Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007280.1 Hibiscus syriacus cultivar Beakdansim tig00019317_pilon, whole genome shotgun sequence
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: 105079
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:539 original size:15 final size:15
Alignment explanation
Indices: 521--559 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
511 AAGGAAATAG
521 AATGGAAATGATTGA
1 AATGGAAATGATTGA
536 AATGGAAATGATTGA
1 AATGGAAATGATTGA
551 AATGGAAAT
1 AATGGAAAT
560 ATGAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.26
Consensus pattern (15 bp):
AATGGAAATGATTGA
Found at i:786 original size:35 final size:35
Alignment explanation
Indices: 747--822 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
737 AGGATAATGG
* *
747 GATGGTGATTATATAGGCGTGAAATGGAGATGGAA
1 GATGGTGATGATATAGGCGTGAAATGGAGATGAAA
*
782 GATGGTGATGATATAGGCGTGATATGGAGATGAAA
1 GATGGTGATGATATAGGCGTGAAATGGAGATGAAA
817 GATGGT
1 GATGGT
823 ATAGAAAGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.33, C:0.03, G:0.38, T:0.26
Consensus pattern (35 bp):
GATGGTGATGATATAGGCGTGAAATGGAGATGAAA
Found at i:1188 original size:20 final size:18
Alignment explanation
Indices: 1163--1204 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
1153 GAAACCCCTT
1163 TGAAAAAACATGATTTTTAA
1 TGAAAAAACA--ATTTTTAA
*
1183 TGAAAATACAATTTTTAA
1 TGAAAAAACAATTTTTAA
1201 TGAA
1 TGAA
1205 GATAAATGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.57
20 9 0.43
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.36
Consensus pattern (18 bp):
TGAAAAAACAATTTTTAA
Found at i:4362 original size:180 final size:176
Alignment explanation
Indices: 3960--4436 Score: 431
Period size: 180 Copynumber: 2.7 Consensus size: 176
3950 AAATTGAAGG
* * * * * *
3960 CATATAGTGACAACTTTTGTAACTA-AAATTTTAGTAACTATGACAAAAAATTGTCAAAACAAAT
1 CATATAGTGACAAATTTTGTAACTATAAGTTTTAATAATTATTACAAAAAATTGTCACAACAAAT
* * * * *
4024 AATGAGATT-TAGATTTTTGTGACATATTTTTTTGTAATTATATATTTTAATTATAGTGACAAAA
66 AATGAGATTCAAG-TTTTTGTAAAATATATGTTTGTAATTATATATTTTAATTATAGTGACAAAA
*
4088 TGTATAGTCACAAATGATTATCTCCAATTTTTTGTACAAAAACGAAAT
130 TATATAGTCACAAATGATTATCTCCAATTTTTTGTACAAAAAC-AAAT
* * * * * *
4136 AATGTAGTGACATAA-TTTGTAACTATAAG-CTAAATTATTGTTACAAAAAATTGTCACAACAAA
1 CATATAGTGACA-AATTTTGTAACTATAAGTTTTAATAATTATTACAAAAAATTGTCACAACAAA
* ** *
4199 TAGTGAGATTCAAGTTTTTAGTAAAAATAATAATGTTTGTCGTTATATGTTTTAATTATAGTGAC
65 TAATGAGATTCAAGTTTTT-GT-AAAAT-AT-ATGTTTGTAATTATATATTTTAATTATAGTGAC
* * *
4264 AAAATATATTGTCACAAA-GATT-TC-CTCAATATTGTTT-TACGCCAAAA-AATT
126 AAAATATATAGTCACAAATGATTATCTC-CAAT-TT-TTTGTA--CAAAAACAAAT
*
4315 CATATAGTGACAAATTTTGTAACTATAAGTTTTACTAATTATTACAAAAACATTGTC-CAA-AAA
1 CATATAGTGACAAATTTTGTAACTATAAGTTTTAATAATTATTACAAAAA-ATTGTCACAACAAA
* * * * * * * *
4378 TAATGATATTCACGTTTGTG-ACAAAT-TATATTTGTAGTTAAAAATTTTAACTATAGTGA
65 TAATGAGATTCAAGTTTTTGTA-AAATATATGTTTGTAATTATATATTTTAATTATAGTGA
4437 TAGCATATAT
Statistics
Matches: 243, Mismatches: 42, Indels: 34
0.76 0.13 0.11
Matches are distributed among these distances:
174 26 0.11
175 1 0.00
176 61 0.25
177 12 0.05
178 12 0.05
179 55 0.23
180 65 0.27
181 11 0.05
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (176 bp):
CATATAGTGACAAATTTTGTAACTATAAGTTTTAATAATTATTACAAAAAATTGTCACAACAAAT
AATGAGATTCAAGTTTTTGTAAAATATATGTTTGTAATTATATATTTTAATTATAGTGACAAAAT
ATATAGTCACAAATGATTATCTCCAATTTTTTGTACAAAAACAAAT
Found at i:5507 original size:15 final size:16
Alignment explanation
Indices: 5478--5508 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5468 AAAATGTTAG
5478 TATACTTTCAAATATT
1 TATACTTTCAAATATT
5494 TATACTTT-AAATATT
1 TATACTTTCAAATATT
5509 ACTCAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
TATACTTTCAAATATT
Found at i:13838 original size:13 final size:13
Alignment explanation
Indices: 13820--13846 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13810 CTCACATAAA
13820 ATTTAAATTTTAT
1 ATTTAAATTTTAT
13833 ATTTAAATTTTAT
1 ATTTAAATTTTAT
13846 A
1 A
13847 AGATTAATTA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTAAATTTTAT
Found at i:14301 original size:4 final size:4
Alignment explanation
Indices: 14294--14341 Score: 59
Period size: 4 Copynumber: 12.8 Consensus size: 4
14284 TAAACAAAAA
14294 AAAT AAAT AAAT AAAAT AAAT AAAT -AA- AAAT AAAT -AA- AAAT AAAT
1 AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
14339 AAA
1 AAA
14342 AATAAAAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
3 8 0.21
4 27 0.69
5 4 0.10
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:14326 original size:6 final size:6
Alignment explanation
Indices: 14292--14369 Score: 86
Period size: 6 Copynumber: 12.2 Consensus size: 6
14282 TTTAAACAAA
*
14292 AAAAAT AAATAA- ATAAAAT AAATAAAT AAAAAT AAATAAA AATAAAT
1 AAAAAT AAA-AAT A-AAAAT -AA-AAAT AAAAAT AAA-AAT AA-AAAT
14339 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
14370 TAATTATAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 14
0.80 0.03 0.18
Matches are distributed among these distances:
6 42 0.67
7 15 0.24
8 6 0.10
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:14326 original size:10 final size:10
Alignment explanation
Indices: 14292--14365 Score: 95
Period size: 10 Copynumber: 7.9 Consensus size: 10
14282 TTTAAACAAA
14292 AAAAATAAAT
1 AAAAATAAAT
14302 --AAATAAA-
1 AAAAATAAAT
*
14309 ATAAATAAAT
1 AAAAATAAAT
14319 AAAAATAAAT
1 AAAAATAAAT
14329 AAAAATAAAT
1 AAAAATAAAT
14339 AAAAATAAA-
1 AAAAATAAAT
*
14348 AATAA-AAAT
1 AAAAATAAAT
14357 AAAAATAAA
1 AAAAATAAA
14366 AATATAATTA
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
8 10 0.18
9 15 0.27
10 31 0.55
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:14377 original size:6 final size:6
Alignment explanation
Indices: 14368--14393 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
14358 AAAATAAAAA
14368 TATAAT TATAAT TATAAT TATAAT TA
1 TATAAT TATAAT TATAAT TATAAT TA
14394 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TATAAT
Found at i:14404 original size:12 final size:12
Alignment explanation
Indices: 14315--14404 Score: 73
Period size: 12 Copynumber: 7.9 Consensus size: 12
14305 TAAAATAAAT
14315 AAATAAAAA-T-
1 AAATAAAAATTA
14325 AAATAAAAA-T-
1 AAATAAAAATTA
*
14335 AAATAAAAATAA
1 AAATAAAAATTA
*
14347 AAATAAAAATAA
1 AAATAAAAATTA
14359 AAATAAAAA-TA
1 AAATAAAAATTA
* * *
14370 TAATTATAATTA
1 AAATAAAAATTA
* * *
14382 TAATTATAATTA
1 AAATAAAAATTA
14394 AAATAAAAATT
1 AAATAAAAATT
14405 TATTTTATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
10 19 0.28
11 7 0.10
12 43 0.62
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AAATAAAAATTA
Found at i:14404 original size:18 final size:18
Alignment explanation
Indices: 14325--14404 Score: 76
Period size: 18 Copynumber: 4.6 Consensus size: 18
14315 AAATAAAAAT
14325 AAATAAAAA-TA-AATAA
1 AAATAAAAATTATAATAA
* *
14341 AAATAAAAATAAAAATAA
1 AAATAAAAATTATAATAA
*
14359 AAATAAAAA-TATAATTA
1 AAATAAAAATTATAATAA
* * * *
14376 TAATTATAATTATAATTA
1 AAATAAAAATTATAATAA
14394 AAATAAAAATT
1 AAATAAAAATT
14405 TATTTTATAT
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
16 9 0.18
17 12 0.24
18 30 0.59
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAAAAATTATAATAA
Found at i:15058 original size:14 final size:15
Alignment explanation
Indices: 15032--15061 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
15022 TTGAAAGCAA
15032 TAATATATCTTTTTG
1 TAATATATCTTTTTG
15047 TAATAT-TCTTTTTG
1 TAATATATCTTTTTG
15061 T
1 T
15062 CAAAATAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (15 bp):
TAATATATCTTTTTG
Found at i:15279 original size:3 final size:3
Alignment explanation
Indices: 15267--15296 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
15257 GAGTTTATGC
15267 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
15297 AATAATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:15364 original size:22 final size:22
Alignment explanation
Indices: 15336--15378 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
15326 TAAATCAAAA
*
15336 TAGGGCCCAAATTCAAAACAAC
1 TAGGGCCCAAATACAAAACAAC
15358 TAGGGCCCAAATACAAAACAA
1 TAGGGCCCAAATACAAAACAA
15379 GCTTGAAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.26, G:0.14, T:0.12
Consensus pattern (22 bp):
TAGGGCCCAAATACAAAACAAC
Found at i:22766 original size:38 final size:38
Alignment explanation
Indices: 22681--22753 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
22671 TTACAACTTG
*
22681 GAATGTTGGGACATTTTGAAGGTTCACATCAGCATAAA
1 GAATGTTGGGACATTTTGAAGGCTCACATCAGCATAAA
* * *
22719 GAACGTTGGGACATTTTGAAGGCTCATATTAGCAT
1 GAATGTTGGGACATTTTGAAGGCTCACATCAGCAT
22754 GTATCATGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (38 bp):
GAATGTTGGGACATTTTGAAGGCTCACATCAGCATAAA
Found at i:23695 original size:21 final size:21
Alignment explanation
Indices: 23669--23720 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
23659 CCGCGTAGAA
*
23669 ATGTCCTGAAGAACCACATAG
1 ATGTCCCGAAGAACCACATAG
23690 ATGTCCCGAAGAACCACATAG
1 ATGTCCCGAAGAACCACATAG
*
23711 ATGTACCGAA
1 ATGTCCCGAA
23721 TGACCACTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.17
Consensus pattern (21 bp):
ATGTCCCGAAGAACCACATAG
Found at i:33224 original size:23 final size:23
Alignment explanation
Indices: 33191--33253 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
33181 CTTATATGGT
* *
33191 ACTTCGGTGCATTTCTACGCT-GC
1 ACTTCGGTGCATTTATAAG-TGGC
* *
33214 ACTTCGATGCAATTATAAGTGGC
1 ACTTCGGTGCATTTATAAGTGGC
33237 ACTTCGGTGCATTTATA
1 ACTTCGGTGCATTTATA
33254 CAACATGTGG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 1 0.03
23 32 0.97
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (23 bp):
ACTTCGGTGCATTTATAAGTGGC
Found at i:41873 original size:37 final size:37
Alignment explanation
Indices: 41800--41976 Score: 198
Period size: 37 Copynumber: 4.8 Consensus size: 37
41790 TAATAACTTC
* ** *
41800 AAAATATATATAATATATTGTTTTCGAAAAATTA-TTTA
1 AAAA-ATATATAATATATAGTTTTTTAAAAA-TAGTTTT
*
41838 AAAAATATATAATATATAGTTTTTTTAAAAATATTTTT
1 AAAAATATATAATATATAG-TTTTTTAAAAATAGTTTT
* ** *
41876 GAAAACGTATAATATATAGATTTTTAAAAATAGTTTT
1 AAAAATATATAATATATAGTTTTTTAAAAATAGTTTT
* *
41913 AATAATGTATAATATATAG-TTTTT-AAAATAGTTTT
1 AAAAATATATAATATATAGTTTTTTAAAAATAGTTTT
*
41948 TAAAATATATAATATATAGTTTTTTAAAA
1 AAAAATATATAATATATAGTTTTTTAAAA
41977 TAATTTTGAA
Statistics
Matches: 120, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
35 27 0.22
36 10 0.08
37 51 0.43
38 32 0.27
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.46
Consensus pattern (37 bp):
AAAAATATATAATATATAGTTTTTTAAAAATAGTTTT
Found at i:42070 original size:9 final size:9
Alignment explanation
Indices: 42058--42120 Score: 60
Period size: 9 Copynumber: 7.0 Consensus size: 9
42048 TTGTTATTAT
42058 TATTATTTA
1 TATTATTTA
42067 TATTATTTA
1 TATTATTTA
42076 TTATT-TTTA
1 -TATTATTTA
*
42085 T-TTAATTA
1 TATTATTTA
42093 TTATGTATTTA
1 -TAT-TATTTA
*
42104 TTTTATTTA
1 TATTATTTA
42113 T-TTATTTA
1 TATTATTTA
42121 ACCATTTCAG
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
7 2 0.04
8 11 0.24
9 21 0.46
10 7 0.15
11 5 0.11
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (9 bp):
TATTATTTA
Found at i:42076 original size:4 final size:4
Alignment explanation
Indices: 42060--42120 Score: 61
Period size: 4 Copynumber: 14.8 Consensus size: 4
42050 GTTATTATTA
* * *
42060 TTAT TTAT ATTAT TTAT TATTT TTAT TTAA TTA- TTAT GTAT TTATT TTAT
1 TTAT TTAT -TTAT TTAT T-TAT TTAT TTAT TTAT TTAT TTAT TTA-T TTAT
42110 TTAT TTAT TTA
1 TTAT TTAT TTA
42121 ACCATTTCAG
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
3 3 0.06
4 34 0.71
5 11 0.23
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:42101 original size:24 final size:24
Alignment explanation
Indices: 42052--42118 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
42042 AGTTTTTTGT
* *
42052 TATTATTATTATTT-A-TATTATT
1 TATTATTTTTATTTAATTATTATG
42074 TATTATTTTTATTTAATTATTATG
1 TATTATTTTTATTTAATTATTATG
*
42098 TATT-TATTTTATTTATTTATT
1 TATTAT-TTTTATTTAATTATT
42119 TAACCATTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
22 13 0.33
23 2 0.05
24 24 0.62
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.70
Consensus pattern (24 bp):
TATTATTTTTATTTAATTATTATG
Found at i:53277 original size:47 final size:49
Alignment explanation
Indices: 53223--53339 Score: 166
Period size: 51 Copynumber: 2.4 Consensus size: 49
53213 TGGAGAGAAC
*
53223 ACCCGAAAGGGTACTCTAAGTAGTAGT-AAAAAAGT-TTTAGGGTGAAA
1 ACCCGAAAGGGCACTCTAAGTAGTAGTAAAAAAAGTATTTAGGGTGAAA
*
53270 ACCCGAAAGGGCACTCTAAGTAGTAGTAAAAAAAATTAATTTAGGGTGAAA
1 ACCCGAAAGGGCACTCTAAGTAGTAGT-AAAAAAAGT-ATTTAGGGTGAAA
* *
53321 ACCTGAAAGGGGACTCTAA
1 ACCCGAAAGGGCACTCTAA
53340 ATTGGAAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
47 26 0.42
49 7 0.11
51 29 0.47
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (49 bp):
ACCCGAAAGGGCACTCTAAGTAGTAGTAAAAAAAGTATTTAGGGTGAAA
Found at i:53354 original size:51 final size:51
Alignment explanation
Indices: 53258--53354 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 51
53248 GTAAAAAAGT
* * *
53258 TTTAGGGTGAAAACCCGAAAGGGCACTCTAAGTAGTAGTAAAAAAAATTAA
1 TTTAGGGTGAAAACCCGAAAGGGCACTCTAAATAGGAGAAAAAAAAATTAA
* * * *
53309 TTTAGGGTGAAAACCTGAAAGGGGACTCTAAATTGGA-AAATAAAAA
1 TTTAGGGTGAAAACCCGAAAGGGCACTCTAAATAGGAGAAAAAAAAA
53355 CAAATAAAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
50 7 0.18
51 32 0.82
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.22
Consensus pattern (51 bp):
TTTAGGGTGAAAACCCGAAAGGGCACTCTAAATAGGAGAAAAAAAAATTAA
Found at i:55158 original size:35 final size:35
Alignment explanation
Indices: 54984--55247 Score: 303
Period size: 36 Copynumber: 7.3 Consensus size: 35
54974 TTAGTTTAAA
* * ** *
54984 AAAACATATAATATATAGTTCTTAAAACGGTTTTAA
1 AAAACGTATAATATATAGTTTTTAAAATAGTTTT-G
* * *
55020 AAAACATATAGTATATAGTTTTTAAAAAATATTTTTG
1 AAAACGTATAATATATAGTTTTT--AAAATAGTTTTG
* *
55057 AAAATGTATAATATATAGTTTTTTAAAAATATTTTTG
1 AAAACGTATAATATATAG-TTTTT-AAAATAGTTTTG
55094 AAAACGTATAATATATAGTTTTCTAAAAATAGTTTTG
1 AAAACGTATAATATATAGTTTT-T-AAAATAGTTTTG
*
55131 AAAGCGTATAATATATAGTTTTTAAAATAGTTTTG
1 AAAACGTATAATATATAGTTTTTAAAATAGTTTTG
* *
55166 AAAATGTATAATATATAGATTTTTAAAATAATTTTG
1 AAAACGTATAATATATAG-TTTTTAAAATAGTTTTG
* *
55202 AAAACTTAAAATATATAGTTTTTTAAAATAGTTTTG
1 AAAACGTATAATATATAG-TTTTTAAAATAGTTTTG
*
55238 AAAACATATA
1 AAAACGTATA
55248 TAATATAATG
Statistics
Matches: 201, Mismatches: 22, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
35 28 0.14
36 81 0.40
37 79 0.39
38 13 0.06
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.42
Consensus pattern (35 bp):
AAAACGTATAATATATAGTTTTTAAAATAGTTTTG
Found at i:55242 original size:36 final size:36
Alignment explanation
Indices: 54984--55254 Score: 289
Period size: 37 Copynumber: 7.4 Consensus size: 36
54974 TTAGTTTAAA
* * ** *
54984 AAAACATATAATATATAG-TTCTTAAAACGGTTTTAA
1 AAAACTTATAATATATAGTTTTTTAAAATAGTTTT-G
* * * *
55020 AAAACATATAGTATATAGTTTTTAAAAAATATTTTTG
1 AAAACTTATAATATATAGTTTTT-TAAAATAGTTTTG
*
55057 AAAA-TGTATAATATATAGTTTTTTAAAAATATTTTTG
1 AAAACT-TATAATATATAGTTTTTT-AAAATAGTTTTG
* *
55094 AAAACGTATAATATATAGTTTTCTAAAAATAGTTTTG
1 AAAACTTATAATATATAGTTTT-TTAAAATAGTTTTG
* *
55131 AAAGCGTATAATATATAG-TTTTTAAAATAGTTTTG
1 AAAACTTATAATATATAGTTTTTTAAAATAGTTTTG
* *
55166 AAAA-TGTATAATATATAGATTTTTAAAATAATTTTG
1 AAAACT-TATAATATATAGTTTTTTAAAATAGTTTTG
*
55202 AAAACTTAAAATATATAGTTTTTTAAAATAGTTTTG
1 AAAACTTATAATATATAGTTTTTTAAAATAGTTTTG
55238 AAAACATATATAATATA
1 AAAAC-T-TATAATATA
55255 ATGATTTTGA
Statistics
Matches: 202, Mismatches: 22, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
35 28 0.14
36 72 0.36
37 85 0.42
38 17 0.08
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (36 bp):
AAAACTTATAATATATAGTTTTTTAAAATAGTTTTG
Found at i:55355 original size:4 final size:4
Alignment explanation
Indices: 55335--55386 Score: 54
Period size: 4 Copynumber: 13.0 Consensus size: 4
55325 ATTATTATTG
* *
55335 TTTA TATTA TTTA -TTA TTTA TTTA ATTA -TTA TGTA TTTA TTTTA TTTA
1 TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA
55383 TTTA
1 TTTA
55387 ACCATTTTAG
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
3 6 0.15
4 27 0.66
5 8 0.20
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:55362 original size:19 final size:19
Alignment explanation
Indices: 55326--55386 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
55316 ATATTTTTTA
*
55326 TTATTA-TTGTTTATATTAT
1 TTATTATTTATTTA-ATTAT
55345 TTATTATTTATTTAATTA-
1 TTATTATTTATTTAATTAT
*
55363 TTATGTATTTATTTTATTTAT
1 TTAT-TATTTA-TTTAATTAT
55384 TTA
1 TTA
55387 ACCATTTTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
18 4 0.11
19 16 0.44
20 13 0.36
21 3 0.08
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTATTATTTATTTAATTAT
Found at i:57497 original size:24 final size:25
Alignment explanation
Indices: 57456--57513 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
57446 TTTTATACAT
* *
57456 AAAATATATATAATATATAGTTTTTA
1 AAAACATATATAATATATA-ATTTTA
*
57482 AAAAGATATAT-A-ATATAATTTTA
1 AAAACATATATAATATATAATTTTA
57505 AAAACATAT
1 AAAACATAT
57514 TATTTTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 13 0.45
24 5 0.17
25 1 0.03
26 10 0.34
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (25 bp):
AAAACATATATAATATATAATTTTA
Found at i:57522 original size:24 final size:23
Alignment explanation
Indices: 57456--57513 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 23
57446 TTTTATACAT
*
57456 AAAATATATATAATATATAGTTTTTA
1 AAAACATATATAATATA-A--TTTTA
*
57482 AAAAGATATATAATATAATTTTA
1 AAAACATATATAATATAATTTTA
57505 AAAACATAT
1 AAAACATAT
57514 TATTTTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 13 0.43
25 1 0.03
26 16 0.53
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (23 bp):
AAAACATATATAATATAATTTTA
Found at i:57564 original size:13 final size:14
Alignment explanation
Indices: 57539--57567 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
57529 ATATGTAGTA
57539 TTATTTATATTATT
1 TTATTTATATTATT
57553 TTATTT-TATTATT
1 TTATTTATATTATT
57566 TT
1 TT
57568 TTAATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTATTTATATTATT
Found at i:59420 original size:20 final size:21
Alignment explanation
Indices: 59389--59427 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
59379 CTAAGTTCAA
*
59389 ATTTTAATTTATTTTTGATCC
1 ATTTTAATTTATCTTTGATCC
59410 ATTTT-ATTTATCTTTGAT
1 ATTTTAATTTATCTTTGAT
59428 TATTTTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.08, G:0.05, T:0.64
Consensus pattern (21 bp):
ATTTTAATTTATCTTTGATCC
Found at i:65934 original size:44 final size:44
Alignment explanation
Indices: 65833--65986 Score: 263
Period size: 44 Copynumber: 3.5 Consensus size: 44
65823 CATTTATCAT
65833 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTCC
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCA-TTATTCC
* *
65878 ATAATCTCGTAAGCTTATTTTACCAAAATACTTACCATTATTCC
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCC
*
65922 ATAAGCTCGTAAGCTTATTTTACCAATATACTTGCCATTATTCC
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCC
*
65966 ATAAGCTCGTAAACTTATTTT
1 ATAAGCTCGTAAGCTTATTTT
65987 GCATGGTTAC
Statistics
Matches: 103, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
44 68 0.66
45 35 0.34
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (44 bp):
ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCC
Found at i:66176 original size:40 final size:40
Alignment explanation
Indices: 66118--66279 Score: 279
Period size: 40 Copynumber: 4.0 Consensus size: 40
66108 ACCGTAGTGC
*
66118 TACACATAAGGTCATGCCCACCATATACATCGAAGTGTAT
1 TACACATAAGGTCATGCCCACCATATACACCGAAGTGTAT
* *
66158 TACACATAAGGTCGTGCCCACCATATACACCGAAGTATAT
1 TACACATAAGGTCATGCCCACCATATACACCGAAGTGTAT
**
66198 TACACATAAGGTTGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCATGCCCACCATATACACCGAAGTGTAT
66238 TACACATAAGGTCATGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCATGCCCACCATATACACCGAAGTGTAT
66278 TA
1 TA
66280 TAAACCTGCA
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCATGCCCACCATATACACCGAAGTGTAT
Found at i:67264 original size:31 final size:30
Alignment explanation
Indices: 67224--67299 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
67214 ATACAACCAG
* *
67224 CCCCAACTTTTTCCAAAATTATGAATTGGT
1 CCCCAACTTTTTCCAAAATTATAAAATGGT
*
67254 CCCCTAAC-TTTTCAAAAATTATAAAATGGT
1 CCCC-AACTTTTTCCAAAATTATAAAATGGT
* *
67284 CCTCAAATTTTTCCAA
1 CCCCAACTTTTTCCAA
67300 GGCCTGTAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
29 2 0.05
30 33 0.87
31 3 0.08
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.36
Consensus pattern (30 bp):
CCCCAACTTTTTCCAAAATTATAAAATGGT
Found at i:68285 original size:30 final size:30
Alignment explanation
Indices: 68249--68307 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
68239 TTTAGTCCCT
* *
68249 AAACTTT-TCAAAGTTTATACTTTGGTCACC
1 AAACTTTACCAAA-TTTATAATTTGGTCACC
68279 AAACTTTACCAAATTTATAATTTGGTCAC
1 AAACTTTACCAAATTTATAATTTGGTCAC
68308 TAAATAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTACCAAATTTATAATTTGGTCACC
Found at i:70282 original size:6 final size:6
Alignment explanation
Indices: 70265--70416 Score: 109
Period size: 6 Copynumber: 24.8 Consensus size: 6
70255 AAATGAAATA
*
70265 TTTTTC TCTTTC TTTTTC -TTTTC ATGTTTT- TTTCTTC TTTTTC -TTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC -T-TTTTC TTT-TTC TTTTTC TTTTTC
* *
70313 ATGTTTTT TTTCTTC TTTTTC TTTTTC TTTTTC TTCTTC TTATTTC TTTTTC
1 -T-TTTTC TTT-TTC TTTTTC TTTTTC TTTTTC TTTTTC TT-TTTC TTTTTC
* * * * *
70365 -TTTTC TTCTTAC TTTTT- GTTTTC TTTTT- GTTTTC TATTTA TTTTTC
1 TTTTTC TT-TTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
70411 GTTTTT
1 -TTTTT
70417 AGCTCATATG
Statistics
Matches: 115, Mismatches: 16, Indels: 29
0.72 0.10 0.18
Matches are distributed among these distances:
5 25 0.22
6 58 0.50
7 24 0.21
8 8 0.07
ACGTcount: A:0.04, C:0.16, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:70294 original size:25 final size:25
Alignment explanation
Indices: 70266--70392 Score: 115
Period size: 25 Copynumber: 5.2 Consensus size: 25
70256 AATGAAATAT
70266 TTTTCTCT-TTCTTTTTCTTTTCATG
1 TTTTCTCTCTTCTTTTTCTTTTC-TG
*
70291 TTTT-TTTCTTCTTTTTCTTTTCATG
1 TTTTCTCTCTTCTTTTTCTTTTC-TG
* *
70316 TTTTTTTTCTTCTTTTTCTTTTTCT-
1 TTTTCTCTCTTCTTTTTC-TTTTCTG
*
70341 TTTTCT-TCTTCTTATTTCTTTT-TC
1 TTTTCTCTCTTCTT-TTTCTTTTCTG
*
70365 TTTTCT-TCTTACTTTTTGTTTTCT-
1 TTTTCTCTCTT-CTTTTTCTTTTCTG
70389 TTTT
1 TTTT
70393 GTTTTCTATT
Statistics
Matches: 92, Mismatches: 3, Indels: 15
0.84 0.03 0.14
Matches are distributed among these distances:
23 1 0.01
24 34 0.37
25 38 0.41
26 14 0.15
27 5 0.05
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTCTCTCTTCTTTTTCTTTTCTG
Found at i:70294 original size:26 final size:27
Alignment explanation
Indices: 70265--70362 Score: 120
Period size: 25 Copynumber: 3.9 Consensus size: 27
70255 AAATGAAATA
70265 TTTTTCTCT-TTCTTTTTCTTTTCATG
1 TTTTTCTCTCTTCTTTTTCTTTTCATG
70291 TTTTT-T-TCTTCTTTTTCTTTTCATG
1 TTTTTCTCTCTTCTTTTTCTTTTCATG
* *
70316 TTTTT-TTTCTTCTTTTTCTTTT--TC
1 TTTTTCTCTCTTCTTTTTCTTTTCATG
70340 TTTTTCT-TCTTCTTATTTCTTTT
1 TTTTTCTCTCTTCTT-TTTCTTTT
70363 TCTTTTCTTC
Statistics
Matches: 67, Mismatches: 1, Indels: 9
0.87 0.01 0.12
Matches are distributed among these distances:
24 14 0.21
25 33 0.49
26 20 0.30
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (27 bp):
TTTTTCTCTCTTCTTTTTCTTTTCATG
Found at i:70397 original size:29 final size:29
Alignment explanation
Indices: 70263--70415 Score: 105
Period size: 29 Copynumber: 5.4 Consensus size: 29
70253 ACAAATGAAA
70263 TATTTTTC-TCTTTCTTTTTCTTTTC-ATGT
1 TATTTTTCGT-TTTCTTTTTCTTTTCTAT-T
70292 T-TTTTTC---TTCTTTTTCTTTTC-ATGT
1 TATTTTTCGTTTTCTTTTTCTTTTCTAT-T
* *
70317 T-TTTTT--TCTTCTTTTTCTTTTTCTTTT
1 TATTTTTCGTTTTCTTTTTC-TTTTCTATT
* * *
70344 TCTTCTTCTTATTTCTTTTTCTTTTCT-TCT
1 TATTTTTCGT-TTTCTTTTTCTTTTCTAT-T
*
70374 TACTTTTT-GTTTTCTTTTTGTTTTCTATT
1 TA-TTTTTCGTTTTCTTTTTCTTTTCTATT
70403 TATTTTTCGTTTT
1 TATTTTTCGTTTT
70416 TAGCTCATAT
Statistics
Matches: 105, Mismatches: 7, Indels: 24
0.77 0.05 0.18
Matches are distributed among these distances:
25 24 0.23
26 9 0.09
27 7 0.07
28 16 0.15
29 25 0.24
30 11 0.10
31 13 0.12
ACGTcount: A:0.05, C:0.16, G:0.03, T:0.76
Consensus pattern (29 bp):
TATTTTTCGTTTTCTTTTTCTTTTCTATT
Found at i:73159 original size:44 final size:44
Alignment explanation
Indices: 73111--73262 Score: 236
Period size: 44 Copynumber: 3.5 Consensus size: 44
73101 CATTTATCCT
* *
73111 ATAAGCTCGTAAGCTCT-TTTTTCC-ATATTCTTACCATTTATTCC
1 ATAAGCTCGTAAGCT-TATTTTACCAATATACTTACCA-TTATTCC
*
73155 ATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTATTCC
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCC
*
73199 ATAAGCTCGTAAGCTTATTTTACCAATATACTTGCCATTATTCC
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCC
73243 ATAAGCTCGTAAGCTTATTT
1 ATAAGCTCGTAAGCTTATTT
73263 GCATGGTTAC
Statistics
Matches: 101, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
43 1 0.01
44 90 0.89
45 10 0.10
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (44 bp):
ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCC
Found at i:73318 original size:13 final size:14
Alignment explanation
Indices: 73284--73329 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
73274 ATTTATTAAC
73284 CAATAAACCATA-A
1 CAATAAACCATAGA
73297 CAATAAACCATAGA
1 CAATAAACCATAGA
*
73311 CCAT-AACCAATAGA
1 CAATAAACC-ATAGA
73325 CAATA
1 CAATA
73330 TTCTGTAGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.57, C:0.24, G:0.04, T:0.15
Consensus pattern (14 bp):
CAATAAACCATAGA
Found at i:73513 original size:40 final size:40
Alignment explanation
Indices: 73394--73515 Score: 190
Period size: 40 Copynumber: 3.0 Consensus size: 40
73384 ACCGTAGTGC
* *
73394 TACACATAAGGTCGTGCCCACCATATACACTGAAGTGTAC
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
73434 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* * * *
73474 TACACATAAGGTCGTACCCACTATATACACCAAACTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
73514 TA
1 TA
73516 TAAACATGTA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:79585 original size:44 final size:44
Alignment explanation
Indices: 79484--79636 Score: 261
Period size: 44 Copynumber: 3.5 Consensus size: 44
79474 CATTTATCAT
79484 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTCC
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCA-TTATTCC
* *
79529 ATAATCTCGTAAGCTTATTTTACCAAAATACTTACCATTATTCC
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCC
*
79573 ATAAGCTCGTAAGCTTATTTTACCAATATACTTGCCATTATTCC
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCC
*
79617 ATAAGCTCGTAAACTTATTT
1 ATAAGCTCGTAAGCTTATTT
79637 GCATGGTTAC
Statistics
Matches: 102, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
44 67 0.66
45 35 0.34
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (44 bp):
ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCC
Found at i:79826 original size:40 final size:40
Alignment explanation
Indices: 79768--79929 Score: 279
Period size: 40 Copynumber: 4.0 Consensus size: 40
79758 ACCGTAGTGC
*
79768 TACACATAAGGTCATGCCCACCATATACATCGAAGTGTAT
1 TACACATAAGGTCATGCCCACCATATACACCGAAGTGTAT
* *
79808 TACACATAAGGTCGTGCCCACCATATACACCGAAGTATAT
1 TACACATAAGGTCATGCCCACCATATACACCGAAGTGTAT
**
79848 TACACATAAGGTTGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCATGCCCACCATATACACCGAAGTGTAT
79888 TACACATAAGGTCATGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCATGCCCACCATATACACCGAAGTGTAT
79928 TA
1 TA
79930 TAAACCTGCA
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCATGCCCACCATATACACCGAAGTGTAT
Found at i:81939 original size:30 final size:30
Alignment explanation
Indices: 81903--81961 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
81893 TTTAGTCCCT
* *
81903 AAACTTT-TCAAAGTTTATACTTTGGTCACC
1 AAACTTTACCAAA-TTTATAATTTGGTCACC
81933 AAACTTTACCAAATTTATAATTTGGTCAC
1 AAACTTTACCAAATTTATAATTTGGTCAC
81962 TAAATAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTACCAAATTTATAATTTGGTCACC
Found at i:83939 original size:6 final size:6
Alignment explanation
Indices: 83922--84068 Score: 97
Period size: 6 Copynumber: 23.8 Consensus size: 6
83912 AATGAAATAT
* *
83922 TTTTTC TCTTTC TTTTTC TTTTT- TATGTTTT TTTCTTC TTTTTC -TTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC T-T-TTTC TTT-TTC TTTTTC TTTTTC
* *
83971 ATGTTTTT TTTCTTC TTTTTC TTTTTC TTCTTC TTATTTC TTTTTC -TTTTC
1 -T-TTTTC TTT-TTC TTTTTC TTTTTC TTTTTC TT-TTTC TTTTTC TTTTTC
* * * * *
84022 TTCTTAC TTTTT- GTTTTC TTTTT- GTTTTC TATTTA TTTTTC GTTTTT
1 TT-TTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTTT
84069 AGCTCATATG
Statistics
Matches: 110, Mismatches: 17, Indels: 27
0.71 0.11 0.18
Matches are distributed among these distances:
5 19 0.17
6 56 0.51
7 30 0.27
8 5 0.05
ACGTcount: A:0.04, C:0.15, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:83943 original size:18 final size:17
Alignment explanation
Indices: 83922--84068 Score: 113
Period size: 19 Copynumber: 8.3 Consensus size: 17
83912 AATGAAATAT
83922 TTTTTCTCTTTCTTTTTC
1 TTTTTCT-TTTCTTTTTC
* *
83940 TTTTTTATGTTTTTTTCTTC
1 -TTTTTCT-TTTCTTT-TTC
*
83960 TTTTTCTTTTCATGTTT-
1 TTTTTCTTTTC-TTTTTC
83977 TTTTTC--TTCTTTTTC
1 TTTTTCTTTTCTTTTTC
83992 TTTTTCTTCTTCTTATTTC
1 TTTTTCTT-TTCTT-TTTC
*
84011 TTTTTCTTTTCTTCTTAC
1 TTTTTCTTTTCTT-TTTC
*
84029 TTTTTGTTTTCTTTTT-
1 TTTTTCTTTTCTTTTTC
* *
84045 GTTTTCTATTTATTTTTC
1 TTTTTCT-TTTCTTTTTC
84063 GTTTTT
1 -TTTTT
84069 AGCTCATATG
Statistics
Matches: 103, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
14 4 0.04
15 9 0.09
16 5 0.05
17 16 0.16
18 30 0.29
19 36 0.35
20 3 0.03
ACGTcount: A:0.04, C:0.15, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTTCTTTTCTTTTTC
Found at i:83952 original size:26 final size:26
Alignment explanation
Indices: 83921--84020 Score: 114
Period size: 26 Copynumber: 3.8 Consensus size: 26
83911 AAATGAAATA
*
83921 TTTTTTCTCTTTCTTTTTCTTTTTTATG
1 TTTTTT-TC-TTCTTTTTCTTTTTCATG
83949 TTTTTTTCTTCTTTTTC-TTTTCATG
1 TTTTTTTCTTCTTTTTCTTTTTCATG
* *
83974 TTTTTTTTCTTCTTTTTCTTTTTCTTC
1 -TTTTTTTCTTCTTTTTCTTTTTCATG
* *
84001 TTCTTAT-TTCTTTTTCTTTT
1 TTTTTTTCTTCTTTTTCTTTT
84021 CTTCTTACTT
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
25 20 0.31
26 31 0.48
27 8 0.12
28 6 0.09
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.79
Consensus pattern (26 bp):
TTTTTTTCTTCTTTTTCTTTTTCATG
Found at i:84022 original size:24 final size:24
Alignment explanation
Indices: 83983--84043 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
83973 GTTTTTTTTC
*
83983 TTCTTTTTCTTTTTCTTCTTCTTAT
1 TTCTTTTTC-TTTTCTTCTACTTAT
84008 TTCTTTTTCTTTTCTTCTTACTT-T
1 TTCTTTTTCTTTTCTTC-TACTTAT
*
84032 TT-GTTTTCTTTT
1 TTCTTTTTCTTTT
84044 TGTTTTCTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 9 0.27
24 11 0.33
25 13 0.39
ACGTcount: A:0.03, C:0.18, G:0.02, T:0.77
Consensus pattern (24 bp):
TTCTTTTTCTTTTCTTCTACTTAT
Found at i:84042 original size:29 final size:26
Alignment explanation
Indices: 83921--84051 Score: 106
Period size: 26 Copynumber: 4.9 Consensus size: 26
83911 AAATGAAATA
* *
83921 TTTTTTCTCTTTCTTTTTCTTTT-TTA
1 TTTTTT-TTTTTCTTTTTCTTTTCTTC
* * *
83947 TGTTTTTTTCTTCTTTTTCTTTTCATG
1 T-TTTTTTTTTTCTTTTTCTTTTCTTC
*
83974 TTTTTTTTCTTCTTTTTC-TTT-TTC
1 TTTTTTTTTTTCTTTTTCTTTTCTTC
* *
83998 TTCTTCTTATTTCTTTTTCTTTTCTTC
1 TT-TTTTTTTTTCTTTTTCTTTTCTTC
*
84025 TTACTTTTTGTTTTCTTTTTGTTTTCT
1 TT--TTTTT-TTTTCTTTTTCTTTTCT
84052 ATTTATTTTT
Statistics
Matches: 86, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
24 3 0.03
25 16 0.19
26 35 0.41
27 12 0.14
28 5 0.06
29 15 0.17
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (26 bp):
TTTTTTTTTTTCTTTTTCTTTTCTTC
Found at i:84045 original size:11 final size:10
Alignment explanation
Indices: 83921--84068 Score: 84
Period size: 11 Copynumber: 13.5 Consensus size: 10
83911 AAATGAAATA
*
83921 TTTTTTCTCT
1 TTTTTTTTCT
*
83931 TTCTTTTTCT
1 TTTTTTTTCT
*
83941 TTTTTATGT-T
1 TTTTT-TTTCT
*
83951 TTTTTCTTCT
1 TTTTTTTTCT
83961 TTTTCTTTTCAT
1 TTTT-TTTTC-T
83973 GTTTTTTTTC-
1 -TTTTTTTTCT
*
83983 TTCTTTTTCT
1 TTTTTTTTCT
83993 TTTTCTTCTTCTT
1 TTTT-TT-TTC-T
84006 ATTTCTTTTTCT
1 -TTT-TTTTTCT
*
84018 TTTCTTCTTACT
1 TTT-TT-TTTCT
84030 TTTTGTTTTCT
1 TTTT-TTTTCT
84041 TTTTGTTTTCT
1 TTTT-TTTTCT
*
84052 ATTTATTTTTCG
1 -TTT-TTTTTCT
84064 TTTTT
1 TTTTT
84069 AGCTCATATG
Statistics
Matches: 111, Mismatches: 12, Indels: 30
0.73 0.08 0.20
Matches are distributed among these distances:
9 9 0.08
10 28 0.25
11 33 0.30
12 26 0.23
13 9 0.08
14 5 0.05
15 1 0.01
ACGTcount: A:0.04, C:0.15, G:0.03, T:0.78
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:84061 original size:29 final size:29
Alignment explanation
Indices: 84007--84067 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
83997 CTTCTTCTTA
*
84007 TTTCTTTTTCTTTTCTTCTTACTTTTTGT
1 TTTCTTTTTCTTTTCTTCTTACTTTTCGT
* *
84036 TTTCTTTTTGTTTTCTAT-TTATTTTTCGT
1 TTTCTTTTTCTTTTCT-TCTTACTTTTCGT
84065 TTT
1 TTT
84068 TAGCTCATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.77
Consensus pattern (29 bp):
TTTCTTTTTCTTTTCTTCTTACTTTTCGT
Found at i:86813 original size:44 final size:44
Alignment explanation
Indices: 86765--86916 Score: 236
Period size: 44 Copynumber: 3.5 Consensus size: 44
86755 CATTTATCCT
* *
86765 ATAAGCTCGTAAGCTCT-TTTTTCC-ATATTCTTACCATTTATTCC
1 ATAAGCTCGTAAGCT-TATTTTACCAATATACTTACCA-TTATTCC
*
86809 ATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCATTATTCC
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCC
*
86853 ATAAGCTCGTAAGCTTATTTTACCAATATACTTGCCATTATTCC
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCC
86897 ATAAGCTCGTAAGCTTATTT
1 ATAAGCTCGTAAGCTTATTT
86917 GCATGGTTAC
Statistics
Matches: 101, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
43 1 0.01
44 90 0.89
45 10 0.10
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (44 bp):
ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCC
Found at i:86972 original size:13 final size:14
Alignment explanation
Indices: 86938--86983 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
86928 ATTTATTAAC
86938 CAATAAACCATA-A
1 CAATAAACCATAGA
86951 CAATAAACCATAGA
1 CAATAAACCATAGA
*
86965 CCAT-AACCAATAGA
1 CAATAAACC-ATAGA
86979 CAATA
1 CAATA
86984 TTCTGTAGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.57, C:0.24, G:0.04, T:0.15
Consensus pattern (14 bp):
CAATAAACCATAGA
Found at i:87167 original size:40 final size:40
Alignment explanation
Indices: 87048--87169 Score: 190
Period size: 40 Copynumber: 3.0 Consensus size: 40
87038 ACCGTAGTGC
* *
87048 TACACATAAGGTCGTGCCCACCATATACACTGAAGTGTAC
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
87088 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* * * *
87128 TACACATAAGGTCGTACCCACTATATACACCAAACTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
87168 TA
1 TA
87170 TAAACATGTA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:88187 original size:30 final size:30
Alignment explanation
Indices: 88116--88187 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
88106 TACAACCAGT
* * *
88116 CTCAACTTTTTCTAAAATTACAAATTGGTC
1 CTCAAATTTTTCAAAAATTACAAAATGGTC
* * * *
88146 CCCTAACTTTTCAAAAATTATAAAATGGTC
1 CTCAAATTTTTCAAAAATTACAAAATGGTC
88176 CTCAAATTTTTC
1 CTCAAATTTTTC
88188 CAAGGCATGT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.39
Consensus pattern (30 bp):
CTCAAATTTTTCAAAAATTACAAAATGGTC
Found at i:91182 original size:12 final size:12
Alignment explanation
Indices: 91165--91285 Score: 69
Period size: 11 Copynumber: 10.4 Consensus size: 12
91155 ATGAAATACT
91165 TTTTTCTCTTTC
1 TTTTTCTCTTTC
91177 TTTTTCT-TTTC
1 TTTTTCTCTTTC
* *
91188 TTTTTAT-GTT-
1 TTTTTCTCTTTC
91198 TTTTTCT-TATT-
1 TTTTTCTCT-TTC
* *
91209 TTTTTTTC-TTA
1 TTTTTCTCTTTC
*
91220 TTTTTCTTTTTC
1 TTTTTCTCTTTC
91232 TTTTTCTTCTTTC
1 TTTTTC-TCTTTC
*
91245 TATTTTTTC-TTC
1 T-TTTTCTCTTTC
* *
91257 -TTTTCTTTTTA
1 TTTTTCTCTTTC
*
91268 TTTTTCTTCTTAC
1 TTTTTC-TCTTTC
91281 TTTTT
1 TTTTT
91286 ATTTTTCTTC
Statistics
Matches: 84, Mismatches: 16, Indels: 17
0.72 0.14 0.15
Matches are distributed among these distances:
10 13 0.15
11 28 0.33
12 23 0.27
13 16 0.19
14 4 0.05
ACGTcount: A:0.05, C:0.15, G:0.01, T:0.79
Consensus pattern (12 bp):
TTTTTCTCTTTC
Found at i:91185 original size:19 final size:18
Alignment explanation
Indices: 91164--91309 Score: 88
Period size: 19 Copynumber: 8.2 Consensus size: 18
91154 AATGAAATAC
91164 TTTTTTCTCTTTC-TTTT
1 TTTTTTCTCTTTCTTTTT
* * *
91181 TCTTTTCT-TTT-TATGT
1 TTTTTTCTCTTTCTTTTT
*
91197 TTTTTTCT-TAT-TTTTT
1 TTTTTTCTCTTTCTTTTT
* * *
91213 TTTCTTATTTTTCTTTTT
1 TTTTTTCTCTTTCTTTTT
* *
91231 CTTTTTCTTCTTTCTATTT
1 TTTTTTC-TCTTTCTTTTT
*
91250 TTTCTTCT-TTTCTTTTT
1 TTTTTTCTCTTTCTTTTT
* *
91267 ATTTTTCTTCTTACTTTTT
1 TTTTTTC-TCTTTCTTTTT
* *
91286 ATTTTTCTTCTTACTTTTT
1 TTTTTTC-TCTTTCTTTTT
91305 GTTTT
1 -TTTT
91310 CTTTTTTTAG
Statistics
Matches: 100, Mismatches: 22, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
16 23 0.23
17 22 0.22
18 11 0.11
19 41 0.41
20 3 0.03
ACGTcount: A:0.05, C:0.14, G:0.01, T:0.79
Consensus pattern (18 bp):
TTTTTTCTCTTTCTTTTT
Found at i:91199 original size:13 final size:13
Alignment explanation
Indices: 91183--91285 Score: 80
Period size: 13 Copynumber: 8.3 Consensus size: 13
91173 TTTCTTTTTC
91183 TTTTCTTT-TTAT
1 TTTTCTTTCTTAT
91195 GTTTT-TTTCTTAT
1 -TTTTCTTTCTTAT
*
91208 TTTTTTTTCTTAT
1 TTTTCTTTCTTAT
*
91221 TTTTCTTT-TTCT
1 TTTTCTTTCTTAT
91233 TTTTC-TTCTT-T
1 TTTTCTTTCTTAT
*
91244 CTATTT-TTTCTT-C
1 -T-TTTCTTTCTTAT
91257 TTTTCTTT-TTAT
1 TTTTCTTTCTTAT
91269 TTTTC-TTCTTACT
1 TTTTCTTTCTTA-T
91282 TTTT
1 TTTT
91286 ATTTTTCTTC
Statistics
Matches: 76, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
11 10 0.13
12 30 0.39
13 36 0.47
ACGTcount: A:0.06, C:0.14, G:0.01, T:0.80
Consensus pattern (13 bp):
TTTTCTTTCTTAT
Found at i:91225 original size:55 final size:59
Alignment explanation
Indices: 91165--91303 Score: 160
Period size: 55 Copynumber: 2.4 Consensus size: 59
91155 ATGAAATACT
* * *
91165 TTTTTCTCTTTCTTTTTCTTTTCT-TTTTATGTTTTTTTCTTATT-TTTTT-TTCTTA-
1 TTTTTCTTTTTCTTTTTCTTTTCTATTTTATCTTCTTTTCTTATTATTTTTCTTCTTAC
* *
91220 TTTTTCTTTTTCTTTTTCTTCTTTCTATTTTTTCTTCTTTTCTTTTTATTTTTCTTCTTAC
1 TTTTTCTTTTTCTTTTTC-T-TTTCTATTTTATCTTCTTTTCTTATTATTTTTCTTCTTAC
* *
91281 TTTTTATTTTTCTTCTTACTTTT
1 TTTTTCTTTTTCTT-TTTCTTTT
91304 TGTTTTCTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
55 17 0.24
56 1 0.01
57 5 0.07
58 16 0.23
59 5 0.07
60 9 0.13
61 14 0.20
62 3 0.04
ACGTcount: A:0.06, C:0.15, G:0.01, T:0.78
Consensus pattern (59 bp):
TTTTTCTTTTTCTTTTTCTTTTCTATTTTATCTTCTTTTCTTATTATTTTTCTTCTTAC
Found at i:91230 original size:28 final size:27
Alignment explanation
Indices: 91165--91317 Score: 74
Period size: 27 Copynumber: 5.7 Consensus size: 27
91155 ATGAAATACT
*
91165 TTTTTCTCTTTCTT-TTTCTTTTCTTTTTA
1 TTTTT-TCTTTCTTATTT-TTTT-TTCTTA
*
91194 TGTTTT-TTTCTTATTTTTTTTTCTTA
1 TTTTTTCTTTCTTATTTTTTTTTCTTA
* *
91220 TTTTTCTTTTTCTT-TTTCTTCTTTC-TA
1 TTTTT-TCTTTCTTATTT-TTTTTTCTTA
* *
91247 TTTTTTC-TTCTT-TTCTTTTTATTTTTC
1 TTTTTTCTTTCTTATT-TTTTT-TTCTTA
* * *
91274 TTCTTACTTT-TTA-TTTTTCTTCTTA
1 TTTTTTCTTTCTTATTTTTTTTTCTTA
91299 CTTTTTGT-TTTCTT-TTTTT
1 -TTTTT-TCTTTCTTATTTTT
91318 AGCTCATATG
Statistics
Matches: 96, Mismatches: 15, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
25 14 0.15
26 24 0.25
27 36 0.38
28 18 0.19
29 4 0.04
ACGTcount: A:0.05, C:0.14, G:0.01, T:0.79
Consensus pattern (27 bp):
TTTTTTCTTTCTTATTTTTTTTTCTTA
Found at i:91237 original size:21 final size:21
Alignment explanation
Indices: 91174--91275 Score: 93
Period size: 21 Copynumber: 4.8 Consensus size: 21
91164 TTTTTTCTCT
*
91174 TTCTTTTTC-TTTTCTTTTTA
1 TTCTTTTTCTTTTTCTTTTTC
* *
91194 TGTTTTTTTCTTATTTTTTTTTC
1 T-TCTTTTTCTT-TTTCTTTTTC
*
91217 TTATTTTTCTTTTTCTTTTTC
1 TTCTTTTTCTTTTTCTTTTTC
*
91238 TTCTTTCTAT-TTTTTCTTCTT-
1 TTCTTT-T-TCTTTTTCTTTTTC
*
91259 TTCTTTTTATTTTTCTT
1 TTCTTTTTCTTTTTCTT
91276 CTTACTTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
19 1 0.01
20 10 0.14
21 27 0.39
22 21 0.30
23 10 0.14
ACGTcount: A:0.05, C:0.14, G:0.01, T:0.80
Consensus pattern (21 bp):
TTCTTTTTCTTTTTCTTTTTC
Found at i:91251 original size:37 final size:36
Alignment explanation
Indices: 91180--91309 Score: 131
Period size: 36 Copynumber: 3.5 Consensus size: 36
91170 CTCTTTCTTT
* *
91180 TTCTTTTCTTTTTATGTTTTTTTCTTATTTTTTTTTC
1 TTCTTTTCTTTTTAT-TTTTCTTCTTATTATTTTTTC
* *
91217 TTATTTTTCTTTTTCTTTTTCTTCTT-TCTATTTTTTC
1 TT-CTTTTCTTTTTATTTTTCTTCTTAT-TATTTTTTC
91254 TTCTTTTCTTTTTATTTTTCTTCTTACTT-TTTATTT-
1 TTCTTTTCTTTTTATTTTTCTTCTTA-TTATTT-TTTC
*
91290 TTCTTCTTACTTTTTGTTTT
1 TTCTT-TT-CTTTTTATTTT
91310 CTTTTTTTAG
Statistics
Matches: 79, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
36 30 0.38
37 27 0.34
38 22 0.28
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.78
Consensus pattern (36 bp):
TTCTTTTCTTTTTATTTTTCTTCTTATTATTTTTTC
Found at i:91315 original size:12 final size:12
Alignment explanation
Indices: 91163--91316 Score: 79
Period size: 12 Copynumber: 12.6 Consensus size: 12
91153 AAATGAAATA
91163 CTTTTTTCTCTTT
1 CTTTTTTCT-TTT
91176 C-TTTTTCTTTT
1 CTTTTTTCTTTT
*
91187 CTTTTTATGTTTT
1 CTTTTT-TCTTTT
* *
91200 -TTTCTTATTTT
1 CTTTTTTCTTTT
* *
91211 TTTTTCTTATTTT
1 CTTTT-TTCTTTT
91224 -TCTTTTTCTTTTT
1 CT-TTTTTC-TTTT
*
91237 CTTCTTTCTATTT
1 CTTTTTTCT-TTT
*
91250 -TTTCTTCTTTT
1 CTTTTTTCTTTT
91261 CTTTTTAT-TTTT
1 CTTTTT-TCTTTT
* *
91273 CTTCTTACTTTT
1 CTTTTTTCTTTT
91285 -TATTTTTCTTCTT
1 CT-TTTTTCTT-TT
*
91298 AC-TTTTTGTTTT
1 -CTTTTTTCTTTT
91310 CTTTTTT
1 CTTTTTT
91317 TAGCTCATAT
Statistics
Matches: 111, Mismatches: 14, Indels: 33
0.70 0.09 0.21
Matches are distributed among these distances:
11 14 0.13
12 58 0.52
13 38 0.34
14 1 0.01
ACGTcount: A:0.05, C:0.15, G:0.01, T:0.79
Consensus pattern (12 bp):
CTTTTTTCTTTT
Found at i:91316 original size:13 final size:12
Alignment explanation
Indices: 91163--91317 Score: 71
Period size: 13 Copynumber: 11.7 Consensus size: 12
91153 AAATGAAATA
*
91163 CTTTTTTCTCTTT
1 CTTTTTT-TTTTT
91176 CTTTTTCTTTTCTT
1 CTTTTT-TTTT-TT
91190 -TTTATGTTTTTTT
1 CTTT-T-TTTTTTT
91203 CTTATTTTTTTTT
1 CTT-TTTTTTTTT
91216 CTTATTTTTCTTTTT
1 C-T-TTTTT-TTTTT
*
91231 CTTTTTCTTCTTT
1 CTTTTT-TTTTTT
* *
91244 CTATTTTTTCTT
1 CTTTTTTTTTTT
*
91256 CTTTTCTTTTTAT
1 CTTTT-TTTTTTT
* * *
91269 -TTTTCTTCTTA
1 CTTTTTTTTTTT
91280 CTTTTTATTTTTCTT
1 C-TTTT-TTTTT-TT
91295 CTTACTTTTTGTTTT
1 CTT--TTTTT-TTTT
91310 CTTTTTTT
1 CTTTTTTT
91318 AGCTCATATG
Statistics
Matches: 109, Mismatches: 15, Indels: 36
0.68 0.09 0.22
Matches are distributed among these distances:
11 3 0.03
12 12 0.11
13 48 0.44
14 23 0.21
15 19 0.17
16 4 0.04
ACGTcount: A:0.05, C:0.15, G:0.01, T:0.79
Consensus pattern (12 bp):
CTTTTTTTTTTT
Found at i:94010 original size:44 final size:44
Alignment explanation
Indices: 93909--94061 Score: 252
Period size: 44 Copynumber: 3.5 Consensus size: 44
93899 CATTTATCCT
*
93909 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTTC
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCA-TTATTCC
* *
93954 ATAATCTCGTAAGCTTATTTTACCAAAATACTTACCATTATTCC
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCC
*
93998 ATAAGCTCGTAAGCTTATTTTACCAATATACTTGCCATTATTCC
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCC
*
94042 ATAAGCTCGTAAACTTATTT
1 ATAAGCTCGTAAGCTTATTT
94062 GCATGGTTAC
Statistics
Matches: 101, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
44 66 0.65
45 35 0.35
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (44 bp):
ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTATTCC
Found at i:94311 original size:40 final size:40
Alignment explanation
Indices: 94193--94313 Score: 206
Period size: 40 Copynumber: 3.0 Consensus size: 40
94183 CCGTAGTGTG
*
94193 ACACATAAGGTCGTGCCCACCATATACACCGAAGTGTACT
1 ACACATAAGGTCGTGCCCACCATATACACCGAAGTGTATT
94233 ACACATAAGGTCGTGCCCACCATATACACCGAAGTGTATT
1 ACACATAAGGTCGTGCCCACCATATACACCGAAGTGTATT
* * *
94273 ACACATAAGGTCGTTCCCACTATATACATCGAAGTGTATT
1 ACACATAAGGTCGTGCCCACCATATACACCGAAGTGTATT
94313 A
1 A
94314 TAAACCTGCA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (40 bp):
ACACATAAGGTCGTGCCCACCATATACACCGAAGTGTATT
Found at i:103284 original size:34 final size:33
Alignment explanation
Indices: 103237--103300 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 33
103227 TTTTCATCCA
*
103237 TTCTTTATTTCTTTGTGTATATACATATATTAT
1 TTCTTTATTTCTTTATGTATATACATATATTAT
* *
103270 TTCTTTCTATTCTTTATGTATATATATATAT
1 TTCTTTAT-TTCTTTATGTATATACATATAT
103301 ATATATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 7 0.26
34 20 0.74
ACGTcount: A:0.25, C:0.09, G:0.05, T:0.61
Consensus pattern (33 bp):
TTCTTTATTTCTTTATGTATATACATATATTAT
Found at i:103295 original size:2 final size:2
Alignment explanation
Indices: 103288--103334 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
103278 ATTCTTTATG
103288 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
103330 TA TA T
1 TA TA T
103335 TCCCTCCACA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.