Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1358
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: 93759
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Found at i:4633 original size:10 final size:9
Alignment explanation
Indices: 4618--4647 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
4608 TCCATTTCGG
4618 TTTTTTTATC
1 TTTTTTT-TC
4628 TTTTTTTTC
1 TTTTTTTTC
4637 TTTTTTTTC
1 TTTTTTTTC
4646 TT
1 TT
4648 AGTAATAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:9899 original size:23 final size:21
Alignment explanation
Indices: 9853--9900 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
9843 TTTACGTATC
*
9853 AAATTATAATACAAACTTAAA
1 AAATTATAATAAAAACTTAAA
*
9874 AAATTATAATATAAAGACTTATA
1 AAATTATAATA-AAA-ACTTAAA
9897 AAAT
1 AAAT
9901 CTAGTATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.48
22 2 0.09
23 10 0.43
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.31
Consensus pattern (21 bp):
AAATTATAATAAAAACTTAAA
Found at i:13601 original size:52 final size:52
Alignment explanation
Indices: 13454--13581 Score: 213
Period size: 51 Copynumber: 2.5 Consensus size: 52
13444 CGAAATATGA
*
13454 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGAT-CAACTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACAACTGGGC
* *
13505 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACAACTGGGC
*
13557 AAATTTGCCTGCATGTATCAATACA
1 AAATTTGCCTGCATGTATCGATACA
13582 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
51 41 0.57
52 31 0.43
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACAACTGGGC
Found at i:13608 original size:13 final size:13
Alignment explanation
Indices: 13590--13614 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13580 CAAAGATCAG
13590 TGTATCGATACAA
1 TGTATCGATACAA
13603 TGTATCGATACA
1 TGTATCGATACA
13615 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:13695 original size:32 final size:32
Alignment explanation
Indices: 13652--13752 Score: 148
Period size: 32 Copynumber: 3.1 Consensus size: 32
13642 GGCAGTAGCT
* *
13652 TACATTGTATCGATACAAAACTTATGTATCAA
1 TACATTGTATCGATACAACACTTATGTATCGA
* * *
13684 TACATTATATCGATATAACATTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
13716 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
13749 TACA
1 TACA
13753 AATCGTTGAA
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
32 45 0.75
33 15 0.25
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.37
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:13726 original size:13 final size:13
Alignment explanation
Indices: 13708--13732 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13698 ATAACATTTA
13708 TGTATCGATACAT
1 TGTATCGATACAT
13721 TGTATCGATACA
1 TGTATCGATACA
13733 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:14275 original size:33 final size:32
Alignment explanation
Indices: 14238--14311 Score: 76
Period size: 33 Copynumber: 2.2 Consensus size: 32
14228 ATTAAAGCTT
14238 AAAAAATTCAAAACCAAAAAAAATTTAAACTCA
1 AAAAAATTCAAAACC-AAAAAAATTTAAACTCA
* ** * *
14271 AAAAATAATCAAATTCAAAATAATTTAAACTTA
1 AAAAA-ATTCAAAACCAAAAAAATTTAAACTCA
14304 AAATAAAT
1 AAA-AAAT
14312 CTAAATATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
33 24 0.73
34 9 0.27
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (32 bp):
AAAAAATTCAAAACCAAAAAAATTTAAACTCA
Found at i:14322 original size:17 final size:16
Alignment explanation
Indices: 14272--14339 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
14262 TTAAACTCAA
14272 AAAAT-AATCAAAT-T
1 AAAATAAATCAAATAT
* *
14286 CAAAATAATTTAAACT-T
1 -AAAATAAATCAAA-TAT
14303 AAAATAAATCTAAATAT
1 AAAATAAATC-AAATAT
* *
14320 AAAATAATTCAAATCT
1 AAAATAAATCAAATAT
14336 AAAA
1 AAAA
14340 ATAATTTGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
15 5 0.12
16 23 0.53
17 15 0.35
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATAAATCAAATAT
Found at i:14324 original size:33 final size:32
Alignment explanation
Indices: 14254--14343 Score: 94
Period size: 33 Copynumber: 2.7 Consensus size: 32
14244 TTCAAAACCA
*
14254 AAAAAAATTTAAACTCAAAAA-ATAATCAAATTC
1 AAAATAATTTAAACT-AAAAATA-AATCAAATTC
*
14287 AAAATAATTTAAACTTAAAATAAATCTAAATAT-
1 AAAATAATTTAAACTAAAAATAAATC-AAAT-TC
*
14320 AAAATAATTCAAATCTAAAAATAA
1 AAAATAATTTAAA-CTAAAAATAA
14344 TTTGATCCGA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
32 8 0.16
33 31 0.63
34 10 0.20
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (32 bp):
AAAATAATTTAAACTAAAAATAAATCAAATTC
Found at i:14340 original size:17 final size:17
Alignment explanation
Indices: 14238--14345 Score: 73
Period size: 17 Copynumber: 6.5 Consensus size: 17
14228 ATTAAAGCTT
* *
14238 AAAA-AATTCAAAACCA
1 AAAATAATTCAAATCTA
* * *
14254 AAAAAAATTTAAACTCAA
1 AAAATAATTCAAA-TCTA
*
14272 AAAATAA-TCAAAT-TC
1 AAAATAATTCAAATCTA
* *
14287 AAAATAATTTAAA-CTT
1 AAAATAATTCAAATCTA
* *
14303 AAAATAAATCTAAATAT-
1 AAAATAATTC-AAATCTA
14320 AAAATAATTCAAATCTA
1 AAAATAATTCAAATCTA
14337 AAAATAATT
1 AAAATAATT
14346 TGATCCGAGC
Statistics
Matches: 71, Mismatches: 14, Indels: 13
0.72 0.14 0.13
Matches are distributed among these distances:
15 7 0.10
16 23 0.32
17 32 0.45
18 9 0.13
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAATAATTCAAATCTA
Found at i:15885 original size:26 final size:25
Alignment explanation
Indices: 15846--15902 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
15836 TATTAAAATA
*
15846 TTTTATATAATTAATTATATTTATTT
1 TTTTATATAATTAA-TAGATTTATTT
** *
15872 TTTTATATTTTTAATGGATTTATTT
1 TTTTATATAATTAATAGATTTATTT
15897 TTTTAT
1 TTTTAT
15903 GTATAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 15 0.56
26 12 0.44
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (25 bp):
TTTTATATAATTAATAGATTTATTT
Found at i:17056 original size:400 final size:391
Alignment explanation
Indices: 16029--17207 Score: 1092
Period size: 400 Copynumber: 3.0 Consensus size: 391
16019 TTTAAATTTG
* *
16029 ATTTTAAAATAAATTAA-TTTAAATAGTAAACAGTAACTAATAATAATTTTAATAATTAATTAAA
1 ATTTTAAAATAAATTAAGTTTAAATAGTAAACAATAAC-AATAATAA-TTT--CAA-TAATTAAA
* * * * **
16093 AATTTAAAAATCTTAAATAGTAAATATATAAAAGATAAAATATTTTTTTAAAAAAG-TAATTATC
61 AA--TAAAAATCTTATATAATAAATATATAAAAGCTAAAA-CTTTTTAAAAAAAAGATAATTATC
* * * * * * *
16157 TAATATGAATAGCTTATATTATTCACATATAGATGATAGTAAATAGTCATT-ATATTTATACAT-
123 CAATATGAATAACTTATATTATTCACATATAGATAATAGTAAAAAGTC-TTCATGTGT-CACATA
* *
16220 TTAATTATTTTGACTTGATTTAATTTAATATTAAAATATTTCATATAATTTATGATATTTATTTT
186 TTAATTATTTTGACTTGATTTAATTTAATATTAAAATATTTCATATAATTAATTATATTTA-TTT
* *
16285 CTTTTATGCTTCTAATT-ATCTTACCTTTTT-TATATATGT-AACAAATAAAATTTTAATTT-TC
250 CTTTTATACTTTTAATTGA-CTTACCTTTTTATATATATGTAAACAAATAAAATTTTAATTTCT-
** * * * * *
16346 TTTCTATATCTCACAAAAAATATTTACTAAGCTATTA-TAAATATGAGTTTTCTAGAAATGATAA
313 TTTC-ATATCTCA-AAAAAATATAAATTAA-AT-TTATTAAATA-GA--TTACTATAAAT-AAAA
* ** * * *
16410 --TCTGGAGCCATTTA-AATTTAA
370 GTTTTCTA-CAAATGATAA-TTAA
* * * *
16431 ATTTTTATAA-AAATAAAGTTTAAATAGTAAACAAT----AT--TAATTCCAATAACTAAAATAT
1 A-TTTTAAAATAAATTAAGTTTAAATAGTAAACAATAACAATAATAATTTCAATAATTAAAA-AT
* *
16489 AAAAAAATATTATATAATAAATATATAAAAGCTAAAAC--CTTAAAAAAAA-ATAA-T-T-CAAT
64 --AAAAATCTTATATAATAAATATATAAAAGCTAAAACTTTTTAAAAAAAAGATAATTATCCAAT
* * * * * * * *
16548 ATGGATAGA-TTATATTATTCACATGTGGGTAATCGTAAAAAGTCGTCATGAGTCACACATTTAA
127 ATGAATA-ACTTATATTATTCACATATAGATAATAGTAAAAAGTCTTCATGTGTCACATA-TTAA
* *
16612 TTATTTTGATTTGATTTAATTTATTATTAAAATATTTCATATAATTAATTATATTTATTT-TTTT
190 TTATTTTGACTTGATTTAATTTAATATTAAAATATTTCATATAATTAATTATATTTATTTCTTTT
16676 ATACTTTTAATTGACTTACCTTTTTATATATATGTAAACAAATAAAATTTTAATTTCCTTTTCAT
255 ATACTTTTAATTGACTTACCTTTTTATATATATGTAAACAAATAAAATTTTAATTT-CTTTTCAT
* *
16741 ATCACAAAAAAATAGTAAATTAAATTTATTTAATAGATTACTATAAATAAAAGTTTTCTACAAAT
319 ATCTCAAAAAAATA-TAAATTAAATTTATTAAATAGATTACTATAAATAAAAGTTTTCTACAAAT
*
16806 GATAATTCA
383 GATAATTAA
16815 ATTTTAAAAATAAATTAAGTTTAAATAGTAAACAATAACCAATAATAATTTCAATAATTAAAAAT
1 ATTTT-AAAATAAATTAAGTTTAAATAGTAAACAATAA-CAATAATAATTTCAATAATTAAAAAT
* *
16880 AAAAACTCTTATATAATTAATATATAAAAGCCAAAACTTTTTACCAAAAAAAAAGATAATTATCC
64 AAAAA-TCTTATATAATAAATATATAAAAGCTAAAACTTTTT----AAAAAAAAGATAATTATCC
* * * *
16945 AATGTGAATAACCTATATTATTCACATATAGCTAACT-GTAAAAAGTCTTCATGTGTCGCATAGT
124 AATATGAATAACTTATATTATTCACATATAGATAA-TAGTAAAAAGTCTTCATGTGTCACATA-T
* * * *
17009 TAATTATTTTTACTTAATTTAATTTAATATTAAATTATTTTATATAATTAATTATATTT-TTTCT
187 TAATTATTTTGACTTGATTTAATTTAATATTAAAATATTTCATATAATTAATTATATTTATTTCT
* * * * * *
17073 TTTATACTTTTAATTGACTTA-ATTTTTATATACA--TAGACCAATAAAATTTTACTATTATTTT
252 TTTATACTTTTAATTGACTTACCTTTTTATATATATGTAAACAAATAAAATTTTAAT-TTCTTTT
* * * * * *
17135 TATATCTTAAAAATATA-AAATTAAATTTATTCAATAGACTACTATAAATAAGAGTTTTCTACAA
316 CATATCTCAAAAAAATATAAATTAAATTTATTAAATAGATTACTATAAATAAAAGTTTTCTACAA
*
17199 ATGGTAATT
381 ATGATAATT
17208 TGGAGCAATT
Statistics
Matches: 643, Mismatches: 90, Indels: 95
0.78 0.11 0.11
Matches are distributed among these distances:
383 7 0.01
384 20 0.03
385 29 0.05
386 34 0.05
387 68 0.11
388 90 0.14
389 10 0.02
390 42 0.07
391 3 0.00
392 26 0.04
393 34 0.05
395 54 0.08
396 11 0.02
397 38 0.06
398 5 0.01
399 16 0.02
400 125 0.19
401 1 0.00
402 7 0.01
403 23 0.04
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (391 bp):
ATTTTAAAATAAATTAAGTTTAAATAGTAAACAATAACAATAATAATTTCAATAATTAAAAATAA
AAATCTTATATAATAAATATATAAAAGCTAAAACTTTTTAAAAAAAAGATAATTATCCAATATGA
ATAACTTATATTATTCACATATAGATAATAGTAAAAAGTCTTCATGTGTCACATATTAATTATTT
TGACTTGATTTAATTTAATATTAAAATATTTCATATAATTAATTATATTTATTTCTTTTATACTT
TTAATTGACTTACCTTTTTATATATATGTAAACAAATAAAATTTTAATTTCTTTTCATATCTCAA
AAAAATATAAATTAAATTTATTAAATAGATTACTATAAATAAAAGTTTTCTACAAATGATAATTA
A
Found at i:18402 original size:56 final size:57
Alignment explanation
Indices: 18335--18446 Score: 199
Period size: 58 Copynumber: 2.0 Consensus size: 57
18325 CAAACCATAG
18335 CATACATCAAGCACTTAACT-GCTCGAGTAAAGAACTTTTCTCATGTAATATCTTAT
1 CATACATCAAGCACTTAACTCGCTCGAGTAAAGAACTTTTCTCATGTAATATCTTAT
*
18391 CATACATCAAGCTCTTAACTGCGCTCGAGTAAAGAACTTTTCTCATGTAATATCTT
1 CATACATCAAGCACTTAACT-CGCTCGAGTAAAGAACTTTTCTCATGTAATATCTT
18447 TCTTCATCTA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
56 19 0.36
58 34 0.64
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (57 bp):
CATACATCAAGCACTTAACTCGCTCGAGTAAAGAACTTTTCTCATGTAATATCTTAT
Found at i:22091 original size:13 final size:13
Alignment explanation
Indices: 22069--22106 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
22059 CATATTGCTT
22069 TGTATCGATACAC
1 TGTATCGATACAC
*
22082 TGTATTGATACAC
1 TGTATCGATACAC
22095 TGTATCGATACA
1 TGTATCGATACA
22107 TGCTCTTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:28509 original size:31 final size:31
Alignment explanation
Indices: 28458--28533 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 31
28448 ATTCAAACCT
28458 AAATTTCATCAATTCTTTTTCGA-ATTTCATC
1 AAATTTCATCAATTCTTTTTC-ATATTTCATC
* *
28489 AAATTTACATCATTTC-TTTTCATTTTTCATC
1 AAATTT-CATCAATTCTTTTTCATATTTCATC
28520 AAAATCTTCATCAA
1 -AAAT-TTCATCAA
28534 AAACGGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
30 1 0.03
31 18 0.47
32 17 0.45
33 2 0.05
ACGTcount: A:0.32, C:0.20, G:0.01, T:0.47
Consensus pattern (31 bp):
AAATTTCATCAATTCTTTTTCATATTTCATC
Found at i:30259 original size:31 final size:31
Alignment explanation
Indices: 30221--30282 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
30211 AAATAAATTT
*
30221 TGAAAAAGGGGGACAAATTGTTTTCTAAAAA
1 TGAAAAAGGGGGACAAATTATTTTCTAAAAA
*
30252 TGAAAAAGGGGGAGAAATTATTTTCTAAAAA
1 TGAAAAAGGGGGACAAATTATTTTCTAAAAA
30283 AAGATATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.47, C:0.05, G:0.23, T:0.26
Consensus pattern (31 bp):
TGAAAAAGGGGGACAAATTATTTTCTAAAAA
Found at i:31145 original size:13 final size:13
Alignment explanation
Indices: 31127--31157 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
31117 CGATACATGG
31127 TACATTGTATCGA
1 TACATTGTATCGA
*
31140 TACATTGTATTGA
1 TACATTGTATCGA
31153 TACAT
1 TACAT
31158 AGTGAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:35603 original size:22 final size:21
Alignment explanation
Indices: 35534--35608 Score: 73
Period size: 22 Copynumber: 3.6 Consensus size: 21
35524 GGGCTAATTA
*
35534 TATCGATACAATTCT-GCA-TG
1 TATCGATAC-ATTCTAGAAGTG
*
35554 TATCGATACATTCTAGAATTG
1 TATCGATACATTCTAGAAGTG
* * *
35575 TACCGATACATTCTTATACGTG
1 TATCGATACATTC-TAGAAGTG
35597 TATCGATACATT
1 TATCGATACATT
35609 TGAAGGGTAG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 5 0.11
20 11 0.24
21 14 0.30
22 16 0.35
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (21 bp):
TATCGATACATTCTAGAAGTG
Found at i:36756 original size:20 final size:20
Alignment explanation
Indices: 36731--36805 Score: 141
Period size: 20 Copynumber: 3.8 Consensus size: 20
36721 AATTACCTGC
36731 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
36751 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
36771 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
*
36791 ATGTACCGATACATT
1 ATGTATCGATACATT
36806 TAGGTCAAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGAAGA
Found at i:37409 original size:20 final size:20
Alignment explanation
Indices: 37384--37423 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
37374 CATAAAAAAT
37384 TATTTTTAT-ATTAATATTTA
1 TATTTTTATAATTAA-ATTTA
37404 TATTTTTATAATTAAATTTA
1 TATTTTTATAATTAAATTTA
37424 AATAAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTATAATTAAATTTA
Found at i:39791 original size:13 final size:13
Alignment explanation
Indices: 39773--39799 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
39763 ACATTATGCT
39773 TTGTATCGATACA
1 TTGTATCGATACA
39786 TTGTATCGATACA
1 TTGTATCGATACA
39799 T
1 T
39800 GTTTATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:40286 original size:13 final size:13
Alignment explanation
Indices: 40268--40295 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
40258 CATTATTCAA
40268 TGTATCGATACAT
1 TGTATCGATACAT
40281 TGTATCGATACAT
1 TGTATCGATACAT
40294 TG
1 TG
40296 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:40290 original size:33 final size:33
Alignment explanation
Indices: 40248--40313 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
40238 GCCAAAGAAA
40248 TGTATCGATACATT-ATTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
40281 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
40314 CTGGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:40723 original size:214 final size:214
Alignment explanation
Indices: 40354--40988 Score: 1234
Period size: 214 Copynumber: 3.0 Consensus size: 214
40344 TTATTCAATA
* * *
40354 TATCGATACATGCAGGCAAATTTTCATATTTCGGGACATTTTCTTCCTTTGCTAAACGAGTTTTT
1 TATCGATACATGCAAGCAAATTTTCATATTTCGAGACATTTTCTTCCTTTGCCAAACGAGTTTTT
*
40419 TGCATCATAAGTGGTCAGGATTCATGTCAAATCTCAATTGCCACATGTCAAAACCCATCTTGATC
66 TGCATCATAAGTGGTTAGGATTCATGTCAAATCTCAATTGCCACATGTCAAAACCCATCTTGATC
40484 ACTTTTGAAGCTAAAAGCATGGCATTGAATGCCAAAACCACATGGTCCAAACTCATTGGTTGCCA
131 ACTTTTGAAGCTAAAAGCATGGCATTGAATGCCAAAACCACATGGTCCAAACTCATTGGTTGCCA
40549 TGGATGCCAAGGTTGCATG
196 TGGATGCCAAGGTTGCATG
40568 TATCGATACATGCAAGCAAATTTTCATATTTCGAGACATTTTCTTCCTTTGCCAAACGAGTTTTT
1 TATCGATACATGCAAGCAAATTTTCATATTTCGAGACATTTTCTTCCTTTGCCAAACGAGTTTTT
40633 TGCATCATAAGTGGTTAGGATTCATGTCAAATCTCAATTGCCACATGTCAAAACCCATCTTGATC
66 TGCATCATAAGTGGTTAGGATTCATGTCAAATCTCAATTGCCACATGTCAAAACCCATCTTGATC
40698 ACTTTTGAAGCTAAAAGCATGGCATTGAATGCCAAAACCACATGGTCCAAACTCATTGGTTGCCA
131 ACTTTTGAAGCTAAAAGCATGGCATTGAATGCCAAAACCACATGGTCCAAACTCATTGGTTGCCA
40763 TGGATGCCAAGGTTGCATG
196 TGGATGCCAAGGTTGCATG
40782 TATCGATACATGCAAGCAAATTTTCATATTTCGAGACATTTTCTTCCTTTGCCAAACGAGTTTTT
1 TATCGATACATGCAAGCAAATTTTCATATTTCGAGACATTTTCTTCCTTTGCCAAACGAGTTTTT
40847 TGCATCATAAGTGGTTAGGATTCATGTCAAATCTCAATTGCCACATGTCAAAACCCATCTTGATC
66 TGCATCATAAGTGGTTAGGATTCATGTCAAATCTCAATTGCCACATGTCAAAACCCATCTTGATC
40912 ACTTTTGAAGCTAAAAGCATGGCATTGAATGCCAAAACCACATGGTCCAAACTCATTGGTTGCCA
131 ACTTTTGAAGCTAAAAGCATGGCATTGAATGCCAAAACCACATGGTCCAAACTCATTGGTTGCCA
40977 TGGATGCCAAGG
196 TGGATGCCAAGG
40989 CTACCAAGCA
Statistics
Matches: 417, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
214 417 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (214 bp):
TATCGATACATGCAAGCAAATTTTCATATTTCGAGACATTTTCTTCCTTTGCCAAACGAGTTTTT
TGCATCATAAGTGGTTAGGATTCATGTCAAATCTCAATTGCCACATGTCAAAACCCATCTTGATC
ACTTTTGAAGCTAAAAGCATGGCATTGAATGCCAAAACCACATGGTCCAAACTCATTGGTTGCCA
TGGATGCCAAGGTTGCATG
Found at i:43915 original size:13 final size:13
Alignment explanation
Indices: 43894--43923 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
43884 CGATATATAG
*
43894 TACATTGTATCGA
1 TACAATGTATCGA
43907 TACAATGTATCGA
1 TACAATGTATCGA
43920 TACA
1 TACA
43924 TGATGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:47902 original size:13 final size:13
Alignment explanation
Indices: 47884--47908 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47874 CATAAAGTGT
47884 TGTATCGATACAA
1 TGTATCGATACAA
47897 TGTATCGATACA
1 TGTATCGATACA
47909 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:47906 original size:33 final size:33
Alignment explanation
Indices: 47864--47930 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
47854 TTCAACGATT
47864 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
47897 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
47930 T
1 T
47931 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:47990 original size:13 final size:13
Alignment explanation
Indices: 47972--47996 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47962 ATTACTCGAA
47972 TGTATCGATACAG
1 TGTATCGATACAG
47985 TGTATCGATACA
1 TGTATCGATACA
47997 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:48133 original size:52 final size:52
Alignment explanation
Indices: 48005--48125 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
47995 CACCGATCTT
*
48005 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
48057 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
48109 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
48126 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:51728 original size:12 final size:13
Alignment explanation
Indices: 51712--51765 Score: 62
Period size: 12 Copynumber: 4.5 Consensus size: 13
51702 AAACAAAGAA
51712 GATGAAT-ATGAT
1 GATGAATGATGAT
* *
51724 TATG-ATTATGAT
1 GATGAATGATGAT
51736 GAT-AATGATGAT
1 GATGAATGATGAT
51748 GATG-ATGATGAT
1 GATGAATGATGAT
51760 GATGAA
1 GATGAA
51766 AATTATAAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
11 2 0.06
12 32 0.91
13 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.35
Consensus pattern (13 bp):
GATGAATGATGAT
Found at i:51746 original size:3 final size:3
Alignment explanation
Indices: 51719--51764 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
51709 GAAGATGAAT
* * *
51719 ATG ATT ATG ATT ATG ATG ATA ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
51765 AAATTATAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (3 bp):
ATG
Found at i:55185 original size:16 final size:16
Alignment explanation
Indices: 55164--55195 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
55154 GCAAATACAA
55164 AATTAATTAATATTTT
1 AATTAATTAATATTTT
55180 AATTAATTAATATTTT
1 AATTAATTAATATTTT
55196 TATTTTTTGT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AATTAATTAATATTTT
Found at i:60409 original size:16 final size:17
Alignment explanation
Indices: 60388--60420 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
60378 GCATGTGTAA
60388 AATTAATTAAT-TTTTT
1 AATTAATTAATATTTTT
60404 AATTAATTAATATTTTT
1 AATTAATTAATATTTTT
60421 TTGTCTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AATTAATTAATATTTTT
Found at i:61950 original size:2 final size:2
Alignment explanation
Indices: 61937--61967 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
61927 ATTTTCATAA
*
61937 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61968 CATTCTTGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:62555 original size:34 final size:34
Alignment explanation
Indices: 62477--62556 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
62467 TTGTTAAGTG
* * * *
62477 TGTTAGGTGAAGCATATTAGGTGTGTTTGGTGATG
1 TGTTAGGTG-AGAATATTAGGTGTGTTAGGTAATA
* * *
62512 TATTTGGTGAGAATGTTAGGTGTGTTAGGTAATA
1 TGTTAGGTGAGAATATTAGGTGTGTTAGGTAATA
62546 TGTTAGGTGAG
1 TGTTAGGTGAG
62557 CAAGATATTT
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
34 29 0.81
35 7 0.19
ACGTcount: A:0.23, C:0.01, G:0.36, T:0.40
Consensus pattern (34 bp):
TGTTAGGTGAGAATATTAGGTGTGTTAGGTAATA
Found at i:74387 original size:10 final size:10
Alignment explanation
Indices: 74370--74441 Score: 54
Period size: 10 Copynumber: 7.0 Consensus size: 10
74360 TGGTAACTGC
74370 CATATATATA
1 CATATATATA
74380 CGTATATATATA
1 C--ATATATATA
* *
74392 TATATATACA
1 CATATATATA
* * * *
74402 CACACACACA
1 CATATATATA
*
74412 CAGATATATA
1 CATATATATA
74422 CATATATATA
1 CATATATATA
*
74432 TATATATATA
1 CATATATATA
74442 TATACCTGCA
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
10 39 0.81
12 9 0.19
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.35
Consensus pattern (10 bp):
CATATATATA
Found at i:74420 original size:2 final size:2
Alignment explanation
Indices: 74415--74445 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
74405 ACACACACAG
*
74415 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
74446 CCTGCACTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:74879 original size:17 final size:16
Alignment explanation
Indices: 74859--74908 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
74849 CAAAAGTAGC
74859 TTAAATCTAAAAATAAT
1 TTAAA-CTAAAAATAAT
*
74876 TTAAACTCAAAATAAT
1 TTAAACTAAAAATAAT
**
74892 TTAAACTTGAAATAAT
1 TTAAACTAAAAATAAT
74908 T
1 T
74909 CAATCACCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 25 0.83
17 5 0.17
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.36
Consensus pattern (16 bp):
TTAAACTAAAAATAAT
Found at i:75737 original size:15 final size:16
Alignment explanation
Indices: 75717--75785 Score: 70
Period size: 16 Copynumber: 4.4 Consensus size: 16
75707 AATCTGAATA
*
75717 TTAAATCT-AAATTAT
1 TTAAATCTAAAATAAT
*
75732 TTAAATTTAAAATAAT
1 TTAAATCTAAAATAAT
* * *
75748 TCAAATATAAAATGAT
1 TTAAATCTAAAATAAT
75764 TTAAA-CTCAAAATAAT
1 TTAAATCT-AAAATAAT
75780 TTAAAT
1 TTAAAT
75786 AAAAACAACA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
15 8 0.19
16 35 0.81
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (16 bp):
TTAAATCTAAAATAAT
Found at i:75766 original size:32 final size:31
Alignment explanation
Indices: 75725--75790 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 31
75715 TATTAAATCT
* * *
75725 AAATTATTTAAATTTAAAATAATTCAAATATA
1 AAATGATTTAAACTCAAAATAATTCAAATA-A
*
75757 AAATGATTTAAACTCAAAATAATTTAAATAA
1 AAATGATTTAAACTCAAAATAATTCAAATAA
75788 AAA
1 AAA
75791 CAACAACACT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 4 0.13
32 26 0.87
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.35
Consensus pattern (31 bp):
AAATGATTTAAACTCAAAATAATTCAAATAA
Found at i:77116 original size:15 final size:15
Alignment explanation
Indices: 77092--77121 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
77082 AAAGATATAT
*
77092 ATATATATATATTTA
1 ATATAAATATATTTA
77107 ATATAAATATATTTA
1 ATATAAATATATTTA
77122 TTTTTTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATAAATATATTTA
Found at i:77116 original size:19 final size:19
Alignment explanation
Indices: 77088--77124 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
77078 AAATAAAGAT
*
77088 ATATATATATATATATTTA
1 ATATAAATATATATATTTA
*
77107 ATATAAATATATTTATTT
1 ATATAAATATATATATTT
77125 TTTAATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATAAATATATATATTTA
Found at i:79136 original size:9 final size:9
Alignment explanation
Indices: 79121--79171 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
79111 ATAAATAAAA
79121 AAAAAGAA-
1 AAAAAGAAG
79129 AAAGAAGAAG
1 AAA-AAGAAG
*
79139 TAAAAGAAG
1 AAAAAGAAG
79148 AAAAAGAA-
1 AAAAAGAAG
*
79156 AAAAATAAG
1 AAAAAGAAG
*
79165 AGAAAGA
1 AAAAAGA
79172 GGGGAAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
8 10 0.29
9 23 0.66
10 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:79245 original size:14 final size:15
Alignment explanation
Indices: 79213--79252 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
79203 AAAAAGTAAA
79213 AAAGAAAA-AATGAG
1 AAAGAAAAGAATGAG
79227 AAAGAAAAGAATGAG
1 AAAGAAAAGAATGAG
79242 -AAGAATAAGAA
1 AAAGAA-AAGAA
79253 GAGGAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (15 bp):
AAAGAAAAGAATGAG
Found at i:79278 original size:39 final size:38
Alignment explanation
Indices: 79234--79308 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 38
79224 GAGAAAGAAA
*
79234 AGAATGAGAAGAA-TAAGAAGAGGAACAAAGAGAACAAAG
1 AGAATGAG-AGAAGGAAGAAGAGGAACAAA-AGAACAAAG
* *
79273 AGAATGAGAGAAGGAAGAGGAGGAATAAAAGAACAA
1 AGAATGAGAGAAGGAAGAAGAGGAACAAAAGAACAA
79309 GAACAAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 11 0.34
39 21 0.66
ACGTcount: A:0.60, C:0.04, G:0.31, T:0.05
Consensus pattern (38 bp):
AGAATGAGAGAAGGAAGAAGAGGAACAAAAGAACAAAG
Found at i:84464 original size:35 final size:35
Alignment explanation
Indices: 84425--84580 Score: 137
Period size: 35 Copynumber: 4.6 Consensus size: 35
84415 GAAAACATCA
*
84425 TGCTCTTTGAGGACAAGGAAAGGAAGAAAATGTCT
1 TGCTCTTTGAGGACAAAGAAAGGAAGAAAATGTCT
* **
84460 TGCTCTTAGAGGAC----AAAGGAAGAAAACATCT
1 TGCTCTTTGAGGACAAAGAAAGGAAGAAAATGTCT
* *
84491 TGCTCCTTGAGGACAAAGAAAGGAA-AAACA--TCA
1 TGCTCTTTGAGGACAAAGAAAGGAAGAAA-ATGTCT
* * * *
84524 TACTCCTTGAGGATAAAGAAATGAAGAAAATGTCT
1 TGCTCTTTGAGGACAAAGAAAGGAAGAAAATGTCT
* * *
84559 CGCTTTTTGAAGACAAAGAAAG
1 TGCTCTTTGAGGACAAAGAAAG
84581 AAATCCTACT
Statistics
Matches: 96, Mismatches: 17, Indels: 16
0.74 0.13 0.12
Matches are distributed among these distances:
31 27 0.28
33 25 0.26
34 6 0.06
35 38 0.40
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (35 bp):
TGCTCTTTGAGGACAAAGAAAGGAAGAAAATGTCT
Found at i:84481 original size:31 final size:31
Alignment explanation
Indices: 84413--84541 Score: 116
Period size: 31 Copynumber: 4.0 Consensus size: 31
84403 GGGAATAAAA
* *
84413 AAGAAAACATCATGCTCTTTGAGGACAAGGAAAGG
1 AAGAAAACATCTTGCTCCTTGAGGAC----AAAGG
**
84448 AAGAAAATGTCTTGCT-CTTAGAGGACAAAGG
1 AAGAAAACATCTTGCTCCTT-GAGGACAAAGG
*
84479 AAGAAAACATCTTGCTCCTTGAGGACAAAGA
1 AAGAAAACATCTTGCTCCTTGAGGACAAAGG
* * *
84510 AAGGAAAAACATCATACTCCTTGAGGATAAAG
1 AA-G-AAAACATCTTGCTCCTTGAGGACAAAG
84542 AAATGAAGAA
Statistics
Matches: 80, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
31 31 0.39
32 4 0.05
33 24 0.30
34 2 0.03
35 19 0.24
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (31 bp):
AAGAAAACATCTTGCTCCTTGAGGACAAAGG
Found at i:84530 original size:33 final size:33
Alignment explanation
Indices: 84416--84544 Score: 131
Period size: 33 Copynumber: 3.9 Consensus size: 33
84406 AATAAAAAAG
* *
84416 AAAACATCATGCTCTTTGAGGACAAGGAAAGGA
1 AAAACATCATGCTCCTTGAGGACAAAGAAAGGA
* *
84449 AGAAA-ATGTCTTGCT-CTTAGAGGACAAAGGAA-G-
1 A-AAACA--TCATGCTCCTT-GAGGACAAAGAAAGGA
*
84482 AAAACATCTTGCTCCTTGAGGACAAAGAAAGGA
1 AAAACATCATGCTCCTTGAGGACAAAGAAAGGA
* *
84515 AAAACATCATACTCCTTGAGGATAAAGAAA
1 AAAACATCATGCTCCTTGAGGACAAAGAAA
84545 TGAAGAAAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
31 19 0.24
32 7 0.09
33 31 0.39
34 6 0.08
35 17 0.21
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (33 bp):
AAAACATCATGCTCCTTGAGGACAAAGAAAGGA
Found at i:84745 original size:35 final size:35
Alignment explanation
Indices: 84699--84805 Score: 108
Period size: 35 Copynumber: 3.1 Consensus size: 35
84689 CTTTGAGGTC
* *
84699 AAAGAAAAAAACATCATGCTTTTTGAGGACAAAGA
1 AAAGAAGAAAACATCATGCTCTTTGAGGACAAAGA
* *
84734 AAAGAAGAAAACATCCTGCTCTTTGAGAACAAAG-
1 AAAGAAGAAAACATCATGCTCTTTGAGGACAAAGA
* * ** * * *
84768 AAGGAAAAAAATGTCATACTCTTTGAGGATAAAAA
1 AAAGAAGAAAACATCATGCTCTTTGAGGACAAAGA
84803 AAA
1 AAA
84806 CCTTGTTTTT
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
34 25 0.44
35 32 0.56
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.20
Consensus pattern (35 bp):
AAAGAAGAAAACATCATGCTCTTTGAGGACAAAGA
Found at i:84906 original size:31 final size:30
Alignment explanation
Indices: 84868--84943 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 30
84858 AAAGCCCTAC
84868 TCTTTGAGGACAAAGAAAGAAAACATCCTGG
1 TCTTTGAGGACAAAGAAA-AAAACATCCTGG
* ** *
84899 TCTTTGAGGA-TAA-AAAAAAATTTCCTGT
1 TCTTTGAGGACAAAGAAAAAAACATCCTGG
*
84927 TCTTTAAGGACAAAGAA
1 TCTTTGAGGACAAAGAA
84944 GTAAAGTTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
28 18 0.49
29 5 0.14
30 4 0.11
31 10 0.27
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.26
Consensus pattern (30 bp):
TCTTTGAGGACAAAGAAAAAAACATCCTGG
Found at i:86338 original size:79 final size:79
Alignment explanation
Indices: 86207--86405 Score: 202
Period size: 79 Copynumber: 2.5 Consensus size: 79
86197 AATAACGGGG
* * * * * ** * *
86207 TTGGAGTGTTCCCTTGAAAATAACGGGGCTAGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTAG
*
86271 AAAAAAAAATCGAGA
65 AAAAAAAAACCGAGA
* * *
86286 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATTAATATTTTGG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGA
* * * * *
86351 GAATAAAGCCGGGG
66 AAAAAAAACCGAGA
* *
86365 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCC
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
86406 GATGAAATAA
Statistics
Matches: 99, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
78 1 0.01
79 98 0.99
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (79 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGA
AAAAAAAACCGAGA
Found at i:86416 original size:28 final size:28
Alignment explanation
Indices: 86360--86431 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
86350 GGAATAAAGC
** *
86360 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
86388 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
**
86416 CAAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
86432 TCGACTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:86423 original size:107 final size:108
Alignment explanation
Indices: 86286--86485 Score: 244
Period size: 107 Copynumber: 1.9 Consensus size: 108
86276 AAAATCGAGA
** * *
86286 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATTAATA-TTTTG
1 TTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGTATCCCCAACTATGAAAAATTAATATTTTTG
* * *
86350 GGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGG
66 GAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAGTAACGGGG
* * * **
86393 TTGGAGTAT-CCC-CGATGAAATAACAAGGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTT
1 TTGGAGTATCCCCTCGA--AAATAACAAGGTTGGAGTATCCCCAACTATGAAAAATTAATATTTT
*
86456 TGGAAATAAAATCGGAGTTGGAGTATCCCC
64 TGGAAATAAAACCGGAGTTGGAGTATCCCC
86486 GATTAAAGGA
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
105 3 0.04
106 3 0.04
107 42 0.55
108 29 0.38
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (108 bp):
TTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGTATCCCCAACTATGAAAAATTAATATTTTTG
GAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAGTAACGGGG
Found at i:86636 original size:262 final size:262
Alignment explanation
Indices: 86309--86808 Score: 781
Period size: 262 Copynumber: 1.9 Consensus size: 262
86299 TCGAAAATAA
* * * *
86309 CGGGGTTGGAGTATCCCCAATTATGAGAAATTAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAATATCCCCAATTATGAAAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTAT
* *
86374 CCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAAT-AACAAGGTTGGAGTATCCTCGACT
66 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG--ATCAACAAGGTTGGAGTATCCCCGACT
86438 GTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATT
129 GTGAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA-GAAAATT
* * *
86501 GGTGTTTCGAAAATAAAACCGGGGTTAGAGTATCCCCGATTGTGGAAAAATTAGTGTTTAGCAAT
193 AGTGTTTCGAAAATAAAACCGGAGTTAGAATATCCCCGATTGTGGAAAAATTAGTGTTTAGCAAT
86566 AAAAC
258 AAAAC
* *
86571 CGGGGTTGGAATATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGGTTGGAATATCCCCAATTATGAAAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTAT
** *
86636 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGATCAACGGGGTTGGAGTATCCCCGATTGT
66 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGATCAACAAGGTTGGAGTATCCCCGACTGT
* *
86701 GAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGT
131 GAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGT
* * *
86766 GTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
196 GTTTCGAAAATAAAACCGGAGTTAGAATATCCCCGATTGTGGA
86809 GAATTGAGAA
Statistics
Matches: 216, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
260 2 0.01
261 25 0.12
262 149 0.69
263 40 0.19
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (262 bp):
CGGGGTTGGAATATCCCCAATTATGAAAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTAT
CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGATCAACAAGGTTGGAGTATCCCCGACTGT
GAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGT
GTTTCGAAAATAAAACCGGAGTTAGAATATCCCCGATTGTGGAAAAATTAGTGTTTAGCAATAAA
AC
Found at i:86686 original size:27 final size:26
Alignment explanation
Indices: 86622--86697 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 26
86612 GAAATAAAGT
86622 CGGGGTTGGAGTATCCCCTCGGA-AATAA
1 CGGGGTTGGAGTAT-CCC-C-GATAATAA
*
86650 CGGGGTTGGAGTATCCCCGATGATCAA
1 CGGGGTTGGAGTATCCCCGATAAT-AA
86677 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
86698 TGTGAAGAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
25 2 0.04
26 3 0.07
27 26 0.58
28 14 0.31
ACGTcount: A:0.21, C:0.22, G:0.34, T:0.22
Consensus pattern (26 bp):
CGGGGTTGGAGTATCCCCGATAATAA
Found at i:86785 original size:51 final size:52
Alignment explanation
Indices: 86419--86803 Score: 232
Period size: 51 Copynumber: 7.4 Consensus size: 52
86409 GAAATAACAA
* * * * * *
86419 GGTTGGAGTATCCTCGACTGT-GAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATAGAAAAATTAGT-GTTTTGAAAATAAAATCGG
* * * * * *
86471 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTCGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATAGAAAAATTAGTGTTTTGAAAATAAAATCGG
* * * * * *
86523 GGTTAGAGTATCCCCGATTGTGGAAAAATTAGTGTTTAG-CAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATAGAAAAATTAGTGTTTTGAAAATAAAATCGG
* * * *
86574 GGTTGGAATATCCCCGATTAT-GAAAAATTAATATTTT-AGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATAGAAAAATTAGTGTTTTGA-AAATAAAATCGG
* **** * *** ** *
86625 GGTTGGAGTATCCCCTCGGA-AATA-ACGGGGTTGGAGTATCCCCGATGAT-CAA-CGG
1 GGTTGGAGTAT-CCC-C-GATTATAGA-AAAATT--AGTGT-TTTGAAAATAAAATCGG
* * *
86680 GGTTGGAGTATCCCCGATTGT-GAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATAGAA-AAATTAGTG--TTTTGAAAATAAAATCGG
*
86734 AGTTGGAGTATCCCCGATTATAG-AAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATAGAAAAATTAGTGTTTTGAAAATAAAATCGG
* *
86785 AGTTGGAATATCCCCGATT
1 GGTTGGAGTATCCCCGATT
86804 GTGGAGAATT
Statistics
Matches: 251, Mismatches: 62, Indels: 41
0.71 0.18 0.12
Matches are distributed among these distances:
50 13 0.05
51 85 0.34
52 70 0.28
53 30 0.12
54 30 0.12
55 15 0.06
56 5 0.02
57 2 0.01
58 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTATAGAAAAATTAGTGTTTTGAAAATAAAATCGG
Found at i:89190 original size:13 final size:13
Alignment explanation
Indices: 89172--89197 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89162 ACAAAGATCC
89172 ATGTATCGATACA
1 ATGTATCGATACA
89185 ATGTATCGATACA
1 ATGTATCGATACA
89198 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:89193 original size:33 final size:33
Alignment explanation
Indices: 89151--89217 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
89141 AAAATTTCCA
***
89151 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
89184 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
89217 A
1 A
89218 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:89261 original size:19 final size:18
Alignment explanation
Indices: 89237--89300 Score: 75
Period size: 19 Copynumber: 3.7 Consensus size: 18
89227 CAGTAGCTAA
89237 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
89256 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
89271 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
89288 TTATGTATCGATA
1 TTATGTATCGATA
89301 TAAATCGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:89277 original size:13 final size:13
Alignment explanation
Indices: 89259--89283 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89249 ACAATACTTA
89259 TGTATCGATACAT
1 TGTATCGATACAT
89272 TGTATCGATACA
1 TGTATCGATACA
89284 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:89281 original size:32 final size:32
Alignment explanation
Indices: 89240--89300 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
89230 TAGCTAATTA
*
89240 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
89272 TGTATCGATACAAAACTTATGTATCGATA
1 TGTATCGATACAAAACTTATGTATCGATA
89301 TAAATCGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:89365 original size:20 final size:19
Alignment explanation
Indices: 89340--89400 Score: 77
Period size: 21 Copynumber: 3.1 Consensus size: 19
89330 GTTGGGACCC
89340 TGTATCGATACATTTGTGAA
1 TGTATCGATACATTTG-GAA
**
89360 TGTATCGATACATTCTACAAA
1 TGTATCGATACATT-T-GGAA
89381 TGTATCGATACATTTGGAA
1 TGTATCGATACATTTGGAA
89400 T
1 T
89401 TTTTTTTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 3 0.09
20 15 0.43
21 17 0.49
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATTTGGAA
Found at i:90088 original size:55 final size:55
Alignment explanation
Indices: 90004--91066 Score: 1567
Period size: 55 Copynumber: 19.3 Consensus size: 55
89994 ATAAACTGTA
* * * * * *
90004 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
90059 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * *
90114 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTAGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
90169 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* ** *
90224 TCCTGTTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
90279 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
90334 TCCTGCTCTTTGGGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
90389 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
90444 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
90499 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGGGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
90554 TCCTACTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
90609 TCCTCCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
90664 TCCTACTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
90719 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
90774 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
90829 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
90884 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGTGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* * *
90939 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGGGTGGGATTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
90994 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
91049 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
91067 AAAAAGCGGA
Statistics
Matches: 922, Mismatches: 65, Indels: 42
0.90 0.06 0.04
Matches are distributed among these distances:
54 32 0.03
55 859 0.93
56 31 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:92049 original size:10 final size:10
Alignment explanation
Indices: 92034--92083 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
92024 CTTAAGCAGA
92034 TTTTTCTTTT
1 TTTTTCTTTT
* *
92044 TTTTTCTCTC
1 TTTTTCTTTT
92054 TTTTTCTTTGT
1 TTTTTCTTT-T
92065 TTTGTT-TTTT
1 TTT-TTCTTTT
92075 TTTTT-TTTT
1 TTTTTCTTTT
92084 AAGAGAAGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
9 6 0.18
10 20 0.59
11 6 0.18
12 2 0.06
ACGTcount: A:0.00, C:0.10, G:0.04, T:0.86
Consensus pattern (10 bp):
TTTTTCTTTT
Done.