Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold58
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: 1582273
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 125418 characters in sequence are not A, C, G, or T
File 8 of 10
Found at i:1180316 original size:29 final size:31
Alignment explanation
Indices: 1180284--1180344 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
1180274 ATTATAAAAA
*
1180284 TTTA-TAA-ATGTAAA-AATAAATTTTAAATT
1 TTTATTAATATGTAAATAAT-AATTTAAAATT
*
1180313 TTTATTAATATTTAAATAATAATTTAAAATT
1 TTTATTAATATGTAAATAATAATTTAAAATT
1180344 T
1 T
1180345 AAAATTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 4 0.15
30 3 0.11
31 17 0.63
32 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (31 bp):
TTTATTAATATGTAAATAATAATTTAAAATT
Found at i:1180345 original size:29 final size:28
Alignment explanation
Indices: 1180280--1180349 Score: 65
Period size: 30 Copynumber: 2.5 Consensus size: 28
1180270 TTTAATTATA
1180280 AAAATTTATAAATGTAAAAATAAATTTT
1 AAAATTTATAAATGTAAAAATAAATTTT
* *
1180308 AAATTTTTATTAATATTTAAATAAT-AA-TTT
1 AAA-ATTTA-TAA-ATGTAAA-AATAAATTTT
1180338 AAAATTTA-AAAT
1 AAAATTTATAAAT
1180350 TATTTTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
26 2 0.06
27 2 0.06
28 3 0.09
29 8 0.23
30 9 0.26
31 8 0.23
32 3 0.09
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (28 bp):
AAAATTTATAAATGTAAAAATAAATTTT
Found at i:1180560 original size:2 final size:2
Alignment explanation
Indices: 1180555--1180590 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1180545 AGTACATGTG
1180555 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
1180591 AATTAAAGAA
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):
TA
Found at i:1183591 original size:26 final size:28
Alignment explanation
Indices: 1183535--1183595 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
1183525 ATAAATTTGA
*
1183535 TTTATATATATTAAAATTTAAATAATAT
1 TTTATTTATATTAAAATTTAAATAATAT
*
1183563 TTTATTTATATTTAAA-TT-AAT-ATAAT
1 TTTATTTATATTAAAATTTAAATAAT-AT
1183589 TTTATTT
1 TTTATTT
1183596 TTTTAGATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 2 0.07
26 12 0.40
27 2 0.07
28 14 0.47
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTATTTATATTAAAATTTAAATAATAT
Found at i:1183592 original size:22 final size:22
Alignment explanation
Indices: 1183550--1183593 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1183540 ATATATTAAA
**
1183550 ATTTAAATAATATTTTATTTAT
1 ATTTAAATAATATAATATTTAT
1183572 ATTTAAATTAATATAAT-TTTAT
1 ATTTAAA-TAATATAATATTTAT
1183594 TTTTTTAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTAAATAATATAATATTTAT
Found at i:1183938 original size:5 final size:5
Alignment explanation
Indices: 1183925--1183957 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
1183915 ATGGAAAATG
*
1183925 TTTAA TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1183958 TGTGATACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:1184216 original size:21 final size:20
Alignment explanation
Indices: 1184178--1184217 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1184168 ATGTTACGAT
* *
1184178 AAATAAATTTAAAAAATTAA
1 AAATAAAATAAAAAAATTAA
1184198 AAATAAAATAAAAATAATTA
1 AAATAAAATAAAAA-AATTA
1184218 TATTTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATAAAATAAAAAAATTAA
Found at i:1185323 original size:16 final size:17
Alignment explanation
Indices: 1185294--1185326 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1185284 ATAATATAAA
1185294 AAATAATATAAATATGT
1 AAATAATATAAATATGT
*
1185311 AAAT-ATATGAATATGT
1 AAATAATATAAATATGT
1185327 TAAAATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (17 bp):
AAATAATATAAATATGT
Found at i:1185364 original size:32 final size:35
Alignment explanation
Indices: 1185284--1185369 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 35
1185274 AAAATATAAC
*
1185284 ATAATATA-AAAAA-TAATATAAATATGTAAATAT
1 ATAATATATAAAAATTTATATAAATATGTAAATAT
* * *
1185317 ATGAATATGTTAAAATTTATATAAA-AT-TAATTA-
1 AT-AATATATAAAAATTTATATAAATATGTAAATAT
1185350 ATAATATATAAAAATTTATA
1 ATAATATATAAAAATTTATA
1185370 ATATTTTGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
32 16 0.36
33 4 0.09
34 10 0.23
35 6 0.14
36 8 0.18
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (35 bp):
ATAATATATAAAAATTTATATAAATATGTAAATAT
Found at i:1186407 original size:20 final size:20
Alignment explanation
Indices: 1186300--1186433 Score: 59
Period size: 18 Copynumber: 6.8 Consensus size: 20
1186290 TTTCATAATT
*
1186300 TATTTATATTTATTTTTTATTA
1 TATTTATA-TTAATTTTTA-TA
* * *
1186322 TAATTATATTACAAATATTATA
1 TATTTATATT--AATTTTTATA
* **
1186344 TATTTATATAAAAATTTA-A
1 TATTTATATTAATTTTTATA
* * **
1186363 -AATAATATTAATAATT-TA
1 TATTTATATTAATTTTTATA
1186381 T-TTTATATTAATTTTTATA
1 TATTTATATTAATTTTTATA
*
1186400 TATTTATATT-TTATTTTATA
1 TATTTATATTAAT-TTTTATA
1186420 T-TTTA-ATT-ATTTTT
1 TATTTATATTAATTTTT
1186434 TTAAATTAAT
Statistics
Matches: 86, Mismatches: 19, Indels: 19
0.69 0.15 0.15
Matches are distributed among these distances:
17 4 0.05
18 27 0.31
19 9 0.10
20 22 0.26
21 2 0.02
22 17 0.20
23 5 0.06
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTATATTAATTTTTATA
Found at i:1186411 original size:27 final size:27
Alignment explanation
Indices: 1186379--1186431 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
1186369 ATTAATAATT
*
1186379 TATTTTATATTA-ATTTTTATATATTTA
1 TATTTTATATTATATTTTAAT-TATTTA
*
1186406 TATTTTATTTTATATTTTAATTATTT
1 TATTTTATATTATATTTTAATTATTT
1186432 TTTTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (27 bp):
TATTTTATATTATATTTTAATTATTTA
Found at i:1186470 original size:14 final size:14
Alignment explanation
Indices: 1186451--1186484 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
1186441 AATAATATTT
1186451 AATATTATTATATA
1 AATATTATTATATA
1186465 AATATTA-TATATA
1 AATATTATTATATA
1186478 AAT-TTAT
1 AATATTAT
1186485 AAAAATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 9 0.47
14 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATATTATTATATA
Found at i:1186470 original size:21 final size:22
Alignment explanation
Indices: 1186444--1186513 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 22
1186434 TTAAATTAAT
1186444 AATATTTAATAT-TATTATATA
1 AATATTTAATATATATTATATA
*
1186465 AATA-TTATATATAAATT-TATA
1 AATATTTA-ATATATATTATATA
* * *
1186486 AAAATATAATATAATATGATATA
1 AATATTTAATAT-ATATTATATA
1186509 AATAT
1 AATAT
1186514 AATTTTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
20 3 0.08
21 19 0.50
22 8 0.21
23 8 0.21
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (22 bp):
AATATTTAATATATATTATATA
Found at i:1186501 original size:10 final size:11
Alignment explanation
Indices: 1186460--1186516 Score: 55
Period size: 10 Copynumber: 5.2 Consensus size: 11
1186450 TAATATTATT
1186460 ATATAAATATTA
1 ATATAAATA-TA
*
1186472 TATATAAAT-TT
1 -ATATAAATATA
*
1186483 ATAAAAATATA
1 ATATAAATATA
*
1186494 ATAT-AATATG
1 ATATAAATATA
1186504 ATATAAATATA
1 ATATAAATATA
1186515 AT
1 AT
1186517 TTTAAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
10 16 0.44
11 12 0.33
13 8 0.22
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
ATATAAATATA
Found at i:1186530 original size:23 final size:22
Alignment explanation
Indices: 1186458--1186537 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 22
1186448 TTTAATATTA
*
1186458 TTATATAAATATTATATATAAAT
1 TTATATAAATATAATATA-AAAT
* *
1186481 TTATAAAAATATAATATAATA-
1 TTATATAAATATAATATAAAAT
* *
1186502 TGATATAAATATAATTTTAAAAT
1 TTATATAAATATAA-TATAAAAT
1186525 TTATAT-AATATAA
1 TTATATAAATATAA
1186538 ATTATTAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
21 12 0.26
22 14 0.30
23 21 0.45
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (22 bp):
TTATATAAATATAATATAAAAT
Found at i:1186550 original size:22 final size:23
Alignment explanation
Indices: 1186458--1186546 Score: 69
Period size: 23 Copynumber: 3.9 Consensus size: 23
1186448 TTTAATATTA
* *
1186458 TTATATAAATATTA-TATATAAAT
1 TTATATAAATATAATTTTA-AAAT
* * *
1186481 TTATAAAAATATAA-TATAATA-
1 TTATATAAATATAATTTTAAAAT
*
1186502 TGATATAAATATAATTTTAAAAT
1 TTATATAAATATAATTTTAAAAT
1186525 TTATAT-AATATAAATTATTAAA
1 TTATATAAATAT-AATT-TTAAA
1186547 TTATTTTCTG
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
21 12 0.22
22 12 0.22
23 25 0.46
24 5 0.09
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (23 bp):
TTATATAAATATAATTTTAAAAT
Found at i:1191500 original size:14 final size:15
Alignment explanation
Indices: 1191473--1191501 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1191463 ATTATGTATA
1191473 TAAATATATTTTAAT
1 TAAATATATTTTAAT
1191488 TAAATAT-TTTTAAT
1 TAAATATATTTTAAT
1191502 GATTATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TAAATATATTTTAAT
Found at i:1191970 original size:22 final size:22
Alignment explanation
Indices: 1191945--1191991 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1191935 AATAAATTAG
1191945 TTAT-TAAAATTAAAAATATAAT
1 TTATGTAAAATTAAAAAT-TAAT
**
1191967 TTATGTAAAATTTTAAATTAAT
1 TTATGTAAAATTAAAAATTAAT
1191989 TTA
1 TTA
1191992 ATATTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TTATGTAAAATTAAAAATTAAT
Found at i:1192772 original size:6 final size:6
Alignment explanation
Indices: 1192757--1192787 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
1192747 ATATAATATT
1192757 ATTT-A ATTTAA ATTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT
1192788 AATAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:1202524 original size:2 final size:2
Alignment explanation
Indices: 1202517--1202553 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1202507 AGCACGCACA
1202517 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 A
1202554 AACTAACAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1203378 original size:3 final size:3
Alignment explanation
Indices: 1203370--1203408 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1203360 GCATAGAAGG
1203370 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1203409 TTCATAAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1206847 original size:6 final size:6
Alignment explanation
Indices: 1206810--1206846 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
1206800 CTTTTGAAAG
* *
1206810 ACAATA ACAATA ACAATA ACAATA ATAATA ATAATA A
1 ACAATA ACAATA ACAATA ACAATA ACAATA ACAATA A
1206847 TCAAAATACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.22
Consensus pattern (6 bp):
ACAATA
Found at i:1207366 original size:2 final size:2
Alignment explanation
Indices: 1207359--1207393 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1207349 TCATTACAAA
1207359 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1207394 TTAGGGTAAT
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:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1210285 original size:14 final size:14
Alignment explanation
Indices: 1210262--1210301 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
1210252 AGATAACACA
* *
1210262 ATTAAATTAATATT
1 ATTAATTTAATAAT
1210276 ATTAATTTAATAAT
1 ATTAATTTAATAAT
1210290 ATTAAATTTAAT
1 ATT-AATTTAAT
1210302 TAAGTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTAATTTAATAAT
Found at i:1210782 original size:138 final size:138
Alignment explanation
Indices: 1210593--1210855 Score: 355
Period size: 138 Copynumber: 1.9 Consensus size: 138
1210583 TTACTAAGGT
*
1210593 TAAAATAATTTAGTAAGAAGATGATAATATAATAATTTATATCATATTTATACATATAATATCAA
1 TAAAATAATTTAGTAAGAAGATGATAATATAATAATTTATATCATACTTATACATATAATATCAA
* ** * *
1210658 TTGGTATTTATCATTTTAAGGTAAAATAAAATGATATAAATCACATGTCATTTTAGTTTATATGT
66 TTGATATTTATCATTTTAAAATAAAATAAAATAATATAAATCACATGACATTTTAGTTTATATGT
1210723 ACCAAAGC
131 ACCAAAGC
* * * * * * **
1210731 TAAAATAATTTAGTAAGATGATGGTAGTATAGTAATTTATATCGTACTTATACATGTCGTATCAA
1 TAAAATAATTTAGTAAGAAGATGATAATATAATAATTTATATCATACTTATACATATAATATCAA
* * * **
1210796 TTGATATTTATTATTTTAAAATAAAATAAAATAATATCAATTATGTGACATTTTAGTTTA
66 TTGATATTTATCATTTTAAAATAAAATAAAATAATATAAATCACATGACATTTTAGTTTA
1210856 AGTGTCTATC
Statistics
Matches: 106, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
138 106 1.00
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (138 bp):
TAAAATAATTTAGTAAGAAGATGATAATATAATAATTTATATCATACTTATACATATAATATCAA
TTGATATTTATCATTTTAAAATAAAATAAAATAATATAAATCACATGACATTTTAGTTTATATGT
ACCAAAGC
Found at i:1211199 original size:19 final size:21
Alignment explanation
Indices: 1211160--1211214 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
1211150 TTTTAAAATT
1211160 TATATATACATAAAACATATA
1 TATATATACATAAAACATATA
* *
1211181 TATATATA-ATAAAAGTATATT
1 TATATATACATAAAA-CATATA
*
1211202 TATATATATATAA
1 TATATATACATAA
1211215 TATGCATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 6 0.20
21 20 0.67
22 4 0.13
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (21 bp):
TATATATACATAAAACATATA
Found at i:1211278 original size:19 final size:20
Alignment explanation
Indices: 1211250--1211289 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
1211240 AATAAATCAT
1211250 AAATATATAAAAAAATTAAA
1 AAATATATAAAAAAATTAAA
* *
1211270 AAATA-ATAATAAACTTAAA
1 AAATATATAAAAAAATTAAA
1211289 A
1 A
1211290 TGATACATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (20 bp):
AAATATATAAAAAAATTAAA
Found at i:1211842 original size:14 final size:14
Alignment explanation
Indices: 1211816--1211854 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
1211806 AGTACAAAAA
1211816 TTAAAATATTAAAT
1 TTAAAATATTAAAT
* *
1211830 TTAATAATATAAAAA
1 TTAA-AATATTAAAT
1211845 TTAAAATATT
1 TTAAAATATT
1211855 TTGTTATCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAAAATATTAAAT
Found at i:1212132 original size:15 final size:16
Alignment explanation
Indices: 1212102--1212140 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
1212092 TAAGTGAGAG
1212102 AAAAAAATAAACAAGT
1 AAAAAAATAAACAAGT
* *
1212118 ATAAAAAT-AATAAGT
1 AAAAAAATAAACAAGT
1212133 AAAAAAAT
1 AAAAAAAT
1212141 TGTATGACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (16 bp):
AAAAAAATAAACAAGT
Found at i:1215263 original size:6 final size:6
Alignment explanation
Indices: 1215252--1215293 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
1215242 CTGAAGCTGT
* *
1215252 CAATGG CGATGG CAATGG CAATGG CGATGG CAATGG CAATGG
1 CAATGG CAATGG CAATGG CAATGG CAATGG CAATGG CAATGG
1215294 TCTCATGACG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.29, C:0.17, G:0.38, T:0.17
Consensus pattern (6 bp):
CAATGG
Found at i:1215275 original size:18 final size:18
Alignment explanation
Indices: 1215252--1215293 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
1215242 CTGAAGCTGT
1215252 CAATGGCGATGGCAATGG
1 CAATGGCGATGGCAATGG
1215270 CAATGGCGATGGCAATGG
1 CAATGGCGATGGCAATGG
1215288 CAATGG
1 CAATGG
1215294 TCTCATGACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.38, T:0.17
Consensus pattern (18 bp):
CAATGGCGATGGCAATGG
Found at i:1222626 original size:2 final size:2
Alignment explanation
Indices: 1222619--1222645 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1222609 TAAAATTACA
1222619 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 A
1222646 GTAGCGGTAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1222919 original size:6 final size:6
Alignment explanation
Indices: 1222883--1222918 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
1222873 TTCAATGGGA
* *
1222883 AAAGGG AAAAGG AAAGGG AAAGGG AAAGGG GAAGGG
1 AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG
1222919 GGGGAGCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (6 bp):
AAAGGG
Found at i:1224546 original size:32 final size:32
Alignment explanation
Indices: 1224504--1224579 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 32
1224494 TTTCTTACCG
*
1224504 ATTTACTTATTTATTTATTTTACATAAGCCAC
1 ATTTATTTATTTATTTATTTTACATAAGCCAC
** *
1224536 ATTTATTTATTTATTTATTTTTGATAAGCCTC
1 ATTTATTTATTTATTTATTTTACATAAGCCAC
1224568 ATTTATTTATTT
1 ATTTATTTATTT
1224580 TGATAAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.28, C:0.11, G:0.04, T:0.58
Consensus pattern (32 bp):
ATTTATTTATTTATTTATTTTACATAAGCCAC
Found at i:1225147 original size:15 final size:15
Alignment explanation
Indices: 1225124--1225216 Score: 50
Period size: 15 Copynumber: 6.3 Consensus size: 15
1225114 TATTAATGCC
*
1225124 TAAATTTTATTTTAT
1 TAAAATTTATTTTAT
*
1225139 TAAAATTTATTTTAA
1 TAAAATTTATTTTAT
* * *
1225154 TATAATATT-TTTGAC
1 TAAAAT-TTATTTTAT
*
1225169 TAAAATTT-TTATA-
1 TAAAATTTATTTTAT
* *
1225182 TAAAACTTA-TTAAT
1 TAAAATTTATTTTAT
*
1225196 TATAATATTATTTTTAT
1 TAAAAT-TTA-TTTTAT
1225213 TAAA
1 TAAA
1225217 TAATTAGATA
Statistics
Matches: 57, Mismatches: 15, Indels: 10
0.70 0.18 0.12
Matches are distributed among these distances:
13 9 0.16
14 9 0.16
15 30 0.53
16 2 0.04
17 7 0.12
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (15 bp):
TAAAATTTATTTTAT
Found at i:1226643 original size:2 final size:2
Alignment explanation
Indices: 1226638--1226667 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1226628 ATATTTAGTT
*
1226638 TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1226668 AAGATAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1227061 original size:14 final size:16
Alignment explanation
Indices: 1227024--1227064 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
1227014 TATTATTTTA
1227024 AATACTTATTTAATATT
1 AATA-TTATTTAATATT
*
1227041 AAAATTATTT-AT-TT
1 AATATTATTTAATATT
1227055 AATATTATTT
1 AATATTATTT
1227065 TTAATATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 11 0.50
15 2 0.09
16 6 0.27
17 3 0.14
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
AATATTATTTAATATT
Found at i:1227067 original size:16 final size:18
Alignment explanation
Indices: 1227003--1227061 Score: 59
Period size: 20 Copynumber: 3.3 Consensus size: 18
1226993 TATATATTTT
1227003 TATTAATTATTTA-TT-A
1 TATTAATTATTTATTTAA
* * *
1227019 TTTTAAATACTTATTTAA
1 TATTAATTATTTATTTAA
1227037 TATTAAAATTATTTATTTAA
1 TATT--AATTATTTATTTAA
1227057 TATTA
1 TATTA
1227062 TTTTTAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
16 10 0.30
17 2 0.06
18 5 0.15
20 16 0.48
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTAATTATTTATTTAA
Found at i:1227454 original size:16 final size:16
Alignment explanation
Indices: 1227433--1227498 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
1227423 AAATTTATAT
1227433 TTTAAATATAAATTTA
1 TTTAAATATAAATTTA
*
1227449 TTTAAAT-TATTATTT-
1 TTTAAATATA-AATTTA
*
1227464 TTT-AATAAAAATTTA
1 TTTAAATATAAATTTA
** *
1227479 TTTTTATTTAAATTTA
1 TTTAAATATAAATTTA
1227495 TTTA
1 TTTA
1227499 TAAATATTAG
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
14 7 0.18
15 9 0.23
16 23 0.59
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTAAATATAAATTTA
Found at i:1229297 original size:30 final size:31
Alignment explanation
Indices: 1229217--1229300 Score: 127
Period size: 30 Copynumber: 2.8 Consensus size: 31
1229207 CAATACACTT
* *
1229217 AAATAAACTTTCAATTTTT-ATTTTATATTT
1 AAATAAACTTTTAATTTTTAATTTTATATTA
*
1229247 AAATAAACTTTTAATCTTTAATTTT-TATTA
1 AAATAAACTTTTAATTTTTAATTTTATATTA
1229277 AAATAAACTTTTAATTTTTAATTT
1 AAATAAACTTTTAATTTTTAATTT
1229301 GTACCTAAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 44 0.90
31 5 0.10
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (31 bp):
AAATAAACTTTTAATTTTTAATTTTATATTA
Found at i:1230834 original size:12 final size:13
Alignment explanation
Indices: 1230798--1230849 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
1230788 TTTTTATATA
*
1230798 AATTTTATTATTAA
1 AATTTTATT-TTAT
* *
1230812 AAATATATTTT-T
1 AATTTTATTTTAT
*
1230824 TATTTTATTTTAT
1 AATTTTATTTTAT
1230837 AATTTTATTTTAT
1 AATTTTATTTTAT
1230850 TTTTAATTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
12 8 0.27
13 15 0.50
14 7 0.23
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
AATTTTATTTTAT
Found at i:1230842 original size:18 final size:17
Alignment explanation
Indices: 1230821--1230857 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
1230811 AAAATATATT
1230821 TTTTATTTTATTTTATAA
1 TTTTATTTTATTTT-TAA
1230839 TTTTATTTTATTTTTAA
1 TTTTATTTTATTTTTAA
1230856 TT
1 TT
1230858 AAATTCGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTTATTTTTAA
Found at i:1230859 original size:48 final size:50
Alignment explanation
Indices: 1230762--1230860 Score: 114
Period size: 50 Copynumber: 2.0 Consensus size: 50
1230752 AAATTTTTAT
* * *
1230762 AAATATATATTTTTACTTATTTTTTATTTTTATATAAATTTTATTATTAA
1 AAATATATATTTTTACTTATTTTATAATTTTATATAAATTTTATAATTAA
* **
1230812 AAATATAT-TTTTTATTTTATTTTATAATTTTAT-TTTATTTT-TAATTAA
1 AAATATATATTTTTA-CTTATTTTATAATTTTATATAAATTTTATAATTAA
1230860 A
1 A
1230861 TTCGCATCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
48 7 0.17
49 12 0.29
50 23 0.55
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (50 bp):
AAATATATATTTTTACTTATTTTATAATTTTATATAAATTTTATAATTAA
Found at i:1231420 original size:6 final size:6
Alignment explanation
Indices: 1231409--1231434 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1231399 TGTTGATACA
1231409 TGCACT TGCACT TGCACT TGCACT TG
1 TGCACT TGCACT TGCACT TGCACT TG
1231435 GCTTGTAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.31, G:0.19, T:0.35
Consensus pattern (6 bp):
TGCACT
Found at i:1237458 original size:17 final size:17
Alignment explanation
Indices: 1237436--1237469 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1237426 GCAAAATTGA
* *
1237436 ATATATTTTCTATATTT
1 ATATATTATATATATTT
1237453 ATATATTATATATATTT
1 ATATATTATATATATTT
1237470 TTTACTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTATATATATTT
Found at i:1242880 original size:6 final size:7
Alignment explanation
Indices: 1242855--1242933 Score: 56
Period size: 7 Copynumber: 11.0 Consensus size: 7
1242845 AAATTTATTC
1242855 AAATTTA
1 AAATTTA
1242862 AAATTTA
1 AAATTTA
1242869 AAATTT-
1 AAATTTA
1242875 AAATTT-
1 AAATTTA
*
1242881 ATATTCTAA
1 AAATT-T-A
1242890 AAATTTA
1 AAATTTA
*
1242897 GATAATATCA
1 -A-AAT-TTA
*
1242907 AAA-TTC
1 AAATTTA
1242913 AAATTTA
1 AAATTTA
1242920 AAATTTA
1 AAATTTA
*
1242927 AATTTTA
1 AAATTTA
1242934 GATAACAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
6 14 0.24
7 30 0.52
8 4 0.07
9 8 0.14
10 2 0.03
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (7 bp):
AAATTTA
Found at i:1242972 original size:27 final size:26
Alignment explanation
Indices: 1242916--1242976 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
1242906 AAAATTCAAA
*
1242916 TTTAAAATTTAAATTTTAGATAACAAT
1 TTTAAAATTCAAA-TTTAGATAACAAT
*
1242943 TTTAAAATTCAAA-TTGGATAACTAAT
1 TTTAAAATTCAAATTTAGATAAC-AAT
*
1242969 TTTTAAAT
1 TTTAAAAT
1242977 CCAGATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 8 0.27
26 10 0.33
27 12 0.40
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (26 bp):
TTTAAAATTCAAATTTAGATAACAAT
Found at i:1252848 original size:2 final size:2
Alignment explanation
Indices: 1252841--1252881 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1252831 AAATGTTTAC
*
1252841 TA TA 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 TA TA T
1252882 CAGATAGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 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):
TA
Found at i:1254802 original size:18 final size:18
Alignment explanation
Indices: 1254779--1254814 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1254769 GTGGATTGCG
1254779 TATTTATTAGATATGCAA
1 TATTTATTAGATATGCAA
1254797 TATTTATTAGATATGCAA
1 TATTTATTAGATATGCAA
1254815 ATAATAATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (18 bp):
TATTTATTAGATATGCAA
Found at i:1262297 original size:11 final size:11
Alignment explanation
Indices: 1262261--1262309 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
1262251 TATATATTTT
1262261 ATTTAAT-ATA
1 ATTTAATAATA
* *
1262271 AATAAATAATA
1 ATTTAATAATA
1262282 A-TTAATAATA
1 ATTTAATAATA
*
1262292 ATTTAAAAATA
1 ATTTAATAATA
1262303 ATTTAAT
1 ATTTAAT
1262310 TTTAAAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
10 14 0.44
11 18 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
ATTTAATAATA
Found at i:1262997 original size:43 final size:42
Alignment explanation
Indices: 1262899--1263089 Score: 116
Period size: 43 Copynumber: 4.5 Consensus size: 42
1262889 ATAAATAATA
* *
1262899 TTAT-TATTTA-ATAAAAATTT-TACATTTATATTTTTTTCATATGT
1 TTATATATTTATAT-AAAATTTATACATTAATATTTATTT--TA--T
*
1262943 TTATAAATTTATATAAAATTTATACATTAATAATTTATTTTAT
1 TTATATATTTATATAAAATTTATACATTAAT-ATTTATTTTAT
* * * *
1262986 TTATATATTTATATAATA-TTA-ATATTAATTTTTCATATTACT
1 TTATATATTTATATAAAATTTATACATTAATATTT-ATTTTA-T
* * *
1263028 TT-TA-ATTTATATAAATTTTTACACATTAATTATTAATTTTAT
1 TTATATATTTATATAAA-ATTTATACATTAA-TATTTATTTTAT
1263070 ATTAT-T-TTTA-AT-AAATTTAT
1 -TTATATATTTATATAAAATTTAT
1263090 TTATTTATAT
Statistics
Matches: 118, Mismatches: 16, Indels: 30
0.72 0.10 0.18
Matches are distributed among these distances:
40 17 0.14
41 16 0.14
42 12 0.10
43 34 0.29
44 8 0.07
45 14 0.12
46 10 0.08
47 7 0.06
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.57
Consensus pattern (42 bp):
TTATATATTTATATAAAATTTATACATTAATATTTATTTTAT
Found at i:1263077 original size:31 final size:29
Alignment explanation
Indices: 1263007--1263079 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 29
1262997 TATAATATTA
* *
1263007 ATATTAATTTTT-CATATTACTTTTAATTT
1 ATATT-ATTTTTACACATTAATTTTAATTT
*
1263036 ATATAAATTTTTACACATTAATTATTAATTTT
1 ATAT-TATTTTTACACATTAATT-TTAA-TTT
1263068 ATATTATTTTTA
1 ATATTATTTTTA
1263080 ATAAATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 10 0.28
30 8 0.22
31 11 0.31
32 7 0.19
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (29 bp):
ATATTATTTTTACACATTAATTTTAATTT
Found at i:1263156 original size:28 final size:28
Alignment explanation
Indices: 1263109--1263180 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
1263099 TCGTGTTAAT
* * *
1263109 ATTATTTTTAT-GTTGTATTATATTTTA
1 ATTATTTTTATATTTTTATTATATATTA
1263136 ATTATTTTTATATTTTTATTATATATTA
1 ATTATTTTTATATTTTTATTATATATTA
1263164 ATT-TATTTTATATTTTT
1 ATTAT-TTTTATATTTTT
1263181 TATAATTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 12 0.30
28 28 0.70
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (28 bp):
ATTATTTTTATATTTTTATTATATATTA
Found at i:1263170 original size:21 final size:21
Alignment explanation
Indices: 1263146--1263190 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1263136 ATTATTTTTA
1263146 TATTTT-TATTATATATTAATT
1 TATTTTATATTATATA-TAATT
* *
1263167 TATTTTATATTTTTTATAATT
1 TATTTTATATTATATATAATT
1263188 TAT
1 TAT
1263191 CGTAATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TATTTTATATTATATATAATT
Found at i:1263180 original size:29 final size:28
Alignment explanation
Indices: 1263104--1263183 Score: 99
Period size: 29 Copynumber: 2.8 Consensus size: 28
1263094 TTATATCGTG
* * *
1263104 TTAATATTATTTTTATGTTGTATTATATT
1 TTAAT-TTATTTTTATTTTTTATTATATA
1263133 TTAA-TTATTTTTATATTTTTATTATATA
1 TTAATTTATTTTTAT-TTTTTATTATATA
1263161 TTAATTTATTTTATATTTTTTAT
1 TTAATTTATTTT-TATTTTTTAT
1263184 AATTTATCGT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
27 10 0.22
28 14 0.31
29 18 0.40
30 3 0.07
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (28 bp):
TTAATTTATTTTTATTTTTTATTATATA
Found at i:1265175 original size:21 final size:21
Alignment explanation
Indices: 1265148--1265203 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
1265138 TTAATGTAAA
1265148 TATATTTAATATTATA-AGTTT
1 TATATTTAATATTATATA-TTT
*
1265169 TTTATTTTAATAATTATATATTT
1 TATA-TTTAAT-ATTATATATTT
1265192 TATATTT-ATATT
1 TATATTTAATATT
1265204 TAACGTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 3 0.10
21 5 0.17
22 9 0.30
23 12 0.40
24 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TATATTTAATATTATATATTT
Found at i:1265775 original size:11 final size:11
Alignment explanation
Indices: 1265757--1265806 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
1265747 TAGATAATTT
1265757 TAAATATAATA
1 TAAATATAATA
*
1265768 TGAATATAATA
1 TAAATATAATA
*
1265779 TAAAAAATAATA
1 T-AAATATAATA
* *
1265791 TCAATATAGTA
1 TAAATATAATA
1265802 TAAAT
1 TAAAT
1265807 GTATTTATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
11 22 0.71
12 9 0.29
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (11 bp):
TAAATATAATA
Found at i:1265788 original size:23 final size:23
Alignment explanation
Indices: 1265762--1265805 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1265752 AATTTTAAAT
*
1265762 ATAATATGAATATAATATAAAAA
1 ATAATATCAATATAATATAAAAA
*
1265785 ATAATATCAATATAGTATAAA
1 ATAATATCAATATAATATAAA
1265806 TGTATTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (23 bp):
ATAATATCAATATAATATAAAAA
Found at i:1265822 original size:19 final size:18
Alignment explanation
Indices: 1265794--1265829 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1265784 AATAATATCA
*
1265794 ATATAGTATAAATGTATTT
1 ATATAATATAAAT-TATTT
1265813 ATATAATATAAATTATT
1 ATATAATATAAATTATT
1265830 AATTTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (18 bp):
ATATAATATAAATTATTT
Found at i:1266191 original size:84 final size:87
Alignment explanation
Indices: 1266029--1266197 Score: 202
Period size: 84 Copynumber: 2.0 Consensus size: 87
1266019 AGGAAATTCG
* * *
1266029 AAGTTACCTAATTCAAATTAATCTTTCTCTTGTTACGAATTTTGGATCAAATGATTTGAAAGAAA
1 AAGTCACCTAATTCAAATTAATCTTTCTCTAGTTACGAA-TTTGAATCAAATGATTTGAAAGAAA
* *
1266094 CAATGCCATTAAA-GGAAAACCA
65 CAACGCCACTAAAGGGAAAACCA
* * *
1266116 AAGTCACCTAATTC-AATTATTCTTATCT-TAGTTAGGAA-TTGAATCAAATGATTTGAAAGAAT
1 AAGTCACCTAATTCAAATTAATCTT-TCTCTAGTTACGAATTTGAATCAAATGATTTGAAAGAAA
* *
1266178 GACCGCCACTAAAGGGAAAA
65 CAACGCCACTAAAGGGAAAA
1266198 AAAAATCAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
84 31 0.44
85 6 0.09
86 17 0.24
87 16 0.23
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (87 bp):
AAGTCACCTAATTCAAATTAATCTTTCTCTAGTTACGAATTTGAATCAAATGATTTGAAAGAAAC
AACGCCACTAAAGGGAAAACCA
Found at i:1266943 original size:12 final size:12
Alignment explanation
Indices: 1266919--1266956 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
1266909 CTAAGTCTAG
1266919 CAAAATCAAGAT
1 CAAAATCAAGAT
* *
1266931 CAATATCAGGAT
1 CAAAATCAAGAT
1266943 CAAAATCAAGAT
1 CAAAATCAAGAT
1266955 CA
1 CA
1266957 TGATCAAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.53, C:0.18, G:0.11, T:0.18
Consensus pattern (12 bp):
CAAAATCAAGAT
Found at i:1266950 original size:18 final size:18
Alignment explanation
Indices: 1266923--1266964 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1266913 GTCTAGCAAA
* *
1266923 ATCAAGATCAATATCAGG
1 ATCAAAATCAAGATCAGG
*
1266941 ATCAAAATCAAGATCATG
1 ATCAAAATCAAGATCAGG
1266959 ATCAAA
1 ATCAAA
1266965 GTAGTTAGTA
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:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (18 bp):
ATCAAAATCAAGATCAGG
Found at i:1269056 original size:18 final size:17
Alignment explanation
Indices: 1269034--1269090 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
1269024 TATAAAATTT
1269034 AATTTATATTT-AAATAA
1 AATTTA-ATTTAAAATAA
1269051 ATATTTAATTTAAAATAA
1 A-ATTTAATTTAAAATAA
*
1269069 AATTTTAATTAAAATATAA
1 AA-TTTAATTTAAA-ATAA
1269088 AAT
1 AAT
1269091 ATTTAAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
17 6 0.17
18 23 0.66
19 6 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTTAATTTAAAATAA
Found at i:1269060 original size:23 final size:20
Alignment explanation
Indices: 1269018--1269062 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 20
1269008 ATCAAGTATA
1269018 TATATTTATAAAATTTAATT
1 TATATTTATAAAATTTAATT
1269038 TATATTTAAATAAATATTTAATT
1 TATATTT--ATAAA-ATTTAATT
1269061 TA
1 TA
1269063 AAATAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
22 5 0.23
23 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TATATTTATAAAATTTAATT
Found at i:1269071 original size:23 final size:22
Alignment explanation
Indices: 1269025--1269071 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
1269015 ATATATATTT
* * *
1269025 ATAAAATTTAATTTATATTTAA
1 ATAAAATTTAATTTAAAATAAA
1269047 ATAAATATTTAATTTAAAATAAA
1 ATAAA-ATTTAATTTAAAATAAA
1269070 AT
1 AT
1269072 TTTAATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAAATTTAATTTAAAATAAA
Found at i:1271063 original size:6 final size:6
Alignment explanation
Indices: 1271052--1271079 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
1271042 CTTACTTTTT
1271052 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1271080 CTCACTATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:1271881 original size:2 final size:2
Alignment explanation
Indices: 1271874--1271912 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1271864 ACCAAAGAAA
1271874 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1271913 TATGTAAATT
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:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1274017 original size:11 final size:11
Alignment explanation
Indices: 1274000--1274035 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
1273990 TAAACACATC
1274000 ATAAAAAAATA
1 ATAAAAAAATA
* *
1274011 ATTAAAACATA
1 ATAAAAAAATA
1274022 ATAAAAAAATA
1 ATAAAAAAATA
1274033 ATA
1 ATA
1274036 TGAATATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (11 bp):
ATAAAAAAATA
Found at i:1274025 original size:22 final size:23
Alignment explanation
Indices: 1273990--1274034 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
1273980 AAACACAATA
*
1273990 TAAACACATCATAAAAAAATAAT
1 TAAACACATAATAAAAAAATAAT
1274013 TAAA-ACATAATAAAAAAATAAT
1 TAAACACATAATAAAAAAATAAT
1274035 ATGAATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (23 bp):
TAAACACATAATAAAAAAATAAT
Found at i:1274259 original size:33 final size:33
Alignment explanation
Indices: 1274217--1274284 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
1274207 AACTCGAAAT
1274217 TTCAAATCAAGCAAGGAGATTTCTTAGTGATAG
1 TTCAAATCAAGCAAGGAGATTTCTTAGTGATAG
1274250 TTCAAATCAAGCAAGGAGATTTCTTAGTGATAG
1 TTCAAATCAAGCAAGGAGATTTCTTAGTGATAG
1274283 TT
1 TT
1274285 TTTAATTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (33 bp):
TTCAAATCAAGCAAGGAGATTTCTTAGTGATAG
Found at i:1275980 original size:2 final size:2
Alignment explanation
Indices: 1275967--1275997 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1275957 TAACCTAATA
*
1275967 AT AT AA 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 A
1275998 AGGAAAATGA
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1285159 original size:24 final size:23
Alignment explanation
Indices: 1285121--1285173 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
1285111 ACAAATCTAT
1285121 ATTAATAATAAAAATTTTAATTAA-
1 ATTAATAATAAAAA--TTAATTAAC
* *
1285145 ATTAATATTATAAATTAATTAAC
1 ATTAATAATAAAAATTAATTAAC
1285168 ATTAAT
1 ATTAAT
1285174 TCAATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 8 0.31
23 6 0.23
24 12 0.46
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTAATAATAAAAATTAATTAAC
Found at i:1286888 original size:17 final size:17
Alignment explanation
Indices: 1286858--1286906 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 17
1286848 GTTTTTATGT
1286858 AAATAT-AAAT-TTTAA
1 AAATATAAAATATTTAA
1286873 AAATATAAAATATTT-A
1 AAATATAAAATATTTAA
*
1286889 ATATCATAAAA-ATTTAA
1 AAAT-ATAAAATATTTAA
1286906 A
1 A
1286907 CATCAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 6 0.21
16 12 0.41
17 11 0.38
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATATAAAATATTTAA
Found at i:1286911 original size:17 final size:18
Alignment explanation
Indices: 1286864--1286911 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 18
1286854 ATGTAAATAT
1286864 AAAT-TTTAAAAAT-ATA
1 AAATATTTAAAAATCATA
*
1286880 AAATATTT-AATATCATA
1 AAATATTTAAAAATCATA
*
1286897 AAA-ATTTAAACATCA
1 AAATATTTAAAAATCA
1286912 AATAAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 12 0.44
17 15 0.56
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATATTTAAAAATCATA
Found at i:1287728 original size:21 final size:21
Alignment explanation
Indices: 1287690--1287729 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1287680 ATTTGTGTTT
*
1287690 TTTTAAAATGTAATAAAATTC
1 TTTTAAAATGTAACAAAATTC
* *
1287711 TTTTAGAATTTAACAAAAT
1 TTTTAAAATGTAACAAAAT
1287730 AATTGTGGAT
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:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (21 bp):
TTTTAAAATGTAACAAAATTC
Found at i:1288475 original size:9 final size:9
Alignment explanation
Indices: 1288461--1288494 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
1288451 AAGTATTATT
1288461 ATTATTAAA
1 ATTATTAAA
*
1288470 AATATTTAAA
1 ATTA-TTAAA
1288480 ATTATTAAA
1 ATTATTAAA
1288489 ATTATT
1 ATTATT
1288495 TTAATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
ATTATTAAA
Found at i:1288542 original size:23 final size:23
Alignment explanation
Indices: 1288515--1288564 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
1288505 AAAATTTCAA
*
1288515 AATATTATTACTAG-AAAAATATT
1 AATATT-TTAATAGTAAAAATATT
*
1288538 AATATTTTAATAGTAGAAATATT
1 AATATTTTAATAGTAAAAATATT
1288561 AATA
1 AATA
1288565 GAAATAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (23 bp):
AATATTTTAATAGTAAAAATATT
Found at i:1291469 original size:14 final size:14
Alignment explanation
Indices: 1291440--1291468 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1291430 GGCAGCAATC
1291440 TTCTTCTTTTTTTT
1 TTCTTCTTTTTTTT
1291454 TTCTT-TTTTTTTT
1 TTCTTCTTTTTTTT
1291467 TT
1 TT
1291469 TGTATTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTCTTCTTTTTTTT
Found at i:1292878 original size:22 final size:20
Alignment explanation
Indices: 1292836--1292878 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
1292826 TTTGACTTCT
* *
1292836 ATATATTTATATAAAATAAG
1 ATATATATATATAAAACAAG
1292856 ATATATATATAGTAATAACAAG
1 ATATATATATA-TAA-AACAAG
1292878 A
1 A
1292879 GAAAATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.53
21 3 0.16
22 6 0.32
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (20 bp):
ATATATATATATAAAACAAG
Found at i:1292987 original size:21 final size:20
Alignment explanation
Indices: 1292962--1293029 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
1292952 CATTAAACTC
*
1292962 AATTAAAAAATAAAGTAATT
1 AATTAAAAAATAAATTAATT
*
1292982 ATATT-AAAAATAAATTAATC
1 A-ATTAAAAAATAAATTAATT
*
1293002 AAATAAAAAATTAAATTAATT
1 AATTAAAAAA-TAAATTAATT
1293023 AATTAAA
1 AATTAAA
1293030 TATGTATTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.05
20 20 0.50
21 18 0.45
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (20 bp):
AATTAAAAAATAAATTAATT
Found at i:1293007 original size:13 final size:13
Alignment explanation
Indices: 1292989--1293031 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
1292979 ATTATATTAA
*
1292989 AAATAAATTAATC
1 AAATAAATTAATT
*
1293002 AAATAAA-AAATT
1 AAATAAATTAATT
*
1293014 AAATTAATTAATT
1 AAATAAATTAATT
1293027 AAATA
1 AAATA
1293032 TGTATTAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (13 bp):
AAATAAATTAATT
Found at i:1293249 original size:17 final size:20
Alignment explanation
Indices: 1293214--1293255 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 20
1293204 ATAAAATCTG
1293214 AAAAACAAAATCAATATCAT
1 AAAAACAAAATCAATATCAT
1293234 AAAAA-AAAAT-AA-ATCAT
1 AAAAACAAAATCAATATCAT
1293251 AAAAA
1 AAAAA
1293256 TGATTCATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.45
18 2 0.09
19 5 0.23
20 5 0.23
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAAACAAAATCAATATCAT
Found at i:1296721 original size:27 final size:27
Alignment explanation
Indices: 1296666--1296759 Score: 136
Period size: 27 Copynumber: 3.4 Consensus size: 27
1296656 CAAACATGAT
*
1296666 ATAAAAAATAACAATAACATA-ATATAAA
1 ATAAAAAATAACATTAACA-AGATA-AAA
1296694 ATAAAAAATAACATTAACAAGATAAAA
1 ATAAAAAATAACATTAACAAGATAAAA
1296721 ATAAAAAATAACATTAACAAGATAAAA
1 ATAAAAAATAACATTAACAAGATAAAA
1296748 ATATATAAAATA
1 ATA-A-AAAATA
1296760 TATTAAAATT
Statistics
Matches: 62, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
27 34 0.55
28 22 0.35
29 6 0.10
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.21
Consensus pattern (27 bp):
ATAAAAAATAACATTAACAAGATAAAA
Found at i:1298237 original size:17 final size:18
Alignment explanation
Indices: 1298201--1298235 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1298191 GCTATAATTT
*
1298201 TTTTTCTAAATGTTAAAA
1 TTTTTCTAAATGCTAAAA
*
1298219 TTTTTGTAAATGCTAAA
1 TTTTTCTAAATGCTAAA
1298236 TTATAATATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.49
Consensus pattern (18 bp):
TTTTTCTAAATGCTAAAA
Found at i:1298438 original size:4 final size:4
Alignment explanation
Indices: 1298429--1298454 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1298419 ACTAATATAT
1298429 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
1298455 AGGATAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:1308052 original size:32 final size:33
Alignment explanation
Indices: 1308011--1308079 Score: 104
Period size: 32 Copynumber: 2.1 Consensus size: 33
1308001 GGCAGTAGCT
1308011 TACATTGTATCGATACAAAAC-TTATGTATCAA
1 TACATTGTATCGATACAAAACTTTATGTATCAA
* * *
1308043 TACATTGTATTGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCAA
1308076 TACA
1 TACA
1308080 AATCATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 19 0.58
33 14 0.42
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (33 bp):
TACATTGTATCGATACAAAACTTTATGTATCAA
Found at i:1309201 original size:49 final size:49
Alignment explanation
Indices: 1308929--1309403 Score: 521
Period size: 43 Copynumber: 10.1 Consensus size: 49
1308919 CTTAGAAATG
*
1308929 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
** *
1308978 TTAAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * * *
1309030 TTAAAGATGACAAATGCGCCAATATGCTGATTCAAGGCCAGTGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
1309082 TT----A--AAGGTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
1309125 TT---G--G-AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
*
1309168 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* *
1309217 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
*
1309260 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * *
1309309 TT----A--AAGGTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
* * * *
1309352 TTAAAGATAAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGGC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
1309401 TTA
1 TTA
1309404 GAAGGGTTGC
Statistics
Matches: 369, Mismatches: 34, Indels: 46
0.82 0.08 0.10
Matches are distributed among these distances:
43 152 0.41
45 2 0.01
46 1 0.00
47 2 0.01
48 2 0.01
49 123 0.33
52 87 0.24
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC
Found at i:1309225 original size:92 final size:92
Alignment explanation
Indices: 1309047--1309408 Score: 558
Period size: 92 Copynumber: 4.0 Consensus size: 92
1309037 TGACAAATGC
* * *
1309047 GCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTT----A--AAGGTGCCAATGTGCTGATT
1 GCCAATGTGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
* * **
1309105 CAAAGCCAGCGACATTGGACTTGGAGGT
65 CAAGGCCAGCGATATTGGACTTAAAGGT
1309133 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
1309198 AAGGCCAGCGATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
1309225 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
1309290 AAGGCCAGCGATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
* * *
1309317 GCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCTAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
*
1309382 AAGGCCAGCGATATTGGGCTTAGAAGG
66 AAGGCCAGCGATATTGGACTTA-AAGG
1309409 GTTGCCACCG
Statistics
Matches: 257, Mismatches: 11, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
86 33 0.13
87 1 0.00
90 1 0.00
92 218 0.85
93 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (92 bp):
GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGGT
Found at i:1309240 original size:135 final size:138
Alignment explanation
Indices: 1308938--1309357 Score: 534
Period size: 135 Copynumber: 3.0 Consensus size: 138
1308928 GTTAAAGATG
* **
1308938 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGACGCCAATAT
1 AAGGTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGACTT--AGA-G---AAGGTGCCAATAT
* *
1309003 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAATGCGCCAATATGCTGATTCAAGGC
60 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGC
*
1309068 CAGTGATATTGGACTTA
122 CAGCGATATTGGACTTA
*
1309085 AAGGTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGACTT-G-G-AGGTGCCAATGTGCTGAT
1 AAGGTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGACTTAGAGAAGGTGCCAATATGCTGAT
* *
1309147 TCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAT
66 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAT
1309212 TGGACTTA
131 TGGACTTA
* *
1309220 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGACTT--AGA-GAAGGTGCCAATATGCT
* * *
1309285 GATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGTTGATTCAAGGCCAGCTA
63 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
*
1309344 CATTGGACTTA
128 TATTGGACTTA
1309355 AAG
1 AAG
1309358 ATAAAGGTGC
Statistics
Matches: 249, Mismatches: 18, Indels: 24
0.86 0.06 0.08
Matches are distributed among these distances:
135 122 0.49
137 1 0.00
138 44 0.18
140 1 0.00
141 38 0.15
142 1 0.00
144 1 0.00
147 41 0.16
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (138 bp):
AAGGTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGACTTAGAGAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAT
TGGACTTA
Found at i:1309321 original size:184 final size:180
Alignment explanation
Indices: 1308938--1309408 Score: 633
Period size: 184 Copynumber: 2.5 Consensus size: 180
1308928 GTTAAAGATG
* **
1308938 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGACGCCAATAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAGGTGCCAATAT
1309003 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAATGCGCCAATATGCTGATTCAAGGC
63 GCTGATTCAAGGCCAGCGATATTGGACTTAAAG--G----AT-CGCCAATATGCTGATTCAAGGC
* * *
1309068 CAGTGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAAGCCAGCGACATTGGACTTG
121 CAGTGACATTGGACTTAAAGGTGCCAATATGCTGATTCAAAGCCAGCGACATTGGACTTA
*
1309128 GAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
*
1309193 GATTCAAGGCCAGCGATATTGGACTTAAAGG-T-GCCAATGTGCTGATTCAAGGCCAGCT-ACAT
66 GATTCAAGGCCAGCGATATTGGACTTAAAGGATCGCCAATATGCTGATTCAAGGCCAG-TGACAT
* *
1309255 TGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
130 TGGACTT----A--AAGGTGCCAATATGCTGATTCAAAGCCAGCGACATTGGACTTA
* * *
1309312 AAGGTGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCTAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
*
1309377 GATTCAAGGCCAGCGATATTGGGCTTAGAAGG
66 GATTCAAGGCCAGCGATATTGGACTTA-AAGG
1309409 GTTGCCACCG
Statistics
Matches: 258, Mismatches: 15, Indels: 21
0.88 0.05 0.07
Matches are distributed among these distances:
178 33 0.13
179 1 0.00
180 1 0.00
182 1 0.00
184 126 0.49
185 5 0.02
187 44 0.17
190 47 0.18
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (180 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTTAAAGGATCGCCAATATGCTGATTCAAGGCCAGTGACATT
GGACTTAAAGGTGCCAATATGCTGATTCAAAGCCAGCGACATTGGACTTA
Found at i:1309447 original size:33 final size:33
Alignment explanation
Indices: 1309403--1309572 Score: 265
Period size: 33 Copynumber: 5.2 Consensus size: 33
1309393 TATTGGGCTT
1309403 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
1309436 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
1309469 AG-AGGGTTGCCATCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
1309500 AGAAGGGTTGCCACTGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* **
1309533 AGAATGGTTGCCACTAACTTGTGTGGGCTTTA-
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1309565 AGAAGGGT
1 AGAAGGGT
1309573 GAAAGATGCC
Statistics
Matches: 127, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
31 3 0.02
32 59 0.46
33 65 0.51
ACGTcount: A:0.19, C:0.16, G:0.35, T:0.30
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:1309571 original size:65 final size:65
Alignment explanation
Indices: 1309403--1309572 Score: 254
Period size: 65 Copynumber: 2.6 Consensus size: 65
1309393 TATTGGGCTT
* *
1309403 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCGACTTGTGTGGGCTTTA
1 AGAAGGGTTGCCACTGACTTGTGTGGGCTTTA-AGAAGGGTTGCCACCGACTTGTGTGGGCTTTA
1309468 G
65 G
* *
1309469 AG-AGGGTTGCCA-TCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACTGACTTGTGTGGGCTTTA
1 AGAAGGGTTGCCACT-GACTTGTGTGGGCTTTAAGAAGGGTTGCCACCGACTTGTGTGGGCTTTA
1309532 G
65 G
* *
1309533 AGAATGGTTGCCACTAACTTGTGTGGGCTTTAAGAAGGGT
1 AGAAGGGTTGCCACTGACTTGTGTGGGCTTTAAGAAGGGT
1309573 GAAAGATGCC
Statistics
Matches: 94, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
64 33 0.35
65 58 0.62
66 3 0.03
ACGTcount: A:0.19, C:0.16, G:0.35, T:0.30
Consensus pattern (65 bp):
AGAAGGGTTGCCACTGACTTGTGTGGGCTTTAAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:1309572 original size:97 final size:95
Alignment explanation
Indices: 1309396--1309572 Score: 293
Period size: 97 Copynumber: 1.8 Consensus size: 95
1309386 CCAGCGATAT
*
1309396 TGGGCTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCGACTTGTGTG
1 TGGGCTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTGTG
1309461 GGCTTTAGAGAGGGTTGCCATCGACTTGTG
66 GGCTTTAGAGAGGGTTGCCATCGACTTGTG
* *
1309491 TGGGCTTTGAGAAGGGTTGCCACTGACTTGTGTGGGCTTTAGAGAATGGTTGCCACTAACTTGTG
1 TGGGC-TT-AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1309556 TGGGCTTTA-AGAAGGGT
64 TGGGCTTTAGAG-AGGGT
1309573 GAAAGATGCC
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
95 5 0.07
96 4 0.05
97 67 0.88
ACGTcount: A:0.18, C:0.16, G:0.36, T:0.31
Consensus pattern (95 bp):
TGGGCTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTGTG
GGCTTTAGAGAGGGTTGCCATCGACTTGTG
Found at i:1309763 original size:169 final size:162
Alignment explanation
Indices: 1309574--1310170 Score: 641
Period size: 169 Copynumber: 3.5 Consensus size: 162
1309564 AAGAAGGGTG
* *
1309574 AAAGATGCCACGAAGTTGTGGAC-TTAAAA-GAACAAG-GTGCCACGGAGTTGTGGGCTTTAAAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAA-AAGAGTGCCACGGAGTTGTGGGCTTT-AAA
** * * * *
1309636 GGGAAAAAGAGTGCCACGGAGTTATGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGG
64 ---AAAAAG-GTGCCACGGAGTCGTGGAC-TT-AAAA-GGAACAAG-GTGCCATGGAGTTGTGGA
*
1309701 CTTTGAAAAGAAGGTGCCACGAAGTCGTGGAC-TTAAAAGGAA
121 CTTT-AAAAGAAGGTGCCACGAAGTTGTGGACTTTAAAAGGAA
* * *
1309743 CAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAACGAGTACCACAGAGTTGTGGGCTTTAAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAA-GGAAAA-GAGTGCCACGGAGTTGTGGGCTTTAAA
* *
1309808 AAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCATGGAGTCGTGGAC-TTAAAA
64 AAAAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTTTAAAA
*
1309872 GGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAA
129 -G---AAGGTGCCACGAAGTTGTGGACTTTAAAA-GGAA
* **
1309911 AAAGAGTGTCACGGAGTTGTGGGTTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAAG-GTGCCACGGAGTTGTGGACTTTAAAA-GG-AAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
1309976 AAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTTTAAA
63 AAAAAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTTTAAA
* *
1310041 AGGGAAAAAGAGTGCCAC-AGAGTTGTGGGCTTTAAAAAGAA
128 A--G---AAG-GTGCCACGA-AGTTGTGGACTTTAAAAGGAA
*
1310082 AAAGGTGCCACGGAGTTGTGGGCTTTAAGAAGGAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAA-AAGGAAAAGAGTGCCACGGAGTTGTGGGCTTT--AA
* *
1310146 AGAAAAAGGTGCCACAGAGTTGTGG
63 A-AAAAAGGTGCCACGGAGTCGTGG
1310171 GCTTTGAAGA
Statistics
Matches: 376, Mismatches: 31, Indels: 40
0.84 0.07 0.09
Matches are distributed among these distances:
162 4 0.01
163 3 0.01
164 16 0.04
165 7 0.02
166 24 0.06
167 8 0.02
168 45 0.12
169 138 0.37
170 43 0.11
171 38 0.10
172 30 0.08
173 20 0.05
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.20
Consensus pattern (162 bp):
AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
AAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTTTAAAAGA
AGGTGCCACGAAGTTGTGGACTTTAAAAGGAA
Found at i:1309795 original size:100 final size:99
Alignment explanation
Indices: 1309554--1310175 Score: 604
Period size: 100 Copynumber: 6.1 Consensus size: 99
1309544 CACTAACTTG
* * * *
1309554 TGTGGGCTTTAAGAAGGGTGAAAGATGCCACGAAGTTGTGGAC-TTAAAAGAACAAGGTGCCACG
1 TGTGGGCTTTAA-AA-GG-AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAG---AAGGTGCCACG
*
1309618 GAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
60 GAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* *
1309658 TATGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGA
1 TGTGGGCTTT-AAAA-GG-AAAAG-GTGCCACGGAGTTGTGGGCTTT-AAAAGAAGGTGCCACGG
* *
1309723 AGTCGTGGAC-TTAAAA-GGAACAAG-GTGCCACGGAGT
61 AGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* * *
1309759 TGTGGACTTTAAAAGGGAAAACGAGTACCACAGAGTTGTGGGCTTTAAAAAGAAGGTGCCACGGA
1 TGTGGGCTTTAAAA-GGAAAA-G-GTGCCACGGAGTTGTGGGCTTT-AAAAGAAGGTGCCACGGA
* * *
1309824 GTCGTGGAC-TTAAAA-GGAACAAG-GTGCCATGGAGT
62 GTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* * * *
1309859 CGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGTCAC
1 TGTGGGCTTTAAAAGGAA-AAGGTGCCACGGAGTTGTGGGCTTTAAAA--G---AAG-GTGCCAC
**
1309923 GGAGTTGTGGGTTTTAAAAGGGAAAAAGAGTGCCACGGAGT
59 GGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* * * *
1309964 TGTGGGCTTTAAAA--AGAAGGTGCCACGGAGTCGTGGAC-TTAAAAGGAACAAGGTGCCATGGA
1 TGTGGGCTTTAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA-G---AAGGTGCCACGGA
*
1310026 GTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACAGAGT
62 GTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGT
*
1310064 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAGAAGGAAAAGGTGCCACGG
1 TGTGGGCTTT-AAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTAA-AA-G--AAGGTGCCACGG
* * *
1310129 AGTTGTGGGCTTTAAAA-AGAAAAAG-GTGCCACAGAGT
61 AGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1310166 TGTGGGCTTT
1 TGTGGGCTTT
1310176 GAAGAAAAAA
Statistics
Matches: 453, Mismatches: 44, Indels: 44
0.84 0.08 0.08
Matches are distributed among these distances:
96 4 0.01
97 19 0.04
98 6 0.01
99 12 0.03
100 139 0.31
101 34 0.08
102 50 0.11
103 61 0.13
104 77 0.17
105 38 0.08
106 8 0.02
107 5 0.01
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (99 bp):
TGTGGGCTTTAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGGTGCCACGGAGTTG
TGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGT
Found at i:1310070 original size:269 final size:271
Alignment explanation
Indices: 1309555--1310175 Score: 953
Period size: 269 Copynumber: 2.3 Consensus size: 271
1309545 ACTAACTTGT
* * * * *
1309555 GTGGGCTTTAAGAAGGGTGAAAGATGCCACGAAGTTGTGGACTTAAAAGAACAAGGTGCCACGGA
1 GTGGACTTTAAGAA-GG-AAAAGGTGCCACGGAGTCGTGGACTTAAAAGAACAAGGTGCCACGGA
1309620 GTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTATGGGCTTTGAAAAGGGAAAAAGAGT
64 GTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTATGGGCTTTGAAAAGGGAAAAAGAGT
*
1309685 GCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGAAGTCGTGGACTTAAAAGGAACAAGGTG
129 GCCACGGAGTTGTGGGCTTTAAAAAGAAGGTGCCACGAAGTCGTGGACTTAAAAGGAACAAGGTG
*
1309750 CCACGGAGTTGTGGACTTTAAAAGGGAAAACGAGTACCACAGAGTTGTGGGCTTTAAAAAG-AAG
194 CCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTACCACAGAGTTGTGGGCTTTAAAAAGAAAG
1309814 GTGCCACGGAGTC
259 GTGCCACGGAGTC
*
1309827 GTGGAC-TTAA-AAGGAACAAGGTGCCATGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGA
1 GTGGACTTTAAGAAGGAA-AAGGTGCCACGGAGTCGTGGACTTAAAA-GAACAAGGTGCCACGGA
* * * *
1309890 GTTGTGGACTTTAAAAGGGAAAAAGAGTGTCACGGAGTTGTGGG-TTTTAAAAGGGAAAAAGAGT
64 GTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTATGGGCTTTGAAAAGGGAAAAAGAGT
*
1309954 GCCACGGAGTTGTGGGCTTTAAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTG
129 GCCACGGAGTTGTGGGCTTTAAAAAGAAGGTGCCACGAAGTCGTGGACTTAAAAGGAACAAGGTG
* *
1310019 CCATGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAA
194 CCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTACCACAGAGTTGTGGGCTTTAAAAAG--AA
*
1310084 AGGTGCCACGGAGTT
257 AGGTGCCACGGAGTC
* * * * *
1310099 GTGGGCTTTAAGAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACAGA
1 GTGGACTTTAAGAAGGAAAAGGTGCCACGGAGTCGTGGAC-TT-AAAAGAACAAGGTGCCACGGA
1310164 GTTGTGGGCTTT
64 GTTGTGGGCTTT
1310176 GAAGAAAAAA
Statistics
Matches: 317, Mismatches: 23, Indels: 16
0.89 0.06 0.04
Matches are distributed among these distances:
268 1 0.00
269 166 0.52
270 60 0.19
271 4 0.01
272 25 0.08
273 23 0.07
274 34 0.11
275 4 0.01
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (271 bp):
GTGGACTTTAAGAAGGAAAAGGTGCCACGGAGTCGTGGACTTAAAAGAACAAGGTGCCACGGAGT
TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTATGGGCTTTGAAAAGGGAAAAAGAGTGC
CACGGAGTTGTGGGCTTTAAAAAGAAGGTGCCACGAAGTCGTGGACTTAAAAGGAACAAGGTGCC
ACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTACCACAGAGTTGTGGGCTTTAAAAAGAAAGGT
GCCACGGAGTC
Found at i:1310240 original size:31 final size:30
Alignment explanation
Indices: 1310155--1310397 Score: 283
Period size: 31 Copynumber: 7.9 Consensus size: 30
1310145 AAGAAAAAGG
* * * *
1310155 TGCCACAGAGTTGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTG-AGAAAGAA
*
1310186 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAA-AGAA
1310217 TGCCACTGAGTCGTGGACTTTGAGACAA-AA
1 TGCCACTGAGTCGTGGACTTTGAGA-AAGAA
* *
1310247 TGCCACTGAGTCATGGACTTTGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTG-AG-AAAGAA
*
1310279 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAA-AGAA
* *
1310310 TGCCACTGAATCGTGGATTTTGAGACAA-AA
1 TGCCACTGAGTCGTGGACTTTGAGA-AAGAA
1310340 TGCCACTGAGTCGTGGACTTTGAAGAAAAGAA
1 TGCCACTGAGTCGTGGACTTTG-AG-AAAGAA
* *
1310372 TGCCACTGAGTCATGGACTTTAAGAA
1 TGCCACTGAGTCGTGGACTTTGAGAA
1310398 GGTATTTGAA
Statistics
Matches: 184, Mismatches: 18, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
30 51 0.28
31 85 0.46
32 48 0.26
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.24
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAGAA
Found at i:1310295 original size:93 final size:93
Alignment explanation
Indices: 1310172--1310398 Score: 393
Period size: 93 Copynumber: 2.5 Consensus size: 93
1310162 GAGTTGTGGG
*
1310172 CTTTGAAGAAAA-AATGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTGAGTCGTGGACT
1 CTTTGAAGAAAAGAATGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTGAATCGTGGACT
1310236 TTGAGACAAAATGCCACTGAGTCATGGA
66 TTGAGACAAAATGCCACTGAGTCATGGA
* *
1310264 CTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTGAATCGTGGATT
1 CTTTGAAGAAAAGAATGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTGAATCGTGGACT
*
1310329 TTGAGACAAAATGCCACTGAGTCGTGGA
66 TTGAGACAAAATGCCACTGAGTCATGGA
* *
1310357 CTTTGAAGAAAAGAATGCCACTGAGTCATGGACTTTAAGAAG
1 CTTTGAAGAAAAGAATGCCACTGAGTCGTGGACTTTGAGAAG
1310399 GTATTTGAAG
Statistics
Matches: 127, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 12 0.09
93 115 0.91
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.24
Consensus pattern (93 bp):
CTTTGAAGAAAAGAATGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTGAATCGTGGACT
TTGAGACAAAATGCCACTGAGTCATGGA
Found at i:1311400 original size:17 final size:17
Alignment explanation
Indices: 1311375--1311408 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1311365 TGTTTCTCAT
*
1311375 TTTTTTTTCCTTTTTTG
1 TTTTGTTTCCTTTTTTG
*
1311392 TTTTGTTTCTTTTTTTG
1 TTTTGTTTCCTTTTTTG
1311409 GAAAAGAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.82
Consensus pattern (17 bp):
TTTTGTTTCCTTTTTTG
Found at i:1312831 original size:459 final size:459
Alignment explanation
Indices: 1311973--1312893 Score: 1698
Period size: 459 Copynumber: 2.0 Consensus size: 459
1311963 GAAGAACCAT
1311973 CTCATGGAGAAAGCTCTTTTGTAGGAATAAGGTGAAAAAACAAGACCAGTGATCAAAACATCATG
1 CTCATGGAGAAAGCTCTTTTGTAGGAATAAGGTGAAAAAACAAGACCAGTGATCAAAACATCATG
* *
1312038 ATGGCGCCATAGGGTGATGTTATGGCATCGCCCCAAATTTGATTTGACAAGTTCATTATTCGAAG
66 ATGGCGCCATAGGGCGATGTTATGGCATCGCCCCAAATTTGATTTGACAAGTTCATTATTCGAAA
* * * *
1312103 TTGATCTCTAGTTGCTTCTTGCGAACACTCATGTCATTTTCATCAGTGCATCTAAATAGGTGTGA
131 TTAATCTCTAGTTACTTCTTGCAAACACTCATGTCATTTTCATCAGTGCATCTAAATAAGTGTGA
1312168 AAAGGAACAAGAGTGGCAAAATGTGATGAGGGAAGACAGAAATGTGTATGGACAAAAGTTGAACA
196 AAAGGAACAAGAGTGGCAAAATGTGATGAGGGAAGACAGAAATGTGTATGGACAAAAGTTGAACA
1312233 AAGATGCAAAAGAAAATAGACACATATGATCGAATGATTTATGCAAAGTCATTTTGATTGATAAT
261 AAGATGCAAAAGAAAATAGACACATATGATCGAATGATTTATGCAAAGTCATTTTGATTGATAAT
1312298 ATTTAATAAAGGGCCCGTTGCACAAGATTCCTACATGCCGTCGGGCAAAGGCAAGTAGGTTTTCT
326 ATTTAATAAAGGGCCCGTTGCACAAGATTCCTACATGCCGTCGGGCAAAGGCAAGTAGGTTTTCT
* * *
1312363 TGATATTTACATAAAGCAGGCAAGGAGAATGCAAGGATTTTCGACAACAACTCCATCGTCAAAAG
391 TGATATTTACATAAAGCACGCAAGGAGAATGCAAGGATTTCCGAAAACAACTCCATCGTCAAAAG
1312428 CCGA
456 CCGA
*
1312432 CTCATGGAGAAAGCTCTTTTGTAGGAATAAGGTGAAAAAACAAGACCAGTGATCGAAACATCATG
1 CTCATGGAGAAAGCTCTTTTGTAGGAATAAGGTGAAAAAACAAGACCAGTGATCAAAACATCATG
1312497 ATGGCGCCATAGGGCGATGTTATGGCATCGCCCCAAATTTGATTTGACAAGTTCATTATTCGAAA
66 ATGGCGCCATAGGGCGATGTTATGGCATCGCCCCAAATTTGATTTGACAAGTTCATTATTCGAAA
*
1312562 TTAATCTCTAGTTACTTTTTGCAAACACTCATGTCATTTTCATCAGTGCATCTAAATAAGTGTGA
131 TTAATCTCTAGTTACTTCTTGCAAACACTCATGTCATTTTCATCAGTGCATCTAAATAAGTGTGA
* *
1312627 GAAGGAACAAGAGTGGTAAAATGTGATGAGGGAAGACAGAAATGTGTATGGACAAAAGTTGAACA
196 AAAGGAACAAGAGTGGCAAAATGTGATGAGGGAAGACAGAAATGTGTATGGACAAAAGTTGAACA
* * *
1312692 AAGGTGCAAAAGAAAATAGACACATATGATCGAATGATTTATGCAAAGTCTTTTTGATTGGTAAT
261 AAGATGCAAAAGAAAATAGACACATATGATCGAATGATTTATGCAAAGTCATTTTGATTGATAAT
1312757 ATTTAATAAAGGGCCCGTTGCACAAGATTCCTACATGCCGTCGGGCAAAGGCAAGTAGGTTTTCT
326 ATTTAATAAAGGGCCCGTTGCACAAGATTCCTACATGCCGTCGGGCAAAGGCAAGTAGGTTTTCT
1312822 TGATATTTACATAAAGCACGCAAGGAGAATGCAAGGATTTCCGAAAACAACTCCATCGTCAAAAG
391 TGATATTTACATAAAGCACGCAAGGAGAATGCAAGGATTTCCGAAAACAACTCCATCGTCAAAAG
1312887 CCGA
456 CCGA
1312891 CTC
1 CTC
1312894 TGATGGATGG
Statistics
Matches: 446, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
459 446 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (459 bp):
CTCATGGAGAAAGCTCTTTTGTAGGAATAAGGTGAAAAAACAAGACCAGTGATCAAAACATCATG
ATGGCGCCATAGGGCGATGTTATGGCATCGCCCCAAATTTGATTTGACAAGTTCATTATTCGAAA
TTAATCTCTAGTTACTTCTTGCAAACACTCATGTCATTTTCATCAGTGCATCTAAATAAGTGTGA
AAAGGAACAAGAGTGGCAAAATGTGATGAGGGAAGACAGAAATGTGTATGGACAAAAGTTGAACA
AAGATGCAAAAGAAAATAGACACATATGATCGAATGATTTATGCAAAGTCATTTTGATTGATAAT
ATTTAATAAAGGGCCCGTTGCACAAGATTCCTACATGCCGTCGGGCAAAGGCAAGTAGGTTTTCT
TGATATTTACATAAAGCACGCAAGGAGAATGCAAGGATTTCCGAAAACAACTCCATCGTCAAAAG
CCGA
Found at i:1313082 original size:59 final size:59
Alignment explanation
Indices: 1312990--1313109 Score: 231
Period size: 59 Copynumber: 2.0 Consensus size: 59
1312980 CCCTTGACTT
*
1312990 GCCCCAAATTGAAGAACCTTTGAATCCAGAAGGCCCTGCACCCTTCGCTTGAAAAGGAA
1 GCCCCAAACTGAAGAACCTTTGAATCCAGAAGGCCCTGCACCCTTCGCTTGAAAAGGAA
1313049 GCCCCAAACTGAAGAACCTTTGAATCCAGAAGGCCCTGCACCCTTCGCTTGAAAAGGAA
1 GCCCCAAACTGAAGAACCTTTGAATCCAGAAGGCCCTGCACCCTTCGCTTGAAAAGGAA
1313108 GC
1 GC
1313110 AATTCTCAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.17
Consensus pattern (59 bp):
GCCCCAAACTGAAGAACCTTTGAATCCAGAAGGCCCTGCACCCTTCGCTTGAAAAGGAA
Found at i:1319252 original size:32 final size:33
Alignment explanation
Indices: 1319211--1319279 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
1319201 GGCAGTAGCT
1319211 TACATTGTATCGATACAAAAC-TTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
*
1319243 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
1319276 TACA
1 TACA
1319280 AATCGTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 20 0.57
33 15 0.43
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
TACATTGTATCGATACAAAACTTTATGTATCGA
Found at i:1319253 original size:13 final size:13
Alignment explanation
Indices: 1319235--1319259 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1319225 ACAAAACTTA
1319235 TGTATCGATACAT
1 TGTATCGATACAT
1319248 TGTATCGATACA
1 TGTATCGATACA
1319260 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1320200 original size:21 final size:21
Alignment explanation
Indices: 1320160--1320201 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1320150 GCATTGGTTG
* **
1320160 GATGAAAAAATGTATTTTTTA
1 GATGAAAAAATGCAACTTTTA
1320181 GATGAAAAAATGCAACTTTTA
1 GATGAAAAAATGCAACTTTTA
1320202 ATAACTAAAG
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:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (21 bp):
GATGAAAAAATGCAACTTTTA
Found at i:1326174 original size:20 final size:20
Alignment explanation
Indices: 1326151--1326189 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1326141 ATACTAAAAA
1326151 ATTTTATAAAAT-TTTTTAGT
1 ATTTTA-AAAATATTTTTAGT
*
1326171 ATTTTAAAATTATTTTTAG
1 ATTTTAAAAATATTTTTAG
1326190 ACATGCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
ATTTTAAAAATATTTTTAGT
Found at i:1327690 original size:13 final size:13
Alignment explanation
Indices: 1327672--1327733 Score: 64
Period size: 13 Copynumber: 5.2 Consensus size: 13
1327662 ATACAAAGAT
1327672 CAATGTATCGATA
1 CAATGTATCGATA
1327685 CAATGTATCGATA
1 CAATGTATCGATA
1327698 C-AT-T-T-GAGT-
1 CAATGTATCGA-TA
1327707 -AATGTATCGATA
1 CAATGTATCGATA
*
1327719 CAATGTATCAATA
1 CAATGTATCGATA
1327732 CA
1 CA
1327734 TTTGAGTAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
9 4 0.10
10 3 0.07
11 3 0.07
12 4 0.10
13 27 0.66
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1327716 original size:34 final size:34
Alignment explanation
Indices: 1327673--1327754 Score: 155
Period size: 34 Copynumber: 2.4 Consensus size: 34
1327663 TACAAAGATC
*
1327673 AATGTATCGATACAATGTATCGATACATTTGAGT
1 AATGTATCGATACAATGTATCAATACATTTGAGT
1327707 AATGTATCGATACAATGTATCAATACATTTGAGT
1 AATGTATCGATACAATGTATCAATACATTTGAGT
1327741 AATGTATCGATACA
1 AATGTATCGATACA
1327755 TTTCCTTGGC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (34 bp):
AATGTATCGATACAATGTATCAATACATTTGAGT
Found at i:1328639 original size:52 final size:52
Alignment explanation
Indices: 1328533--1328639 Score: 126
Period size: 52 Copynumber: 2.1 Consensus size: 52
1328523 GACCAGTGAT
* * * *
1328533 ATTAGTCTTAAAAATGTAAAGAATGTCAATGTGCTGATTCACGGTCAGCAAC
1 ATTAGTCTTAAAAATGTAAAGAATGCCAATGTGCTGATTCAAGGCCAACAAC
* * * *
1328585 ATTAGTCTTGAAGATG-AGAAGAATGCCAATGTGTTGATTCAAGGCCAACGAC
1 ATTAGTCTTAAAAATGTA-AAGAATGCCAATGTGCTGATTCAAGGCCAACAAC
1328637 ATT
1 ATT
1328640 GGGTTTTAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
51 1 0.02
52 45 0.98
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (52 bp):
ATTAGTCTTAAAAATGTAAAGAATGCCAATGTGCTGATTCAAGGCCAACAAC
Found at i:1328996 original size:49 final size:49
Alignment explanation
Indices: 1328838--1329912 Score: 1040
Period size: 49 Copynumber: 22.8 Consensus size: 49
1328828 GAAGAATGAT
* * * *
1328838 AATGTGCTGATTCATGGCCAGCGACATTTAGACTTGAAGA--AA-ATGCC
1 AATGTGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGATGAAGGTGCC
* ** * * * *
1328885 AATGTGCTAAGGCAAGGCCAGCGACATTGGGCTTAGGAATATTAAAGATGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTA--AAGA-TGAAGGTGCC
** * * *
1328937 AATACGCTGATTCAAGGCCAACGATATTGGACTTAAGGATGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCC
* * * *
1328986 AATGTGCTGATTTAAGGCCAACGACATTGGTCTTAAAGATGACGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCC
* * * ** *
1329035 AATATGCTGATTCAAGGCTAGCGATACCGGACTTAAAGATGAAGATGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCC
* *
1329084 AATGTGCTGATTTAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGCC
* *
1329136 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCC
1329185 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCC
*
1329234 AATGTGCTGATTCAAGGCCAACGACATTGGACTT----A--AAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCC
* * **
1329277 AATGTGCTGATTCAAGGCCAGCGACACTGGTCTTAAAGAAAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCC
* * * *
1329326 AATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTACT
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCC
* * **
1329369 AATGTGCTGATTTAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCC
* * *
1329418 AATATGCTGATTCAAGGCCAACGATATTGGACTT----A--AAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCC
* ** *
1329461 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAATGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCC
* *
1329510 AATATGCTGATTCAAGGCCAGC-AGTATTGGACTT----A--AAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGA-CATTGGACTTAAAGATGAAGGTGCC
* **
1329553 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCC
* * * *
1329602 AATATGCTGATTTAAGGCCAGCGATATTGGACTT----A--AAGGTGTC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCC
* * *
1329645 AATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATG-AGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCC
* * * *
1329693 AATATGCTGATTCAAGGCTAGTGATATTGGACTT----A--AAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCC
*
1329736 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG-AGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCC
* * *
1329784 AATATGCTGATTCAATGCCAGCGATATTGGACTT----A--AAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCC
* ** **
1329827 AATGTGCTGATTTAAGGCCAGCGACATTGGTTTTAAAGACAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCC
* * *
1329876 AATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAA
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA
1329913 AGAAAATGCC
Statistics
Matches: 850, Mismatches: 123, Indels: 108
0.79 0.11 0.10
Matches are distributed among these distances:
43 255 0.30
44 3 0.00
45 5 0.01
46 6 0.01
47 29 0.03
48 74 0.09
49 398 0.47
50 2 0.00
51 2 0.00
52 76 0.09
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCC
Found at i:1329312 original size:92 final size:92
Alignment explanation
Indices: 1328881--1329912 Score: 1404
Period size: 92 Copynumber: 11.0 Consensus size: 92
1328871 TTGAAGAAAA
* ** * * * *
1328881 TGCCAATGTGCTAAGGCAAGGCCAGCGACATTGGGCTTAGGAATATTAAAGATGCCAATACGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA--AAGA-TAAAGGTGCCAATATGCTG
*
1328946 ATTCAAGGCCAACGATATTGGACTTAAGGATGAAGG
63 ATTCAAGGCCAGCGATATTGGACTT----A--AAGG
* * * *
1328982 TGCCAATGTGCTGATTTAAGGCCAACGACATTGGTCTTAAAGATGACGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
* **
1329047 CAAGGCTAGCGATACCGGACTTAAAGATGAAG
66 CAAGGCCAGCGATATTGGACTT-AA-A-G--G
* * *
1329079 ATGCCAATGTGCTGATTTAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCT
1 -TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT---AAAGGTGCCAATATGCT
1329144 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
62 GATTCAAGGCCAGCGATATTGGACTT----A--AAGG
* * *
1329181 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
* *
1329246 CAAGGCCAACGACATTGGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
* *
1329273 TGCCAATGTGCTGATTCAAGGCCAGCGACACTGGTCTTAAAGAAAAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
1329338 CAAGGCCAGCGATATTGGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
* * * *
1329365 TACTAATGTGCTGATTTAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
*
1329430 CAAGGCCAACGATATTGGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
* *
1329457 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAATGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
1329522 CAAGGCCAGC-AGTATTGGACTTAAAGG
66 CAAGGCCAGCGA-TATTGGACTTAAAGG
*
1329549 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
*
1329614 TAAGGCCAGCGATATTGGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
* * * *
1329641 TGTCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGAT-GAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
* *
1329705 CAAGGCTAGTGATATTGGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
*
1329732 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-GAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
*
1329796 CAATGCCAGCGATATTGGACTTAAAGG
66 CAAGGCCAGCGATATTGGACTTAAAGG
* * *
1329823 TGCCAATGTGCTGATTTAAGGCCAGCGACATTGGTTTTAAAGACAAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
*
1329888 CAAGGCCAGCGATATTGGGCTTAAA
66 CAAGGCCAGCGATATTGGACTTAAA
1329913 AGAAAATGCC
Statistics
Matches: 843, Mismatches: 72, Indels: 41
0.88 0.08 0.04
Matches are distributed among these distances:
91 170 0.20
92 429 0.51
93 2 0.00
94 2 0.00
95 2 0.00
97 1 0.00
98 116 0.14
99 3 0.00
101 113 0.13
102 1 0.00
104 2 0.00
105 1 0.00
106 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTTAAAGG
Found at i:1330078 original size:33 final size:33
Alignment explanation
Indices: 1329980--1330839 Score: 413
Period size: 33 Copynumber: 26.6 Consensus size: 33
1329970 TGAAATGGAG
1329980 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAA-GGAA
*
1330014 AAAGAGTGCCACGGAGTTGT-GAGCTTTAAAGGAA
1 AAAGA-TGCCACGGAGTTGTGGA-CTTAAAAGGAA
* *
1330048 AAAGATGTCACAGAGTTGTGGACTTAAAAGGAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
1330081 CAAGGTGCCACGGAGTTGTGGACTT-----TAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
* *
1330109 AATGATGCCACGGAGTTGTGAACCTTAAAA-G--
1 AAAGATGCCACGGAGTTGTGGA-CTTAAAAGGAA
* *
1330140 ---GATGCCACGGAGTTGTGGGCTTTGAGAA-GAA
1 AAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGAA
* * * *
1330171 AATG-TGCCACAGAGTTGTGGGCTTTAAAAGGGGA
1 AAAGATGCCACGGAGTTGTGGAC-TTAAAA-GGAA
* * * **
1330205 AAGGGTGCCACAGAGTTGTGGACTTTGAA-GAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
*
1330237 AAGATATGCCACGGAGTTGTGGACTTAAAAGG--
1 AA-AGATGCCACGGAGTTGTGGACTTAAAAGGAA
* * * *
1330269 ---G-TACCACAGAGTTGTGGGCTTTGAAAAAAAGAA
1 AAAGATGCCACGGAGTTGTGGAC-TT---AAAAGGAA
* * **
1330302 AAAGGTGCCACGGAGTTGTGGGCTTTGAA-G-A
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
1330333 AAAGATGCGACTGAGTCGTGGACTTAAAAGGAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
* *
1330366 CAAGGTGCCACGGAGTTGTGGACTTTAAAA-G--
1 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGGAA
*
1330397 ---GATGCCACGGAGTTGTGGGCTTTGAAAA-GAA
1 AAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGAA
* * * *
1330428 AAAGGTGCCATGGAGTTGTGGGCTTTAAAAGGGGA
1 AAAGATGCCACGGAGTTGTGGAC-TTAAAA-GGAA
* * * * **
1330463 AATGGTGCCACAGAGTCGTGGACTTTGAA-GAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
1330495 AAGAGATGCCACGGAGTTGTGGACTTAAAAGG--
1 AA-AGATGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
1330527 ---G-TGCCACAGAGTTGTGGGCTTTGAAAAAAAGAA
1 AAAGATGCCACGGAGTTGTGGAC-TT---AAAAGGAA
* * **
1330560 AAAGGTGCCACGGAGTTGTGGGCTTTGAA-G-A
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
* *
1330591 AAAGATGCCACTGAGTCGTGGACTTAAAAGGAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
* *
1330624 CAAGGTGCCACGGAGTTGTGGACTTTAAAA-G--
1 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGGAA
*
1330655 ---GATACCACGGAGTTGTGGACTTTAAAA-G--
1 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGGAA
*
1330683 ---GATGCCACGGAGTTGTGGGCTTTGAAAA-GAA
1 AAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGAA
* * *
1330714 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGA
1 AAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGAA
* * * ** **
1330749 AAGGGTGCCACAGAGTCATGGACTTTGAA-GAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
* *
1330781 AAGAGATGCCACGGAGTTGTGGGCTTTGAAAAAAAGAA
1 AA-AGATGCCACGGAGTTGTGGAC-TT---AAAAGGAA
*
1330819 AAAGGTGCCACGGAGTTGTGG
1 AAAGATGCCACGGAGTTGTGG
1330840 GCTTTGAGAA
Statistics
Matches: 646, Mismatches: 111, Indels: 135
0.72 0.12 0.15
Matches are distributed among these distances:
27 32 0.05
28 112 0.17
29 17 0.03
31 57 0.09
32 19 0.03
33 171 0.26
34 97 0.15
35 77 0.12
36 6 0.01
37 53 0.08
38 5 0.01
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (33 bp):
AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:1330126 original size:28 final size:29
Alignment explanation
Indices: 1330082--1330882 Score: 273
Period size: 28 Copynumber: 25.1 Consensus size: 29
1330072 TAAAAGGAAC
1330082 AAGG-TGCCACGGAGTTGTGGACTTT-AA
1 AAGGATGCCACGGAGTTGTGGACTTTAAA
* * *
1330109 AATGATGCCACGGAGTTGTGAACCTT-AA
1 AAGGATGCCACGGAGTTGTGGACTTTAAA
*
1330137 AAGGATGCCACGGAGTTGTGGGCTTTGAGAA
1 AAGGATGCCACGGAGTTGTGGACTTT-A-AA
* * *
1330168 GAA-AATGTGCCACAGAGTTGTGGGCTTTAAAAGGGGA
1 -AAGGA--TGCCACGGAGTTGTGGACTTT--AA----A
* *
1330205 AAGGGTGCCACAGAGTTGTGGACTTTGAAGAA
1 AAGGATGCCACGGAGTTGTGGACTTT--A-AA
*
1330237 AAGATATGCCACGGAGTTGTGGAC-TT-AA
1 AAG-GATGCCACGGAGTTGTGGACTTTAAA
* * * *
1330265 AAGGGTACCACAGAGTTGTGGGCTTTGAAAAA
1 AAGGATGCCACGGAGTTGTGGACTTT---AAA
* *
1330297 AAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGA
1 AAG-----GATGCCACGGAGTTGTGGACTTT-AA-A
* * * * *
1330333 AAAGATGCGACTGAGTCGTGGACTTAAAAGGAA
1 AAGGATGCCACGGAGTTGTGGACTT--TA--AA
1330366 CAAGG-TGCCACGGAGTTGTGGACTTT-AA
1 -AAGGATGCCACGGAGTTGTGGACTTTAAA
*
1330394 AAGGATGCCACGGAGTTGTGGGCTTTGAAAAGAAA
1 AAGGATGCCACGGAGTTGTGGACTTT------AAA
* *
1330429 AAGG-TGCCATGGAGTTGTGGGCTTTAAA
1 AAGGATGCCACGGAGTTGTGGACTTTAAA
* * *
1330457 AGGGGAAATGGTGCCACAGAGTCGTGGACTTTGAAGAA
1 A-AGG--A---TGCCACGGAGTTGTGGACTTT--A-AA
1330495 AAGAGATGCCACGGAGTTGTGGAC-TT-AA
1 AAG-GATGCCACGGAGTTGTGGACTTTAAA
* * *
1330523 AAGGGTGCCACAGAGTTGTGGGCTTTGAAAAA
1 AAGGATGCCACGGAGTTGTGGACTTT---AAA
* *
1330555 AAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGA
1 AAG-----GATGCCACGGAGTTGTGGACTTT-AA-A
* * * *
1330591 AAAGATGCCACTGAGTCGTGGACTTAAAAGGAA
1 AAGGATGCCACGGAGTTGTGGACTT--TA--AA
1330624 CAAGG-TGCCACGGAGTTGTGGACTTT-AA
1 -AAGGATGCCACGGAGTTGTGGACTTTAAA
*
1330652 AAGGATACCACGGAGTTGTGGACTTT-AA
1 AAGGATGCCACGGAGTTGTGGACTTTAAA
*
1330680 AAGGATGCCACGGAGTTGTGGGCTTTGAAAAGAAA
1 AAGGATGCCACGGAGTTGTGGACTTT------AAA
*
1330715 AAGG-TGCCACGGAGTTGTGGGCTTTAAA
1 AAGGATGCCACGGAGTTGTGGACTTTAAA
* **
1330743 AAGGGAAAGGGTGCCACAGAGTCATGGACTTTGAAGAA
1 AA-GG--A---TGCCACGGAGTTGTGGACTTT--A-AA
*
1330781 AAGAGATGCCACGGAGTTGTGGGCTTTGAAAAA
1 AAG-GATGCCACGGAGTTGTGGACTTT---AAA
* * * *
1330814 AAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAG
1 AAG-----GATGCCACGGAGTTGTGGACTTTAAA
* *
1330848 AAGAGATTGCCACTGAGTTGTGGACTTTAAG
1 AAG-GA-TGCCACGGAGTTGTGGACTTTAAA
1330879 AAGG
1 AAGG
1330883 TATTTAAAGA
Statistics
Matches: 602, Mismatches: 81, Indels: 179
0.70 0.09 0.21
Matches are distributed among these distances:
27 43 0.07
28 136 0.23
29 4 0.01
30 3 0.00
31 62 0.10
32 22 0.04
33 113 0.19
34 56 0.09
35 72 0.12
36 11 0.02
37 71 0.12
38 9 0.01
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.22
Consensus pattern (29 bp):
AAGGATGCCACGGAGTTGTGGACTTTAAA
Found at i:1330288 original size:95 final size:94
Alignment explanation
Indices: 1330177--1330363 Score: 259
Period size: 95 Copynumber: 2.0 Consensus size: 94
1330167 AGAAAATGTG
** * *
1330177 CCACAGAGTTGTGGGCTTT-AAAAGGGGAAAGGGTGCCACAGAGTTGTGGACTTTGAAGAAAAGA
1 CCACAGAGTTGTGGGCTTTAAAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTTGAAGAAAAG-
*
1330241 TATGCCACGGAGTTGTGGACTTAAAAGGGTA
65 -ATGCCACGGAGTCGTGGACTTAAAAGGGTA
* *
1330272 CCACAGAGTTGTGGGCTTTGAAAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAG
1 CCACAGAGTTGTGGGCTTT-AAAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTTGAAGAAAAG
* *
1330337 ATGCGACTGAGTCGTGGACTTAAAAGG
65 ATGCCACGGAGTCGTGGACTTAAAAGG
1330364 AACAAGGTGC
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
95 43 0.53
97 38 0.47
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (94 bp):
CCACAGAGTTGTGGGCTTTAAAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTTGAAGAAAAGA
TGCCACGGAGTCGTGGACTTAAAAGGGTA
Found at i:1330289 original size:128 final size:125
Alignment explanation
Indices: 1329980--1330844 Score: 799
Period size: 129 Copynumber: 6.7 Consensus size: 125
1329970 TGAAATGGAG
*
1329980 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGAGCTTT-AAA
1 AAAGATGCCACGGAGTTGTGGACTTAAAA--G-----GA-TGCCACGGAGTTGTGGGCTTTGAAA
* * * * * * *
1330044 GGAAAAAGATGTCACAGAGTTGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTT-
58 AGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGAA-AAGGTGCCACAGAGTCGTGGACTTTA
1330107 -A-A
122 AAGA
* * *
1330109 AATGATGCCACGGAGTTGTGAACCTTAAAAGGATGCCACGGAGTTGTGGGCTTTGAGAAG-AAAA
1 AAAGATGCCACGGAGTTGTGGA-CTTAAAAGGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAAA
* * * * *
1330173 TGTGCCACAGAGTTGTGGGCTTTAAAAGGGGAAAGGGTGCCACAGAGTTGTGGACTTTGAAGA
65 GGTGCCACGGAGTTGTGGGCTTTAAAA--GGAAAAGGTGCCACAGAGTCGTGGACTTTAAAGA
* * *
1330236 AAAGATATGCCACGGAGTTGTGGACTTAAAAGGGTACCACAGAGTTGTGGGCTTTGAAAAAAAGA
1 AAAG--ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGGCTTTG---AAAAGA
* * * * *
1330301 AAAAGGTGCCACGGAGTTGTGGGCTTT-GAA-GAAAAGATGCGACTGAGTCGTGGACTTAAAAGG
61 AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAGGTGCCACAGAGTCGTGGACTTTAAA-G
1330364 A
125 A
*
1330365 ACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
1 A-AAGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
* * *
1330430 AGGTGCCATGGAGTTGTGGGCTTTAAAAGGGGAAATGGTGCCACAGAGTCGTGGACTTTGAAGAA
64 AGGTGCCACGGAGTTGTGGGCTTTAAAA--GGAAAAGGTGCCACAGAGTCGTGGACTTTAAAG-A
* *
1330495 AAGAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGGCTTTGAAAAAAAGAA
1 AA-AGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGGCTTTG---AAAAGAA
* * * *
1330560 AAAGGTGCCACGGAGTTGTGGGCTTT-GAA-GAAAAGATGCCACTGAGTCGTGGACTTAAAAGGA
62 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAGGTGCCACAGAGTCGTGGACTTTAAA-GA
* * *
1330623 ACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGATACCACGGAGTTGTGGACTTT-AAAAG----
1 A-AAGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
* * * * *
1330683 -GATGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGG
64 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGGAAAAGGTGCCACAGAGTCGTGGACTTT--AAA--
1330747 GA
124 GA
* * * **
1330749 AAGGGTGCCACAGAGTCATGGACTTTGAAGAAAAGAGATGCCACGGAGTTGTGGGCTTTGAAAAA
1 AAAGATGCCACGGAGTTGTGGAC-TT----AAAAG-GATGCCACGGAGTTGTGGGCTTTG---AA
1330814 AAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
57 AAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1330845 GAGAAGAGAT
Statistics
Matches: 618, Mismatches: 69, Indels: 88
0.80 0.09 0.11
Matches are distributed among these distances:
120 22 0.04
122 42 0.07
123 33 0.05
124 23 0.04
125 33 0.05
126 37 0.06
127 6 0.01
128 120 0.19
129 132 0.21
130 78 0.13
131 8 0.01
132 57 0.09
134 5 0.01
139 22 0.04
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.22
Consensus pattern (125 bp):
AAAGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAG
GTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAGGTGCCACAGAGTCGTGGACTTTAAAGA
Found at i:1330472 original size:258 final size:257
Alignment explanation
Indices: 1330114--1330874 Score: 1092
Period size: 258 Copynumber: 2.9 Consensus size: 257
1330104 TTTAAAATGA
* * * *
1330114 TGCCACGGAGTTGTGAACCTTAAAAGGATGCCACGGAGTTGTGGGCTTTGAGAAGAAAATGTGCC
1 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAAGGTGCC
* * *
1330179 ACAGAGTTGTGGGCTTTAAAAGGGGAAAGGGTGCCACAGAGTTGTGGACTTTGAAGAAAAGATAT
66 ACGGAGTTGTGGGCTTTAAAAGGGGAAAAGGTGCCACAGAGTTGTGGACTTTGAAGAAAAGAAAT
*
1330244 GCCACGGAGTTGTGGACTTAAAAGGGTACCACAGAGTTGTGGGCTTTGAAAAAAAGAAAAAGGTG
131 GCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGGCTTTGAAAAAAAGAAAAAGGTG
*
1330309 CCACGGAGTTGTGGGCTTTGAAGAAAAGATGCGACTGAGTCGTGGACTTAAAAGGAACAAGG
196 CCACGGAGTTGTGGGCTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTAAAAGGAACAAGG
1330371 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGC
1 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGGCTTTGAAAAG-AAAAGGTGC
* * * *
1330436 CATGGAGTTGTGGGCTTTAAAAGGGGAAATGGTGCCACAGAGTCGTGGACTTTGAAGAAAAGAGA
65 CACGGAGTTGTGGGCTTTAAAAGGGGAAAAGGTGCCACAGAGTTGTGGACTTTGAAGAAAAGAAA
1330501 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGGCTTTGAAAAAAAGAAAAAGGT
130 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGGCTTTGAAAAAAAGAAAAAGGT
1330566 GCCACGGAGTTGTGGGCTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTAAAAGGAACAAGG
195 GCCACGGAGTTGTGGGCTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTAAAAGGAACAAGG
* * *
1330629 TGCCACGGAGTTGTGGACTTTAAAAGGATACCACGGAGTTGTGGACTTT-AAAAG----GATGCC
1 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAAGGTGCC
* * * *
1330689 ACGGAGTTGTGGGCTTTGAAAA--GAAAAAGGTGCCACGGAGTTGTGGGCTTT-AA-AAAGGGAA
66 ACGGAGTTGTGGGCTTT-AAAAGGGGAAAAGGTGCCACAGAGTTGTGGACTTTGAAGAAA-AGAA
* ** * *
1330750 AGGGTGCCACAGAGTCATGGACTTTGAAGAAAAGAGATGCCACGGAGTTGTGGGCTTTGAAAAAA
129 A---TGCCACGGAGTTGTGGAC-TT----AAAAG-GGTGCCACAGAGTTGTGGGCTTTGAAAAAA
* *
1330815 AGAAAAAGGTGCCACGGAGTTGTGGGCTTTG-AGAAGAGATTGCCACTGAGTTGTGGACTT
185 AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGA-TGCCACTGAGTCGTGGACTT
1330875 TAAGAAGGTA
Statistics
Matches: 462, Mismatches: 29, Indels: 24
0.90 0.06 0.05
Matches are distributed among these distances:
249 3 0.01
250 5 0.01
251 24 0.05
252 21 0.05
253 19 0.04
254 2 0.00
257 57 0.12
258 253 0.55
259 78 0.17
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.22
Consensus pattern (257 bp):
TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAAGGTGCC
ACGGAGTTGTGGGCTTTAAAAGGGGAAAAGGTGCCACAGAGTTGTGGACTTTGAAGAAAAGAAAT
GCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGGCTTTGAAAAAAAGAAAAAGGTG
CCACGGAGTTGTGGGCTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTAAAAGGAACAAGG
Found at i:1330804 original size:68 final size:68
Alignment explanation
Indices: 1330709--1330882 Score: 194
Period size: 68 Copynumber: 2.6 Consensus size: 68
1330699 GGGCTTTGAA
* * *
1330709 AAGAAAA-AGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAGGGTGCCACAGAGTCATGGACT
1 AAGAAAAGAGATGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGGTGCCACAGAGTCATGGACT
1330773 TTG
66 TTG
* * ** *
1330776 AAGAAAAGAGATGCCACGGAGTTGTGGGCTTTGAAAAAAAGAAAAAGGTGCCACGGAGTTGTGGG
1 AAGAAAAGAGATGCCACGGAGTTGTGGGCTTT--AAAAAGGAAAAAGGTGCCACAGAGTCATGGA
1330841 CTTTG
64 CTTTG
* * *
1330846 -AG--AAGAGATTGCCACTGAGTTGTGGACTTTAAGAAGG
1 AAGAAAAGAGA-TGCCACGGAGTTGTGGGCTTTAAAAAGG
1330883 TATTTAAAGA
Statistics
Matches: 91, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
66 5 0.05
67 13 0.14
68 42 0.46
69 2 0.02
70 29 0.32
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (68 bp):
AAGAAAAGAGATGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGGTGCCACAGAGTCATGGACT
TTG
Found at i:1332170 original size:13 final size:13
Alignment explanation
Indices: 1332152--1332196 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
1332142 GCCTTTACAC
1332152 TTTTTT-TTGTGTG
1 TTTTTTGTTGT-TG
1332165 TTTTTTGTTGTTG
1 TTTTTTGTTGTTG
1332178 TTTGTTTGTT-TTG
1 TTT-TTTGTTGTTG
1332191 TTTTTT
1 TTTTTT
1332197 TTTCATCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.10
13 17 0.57
14 10 0.33
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (13 bp):
TTTTTTGTTGTTG
Found at i:1339145 original size:34 final size:33
Alignment explanation
Indices: 1339086--1339152 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
1339076 ATTTGCCTGC
* *
1339086 ATGTATCGATACATTGAGTAATGTATCGATACA
1 ATGTATCAATACATTAAGTAATGTATCGATACA
1339119 ATGTATCAATACATTTAAGTAATGTATCGATACA
1 ATGTATCAATACA-TTAAGTAATGTATCGATACA
1339153 TTTCCTTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 12 0.39
34 19 0.61
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (33 bp):
ATGTATCAATACATTAAGTAATGTATCGATACA
Found at i:1339586 original size:279 final size:279
Alignment explanation
Indices: 1339086--1339619 Score: 989
Period size: 279 Copynumber: 1.9 Consensus size: 279
1339076 ATTTGCCTGC
**
1339086 ATGTATCGATACATTGAGTAATGTATCGATACAATGTATCAATACATTTAAGTAATGTATCGATA
1 ATGTATCGATACAAAGAGTAATGTATCGATACAATGTATCAATACATTTAAGTAATGTATCGATA
1339151 CATTTCCTTGGCAGTAGCTTCGTAGCGATACATTGTATCGATACAACACTTATGTATCGATACAA
66 CATTTCCTTGGCAGTAGCTTCGTAGCGATACATTGTATCGATACAACACTTATGTATCGATACAA
* *
1339216 TTTCTATTTGTATTGATACAAAACGTTGAAATTCAAAATTTTTGACCGTTGGGACCTTATATTGA
131 TTTCTATTTGTATTGATACAAAACGTTGAAATTCAAAATTTTTGACCATTGAGACCTTATATTGA
*
1339281 TACATTCTGGAAAAGTATCGATACATTTGGACAAAAATGTGATTTTTTCATCCTTTTTGCATACA
196 TACATTCTAGAAAAGTATCGATACATTTGGACAAAAATGTGATTTTTTCATCCTTTTTGCATACA
1339346 TCTGGGTAAAATTTCCCAA
261 TCTGGGTAAAATTTCCCAA
*
1339365 ATGTATCGATACAAAGA-TCAATGTATCGATACAATGTATCAATACATTTGAGTAATGTATCGAT
1 ATGTATCGATACAAAGAGT-AATGTATCGATACAATGTATCAATACATTTAAGTAATGTATCGAT
1339429 ACATTTCCTTGGCAGTAGCTTCGTAGCGATACATTGTATCGATACAACACTTATGTATCGATACA
65 ACATTTCCTTGGCAGTAGCTTCGTAGCGATACATTGTATCGATACAACACTTATGTATCGATACA
*
1339494 ATTTCTGTTTGTATTGATACAAAACGTTGAAATTCAAAATTTTTGACCATTGAGACCTTATATTG
130 ATTTCTATTTGTATTGATACAAAACGTTGAAATTCAAAATTTTTGACCATTGAGACCTTATATTG
1339559 ATACATTCTAGAAAAGTATCGATACATTTGGACAAAAATGTGATTTTTTCATCCTTTTTGC
195 ATACATTCTAGAAAAGTATCGATACATTTGGACAAAAATGTGATTTTTTCATCCTTTTTGC
1339620 CTTTCGAACA
Statistics
Matches: 247, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
278 1 0.00
279 246 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (279 bp):
ATGTATCGATACAAAGAGTAATGTATCGATACAATGTATCAATACATTTAAGTAATGTATCGATA
CATTTCCTTGGCAGTAGCTTCGTAGCGATACATTGTATCGATACAACACTTATGTATCGATACAA
TTTCTATTTGTATTGATACAAAACGTTGAAATTCAAAATTTTTGACCATTGAGACCTTATATTGA
TACATTCTAGAAAAGTATCGATACATTTGGACAAAAATGTGATTTTTTCATCCTTTTTGCATACA
TCTGGGTAAAATTTCCCAA
Found at i:1346656 original size:31 final size:31
Alignment explanation
Indices: 1346598--1346673 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
1346588 CATAAGTAAT
* *
1346598 TTTTTATTT-AATGTCTTATACTTAAATATTA
1 TTTTTATTTAAATATCTTATACTAAAATA-TA
*
1346629 TTTTTATTTAAATATTTTATA-TAAAATATA
1 TTTTTATTTAAATATCTTATACTAAAATATA
*
1346659 TTTATATTTTAAATA
1 TTTTTA-TTTAAATA
1346674 ATATTATTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 7 0.18
31 23 0.59
32 9 0.23
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (31 bp):
TTTTTATTTAAATATCTTATACTAAAATATA
Done.