Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 157 of 199
Found at i:46203201 original size:19 final size:18
Alignment explanation
Indices: 46203131--46203251 Score: 57
Period size: 19 Copynumber: 6.2 Consensus size: 18
46203121 TTCTTACGAC
46203131 TTTATAAAATTTTATTATT
1 TTTATAAAATTTTA-TATT
* *
46203150 TTT-TCTATATTTCTATATAT
1 TTTAT-AAAATTT-TATAT-T
***
46203170 TTTATATTTTTTTATGATT
1 TTTATAAAATTTTAT-ATT
*
46203189 TTTATAAAATTTTCTAATT
1 TTTATAAAATTTTAT-ATT
*
46203208 TTTA-ATAACTTTTAAATATTT
1 TTTATA-AAATTTT--ATA-TT
46203229 TTTATTAAAATTTTATTATT
1 TTTA-TAAAATTTTA-TATT
46203249 TTT
1 TTT
46203252 TTATCTTTTT
Statistics
Matches: 77, Mismatches: 13, Indels: 23
0.68 0.12 0.20
Matches are distributed among these distances:
18 2 0.03
19 39 0.51
20 19 0.25
21 10 0.13
22 6 0.08
23 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATAAAATTTTATATT
Found at i:46203692 original size:13 final size:13
Alignment explanation
Indices: 46203657--46203722 Score: 52
Period size: 13 Copynumber: 5.5 Consensus size: 13
46203647 TTAAAGACAA
46203657 ATAT-TCTATTAT
1 ATATATCTATTAT
*
46203669 ATATATGTATTAT
1 ATATATCTATTAT
* *
46203682 TTGTATCTATT-T
1 ATATATCTATTAT
*
46203694 ATAAAT-TATT-T
1 ATATATCTATTAT
*
46203705 ATA-ATCTATCAT
1 ATATATCTATTAT
46203717 ATATAT
1 ATATAT
46203723 ATAAGCACAA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
10 2 0.05
11 11 0.26
12 12 0.29
13 17 0.40
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (13 bp):
ATATATCTATTAT
Found at i:46205256 original size:34 final size:34
Alignment explanation
Indices: 46205217--46205299 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 34
46205207 AGAATTTAAT
*
46205217 TATGCTTTTAACAGAACAATACAGTAAC-AATAAA
1 TATGCTTTTAACAGAACAATACAATAACAAAT-AA
* ** *
46205251 TATGCTTATAACAGTTCAATACAATAGCAAATAA
1 TATGCTTTTAACAGAACAATACAATAACAAATAA
46205285 TATG-TTTATAACAGA
1 TATGCTTT-TAACAGA
46205300 TAAACTCAGT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
33 2 0.05
34 35 0.88
35 3 0.08
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (34 bp):
TATGCTTTTAACAGAACAATACAATAACAAATAA
Found at i:46205313 original size:34 final size:34
Alignment explanation
Indices: 46205249--46205328 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 34
46205239 AGTAACAATA
* * *
46205249 AATATGCTTATAACAGTTCAATACAATAGCAAAT
1 AATATGTTTATAACAGATAAATACAATAGCAAAT
*
46205283 AATATGTTTATAACAGATAAACT-CAGTAGCAAAT
1 AATATGTTTATAACAGATAAA-TACAATAGCAAAT
46205317 AATCATGTTTAT
1 AAT-ATGTTTAT
46205329 TAAGTGTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
34 31 0.77
35 9 0.22
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (34 bp):
AATATGTTTATAACAGATAAATACAATAGCAAAT
Found at i:46209384 original size:28 final size:28
Alignment explanation
Indices: 46209352--46209414 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
46209342 TATCTTAGGA
46209352 TGTTACATTTTAATTATCACTTAATTAG
1 TGTTACATTTTAATTATCACTTAATTAG
46209380 TGTTACATTTTAATTATCACTTAATTAG
1 TGTTACATTTTAATTATCACTTAATTAG
*
46209408 TATTACA
1 TGTTACA
46209415 GTTATATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.49
Consensus pattern (28 bp):
TGTTACATTTTAATTATCACTTAATTAG
Found at i:46209622 original size:3 final size:3
Alignment explanation
Indices: 46209614--46209640 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
46209604 TCTTTTTACC
46209614 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
46209641 AAAAAAGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:46210204 original size:13 final size:13
Alignment explanation
Indices: 46210186--46210211 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46210176 AAAATCAAGT
46210186 TTTTAATTAAATA
1 TTTTAATTAAATA
46210199 TTTTAATTAAATA
1 TTTTAATTAAATA
46210212 AATATAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTTAATTAAATA
Found at i:46214044 original size:23 final size:20
Alignment explanation
Indices: 46214012--46214069 Score: 57
Period size: 23 Copynumber: 2.8 Consensus size: 20
46214002 GGCCTGGCCT
46214012 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
46214034 ATTTATTTTAAAAAATAAAAA
1 ATTTATTTT-AAAAATAAAAA
*
46214055 A-ATATTTTAAAAATA
1 ATTTATTTTAAAAATA
46214070 TTTTAGTATG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 7 0.21
20 6 0.18
21 5 0.15
22 4 0.12
23 9 0.27
24 2 0.06
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:46215714 original size:21 final size:21
Alignment explanation
Indices: 46215683--46215733 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
46215673 AAGCCAAAGC
46215683 AGCAAG-AACTAACTTAAATA
1 AGCAAGAAACTAACTTAAATA
*
46215703 AGTAAGAAACTAACTTAAATA
1 AGCAAGAAACTAACTTAAATA
46215724 AGCAAGAAAC
1 AGCAAGAAAC
46215734 AATAAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.57, C:0.14, G:0.12, T:0.18
Consensus pattern (21 bp):
AGCAAGAAACTAACTTAAATA
Found at i:46219556 original size:23 final size:22
Alignment explanation
Indices: 46219530--46219593 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
46219520 TATGTTCTGT
46219530 ATTAATATTTATATATTTTTATA
1 ATTAA-ATTTATATATTTTTATA
* * *
46219553 ATTAAATTTAAATAAATTATATA
1 ATTAAATTTATAT-ATTTTTATA
* *
46219576 TTTAAATTTATTTATTTT
1 ATTAAATTTATATATTTT
46219594 AAATGTAGAT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
22 10 0.31
23 22 0.69
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTAAATTTATATATTTTTATA
Found at i:46219817 original size:12 final size:11
Alignment explanation
Indices: 46219789--46219822 Score: 50
Period size: 11 Copynumber: 2.9 Consensus size: 11
46219779 ATCTTTAATT
46219789 TTTATTAAAAA
1 TTTATTAAAAA
46219800 TTTATTAAAAA
1 TTTATTAAAAA
46219811 TTGTATTTAAAA
1 TT-TA-TTAAAA
46219823 CGCATGGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 13 0.62
12 2 0.10
13 6 0.29
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (11 bp):
TTTATTAAAAA
Found at i:46220569 original size:22 final size:24
Alignment explanation
Indices: 46220544--46220587 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
46220534 CGTGTATTTC
46220544 ATAAAA-TTAAAAAAT-AATAATA
1 ATAAAATTTAAAAAATCAATAATA
*
46220566 ATAAAATTTTAAAAATCAATAA
1 ATAAAATTTAAAAAATCAATAA
46220588 ATTTGAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 8 0.42
24 5 0.26
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (24 bp):
ATAAAATTTAAAAAATCAATAATA
Found at i:46220947 original size:60 final size:59
Alignment explanation
Indices: 46220836--46220947 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 59
46220826 CTTAATATTA
**
46220836 AATTTGATACCTGAACTTGACATTTTTTCTTAATTTGGTACTAATTTTTTTTTGGGCCC
1 AATTTGATACCTGAACTTGACATTTTTTCTTAATTTGGTACTAATGCTTTTTTGGGCCC
* *
46220895 AATTTGGTATCTGAACTTG-CATTTTTCTTCTTAATTTGGTACCTAA-GCTTTTT
1 AATTTGATACCTGAACTTGACA-TTTT-TTCTTAATTTGGTA-CTAATGCTTTTT
46220948 CTTAGATTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
58 2 0.04
59 21 0.46
60 19 0.41
61 4 0.09
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.50
Consensus pattern (59 bp):
AATTTGATACCTGAACTTGACATTTTTTCTTAATTTGGTACTAATGCTTTTTTGGGCCC
Found at i:46221368 original size:29 final size:29
Alignment explanation
Indices: 46221335--46221447 Score: 86
Period size: 29 Copynumber: 3.9 Consensus size: 29
46221325 AATATTTGAC
46221335 AAGTTCAAGTACCAAATTGAACAAAAAAA
1 AAGTTCAAGTACCAAATTGAACAAAAAAA
* * * ***
46221364 AAGTTCAGGTACCAAATTAGGA-AAGAGTC
1 AAGTTCAAGTACCAAATT-GAACAAAAAAA
* ***
46221393 AAGTTCAGGTACCAAATTGAACTCCAAAA
1 AAGTTCAAGTACCAAATTGAACAAAAAAA
* * *
46221422 AAGATCAAATACCAAATT-AAGAAAAA
1 AAGTTCAAGTACCAAATTGAACAAAAA
46221448 GTGTCAAGCT
Statistics
Matches: 62, Mismatches: 20, Indels: 5
0.71 0.23 0.06
Matches are distributed among these distances:
28 6 0.10
29 54 0.87
30 2 0.03
ACGTcount: A:0.52, C:0.15, G:0.14, T:0.19
Consensus pattern (29 bp):
AAGTTCAAGTACCAAATTGAACAAAAAAA
Found at i:46221467 original size:60 final size:58
Alignment explanation
Indices: 46221334--46221478 Score: 159
Period size: 58 Copynumber: 2.5 Consensus size: 58
46221324 AAATATTTGA
* ** *
46221334 CAAGTTCAAGTACCAAATTGAACAAAAAAAAAGTTCAGGTACCAAATTAGGAAAGAGT
1 CAAGTTCAAGTACCAAATTGAACAAAAAAAAAGATCAAATACCAAATTAGAAAAGAGT
* *** *
46221392 CAAGTTCAGGTACCAAATTGAACTCCAAAAAAGATCAAATACCAAATTAAGAAAAAGTGT
1 CAAGTTCAAGTACCAAATTGAACAAAAAAAAAGATCAAATACCAAATT-AG-AAAAGAGT
*
46221452 CAAGCTT-AAGTACCAAATT-AAGAAAAA
1 CAAG-TTCAAGTACCAAATTGAACAAAAA
46221479 GTGTCAAGTT
Statistics
Matches: 70, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
58 41 0.59
59 6 0.09
60 21 0.30
61 2 0.03
ACGTcount: A:0.51, C:0.15, G:0.14, T:0.19
Consensus pattern (58 bp):
CAAGTTCAAGTACCAAATTGAACAAAAAAAAAGATCAAATACCAAATTAGAAAAGAGT
Found at i:46221469 original size:31 final size:31
Alignment explanation
Indices: 46221431--46221500 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
46221421 AAAGATCAAA
46221431 TACCAAATTAAGAAAAAGTGTCAAGCTTAAG
1 TACCAAATTAAGAAAAAGTGTCAAGCTTAAG
*
46221462 TACCAAATTAAGAAAAAGTGTCAAGTTTAAG
1 TACCAAATTAAGAAAAAGTGTCAAGCTTAAG
46221493 TACCAAAT
1 TACCAAAT
46221501 ATTATATTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.49, C:0.13, G:0.14, T:0.24
Consensus pattern (31 bp):
TACCAAATTAAGAAAAAGTGTCAAGCTTAAG
Found at i:46227267 original size:10 final size:10
Alignment explanation
Indices: 46227242--46227305 Score: 56
Period size: 10 Copynumber: 6.4 Consensus size: 10
46227232 CTTATTAAAA
46227242 CATAACATAT
1 CATAACATAT
** *
46227252 TGTATCATAT
1 CATAACATAT
* *
46227262 CATATCATTT
1 CATAACATAT
* *
46227272 CGTAACATAG
1 CATAACATAT
*
46227282 CGTAACATAT
1 CATAACATAT
46227292 CATAACATAT
1 CATAACATAT
46227302 CATA
1 CATA
46227306 TCCTACCCCC
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
10 42 1.00
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (10 bp):
CATAACATAT
Found at i:46230896 original size:28 final size:28
Alignment explanation
Indices: 46230856--46230912 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
46230846 TTTAATCAAT
*
46230856 TAACACATTTAAACTAATTGCGATTGAC
1 TAACACATTTAAACTAATAGCGATTGAC
46230884 TAACACATTTAAACTAATAGCGATTGAC
1 TAACACATTTAAACTAATAGCGATTGAC
46230912 T
1 T
46230913 TATCAACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.32
Consensus pattern (28 bp):
TAACACATTTAAACTAATAGCGATTGAC
Found at i:46232529 original size:21 final size:21
Alignment explanation
Indices: 46232503--46232552 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
46232493 TGCTTTCTTA
*
46232503 TTTTCTTCTTTTATTACTTCT
1 TTTTCTCCTTTTATTACTTCT
*
46232524 TTTTCTCCTTTTATTATTTCT
1 TTTTCTCCTTTTATTACTTCT
46232545 TTTTCTCC
1 TTTTCTCC
46232553 ATAGAAGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTCTCCTTTTATTACTTCT
Found at i:46234253 original size:17 final size:18
Alignment explanation
Indices: 46234231--46234267 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
46234221 CAATTTAGGC
46234231 CATGTGGGCC-ACACAGG
1 CATGTGGGCCTACACAGG
*
46234248 CATGTGGGCCTACACGGG
1 CATGTGGGCCTACACAGG
46234266 CA
1 CA
46234268 AACATCATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.22, C:0.30, G:0.35, T:0.14
Consensus pattern (18 bp):
CATGTGGGCCTACACAGG
Found at i:46240324 original size:32 final size:32
Alignment explanation
Indices: 46240286--46240392 Score: 97
Period size: 32 Copynumber: 3.1 Consensus size: 32
46240276 CCTGTTTTTT
* **
46240286 AAATAAATACTAAAAATTTATTTTAAAAATTA
1 AAATAAAAACTAAAAAAGTATTTTAAAAATTA
*
46240318 AAATAAAAATTAAAAAAGTATTTTAAAAATATTTTA
1 AAATAAAAACTAAAAAAGTATTTT-AAAA-A--TTA
*
46240354 AAATTAAAAAATTAAAAAAAGTATTTTAAAAAATTA
1 AAA-T-AAAAACT-AAAAAAGTATTTT-AAAAATTA
46240390 AAA
1 AAA
46240393 AAATTTTAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
32 20 0.31
33 4 0.06
34 1 0.02
36 12 0.19
37 1 0.02
38 8 0.12
39 18 0.28
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.34
Consensus pattern (32 bp):
AAATAAAAACTAAAAAAGTATTTTAAAAATTA
Found at i:46240372 original size:10 final size:10
Alignment explanation
Indices: 46240359--46240422 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
46240349 TTTTAAAATT
46240359 AAAAAATTAA
1 AAAAAATTAA
**
46240369 AAAAAGTATTTT
1 AAAAA--ATTAA
46240381 AAAAAATT-A
1 AAAAAATTAA
46240390 AAAAAATT--
1 AAAAAATTAA
**
46240398 TTAAAATTAA
1 AAAAAATTAA
46240408 AAAAAATTAA
1 AAAAAATTAA
46240418 AAAAA
1 AAAAA
46240423 TATTTTAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
8 6 0.14
9 8 0.19
10 21 0.49
12 8 0.19
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (10 bp):
AAAAAATTAA
Found at i:46240373 original size:9 final size:9
Alignment explanation
Indices: 46240353--46240423 Score: 56
Period size: 9 Copynumber: 7.6 Consensus size: 9
46240343 AAAATATTTT
46240353 AAAATT-AA
1 AAAATTAAA
46240361 AAAATTAAAA
1 AAAATT-AAA
*
46240371 AAAGTATTTTAA
1 AAA--A-TTAAA
46240383 AAAATTAAA
1 AAAATTAAA
**
46240392 AAAATT-TT
1 AAAATTAAA
46240400 AAAATTAAAA
1 AAAATT-AAA
46240410 AAAATTAAA
1 AAAATTAAA
46240419 AAAAT
1 AAAAT
46240424 ATTTTAAAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
8 12 0.24
9 18 0.36
10 12 0.24
12 6 0.12
13 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.28
Consensus pattern (9 bp):
AAAATTAAA
Found at i:46240380 original size:39 final size:39
Alignment explanation
Indices: 46240315--46240458 Score: 152
Period size: 38 Copynumber: 3.5 Consensus size: 39
46240305 ATTTTAAAAA
46240315 TTAAAA-T-AAAAATT-AAAAAAGTATTTTAAAAATATT
1 TTAAAATTAAAAAATTAAAAAAAGTATTTTAAAAATATT
46240351 TTAAAATTAAAAAATTAAAAAAAGTATTTTAAAAAATTAAAAAAATT
1 TTAAAATTAAAAAATTAAAAAAAGTATTTT-AAAAA-T------ATT
*
46240398 TTAAAATTAAAAAAAATTAAAAAAA-TATTTTAAAAGTATT
1 TTAAAATT--AAAAAATTAAAAAAAGTATTTTAAAAATATT
*
46240438 TTAAAATTAAAAAAATAAAAA
1 TTAAAATTAAAAAATTAAAAA
46240459 TATTTATTAT
Statistics
Matches: 93, Mismatches: 2, Indels: 24
0.78 0.02 0.20
Matches are distributed among these distances:
36 6 0.06
37 1 0.01
38 19 0.20
39 13 0.14
40 16 0.17
41 1 0.01
46 1 0.01
47 15 0.16
48 6 0.06
49 15 0.16
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (39 bp):
TTAAAATTAAAAAATTAAAAAAAGTATTTTAAAAATATT
Found at i:46240392 original size:47 final size:47
Alignment explanation
Indices: 46240340--46240432 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
46240330 AAAAAGTATT
*
46240340 TTAAAAATATTTTAAAATT-AAAAAATTAAAAAAAGTATTTTAAAAAA
1 TTAAAAAAATTTTAAAATTAAAAAAATTAAAAAAA-TATTTTAAAAAA
46240387 TTAAAAAAATTTTAAAATTAAAAAAAATTAAAAAAATATTTTAAAA
1 TTAAAAAAATTTTAAAATT-AAAAAAATTAAAAAAATATTTTAAAA
46240433 GTATTTTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
47 18 0.42
48 10 0.23
49 15 0.35
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (47 bp):
TTAAAAAAATTTTAAAATTAAAAAAATTAAAAAAATATTTTAAAAAA
Found at i:46242481 original size:20 final size:20
Alignment explanation
Indices: 46242449--46242486 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
46242439 CTGTTGTTTG
*
46242449 TAAATTTTCATAT-TTTCCC
1 TAAAATTTCATATGTTTCCC
46242468 TAAAATTTCTATATGTTTC
1 TAAAATTTC-ATATGTTTC
46242487 TGATTTCGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.50
20 4 0.25
21 4 0.25
ACGTcount: A:0.29, C:0.16, G:0.03, T:0.53
Consensus pattern (20 bp):
TAAAATTTCATATGTTTCCC
Found at i:46246219 original size:20 final size:19
Alignment explanation
Indices: 46246167--46246219 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
46246157 TTGGAGCAGG
*
46246167 AATATCGATACCTTAGGAA
1 AATATCGATACCTTAAGAA
*
46246186 AATATTTTGATACCTTAAGAA
1 AATA--TCGATACCTTAAGAA
46246207 AAGTATCGATACC
1 AA-TATCGATACC
46246220 AAATAGATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 4 0.14
20 7 0.25
21 15 0.54
22 2 0.07
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (19 bp):
AATATCGATACCTTAAGAA
Found at i:46246725 original size:27 final size:27
Alignment explanation
Indices: 46246641--46246735 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 27
46246631 TGGCTAAATT
* *
46246641 TGAAGGAATAGTACATATGAAAAACTC
1 TGAAAGAATAGTACATATGGAAAACTC
* * *
46246668 TAAAAGAATAGTACGTATGGAAAACAC
1 TGAAAGAATAGTACATATGGAAAACTC
** *
46246695 TGAAAGAATAGTACATATGGCGAACTT
1 TGAAAGAATAGTACATATGGAAAACTC
*
46246722 TGAAGGAATAGTAC
1 TGAAAGAATAGTAC
46246736 GTATAATGAA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.22
Consensus pattern (27 bp):
TGAAAGAATAGTACATATGGAAAACTC
Found at i:46249838 original size:27 final size:27
Alignment explanation
Indices: 46249814--46249887 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
46249804 GGAAAAATAA
*
46249814 AAGCCTTTGTGGCAGTCTATAAAATGG
1 AAGCCTTTGTGGCAATCTATAAAATGG
* * *
46249841 AAGACTATGTGGCAATCTATGAAATGG
1 AAGCCTTTGTGGCAATCTATAAAATGG
* *
46249868 AAGCCCTTGTGGCGATCTAT
1 AAGCCTTTGTGGCAATCTAT
46249888 GGAAAGAAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (27 bp):
AAGCCTTTGTGGCAATCTATAAAATGG
Found at i:46250048 original size:27 final size:27
Alignment explanation
Indices: 46250018--46250133 Score: 106
Period size: 27 Copynumber: 4.3 Consensus size: 27
46250008 ATGATATGTG
* *
46250018 TGGATAACTTTGAAGGAATAGTACATA
1 TGGAGAACTTTGAAAGAATAGTACATA
* * * *
46250045 TGGAAAATTTTGAAAGAATAGTGCGTA
1 TGGAGAACTTTGAAAGAATAGTACATA
* *
46250072 TGGAGAACATTGAAAAAATAGTACATA
1 TGGAGAACTTTGAAAGAATAGTACATA
* * * * *
46250099 TGGCGAACTCTGAAGGAATGGTACGTA
1 TGGAGAACTTTGAAAGAATAGTACATA
*
46250126 TGGTGAAC
1 TGGAGAAC
46250134 ACTGAGAGAA
Statistics
Matches: 70, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (27 bp):
TGGAGAACTTTGAAAGAATAGTACATA
Found at i:46251321 original size:32 final size:34
Alignment explanation
Indices: 46251265--46251330 Score: 102
Period size: 32 Copynumber: 2.0 Consensus size: 34
46251255 TTTCTGAAAC
46251265 CCTAAGCGCCGCCCTTGGTTCAGA-CTGTTGGTCT
1 CCTAAGCGCCGCCCTTGGTTCAGACCT-TTGGTCT
46251299 CCTAAGCGCCG-CC-TGGTTCAGACCTTTGGTCT
1 CCTAAGCGCCGCCCTTGGTTCAGACCTTTGGTCT
46251331 TCTACCGCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 16 0.52
33 4 0.13
34 11 0.35
ACGTcount: A:0.12, C:0.33, G:0.26, T:0.29
Consensus pattern (34 bp):
CCTAAGCGCCGCCCTTGGTTCAGACCTTTGGTCT
Found at i:46254856 original size:17 final size:18
Alignment explanation
Indices: 46254818--46254859 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
46254808 GCAAAAACAA
*
46254818 AAAAAAATAAAAAAAGAG
1 AAAAAAATAAAAAAAGAC
*
46254836 AAAAAAAT-AAAAAATAC
1 AAAAAAATAAAAAAAGAC
46254853 AAAAAAA
1 AAAAAAA
46254860 CTCTACTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.86, C:0.02, G:0.05, T:0.07
Consensus pattern (18 bp):
AAAAAAATAAAAAAAGAC
Found at i:46254857 original size:18 final size:17
Alignment explanation
Indices: 46254810--46254859 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
46254800 CAGTAGAGGC
46254810 AAAAACAAAAAAAAATAA
1 AAAAAC-AAAAAAAATAA
*
46254828 AAAAAGAGAAAAAAATAA
1 AAAAACA-AAAAAAATAA
46254846 AAAATACAAAAAAA
1 AAAA-ACAAAAAAA
46254860 CTCTACTGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 25 0.89
19 2 0.07
ACGTcount: A:0.86, C:0.04, G:0.04, T:0.06
Consensus pattern (17 bp):
AAAAACAAAAAAAATAA
Found at i:46255311 original size:7 final size:7
Alignment explanation
Indices: 46255301--46255333 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
46255291 AAAAAACAAA
46255301 AAAAATG
1 AAAAATG
46255308 AAAAATG
1 AAAAATG
46255315 AAAAATG
1 AAAAATG
*
46255322 AAAAAAG
1 AAAAATG
46255329 AAAAA
1 AAAAA
46255334 GGAGAGGCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (7 bp):
AAAAATG
Found at i:46255768 original size:98 final size:100
Alignment explanation
Indices: 46255661--46255954 Score: 343
Period size: 98 Copynumber: 2.9 Consensus size: 100
46255651 TTCTCATTTC
* *
46255661 GTATCTTAGCAAAATTTTCTATCTTGATTAATTTATTCATTTTGAGCTTTGTTCTCAATAAAATT
1 GTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATT
46255726 TTCATCTTATCCATTGTGATAATCTTTTTCA-TCT
66 TTCATCTTATCCATTGTGATAATCTTTTTCAGTCT
46255760 -TATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAG-TCTTGTTCTCAATAAAAT
1 GTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCT-TTGTTCTCAATAAAAT
* * * *
46255823 CTTATCCATTGTGATAATCC-TT-TG--CATCTTATTCAGTTT
65 -TT-T-CA-TCT--T-ATCCATTGTGATAATCTTTTTCAGTCT
* * * *
46255862 GTATCTTAGCAAAAGTTGCCATCTTGATTAATTTATTCATTGCGAGCTTCGTTCTCAATAAAA-T
1 GTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATT
* * *
46255926 TTCATCTTGTCTATTGTAATAATCTTTTT
66 TTCATCTTATCCATTGTGATAATCTTTTT
46255955 AAAGCAATTT
Statistics
Matches: 164, Mismatches: 16, Indels: 30
0.78 0.08 0.14
Matches are distributed among these distances:
95 2 0.01
96 3 0.02
97 2 0.01
98 61 0.37
99 11 0.07
100 2 0.01
101 13 0.08
102 4 0.02
103 58 0.35
104 4 0.02
105 4 0.02
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.48
Consensus pattern (100 bp):
GTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATT
TTCATCTTATCCATTGTGATAATCTTTTTCAGTCT
Found at i:46255822 original size:49 final size:49
Alignment explanation
Indices: 46255671--46255822 Score: 127
Period size: 49 Copynumber: 3.1 Consensus size: 49
46255661 GTATCTTAGC
*
46255671 AAAATTTTCTATCTTGATTAATTTATTCATTTTGAG-CTTTGTTCTCAAT
1 AAAATTTTCTATCTTGATTAATTTATTCATTTCGAGTC-TTGTTCTCAAT
** * * * **
46255720 AAAATTTTC-ATCTT-ATCCATTGTGATAATCTTTTTC-A-TCTT-ATCTTAGC
1 AAAATTTTCTATCTTGATTAATT-T-AT--TC-ATTTCGAGTCTTGTTCTCAAT
*
46255769 AAAATTTGCTATCTTGATTAATTTATTCATTTCGAGTCTTGTTCTCAAT
1 AAAATTTTCTATCTTGATTAATTTATTCATTTCGAGTCTTGTTCTCAAT
46255818 AAAAT
1 AAAAT
46255823 CTTATCCATT
Statistics
Matches: 76, Mismatches: 16, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
46 4 0.05
47 8 0.11
48 10 0.13
49 34 0.45
50 8 0.11
51 9 0.12
52 3 0.04
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.49
Consensus pattern (49 bp):
AAAATTTTCTATCTTGATTAATTTATTCATTTCGAGTCTTGTTCTCAAT
Found at i:46256877 original size:46 final size:46
Alignment explanation
Indices: 46256825--46256963 Score: 208
Period size: 46 Copynumber: 3.0 Consensus size: 46
46256815 AATGGACTAA
*
46256825 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAG-AGGAGTTGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCA-GAGTAGATCG
* * * *
46256871 AAGATAGTAGATTTTGTCTTCCTATATTTGGCAGCAGAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTAGATCG
*
46256917 AAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCAGAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTAGATCG
46256963 A
1 A
46256964 CAGCGGAGTA
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 81 0.99
47 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (46 bp):
AAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTAGATCG
Found at i:46256972 original size:16 final size:16
Alignment explanation
Indices: 46256948--46256979 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46256938 CTGTATTTGG
46256948 CAGCAGAGTAGATCGA
1 CAGCAGAGTAGATCGA
*
46256964 CAGCGGAGTAGATCGA
1 CAGCAGAGTAGATCGA
46256980 AGATAGCAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.34, T:0.12
Consensus pattern (16 bp):
CAGCAGAGTAGATCGA
Found at i:46257004 original size:62 final size:62
Alignment explanation
Indices: 46256902--46257025 Score: 196
Period size: 62 Copynumber: 2.0 Consensus size: 62
46256892 CTATATTTGG
*
46256902 CAGCAGAGTAGATCAAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCAG-AGTAGATCGA
1 CAGCAGAGTAGATCAAAGATAGCAGATCTTATCTTCCTGTATTTGGCA-AAGAAGTAGATCGA
* * *
46256964 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAAAGAAGTAGATCGA
1 CAGCAGAGTAGATCAAAGATAGCAGATCTTATCTTCCTGTATTTGGCAAAGAAGTAGATCGA
46257026 AGATAGCAGA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
61 2 0.04
62 55 0.96
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (62 bp):
CAGCAGAGTAGATCAAAGATAGCAGATCTTATCTTCCTGTATTTGGCAAAGAAGTAGATCGA
Found at i:46257772 original size:46 final size:46
Alignment explanation
Indices: 46256964--46257750 Score: 1259
Period size: 46 Copynumber: 17.1 Consensus size: 46
46256954 AGTAGATCGA
46256964 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
1 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
** * *
46257010 CAAAGAAGTAGATCGAAGATAGCAGATCTTGTCTTCTTGTATTTGG
1 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
* * *
46257056 CAGAGGAGTAGATTGAAGATAGCAGATCTTGTCTTCATGTATTTGG
1 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
* *
46257102 CAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGG
1 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
46257148 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
1 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
* *
46257194 CAGCAGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGG
1 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
* * *
46257240 CAGCGGAATAGATTGAAAATAGCAGATCTTGTCTTCCTGTATTTGG
1 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
* * *
46257286 CAGCAGAGTAGATCGAAGATAGCAGATCTTGTTTTCATGTATTTGG
1 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
*
46257332 CAGCGGAGTAGATCGAAAATAGCAGATCTTGTCTTCCTGTATTTGG
1 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
* * * *
46257378 CAGTGGAGTAGATCAAAGATAGCAGATCTTGTCTTCTTGTATTTGT
1 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
*
46257424 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTAG
1 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
* *
46257470 CAGAGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGA
1 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
*
46257516 CAGCGGAGTAGATTGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
1 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
*
46257562 CAGAGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
1 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
* *
46257608 CAGTGGAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTTGG
1 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
*
46257654 CAGAGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
1 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
* * * **
46257700 CAGTGGAGTAGATTGAAGACAGCAGATCTTGTCTTTTTGTATTTGG
1 CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
46257746 CAGCG
1 CAGCG
46257751 AAGTCGATTG
Statistics
Matches: 681, Mismatches: 60, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 681 1.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (46 bp):
CAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG
Found at i:46261754 original size:51 final size:51
Alignment explanation
Indices: 46261675--46261868 Score: 264
Period size: 51 Copynumber: 3.8 Consensus size: 51
46261665 AGTTACTAGA
46261675 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGG
* * * * * *** *
46261726 TAATGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT-AGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAAT-GG
46261777 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGG
* * *
46261828 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGAATCGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG
46261869 GTATCATTTA
Statistics
Matches: 120, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
50 2 0.02
51 116 0.97
52 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGG
Found at i:46261849 original size:102 final size:102
Alignment explanation
Indices: 46261673--46261860 Score: 349
Period size: 102 Copynumber: 1.8 Consensus size: 102
46261663 GAAGTTACTA
**
46261673 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGGTAATGTGTGTAG
1 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGGTAACATGTGTAG
46261738 TACTATGTGCAGGCTACTATGCGTACCGGATAGCTTC
66 TACTATGTGCAGGCTACTATGCGTACCGGATAGCTTC
*
46261775 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGGTCACATGTGTAG
1 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGGTAACATGTGTAG
46261840 TACTATGTGCAGGCTACTATG
66 TACTATGTGCAGGCTACTATG
46261861 TGAATCGGGT
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 83 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (102 bp):
GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGGTAACATGTGTAG
TACTATGTGCAGGCTACTATGCGTACCGGATAGCTTC
Found at i:46261862 original size:26 final size:26
Alignment explanation
Indices: 46261782--46261862 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
46261772 TTCGATCACG
46261782 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * ***
46261808 CGTGTA-T-CGGATGAAAATGG-TCAC-A
1 TGTGTAGTAC-TATGTGCA-GGCT-ACTA
46261833 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
46261859 TGTG
1 TGTG
46261863 AATCGGGTAT
Statistics
Matches: 38, Mismatches: 10, Indels: 14
0.61 0.16 0.23
Matches are distributed among these distances:
24 1 0.03
25 16 0.42
26 20 0.53
27 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:46265293 original size:12 final size:12
Alignment explanation
Indices: 46265276--46265313 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
46265266 GAAATTAAGC
46265276 TTTTAGTGGCAG
1 TTTTAGTGGCAG
46265288 TTTTAGTGGCAG
1 TTTTAGTGGCAG
46265300 TTTTAGTGGC-G
1 TTTTAGTGGCAG
46265311 TTT
1 TTT
46265314 GAATTGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 4 0.15
12 22 0.85
ACGTcount: A:0.13, C:0.08, G:0.32, T:0.47
Consensus pattern (12 bp):
TTTTAGTGGCAG
Found at i:46265441 original size:39 final size:40
Alignment explanation
Indices: 46265366--46265443 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 40
46265356 TGAGAAAAAC
* *
46265366 GCCGCAAAAGGTAAAGCAATAGCGGCTTTTTCTCATAAAT
1 GCCGCAAAAGGTAAACCAATAGCAGCTTTTTCTCATAAAT
*
46265406 GCCGCAAGAGGT-AACCAATAGCAGCGTTTTT-TCATAAA
1 GCCGCAAAAGGTAAACCAATAGCAGC-TTTTTCTCATAAA
46265444 CGCCACGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 18 0.53
40 16 0.47
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (40 bp):
GCCGCAAAAGGTAAACCAATAGCAGCTTTTTCTCATAAAT
Found at i:46265685 original size:25 final size:25
Alignment explanation
Indices: 46265652--46265714 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
46265642 CCCCAACGTT
* *
46265652 TGCTGCATCGCCGTCGACAGTCCTC
1 TGCTGCATCACCGTCAACAGTCCTC
46265677 TGCTGCATCACCGTCAACAGTCCTC
1 TGCTGCATCACCGTCAACAGTCCTC
*
46265702 CGCTG-ATCACCGT
1 TGCTGCATCACCGT
46265715 GTAAGTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
24 8 0.23
25 27 0.77
ACGTcount: A:0.16, C:0.40, G:0.21, T:0.24
Consensus pattern (25 bp):
TGCTGCATCACCGTCAACAGTCCTC
Found at i:46269508 original size:22 final size:21
Alignment explanation
Indices: 46269459--46269512 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
46269449 AAGGTAATTT
*
46269459 AATAAATAAAATAAATTTAAAA
1 AATAAA-AAAATAAAATTAAAA
**
46269481 GCTAAAAAAATAAAATTAATAA
1 AATAAAAAAATAAAATTAA-AA
46269503 AATAAAAAAA
1 AATAAAAAAA
46269513 ACTAAAATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (21 bp):
AATAAAAAAATAAAATTAAAA
Found at i:46270411 original size:114 final size:114
Alignment explanation
Indices: 46270254--46270609 Score: 527
Period size: 114 Copynumber: 3.1 Consensus size: 114
46270244 GTTTTTATTA
* * * *
46270254 TAAAA-GCCGTAAAATGAAGCAATAGCGGTGTTTGGACCAAAAACGCCGCAAATATGTATTAAAA
1 TAAAACGCCGCAAAAGGAAGCAATAGCGGCGTTTGGACCAAAAACGCCGCGAATATGTATTAAAA
46270318 TTTTGCAAAACGGCGCCATTTTTAGCAGC-TCTTTTAGTGGCGTTTGGGC
66 TTTTGCAAAACGGCGCCATTTTTAGCAGCAT-TTTTAGTGGCGTTTGGGC
*
46270367 TAAAACGCCGCAAAAGGAAGCAATAGCGGCGTTTAGACCAAAAACGCCGCGAATATGTATTAAAA
1 TAAAACGCCGCAAAAGGAAGCAATAGCGGCGTTTGGACCAAAAACGCCGCGAATATGTATTAAAA
** * * *
46270432 TTTTGCAAAACAACGCCATTTTTAGCAGCATTTTTAGTAGCATTTAGGC
66 TTTTGCAAAACGGCGCCATTTTTAGCAGCATTTTTAGTGGCGTTTGGGC
* *
46270481 TAAAACACCGCAAAAGGAAGCAATTGCGGCGTTTGGACCAAAAACGCCGCGAATATGTATTAAAA
1 TAAAACGCCGCAAAAGGAAGCAATAGCGGCGTTTGGACCAAAAACGCCGCGAATATGTATTAAAA
* ** *
46270546 TTTTGCAAAACGGCACTGTTTTTAGTAGCATTTTTAGTGGCGTTTGGGC
66 TTTTGCAAAACGGCGCCATTTTTAGCAGCATTTTTAGTGGCGTTTGGGC
* *
46270595 TAAAATGCTGCAAAA
1 TAAAACGCCGCAAAA
46270610 TATTCTATTC
Statistics
Matches: 216, Mismatches: 25, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
113 5 0.02
114 210 0.97
115 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (114 bp):
TAAAACGCCGCAAAAGGAAGCAATAGCGGCGTTTGGACCAAAAACGCCGCGAATATGTATTAAAA
TTTTGCAAAACGGCGCCATTTTTAGCAGCATTTTTAGTGGCGTTTGGGC
Found at i:46276754 original size:21 final size:21
Alignment explanation
Indices: 46276729--46276772 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
46276719 ATCTTCGAGG
46276729 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
46276750 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
46276771 AT
1 AT
46276773 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:46276778 original size:19 final size:19
Alignment explanation
Indices: 46276728--46276783 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
46276718 AATCTTCGAG
46276728 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46276747 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
46276768 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
46276784 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:46276790 original size:22 final size:23
Alignment explanation
Indices: 46276762--46276806 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
46276752 ATGCAATCTT
*
46276762 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATATTAGA
*
46276784 AGATATGATTTTGTAATATTAGA
1 AGATATGATTATGTAATATTAGA
46276807 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATATTAGA
Found at i:46276816 original size:22 final size:23
Alignment explanation
Indices: 46276772--46276816 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
46276762 AGATATGATA
* *
46276772 TGTAATCTTAGAAGATATGATTT
1 TGTAATATTAGAAGATATAATTT
*
46276795 TGTAATATTAG-AGATTTAATTT
1 TGTAATATTAGAAGATATAATTT
46276817 GTAGATACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATATTAGAAGATATAATTT
Found at i:46277004 original size:19 final size:21
Alignment explanation
Indices: 46276980--46277018 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
46276970 GCTTACTGTT
*
46276980 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
46276999 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
46277019 TTAAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:46283699 original size:16 final size:16
Alignment explanation
Indices: 46283677--46283709 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
46283667 AATCATTCTC
46283677 AAAAAAATAAAATAAAT
1 AAAAAAAT-AAATAAAT
46283694 AAAAAAATAAATAAAT
1 AAAAAAATAAATAAAT
46283710 TACGCATTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAAAATAAATAAAT
Found at i:46283985 original size:88 final size:88
Alignment explanation
Indices: 46283840--46284328 Score: 620
Period size: 88 Copynumber: 5.6 Consensus size: 88
46283830 GTGAAGATAA
* * * * * * * *
46283840 CAGATATTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAGTCAGCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTT
* *
46283905 GCAGCGGAGTAGGCTAAAAATAA
66 GCAGCGGAGCAGGCTAAAAATAG
* *
46283928 CAGATCTTGCCTTCCTGCACCGACAGCGAAACAGATCAAAGACACCAGCCTTGCCTCCTTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTT
* * *
46283993 ACAGTGTAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * * * *
46284016 CAGATCTTACCTTCCTGCACCGACAACAAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTT
* *
46284081 ACAGTGGAGCAGGCTAAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * * * *
46284104 CAGATCTTGCCTTCTTGCACGGATAGCGAAGCAGATCGAAGACATCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTT
* * * *
46284169 GTAGCGAAGTAGGCTGAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* *
46284192 CAGATCTTGCCTTTCTGCACCGACAACGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTT
*
46284257 GCAGCGGAGCAGG-TTAAAATAG
66 GCAGCGGAGCAGGCTAAAAATAG
* * * * *
46284279 CAGATCTTGCCTTCCTACACCGAAAGCGAAGCAGATTAATGACCCCAGCC
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCC
46284329 CTATCTTCCT
Statistics
Matches: 346, Mismatches: 55, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
87 51 0.15
88 295 0.85
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGCTAAAAATAG
Found at i:46284377 original size:44 final size:44
Alignment explanation
Indices: 46284328--46284703 Score: 455
Period size: 44 Copynumber: 8.7 Consensus size: 44
46284318 TGACCCCAGC
*
46284328 CCTATCTTCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* *
46284372 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTTTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* *
46284416 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
46284460 TCTATCTCCCTGGGCAGCAGTGGAATAGATT-AA-A----GAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
46284498 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* *
46284542 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAA-ATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTT-AAAGATTGTGAAT
* * * * * *
46284586 TCTATCTCCCTGGGCAGTAGTGGAATAGATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGA-AT
* * * * *
46284630 CTTATCTCCCTGGTCAGCAGTGTAATAGGTTGAAGATCGTGAAC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
46284674 CCTATCTCCCTGAG-CAGCAGTGGAGTAGGT
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGT
46284704 GGAAAATAGC
Statistics
Matches: 287, Mismatches: 34, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
38 32 0.11
39 2 0.01
40 1 0.00
42 1 0.00
43 5 0.02
44 241 0.84
45 5 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
Found at i:46284535 original size:170 final size:170
Alignment explanation
Indices: 46284328--46284657 Score: 495
Period size: 170 Copynumber: 1.9 Consensus size: 170
46284318 TGACCCCAGC
* *
46284328 CCTATCTTCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGCAGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGCAGT
** * *
46284393 GGAATAGGTT-AAAGATTTTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTG-A
66 GGAATAGGTTGAAA-ATTGAGAATCCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTA
*
46284456 GAAT-TCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAAT
130 G-GTCT-TATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAAT
* *
46284498 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGTAGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGCAGT
* *
46284563 GGAATAGGTTGAAAATTGAGAATTCTATCTCCCTGGGCAGTAGTGGAATAGATTGAAGATTGTAG
66 GGAATAGGTTGAAAATTGAGAATCCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTAG
* *
46284628 GTCTTATCTCCCTGGTCAGCAGTGTAATAG
131 GTCTTATCTCCCTGGGCAGCAGTGGAATAG
46284658 GTTGAAGATC
Statistics
Matches: 144, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
170 138 0.96
171 6 0.04
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (170 bp):
CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGCAGT
GGAATAGGTTGAAAATTGAGAATCCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTAG
GTCTTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAAT
Found at i:46284564 original size:126 final size:129
Alignment explanation
Indices: 46284329--46284710 Score: 520
Period size: 126 Copynumber: 2.9 Consensus size: 129
46284319 GACCCCAGCC
* * * *
46284329 CTATCTTCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGCAGTG
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGA---TGAATCCTATCTCCCTGGACAGCAGTG
* *
46284394 GAATAGGTTAAAGATTTTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAA
63 GAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGAGAA
46284459 TT
128 TT
46284461 CTATCTCCCTGGGCAGCAGTGGAATAGATT-AA-A-GAATCCTATCTCCCTGGACAGCAGTGGAA
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGAATCCTATCTCCCTGGACAGCAGTGGAA
*
46284523 TAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAAATTGAGAATT
66 TAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGAGAATT
* * * *
46284587 CTATCTCCCTGGGCAGTAGTGGAATAGATTGAAGATTGTAGGTCTTATCTCCCTGGTCAGCAGTG
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGA-TG-A-ATCCTATCTCCCTGGACAGCAGTG
* * * * * *
46284652 TAATAGGTTGAAGATCGTGAACCCTATCTCCCTGAG-CAGCAGTGGAGTAGGTGGAAAAT
63 GAATAGGTTAAAGATTGTGAATCCTATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAAAT
46284711 AGCAGATCTT
Statistics
Matches: 226, Mismatches: 17, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
126 119 0.53
127 2 0.01
128 1 0.00
130 2 0.01
131 3 0.01
132 98 0.43
133 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (129 bp):
CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGAATCCTATCTCCCTGGACAGCAGTGGAA
TAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGAGAATT
Found at i:46285557 original size:17 final size:18
Alignment explanation
Indices: 46285543--46285626 Score: 80
Period size: 19 Copynumber: 4.4 Consensus size: 18
46285533 ATAATCTTCG
46285543 AGGATATGCAATCTTAGA
1 AGGATATGCAATCTTAGA
*
46285561 TATGATATGCAATCTTAGA
1 -AGGATATGCAATCTTAGA
*
46285580 TATGATATATGCAATCTTAGA
1 -A-G-GATATGCAATCTTAGA
* *
46285601 TATGATATGTAATCTTAGA
1 -AGGATATGCAATCTTAGA
46285620 A-GATATG
1 AGGATATG
46285627 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
17 6 0.11
18 1 0.02
19 33 0.58
21 17 0.30
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (18 bp):
AGGATATGCAATCTTAGA
Found at i:46285569 original size:19 final size:19
Alignment explanation
Indices: 46285545--46285619 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
46285535 AATCTTCGAG
46285545 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46285564 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46285583 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
46285604 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
46285620 AGATATGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 34 0.64
21 19 0.36
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:46285591 original size:21 final size:21
Alignment explanation
Indices: 46285546--46285608 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
46285536 ATCTTCGAGG
46285546 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
46285565 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
46285586 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
46285607 AT
1 AT
46285609 GTAATCTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.45
21 23 0.55
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:46285645 original size:22 final size:22
Alignment explanation
Indices: 46285598--46285642 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
46285588 ATGCAATCTT
*
46285598 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATATTAGA
*
46285620 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGTAATATTAGA
46285643 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (22 bp):
AGATATGATATGTAATATTAGA
Found at i:46285652 original size:22 final size:23
Alignment explanation
Indices: 46285608--46285652 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
46285598 AGATATGATA
* *
46285608 TGTAATCTTAGAAGATATGATTT
1 TGTAATATTAGAAGATATAATTT
*
46285631 TGTAATATTAG-AGATTTAATTT
1 TGTAATATTAGAAGATATAATTT
46285653 GTAGATACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATATTAGAAGATATAATTT
Found at i:46286084 original size:3 final size:3
Alignment explanation
Indices: 46286076--46286115 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
46286066 ATTAATTTTG
*
46286076 TTA TTA TTA TTT TTA TTA TTA -TA TTA TATA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T
46286116 ACCTACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:46286084 original size:15 final size:15
Alignment explanation
Indices: 46286060--46286114 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
46286050 GTTTTTAGTC
46286060 TATT-TTATTAATTT
1 TATTATTATTAATTT
* *
46286074 TGTTATTATTATTTT
1 TATTATTATTAATTT
46286089 TATTATTA-T-ATTAT
1 TATTATTATTAATT-T
46286103 ATATTATTATTA
1 -TATTATTATTA
46286115 TACCTACATA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
13 2 0.06
14 5 0.16
15 24 0.75
16 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:46286091 original size:12 final size:12
Alignment explanation
Indices: 46286062--46286113 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
46286052 TTTTAGTCTA
46286062 TTTTATTAATT-T
1 TTTTATT-ATTAT
*
46286074 TGTTATTATTAT
1 TTTTATTATTAT
46286086 TTTTATTATTAT
1 TTTTATTATTAT
46286098 ATTATATATTATTAT
1 -TT-T-TATTATTAT
46286113 T
1 T
46286114 ATACCTACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 3 0.09
12 18 0.53
13 2 0.06
14 2 0.06
15 9 0.26
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:46286473 original size:51 final size:49
Alignment explanation
Indices: 46286373--46286487 Score: 135
Period size: 51 Copynumber: 2.3 Consensus size: 49
46286363 TTTTCCACGT
**
46286373 TTTTATATTATACT-TGTATATTTCATTTTTTTGTAAATGCATGAATATA
1 TTTTATATTATA-TATGTATATTTCATTTTTTCATAAATGCATGAATATA
* *
46286422 TTTTATATGTATATATTTATATTTTCATTGTTTTCATAAATGCAT-TATATA
1 TTTTATAT-TATATATGTATA-TTTCATT-TTTTCATAAATGCATGAATATA
46286473 TTTTATATATATATA
1 TTTTATAT-TATATA
46286488 AGTTTTATAA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
49 9 0.16
50 9 0.16
51 26 0.46
52 13 0.23
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.57
Consensus pattern (49 bp):
TTTTATATTATATATGTATATTTCATTTTTTCATAAATGCATGAATATA
Found at i:46289288 original size:8 final size:9
Alignment explanation
Indices: 46289260--46289297 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
46289250 TCAGGCTTAA
46289260 TCATATCAG
1 TCATATCAG
46289269 TCATATCAG
1 TCATATCAG
46289278 TCATA-CAG
1 TCATATCAG
*
46289286 TCATTTCAG
1 TCATATCAG
46289295 TCA
1 TCA
46289298 ACTAGGGGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (9 bp):
TCATATCAG
Found at i:46289288 original size:17 final size:18
Alignment explanation
Indices: 46289260--46289297 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
46289250 TCAGGCTTAA
46289260 TCATATCAGTCATATCAG
1 TCATATCAGTCATATCAG
*
46289278 TCATA-CAGTCATTTCAG
1 TCATATCAGTCATATCAG
46289295 TCA
1 TCA
46289298 ACTAGGGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (18 bp):
TCATATCAGTCATATCAG
Found at i:46295360 original size:15 final size:15
Alignment explanation
Indices: 46295340--46295368 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
46295330 TTATTTAATT
46295340 ATTAAATTTTTTGAA
1 ATTAAATTTTTTGAA
46295355 ATTAAATTTTTTGA
1 ATTAAATTTTTTGA
46295369 TATTTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (15 bp):
ATTAAATTTTTTGAA
Found at i:46299065 original size:17 final size:17
Alignment explanation
Indices: 46299043--46299090 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
46299033 TTGATTACCC
*
46299043 AATTAAATTAATTCTAT
1 AATTAATTTAATTCTAT
*
46299060 AATTAATTTAATTCTGT
1 AATTAATTTAATTCTAT
46299077 AATTAATTTAATTC
1 AATTAATTTAATTC
46299091 ATGTGACAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (17 bp):
AATTAATTTAATTCTAT
Found at i:46303607 original size:20 final size:20
Alignment explanation
Indices: 46303563--46303605 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
46303553 AAAATAAAAG
46303563 TTTTAAAATATCTTTTTAGA
1 TTTTAAAATATCTTTTTAGA
* *
46303583 ATTTAAAATATTTTTTTA-A
1 TTTTAAAATATCTTTTTAGA
46303602 TTTT
1 TTTT
46303606 TAGAATTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTAAAATATCTTTTTAGA
Found at i:46303678 original size:60 final size:60
Alignment explanation
Indices: 46303600--46303715 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 60
46303590 ATATTTTTTT
* *
46303600 AATTTTTAGAATTAGAACT-AAATTGAAAATTGTTGTAAATATTCAGGGCTAAATTTATTA
1 AATTTTTAGAATTAGAACTAAAATGGAAAATT-TTGTAAACATTCAGGGCTAAATTTATTA
* *
46303660 AATTTTTAGAAGTT-GAACTAAAATGGCAAATTTTGTAAACATTGAGGGCTAAATTT
1 AATTTTTAGAA-TTAGAACTAAAATGGAAAATTTTGTAAACATTCAGGGCTAAATTT
46303716 GTCGATTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
60 38 0.76
61 12 0.24
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.38
Consensus pattern (60 bp):
AATTTTTAGAATTAGAACTAAAATGGAAAATTTTGTAAACATTCAGGGCTAAATTTATTA
Found at i:46304205 original size:20 final size:19
Alignment explanation
Indices: 46304173--46304230 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
46304163 TTTGAATGTG
46304173 AAATAATATTTATATTTTCTT
1 AAATAA-ATTTATATTTT-TT
**
46304194 TTATAAATTTATATATTTTT
1 AAATAAATTTATAT-TTTTT
*
46304214 AAATAATTTTATATTTT
1 AAATAAATTTATATTTT
46304231 ATATATTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 3 0.10
20 21 0.68
21 7 0.23
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
AAATAAATTTATATTTTTT
Found at i:46314918 original size:107 final size:107
Alignment explanation
Indices: 46314690--46315094 Score: 595
Period size: 107 Copynumber: 3.8 Consensus size: 107
46314680 AAGCTAAGAA
* * * * * *
46314690 GATATTTGGCTATTTGGTCAAAC--GCAATTGAGACCCAGCACGTTAGGGCAC-ATTCTCTCAAA
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTC-CTCGAT
* * **
46314752 TTTCCAAACGC-AAATATTGCCTAACTTCGAAAGTTT-AAAAG
65 TTTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
* * * *
46314793 GATATTTGGCTATTTGGTCAAACGAGAAGTCGAAACCCAACAGGTTAGGGTACGTTTCCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGATT
46314858 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
66 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
* *
46314900 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGATT
*
46314965 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAT
66 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
* *
46315007 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGATT
46315072 TTCCAAACGCGAAATATTGCCTT
66 TTCCAAACGCGAAATATTGCCTT
46315095 GTTTAGAAAA
Statistics
Matches: 276, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
103 23 0.08
105 36 0.13
106 24 0.09
107 193 0.70
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (107 bp):
GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGATT
TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
Found at i:46315873 original size:15 final size:15
Alignment explanation
Indices: 46315850--46315880 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
46315840 ATTTTAACAT
46315850 AGATAATAATATATA
1 AGATAATAATATATA
*
46315865 AGATGATAATATATA
1 AGATAATAATATATA
46315880 A
1 A
46315881 ATTTAAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
AGATAATAATATATA
Found at i:46318318 original size:219 final size:219
Alignment explanation
Indices: 46317608--46318848 Score: 1864
Period size: 219 Copynumber: 5.7 Consensus size: 219
46317598 ACCAGTATGG
* * * * * * * *
46317608 GAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGACCTGCTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-ATCT
* * * * * * * * * * *
46317671 TCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCACCACCAG
65 TTGATCCACTTC-CTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCA-CGCCAA
*** * *
46317735 TATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTGCCAATATAGGAAGATAGGACCTACTA
128 TACATGAAGACAAGATCTGCATCTTCGATCCACTCCCTACCAATATAGGAAGATAGGACCTACTA
*
46317800 TCTTCGATCTACTTCACGCCAATACAT
193 TCTTCGATCTACTTCACGCCAACACAT
* *
46317827 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGATAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
* * * * *
46317892 CGATCCACTTTCTGCCAATATAGGAAGATAGGACCTACTATCTTCGATCTACTTCACGCCAATAC
66 TGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATAC
* * * * * * * *
46317957 ATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCC-GCCAGTATGGGCAGATAGGACCTTCTA
131 ATGAAGACAAGATCTGC-ATCTTCGATCCAC-TC-CCTACCAATATAGGAAGATAGGACCTACTA
46318021 TCTTCGATCTACTTCACGCCAACACAT
193 TCTTCGATCTACTTCACGCCAACACAT
46318048 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
* *
46318113 TGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGTCAATAC
66 TGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATAC
* * **
46318178 ATGAAAACAAGATCTGCATCTTCGATCCACTCCCTACCATTATAGGAAGATAGGACCTGTTATCT
131 ATGAAGACAAGATCTGCATCTTCGATCCACTCCCTACCAATATAGGAAGATAGGACCTACTATCT
46318243 TCGATCTACTTCACGCCAACACAT
196 TCGATCTACTTCACGCCAACACAT
46318267 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
* *
46318332 TGATCCACTTCCTACCAATATAGGAAGATAGGACTTGCTATCTTCGATCTACTTCACGCCAATAC
66 TGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATAC
46318397 ATGAAGACAAGATCTGCATCTTCGATCCACTCCCTACCAATATAGGAAGATAGGACCTACTATCT
131 ATGAAGACAAGATCTGCATCTTCGATCCACTCCCTACCAATATAGGAAGATAGGACCTACTATCT
*
46318462 TCGATCTACTTCACTCCAACACAT
196 TCGATCTACTTCACGCCAACACAT
* *
46318486 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
*
46318551 TGATCCACTTCCTACCAATATTGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATAC
66 TGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATAC
* *
46318616 ATGAAGACAAGA--TGCATCTCCGATCCACTCCCTACCAATATAGGAAGATAGGATCTACTATCT
131 ATGAAGACAAGATCTGCATCTTCGATCCACTCCCTACCAATATAGGAAGATAGGACCTACTATCT
*
46318679 TCGATCTACTTCACACCAACACAT
196 TCGATCTACTTCACGCCAACACAT
*
46318703 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACTAGTATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
* *
46318768 TGATCCACTTCCTACCAATATAGGAAGACAGGACATGCTATCTTCGATCTACTTCACGCGAATAC
66 TGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATAC
46318833 ATGAAGACAAGATCTG
131 ATGAAGACAAGATCTG
46318849 TTTTAATGAC
Statistics
Matches: 942, Mismatches: 71, Indels: 18
0.91 0.07 0.02
Matches are distributed among these distances:
217 208 0.22
218 2 0.00
219 435 0.46
220 87 0.09
221 208 0.22
222 2 0.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (219 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
TGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATAC
ATGAAGACAAGATCTGCATCTTCGATCCACTCCCTACCAATATAGGAAGATAGGACCTACTATCT
TCGATCTACTTCACGCCAACACAT
Found at i:46318839 original size:44 final size:44
Alignment explanation
Indices: 46317565--46318848 Score: 1011
Period size: 44 Copynumber: 29.3 Consensus size: 44
46317555 CTAGTATGAA
* * * *
46317565 AAGACAAGATCTGC-ATCTTCGATCTACTTCGTCACCAGTATGGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATATAGG
* *
46317609 AAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATATAGG
* * * * *
46317652 AAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATATAGG
* * * * *
46317696 AAGACAAGATCTACTTTCTTCGATCTACTTCACCACCAGTATGGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCA-CGCCAATATAGG
*
46317741 AAGACAAGATCTGC-ATCTTCGATCCACTTC-CTGCCAATATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATATAGG
* * * * * *
46317784 AAGATAGGACCTACTATCTTCGATCTACTTCACGCCAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATATAGG
* * * *
46317828 AAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCA-CGCCAATATAGG
* * *
46317873 AAGATAAGATCTGC-ATCTTCGATCCACTTTC-TGCCAATATAGG
1 AAGACAAGATCTGCTATCTTCGATCTAC-TTCACGCCAATATAGG
* * * * * *
46317916 AAGATAGGACCTACTATCTTCGATCTACTTCACGCCAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATATAGG
* * * * *
46317960 AAGACAAGATCTACTTTCTTCGATCTACTTCGCCGCCAGTATGGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATATAGG
* * * * * * * *
46318005 CAGATAGGACCTTCTATCTTCGATCTACTTCACGCCAACACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATATAGG
* * * * *
46318049 AAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATATAGG
* * *
46318094 AAGACAAGATCTGC-ATCTTTGATCCACTTC-CTACCAATATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATATAGG
* * * * * *
46318137 AAGACAGGACCTGCTATCTTTGATCTACTTCACGTCAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATATAGG
* * * * *
46318181 AAAACAAGATCTGC-ATCTTCGATCCAC-TCCCTACCATTATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATATAGG
* * * * * * *
46318224 AAGATAGGACCTGTTATCTTCGATCTACTTCACGCCAACACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATATAGG
* * * * *
46318268 AAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATATAGG
* * *
46318313 AAGACAAGATCTGC-ATCTTTGATCCACTTC-CTACCAATATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATATAGG
* * * *
46318356 AAGATAGGA-CTTGCTATCTTCGATCTACTTCACGCCAATACATG
1 AAGACAAGATC-TGCTATCTTCGATCTACTTCACGCCAATATAGG
* * *
46318400 AAGACAAGATCTGC-ATCTTCGATCCAC-TCCCTACCAATATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATATAGG
* * * * * * * *
46318443 AAGATAGGACCTACTATCTTCGATCTACTTCACTCCAACACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATATAGG
* * * *
46318487 AAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATATAGG
* * * *
46318532 AAGACAAGATCTG-TATCTTTGATCCACTTC-CTACCAATATTGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATATAGG
* * * *
46318575 AAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATATAGG
* * * *
46318619 AAGACAAGA--TGC-ATCTCCGATCCAC-TCCCTACCAATATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATATAGG
* * * * * * *
46318660 AAGATAGGATCTACTATCTTCGATCTACTTCACACCAACACATG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATATAGG
* *
46318704 AAGACAAGATCTGCTTTCTTCGATCTACTT--CGCCACTAGTATGGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCA--A-TATAGG
* * *
46318749 AAGACAAGATCTGC-ATCTTTGATCCACTTC-CTACCAATATAGG
1 AAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATATAGG
* * * *
46318792 AAGACAGGA-CATGCTATCTTCGATCTACTTCACGCGAATACATG
1 AAGACAAGATC-TGCTATCTTCGATCTACTTCACGCCAATATAGG
46318836 AAGACAAGATCTG
1 AAGACAAGATCTG
46318849 TTTTAATGAC
Statistics
Matches: 966, Mismatches: 228, Indels: 92
0.75 0.18 0.07
Matches are distributed among these distances:
40 3 0.00
41 26 0.03
42 20 0.02
43 195 0.20
44 549 0.57
45 170 0.18
46 3 0.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (44 bp):
AAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATATAGG
Found at i:46327764 original size:282 final size:282
Alignment explanation
Indices: 46327408--46327973 Score: 1080
Period size: 282 Copynumber: 2.0 Consensus size: 282
46327398 GCTCTTGGCA
46327408 CTATTCATTACGCCTTTCAAGAAGTTCCATTCGCAGTTCAGAATTGTGCAATGCGTCCTCAAGAT
1 CTATTCATTACGCCTTTCAAGAAGTTCCATTCGCAGTTCAGAATTGTGCAATGCGTCCTCAAGAT
46327473 CCCCTATCTTTCCTTTCAGTTCTTCGATCTTATTTAAGCTTGCTCTTAACTCTATCACAGAGTTG
66 CCCCTATCTTTCCTTTCAGTTCTTCGATCTTATTTAAGCTTGCTCTTAACTCTATCACAGAGTTG
*
46327538 TGACTACGGTGTAGATGAAGCGACTTTTCCAACTCTACTA-CCTGGGCTTTTAATCTTGCTTCTT
131 TGACTACGGTGCAGATGAAGCGACTTTTCCAACTCTACTACCCT-GGCTTTTAATCTTGCTTCTT
* *
46327602 CATTCTGGCATTCTGACAAGTTTTTCTCCAAAGCGCTCTCTCTAACTAGGGCGTCTTGAAATTTC
195 AATTCTAGCATTCTGACAAGTTTTTCTCCAAAGCGCTCTCTCTAACTAGGGCGTCTTGAAATTTC
46327667 TTCTCCCACTGATCAGCTTTGGT
260 TTCTCCCACTGATCAGCTTTGGT
46327690 CTATTCATTACGCCTTTCAAGAAGTTCCATTCGCAGTTCAGAATTGTGCAATGCGTCCTCAAGAT
1 CTATTCATTACGCCTTTCAAGAAGTTCCATTCGCAGTTCAGAATTGTGCAATGCGTCCTCAAGAT
46327755 CCCCTATCTTTCCTTTCAGTTCTTCGATCTTATTTAAGCTTGCTCTTAACTCTATCACAGAGTTG
66 CCCCTATCTTTCCTTTCAGTTCTTCGATCTTATTTAAGCTTGCTCTTAACTCTATCACAGAGTTG
46327820 TGACTACGGTGCAGATGAAGCGACTTTTCCAACTCTACTACCCTGGCTTTTAATCTTGCTTCTTA
131 TGACTACGGTGCAGATGAAGCGACTTTTCCAACTCTACTACCCTGGCTTTTAATCTTGCTTCTTA
*
46327885 ATTCTAGCATTCTGACAAGTTTTTCTTCAAAGCGCTCTCTCTAACTAGGGCGTCTTGAAATTTCT
196 ATTCTAGCATTCTGACAAGTTTTTCTCCAAAGCGCTCTCTCTAACTAGGGCGTCTTGAAATTTCT
46327950 TCTCCCACTGATCAGCTTTGGT
261 TCTCCCACTGATCAGCTTTGGT
46327972 CT
1 CT
46327974 TTTCTTATTT
Statistics
Matches: 279, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
282 276 0.99
283 3 0.01
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (282 bp):
CTATTCATTACGCCTTTCAAGAAGTTCCATTCGCAGTTCAGAATTGTGCAATGCGTCCTCAAGAT
CCCCTATCTTTCCTTTCAGTTCTTCGATCTTATTTAAGCTTGCTCTTAACTCTATCACAGAGTTG
TGACTACGGTGCAGATGAAGCGACTTTTCCAACTCTACTACCCTGGCTTTTAATCTTGCTTCTTA
ATTCTAGCATTCTGACAAGTTTTTCTCCAAAGCGCTCTCTCTAACTAGGGCGTCTTGAAATTTCT
TCTCCCACTGATCAGCTTTGGT
Found at i:46330792 original size:107 final size:107
Alignment explanation
Indices: 46330555--46330961 Score: 647
Period size: 107 Copynumber: 3.8 Consensus size: 107
46330545 AAGTTAAGAA
* * * * * * *
46330555 GATATTTGGCTATTTGGTCAAACGAGAAATTGAGACCCAGCTCGTTAGGGCACATTCTCTCAAAT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
* *
46330620 TTCCAAACGC-AAATATTGCCTTACTTTGAAAGTTT-AAAAG
66 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
* * * *
46330660 GATATTTGGCTATTTGGTCAAACGAGAAGTCGAAACCCAACACGTTAGGGTACGTTTGCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
46330725 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
66 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
* *
46330767 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGAACGTTTTCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
46330832 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
66 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
*
46330874 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
*
46330939 TTCCAAACGCAAAATATTGCCTT
66 TTCCAAACGCGAAATATTGCCTT
46330962 GTTTAGAAAA
Statistics
Matches: 280, Mismatches: 20, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
105 64 0.23
106 23 0.08
107 193 0.69
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (107 bp):
GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
Found at i:46331743 original size:15 final size:15
Alignment explanation
Indices: 46331720--46331750 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
46331710 ATTTTAACAT
46331720 AGATAATAATATATA
1 AGATAATAATATATA
*
46331735 AGATGATAATATATA
1 AGATAATAATATATA
46331750 A
1 A
46331751 ATTTAAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
AGATAATAATATATA
Found at i:46333632 original size:13 final size:13
Alignment explanation
Indices: 46333611--46333644 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
46333601 GTTCTAATAC
*
46333611 TATGCTTTCAAGA
1 TATGTTTTCAAGA
46333624 TATGTTTTCAAGA
1 TATGTTTTCAAGA
46333637 TATGTTTT
1 TATGTTTT
46333645 ATGCATGCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (13 bp):
TATGTTTTCAAGA
Found at i:46334715 original size:16 final size:16
Alignment explanation
Indices: 46334694--46334725 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
46334684 ACATCATATA
46334694 CAAGCCAATTTTATTG
1 CAAGCCAATTTTATTG
46334710 CAAGCCAATTTTATTG
1 CAAGCCAATTTTATTG
46334726 TGAAGTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (16 bp):
CAAGCCAATTTTATTG
Found at i:46335259 original size:17 final size:17
Alignment explanation
Indices: 46335239--46335277 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
46335229 GGTTTTTATC
*
46335239 ATTTGTTTATTTTTCTT
1 ATTTATTTATTTTTCTT
* *
46335256 ATTTATTTGTTTTTGTT
1 ATTTATTTATTTTTCTT
46335273 ATTTA
1 ATTTA
46335278 AATTTTCTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.15, C:0.03, G:0.08, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTTTTCTT
Found at i:46337391 original size:57 final size:55
Alignment explanation
Indices: 46337305--46337412 Score: 162
Period size: 57 Copynumber: 1.9 Consensus size: 55
46337295 TTATAGATTG
* *
46337305 CAAATTAATTATTCATGAGCACTATTCAAATTAAAAGTGATGATTTATCATTTTA
1 CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGACGATTTATCATTTTA
* *
46337360 CAAATTTAATTAATTCATAAGGATTATTCAAATTAAAAGTGACGATTTATCAT
1 CAAA-TTAATT-ATTCATAAGCACTATTCAAATTAAAAGTGACGATTTATCAT
46337413 CCAATGGATA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
55 4 0.09
56 6 0.13
57 37 0.79
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGACGATTTATCATTTTA
Found at i:46339669 original size:56 final size:55
Alignment explanation
Indices: 46339584--46339692 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 55
46339574 TTATAGATTG
*
46339584 CAAATTAATTATTCATGAGCACTATTCAAATTAAAAGTGATGATTTATCATCTTA
1 CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATCTTA
46339639 CAAATTTAATTATTCATAAGCA-TCATTCAAATTAAAAGTGATGATTTATCATCT
1 CAAA-TTAATTATTCATAAGCACT-ATTCAAATTAAAAGTGATGATTTATCATCT
46339693 AATGGATACA
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
55 5 0.10
56 46 0.90
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATCTTA
Found at i:46340096 original size:19 final size:19
Alignment explanation
Indices: 46340072--46340112 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
46340062 TATTAGATTT
46340072 TTTATATTTTTAAATTGAG
1 TTTATATTTTTAAATTGAG
46340091 TTTATATTTTTAAATTGAG
1 TTTATATTTTTAAATTGAG
46340110 TTT
1 TTT
46340113 TTACTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (19 bp):
TTTATATTTTTAAATTGAG
Found at i:46341002 original size:20 final size:20
Alignment explanation
Indices: 46340977--46341016 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
46340967 TGCTACTTAA
*
46340977 TATTAAATT-TTAAATATTTT
1 TATT-AATTATTAAAAATTTT
46340997 TATTAATTATTAAAAATTTT
1 TATTAATTATTAAAAATTTT
46341017 ATCACACACG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTAATTATTAAAAATTTT
Found at i:46341489 original size:100 final size:100
Alignment explanation
Indices: 46341313--46341493 Score: 222
Period size: 100 Copynumber: 1.8 Consensus size: 100
46341303 TTAGTTACGG
** * *
46341313 AAGGATATTTTCGTAATTTCTCTAATCGAGTTGGTACTCGGTTGACTTAAGACACCAACTCTATT
1 AAGGATATTTTCGTAATTTCTCTAATCGAGTTGGTACTCAATTGACTCAAGACACCAACTCTATC
* **
46341378 AGGGGTTTAAATAATAGTATAAATACAAATTATGA
66 AAGGGCCTAAATAATAGTATAAATACAAATTATGA
* * ** *
46341413 AAGGATATTTTCGTAATTTTTCTAATTGAGTTGGTAC-CTAATTGACTCGTGATACCAACT-TAG
1 AAGGATATTTTCGTAATTTCTCTAATCGAGTTGGTACTC-AATTGACTCAAGACACCAACTCTA-
46341476 TCAAGGGCCTAAATAATA
64 TCAAGGGCCTAAATAATA
46341494 AAAACAATAA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
99 3 0.04
100 64 0.96
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (100 bp):
AAGGATATTTTCGTAATTTCTCTAATCGAGTTGGTACTCAATTGACTCAAGACACCAACTCTATC
AAGGGCCTAAATAATAGTATAAATACAAATTATGA
Found at i:46346998 original size:135 final size:135
Alignment explanation
Indices: 46346756--46347029 Score: 548
Period size: 135 Copynumber: 2.0 Consensus size: 135
46346746 TCTCATGCTG
46346756 CTTTCTTTAGTTGCTTGCTGATTTCATATTCTACATATGAACAGATGCTTTCTTGGACATAAACA
1 CTTTCTTTAGTTGCTTGCTGATTTCATATTCTACATATGAACAGATGCTTTCTTGGACATAAACA
46346821 TGGTCATAAAGATTTAAGGTAGGAAAAATTCTTTTTTACACCCGCAATCCTATTCTTTTTGGTAG
66 TGGTCATAAAGATTTAAGGTAGGAAAAATTCTTTTTTACACCCGCAATCCTATTCTTTTTGGTAG
46346886 GCAAA
131 GCAAA
46346891 CTTTCTTTAGTTGCTTGCTGATTTCATATTCTACATATGAACAGATGCTTTCTTGGACATAAACA
1 CTTTCTTTAGTTGCTTGCTGATTTCATATTCTACATATGAACAGATGCTTTCTTGGACATAAACA
46346956 TGGTCATAAAGATTTAAGGTAGGAAAAATTCTTTTTTACACCCGCAATCCTATTCTTTTTGGTAG
66 TGGTCATAAAGATTTAAGGTAGGAAAAATTCTTTTTTACACCCGCAATCCTATTCTTTTTGGTAG
46347021 GCAAA
131 GCAAA
46347026 CTTT
1 CTTT
46347030 GCTCGAGCTG
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
135 139 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (135 bp):
CTTTCTTTAGTTGCTTGCTGATTTCATATTCTACATATGAACAGATGCTTTCTTGGACATAAACA
TGGTCATAAAGATTTAAGGTAGGAAAAATTCTTTTTTACACCCGCAATCCTATTCTTTTTGGTAG
GCAAA
Found at i:46369811 original size:45 final size:45
Alignment explanation
Indices: 46369760--46369915 Score: 215
Period size: 45 Copynumber: 3.5 Consensus size: 45
46369750 CACGAGTAAA
*
46369760 ACCATAGTTGAAAGACGCTATGGCATCATGATGGAAATGAATAAG
1 ACCATAGTTGAAAGACACTATGGCATCATGATGGAAATGAATAAG
* * *
46369805 ACCATAGTTGAAAGACACTATGGCAACATGACGAAAATGAATAAG
1 ACCATAGTTGAAAGACACTATGGCATCATGATGGAAATGAATAAG
* *
46369850 ACCATAGTTGAAAGACACTATGGCATCATG-TCAGAAATAAATAAG
1 ACCATAGTTGAAAGACACTATGGCATCATGAT-GGAAATGAATAAG
** *
46369895 ACTGTAGTTGAAAGAAACTAT
1 ACCATAGTTGAAAGACACTAT
46369916 AACATCATTT
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
45 98 1.00
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.22
Consensus pattern (45 bp):
ACCATAGTTGAAAGACACTATGGCATCATGATGGAAATGAATAAG
Found at i:46379756 original size:27 final size:30
Alignment explanation
Indices: 46379701--46379767 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 30
46379691 TTAGTTGTTT
*
46379701 TTATTTTATTTGTGAGACTTCTTTGTTTTA
1 TTATTTTATTTGTGAGACTTCTTTATTTTA
*
46379731 TTTTTTTATTT-TGA-ACTT-TTTATTTTA
1 TTATTTTATTTGTGAGACTTCTTTATTTTA
46379758 TTATTTTATT
1 TTATTTTATT
46379768 GGTTGTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 17 0.50
28 4 0.12
29 3 0.09
30 10 0.29
ACGTcount: A:0.18, C:0.04, G:0.07, T:0.70
Consensus pattern (30 bp):
TTATTTTATTTGTGAGACTTCTTTATTTTA
Found at i:46384748 original size:12 final size:12
Alignment explanation
Indices: 46384728--46384757 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
46384718 TATTCAAGAA
*
46384728 AACAACTCGAAG
1 AACATCTCGAAG
46384740 AACATCTCGAAG
1 AACATCTCGAAG
46384752 AACATC
1 AACATC
46384758 ATTGAAGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.27, G:0.13, T:0.13
Consensus pattern (12 bp):
AACATCTCGAAG
Found at i:46389023 original size:43 final size:43
Alignment explanation
Indices: 46388962--46389049 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
46388952 TCTTGCGGGT
46388962 AAGCTTAAAATGTCAAAGGTCTTCCTCTAAAGACAAATAAATC
1 AAGCTTAAAATGTCAAAGGTCTTCCTCTAAAGACAAATAAATC
*
46389005 AAGCTTAATATGTCAAAGGTCTTCCTCTAAAGACAAATAAATC
1 AAGCTTAAAATGTCAAAGGTCTTCCTCTAAAGACAAATAAATC
46389048 AA
1 AA
46389050 CACATCTTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.26
Consensus pattern (43 bp):
AAGCTTAAAATGTCAAAGGTCTTCCTCTAAAGACAAATAAATC
Found at i:46393130 original size:15 final size:15
Alignment explanation
Indices: 46393090--46393140 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
46393080 GCAAAATAGT
*
46393090 GAAAAAAATAACAAG
1 GAAAAAAAAAACAAG
* *
46393105 AAAATAAAAAAAAAAG
1 GAAA-AAAAAAACAAG
*
46393121 GAAAAAAAAAGCAAG
1 GAAAAAAAAAACAAG
46393136 GAAAA
1 GAAAA
46393141 GCAACAATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
15 17 0.59
16 12 0.41
ACGTcount: A:0.78, C:0.04, G:0.14, T:0.04
Consensus pattern (15 bp):
GAAAAAAAAAACAAG
Found at i:46397242 original size:7 final size:7
Alignment explanation
Indices: 46397230--46397257 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
46397220 AATTAAGTTA
46397230 ATTTCAC
1 ATTTCAC
46397237 ATTTCAC
1 ATTTCAC
46397244 ATTTCAC
1 ATTTCAC
46397251 ATTTCAC
1 ATTTCAC
46397258 TATTATGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (7 bp):
ATTTCAC
Found at i:46401140 original size:20 final size:20
Alignment explanation
Indices: 46401102--46401141 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
46401092 AGGCTGTTAA
* * *
46401102 TAATGTGTTTGTAATGTGTT
1 TAATGTGTATGAAAAGTGTT
46401122 TAATGTGTATGAAAAGTGTT
1 TAATGTGTATGAAAAGTGTT
46401142 AGACTCGTCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (20 bp):
TAATGTGTATGAAAAGTGTT
Found at i:46408066 original size:3 final size:3
Alignment explanation
Indices: 46408058--46408161 Score: 172
Period size: 3 Copynumber: 34.7 Consensus size: 3
46408048 AGTACTAATG
* *
46408058 TCT TCT TCT TCT TCT TCT TCT CCT TCT TCT CCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* *
46408106 CCT TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
46408154 TCT TCT TC
1 TCT TCT TC
46408162 AGATTTACTT
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 93 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TCT
Found at i:46411748 original size:4 final size:4
Alignment explanation
Indices: 46411739--46411799 Score: 56
Period size: 4 Copynumber: 15.2 Consensus size: 4
46411729 CTTTTATAAT
* *
46411739 TTTA TTTA TTT- TTGTA TTGT- TATTA TTTT TTTA TCT- TTTA TTTA TTTA
1 TTTA TTTA TTTA TT-TA TT-TA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA
46411787 TTTA TTTA TTTA T
1 TTTA TTTA TTTA T
46411800 GTGTTCATCA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
3 4 0.08
4 38 0.79
5 6 0.12
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:46411751 original size:18 final size:18
Alignment explanation
Indices: 46411725--46411785 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
46411715 TACATAGATT
*
46411725 TTTACTTTTATAATTTTA
1 TTTATTTTTATAATTTTA
*
46411743 TTTATTTTTGT-ATTGTTA
1 TTTATTTTTATAATT-TTA
* *
46411761 -TTATTTTTTTATCTTTTA
1 TTTATTTTTATA-ATTTTA
46411779 TTTATTT
1 TTTATTT
46411786 ATTTATTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
17 12 0.34
18 15 0.43
19 8 0.23
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTATTTTTATAATTTTA
Found at i:46411772 original size:8 final size:8
Alignment explanation
Indices: 46411723--46411797 Score: 53
Period size: 8 Copynumber: 9.1 Consensus size: 8
46411713 CATACATAGA
46411723 TTTTTACTT
1 TTTTTA-TT
* *
46411732 TTATAATT
1 TTTTTATT
46411740 TTATTTATT
1 TT-TTTATT
*
46411749 TTTGTATT
1 TTTTTATT
*
46411757 GTTATTATT
1 -TTTTTATT
46411766 TTTTTA-T
1 TTTTTATT
*
46411773 CTTTTATT
1 TTTTTATT
*
46411781 TATTTATT
1 TTTTTATT
*
46411789 TATTTATT
1 TTTTTATT
46411797 T
1 T
46411798 ATGTGTTCAT
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
7 6 0.12
8 30 0.58
9 16 0.31
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (8 bp):
TTTTTATT
Found at i:46411777 original size:44 final size:47
Alignment explanation
Indices: 46411722--46411819 Score: 118
Period size: 44 Copynumber: 2.2 Consensus size: 47
46411712 ACATACATAG
*
46411722 ATTTTTA-CTTTTATA-ATTTTATTTATTT-TTGTAT-TGTT-ATTATT
1 ATTTTTATCTTTTATATA-TTTATTTATTTATT-TATGTGTTCATCATT
*
46411766 -TTTTTATCTTTTATTTATTTATTTATTTATTTATGTGTTCATCATT
1 ATTTTTATCTTTTATATATTTATTTATTTATTTATGTGTTCATCATT
46411812 ATTTTTAT
1 ATTTTTAT
46411820 GAAATGTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
43 6 0.13
44 21 0.46
45 7 0.15
46 5 0.11
47 7 0.15
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (47 bp):
ATTTTTATCTTTTATATATTTATTTATTTATTTATGTGTTCATCATT
Found at i:46414445 original size:9 final size:9
Alignment explanation
Indices: 46414431--46414473 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
46414421 AATAATAGTT
46414431 ATATTTAAA
1 ATATTTAAA
46414440 ATATTTAATA
1 ATATTTAA-A
*
46414450 CTTATATTAAA
1 -ATAT-TTAAA
46414461 ATATTTAAA
1 ATATTTAAA
46414470 ATAT
1 ATAT
46414474 AGTTTATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
9 17 0.59
10 4 0.14
11 4 0.14
12 4 0.14
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (9 bp):
ATATTTAAA
Found at i:46414461 original size:21 final size:22
Alignment explanation
Indices: 46414423--46414468 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
46414413 TTTCTTAAAA
*
46414423 TAATAGTTATATTTAAAATATT
1 TAATACTTATATTTAAAATATT
46414445 TAATACTTATA-TTAAAATATT
1 TAATACTTATATTTAAAATATT
46414466 TAA
1 TAA
46414469 AATATAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TAATACTTATATTTAAAATATT
Found at i:46417598 original size:17 final size:14
Alignment explanation
Indices: 46417566--46417616 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
46417556 TTTTAAGTAA
46417566 TTTATTTTTTTTCT
1 TTTATTTTTTTTCT
46417580 TTTATGTTTTTTTAACT
1 TTTAT-TTTTTTT--CT
*
46417597 TTT-TTTTATTT-T
1 TTTATTTTTTTTCT
46417609 TTTATTTT
1 TTTATTTT
46417617 CCATTCTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
12 4 0.12
13 4 0.12
14 5 0.16
15 13 0.41
16 1 0.03
17 5 0.16
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.82
Consensus pattern (14 bp):
TTTATTTTTTTTCT
Found at i:46419256 original size:22 final size:23
Alignment explanation
Indices: 46419216--46419259 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
46419206 TATGTTTTTT
46419216 TATTATTATTTTTTAAATATTTA
1 TATTATTATTTTTTAAATATTTA
46419239 TATTA-TATTATTTT-AATATTT
1 TATTATTATT-TTTTAAATATTT
46419260 TATAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TATTATTATTTTTTAAATATTTA
Found at i:46419261 original size:23 final size:22
Alignment explanation
Indices: 46419211--46419263 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
46419201 GCCTATATGT
*
46419211 TTTTTTATTATTATTTTTTAAA
1 TTTTATATTATTATTTTTTAAA
46419233 TATTTATATTA-TATTATTTTAATA
1 T-TTTATATTATTATT-TTTTAA-A
46419257 TTTTATA
1 TTTTATA
46419264 ATTTTATACA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 5 0.19
23 20 0.74
24 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTATATTATTATTTTTTAAA
Found at i:46423255 original size:23 final size:23
Alignment explanation
Indices: 46423229--46423275 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
46423219 GAAGAAAGGG
46423229 TTTTTATAAAGAAATGATTTGGA
1 TTTTTATAAAGAAATGATTTGGA
46423252 TTTTTATAAAGAAATGATTTGGA
1 TTTTTATAAAGAAATGATTTGGA
46423275 T
1 T
46423276 ATAAGTGGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (23 bp):
TTTTTATAAAGAAATGATTTGGA
Found at i:46426056 original size:16 final size:16
Alignment explanation
Indices: 46426017--46426057 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
46426007 AGAGTTAAAA
46426017 TATAATTTTATCATTT
1 TATAATTTTATCATTT
46426033 TA-ATATTTTAT-ATCTT
1 TATA-ATTTTATCAT-TT
46426049 TATAATTTT
1 TATAATTTT
46426058 TGAAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.14
16 18 0.82
17 1 0.05
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (16 bp):
TATAATTTTATCATTT
Found at i:46426396 original size:20 final size:20
Alignment explanation
Indices: 46426371--46426410 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
46426361 TTATTTTTAA
*
46426371 TTAAAA-AATTCAAAATAATT
1 TTAAAATAATT-AAAAAAATT
46426391 TTAAAATAATTAAAAAAATT
1 TTAAAATAATTAAAAAAATT
46426411 AATAGTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
TTAAAATAATTAAAAAAATT
Found at i:46435815 original size:28 final size:28
Alignment explanation
Indices: 46435769--46435857 Score: 128
Period size: 28 Copynumber: 3.2 Consensus size: 28
46435759 CCATTCAGTA
* *
46435769 ACAGT-ACAGTGTAGGCCTTAGGCCAAT
1 ACAGTAACAATGTGGGCCTTAGGCCAAT
46435796 ACAGTAACAATGTGGGCCTTA-GCCTAAT
1 ACAGTAACAATGTGGGCCTTAGGCC-AAT
*
46435824 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGGCCAAT
46435852 ACAGTA
1 ACAGTA
46435858 TCGGTACAGT
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
27 8 0.14
28 46 0.82
29 2 0.04
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGGCCAAT
Found at i:46436332 original size:26 final size:27
Alignment explanation
Indices: 46436221--46436335 Score: 160
Period size: 27 Copynumber: 4.3 Consensus size: 27
46436211 GGGGTATAAT
*
46436221 AGTCATTTTACCCTATGGGGGTAATTT
1 AGTCATTTTACCCTATGGGGGTAATTC
*
46436248 AGTCATTTTACCTTATGGGGGTAATTC
1 AGTCATTTTACCCTATGGGGGTAATTC
* * *
46436275 GGTCATTTTACCCTGTAGGGGTAATTC
1 AGTCATTTTACCCTATGGGGGTAATTC
* *
46436302 GGTCATTTTACCCTGT-GGGGTAATTC
1 AGTCATTTTACCCTATGGGGGTAATTC
46436328 AGTCATTT
1 AGTCATTT
46436336 ATTGACCTCT
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
26 17 0.21
27 64 0.79
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (27 bp):
AGTCATTTTACCCTATGGGGGTAATTC
Found at i:46440320 original size:194 final size:194
Alignment explanation
Indices: 46439980--46440363 Score: 590
Period size: 194 Copynumber: 2.0 Consensus size: 194
46439970 ATCAAAATTG
* * *
46439980 AGGAAATTGATTGAAAGACTATTATGCTGTTTCTCAAGTCCAATTGGTGAGATAACTTTTACCGT
1 AGGAAATTGATTGAAAAACTATTATGCTGTCTATCAAGTCCAATTGGTGAGATAACTTTTACCGT
* *
46440045 GTTTCGGACTAGACGACTCTTAAAAGATAGAGACATAGATGTGATTGTTTGGACTGACAATACAT
66 GTTTCGGACTAGACGACTCTTAAAAGATAGAGACATAGATCTAATTGTTTGGACTGACAATACAT
* *
46440110 TGAACATGACCCAAGTAAAATAAATCTTGTATCCATTTATGGATTTATTCGCTTGTGACAATCA
131 TGAACATGACCCAAGTAAAATAAATCCTGTATCCATTTATGAATTTATTCGCTTGTGACAATCA
46440174 AGGAAATTGATTGAAAAACTATTATG-TCGTCTATCAAGTCCAATTGGTGAGATAACTTTTACCG
1 AGGAAATTGATTGAAAAACTATTATGCT-GTCTATCAAGTCCAATTGGTGAGATAACTTTTACCG
* * * ** * * *
46440238 TGTTTTGGACTGGATGACTCTTATTAGATAGAGACATAGATCTAATTTTTTGGACTGTCAATTCA
65 TGTTTCGGACTAGACGACTCTTAAAAGATAGAGACATAGATCTAATTGTTTGGACTGACAATACA
* * *
46440303 TTGGACATGATCCAAGTAGAATAAATCCTGTATCCATTTATGAATTTATTCGCTTGTGACA
130 TTGAACATGACCCAAGTAAAATAAATCCTGTATCCATTTATGAATTTATTCGCTTGTGACA
46440364 TTCATAGTGT
Statistics
Matches: 171, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
193 1 0.01
194 170 0.99
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.35
Consensus pattern (194 bp):
AGGAAATTGATTGAAAAACTATTATGCTGTCTATCAAGTCCAATTGGTGAGATAACTTTTACCGT
GTTTCGGACTAGACGACTCTTAAAAGATAGAGACATAGATCTAATTGTTTGGACTGACAATACAT
TGAACATGACCCAAGTAAAATAAATCCTGTATCCATTTATGAATTTATTCGCTTGTGACAATCA
Found at i:46442487 original size:39 final size:40
Alignment explanation
Indices: 46442392--46442698 Score: 386
Period size: 39 Copynumber: 7.8 Consensus size: 40
46442382 TTGAATGATG
*
46442392 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
46442430 ATCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
46442471 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
46442510 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
46442549 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
46442588 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
46442627 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-AT--TAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
46442664 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG
1 -T--CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
46442699 GAGCTATATC
Statistics
Matches: 242, Mismatches: 15, Indels: 20
0.87 0.05 0.07
Matches are distributed among these distances:
37 3 0.01
38 1 0.00
39 168 0.69
40 59 0.24
41 10 0.04
42 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:46452034 original size:15 final size:14
Alignment explanation
Indices: 46451995--46452033 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
46451985 CATATACATA
46451995 TTTTAAAAAATATT
1 TTTTAAAAAATATT
**
46452009 TTTTCCTAAAATATT
1 TTTT-AAAAAATATT
46452024 TTTTAAAAAA
1 TTTTAAAAAA
46452034 ACTTTAATTC
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (14 bp):
TTTTAAAAAATATT
Found at i:46452992 original size:28 final size:26
Alignment explanation
Indices: 46452952--46453006 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
46452942 TATTTCACAT
*
46452952 TAAAAACAGAATTAAAAGTTCGATAAAA
1 TAAAAACAAAATTAAAAGTT--ATAAAA
* *
46452980 TAAACACAAAATTAGAAGTTATAAAA
1 TAAAAACAAAATTAAAAGTTATAAAA
46453006 T
1 T
46453007 TTGTAAGGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 7 0.29
28 17 0.71
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.24
Consensus pattern (26 bp):
TAAAAACAAAATTAAAAGTTATAAAA
Found at i:46453503 original size:16 final size:16
Alignment explanation
Indices: 46453482--46453512 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46453472 AATACTTTTT
*
46453482 TATAAATTTATTATAC
1 TATAAATTAATTATAC
46453498 TATAAATTAATTATA
1 TATAAATTAATTATA
46453513 ATTTATTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TATAAATTAATTATAC
Found at i:46456525 original size:27 final size:27
Alignment explanation
Indices: 46456487--46456538 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 27
46456477 AATTTTTATT
46456487 TTTTTTTATTTTTTA-TTTTAAAATAC
1 TTTTTTTATTTTTTATTTTTAAAATAC
46456513 TTTTTTTATTTTTTATTTTTAAAATA
1 TTTTTTTATTTTTTATTTTTAAAATA
46456539 AATTTTTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTTTTTATTTTTTATTTTTAAAATAC
Found at i:46456544 original size:26 final size:26
Alignment explanation
Indices: 46456489--46456545 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
46456479 TTTTTATTTT
**
46456489 TTTTTATTTTTTATTTTAAAATACTT
1 TTTTTATTTTTTATTTTAAAATACAA
46456515 TTTTTATTTTTTATTTTTAAAATA-AA
1 TTTTTATTTTTTA-TTTTAAAATACAA
46456541 TTTTT
1 TTTTT
46456546 GGTGTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTTTATTTTTTATTTTAAAATACAA
Found at i:46456544 original size:27 final size:26
Alignment explanation
Indices: 46456488--46456545 Score: 89
Period size: 27 Copynumber: 2.2 Consensus size: 26
46456478 ATTTTTATTT
**
46456488 TTTTTTATTTTTTATTTTAAAATACT
1 TTTTTTATTTTTTATTTTAAAATAAA
46456514 TTTTTTATTTTTTATTTTTAAAATAAA
1 TTTTTTATTTTTTA-TTTTAAAATAAA
46456541 TTTTT
1 TTTTT
46456546 GGTGTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 14 0.48
27 15 0.52
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTTTTATTTTTTATTTTAAAATAAA
Done.