i:2207376 original size:13 final size:15
Alignment explanation
Indices: 2207329--2207415 Score: 65
Period size: 15 Copynumber: 5.7 Consensus size: 15
2207319 AATAATTAAA
*
2207329 ATATAATAAAAATTT
1 ATATAATATAAATTT
*
2207344 ATAT--TTTAAATTT
1 ATATAATATAAATTT
2207357 ATATAATATAAATTATT
1 ATATAATATAAA-T-TT
*
2207374 AATATATTA-AAATTT
1 -ATATAATATAAATTT
2207389 ATATAAATATAAATATT
1 ATAT-AATATAAAT-TT
*
2207406 -TAAAATATAA
1 ATATAATATAA
2207416 TAAAATATCA
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
13 11 0.19
14 4 0.07
15 21 0.36
16 8 0.14
17 7 0.12
18 7 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATAATATAAATTT
Found at i:2207950 original size:2 final size:2
Alignment explanation
Indices: 2207943--2207968 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2207933 TGCAAAGTGG
2207943 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
2207969 ATGCGAATTC
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:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2208575 original size:18 final size:19
Alignment explanation
Indices: 2208554--2208595 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
2208544 AATATTAGTT
2208554 AAAATAT-AAATTTAAATA
1 AAAATATAAAATTTAAATA
**
2208572 AAAA-ATAAAATTTATTTA
1 AAAATATAAAATTTAAATA
2208590 AAAATA
1 AAAATA
2208596 AGTCATACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 17 0.85
19 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATATAAAATTTAAATA
Found at i:2208713 original size:20 final size:19
Alignment explanation
Indices: 2208668--2208715 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
2208658 TAAATTTTAA
* *
2208668 AATTTTAAAATAATTATAT
1 AATTTTATAATAATAATAT
*
2208687 ATTTTTTATAATAATAATAAT
1 A-ATTTTATAATAATAAT-AT
2208708 AATTTTAT
1 AATTTTAT
2208716 TTTATTAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.04
20 19 0.83
21 3 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AATTTTATAATAATAATAT
Found at i:2209554 original size:16 final size:14
Alignment explanation
Indices: 2209531--2209563 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2209521 ACAAATGTTT
2209531 TATAATA-AATAAAA
1 TATAATATAA-AAAA
2209545 TATAATATAAAAAA
1 TATAATATAAAAAA
2209559 TATAA
1 TATAA
2209564 AATTATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.89
15 2 0.11
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
TATAATATAAAAAA
Found at i:2209828 original size:19 final size:19
Alignment explanation
Indices: 2209804--2209843 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
2209794 TTATAAAAGT
2209804 TTGCAATTACTTTCACTAA
1 TTGCAATTACTTTCACTAA
2209823 TTGCAATTACTTTCACTAA
1 TTGCAATTACTTTCACTAA
2209842 TT
1 TT
2209844 TTTATATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (19 bp):
TTGCAATTACTTTCACTAA
Found at i:2210711 original size:26 final size:25
Alignment explanation
Indices: 2210682--2210732 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
2210672 CATAATTTTT
*
2210682 AAATT-TTTTAATGTTTATATGTAAAA
1 AAATTATTTTAA-ATTTATAT-TAAAA
2210708 AAATTATTTTAAATTTATATTAAAA
1 AAATTATTTTAAATTTATATTAAAA
2210733 TTAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.22
26 12 0.52
27 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (25 bp):
AAATTATTTTAAATTTATATTAAAA
Found at i:2210960 original size:33 final size:35
Alignment explanation
Indices: 2210922--2210987 Score: 82
Period size: 33 Copynumber: 1.9 Consensus size: 35
2210912 ATAATTTAAT
* *
2210922 AAAATTGAATATAAA-ATA-AAAATTTATATTTTA
1 AAAATTAAATATAAATATATAAAATTCATATTTTA
* *
2210955 AAAATTAAATTTAAATATATAATATTCATATTT
1 AAAATTAAATATAAATATATAAAATTCATATTT
2210988 ATTTTTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 13 0.48
34 3 0.11
35 11 0.41
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (35 bp):
AAAATTAAATATAAATATATAAAATTCATATTTTA
Found at i:2211225 original size:13 final size:14
Alignment explanation
Indices: 2211202--2211246 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
2211192 AATTTTATTA
*
2211202 ATATTAAATATAAT
1 ATATAAAATATAAT
2211216 ATA-AAAATATAA-
1 ATATAAAATATAAT
2211228 ATATAAAATA-AAT
1 ATATAAAATATAAT
2211241 ATATAA
1 ATATAA
2211247 TTAAAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 5 0.18
13 20 0.71
14 3 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATATAAAATATAAT
Found at i:2211230 original size:19 final size:19
Alignment explanation
Indices: 2211201--2211286 Score: 75
Period size: 19 Copynumber: 4.4 Consensus size: 19
2211191 AAATTTTATT
2211201 AATATTAAATATAATATAAA
1 AATA-TAAATATAATATAAA
*
2211221 AATATAAATATAAAATAAA
1 AATATAAATATAATATAAA
* * * *
2211240 TATATAATTAAAATTTATATA
1 AATATAAATATAA--TATAAA
* *
2211261 AATATAAA-ATATTATTAA
1 AATATAAATATAATATAAA
2211279 AATATAAA
1 AATATAAA
2211287 AATTATTTTA
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
18 12 0.23
19 24 0.46
20 6 0.12
21 10 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AATATAAATATAATATAAA
Found at i:2211231 original size:6 final size:6
Alignment explanation
Indices: 2211201--2211286 Score: 63
Period size: 6 Copynumber: 14.3 Consensus size: 6
2211191 AAATTTTATT
*
2211201 AATATTA AATATA ATATAAA AATATA AATATA AA-ATA AATATA TAAT-TA
1 AATA-TA AATATA A-ATATA AATATA AATATA AATATA AATATA -AATATA
* * * *
2211250 AA-ATT TATATA AATATAA AATATT ATTA-A AATATA AA
1 AATATA AATATA AATAT-A AATATA AATATA AATATA AA
2211287 AATTATTTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 15
0.71 0.11 0.17
Matches are distributed among these distances:
5 12 0.19
6 32 0.52
7 18 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
AATATA
Found at i:2211242 original size:17 final size:17
Alignment explanation
Indices: 2211201--2211271 Score: 72
Period size: 17 Copynumber: 4.0 Consensus size: 17
2211191 AAATTTTATT
*
2211201 AATATTAAATATAATATAAA
1 AATA-TAAATATAA-A-ATA
2211221 AATATAAATATAAAATA
1 AATATAAATATAAAATA
*
2211238 AATATATAAT-TAAAATT
1 AATATA-AATATAAAATA
*
2211255 TATATAAATATAAAATA
1 AATATAAATATAAAATA
2211272 TTATTAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
16 3 0.07
17 25 0.56
18 4 0.09
19 9 0.20
20 4 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATATAAATATAAAATA
Found at i:2211260 original size:15 final size:18
Alignment explanation
Indices: 2211222--2211292 Score: 80
Period size: 17 Copynumber: 4.1 Consensus size: 18
2211212 TAATATAAAA
*
2211222 ATATAAATATAAAATA-A
1 ATATAAATATAAAATATT
2211239 ATATATAAT-TAAAAT-TT
1 ATATA-AATATAAAATATT
2211256 ATATAAATATAAAATATT
1 ATATAAATATAAAATATT
2211274 AT-TAAAATATAAAA-ATT
1 ATAT-AAATATAAAATATT
2211291 AT
1 AT
2211293 TTTAAAGATA
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
16 3 0.06
17 28 0.58
18 17 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATAAATATAAAATATT
Found at i:2211279 original size:17 final size:17
Alignment explanation
Indices: 2211213--2211293 Score: 68
Period size: 17 Copynumber: 4.9 Consensus size: 17
2211203 TATTAAATAT
2211213 AATATAAAA-A-TA-TA
1 AATATAAAATATTATTA
*
2211227 AATATAAAATA-AATATA
1 AATATAAAATATTAT-TA
2211244 TAAT-TAAAAT-TTATATA
1 -AATATAAAATATTAT-TA
2211261 AATATAAAATATTATTAA
1 AATATAAAATATTATT-A
2211279 AATATAAAA-ATTATT
1 AATATAAAATATTATT
2211294 TTAAAGATAC
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
14 9 0.16
15 2 0.04
16 3 0.05
17 26 0.46
18 17 0.30
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AATATAAAATATTATTA
Found at i:2211307 original size:20 final size:19
Alignment explanation
Indices: 2211266--2211307 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
2211256 ATATAAATAT
*
2211266 AAAATATTATTAAAATATA
1 AAAATATTATTAAAATACA
2211285 AAAATTATT-TTAAAGATACA
1 AAAA-TATTATTAAA-ATACA
2211305 AAA
1 AAA
2211308 GTACGAGCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATATTATTAAAATACA
Found at i:2217584 original size:2 final size:2
Alignment explanation
Indices: 2217577--2217605 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2217567 TCACATCATT
2217577 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2217606 GAAACTCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2221487 original size:14 final size:14
Alignment explanation
Indices: 2221470--2221499 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2221460 TTTCTTTCTT
*
2221470 TTTTTTTTTTTTAA
1 TTTTTTATTTTTAA
2221484 TTTTTTATTTTTAA
1 TTTTTTATTTTTAA
2221498 TT
1 TT
2221500 CTATTATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTATTTTTAA
Found at i:2223470 original size:16 final size:16
Alignment explanation
Indices: 2223449--2223480 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2223439 ATAGCATAAA
2223449 ATTTTATATTTTTAAT
1 ATTTTATATTTTTAAT
*
2223465 ATTTTATCTTTTTAAT
1 ATTTTATATTTTTAAT
2223481 TAAATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTTATATTTTTAAT
Found at i:2223612 original size:15 final size:15
Alignment explanation
Indices: 2223594--2223633 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
2223584 TAATAAATAT
2223594 TTTAAA-ATTAAAAAA
1 TTTAAATATT-AAAAA
*
2223609 TTTAAATATTTAAAA
1 TTTAAATATTAAAAA
2223624 TTTAAATATT
1 TTTAAATATT
2223634 TTAAAATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 20 0.87
16 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTAAATATTAAAAA
Found at i:2223634 original size:8 final size:8
Alignment explanation
Indices: 2223587--2223634 Score: 55
Period size: 8 Copynumber: 6.1 Consensus size: 8
2223577 ATATTTTTAA
2223587 TAAATATTT
1 TAAATA-TT
2223596 TAAA-ATT
1 TAAATATT
* *
2223603 AAAAAATT
1 TAAATATT
2223611 TAAATATT
1 TAAATATT
2223619 TAAA-ATT
1 TAAATATT
2223626 TAAATATT
1 TAAATATT
2223634 T
1 T
2223635 TAAAATTCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
7 12 0.35
8 18 0.53
9 4 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
TAAATATT
Found at i:2223634 original size:15 final size:16
Alignment explanation
Indices: 2223605--2223641 Score: 67
Period size: 15 Copynumber: 2.4 Consensus size: 16
2223595 TTAAAATTAA
2223605 AAAATTTAAATA-TTT
1 AAAATTTAAATATTTT
2223620 AAAATTTAAATATTTT
1 AAAATTTAAATATTTT
2223636 AAAATT
1 AAAATT
2223642 CATAATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AAAATTTAAATATTTT
Found at i:2223638 original size:24 final size:24
Alignment explanation
Indices: 2223587--2223634 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
2223577 ATATTTTTAA
2223587 TAAATATTTTAAAATTAAAAAATT
1 TAAATATTTTAAAATTAAAAAATT
* *
2223611 TAAATA-TTTAAAATTTAAATATT
1 TAAATATTTTAAAATTAAAAAATT
2223634 T
1 T
2223635 TAAAATTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TAAATATTTTAAAATTAAAAAATT
Found at i:2228336 original size:17 final size:18
Alignment explanation
Indices: 2228316--2228362 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
2228306 TCATTATTTT
*
2228316 AAAATTTTTAAAA-ATAA
1 AAAATTTTTAAAACAAAA
*
2228333 AAAATTGATTAAAACAAAA
1 AAAATT-TTTAAAACAAAA
2228352 AAATATTTTTA
1 AAA-ATTTTTA
2228363 TATTTAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 6 0.25
18 6 0.25
19 9 0.38
20 3 0.12
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAATTTTTAAAACAAAA
Found at i:2233980 original size:12 final size:12
Alignment explanation
Indices: 2233964--2233993 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
2233954 AAAGTTATGG
2233964 AAAAAAGAAAAAT
1 AAAAAA-AAAAAT
2233977 AAAAAAAAAAAT
1 AAAAAAAAAAAT
2233989 AAAAA
1 AAAAA
2233994 CAAATCAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.90, C:0.00, G:0.03, T:0.07
Consensus pattern (12 bp):
AAAAAAAAAAAT
Found at i:2237317 original size:18 final size:18
Alignment explanation
Indices: 2237268--2237307 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
2237258 TCTTTTACCC
*
2237268 TTATAACACAAATAGTTA
1 TTATAACATAAATAGTTA
2237286 TTATAACATAAATAGTTA
1 TTATAACATAAATAGTTA
2237304 TTAT
1 TTAT
2237308 GTCATTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.40
Consensus pattern (18 bp):
TTATAACATAAATAGTTA
Found at i:2238658 original size:21 final size:21
Alignment explanation
Indices: 2238634--2238675 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2238624 AGTGGCTATC
*
2238634 CCAGACCCGAAGGAGAAGATA
1 CCAGAACCGAAGGAGAAGATA
* *
2238655 CCAGAACGGAAGGAGGAGATA
1 CCAGAACCGAAGGAGAAGATA
2238676 AAAACTCTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.19, G:0.33, T:0.05
Consensus pattern (21 bp):
CCAGAACCGAAGGAGAAGATA
Found at i:2240468 original size:2 final size:2
Alignment explanation
Indices: 2240461--2240498 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2240451 AAAAGAAATC
2240461 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
2240499 CACTCTAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2242955 original size:2 final size:2
Alignment explanation
Indices: 2242948--2242982 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2242938 CTTTTTATTT
2242948 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
2242983 CTTTTTGTAA
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:2243865 original size:20 final size:18
Alignment explanation
Indices: 2243823--2243866 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
2243813 TTTGAATTGC
2243823 TTTAAAATAATATTTTTA
1 TTTAAAATAATATTTTTA
*
2243841 ATTAAAATAATATATTTTTA
1 TTTAAAAT-A-ATATTTTTA
2243861 TTTAAA
1 TTTAAA
2243867 TTTAATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 1 0.05
20 14 0.64
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTAAAATAATATTTTTA
Found at i:2243911 original size:16 final size:16
Alignment explanation
Indices: 2243878--2243919 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
2243868 TTAATTATAA
2243878 AATAT-ATAAA-TATT
1 AATATAATAAATTATT
*
2243892 AATATAATAAATTTTT
1 AATATAATAAATTATT
*
2243908 AATAAAATAAAT
1 AATATAATAAAT
2243920 AATAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.21
15 5 0.21
16 14 0.58
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATATAATAAATTATT
Found at i:2245830 original size:2 final size:2
Alignment explanation
Indices: 2245823--2245848 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2245813 TATCAAACTT
2245823 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
2245849 AGCATAAAAG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2249505 original size:17 final size:17
Alignment explanation
Indices: 2249485--2249520 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2249475 AAAAATTATT
2249485 TATTTAAAAATTTTAAA
1 TATTTAAAAATTTTAAA
* *
2249502 TATTTAATATTTTTAAA
1 TATTTAAAAATTTTAAA
2249519 TA
1 TA
2249521 AATTAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTTAAAAATTTTAAA
Found at i:2249729 original size:20 final size:22
Alignment explanation
Indices: 2249706--2249747 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2249696 CGTAATACTT
2249706 AATTTAA-AT-AATTTTTTTAA
1 AATTTAACATAAATTTTTTTAA
*
2249726 AATTTAACCTAAATTTTTTTAA
1 AATTTAACATAAATTTTTTTAA
2249748 TATATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 1 0.05
22 11 0.58
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (22 bp):
AATTTAACATAAATTTTTTTAA
Found at i:2250291 original size:17 final size:15
Alignment explanation
Indices: 2250269--2250302 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 15
2250259 ATTTTAAATC
2250269 TTAAATTTTAAAATAAA
1 TTAAA-TTTAAAA-AAA
2250286 TTAAATTTAAAAAAA
1 TTAAATTTAAAAAAA
2250301 TT
1 TT
2250303 TATATAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAATTTAAAAAAA
Found at i:2252105 original size:97 final size:97
Alignment explanation
Indices: 2251939--2252133 Score: 372
Period size: 97 Copynumber: 2.0 Consensus size: 97
2251929 ATCGTTTTAT
*
2251939 AAAATTTTGAAGGCATGGCATGATGTTTTTCATCTAAGGAGTTGGATATTAAGCTTCCTCAGATT
1 AAAATTTTGAAGGCATGGCATGATGTTTTTCATCTAAGGAATTGGATATTAAGCTTCCTCAGATT
*
2252004 CATCAGTTTGTTTCCTTTCTTTAGTCATAGCC
66 CATCAGTTTATTTCCTTTCTTTAGTCATAGCC
2252036 AAAATTTTGAAGGCATGGCATGATGTTTTTCATCTAAGGAATTGGATATTAAGCTTCCTCAGATT
1 AAAATTTTGAAGGCATGGCATGATGTTTTTCATCTAAGGAATTGGATATTAAGCTTCCTCAGATT
2252101 CATCAGTTTATTTCCTTTCTTTAGTCATAGCC
66 CATCAGTTTATTTCCTTTCTTTAGTCATAGCC
2252133 A
1 A
2252134 TAATGAAAAT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 96 1.00
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.40
Consensus pattern (97 bp):
AAAATTTTGAAGGCATGGCATGATGTTTTTCATCTAAGGAATTGGATATTAAGCTTCCTCAGATT
CATCAGTTTATTTCCTTTCTTTAGTCATAGCC
Found at i:2252181 original size:16 final size:15
Alignment explanation
Indices: 2252160--2252193 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
2252150 ATTTCGTGCA
*
2252160 TTTCTTTCTTTCTTTT
1 TTTCTTT-TTCCTTTT
2252176 TTTCTTTTTCCTTTT
1 TTTCTTTTTCCTTTT
2252191 TTT
1 TTT
2252194 TCTATCATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTCTTTTTCCTTTT
Found at i:2258179 original size:22 final size:23
Alignment explanation
Indices: 2258145--2258191 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
2258135 TTAAAATGTA
*
2258145 TAAAAATTAATATAAAATATTTT
1 TAAAAAATAATATAAAATATTTT
2258168 TAAAAAAT-ATATAAAATATTTT
1 TAAAAAATAATATAAAATATTTT
2258190 TA
1 TA
2258192 TCAATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAAAAATAATATAAAATATTTT
Found at i:2258204 original size:22 final size:20
Alignment explanation
Indices: 2258152--2258204 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 20
2258142 GTATAAAAAT
*
2258152 TAATATAAAATATTTTTAAA
1 TAATTTAAAATATTTTTAAA
*
2258172 AAATATATAAAATATTTTTATCAA
1 TAAT-T-TAAAATATTTTTA--AA
2258196 TAATTTAAA
1 TAATTTAAA
2258205 TTTATAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
20 3 0.12
22 17 0.65
23 1 0.04
24 5 0.19
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TAATTTAAAATATTTTTAAA
Found at i:2264829 original size:21 final size:21
Alignment explanation
Indices: 2264796--2264835 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2264786 TTAAGGCAAC
**
2264796 CAAAATTTGAATTCTAATAAT
1 CAAAATTAAAATTCTAATAAT
*
2264817 CAAAATTAAAATTTTAATA
1 CAAAATTAAAATTCTAATA
2264836 TTTTAATTAT
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:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (21 bp):
CAAAATTAAAATTCTAATAAT
Found at i:2267833 original size:9 final size:9
Alignment explanation
Indices: 2267821--2267850 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
2267811 TTTTTTTTTT
2267821 GGGGAGGGG
1 GGGGAGGGG
*
2267830 GGGGGGGGG
1 GGGGAGGGG
2267839 GGGGAGGGG
1 GGGGAGGGG
2267848 GGG
1 GGG
2267851 TTGGAGAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.07, C:0.00, G:0.93, T:0.00
Consensus pattern (9 bp):
GGGGAGGGG
Found at i:2271532 original size:2 final size:2
Alignment explanation
Indices: 2271527--2271553 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2271517 TTTTATCATT
2271527 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 T
2271554 CTTTATCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2276031 original size:15 final size:17
Alignment explanation
Indices: 2275993--2276033 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
2275983 AAAAAAATAT
2275993 ATTT-AAAATAATAAAA
1 ATTTAAAAATAATAAAA
*
2276009 ATTTAAAAAT-ATAGAA
1 ATTTAAAAATAATAAAA
2276025 A-TTAAAAAT
1 ATTTAAAAAT
2276034 TAAGTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 8 0.35
16 10 0.43
17 5 0.22
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
ATTTAAAAATAATAAAA
Found at i:2279791 original size:12 final size:12
Alignment explanation
Indices: 2279774--2279798 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2279764 CTTGATAATA
2279774 TATATATATATG
1 TATATATATATG
2279786 TATATATATATG
1 TATATATATATG
2279798 T
1 T
2279799 TTTTTCTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TATATATATATG
Found at i:2281409 original size:2 final size:2
Alignment explanation
Indices: 2281399--2281435 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
2281389 ATATATGAGT
*
2281399 TA TA AA 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 TA T
2281436 TCAAAGGGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2283761 original size:2 final size:2
Alignment explanation
Indices: 2283748--2283786 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
2283738 TAATATGGTG
*
2283748 AT AT AA 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
2283787 ACATTCACAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:2287143 original size:2 final size:2
Alignment explanation
Indices: 2287136--2287165 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2287126 TTATCTGCAA
2287136 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
2287166 TTATTTCATT
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:2289622 original size:2 final size:2
Alignment explanation
Indices: 2289615--2289659 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
2289605 ATTGAACTTC
2289615 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
2289657 AT A
1 AT A
2289660 AAATGGAGCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2291009 original size:2 final size:2
Alignment explanation
Indices: 2291002--2291036 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2290992 GACCTTTTAC
2291002 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 A
2291037 AAATAAATTT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2293927 original size:22 final size:23
Alignment explanation
Indices: 2293902--2293955 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 23
2293892 TGTAGTTTAA
*
2293902 AATTTTTAAGATTTT-TTTTATT
1 AATTTTTAAAATTTTATTTTATT
*
2293924 AA-TTTAAAAATTTTATTTTATT
1 AATTTTTAAAATTTTATTTTATT
2293946 -ATTTATTAAA
1 AATTT-TTAAA
2293956 TTATTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 11 0.42
22 11 0.42
23 4 0.15
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
AATTTTTAAAATTTTATTTTATT
Found at i:2293956 original size:22 final size:22
Alignment explanation
Indices: 2293903--2293972 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
2293893 GTAGTTTAAA
2293903 ATTT-TTAAGATTTT-TTTTATT
1 ATTTATTAA-ATTTTATTTTATT
*
2293924 AATTTA-AAAATTTTATTTTATT
1 -ATTTATTAAATTTTATTTTATT
**
2293946 ATTTATTAAATTATTAAATTATT
1 ATTTATTAAATT-TTATTTTATT
2293969 ATTT
1 ATTT
2293973 TTTTGATAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 10 0.25
22 18 0.45
23 12 0.30
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (22 bp):
ATTTATTAAATTTTATTTTATT
Found at i:2294025 original size:21 final size:21
Alignment explanation
Indices: 2294001--2294066 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
2293991 ATATTTTATA
2294001 ATTAAATTTAAATATAAATTT
1 ATTAAATTTAAATATAAATTT
*
2294022 ATT-ATTATTAAATA-ATAATTT
1 ATTAAAT-TTAAATATA-AATTT
*
2294043 ATTAAA-TT-AATTTAAA-TT
1 ATTAAATTTAAATATAAATTT
2294061 ATTAAA
1 ATTAAA
2294067 ATTTTTATCT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
18 8 0.21
19 5 0.13
20 6 0.16
21 18 0.47
22 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTAAATTTAAATATAAATTT
Found at i:2295417 original size:23 final size:22
Alignment explanation
Indices: 2295374--2295417 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
2295364 TTATATAATT
*
2295374 AATTTTAAATATTTAAAATTTA
1 AATTTTAAATATATAAAATTTA
* *
2295396 AATTTTAGTATATATAATATTT
1 AATTTTA-AATATATAAAATTT
2295418 TTTTATTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
AATTTTAAATATATAAAATTTA
Found at i:2296708 original size:2 final size:2
Alignment explanation
Indices: 2296701--2296726 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2296691 TGAAACAAGC
2296701 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
2296727 CCATTGATGG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2297750 original size:22 final size:20
Alignment explanation
Indices: 2297711--2297750 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
2297701 ATCAAATATA
*
2297711 TATTAAATATAAATATTATT
1 TATTAAATATAAAAATTATT
2297731 TATTAAATGTATAAAAATTA
1 TATTAAA--TATAAAAATTA
2297751 AATATATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
22 10 0.59
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
TATTAAATATAAAAATTATT
Found at i:2300096 original size:15 final size:16
Alignment explanation
Indices: 2300070--2300108 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
2300060 GCATGAAGAG
*
2300070 AAACACAGAAAAAA-A
1 AAACAAAGAAAAAACA
*
2300085 AAATAAAGAAAAAACA
1 AAACAAAGAAAAAACA
2300101 AAACAAAG
1 AAACAAAG
2300109 TTTAATCACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.79, C:0.10, G:0.08, T:0.03
Consensus pattern (16 bp):
AAACAAAGAAAAAACA
Found at i:2300353 original size:6 final size:6
Alignment explanation
Indices: 2300316--2300351 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
2300306 AAAATTCAAG
* *
2300316 AATATA AATATA AATATA AATATA TATATA TATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA
2300352 TAAGTTACAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (6 bp):
AATATA
Found at i:2302466 original size:17 final size:18
Alignment explanation
Indices: 2302437--2302481 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
2302427 TAATTAATTT
2302437 GCAAAA-GCGAAAAGA-AA
1 GCAAAAGGC-AAAAGATAA
2302454 GCAAAAGGCAAAAGATAA
1 GCAAAAGGCAAAAGATAA
2302472 --AAAAGGCAAA
1 GCAAAAGGCAAA
2302482 TGGCAAAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 10 0.38
17 12 0.46
18 4 0.15
ACGTcount: A:0.64, C:0.11, G:0.22, T:0.02
Consensus pattern (18 bp):
GCAAAAGGCAAAAGATAA
Found at i:2304370 original size:44 final size:44
Alignment explanation
Indices: 2304303--2304391 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
2304293 GGTCTGCCAA
*
2304303 CAGTTGTATCTAAAATAGCATAACCATTAGCAAGATGACCAATG
1 CAGTTGTATCTAAAACAGCATAACCATTAGCAAGATGACCAATG
* * *
2304347 CAGTTGTATCTTAAACAGTATAACCATTAGCAAGATGATCAATG
1 CAGTTGTATCTAAAACAGCATAACCATTAGCAAGATGACCAATG
2304391 C
1 C
2304392 CTTCATAAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (44 bp):
CAGTTGTATCTAAAACAGCATAACCATTAGCAAGATGACCAATG
Found at i:2308010 original size:16 final size:17
Alignment explanation
Indices: 2307977--2308011 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2307967 CAAATTATTT
2307977 TTTTATTTTATGTTATA
1 TTTTATTTTATGTTATA
*
2307994 TTTTATTTT-TTTTATA
1 TTTTATTTTATGTTATA
2308010 TT
1 TT
2308012 GAATTAGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (17 bp):
TTTTATTTTATGTTATA
Found at i:2311719 original size:3 final size:3
Alignment explanation
Indices: 2311711--2311735 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2311701 TATAGTAACA
2311711 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
2311736 GCTGTTGTTG
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):
TAT
Found at i:2316389 original size:26 final size:26
Alignment explanation
Indices: 2316337--2316391 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
2316327 TTAAAATATT
2316337 ATTTTTATAATTAATATATATAATAA
1 ATTTTTATAATTAATATATATAATAA
*
2316363 ATTTTTATTATTTAA-ATA-ATAATTAA
1 ATTTTTA-TAATTAATATATATAA-TAA
2316389 ATT
1 ATT
2316392 AAATTAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 4 0.15
26 16 0.62
27 6 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
ATTTTTATAATTAATATATATAATAA
Found at i:2316869 original size:16 final size:15
Alignment explanation
Indices: 2316838--2316878 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
2316828 AAAATTTTAA
*
2316838 TTAATTTAATTAAAT
1 TTAATTTGATTAAAT
*
2316853 TTAAATTTGATTCAAT
1 TT-AATTTGATTAAAT
2316869 TTAATTTGAT
1 TTAATTTGAT
2316879 AAAAAAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (15 bp):
TTAATTTGATTAAAT
Found at i:2316954 original size:32 final size:32
Alignment explanation
Indices: 2316916--2316977 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
2316906 AATCGAACTC
**
2316916 AAAATGATTTAAATCTAAAAAAATTTGAATTT
1 AAAATGATCCAAATCTAAAAAAATTTGAATTT
**
2316948 AAAATGATCCAAATCTAAAATGATTTGAAT
1 AAAATGATCCAAATCTAAAAAAATTTGAAT
2316978 CCAAAAGGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (32 bp):
AAAATGATCCAAATCTAAAAAAATTTGAATTT
Found at i:2316978 original size:16 final size:16
Alignment explanation
Indices: 2316916--2317008 Score: 69
Period size: 16 Copynumber: 5.8 Consensus size: 16
2316906 AATCGAACTC
2316916 AAAATGATTTAAATCT
1 AAAATGATTTAAATCT
** * *
2316932 AAAAAAATTTGAATTT
1 AAAATGATTTAAATCT
**
2316948 AAAATGATCCAAATCT
1 AAAATGATTTAAATCT
* *
2316964 AAAATGATTTGAATCC
1 AAAATGATTTAAATCT
* * *
2316980 AAAAGGATTAAAATTT
1 AAAATGATTTAAATCT
* *
2316996 GAATTGATTTAAA
1 AAAATGATTTAAA
2317009 AAATAATTTG
Statistics
Matches: 54, Mismatches: 23, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
16 54 1.00
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (16 bp):
AAAATGATTTAAATCT
Found at i:2317112 original size:22 final size:20
Alignment explanation
Indices: 2317081--2317131 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 20
2317071 AATTAAACAA
*
2317081 AAATTAATTAATTTAAATATT
1 AAATTAATTAATTAAAAT-TT
2317102 AAATCTAATTAATTAAAATTT
1 AAAT-TAATTAATTAAAATTT
*
2317123 AAAATAATT
1 AAATTAATT
2317132 TAAATTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 5 0.19
21 9 0.33
22 13 0.48
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATTAATTAATTAAAATTT
Found at i:2317136 original size:16 final size:16
Alignment explanation
Indices: 2317111--2317143 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2317101 TAAATCTAAT
2317111 TAATTAAAATTTAAAA
1 TAATTAAAATTTAAAA
*
2317127 TAATTTAAATTTAAAA
1 TAATTAAAATTTAAAA
2317143 T
1 T
2317144 TACTTGAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATTAAAATTTAAAA
Found at i:2317190 original size:16 final size:16
Alignment explanation
Indices: 2317169--2317271 Score: 93
Period size: 16 Copynumber: 6.4 Consensus size: 16
2317159 AATCTCATTG
2317169 ATCTAAATTTAAAATA
1 ATCTAAATTTAAAATA
*
2317185 ATCTAAAATTAAAATA
1 ATCTAAATTTAAAATA
2317201 A-CATAAATTTAAAATA
1 ATC-TAAATTTAAAATA
* * *
2317217 CTTTAAATTCAAAATA
1 ATCTAAATTTAAAATA
* *
2317233 A-CTTAAAATCAAAATA
1 ATC-TAAATTTAAAATA
* *
2317249 AACTAAACTTAAAATA
1 ATCTAAATTTAAAATA
*
2317265 ATTTAAA
1 ATCTAAA
2317272 AATAATATAA
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
15 1 0.01
16 69 0.97
17 1 0.01
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (16 bp):
ATCTAAATTTAAAATA
Found at i:2317209 original size:32 final size:32
Alignment explanation
Indices: 2317172--2317265 Score: 109
Period size: 32 Copynumber: 2.9 Consensus size: 32
2317162 CTCATTGATC
2317172 TAAATTTAAAATAATCTAAAATTAAAATAACA
1 TAAATTTAAAATAATCTAAAATTAAAATAACA
* * *
2317204 TAAATTTAAAATACT-TTAAATTCAAAATAACT
1 TAAATTTAAAATAATCTAAAATT-AAAATAACA
* * * *
2317236 TAAAATCAAAATAAACTAAACTTAAAATAA
1 TAAATTTAAAATAATCTAAAATTAAAATAA
2317266 TTTAAAAATA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
31 6 0.12
32 40 0.78
33 5 0.10
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.31
Consensus pattern (32 bp):
TAAATTTAAAATAATCTAAAATTAAAATAACA
Found at i:2317231 original size:48 final size:48
Alignment explanation
Indices: 2317172--2317271 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 48
2317162 CTCATTGATC
* * * *
2317172 TAAATTTAAAATAA-TCTAAAATTAAAAT-AACATAAATTTAAAATACTT
1 TAAATTCAAAATAACT-TAAAATCAAAATAAAC-TAAACTTAAAATAATT
2317220 TAAATTCAAAATAACTTAAAATCAAAATAAACTAAACTTAAAATAATT
1 TAAATTCAAAATAACTTAAAATCAAAATAAACTAAACTTAAAATAATT
2317268 TAAA
1 TAAA
2317272 AATAATATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
48 42 0.91
49 4 0.09
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (48 bp):
TAAATTCAAAATAACTTAAAATCAAAATAAACTAAACTTAAAATAATT
Found at i:2321974 original size:15 final size:16
Alignment explanation
Indices: 2321930--2321976 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
2321920 TTAAACTATA
2321930 TTAAATTT-GATTATT
1 TTAAATTTAGATTATT
**
2321945 TTATTTTTA-ATTATT
1 TTAAATTTAGATTATT
2321960 TTAAATTTAGA-TATT
1 TTAAATTTAGATTATT
2321975 TT
1 TT
2321977 TTTAGTTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 25 0.96
16 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (16 bp):
TTAAATTTAGATTATT
Found at i:2321978 original size:17 final size:20
Alignment explanation
Indices: 2321951--2322002 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 20
2321941 TATTTTATTT
*
2321951 TTAATTATTTTAAATTTAGA
1 TTAATTGTTTTAAATTTAGA
* *
2321971 -T-ATT-TTTTTAGTTTAGA
1 TTAATTGTTTTAAATTTAGA
2321988 TTAATTGTTTTAAAT
1 TTAATTGTTTTAAAT
2322003 AGTTGATGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
17 11 0.44
18 4 0.16
19 4 0.16
20 6 0.24
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.60
Consensus pattern (20 bp):
TTAATTGTTTTAAATTTAGA
Found at i:2323745 original size:18 final size:18
Alignment explanation
Indices: 2323699--2323749 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
2323689 TATTAATATT
*
2323699 ATATAAGATTA-TTTAAA
1 ATATAAGTTTATTTTAAA
* *
2323716 GT-T-AGTTCATTTTAAA
1 ATATAAGTTTATTTTAAA
2323732 ATATAAGTTTATTTTAAA
1 ATATAAGTTTATTTTAAA
2323750 GTTTATTCGT
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
15 4 0.15
16 8 0.31
17 2 0.08
18 12 0.46
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (18 bp):
ATATAAGTTTATTTTAAA
Found at i:2324474 original size:24 final size:24
Alignment explanation
Indices: 2324420--2324478 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 24
2324410 GATTCTCTTT
2324420 TATAAAATTGTTTTTGCTAAAAAA
1 TATAAAATTGTTTTTGCTAAAAAA
* * ** *
2324444 T-TTAAATTTTTTTTTTTCAAAAA
1 TATAAAATTGTTTTTGCTAAAAAA
2324467 TATAAAA-TGTTT
1 TATAAAATTGTTT
2324479 CCGAGAACAA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (24 bp):
TATAAAATTGTTTTTGCTAAAAAA
Found at i:2329248 original size:29 final size:29
Alignment explanation
Indices: 2329213--2329276 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
2329203 TTTAACCTTA
*
2329213 ATAAAAAATATAAATTAATAAAAATTA-AAT
1 ATAAAAAA-ATAAATT-ATAAAAAATATAAT
2329243 ATAAAAAAATAAATTATAAAAAATATAAT
1 ATAAAAAAATAAATTATAAAAAATATAAT
2329272 ATAAA
1 ATAAA
2329277 CAACTTAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 9 0.28
29 15 0.47
30 8 0.25
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (29 bp):
ATAAAAAAATAAATTATAAAAAATATAAT
Found at i:2329265 original size:15 final size:16
Alignment explanation
Indices: 2329213--2329270 Score: 79
Period size: 15 Copynumber: 3.8 Consensus size: 16
2329203 TTTAACCTTA
2329213 ATAAAAAATATAAATT
1 ATAAAAAATATAAATT
2329229 A-ATAAAAAT-TAAA-T
1 ATA-AAAAATATAAATT
2329243 ATAAAAAA-ATAAATT
1 ATAAAAAATATAAATT
2329258 ATAAAAAATATAA
1 ATAAAAAATATAA
2329271 TATAAACAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 11 0.30
15 15 0.41
16 11 0.30
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAAAAATATAAATT
Found at i:2329409 original size:11 final size:11
Alignment explanation
Indices: 2329393--2329419 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2329383 AAACCTAACC
2329393 TAACTTATAAA
1 TAACTTATAAA
2329404 TAACTTATAAA
1 TAACTTATAAA
2329415 TAACT
1 TAACT
2329420 ATACACTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (11 bp):
TAACTTATAAA
Found at i:2329935 original size:21 final size:21
Alignment explanation
Indices: 2329896--2329936 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2329886 TATTAAAAAA
*
2329896 ATATTTTAGATTAATATTTAT
1 ATATTTTAAATTAATATTTAT
2329917 ATATTTTATAATTAA-ATTTA
1 ATATTTTA-AATTAATATTTA
2329937 AATAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATATTTTAAATTAATATTTAT
Found at i:2333799 original size:13 final size:13
Alignment explanation
Indices: 2333783--2333842 Score: 59
Period size: 14 Copynumber: 4.5 Consensus size: 13
2333773 TATGAGCTGT
2333783 ATTTAAGAGTTTA
1 ATTTAAGAGTTTA
*
2333796 ATTTATTGA-TTTA
1 ATTTA-AGAGTTTA
2333809 ATTTAAGAAGTTTA
1 ATTTAAG-AGTTTA
* *
2333823 ATTCAGAGATTTTA
1 ATTTA-AGAGTTTA
2333837 ATTTAA
1 ATTTAA
2333843 AAATCTAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
12 1 0.03
13 16 0.42
14 19 0.50
15 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (13 bp):
ATTTAAGAGTTTA
Found at i:2333902 original size:13 final size:13
Alignment explanation
Indices: 2333884--2333917 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2333874 TGATTCATGA
*
2333884 TTTAATTTAAGGG
1 TTTAATTTAAGAG
*
2333897 TTTAATTTAAGAT
1 TTTAATTTAAGAG
2333910 TTTAATTT
1 TTTAATTT
2333918 TTGAATTCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTTAATTTAAGAG
Found at i:2334676 original size:13 final size:15
Alignment explanation
Indices: 2334646--2334677 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2334636 TAATTATGTA
2334646 ATATATTATGTTTAT
1 ATATATTATGTTTAT
*
2334661 ATATATTGTGTTTAT
1 ATATATTATGTTTAT
2334676 AT
1 AT
2334678 CATGAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (15 bp):
ATATATTATGTTTAT
Found at i:2336285 original size:4 final size:4
Alignment explanation
Indices: 2336276--2336300 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2336266 AAAATGCAAC
2336276 GTCA GTCA GTCA GTCA GTCA GTCA G
1 GTCA GTCA GTCA GTCA GTCA GTCA G
2336301 CCAGCCAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (4 bp):
GTCA
Found at i:2338661 original size:24 final size:25
Alignment explanation
Indices: 2338630--2338692 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
2338620 TTTATGTTTT
* **
2338630 ATATTTTTTTAAGTATTGATAA-AAA
1 ATATTTTTTAAAAAATTGA-AATAAA
2338655 ATATTTTTTAAAAAATTGAAATAAA
1 ATATTTTTTAAAAAATTGAAATAAA
2338680 ATA-TTTTTAAAAA
1 ATATTTTTTAAAAA
2338693 TAATATTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 12 0.35
25 22 0.65
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (25 bp):
ATATTTTTTAAAAAATTGAAATAAA
Found at i:2340499 original size:17 final size:17
Alignment explanation
Indices: 2340472--2340509 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
2340462 ATATGCATGC
2340472 ATTATAAAATTT-AAAT
1 ATTATAAAATTTAAAAT
2340488 ATTATCAAAATTTAAAAT
1 ATTAT-AAAATTTAAAAT
2340506 ATTA
1 ATTA
2340510 AATAAAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.25
17 7 0.35
18 8 0.40
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTATAAAATTTAAAAT
Found at i:2347242 original size:2 final size:2
Alignment explanation
Indices: 2347235--2347265 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2347225 AATAAAAATC
*
2347235 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2347266 AGTTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2347610 original size:30 final size:30
Alignment explanation
Indices: 2347576--2347637 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
2347566 CATTTATAAG
2347576 ATAAAAAAATT-GATAGAAAGAAGAAATTAT
1 ATAAAAAAATTAG-TAGAAAGAAGAAATTAT
*
2347606 ATAAAAAAATTAGTAGAGAGAAGAAATTAT
1 ATAAAAAAATTAGTAGAAAGAAGAAATTAT
2347636 AT
1 AT
2347638 TCTTGATTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (30 bp):
ATAAAAAAATTAGTAGAAAGAAGAAATTAT
Found at i:2351339 original size:31 final size:31
Alignment explanation
Indices: 2351304--2351364 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
2351294 TTATTTAAAA
* * *
2351304 TTATAAAAAAATTTATATTAATATATATATT
1 TTATAAAAAAATTTAAATTAAAAAATATATT
**
2351335 TTATAATTAAATTTAAATTAAAAAATATAT
1 TTATAAAAAAATTTAAATTAAAAAATATAT
2351365 GAAGTAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
TTATAAAAAAATTTAAATTAAAAAATATATT
Found at i:2351522 original size:38 final size:38
Alignment explanation
Indices: 2351480--2351555 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
2351470 TGCATCGGCT
2351480 GATTGCTTTTTTCAATCAAATGTGTTCCAAAATTGCAA
1 GATTGCTTTTTTCAATCAAATGTGTTCCAAAATTGCAA
2351518 GATTGCTTTTTTCAATCAAATGTGTTCCAAAATTGCAA
1 GATTGCTTTTTTCAATCAAATGTGTTCCAAAATTGCAA
2351556 CTTAAAATAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (38 bp):
GATTGCTTTTTTCAATCAAATGTGTTCCAAAATTGCAA
Found at i:2355616 original size:18 final size:18
Alignment explanation
Indices: 2355593--2355687 Score: 74
Period size: 18 Copynumber: 5.3 Consensus size: 18
2355583 AAATTTAATA
2355593 ATTTATATATTTTATTAT
1 ATTTATATATTTTATTAT
*
2355611 ATTTATATAAATTTTAATAT
1 ATTTATAT--ATTTTATTAT
*
2355631 ATTAATA-ATTTATATTAT
1 ATTTATATATTT-TATTAT
**
2355649 A--TA-A-ATTTTAAAAT
1 ATTTATATATTTTATTAT
*
2355663 ATTTATATATTTATATAAT
1 ATTTATATATTT-TATTAT
2355682 ATTTAT
1 ATTTAT
2355688 GTTATATTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
14 5 0.08
15 5 0.08
16 3 0.05
17 5 0.08
18 18 0.29
19 11 0.18
20 15 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATATATTTTATTAT
Found at i:2355649 original size:32 final size:33
Alignment explanation
Indices: 2355607--2355683 Score: 111
Period size: 32 Copynumber: 2.3 Consensus size: 33
2355597 ATATATTTTA
*
2355607 TTATATTTATATAAATTTTAATATATTAATA-AT
1 TTATA-TTATATAAATTTTAAAATATTAATATAT
*
2355640 TTATATTATATAAATTTTAAAATATTTATATAT
1 TTATATTATATAAATTTTAAAATATTAATATAT
*
2355673 TTATATAATAT
1 TTATATTATAT
2355684 TTATGTTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 23 0.57
33 17 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (33 bp):
TTATATTATATAAATTTTAAAATATTAATATAT
Found at i:2355672 original size:8 final size:8
Alignment explanation
Indices: 2355593--2355679 Score: 52
Period size: 8 Copynumber: 10.1 Consensus size: 8
2355583 AAATTTAATA
2355593 ATTTATAT
1 ATTTATAT
2355601 ATTTTATTAT
1 A-TTTA-TAT
2355611 ATTTATAT
1 ATTTATAT
2355619 AAATTTTAATAT
1 --A-TTT-ATAT
*
2355631 ATTAATA-
1 ATTTATAT
2355638 ATTTATAT
1 ATTTATAT
* *
2355646 -TATATAA
1 ATTTATAT
*
2355653 ATTTTAAAAT
1 A-TTT-ATAT
2355663 ATTTATAT
1 ATTTATAT
2355671 ATTTATAT
1 ATTTATAT
2355679 A
1 A
2355680 ATATTTATGT
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
7 11 0.18
8 19 0.31
9 15 0.25
10 9 0.15
11 3 0.05
12 4 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
ATTTATAT
Found at i:2356015 original size:7 final size:7
Alignment explanation
Indices: 2356005--2356049 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
2355995 ATATTATTAA
*
2356005 TTAAGAT
1 TTAATAT
2356012 TTAATAAAT
1 TTAAT--AT
2356021 TTAATAT
1 TTAATAT
2356028 TTAATAT
1 TTAATAT
2356035 TTAATAT
1 TTAATAT
2356042 TTAA-AT
1 TTAATAT
2356048 TT
1 TT
2356050 TTTATTTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
6 4 0.11
7 24 0.69
9 7 0.20
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (7 bp):
TTAATAT
Found at i:2362431 original size:2 final size:2
Alignment explanation
Indices: 2362424--2362466 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2362414 GGCAAAAATA
2362424 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
2362466 A
1 A
2362467 ATAAGGCAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2362678 original size:30 final size:28
Alignment explanation
Indices: 2362633--2362690 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
2362623 AATATTTTAT
* *
2362633 ATTTATATAAAATTTTTATATATTAATA
1 ATTTATATAAAATTTTAATACATTAATA
2362661 ATTTATAATATAAATTTTAATACATTAATA
1 ATTTAT-ATA-AAATTTTAATACATTAATA
2362691 TATAATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 6 0.23
29 3 0.12
30 17 0.65
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (28 bp):
ATTTATATAAAATTTTAATACATTAATA
Found at i:2362739 original size:11 final size:12
Alignment explanation
Indices: 2362695--2362748 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 12
2362685 TTAATATATA
2362695 ATATTATA--TT
1 ATATTATATTTT
*
2362705 ATATCATATTTT
1 ATATTATATTTT
2362717 ATATTATATTTT
1 ATATTATATTTT
*
2362729 A-ATTATCTTTT
1 ATATTATATTTT
*
2362740 ATTTTATAT
1 ATATTATAT
2362749 AATTATCATG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 7 0.19
11 10 0.28
12 19 0.53
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (12 bp):
ATATTATATTTT
Found at i:2364682 original size:5 final size:6
Alignment explanation
Indices: 2364658--2364688 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
2364648 AAGAAATGAA
2364658 CAAAAG CAAAAG CAAAAG C-AAAG CAAAAG CA
1 CAAAAG CAAAAG CAAAAG CAAAAG CAAAAG CA
2364689 GTGGGGAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.65, C:0.19, G:0.16, T:0.00
Consensus pattern (6 bp):
CAAAAG
Found at i:2364682 original size:11 final size:11
Alignment explanation
Indices: 2364658--2364688 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
2364648 AAGAAATGAA
2364658 CAAAAGCAAAAG
1 CAAAAGC-AAAG
2364670 CAAAAGCAAAG
1 CAAAAGCAAAG
2364681 CAAAAGCA
1 CAAAAGCA
2364689 GTGGGGAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.65, C:0.19, G:0.16, T:0.00
Consensus pattern (11 bp):
CAAAAGCAAAG
Found at i:2369175 original size:25 final size:25
Alignment explanation
Indices: 2369127--2369173 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
2369117 TCTTAAAAAT
*
2369127 TAAAATAAAAAATCTAATATTTTAC
1 TAAAATAAAAAATCTAACATTTTAC
*
2369152 TAAAATTAAAAAT-TAACATTTT
1 TAAAATAAAAAATCTAACATTTT
2369174 TATAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (25 bp):
TAAAATAAAAAATCTAACATTTTAC
Found at i:2370965 original size:24 final size:25
Alignment explanation
Indices: 2370911--2370965 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
2370901 TAAAATTTTA
* *
2370911 AAATTTTTTATTTATTTAAAAAATT
1 AAATATTTTATTTATATAAAAAATT
*
2370936 ATATATTTTATTTATAT-AAAAATT
1 AAATATTTTATTTATATAAAAAATT
2370960 AAATAT
1 AAATAT
2370966 GAATATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
AAATATTTTATTTATATAAAAAATT
Found at i:2372842 original size:14 final size:14
Alignment explanation
Indices: 2372825--2372854 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2372815 TTAATATATT
*
2372825 AATATATTTTTAAA
1 AATATATATTTAAA
2372839 AATATATATTTAAA
1 AATATATATTTAAA
2372853 AA
1 AA
2372855 AAAATGTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATATATATTTAAA
Found at i:2373265 original size:22 final size:22
Alignment explanation
Indices: 2373235--2373284 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
2373225 TTAAATTAAA
2373235 ATTA-TAGTATTAGAATATAAT
1 ATTATTAGTATTAGAATATAAT
2373256 ATTATTAGTATTAGAATATAAT
1 ATTATTAGTATTAGAATATAAT
2373278 ATTATTA
1 ATTATTA
2373285 CCTTTGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (22 bp):
ATTATTAGTATTAGAATATAAT
Found at i:2376725 original size:22 final size:22
Alignment explanation
Indices: 2376697--2376765 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
2376687 GATTTTTCAA
2376697 AAAAATAATTAAAATATAATAT
1 AAAAATAATTAAAATATAATAT
* *
2376719 AAAAATAAATACAATATAAATAT
1 AAAAATAATTAAAATAT-AATAT
* *
2376742 ATAAATATATTAAAAT-TTATAT
1 AAAAATA-ATTAAAATATAATAT
2376764 AA
1 AA
2376766 TACGAATTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 20 0.53
23 12 0.32
24 6 0.16
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAATAATTAAAATATAATAT
Found at i:2376734 original size:17 final size:19
Alignment explanation
Indices: 2376708--2376748 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
2376698 AAAATAATTA
*
2376708 AAATATAATATAAA-A-AT
1 AAATACAATATAAATATAT
2376725 AAATACAATATAAATATAT
1 AAATACAATATAAATATAT
2376744 AAATA
1 AAATA
2376749 TATTAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.62
18 1 0.05
19 7 0.33
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AAATACAATATAAATATAT
Found at i:2378872 original size:24 final size:23
Alignment explanation
Indices: 2378845--2378918 Score: 73
Period size: 23 Copynumber: 3.2 Consensus size: 23
2378835 TAAAGTATGG
2378845 ATATTAAATATAATTATATATTTA
1 ATATTAAATATAATTATAT-TTTA
* * *
2378869 ATA-TAAATATATTTTATTTTTTT
1 ATATTAAATATA-ATTATATTTTA
2378892 ATATTTAAA-A-AATTATATTTTA
1 ATA-TTAAATATAATTATATTTTA
2378914 ATATT
1 ATATT
2378919 TATATTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
21 2 0.05
22 11 0.27
23 15 0.37
24 9 0.22
25 4 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATATTAAATATAATTATATTTTA
Found at i:2378878 original size:15 final size:16
Alignment explanation
Indices: 2378845--2378882 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
2378835 TAAAGTATGG
*
2378845 ATATTAAATATAATTAT
1 ATATTTAATATAA-TAT
2378862 ATATTTAATATAA-AT
1 ATATTTAATATAATAT
2378877 ATATTT
1 ATATTT
2378883 TATTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
17 12 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATTTAATATAATAT
Found at i:2378907 original size:14 final size:14
Alignment explanation
Indices: 2378890--2378930 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
2378880 TTTTATTTTT
2378890 TTATATTTAAAAAA
1 TTATATTTAAAAAA
* * *
2378904 TTATATTTTAATAT
1 TTATATTTAAAAAA
2378918 TTATATTTAAAAA
1 TTATATTTAAAAA
2378931 TATCTCGATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTATATTTAAAAAA
Found at i:2378921 original size:28 final size:28
Alignment explanation
Indices: 2378852--2378930 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 28
2378842 TGGATATTAA
2378852 ATATAATTATATATTTAATATAAATATATTTT
1 ATAT-ATT-TATATTTAA-A-AAATATATTTT
* *
2378884 ATTTTTTTATATTTAAAAAATTATATTTT
1 ATATATTTATATTTAAAAAA-TATATTTT
2378913 A-ATATTTATATTTAAAAA
1 ATATATTTATATTTAAAAA
2378931 TATCTCGATT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
28 18 0.43
29 10 0.24
30 9 0.21
31 2 0.05
32 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
ATATATTTATATTTAAAAAATATATTTT
Found at i:2380730 original size:2 final size:2
Alignment explanation
Indices: 2380723--2380758 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2380713 GAATTTAGCC
2380723 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
2380759 GTCCATAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2381330 original size:14 final size:14
Alignment explanation
Indices: 2381311--2381348 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
2381301 ATAATTTAAA
2381311 TATTATTTTATGTT
1 TATTATTTTATGTT
* *
2381325 TATTATATTATTTT
1 TATTATTTTATGTT
2381339 TA-TATTTTAT
1 TATTATTTTAT
2381349 ATTATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (14 bp):
TATTATTTTATGTT
Found at i:2382247 original size:5 final size:5
Alignment explanation
Indices: 2382237--2382262 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2382227 TAATTTTTCC
2382237 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
2382263 GTATAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:2384591 original size:3 final size:3
Alignment explanation
Indices: 2384583--2384612 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
2384573 CCTAAATGAC
*
2384583 ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2384613 GTTGTTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:2387521 original size:2 final size:2
Alignment explanation
Indices: 2387514--2387542 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2387504 AACAGGTAGA
2387514 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 A
2387543 CACCCCTTAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2388509 original size:29 final size:29
Alignment explanation
Indices: 2388477--2388562 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
2388467 AGTTTTAGGT
*
2388477 TAAAATTTTATTTAAATATAATTATAAAA
1 TAAAAATTTATTTAAATATAATTATAAAA
*
2388506 TAAAAATTTATTTAAATTTAA-TA-AAAA
1 TAAAAATTTATTTAAATATAATTATAAAA
* * * *
2388533 TACGAAAGTTAATTTAAATAAAATGATAAA
1 TA--AAAATTTATTTAAATATAATTATAAA
2388563 GATTCAAAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
27 6 0.13
28 2 0.04
29 34 0.74
30 1 0.02
31 3 0.07
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.38
Consensus pattern (29 bp):
TAAAAATTTATTTAAATATAATTATAAAA
Found at i:2389455 original size:25 final size:26
Alignment explanation
Indices: 2389421--2389471 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
2389411 TCATCAAATG
*
2389421 ATTTATATTTT-TAAAAATAAATATTT
1 ATTTATATTTTATAAAAA-AAAAATTT
2389447 ATTTA-ATTTTATAAAAAAAAAATTT
1 ATTTATATTTTATAAAAAAAAAATTT
2389472 TAAATTGAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
ATTTATATTTTATAAAAAAAAAATTT
Found at i:2389473 original size:26 final size:26
Alignment explanation
Indices: 2389421--2389471 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
2389411 TCATCAAATG
*
2389421 ATTTATATTTTTAAAAATAAATATTT
1 ATTTATATTTTTAAAAAAAAATATTT
2389447 ATTTA-ATTTTATAAAAAAAAA-ATTT
1 ATTTATATTTT-TAAAAAAAAATATTT
2389472 TAAATTGAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
ATTTATATTTTTAAAAAAAAATATTT
Found at i:2389892 original size:32 final size:30
Alignment explanation
Indices: 2389850--2389948 Score: 103
Period size: 32 Copynumber: 3.2 Consensus size: 30
2389840 ATAAAATATT
2389850 TTATATTTATATAAATTTTAATAA-ATTAATAAG
1 TTATA-TTATATAAATTTTAATAATATT--T-AG
*
2389883 TTATATTATATAAATTTTAA-AATATTTAT
1 TTATATTATATAAATTTTAATAATATTTAG
* * *
2389912 TTATATTATATAATATTTTAATTATATATAA
1 TTATATTATATAA-ATTTTAATAATATTTAG
2389943 TTATAT
1 TTATAT
2389949 CTAATGCGAA
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
29 14 0.24
30 8 0.14
31 14 0.24
32 18 0.31
33 5 0.08
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (30 bp):
TTATATTATATAAATTTTAATAATATTTAG
Found at i:2389948 original size:21 final size:21
Alignment explanation
Indices: 2389816--2389938 Score: 61
Period size: 20 Copynumber: 6.2 Consensus size: 21
2389806 ATTATATTTA
* *
2389816 TATATT-TATTATATTATAAT
1 TATATTATATAATATTTTAAT
*
2389836 TATA--ATAAAATATTTT-A-
1 TATATTATATAATATTTTAAT
2389853 TAT-TTATATAA-ATTTTAA-
1 TATATTATATAATATTTTAAT
* *
2389871 TAAATTA-ATAAGTTATATT-AT
1 TATATTATATAA--TATTTTAAT
* * * *
2389892 ATAAATTTTAAAATA-TTTATT
1 -TATATTATATAATATTTTAAT
2389913 TATATTATATAATATTTTAAT
1 TATATTATATAATATTTTAAT
2389934 TATAT
1 TATAT
2389939 ATAATTATAT
Statistics
Matches: 76, Mismatches: 14, Indels: 25
0.66 0.12 0.22
Matches are distributed among these distances:
17 8 0.11
18 13 0.17
19 11 0.14
20 18 0.24
21 17 0.22
22 6 0.08
23 3 0.04
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.54
Consensus pattern (21 bp):
TATATTATATAATATTTTAAT
Found at i:2390942 original size:29 final size:28
Alignment explanation
Indices: 2390879--2390942 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
2390869 TTTGTTTATT
* *
2390879 TTTATATATTTTTATAATTAAAAATTAA
1 TTTAAATATTTTTATAAATAAAAATTAA
* *
2390907 ATAAAATATTTTTATTAAATAAATAA-TAA
1 TTTAAATATTTTTA-TAAATAAA-AATTAA
2390936 TTTAAAT
1 TTTAAAT
2390943 TAAACTTATT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
28 11 0.39
29 15 0.54
30 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
TTTAAATATTTTTATAAATAAAAATTAA
Done.