Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold153
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: 3137677
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 17 of 24
Found at i:2259674 original size:16 final size:17
Alignment explanation
Indices: 2259650--2259695 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
2259640 TATAAAAATA
*
2259650 ATATGATATAAATATGT
1 ATATAATATAAATATGT
*
2259667 A-ATTATATTAAA-ATGT
1 ATATAATA-TAAATATGT
2259683 ATATAATATAAAT
1 ATATAATATAAAT
2259696 TATTAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (17 bp):
ATATAATATAAATATGT
Found at i:2259679 original size:33 final size:32
Alignment explanation
Indices: 2259621--2259778 Score: 103
Period size: 32 Copynumber: 5.2 Consensus size: 32
2259611 AAATAATTTA
* *
2259621 AATATAATATAAA-A-T-ATGATATAAAAAT-
1 AATATAATATAAATATTAATTATATTAAAATG
*
2259649 AATATGATATAAATATGTAATTATATTAAAATG
1 AATATAATATAAATAT-TAATTATATTAAAATG
*
2259682 TATATAATATAAATTATTAATT-TATT-AAAT-
1 AATATAATATAAA-TATTAATTATATTAAAATG
2259712 --T-T-ATATAAATATATAA-TATATTAAAAATG
1 AATATAATATAAATAT-TAATTATATT-AAAATG
*
2259741 ATTATAATATAAAAATATATAA--ATA-TAAAATG
1 AATATAATAT--AAATAT-TAATTATATTAAAATG
2259773 AATATA
1 AATATA
2259779 TGAATGATTA
Statistics
Matches: 107, Mismatches: 6, Indels: 30
0.75 0.04 0.21
Matches are distributed among these distances:
25 4 0.04
26 14 0.13
27 1 0.01
28 17 0.16
29 1 0.01
31 6 0.06
32 27 0.25
33 21 0.20
34 6 0.06
35 10 0.09
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (32 bp):
AATATAATATAAATATTAATTATATTAAAATG
Found at i:2259696 original size:26 final size:26
Alignment explanation
Indices: 2259667--2259753 Score: 70
Period size: 31 Copynumber: 3.1 Consensus size: 26
2259657 ATAAATATGT
2259667 AATTATATTAAAATGTATATAATATA
1 AATTATATTAAAATGTATATAATATA
*
2259693 AATTATTAATTTATTAAATTTATATAAATATA
1 AATTA-T-A-TTA--AAATGTATAT-AATATA
2259725 TAA-TATATTAAAAATG-ATTATAATATA
1 -AATTATATT-AAAATGTA-TATAATATA
2259752 AA
1 AA
2259754 AATATATAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
26 7 0.14
27 8 0.16
28 8 0.16
29 5 0.10
30 2 0.04
31 10 0.20
32 8 0.16
33 2 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
AATTATATTAAAATGTATATAATATA
Found at i:2260239 original size:27 final size:27
Alignment explanation
Indices: 2260201--2260254 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
2260191 GTAATCATGA
*
2260201 ATATGATAAAAAAATAAT-TAAAATATT
1 ATATAATAAAAAAATAATAT-AAATATT
2260228 ATATAATAAAAAAATAATATAAATATT
1 ATATAATAAAAAAATAATATAAATATT
2260255 TAAATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (27 bp):
ATATAATAAAAAAATAATATAAATATT
Found at i:2262035 original size:17 final size:19
Alignment explanation
Indices: 2262009--2262048 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
2261999 AATATTTATT
2262009 TTTAAAAATTTA-AT-ATA
1 TTTAAAAATTTATATCATA
*
2262026 TTTAATAATTTATATCATA
1 TTTAAAAATTTATATCATA
2262045 TTTA
1 TTTA
2262049 TATCAACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 2 0.10
19 7 0.35
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTAAAAATTTATATCATA
Found at i:2262323 original size:2 final size:2
Alignment explanation
Indices: 2262316--2262354 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2262306 TAATTCGAGA
2262316 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2262355 GTGATGATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2262659 original size:25 final size:23
Alignment explanation
Indices: 2262618--2262693 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 23
2262608 TAGGCTCAAT
*
2262618 TTTTTATTTTATCATTTAAAAGTTA
1 TTTTTATTTAAT-ATTTAAAA-TTA
2262643 TTTTTATATTAATATTT--AA-TA
1 TTTTTAT-TTAATATTTAAAATTA
*
2262664 TTTTTATTTAA-ATTTAAAATAA
1 TTTTTATTTAATATTTAAAATTA
2262686 TTTTTATT
1 TTTTTATT
2262694 AGTTTCAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
19 4 0.09
20 4 0.09
21 11 0.24
22 9 0.20
23 2 0.04
25 11 0.24
26 4 0.09
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (23 bp):
TTTTTATTTAATATTTAAAATTA
Found at i:2264594 original size:23 final size:23
Alignment explanation
Indices: 2264567--2264654 Score: 87
Period size: 23 Copynumber: 4.0 Consensus size: 23
2264557 ATTAAATAAT
2264567 TTATATTATATTTATATATTTTA
1 TTATATTATATTTATATATTTTA
* *
2264590 TTATATCATAATTATATATTTTA
1 TTATATTATATTTATATATTTTA
* *
2264613 -TATA-AAT-TTTA-ATATTTAA
1 TTATATTATATTTATATATTTTA
*
2264632 TAAT-TTATATTATATATATTTTA
1 TTATATTATATT-TATATATTTTA
2264655 AGATATTTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
19 7 0.13
20 7 0.13
21 4 0.08
22 6 0.12
23 28 0.54
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (23 bp):
TTATATTATATTTATATATTTTA
Found at i:2264606 original size:34 final size:36
Alignment explanation
Indices: 2264561--2264646 Score: 108
Period size: 34 Copynumber: 2.5 Consensus size: 36
2264551 AATTAAATTA
*
2264561 AATAATTTATATTATATTTATAT-ATTTTATTATAT
1 AATAATTTATATTATATTTATATAATTTTAATATAT
* *
2264596 CATAA-TTATA-TAT-TTTATATAAATTTTAATATTT
1 AATAATTTATATTATATTTATAT-AATTTTAATATAT
2264630 AATAATTTATATTATAT
1 AATAATTTATATTATAT
2264647 ATATTTTAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
32 7 0.17
33 3 0.07
34 19 0.45
35 9 0.21
36 3 0.07
37 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (36 bp):
AATAATTTATATTATATTTATATAATTTTAATATAT
Found at i:2264610 original size:31 final size:30
Alignment explanation
Indices: 2264572--2264660 Score: 97
Period size: 34 Copynumber: 2.8 Consensus size: 30
2264562 ATAATTTATA
* *
2264572 TTATATTTATATATTTTATTATATCATAAT
1 TTATATTTATATATTTTAATATATAATAAT
*
2264602 TATATATTTTATATAAATTTTAATATTTAATAAT
1 T-TATA-TTTATAT--ATTTTAATATATAATAAT
*
2264636 TTATATTATATATATTTTAAGATAT
1 TTATATT-TATATATTTTAATATAT
2264661 TTATGTATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
30 1 0.02
31 14 0.29
32 9 0.18
33 9 0.18
34 16 0.33
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (30 bp):
TTATATTTATATATTTTAATATATAATAAT
Found at i:2264661 original size:33 final size:32
Alignment explanation
Indices: 2264561--2264663 Score: 91
Period size: 31 Copynumber: 3.0 Consensus size: 32
2264551 AATTAAATTA
* * *
2264561 AATAATTTATATTATATTTATATATTTTATTATAT
1 AATAATTTATATTATA--TATAT-TTTAAATATTT
* *
2264596 CATAATTATATATTTTATATAAATTTT-AATATTT
1 AATAATT-TATA--TTATATATATTTTAAATATTT
2264630 AATAATTTATATTATATATATTTTAAGATATTT
1 AATAATTTATATTATATATATTTTAA-ATATTT
2264663 A
1 A
2264664 TGTATATGTG
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
31 12 0.21
32 1 0.02
33 11 0.19
34 11 0.19
35 9 0.16
36 8 0.14
38 5 0.09
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (32 bp):
AATAATTTATATTATATATATTTTAAATATTT
Found at i:2265559 original size:18 final size:16
Alignment explanation
Indices: 2265536--2265575 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
2265526 TAAGGTAAAA
2265536 ATATAACACATTTAATAT
1 ATATAACA-A-TTAATAT
*
2265554 ATATAATAATTAATAT
1 ATATAACAATTAATAT
2265570 ATATAA
1 ATATAA
2265576 TATTTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.62
17 1 0.05
18 7 0.33
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAACAATTAATAT
Found at i:2265566 original size:16 final size:16
Alignment explanation
Indices: 2265547--2265577 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2265537 TATAACACAT
2265547 TTAATATATATAATAA
1 TTAATATATATAATAA
2265563 TTAATATATATAATA
1 TTAATATATATAATA
2265578 TTTATTTATT
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:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAATATATATAATAA
Found at i:2265996 original size:29 final size:26
Alignment explanation
Indices: 2265963--2266032 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 26
2265953 TTTAATTTAT
*
2265963 TTAAAATTTAATATATATAATCTATATAAA
1 TTAAAATATAA-A-ATATAAT-TAT-TAAA
2265993 -TAAAATATAAAATATAATTATTAAA
1 TTAAAATATAAAATATAATTATTAAA
*
2266018 TTAAAAAATATAAAT
1 TTAAAATATA-AAAT
2266033 TATATAGCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
25 4 0.11
26 11 0.31
27 11 0.31
28 1 0.03
29 9 0.25
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (26 bp):
TTAAAATATAAAATATAATTATTAAA
Found at i:2266295 original size:23 final size:23
Alignment explanation
Indices: 2266242--2266332 Score: 69
Period size: 23 Copynumber: 3.8 Consensus size: 23
2266232 ATTTAATAAA
*
2266242 AATATATAAAAATATTAAATTTAT
1 AATATAT-AAAATATTAAATATAT
*
2266266 AAAATATAAAATATT-AATATATT
1 AATATATAAAATATTAAATATA-T
* ** *
2266289 AATATATATAATAAAAAATA-AA
1 AATATATAAAATATTAAATATAT
2266311 AATATAATATAAATATATAAAT
1 AATAT-ATA-AAATAT-TAAAT
2266333 TATTAAATTT
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
22 10 0.19
23 24 0.46
24 14 0.27
25 4 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
AATATATAAAATATTAAATATAT
Found at i:2266310 original size:35 final size:33
Alignment explanation
Indices: 2266236--2266329 Score: 95
Period size: 33 Copynumber: 2.8 Consensus size: 33
2266226 ATATAAATTT
* *
2266236 AATAAAAATAT-ATAAAAATAT-TA-AATTTATAA
1 AATAAAAATATAATATAAATATATATAA--TAAAA
2266268 AATATAAAATATTAATATATTAATATATATAATAAAA
1 AATA-AAAATA-TAATATA--AATATATATAATAAAA
2266305 AATAAAAATATAATATAAATATATA
1 AATAAAAATATAATATAAATATATA
2266330 AATTATTAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
32 4 0.08
33 14 0.26
34 1 0.02
35 11 0.21
36 6 0.11
37 13 0.25
38 2 0.04
39 2 0.04
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (33 bp):
AATAAAAATATAATATAAATATATATAATAAAA
Found at i:2266328 original size:8 final size:8
Alignment explanation
Indices: 2266241--2266332 Score: 66
Period size: 8 Copynumber: 11.5 Consensus size: 8
2266231 AATTTAATAA
2266241 AAATATAT
1 AAATATAT
*
2266249 AAAAATATT
1 AAATATA-T
*
2266258 AAATTTAT
1 AAATATAT
2266266 AAA-ATAT
1 AAATATAT
2266273 AAA-ATAT
1 AAATATAT
*
2266280 TAATATAT
1 AAATATAT
*
2266288 TAATATAT
1 AAATATAT
*
2266296 ATAATA-AA
1 A-AATATAT
*
2266304 AAATA-AA
1 AAATATAT
2266311 AATATAATAT
1 AA-AT-ATAT
2266321 AAATATAT
1 AAATATAT
2266329 AAAT
1 AAAT
2266333 TATTAAATTT
Statistics
Matches: 70, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
7 20 0.29
8 34 0.49
9 13 0.19
10 3 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AAATATAT
Found at i:2267456 original size:18 final size:19
Alignment explanation
Indices: 2267433--2267471 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
2267423 CATCTTCTTG
2267433 TTGTTGTCCATGTT-CATC
1 TTGTTGTCCATGTTCCATC
*
2267451 TTGTTGTTCATGTTCCATC
1 TTGTTGTCCATGTTCCATC
2267470 TT
1 TT
2267472 ATGAAAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.10, C:0.21, G:0.15, T:0.54
Consensus pattern (19 bp):
TTGTTGTCCATGTTCCATC
Found at i:2270843 original size:25 final size:25
Alignment explanation
Indices: 2270787--2270833 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
2270777 TTTAAATTTG
2270787 ATTTTAAATATTAATATAAAAATAA
1 ATTTTAAATATTAATATAAAAATAA
* *
2270812 AATTTAAATATT-ATTTAAAAAT
1 ATTTTAAATATTAATATAAAAAT
2270834 GAGTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
ATTTTAAATATTAATATAAAAATAA
Found at i:2271370 original size:32 final size:32
Alignment explanation
Indices: 2271334--2271411 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
2271324 AGTAATTAAA
*
2271334 ATATAATATAAAATATAAATATTTTAAAATTT
1 ATATAATATAAAATATAAATATATTAAAATTT
* * *
2271366 ATATAATATAAAGTATTAATGTATTAAAATTT
1 ATATAATATAAAATATAAATATATTAAAATTT
2271398 ATATAAATATAAAA
1 ATAT-AATATAAAA
2271412 ATTTTTAAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
32 32 0.80
33 8 0.20
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (32 bp):
ATATAATATAAAATATAAATATATTAAAATTT
Found at i:2271377 original size:16 final size:16
Alignment explanation
Indices: 2271334--2271411 Score: 61
Period size: 16 Copynumber: 4.8 Consensus size: 16
2271324 AGTAATTAAA
*
2271334 ATATAATATAAAATAT
1 ATATAATATAAAATTT
* * *
2271350 AAATATTTTAAAATTT
1 ATATAATATAAAATTT
*
2271366 ATATAATATAAAGTATT
1 ATATAATATAAAAT-TT
*
2271383 A-AT-GTATTAAAATTT
1 ATATAATA-TAAAATTT
2271398 ATATAAATATAAAA
1 ATAT-AATATAAAA
2271412 ATTTTTAAAC
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
15 5 0.11
16 31 0.67
17 8 0.17
18 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
ATATAATATAAAATTT
Found at i:2272358 original size:32 final size:32
Alignment explanation
Indices: 2272322--2272395 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
2272312 TTTAATAACA
**
2272322 ATTAAATTTACGAGTAATTATACATAATATTC
1 ATTAAATTTAAAAGTAATTATACATAATATTC
* **
2272354 ATTAAATTTAAAAGTAATTTTATTTAATATTC
1 ATTAAATTTAAAAGTAATTATACATAATATTC
2272386 ATTAAATTTA
1 ATTAAATTTA
2272396 TAAAAAATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (32 bp):
ATTAAATTTAAAAGTAATTATACATAATATTC
Found at i:2272394 original size:16 final size:16
Alignment explanation
Indices: 2272346--2272395 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
2272336 TAATTATACA
2272346 TAATATTCATTAAATT
1 TAATATTCATTAAATT
* * * **
2272362 TAAAAGTAATTTTATT
1 TAATATTCATTAAATT
2272378 TAATATTCATTAAATT
1 TAATATTCATTAAATT
2272394 TA
1 TA
2272396 TAAAAAATTA
Statistics
Matches: 24, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (16 bp):
TAATATTCATTAAATT
Found at i:2273261 original size:23 final size:21
Alignment explanation
Indices: 2273234--2273282 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
2273224 TCTTATATCT
2273234 ATATAAATTTAAATAAATTAATA
1 ATATAAA-TTAAATAAATT-ATA
* * *
2273257 ATATATATTATATAAATTTTA
1 ATATAAATTAAATAAATTATA
2273278 ATATA
1 ATATA
2273283 TTTATATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 7 0.30
22 10 0.43
23 6 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATAAATTAAATAAATTATA
Found at i:2273326 original size:28 final size:28
Alignment explanation
Indices: 2273273--2273327 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
2273263 ATTATATAAA
* *
2273273 TTTTAATATATTTATATTATTTTTTATT
1 TTTTAATATATTTATATTAATATTTATT
*
2273301 TTTTAAT-TATTTTTATATAATATTTAT
1 TTTTAATATATTTATAT-TAATATTTAT
2273328 ATTATATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (28 bp):
TTTTAATATATTTATATTAATATTTATT
Found at i:2276110 original size:261 final size:266
Alignment explanation
Indices: 2275602--2276133 Score: 853
Period size: 261 Copynumber: 2.0 Consensus size: 266
2275592 ATAGGGAAAA
* *
2275602 AAAAATTCAAAACACCCCATCTTGTCTTACATACTTTCATGGGAATGGCTAATATCAAAGTAAGG
1 AAAAATTCAAAACACCCCATCTTATCTTACATACTTTCATGGGAATGGCTAATATCAAAGCAAGG
* * *
2275667 ATTCAAAAAAAAAAAAAAACTAGAAATATTTGATCAACATATATTTATTAGTACTGATTAAGTGT
66 ATTCAAAAAAAAAAAAAAACTAGAAAGATTTGATCAACATATATTTATTAGTACTAATTAAGAGT
* * *
2275732 TATTTATTTATTTAGTTTAATTTCTTTTATATTTTAATATATTATTTTTATTAAATTTTAAAAAA
131 TATTTAATTATTTAGTTTAAATTCTTTTATATTTTAATATATTACTTTTATTAAATTTTAAAAAA
*
2275797 ATAATTCATTAATTGTAATTTTTTCTTAGATATTATGCTAACTAACGTTATCAAGAATTGATTAA
196 ATAATTCATTAATTGTAATTTTTTCTTAAATATTATGCTAACTAACGTTATCAAGAATTGATTAA
2275862 CATTTT
261 CATTTT
2275868 AAAAA-TCAAAAC-CCCCATCTTATCTTACATACTTTCATGGGAATGGCTAATATCAAAGCAAGG
1 AAAAATTCAAAACACCCCATCTTATCTTACATACTTTCATGGGAATGGCTAATATCAAAGCAAGG
*
2275931 TTTC-AAAAAAAAAAAAAACTAGAAAGATTTGATCAACATATATTTATTAGTACTAATTAAGAGT
66 ATTCAAAAAAAAAAAAAAACTAGAAAGATTTGATCAACATATATTTATTAGTACTAATTAAGAGT
* * *
2275995 TATTTAATTA-TTATTTTAAATT-TTTTATATTTTAATGTATTACTTTTGTTAAA-TTTAAGAAA
131 TATTTAATTATTTAGTTTAAATTCTTTTATATTTTAATATATTACTTTTATTAAATTTTAA-AAA
* * *
2276057 AATAATTCATTAATTTTAATTTTTTTCTTAAATATTATGCTAA-TAATGTTATCAAGCATTGATT
195 AATAATTCATTAATTGTAA-TTTTTTCTTAAATATTATGCTAACTAACGTTATCAAGAATTGATT
2276121 AACATTTT
259 AACATTTT
2276129 AAAAA
1 AAAAA
2276134 AAGAAAACAA
Statistics
Matches: 248, Mismatches: 16, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
260 5 0.02
261 81 0.33
262 32 0.13
263 66 0.27
264 52 0.21
265 7 0.03
266 5 0.02
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (266 bp):
AAAAATTCAAAACACCCCATCTTATCTTACATACTTTCATGGGAATGGCTAATATCAAAGCAAGG
ATTCAAAAAAAAAAAAAAACTAGAAAGATTTGATCAACATATATTTATTAGTACTAATTAAGAGT
TATTTAATTATTTAGTTTAAATTCTTTTATATTTTAATATATTACTTTTATTAAATTTTAAAAAA
ATAATTCATTAATTGTAATTTTTTCTTAAATATTATGCTAACTAACGTTATCAAGAATTGATTAA
CATTTT
Found at i:2277264 original size:24 final size:25
Alignment explanation
Indices: 2277228--2277274 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
2277218 TTATATGAAA
* *
2277228 TTAATTTTTAAAA-AAATTAAAATT
1 TTAATTATCAAAATAAATTAAAATT
*
2277252 TTAATTATCAAAATTAATTAAAA
1 TTAATTATCAAAATAAATTAAAA
2277275 ATCTAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TTAATTATCAAAATAAATTAAAATT
Found at i:2281594 original size:2 final size:2
Alignment explanation
Indices: 2281587--2281616 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2281577 TCGAGAATTC
2281587 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
2281617 AGAGCTTGAA
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:2288007 original size:14 final size:14
Alignment explanation
Indices: 2287990--2288017 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2287980 AAAAAAATTT
2287990 AAAAAAACTCTAAA
1 AAAAAAACTCTAAA
2288004 AAAAAAACTCTAAA
1 AAAAAAACTCTAAA
2288018 TTCATTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAAAAACTCTAAA
Found at i:2288710 original size:31 final size:31
Alignment explanation
Indices: 2288671--2288766 Score: 90
Period size: 31 Copynumber: 3.1 Consensus size: 31
2288661 GTTGTGGTTC
2288671 AAAA-ATTATTTTTATTATTATTATATTATT
1 AAAATATTATTTTTATTATTATTATATTATT
* *
2288701 AAAATATTATTTTTA-AATTAATATATATAATT
1 AAAATATTATTTTTATTATT-AT-TATATTATT
* * **
2288733 AAAAT-TAAATAATATTATTATTTATATTATT
1 AAAATATTATTTTTATTATTA-TTATATTATT
2288764 AAA
1 AAA
2288767 TAATAATTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
30 7 0.13
31 29 0.55
32 17 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (31 bp):
AAAATATTATTTTTATTATTATTATATTATT
Found at i:2288734 original size:32 final size:31
Alignment explanation
Indices: 2288671--2288737 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 31
2288661 GTTGTGGTTC
* *
2288671 AAAA-ATTATTTTTATTATTATTATATTATT
1 AAAATATTATTTTTATTAATATTATATAATT
2288701 AAAATATTATTTTTAAATTAATA-TATATAATT
1 AAAATATTATTTTT--ATTAATATTATATAATT
2288733 AAAAT
1 AAAAT
2288738 TAAATAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 4 0.12
31 9 0.28
32 13 0.41
33 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (31 bp):
AAAATATTATTTTTATTAATATTATATAATT
Found at i:2288752 original size:19 final size:19
Alignment explanation
Indices: 2288702--2288752 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
2288692 TATATTATTA
* *
2288702 AAATATTATT-TTTAAATT
1 AAATAATATTATTAAAATT
*
2288720 -AATATATATAATTAAAATT
1 AAATA-ATATTATTAAAATT
2288739 AAATAATATTATTA
1 AAATAATATTATTA
2288753 TTTATATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 4 0.15
18 3 0.12
19 15 0.58
20 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATAATATTATTAAAATT
Found at i:2289676 original size:15 final size:16
Alignment explanation
Indices: 2289642--2289680 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
2289632 GACTTGTTGG
*
2289642 ATTAAACTTGAAATTTA
1 ATTAAA-TTGAAACTTA
2289659 ATTAAATTG-AACTTA
1 ATTAAATTGAAACTTA
2289674 ATTAAAT
1 ATTAAAT
2289681 AAAAAGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.57
16 3 0.14
17 6 0.29
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTAAATTGAAACTTA
Found at i:2289690 original size:27 final size:26
Alignment explanation
Indices: 2289660--2289722 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
2289650 TGAAATTTAA
*
2289660 TTAAATTGAACTTAATTAAATAAAAAG
1 TTAAATTGAA-TGAATTAAATAAAAAG
* *
2289687 TTAAATTTGAATGACTTAATTAAAAAG
1 TTAAA-TTGAATGAATTAAATAAAAAG
*
2289714 TTCAATTGA
1 TTAAATTGA
2289723 GGAAAGTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 4 0.13
27 22 0.71
28 5 0.16
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.37
Consensus pattern (26 bp):
TTAAATTGAATGAATTAAATAAAAAG
Found at i:2291081 original size:29 final size:30
Alignment explanation
Indices: 2291032--2291088 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
2291022 TTTTTCGAGG
* *
2291032 AAAAATTTCCTTCTAAAACTT-TTTCCACA
1 AAAAATTTCCATCGAAAACTTATTTCCACA
2291061 AAAAATTT-CATCGAAATACTTATTTCCA
1 AAAAATTTCCATCGAAA-ACTTATTTCCA
2291089 ATGAAAACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.25
29 12 0.50
30 6 0.25
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.37
Consensus pattern (30 bp):
AAAAATTTCCATCGAAAACTTATTTCCACA
Found at i:2296187 original size:2 final size:2
Alignment explanation
Indices: 2296175--2296208 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2296165 GCAAGAAACT
*
2296175 TA TA TA CA 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
2296209 GCAAAAGCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2299696 original size:18 final size:18
Alignment explanation
Indices: 2299660--2299701 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2299650 TTATGAAACT
**
2299660 AATATAAAATATTTAATA
1 AATATAAAATAAATAATA
*
2299678 AATATAAAATAAATCATA
1 AATATAAAATAAATAATA
2299696 AATATA
1 AATATA
2299702 GTATAATACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AATATAAAATAAATAATA
Found at i:2303442 original size:18 final size:18
Alignment explanation
Indices: 2303421--2303491 Score: 63
Period size: 18 Copynumber: 3.7 Consensus size: 18
2303411 ATAATTTATA
2303421 TTATATATTTTAAAATAT
1 TTATATATTTTAAAATAT
**
2303439 TTATATATTTATATTATAT
1 TTATATATTT-TAAAATAT
2303458 TTATATTATTTTTTAAAAT-T
1 TTATA-TA--TTTTAAAATAT
*
2303478 ATATTATATTTTAA
1 TTA-TATATTTTAA
2303492 TTATTTTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
18 16 0.37
19 11 0.26
20 7 0.16
21 6 0.14
22 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATATATTTTAAAATAT
Found at i:2303449 original size:31 final size:30
Alignment explanation
Indices: 2303382--2303459 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
2303372 GTATTTATAT
* * *
2303382 TATATTTATTTTTTATTTTTAATATATTAA
1 TATATTTATATTATATTTTTAAAATATTAA
*
2303412 TA-ATTTATATTATATATTTTAAAATATTTA
1 TATATTTATATTATAT-TTTTAAAATATTAA
2303442 TATATTTATATTATATTT
1 TATATTTATATTATATTT
2303460 ATATTATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 11 0.26
30 18 0.43
31 13 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (30 bp):
TATATTTATATTATATTTTTAAAATATTAA
Found at i:2303486 original size:40 final size:42
Alignment explanation
Indices: 2303404--2303509 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 42
2303394 TTATTTTTAA
*
2303404 TATATTAATAATTTATATTATATATTTTAAAATATTTATATATT
1 TATATT-AT-ATTTATATTATATATTTTAAAATATATATATATT
2303448 TATATTATATTTATATTAT-T-TTTTAAAAT-TATATTATATT
1 TATATTATATTTATATTATATATTTTAAAATATATA-TATATT
*
2303488 T-TAATTATTTTTTATATTATAT
1 TAT-ATTA-TATTTATATTATAT
2303510 TAATATCGTA
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
39 4 0.07
40 20 0.36
41 12 0.21
42 12 0.21
43 2 0.04
44 6 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (42 bp):
TATATTATATTTATATTATATATTTTAAAATATATATATATT
Found at i:2303510 original size:71 final size:72
Alignment explanation
Indices: 2303361--2303515 Score: 169
Period size: 71 Copynumber: 2.2 Consensus size: 72
2303351 AAAATTGACG
* **
2303361 TTATAATTTATGTATTTATATTATATTTATTTTTTATTTTTAATATATTAATAATTTATATTATA
1 TTAT-ATTTATATATTTATATTATATTTATTTTTTATTTAAAATATATTAATAATTTATATTATA
2303426 TATTTTAA
65 TATTTTAA
* *
2303434 -AATATTTATATATTTATATTATATTTATATTATTT-TTTAAAATTATATT-ATATTTTA-ATTA
1 TTATATTTATATATTTATATTATATTTAT-TT-TTTATTTAAAA-TATATTAATAATTTATATTA
2303495 T-T-TTTTATA
63 TATATTTTA-A
*
2303504 TTATATTAATAT
1 TTATATTTATAT
2303516 CGTATTTAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
69 5 0.07
70 2 0.03
71 38 0.54
72 16 0.23
73 9 0.13
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.63
Consensus pattern (72 bp):
TTATATTTATATATTTATATTATATTTATTTTTTATTTAAAATATATTAATAATTTATATTATAT
ATTTTAA
Found at i:2303515 original size:29 final size:28
Alignment explanation
Indices: 2303415--2303511 Score: 103
Period size: 29 Copynumber: 3.5 Consensus size: 28
2303405 ATATTAATAA
* *
2303415 TTTATATTATA-TAT-TTTAAAATA-TT
1 TTTATATTATATTATATTTTAATTATTT
*
2303440 TATATATTTATATTATA-TTTATATTATTT
1 TTTATA-TTATATTATATTTTA-ATTATTT
*
2303469 TTTAAAATTATATTATATTTTAATTATTT
1 TTT-ATATTATATTATATTTTAATTATTT
2303498 TTTATATTATATTA
1 TTTATATTATATTA
2303512 ATATCGTATT
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
25 5 0.08
26 5 0.08
27 6 0.10
28 13 0.22
29 24 0.41
30 6 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTATATTATATTATATTTTAATTATTT
Found at i:2305492 original size:16 final size:17
Alignment explanation
Indices: 2305471--2305504 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
2305461 TGACACGGTA
2305471 AAATATAATAT-AATAT
1 AAATATAATATAAATAT
2305487 AAATATAATATAAATAT
1 AAATATAATATAAATAT
2305504 A
1 A
2305505 TCAAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATATAATATAAATAT
Found at i:2305493 original size:11 final size:11
Alignment explanation
Indices: 2305472--2305504 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
2305462 GACACGGTAA
2305472 AATAT-AATAT
1 AATATAAATAT
2305482 AATATAAATAT
1 AATATAAATAT
2305493 AATATAAATAT
1 AATATAAATAT
2305504 A
1 A
2305505 TCAAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATAAATAT
Found at i:2305594 original size:23 final size:23
Alignment explanation
Indices: 2305568--2305616 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
2305558 AATTTTTTAA
**
2305568 ATATGATTATTATATGAATAAAT
1 ATATGATTATTATACAAATAAAT
*
2305591 ATATTATTATTATACAAATAAAT
1 ATATGATTATTATACAAATAAAT
2305614 ATA
1 ATA
2305617 CTAACACCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (23 bp):
ATATGATTATTATACAAATAAAT
Found at i:2306262 original size:23 final size:22
Alignment explanation
Indices: 2306215--2306274 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
2306205 GCTCAAACTT
* *
2306215 AAATTTTAATT-AAAATTTTTA
1 AAATATTAATTAAAAATATTTA
2306236 AAATATTAATTAAAAATAATTTA
1 AAATATTAATTAAAAAT-ATTTA
2306259 AAATA-TATATTAAAAA
1 AAATATTA-ATTAAAAA
2306275 ACTCTATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.29
22 7 0.21
23 17 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATATTAATTAAAAATATTTA
Found at i:2308342 original size:27 final size:27
Alignment explanation
Indices: 2308287--2308343 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
2308277 AGCTTCCTCC
* *
2308287 AAATTCAACCCTTTCAATGTGAGATGA
1 AAATTCAACCCTTTCAATATGAGAGGA
* * *
2308314 AAATTCAATCGTTTCAATATGGGAGGA
1 AAATTCAACCCTTTCAATATGAGAGGA
2308341 AAA
1 AAA
2308344 CACTCATTCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (27 bp):
AAATTCAACCCTTTCAATATGAGAGGA
Found at i:2311658 original size:20 final size:20
Alignment explanation
Indices: 2311626--2311663 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2311616 TAAAATTTCA
*
2311626 TAAAAATAATTAATTAAATC
1 TAAAAATAATTAAATAAATC
2311646 TAAAAA-AATTTAAATAAA
1 TAAAAATAA-TTAAATAAA
2311664 AAAAAACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAATAATTAAATAAATC
Found at i:2312243 original size:10 final size:10
Alignment explanation
Indices: 2312228--2312264 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
2312218 TTAAATTAAT
2312228 TTATTTTTTA
1 TTATTTTTTA
2312238 TTATTTTTTA
1 TTATTTTTTA
*
2312248 TATATTTATTA
1 T-TATTTTTTA
2312259 TTATTT
1 TTATTT
2312265 CAATAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTATTTTTTA
Found at i:2312413 original size:30 final size:29
Alignment explanation
Indices: 2312349--2312432 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 29
2312339 TTTCAAATAT
* * **
2312349 AAATTAGAAGTTAAAAATTTATTATGTTTT
1 AAATTAAAAGTTAAAAATTTATT-TGATGA
2312379 AAATTAAAAGTTAAAAATTTATTTGGATGA
1 AAATTAAAAGTTAAAAATTTATTT-GATGA
* * *
2312409 AAATTTAAATTTAAATATTTATTT
1 AAATTAAAAGTTAAAAATTTATTT
2312433 AAGTTTAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
29 1 0.02
30 45 0.98
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.45
Consensus pattern (29 bp):
AAATTAAAAGTTAAAAATTTATTTGATGA
Found at i:2312732 original size:30 final size:29
Alignment explanation
Indices: 2312698--2312759 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
2312688 ATTGATTTAT
* * *
2312698 ATTAAGAATTTATTTATATATGAATTAAAA
1 ATTAAAAATTTATTTAAATA-AAATTAAAA
2312728 ATTAAAAATTTATTTAAATAAAATTAAAA
1 ATTAAAAATTTATTTAAATAAAATTAAAA
2312757 ATT
1 ATT
2312760 TATTTGAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (29 bp):
ATTAAAAATTTATTTAAATAAAATTAAAA
Found at i:2312753 original size:22 final size:22
Alignment explanation
Indices: 2312725--2312769 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
2312715 ATATGAATTA
2312725 AAAATTAAAAATTTATTTAAAT
1 AAAATTAAAAATTTATTTAAAT
*
2312747 AAAATTAAAAATTTATTTGAAT
1 AAAATTAAAAATTTATTTAAAT
2312769 A
1 A
2312770 TAACAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAAATTAAAAATTTATTTAAAT
Found at i:2312779 original size:21 final size:22
Alignment explanation
Indices: 2312725--2312780 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
2312715 ATATGAATTA
*
2312725 AAAATTAAAAATTTATTTAAAT
1 AAAATCAAAAATTTATTTAAAT
* *
2312747 AAAATTAAAAATTTATTTGAAT
1 AAAATCAAAAATTTATTTAAAT
*
2312769 ATAA-CAAAAATT
1 AAAATCAAAAATT
2312781 AAAAGATTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 7 0.23
22 24 0.77
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAATCAAAAATTTATTTAAAT
Found at i:2312947 original size:34 final size:34
Alignment explanation
Indices: 2312904--2312973 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
2312894 AACTATAAGA
* *
2312904 ATAGTTGAATTGT-GCATGATTACAAGATATTCTT
1 ATAGTTGAATTGTGGC-CGATTACAAGATATTATT
*
2312938 ATAGTTGAATTGTGGCCGATTATAAGATATTATT
1 ATAGTTGAATTGTGGCCGATTACAAGATATTATT
2312972 AT
1 AT
2312974 TTTATATTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 30 0.94
35 2 0.06
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (34 bp):
ATAGTTGAATTGTGGCCGATTACAAGATATTATT
Found at i:2313429 original size:13 final size:13
Alignment explanation
Indices: 2313413--2313439 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2313403 TTTATTTTAA
2313413 AAAATATTATATT
1 AAAATATTATATT
2313426 AAAATATTATATT
1 AAAATATTATATT
2313439 A
1 A
2313440 TTAAATTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAATATTATATT
Found at i:2313675 original size:24 final size:25
Alignment explanation
Indices: 2313648--2313710 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 25
2313638 TTGTTTAAAA
2313648 TATATAAAATATTAAAAATT--ATT
1 TATATAAAATATTAAAAATTAAATT
* *
2313671 T-TATAATTAATATTTATAATTAAATT
1 TATATAA--AATATTAAAAATTAAATT
*
2313697 TAAATAAAATATTA
1 TATATAAAATATTA
2313711 TTTTAACTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
22 5 0.16
23 1 0.03
24 11 0.35
25 6 0.19
26 4 0.13
27 4 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TATATAAAATATTAAAAATTAAATT
Found at i:2313688 original size:13 final size:12
Alignment explanation
Indices: 2313670--2313711 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
2313660 TAAAAATTAT
2313670 TTTATAATTAATA
1 TTTATAATTAA-A
2313683 TTTATAATTAAA
1 TTTATAATTAAA
*
2313695 TTTA-AATAAAA
1 TTTATAATTAAA
2313706 TATTAT
1 T-TTAT
2313712 TTTAACTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 7 0.27
12 8 0.31
13 11 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTATAATTAAA
Found at i:2316386 original size:21 final size:21
Alignment explanation
Indices: 2316324--2316388 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 21
2316314 AATTTTAAAA
2316324 TTAAATTAAATAAAAATATT-T
1 TTAAATT-AATAAAAATATTAT
2316345 TT--ATTAATAAATAATA--AT
1 TTAAATTAATAAA-AATATTAT
*
2316363 TTAAATTTATAAAAATATTAT
1 TTAAATTAATAAAAATATTAT
2316384 TTAAA
1 TTAAA
2316389 ACTAAATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
18 9 0.24
19 11 0.30
20 8 0.22
21 9 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAAATTAATAAAAATATTAT
Found at i:2316611 original size:2 final size:2
Alignment explanation
Indices: 2316604--2316635 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2316594 ATATACAAAC
*
2316604 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2316636 TTTCTGTCTA
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:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2324955 original size:106 final size:107
Alignment explanation
Indices: 2324770--2324974 Score: 376
Period size: 106 Copynumber: 1.9 Consensus size: 107
2324760 TTGCTTTTTT
*
2324770 ATCTTGCAATTGCTTGATGCTAATTGTTTCCTTTTGCTTTGTGGTTGGTTGTGTGTATGGTCCTT
1 ATCTTGCAACTGCTTGATGCTAATTGTTTCCTTTTGCTTTGTGGTTGGTTGTGTGTATGGTCCTT
* *
2324835 TAAGATTCACAAATCAAATAAAA-TATTATCTCTAGACAAGG
66 TAACAATCACAAATCAAATAAAATTATTATCTCTAGACAAGG
2324876 ATCTTGCAACTGCTTGATGCTAATTGTTTCCTTTTGCTTTGTGGTTGGTTGTGTGTATGGTCCTT
1 ATCTTGCAACTGCTTGATGCTAATTGTTTCCTTTTGCTTTGTGGTTGGTTGTGTGTATGGTCCTT
2324941 TAACAATCACAAATCAAATAAAATTATTATCTCT
66 TAACAATCACAAATCAAATAAAATTATTATCTCT
2324975 TAACAAAGCT
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
106 85 0.89
107 10 0.11
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (107 bp):
ATCTTGCAACTGCTTGATGCTAATTGTTTCCTTTTGCTTTGTGGTTGGTTGTGTGTATGGTCCTT
TAACAATCACAAATCAAATAAAATTATTATCTCTAGACAAGG
Found at i:2330916 original size:15 final size:15
Alignment explanation
Indices: 2330882--2330962 Score: 90
Period size: 16 Copynumber: 5.0 Consensus size: 15
2330872 ATATAGTAAA
2330882 AAATATTTTATTTAATT
1 AAATA-TTTATTT-ATT
* *
2330899 AAATATATACTTATT
1 AAATATTTATTTATT
2330914 AAATATTTATTATATT
1 AAATATTTATT-TATT
2330930 AAATATTTATTTATT
1 AAATATTTATTTATT
2330945 ATTTAATATTTATTTATT
1 A---AATATTTATTTATT
2330963 TTTAAAAGTA
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
15 17 0.30
16 20 0.36
17 5 0.09
18 14 0.25
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (15 bp):
AAATATTTATTTATT
Found at i:2330923 original size:31 final size:32
Alignment explanation
Indices: 2330882--2330961 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 32
2330872 ATATAGTAAA
2330882 AAATATTTTATTTA-ATTAAATATATACTTATT
1 AAATA-TTTATTTATATTAAATATATACTTATT
* *
2330914 AAATATTTA-TTATATTAAATATTTATTTATT
1 AAATATTTATTTATATTAAATATATACTTATT
2330945 ATTTAATATTTATTTAT
1 A---AATATTTATTTAT
2330962 TTTTAAAAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
30 3 0.07
31 21 0.51
32 5 0.12
34 8 0.20
35 4 0.10
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (32 bp):
AAATATTTATTTATATTAAATATATACTTATT
Found at i:2330952 original size:18 final size:18
Alignment explanation
Indices: 2330909--2330989 Score: 82
Period size: 16 Copynumber: 4.8 Consensus size: 18
2330899 AAATATATAC
*
2330909 TTATTAAATATTTA-TTA
1 TTATTTAATATTTATTTA
*
2330926 -TATTAAATATTTATTTA
1 TTATTTAATATTTATTTA
2330943 TTATTTAATATTTATTTA
1 TTATTTAATATTTATTTA
** *
2330961 TT-TTTAA-AAGTATATA
1 TTATTTAATATTTATTTA
2330977 -TATTTAATATTTA
1 TTATTTAATATTTA
2330990 AATTTACTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
15 1 0.02
16 24 0.44
17 11 0.20
18 18 0.33
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (18 bp):
TTATTTAATATTTATTTA
Found at i:2336303 original size:15 final size:14
Alignment explanation
Indices: 2336278--2336330 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
2336268 ATGAATTCAG
*
2336278 ATTTAATTTAATTA
1 ATTTAATTTAAATA
2336292 ATTTATATTTAAATA
1 ATTTA-ATTTAAATA
*
2336307 ATTTAAAATTAAAT-
1 ATTT-AATTTAAATA
2336321 ATTATAATTT
1 ATT-TAATTT
2336331 TTTATTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 12 0.36
15 20 0.61
16 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTTAATTTAAATA
Found at i:2336396 original size:23 final size:23
Alignment explanation
Indices: 2336306--2336396 Score: 55
Period size: 23 Copynumber: 4.0 Consensus size: 23
2336296 ATATTTAAAT
2336306 AATTTAAAA-TTAAATATT-AT-
1 AATTTAAAATTTAAATATTAATA
*** *
2336326 AATTTTTTATTTAATTCATATAATA
1 AATTTAAAATTTAAAT-AT-TAATA
** * *
2336351 TTTTTAAAATAT-AATACTCAATA
1 AATTTAAAATTTAAATA-TTAATA
2336374 AATTTAAAATTTAAATATTAATA
1 AATTTAAAATTTAAATATTAATA
2336397 TTCAAATATT
Statistics
Matches: 48, Mismatches: 16, Indels: 11
0.64 0.21 0.15
Matches are distributed among these distances:
20 6 0.12
21 5 0.10
22 2 0.04
23 20 0.42
24 9 0.19
25 6 0.12
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (23 bp):
AATTTAAAATTTAAATATTAATA
Found at i:2337885 original size:23 final size:23
Alignment explanation
Indices: 2337855--2337902 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
2337845 AAATTTTCAT
*
2337855 TTTTTTATAAAATATCCTTTATA
1 TTTTTTATAAAATATCCTCTATA
2337878 TTTTTTATAAAATATCCTCTATA
1 TTTTTTATAAAATATCCTCTATA
2337901 TT
1 TT
2337903 ATATTTATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTTTTATAAAATATCCTCTATA
Found at i:2338047 original size:21 final size:21
Alignment explanation
Indices: 2338021--2338061 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
2338011 TATATTCGAA
2338021 TATGAGTGTCAAACTAATATC
1 TATGAGTGTCAAACTAATATC
*
2338042 TATGAGTGTCAAATTAATAT
1 TATGAGTGTCAAACTAATAT
2338062 TTATATGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (21 bp):
TATGAGTGTCAAACTAATATC
Found at i:2338123 original size:33 final size:33
Alignment explanation
Indices: 2338086--2338181 Score: 101
Period size: 33 Copynumber: 3.0 Consensus size: 33
2338076 TTTTTTATTT
**
2338086 TTTATATATTTAAAAAAAATTAAAAATAATATA
1 TTTATATAAATAAAAAAAATTAAAAATAATATA
* *
2338119 TTTATATCAAAT-AAAAATATTAAATATAA-ATA
1 TTTATAT-AAATAAAAAAAATTAAAAATAATATA
* *
2338151 TTTA-AAAAATATAAAAAATT-AAAATAATATA
1 TTTATATAAATAAAAAAAATTAAAAATAATATA
2338182 ATATATATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
30 10 0.19
31 11 0.21
32 7 0.13
33 22 0.42
34 2 0.04
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (33 bp):
TTTATATAAATAAAAAAAATTAAAAATAATATA
Found at i:2338162 original size:17 final size:17
Alignment explanation
Indices: 2338140--2338187 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
2338130 TAAAAATATT
2338140 AAATATAAATATTTAAA
1 AAATATAAATATTTAAA
* *
2338157 AAATATAAAAAATTAAA
1 AAATATAAATATTTAAA
2338174 ATAATATAATATAT
1 A-AATATAA-ATAT
2338188 ATTTATATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 16 0.64
18 7 0.28
19 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATAAATATTTAAA
Found at i:2338165 original size:32 final size:31
Alignment explanation
Indices: 2338099--2338181 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 31
2338089 ATATATTTAA
**
2338099 AAAAAATTAAAAATAATATATTTATATCAAAT
1 AAAAAATT-AAAATAATATATTTATAAAAAAT
2338131 AAAAATATTAAATATAA-ATATTTA-AAAAATAT
1 AAAAA-ATTAAA-ATAATATATTTATAAAAA-AT
2338163 AAAAAATTAAAATAATATA
1 AAAAAATTAAAATAATATA
2338182 ATATATATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
30 4 0.09
31 12 0.27
32 22 0.49
33 7 0.16
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (31 bp):
AAAAAATTAAAATAATATATTTATAAAAAAT
Found at i:2338618 original size:20 final size:21
Alignment explanation
Indices: 2338595--2338647 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
2338585 TCACAAATAT
2338595 AAATTTAATAATATT-TT-TAA
1 AAATTT-ATAATATTATTATAA
2338615 AAATTT-TAATATTATTATAA
1 AAATTTATAATATTATTATAA
*
2338635 ATATTTTATAATA
1 A-AATTTATAATA
2338648 AATAAAATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 7 0.25
19 2 0.07
20 10 0.36
21 4 0.14
22 5 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AAATTTATAATATTATTATAA
Found at i:2338873 original size:2 final size:2
Alignment explanation
Indices: 2338866--2338897 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
2338856 TGAACATAAA
2338866 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
2338898 AATTTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2340601 original size:17 final size:17
Alignment explanation
Indices: 2340567--2340621 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
2340557 TTGAATACGG
*
2340567 ATTAAAATAATAAT-AAT
1 ATTAAAA-AATTATAAAT
2340584 ATTAAATAAATT-TAAAT
1 ATTAAA-AAATTATAAAT
*
2340601 ATTTTAAAAATTATAAAT
1 A-TTAAAAAATTATAAAT
2340619 ATT
1 ATT
2340622 TAATTCATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.03
17 20 0.62
18 11 0.34
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTAAAAAATTATAAAT
Found at i:2340623 original size:17 final size:17
Alignment explanation
Indices: 2340581--2340625 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
2340571 AAATAATAAT
*
2340581 AATATTAAATAAATTTA
1 AATATTTAATAAATTTA
2340598 AATATTTTAA-AAATTATA
1 AATA-TTTAATAAATT-TA
2340616 AATATTTAAT
1 AATATTTAAT
2340626 TCATTATCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATTTAATAAATTTA
Found at i:2342522 original size:24 final size:24
Alignment explanation
Indices: 2342490--2342536 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
2342480 GTTAAATAAC
2342490 TATTATATAGAGTAAATAATTAAA
1 TATTATATAGAGTAAATAATTAAA
*
2342514 TATTATATAGAGTTAATAATTAA
1 TATTATATAGAGTAAATAATTAA
2342537 TAAAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (24 bp):
TATTATATAGAGTAAATAATTAAA
Found at i:2342537 original size:28 final size:25
Alignment explanation
Indices: 2342481--2342536 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
2342471 GATTTTAATG
* *
2342481 TTAAATAACTATTATATAGAGTAAA
1 TTAATTAAATATTATATAGAGTAAA
*
2342506 -TAATTAAATATTATATAGAGTTAA
1 TTAATTAAATATTATATAGAGTAAA
2342530 -TAATTAA
1 TTAATTAA
2342537 TAAAAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (25 bp):
TTAATTAAATATTATATAGAGTAAA
Found at i:2342545 original size:24 final size:24
Alignment explanation
Indices: 2342494--2342546 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
2342484 AATAACTATT
**
2342494 ATATAGAGTAAATAATTAAATATT
1 ATATAGAGTAAATAATTAAATAAA
*
2342518 ATATAGAGTTAATAATT-AATAAAA
1 ATATAGAGTAAATAATTAAAT-AAA
2342542 ATATA
1 ATATA
2342547 TATTTGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.36
Consensus pattern (24 bp):
ATATAGAGTAAATAATTAAATAAA
Found at i:2343279 original size:8 final size:8
Alignment explanation
Indices: 2343266--2343347 Score: 62
Period size: 8 Copynumber: 9.8 Consensus size: 8
2343256 ATTTAAAATA
2343266 TTATATAT
1 TTATATAT
2343274 TTATATAAAT
1 TTATAT--AT
2343284 TTAATATAT
1 TT-ATATAT
*
2343293 TAATA-AT
1 TTATATAT
2343300 TTATAT-T
1 TTATATAT
*
2343307 ATATAT-T
1 TTATATAT
2343314 TTAATATAT
1 TT-ATATAT
2343323 TTATATAT
1 TTATATAT
2343331 TCATATTATAT
1 T--TA-TATAT
2343342 TTATAT
1 TTATAT
2343348 TATTATAACT
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
7 14 0.23
8 23 0.38
9 8 0.13
10 6 0.10
11 10 0.16
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (8 bp):
TTATATAT
Found at i:2343285 original size:26 final size:26
Alignment explanation
Indices: 2343256--2343305 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
2343246 TCATAATTTT
2343256 ATTTAAAATATT-ATATATTTATATAA
1 ATTTAAAATATTAATA-ATTTATATAA
*
2343282 ATTTAATATATTAATAATTTATAT
1 ATTTAAAATATTAATAATTTATAT
2343306 TATATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
ATTTAAAATATTAATAATTTATATAA
Found at i:2343309 original size:31 final size:31
Alignment explanation
Indices: 2343218--2343341 Score: 100
Period size: 31 Copynumber: 4.1 Consensus size: 31
2343208 GAACTATTTA
* *
2343218 ATAATTTAA-ATATT-TTATA-TTATTTTTAT
1 ATAATTTAATATATTAATATATTTA-TATTAT
*
2343247 CATAATTT--TAT-TTAAAATATTATATATTTAT
1 -ATAATTTAATATATTAATATATT-TATA-TTAT
2343278 ATAAATTTAATATATTAATA-ATTTATATTAT
1 AT-AATTTAATATATTAATATATTTATATTAT
* * *
2343309 ATATTTTAATATATTTATATATTCATATTAT
1 ATAATTTAATATATTAATATATTTATATTAT
2343340 AT
1 AT
2343342 TTATATTATT
Statistics
Matches: 77, Mismatches: 7, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
28 2 0.03
29 5 0.06
30 26 0.34
31 29 0.38
32 4 0.05
33 6 0.08
34 5 0.06
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (31 bp):
ATAATTTAATATATTAATATATTTATATTAT
Found at i:2343353 original size:8 final size:9
Alignment explanation
Indices: 2343263--2343354 Score: 60
Period size: 8 Copynumber: 10.9 Consensus size: 9
2343253 TTTATTTAAA
2343263 ATATTATAT
1 ATATTATAT
2343272 AT-TTATAT
1 ATATTATAT
*
2343280 AAATT-TAAT
1 ATATTAT-AT
2343289 ATATTA-AT
1 ATATTATAT
2343297 A-A-T-T-T
1 ATATTATAT
2343302 ATATTATAT
1 ATATTATAT
*
2343311 ATTTTA-AT
1 ATATTATAT
2343319 ATATT-TAT
1 ATATTATAT
2343327 ATATTCATATT
1 ATATT-ATA-T
2343338 ATATT-TAT
1 ATATTATAT
2343346 ATTATTATA
1 A-TATTATA
2343355 ACTCATTATT
Statistics
Matches: 65, Mismatches: 4, Indels: 27
0.68 0.04 0.28
Matches are distributed among these distances:
5 2 0.03
6 2 0.03
7 2 0.03
8 27 0.42
9 22 0.34
10 4 0.06
11 6 0.09
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (9 bp):
ATATTATAT
Found at i:2347370 original size:117 final size:117
Alignment explanation
Indices: 2347195--2347412 Score: 283
Period size: 117 Copynumber: 1.9 Consensus size: 117
2347185 CAGTACCAGA
* * * *
2347195 ACTGGAACTGGTGAGGCTACTTGACATCCTGTCAATCCGCTTCCCAGAATTCAATAGGATCAGAG
1 ACTGGAACTAGTGAGGCTACTAGACATCCTATCAATCCGCTTCCCAGAACTCAATAGGATCAGAG
* * *
2347260 CTGGGGCTGCTGCTGTGGAGGATGGTGACGGTGTTGCTGAGTGTTCCGTGAT
66 CAGGAGCTGCTGCAGTGGAGGATGGTGACGGTGTTGCTGAGTGTTCCGTGAT
* * * * ** *
2347312 ACTGGAACTAGTGAGGCTACTAGCCATCCTATCAATCTGCTTGCCGGAACTCGGTAGGATCAGGG
1 ACTGGAACTAGTGAGGCTACTAGACATCCTATCAATCCGCTTCCCAGAACTCAATAGGATCAGAG
* * *
2347377 CAGGAGCTGTTGCAGTTGAGGATGGTGATGGTGTTG
66 CAGGAGCTGCTGCAGTGGAGGATGGTGACGGTGTTG
2347413 GTGACGCTTC
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
117 84 1.00
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.27
Consensus pattern (117 bp):
ACTGGAACTAGTGAGGCTACTAGACATCCTATCAATCCGCTTCCCAGAACTCAATAGGATCAGAG
CAGGAGCTGCTGCAGTGGAGGATGGTGACGGTGTTGCTGAGTGTTCCGTGAT
Found at i:2348479 original size:12 final size:12
Alignment explanation
Indices: 2348462--2348493 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
2348452 TATACATATT
2348462 TAAAATAAAATA
1 TAAAATAAAATA
2348474 TAAAATAAAATA
1 TAAAATAAAATA
*
2348486 AAAAATAA
1 TAAAATAA
2348494 TACTAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
TAAAATAAAATA
Found at i:2348561 original size:21 final size:21
Alignment explanation
Indices: 2348536--2348575 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2348526 AAATTTGTAT
2348536 TATATAAATTATT-AATAAAAA
1 TATATAAA-TATTAAATAAAAA
2348557 TATATAAATATTAAATAAA
1 TATATAAATATTAAATAAA
2348576 TCAATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TATATAAATATTAAATAAAAA
Found at i:2349133 original size:4 final size:4
Alignment explanation
Indices: 2349124--2349148 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2349114 ACAAAGTGAA
2349124 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
2349149 ACTTTTGGTG
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:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:2349769 original size:23 final size:22
Alignment explanation
Indices: 2349716--2349772 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
2349706 ATAATTTATG
* *
2349716 TATTTATATCTTATTATATATTT
1 TATTTA-ATGTTATGATATATTT
2349739 TA-TT-ATGTTATGATCATATTT
1 TATTTAATGTTATGAT-ATATTT
2349760 TATTTAATGTTAT
1 TATTTAATGTTAT
2349773 ATTTAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 8 0.28
21 8 0.28
22 4 0.14
23 9 0.31
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (22 bp):
TATTTAATGTTATGATATATTT
Found at i:2350083 original size:11 final size:10
Alignment explanation
Indices: 2350045--2350079 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
2350035 CATTTCATAA
*
2350045 TAAAAAATTT
1 TAAATAATTT
2350055 TAAATATATTT
1 TAAATA-ATTT
2350066 TAAATAATTT
1 TAAATAATTT
2350076 TAAA
1 TAAA
2350080 ATAAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TAAATAATTT
Found at i:2351087 original size:18 final size:19
Alignment explanation
Indices: 2351064--2351106 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
2351054 TTTTAAATTT
2351064 ATAAAAAAATATT-TAAAA
1 ATAAAAAAATATTATAAAA
*
2351082 AT-AAAAAATATTATAAAT
1 ATAAAAAAATATTATAAAA
2351100 ATAAAAA
1 ATAAAAA
2351107 TTTAAACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 10 0.45
18 8 0.36
19 4 0.18
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
ATAAAAAAATATTATAAAA
Found at i:2351089 original size:17 final size:18
Alignment explanation
Indices: 2351067--2351106 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
2351057 TAAATTTATA
2351067 AAAAAATATT-TAAAAAT
1 AAAAAATATTATAAAAAT
*
2351084 AAAAAATATTATAAATAT
1 AAAAAATATTATAAAAAT
2351102 AAAAA
1 AAAAA
2351107 TTTAAACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAAATATTATAAAAAT
Found at i:2352049 original size:14 final size:15
Alignment explanation
Indices: 2352003--2352062 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
2351993 ATATCTCTCC
2352003 TAAATTTATAATATT
1 TAAATTTATAATATT
* * **
2352018 TAAATTCACAA-AAA
1 TAAATTTATAATATT
2352032 TAAATTT-TAATATT
1 TAAATTTATAATATT
*
2352046 TAAATTTATACTATT
1 TAAATTTATAATATT
2352061 TA
1 TA
2352063 TTATTATCCC
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
13 2 0.06
14 15 0.44
15 17 0.50
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAATTTATAATATT
Found at i:2352295 original size:21 final size:20
Alignment explanation
Indices: 2352269--2352320 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
2352259 GTATTATTTA
*
2352269 TTATATTATTAAAATATTATT
1 TTATATTAAT-AAATATTATT
*
2352290 TTATATTAATAATTATATATT
1 TTATATTAATAAATAT-TATT
2352311 TTATAATTAA
1 TTAT-ATTAA
2352321 ATTTAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 5 0.19
21 17 0.63
22 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATATTAATAAATATTATT
Found at i:2353300 original size:16 final size:16
Alignment explanation
Indices: 2353275--2353305 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2353265 TTTTTATTAA
*
2353275 TATATTTAAAATATAT
1 TATATATAAAATATAT
2353291 TATATATAAAATATA
1 TATATATAAAATATA
2353306 ATTTAATTAA
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TATATATAAAATATAT
Found at i:2354697 original size:15 final size:15
Alignment explanation
Indices: 2354666--2354724 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
2354656 TATTTTAAAT
*
2354666 ATATATTATATATAA
1 ATATATTATAAATAA
*
2354681 ATATTTTAATAAA-AA
1 ATATATT-ATAAATAA
2354696 ATATATTATAAATAA
1 ATATATTATAAATAA
*
2354711 ATAAATTTATAAAT
1 ATATA-TTATAAAT
2354725 TATATATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 5 0.14
15 20 0.54
16 12 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATATTATAAATAA
Found at i:2354723 original size:30 final size:30
Alignment explanation
Indices: 2354666--2354723 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
2354656 TATTTTAAAT
* *
2354666 ATATATTATATATAAATATTTTAATAAAAA
1 ATATATTATAAATAAATAATTTAATAAAAA
2354696 ATATATTATAAATAAATAAATTT-ATAAA
1 ATATATTATAAATAAAT-AATTTAATAAA
2354724 TTATATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
ATATATTATAAATAAATAATTTAATAAAAA
Found at i:2354730 original size:30 final size:28
Alignment explanation
Indices: 2354657--2354736 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 28
2354647 AATAGATTTT
*
2354657 ATTT-TAAATATATATTATATATAAATA
1 ATTTATAAATATATATTATAAATAAATA
* *
2354684 TTTTAATAAAAAATATATTATAAATAAATAA
1 ATTT-AT-AAATATATATTATAAATAAAT-A
2354715 ATTTATAAATTATATATATATA
1 ATTTATAAA-TATATAT-TATA
2354737 TTAAAAATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
27 3 0.07
29 4 0.10
30 27 0.64
31 8 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTTATAAATATATATTATAAATAAATA
Found at i:2355202 original size:38 final size:38
Alignment explanation
Indices: 2355156--2355232 Score: 97
Period size: 38 Copynumber: 2.0 Consensus size: 38
2355146 CGTTAATATT
*
2355156 TTATTAAAAATTTTAATTTTA-TAT-TTTTATTATA-CTA
1 TTATTAAAAATATT--TTTTATTATGTTTTATTATATCTA
2355193 TTATATAAAAATATTTTTTATTATGTTTTATTATATCTA
1 TTAT-TAAAAATATTTTTTATTATGTTTTATTATATCTA
2355232 T
1 T
2355233 ATTTAAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
36 5 0.14
37 7 0.20
38 19 0.54
39 4 0.11
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (38 bp):
TTATTAAAAATATTTTTTATTATGTTTTATTATATCTA
Found at i:2355547 original size:16 final size:17
Alignment explanation
Indices: 2355509--2355548 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
2355499 TATAATATTT
*
2355509 AAAATATTTTTTAAATA
1 AAAATTTTTTTTAAATA
2355526 ATAAATTTTTTTTAAA-A
1 A-AAATTTTTTTTAAATA
2355543 AAAATT
1 AAAATT
2355549 AAACATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 5 0.24
17 3 0.14
18 13 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATTTTTTTTAAATA
Found at i:2359062 original size:22 final size:22
Alignment explanation
Indices: 2359034--2359082 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
2359024 ATTTGATTAT
*
2359034 TTATTTTAAAT-TTAAATTTAAA
1 TTATTTTAAATATT-AATTAAAA
2359056 TTATTTTAAATATTAATTAAAA
1 TTATTTTAAATATTAATTAAAA
2359078 TTATT
1 TTATT
2359083 CACACTTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTATTTTAAATATTAATTAAAA
Found at i:2361647 original size:22 final size:23
Alignment explanation
Indices: 2361622--2361668 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
2361612 TAAATTACGT
2361622 AAATTA-TAATTTTAATAATAAA
1 AAATTATTAATTTTAATAATAAA
*
2361644 AAATTATTTAATTTTAATTATAAA
1 AAATTA-TTAATTTTAATAATAAA
2361668 A
1 A
2361669 TATATAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.27
24 16 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AAATTATTAATTTTAATAATAAA
Found at i:2362091 original size:16 final size:16
Alignment explanation
Indices: 2362066--2362096 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2362056 GACTATTAAA
*
2362066 CTTAATTAACTAAAAC
1 CTTAAATAACTAAAAC
2362082 CTTAAATAACTAAAA
1 CTTAAATAACTAAAA
2362097 AAAGACTCAA
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:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (16 bp):
CTTAAATAACTAAAAC
Found at i:2362439 original size:27 final size:27
Alignment explanation
Indices: 2362408--2362489 Score: 83
Period size: 32 Copynumber: 2.9 Consensus size: 27
2362398 TATAATTATA
*
2362408 TTTAAAATATTATAAATTTATATAAAT
1 TTTAATATATTATAAATTTATATAAAT
*
2362435 TTTAATATATTAATAATATATTTTATATTAAT
1 TTTAATATATT-AT-A-A-A-TTTATATAAAT
* *
2362467 TTTAATATTTTATATATTTATAT
1 TTTAATATATTATAAATTTATAT
2362490 TATATTAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
27 17 0.37
28 3 0.07
29 1 0.02
30 2 0.04
31 3 0.07
32 20 0.43
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TTTAATATATTATAAATTTATATAAAT
Found at i:2362461 original size:18 final size:19
Alignment explanation
Indices: 2362440--2362481 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
2362430 TAAATTTTAA
2362440 TATATTAATAAT-ATATTT
1 TATATTAATAATAATATTT
**
2362458 TATATTAATTTTAATATTT
1 TATATTAATAATAATATTT
2362477 TATAT
1 TATAT
2362482 ATTTATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATATTAATAATAATATTT
Found at i:2362468 original size:32 final size:32
Alignment explanation
Indices: 2362424--2362540 Score: 105
Period size: 32 Copynumber: 3.7 Consensus size: 32
2362414 ATATTATAAA
*
2362424 TTTATATAAATTTTAATATATTAATAATATAT
1 TTTATATTAATTTTAATATATTAATAATATAT
* *
2362456 TTTATATTAATTTTAATAT-TTTATATATTTAT
1 TTTATATTAATTTTAATATATTAATA-ATATAT
* * * * * *
2362488 ATTATATTAATATT-ATTTTTTATCTATTATAT
1 TTTATATTAATTTTAATATATTA-ATAATATAT
*
2362520 TTTATATTTATTTTAAT-TATT
1 TTTATATTAATTTTAATATATT
2362541 TTTTATATGA
Statistics
Matches: 67, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
31 8 0.12
32 55 0.82
33 4 0.06
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (32 bp):
TTTATATTAATTTTAATATATTAATAATATAT
Found at i:2362515 original size:14 final size:14
Alignment explanation
Indices: 2362474--2362533 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 14
2362464 AATTTTAATA
2362474 TTTTATATATTTATAT
1 TTTTATATA-TTAT-T
2362490 TATATTA-ATATTATT
1 T-T-TTATATATTATT
* *
2362505 TTTTATCTATTATA
1 TTTTATATATTATT
2362519 TTTTATAT-TTATT
1 TTTTATATATTATT
2362532 TT
1 TT
2362534 AATTATTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
13 9 0.24
14 14 0.38
15 2 0.05
16 5 0.14
17 4 0.11
18 3 0.08
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTATATATTATT
Found at i:2362533 original size:25 final size:25
Alignment explanation
Indices: 2362440--2362534 Score: 74
Period size: 26 Copynumber: 3.8 Consensus size: 25
2362430 TAAATTTTAA
*
2362440 TATATTAATAATATATTTTA--TAT
1 TATATTAATATTATATTTTATCTAT
*
2362463 TAATTTTAATATTTTATATATTTA--TAT
1 T-ATATTAATA--TTATAT-TTTATCTAT
*
2362490 TATATTAATATTATTTTTTATCTAT
1 TATATTAATATTATATTTTATCTAT
*
2362515 TATATTTTATATT-TATTTTA
1 TATA-TTAATATTATATTTTA
2362535 ATTATTTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
23 5 0.08
24 13 0.22
25 13 0.22
26 20 0.34
27 8 0.14
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (25 bp):
TATATTAATATTATATTTTATCTAT
Found at i:2362545 original size:16 final size:19
Alignment explanation
Indices: 2362492--2362546 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
2362482 ATTTATATTA
2362492 TATTAATATTATTTTTTATC
1 TATT-ATATTATTTTTTATC
2362512 TATTATATT-TTATATTTAT-
1 TATTATATTATT-T-TTTATC
2362531 T-TTA-ATTATTTTTTAT
1 TATTATATTATTTTTTAT
2362547 ATGATATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
16 5 0.16
17 4 0.12
18 7 0.22
19 7 0.22
20 9 0.28
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (19 bp):
TATTATATTATTTTTTATC
Found at i:2362897 original size:20 final size:20
Alignment explanation
Indices: 2362872--2362911 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2362862 GCTCAGTCTA
2362872 TTTTAT-ATTAATATTTAAAT
1 TTTTATAATTAA-ATTTAAAT
2362892 TTTTATAATTAAATTTAAAT
1 TTTTATAATTAAATTTAAAT
2362912 AACATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTATAATTAAATTTAAAT
Found at i:2364508 original size:151 final size:148
Alignment explanation
Indices: 2364215--2364579 Score: 504
Period size: 151 Copynumber: 2.4 Consensus size: 148
2364205 TGCAATGGGT
* * * *
2364215 AACGGGAGACACAACACAACAGATTCAAGAAAGAGAAATAAATCTTCGACACCAAACTTTTTACG
1 AACGGGAGACACAACACAACAGATTCAAGAAAGAGCAAT-AATCTTTGACACCAAACATTTTACA
*
2364280 ATTTAATAATAGGAAGATCTATTTTAGAAATTGCAATAATGATATTAACATTGGAAAGAAATGAA
65 ATTTAATAATAGGAAGATCTATTTTAGAAATTGCAATAATGATATTAACATTGGAAACAAATGAA
2364345 AGAAGCAACAGGCAATCCATG
130 AGAAGCAACAGGCAA-CC-TG
* *
2364366 -ATGGGAGACACAACACAACAGATTCAAGAAAGAGCAATAACTCTTTTACACCAAAC-TTTTACA
1 AACGGGAGACACAACACAACAGATTCAAGAAAGAGCAATAA-TCTTTGACACCAAACATTTTACA
*
2364429 ATTTAATAATAGGGGCAGATCTATTTTA-AACATTAG-AATAATGATATTAACATTGGAAACAAA
65 ATTTAATAATA--GGAAGATCTATTTTAGAA-ATT-GCAATAATGATATTAACATTGGAAACAAA
2364492 TGAAAGAAGCAACAGGCAACCTG
126 TGAAAGAAGCAACAGGCAACCTG
* * *
2364515 CAACGGGAGACACAACAAAAACAGATTCGAGAAAGGGCAATTAATCTTTGACACCAAACATTTTA
1 -AACGGGAGACACAAC-ACAACAGATTCAAGAAAGAGCAA-TAATCTTTGACACCAAACATTTTA
2364580 TGATTACAGG
Statistics
Matches: 192, Mismatches: 12, Indels: 18
0.86 0.05 0.08
Matches are distributed among these distances:
149 21 0.11
150 53 0.28
151 75 0.39
152 35 0.18
153 8 0.04
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.22
Consensus pattern (148 bp):
AACGGGAGACACAACACAACAGATTCAAGAAAGAGCAATAATCTTTGACACCAAACATTTTACAA
TTTAATAATAGGAAGATCTATTTTAGAAATTGCAATAATGATATTAACATTGGAAACAAATGAAA
GAAGCAACAGGCAACCTG
Found at i:2365818 original size:14 final size:13
Alignment explanation
Indices: 2365776--2365824 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
2365766 TAGATTATTT
*
2365776 TTTTAATTTTAATTA
1 TTTTAAATTTAA--A
2365791 TTTTAAATTTAAA
1 TTTTAAATTTAAA
2365804 TTTTAAATCTTAAA
1 TTTTAAAT-TTAAA
*
2365818 TTATAAA
1 TTTTAAA
2365825 AGATATTCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 9 0.29
14 11 0.35
15 11 0.35
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTTAAATTTAAA
Found at i:2366031 original size:3 final size:3
Alignment explanation
Indices: 2366023--2366054 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2366013 ATAAATCTAA
2366023 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2366055 CAATAATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2373028 original size:24 final size:24
Alignment explanation
Indices: 2372999--2373053 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
2372989 TTTTGTGAGA
* *
2372999 ATATAAAT-TTTAAAATTTTAAA-
1 ATATAAATATTCAAAAATTTAAAT
2373021 ATATATAATATTCAAAAATTTAAAT
1 ATATA-AATATTCAAAAATTTAAAT
2373046 AT-TAAATA
1 ATATAAATA
2373054 AATAAAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 5 0.18
23 7 0.25
24 14 0.50
25 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
ATATAAATATTCAAAAATTTAAAT
Found at i:2373464 original size:31 final size:34
Alignment explanation
Indices: 2373404--2373469 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 34
2373394 TGACTCAACT
*
2373404 TGATAATCACATTACATATTAATTAATATTAATA
1 TGATAATCAAATTACATATTAATTAATATTAATA
*
2373438 TGATAAT-AAATTAC-TTTTAA-TAATATTAATA
1 TGATAATCAAATTACATATTAATTAATATTAATA
2373469 T
1 T
2373470 TTGAATAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 12 0.40
32 5 0.17
33 6 0.20
34 7 0.23
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (34 bp):
TGATAATCAAATTACATATTAATTAATATTAATA
Found at i:2373476 original size:17 final size:16
Alignment explanation
Indices: 2373422--2373477 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
2373412 ACATTACATA
2373422 TTAATTAATATTAATAT
1 TTAA-TAATATTAATAT
* *
2373439 GATAATAA-ATTACT-T
1 -TTAATAATATTAATAT
2373454 TTAATAATATTAATAT
1 TTAATAATATTAATAT
2373470 TTGAATAA
1 TT-AATAA
2373478 AGCAATATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
14 6 0.19
15 6 0.19
16 8 0.26
17 8 0.26
18 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (16 bp):
TTAATAATATTAATAT
Found at i:2374165 original size:29 final size:27
Alignment explanation
Indices: 2374144--2374217 Score: 98
Period size: 29 Copynumber: 2.7 Consensus size: 27
2374134 TAATATCAAC
2374144 TTAATTTTAA-TACTAAATTTAATTAAA
1 TTAATTTTAATTA-TAAATTTAATTAAA
2374171 TTAATTTTTAATTTATAAATTTAATTAAA
1 TTAA-TTTTAA-TTATAAATTTAATTAAA
2374200 TTAATTTTTAATT-TAAAT
1 TTAA-TTTTAATTATAAAT
2374218 AAACTGAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
27 9 0.20
28 8 0.18
29 25 0.57
30 2 0.05
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (27 bp):
TTAATTTTAATTATAAATTTAATTAAA
Found at i:2374206 original size:22 final size:21
Alignment explanation
Indices: 2374178--2374220 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2374168 AAATTAATTT
*
2374178 TTAATTTATAAATTTAATTAAA
1 TTAATTT-TAAATTTAAATAAA
*
2374200 TTAATTTTTAATTTAAATAAA
1 TTAATTTTAAATTTAAATAAA
2374221 CTGAATTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAATTTTAAATTTAAATAAA
Found at i:2379753 original size:15 final size:15
Alignment explanation
Indices: 2379733--2379762 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2379723 ACACGTACTG
2379733 GAATCAGAAGAGATA
1 GAATCAGAAGAGATA
*
2379748 GAATCAGGAGAGATA
1 GAATCAGAAGAGATA
2379763 TAAGGAGGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.30, T:0.13
Consensus pattern (15 bp):
GAATCAGAAGAGATA
Found at i:2381491 original size:3 final size:3
Alignment explanation
Indices: 2381485--2381527 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
2381475 AAAAAATATA
2381485 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2381528 CTGAAAACCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2382214 original size:13 final size:13
Alignment explanation
Indices: 2382198--2382264 Score: 57
Period size: 13 Copynumber: 5.0 Consensus size: 13
2382188 ATTATTTAGA
2382198 TATATATTTATAT
1 TATATATTTATAT
*
2382211 TATAT-TTAAATAT
1 TATATATT-TATAT
*
2382224 TTTATTATATTATAAT
1 TATA-TAT-TTAT-AT
2382240 TATAT-TTTATAT
1 TATATATTTATAT
*
2382252 TTTATATTTATAT
1 TATATATTTATAT
2382265 AAATGAAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
12 8 0.19
13 23 0.53
14 2 0.05
15 4 0.09
16 6 0.14
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATATATTTATAT
Found at i:2382223 original size:23 final size:23
Alignment explanation
Indices: 2382190--2382268 Score: 63
Period size: 23 Copynumber: 3.4 Consensus size: 23
2382180 AGCATCATAT
*
2382190 TATTTAGATATATATTTATATTA
1 TATTTAAATATATATTTATATTA
*
2382213 TATTTAAATAT-TTTATTATATTA
1 TATTTAAATATATAT-TTATATTA
* * *
2382236 TAATTATATTTTATATTTTATATT-
1 TATTTA-AATATATA-TTTATATTA
*
2382260 TATATAAAT
1 TATTTAAAT
2382269 GAAAAGTGTT
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
22 2 0.05
23 25 0.58
24 7 0.16
25 8 0.19
26 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (23 bp):
TATTTAAATATATATTTATATTA
Found at i:2382229 original size:18 final size:18
Alignment explanation
Indices: 2382201--2382253 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
2382191 ATTTAGATAT
2382201 ATATTTATATTATATTTAA
1 ATATTT-TATTATATTTAA
2382220 ATATTTTATTATATTATAA
1 ATATTTTATTATATT-TAA
* *
2382239 TTATATT-TTATATTT
1 ATATTTTATTATATTT
2382254 TATATTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 1 0.03
18 16 0.52
19 14 0.45
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATATTTTATTATATTTAA
Done.