Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 128 of 131
Found at i:23415206 original size:27 final size:28
Alignment explanation
Indices: 23415167--23415221 Score: 103
Period size: 27 Copynumber: 2.0 Consensus size: 28
23415157 TGTAATTTTG
23415167 TTGGTTTCTTTCTCTTTCTTCGTACGTA
1 TTGGTTTCTTTCTCTTTCTTCGTACGTA
23415195 TTGG-TTCTTTCTCTTTCTTCGTACGTA
1 TTGGTTTCTTTCTCTTTCTTCGTACGTA
23415222 GCTGTTGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.07, C:0.22, G:0.15, T:0.56
Consensus pattern (28 bp):
TTGGTTTCTTTCTCTTTCTTCGTACGTA
Found at i:23415230 original size:31 final size:29
Alignment explanation
Indices: 23415165--23415231 Score: 93
Period size: 27 Copynumber: 2.3 Consensus size: 29
23415155 GATGTAATTT
23415165 TGTTGGTTTCTTTCTCTTTCTTCGTACGTA
1 TGTTGG-TTCTTTCTCTTTCTTCGTACGTA
23415195 --TTGGTTCTTTCTCTTTCTTCGTACGTA
1 TGTTGGTTCTTTCTCTTTCTTCGTACGTA
23415222 GCTGTTGGTT
1 --TGTTGGTT
23415232 TCGATTTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
27 23 0.70
28 4 0.12
31 6 0.18
ACGTcount: A:0.06, C:0.19, G:0.19, T:0.55
Consensus pattern (29 bp):
TGTTGGTTCTTTCTCTTTCTTCGTACGTA
Found at i:23415825 original size:15 final size:13
Alignment explanation
Indices: 23415801--23415834 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
23415791 GAAAAAAAGT
23415801 AAAAATAAATATA
1 AAAAATAAATATA
23415814 GAAAAGATAAATATA
1 -AAAA-ATAAATATA
23415829 AAAAAT
1 AAAAAT
23415835 TATTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 8 0.42
15 9 0.47
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (13 bp):
AAAAATAAATATA
Found at i:23416173 original size:16 final size:16
Alignment explanation
Indices: 23416129--23416181 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
23416119 AATTTATGAA
* *
23416129 AATTGATAATTTTTTT
1 AATTAATAATTTTATT
* *
23416145 AATAAAATTATTTTATT
1 AAT-TAATAATTTTATT
*
23416162 AATTAATAATTTTATC
1 AATTAATAATTTTATT
23416178 AATT
1 AATT
23416182 GAATTAGTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
16 17 0.59
17 12 0.41
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (16 bp):
AATTAATAATTTTATT
Found at i:23439631 original size:23 final size:21
Alignment explanation
Indices: 23439581--23439635 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
23439571 ATACTATCAG
23439581 AAAATCAAAT-AATATTATTTT
1 AAAAT-AAATAAATATTATTTT
*
23439602 ATTAATAAATAAATATTAATTTTT
1 A-AAATAAATAAATATT-A-TTTT
23439626 AAAATAAATA
1 AAAATAAATA
23439636 TATAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 5 0.18
22 9 0.32
23 9 0.32
24 5 0.18
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAATAAATAAATATTATTTT
Found at i:23439662 original size:14 final size:15
Alignment explanation
Indices: 23439620--23439664 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
23439610 ATAAATATTA
23439620 ATTTTTAAAATAAAT
1 ATTTTTAAAATAAAT
* *
23439635 A-TATAAAAATAAAT
1 ATTTTTAAAATAAAT
23439649 ATTTTTAAAA-AAAT
1 ATTTTTAAAATAAAT
23439663 AT
1 AT
23439665 ACTCACAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTTTTAAAATAAAT
Found at i:23451315 original size:2 final size:2
Alignment explanation
Indices: 23451310--23451354 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
23451300 AGAGAGGCTG
*
23451310 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23451351 AT AT
1 AT AT
23451355 TTGGGGAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:23451503 original size:2 final size:2
Alignment explanation
Indices: 23451491--23451520 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
23451481 TTATCTCTAA
*
23451491 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23451521 TTCCAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23456223 original size:26 final size:23
Alignment explanation
Indices: 23456194--23456292 Score: 80
Period size: 23 Copynumber: 4.3 Consensus size: 23
23456184 AACATTATAC
23456194 TAATA-AAT-AATATTATTTTAA
1 TAATATAATAAATATTATTTTAA
*
23456215 TAGTATAATAAATATTATTTTAA
1 TAATATAATAAATATTATTTTAA
* *
23456238 TAATATATTATAT-TTATTAATATAA
1 TAATATAATAAATATTATT--T-TAA
* * *
23456263 TATTTATAA-ATATATTATATTAA
1 TA-ATATAATAAATATTATTTTAA
23456286 TAATATA
1 TAATATA
23456293 TTATTTCTTA
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
21 4 0.06
22 12 0.19
23 28 0.44
24 2 0.03
25 9 0.14
26 8 0.13
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (23 bp):
TAATATAATAAATATTATTTTAA
Found at i:23456259 original size:20 final size:20
Alignment explanation
Indices: 23456234--23456558 Score: 66
Period size: 20 Copynumber: 16.3 Consensus size: 20
23456224 AAATATTATT
23456234 TTAATAATATATTATATTTA
1 TTAATAATATATTATATTTA
23456254 TTAATATAATATTTATAAATATATTATA
1 TT-A-ATAATA--TAT---TATATT-TA
*
23456282 TTAATAATATATTATTTCTTA
1 TTAATAATATATTATAT-TTA
* * * *
23456303 -AAATAGTATAATAAATATTA
1 TTAATAATATATTATAT-TTA
** *
23456323 -TAATAATGCATTATA-ATA
1 TTAATAATATATTATATTTA
* *
23456341 TTAATAA-AGAGTATA-TTA
1 TTAATAATATATTATATTTA
23456359 --AGA-AATA-A-TATA-TTA
1 TTA-ATAATATATTATATTTA
23456374 TTAAT-ATA-A-TATATTTA
1 TTAATAATATATTATATTTA
* * *
23456391 TAAATATTATATT-TA-TAA
1 TTAATAATATATTATATTTA
* *
23456409 ATACGTAATATATTATATAATATAA
1 TTA-ATAATATATTATAT--T-T-A
*
23456434 TTAATAA-ATAATATATTATA
1 TTAATAATATATTATATT-TA
*
23456454 TTAATCATATA-T-TATTTA
1 TTAATAATATATTATATTTA
* *
23456472 TTAACATATTATATTATTAATATA
1 TT-A-ATAATATATTA-T-ATTTA
* *
23456496 TTATTAATATAATATA-TTA
1 TTAATAATATATTATATTTA
* * *
23456515 TTTAT-TTATATAATATTTA
1 TTAATAATATATTATATTTA
*
23456534 -TAATAAAAATATTAT-TTTA
1 TTAAT-AATATATTATATTTA
23456553 TTAATA
1 TTAATA
23456559 TAATAATTAT
Statistics
Matches: 222, Mismatches: 46, Indels: 75
0.65 0.13 0.22
Matches are distributed among these distances:
15 7 0.03
16 13 0.06
17 10 0.05
18 28 0.13
19 35 0.16
20 53 0.24
21 15 0.07
22 15 0.07
23 11 0.05
24 15 0.07
25 3 0.01
26 6 0.03
27 7 0.03
28 4 0.02
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (20 bp):
TTAATAATATATTATATTTA
Found at i:23456260 original size:31 final size:31
Alignment explanation
Indices: 23456225--23456559 Score: 107
Period size: 31 Copynumber: 10.2 Consensus size: 31
23456215 TAGTATAATA
23456225 AATATTATTTTAATAATATATTATATTTATT
1 AATATTATTTTAATAATATATTATATTTATT
* * *
23456256 AATATAATATTT-ATAAATATATTATATTAATA
1 AATATTAT-TTTAAT-AATATATTATATTTATT
*
23456288 ATATATTATTTCTTAA-AATAGTATAATAAATATTATAAT
1 A-ATATTA-TT-TTAATAATA-TAT--T--ATATT-TATT
* * * **
23456327 AATGCATTATAATATTAATAA-AGAGTATATTAAGA
1 AAT--ATTAT--T-TTAATAATATATTATATTTATT
* * * * *
23456362 AATAATATATTATTAATATAATATATTTATA
1 AATATTATTTTAATAATATATTATATTTATT
*
23456393 AATATTATATTT-ATAA-ATACGTAATATATTATAT
1 AATATTAT-TTTAATAATATA--TTATAT-TTAT-T
* * * *
23456427 AATATAATTAATAAATAATATATTATATTAATC
1 AATATTATT--TTAATAATATATTATATTTATT
* *
23456460 ATATATTA-TTTATTAACATATTATA-TTATT
1 A-ATATTATTTTAATAATATATTATATTTATT
23456490 AATA-TATTATTAATATAATATATTATTTATTTATAT
1 AATATTATT-TT-A-ATAATATATTA--TATTTAT-T
* *
23456526 AATA-T-TTATAATAAAAATATTAT-TTTATT
1 AATATTATTTTAAT-AATATATTATATTTATT
23456555 AATAT
1 AATAT
23456560 AATAATTATA
Statistics
Matches: 225, Mismatches: 41, Indels: 77
0.66 0.12 0.22
Matches are distributed among these distances:
28 2 0.01
29 9 0.04
30 20 0.09
31 44 0.20
32 36 0.16
33 30 0.13
34 24 0.11
35 17 0.08
36 16 0.07
37 3 0.01
38 8 0.04
39 3 0.01
40 5 0.02
41 6 0.03
42 2 0.01
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (31 bp):
AATATTATTTTAATAATATATTATATTTATT
Found at i:23456264 original size:48 final size:44
Alignment explanation
Indices: 23456181--23456560 Score: 139
Period size: 46 Copynumber: 8.5 Consensus size: 44
23456171 TATATTATTT
* * * *
23456181 ATAAACATTATACTAATAA-ATAATA-TTATT-TTAATAGTATA
1 ATAAATATTATATTAATAATATATTATTTATTAATAATAGTATA
* *
23456222 ATAAATATTATTTTAATAATATATTATATTTATTAATATAATATTTATA
1 ATAAATATTATATTAATAATATA-T-TATTTATT-A-ATAATA-GTATA
* *
23456271 A-ATATATTATATTAATAATATATTATTTCTTAA-AATAGTATA
1 ATAAATATTATATTAATAATATATTATTTATTAATAATAGTATA
* * * * * * *
23456313 ATAAATATTATAATAATGCATTATAATATTAATAAAGAGTA-TATTA
1 ATAAATATTATATTAAT--AATATATTATTTATTAATAATAGTA-TA
* * * * *
23456359 AGAAATAATATATTATTAATATA--ATATATTTATAA-A-TAT-
1 ATAAATATTATATTAATAATATATTATTTATTAATAATAGTATA
* * * * *
23456398 -TATAT-TTATAAATACGTAATATATTATATAATATAATTAATA-AATA
1 ATAAATATTAT-ATTA-ATAATATATTAT-TTAT-TAA-TAATAGTATA
* *
23456444 AT--ATATTATATTAATCATATATTATTTATTAACATATTA-TATTA
1 ATAAATATTATATTAATAATATATTATTTATT-A-ATAATAGTA-TA
* * *
23456488 TTAATATATTAT-TAATATAATATATTATTTATTTATATAATATTTATA
1 ATAA-ATATTATATTA-ATAATATATTATTTA-TTA-ATAATA-GTATA
* *
23456536 ATAAAAATATTATTTTATTAATATA
1 AT--AAATATTATATTAATAATATA
23456561 ATAATTATAG
Statistics
Matches: 250, Mismatches: 52, Indels: 66
0.68 0.14 0.18
Matches are distributed among these distances:
37 3 0.01
38 6 0.02
39 7 0.03
40 1 0.00
41 21 0.08
42 17 0.07
43 28 0.11
44 25 0.10
45 28 0.11
46 31 0.12
47 29 0.12
48 29 0.12
49 21 0.08
50 4 0.02
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (44 bp):
ATAAATATTATATTAATAATATATTATTTATTAATAATAGTATA
Found at i:23456277 original size:12 final size:14
Alignment explanation
Indices: 23456246--23456294 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
23456236 AATAATATAT
23456246 TATATTTATTAATA
1 TATATTTATTAATA
23456260 TAATATTTA-TAA-A
1 T-ATATTTATTAATA
23456273 TATATTATATTAATAA
1 TATATT-TATTAAT-A
23456289 TATATT
1 TATATT
23456295 ATTTCTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 5 0.17
13 4 0.13
14 7 0.23
15 7 0.23
16 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATATTTATTAATA
Found at i:23456286 original size:23 final size:24
Alignment explanation
Indices: 23456196--23456287 Score: 75
Period size: 26 Copynumber: 3.8 Consensus size: 24
23456186 CATTATACTA
* *
23456196 ATAAATAATATTATTTTAATAGTATA
1 ATAAAT-ATATTATATTAATA-TATT
* *
23456222 ATAAATATTATTTTAATAATATATT
1 ATAAATA-TATTATATTAATATATT
*
23456247 AT--ATTTATTA-ATATAATAT-TT
1 ATAAATATATTATAT-TAATATATT
23456268 ATAAATATATTATATTAATA
1 ATAAATATATTATATTAATA
23456288 ATATATTATT
Statistics
Matches: 53, Mismatches: 8, Indels: 13
0.72 0.11 0.18
Matches are distributed among these distances:
21 5 0.09
22 10 0.19
23 14 0.26
24 2 0.04
25 6 0.11
26 16 0.30
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (24 bp):
ATAAATATATTATATTAATATATT
Found at i:23456292 original size:11 final size:11
Alignment explanation
Indices: 23456144--23456295 Score: 58
Period size: 11 Copynumber: 14.5 Consensus size: 11
23456134 TTCAATTTGT
23456144 TATTAATAATA
1 TATTAATAATA
*
23456155 TAATAAT-ATA
1 TATTAATAATA
*
23456165 TATTGAT-ATA
1 TATTAATAATA
*
23456175 TTATTTATAA-A
1 -TATTAATAATA
*
23456186 CATTATACTAATA
1 TATTA-A-TAATA
* *
23456199 -AATAATATTA
1 TATTAATAATA
* *
23456209 TTTTAATAGTA
1 TATTAATAATA
* *
23456220 TAATAAATATTA
1 T-ATTAATAATA
*
23456232 TTTTAATAATA
1 TATTAATAATA
*
23456243 TATT-AT-ATT
1 TATTAATAATA
23456252 TATTAAT-ATAA
1 TATTAATAAT-A
*
23456263 TATTTATAA-A
1 TATTAATAATA
23456273 TA-T-AT--TA
1 TATTAATAATA
23456280 TATTAATAATA
1 TATTAATAATA
23456291 TATTA
1 TATTA
23456296 TTTCTTAAAA
Statistics
Matches: 105, Mismatches: 21, Indels: 30
0.67 0.13 0.19
Matches are distributed among these distances:
7 3 0.03
8 3 0.03
9 9 0.09
10 27 0.26
11 46 0.44
12 16 0.15
13 1 0.01
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (11 bp):
TATTAATAATA
Found at i:23456322 original size:91 final size:88
Alignment explanation
Indices: 23456146--23456323 Score: 227
Period size: 87 Copynumber: 2.0 Consensus size: 88
23456136 CAATTTGTTA
* *
23456146 TTAATAATATAATAATATATATTGATATATTATTTATAAACATTATACTAATAAATAATATTATT
1 TTAATAATATAATAATATATATTAATATAATATTTATAAACATTATACTAATAAATAATATTATT
23456211 TTAATAGTATAATAAATATTATT
66 TTAATAGTATAATAAATATTATT
* * * *
23456234 TTAATAATAT-ATTATATTTATTAATATAATATTTATAAATATATTATATTAAT-AAT-ATATTA
1 TTAATAATATAATAATATATATTAATATAATATTTAT-AA-ACATTATACTAATAAATAATATTA
23456296 TTTCTTAAAATAGTATAATAAATATTAT
64 -TT-TT--AATAGTATAATAAATATTAT
23456324 AATAATGCAT
Statistics
Matches: 78, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
87 28 0.36
88 17 0.22
89 13 0.17
91 20 0.26
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (88 bp):
TTAATAATATAATAATATATATTAATATAATATTTATAAACATTATACTAATAAATAATATTATT
TTAATAGTATAATAAATATTATT
Found at i:23456342 original size:91 final size:87
Alignment explanation
Indices: 23456147--23456342 Score: 218
Period size: 91 Copynumber: 2.2 Consensus size: 87
23456137 AATTTGTTAT
* * *
23456147 TAATAATATAATAATATATATTGATATATTATTTATAAACATTATACTAATAAATAATATTATTT
1 TAATAATAT-ATAATATTTATTAATATAATATTTATAAACATTATACTAATAAATAATATTATTT
**
23456212 TAATAGTATAATAAATATTATTT
65 TAATAGTATAATAAATATTATAA
* * *
23456235 TAATAATATATTATATTTATTAATATAATATTTATAAATATATTATATTAAT-AAT-ATATTATT
1 TAATAATATATAATATTTATTAATATAATATTTAT-AA-ACATTATACTAATAAATAATATTA-T
23456298 TCTTAAAATAGTATAATAAATATTATAA
63 T-TT--AATAGTATAATAAATATTATAA
*
23456326 TAATGCAT-TATAATATT
1 TAAT-AATATATAATATT
23456343 AATAAAGAGT
Statistics
Matches: 91, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
87 28 0.31
88 16 0.18
89 13 0.14
91 32 0.35
92 2 0.02
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (87 bp):
TAATAATATATAATATTTATTAATATAATATTTATAAACATTATACTAATAAATAATATTATTTT
AATAGTATAATAAATATTATAA
Found at i:23456357 original size:91 final size:89
Alignment explanation
Indices: 23456213--23456381 Score: 198
Period size: 91 Copynumber: 1.9 Consensus size: 89
23456203 ATATTATTTT
** * * * * * *
23456213 AATAGTATAATAAATATTATTTTAATAATATATTATATTTATTAATATAATATTTATAAATATAT
1 AATAGTATAATAAATATTATAATAATAATATATAATATTAATAAAGATAATATTAAGAAATA-A-
23456278 TATATTAATAATATATTATTTCTTAA
64 TATATTAATAATATATTATTTCTTAA
*
23456304 AATAGTATAATAAATATTATAATAATGCAT-TATAATATTAATAAAGAGT-ATATTAAGAAATAA
1 AATAGTATAATAAATATTATAATAAT-AATATATAATATTAATAAAGA-TAATATTAAGAAATAA
*
23456367 TATATTATTAATATA
64 TATATTAATAATATA
23456382 ATATATTTAT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
89 14 0.21
90 1 0.02
91 48 0.73
92 3 0.05
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (89 bp):
AATAGTATAATAAATATTATAATAATAATATATAATATTAATAAAGATAATATTAAGAAATAATA
TATTAATAATATATTATTTCTTAA
Found at i:23456378 original size:11 final size:11
Alignment explanation
Indices: 23456364--23456506 Score: 53
Period size: 11 Copynumber: 12.6 Consensus size: 11
23456354 TATTAAGAAA
23456364 TAATATATTAT
1 TAATATATTAT
23456375 TAATATAATATAT
1 TAATAT-AT-TAT
* *
23456388 TTATA-AATAT
1 TAATATATTAT
23456398 T-ATAT-TTAT
1 TAATATATTAT
*
23456407 AAATACGTAATATAT
1 TAATA--T-AT-TAT
*
23456422 TATATAATATAAT
1 TA-AT-ATATTAT
* *
23456435 TAATAAATAAT
1 TAATATATTAT
* *
23456446 ATATTATATTAA
1 -TAATATATTAT
*
23456458 TCATATATTAT
1 TAATATATTAT
* **
23456469 TTAT-TAACA-
1 TAATATATTAT
*
23456478 TATTATATTAT
1 TAATATATTAT
23456489 TAATATATTAT
1 TAATATATTAT
23456500 TAATATA
1 TAATATA
23456507 ATATATTATT
Statistics
Matches: 96, Mismatches: 22, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
9 8 0.08
10 13 0.14
11 41 0.43
12 12 0.12
13 11 0.11
14 3 0.03
15 5 0.05
16 2 0.02
17 1 0.01
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (11 bp):
TAATATATTAT
Found at i:23456389 original size:91 final size:89
Alignment explanation
Indices: 23456143--23456381 Score: 210
Period size: 87 Copynumber: 2.7 Consensus size: 89
23456133 ATTCAATTTG
* * * * * * *
23456143 TTATTAATAATATAATAATATATATTGATATATTATTTATAAACAT--TATACTAATAAATAATA
1 TTATTAATAATA-CATTATATATATTAATAAAATATTTATAAATATAATATATTAAT-AAT-ATA
23456206 TTA-TT-TT--AATAGTATAATAAATA
63 TTATTTCTTAAAATAGTATAATAAATA
* * * *
23456229 TTATTTTAATAATATATTATATTTATTAATATAATATTTATAAATATATTATATTAATAATATAT
1 TTA--TTAATAATACATTATATATATTAATAAAATATTTATAAATATAATATATTAATAATATAT
23456294 TATTTCTTAAAATAGTATAATAAATA
64 TATTTCTTAAAATAGTATAATAAATA
* *
23456320 TTA-TAATAATGCATTATA-ATATTAATAAAGAGTATATTA-AGAA-ATAATATATTATTAATAT
1 TTATTAATAATACATTATATATATTAATAAA-A-TAT-TTATA-AATATAATATATTAATAATAT
23456381 A
62 A
23456382 ATATATTTAT
Statistics
Matches: 128, Mismatches: 13, Indels: 21
0.79 0.08 0.13
Matches are distributed among these distances:
86 3 0.02
87 42 0.33
88 28 0.22
89 31 0.24
90 5 0.04
91 19 0.15
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (89 bp):
TTATTAATAATACATTATATATATTAATAAAATATTTATAAATATAATATATTAATAATATATTA
TTTCTTAAAATAGTATAATAAATA
Found at i:23456418 original size:78 final size:83
Alignment explanation
Indices: 23456336--23456486 Score: 192
Period size: 78 Copynumber: 1.9 Consensus size: 83
23456326 TAATGCATTA
23456336 TAATAT-TAATAAAGAGTAT-ATTAAGAAATAATATA-T-TATTAAT-ATA-ATATATTTA-TAA
1 TAATATATAATAAA-A-TATAATTAAGAAATAATATATTATATTAATCATATAT-TATTTATTAA
23456394 -ATATTATATTTATAAATACG
63 CATATTATATTTATAAATACG
* * *
23456414 TAATATATTATATAATATAATTAATAAATAATATATTATATTAATCATATATTATTTATTAACAT
1 TAATATATAATAAAATATAATTAAGAAATAATATATTATATTAATCATATATTATTTATTAACAT
23456479 ATTATATT
66 ATTATATT
23456487 ATTAATATAT
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
77 3 0.05
78 22 0.35
79 6 0.10
80 7 0.11
81 9 0.15
82 5 0.08
83 10 0.16
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.46
Consensus pattern (83 bp):
TAATATATAATAAAATATAATTAAGAAATAATATATTATATTAATCATATATTATTTATTAACAT
ATTATATTTATAAATACG
Found at i:23456431 original size:34 final size:32
Alignment explanation
Indices: 23456380--23456443 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 32
23456370 ATTATTAATA
*
23456380 TAATATATTTATAAATATTATATTTATAAATACG
1 TAATATATTTATAAATA-TA-ATTAATAAATACG
23456414 TAATATA-TTATATAATATAATTAATAAATA
1 TAATATATTTATA-AATATAATTAATAAATA
23456444 ATATATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 10 0.36
33 7 0.25
34 11 0.39
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (32 bp):
TAATATATTTATAAATATAATTAATAAATACG
Found at i:23456561 original size:34 final size:33
Alignment explanation
Indices: 23456363--23456569 Score: 119
Period size: 31 Copynumber: 6.4 Consensus size: 33
23456353 ATATTAAGAA
* *
23456363 ATAATATATTATTAATATAATA-TA-TTTATAAAT
1 ATAATAT-TTA-TAATAAAATATTATTTTATTAAT
* * *
23456396 ATTATATTTATAAATACGTAATA-TATTATA-TAAT
1 ATAATATTTAT-AATA--AAATATTATTTTATTAAT
* * * * *
23456430 AT-A-ATTAATAAATAATATATTATATTAATCAT
1 ATAATATTTAT-AATAAAATATTATTTTATTAAT
* * *
23456462 ATATTATTTAT--TAACATATTATATTATTAAT
1 ATAATATTTATAATAAAATATTATTTTATTAAT
* * * *
23456493 ATATTATTAAT-ATAATATATTA-TTTATTTAT
1 ATAATATTTATAATAAAATATTATTTTATTAAT
23456524 ATAATATTTATAATAAAAATATTATTTTATTAAT
1 ATAATATTTATAAT-AAAATATTATTTTATTAAT
*
23456558 ATAATAATTATA
1 ATAATATTTATA
23456570 GCATTACTGT
Statistics
Matches: 139, Mismatches: 23, Indels: 23
0.75 0.12 0.12
Matches are distributed among these distances:
30 3 0.02
31 49 0.35
32 33 0.24
33 15 0.11
34 36 0.26
35 3 0.02
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.50
Consensus pattern (33 bp):
ATAATATTTATAATAAAATATTATTTTATTAAT
Found at i:23456567 original size:20 final size:20
Alignment explanation
Indices: 23456414--23456568 Score: 74
Period size: 20 Copynumber: 7.8 Consensus size: 20
23456404 TATAAATACG
* * *
23456414 TAATATATTATATAATATAAT
1 TAATATAATATATTAT-TTAT
23456435 TAATA-AATA-ATATATTATAT
1 TAATATAATATAT-TATT-TAT
*
23456455 T-A-ATCATATATTATTTAT
1 TAATATAATATATTATTTAT
* * *
23456473 TAACATATTATATTATTAAT
1 TAATATAATATATTATTTAT
* *
23456493 ATATTATTAATATAATATATTAT
1 -TAATA-TAATATATTAT-TTAT
* * *
23456516 TTAT-TTATATAATATTTA-
1 TAATATAATATATTATTTAT
*
23456534 TAATA-AAAATATTATTTTAT
1 TAATATAATATATTA-TTTAT
23456554 TAATATAATA-ATTAT
1 TAATATAATATATTAT
23456569 AGCATTACTG
Statistics
Matches: 101, Mismatches: 20, Indels: 28
0.68 0.13 0.19
Matches are distributed among these distances:
18 14 0.14
19 20 0.20
20 42 0.42
21 11 0.11
22 11 0.11
23 3 0.03
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (20 bp):
TAATATAATATATTATTTAT
Found at i:23458220 original size:18 final size:18
Alignment explanation
Indices: 23458183--23458220 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
23458173 AAGTGGATGA
*
23458183 TTGAAATTTAATATCTTT
1 TTGAAATTTAATATCATT
23458201 TTGAAATTTCAA-ATCATT
1 TTGAAATTT-AATATCATT
23458219 TT
1 TT
23458221 TAGGTGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (18 bp):
TTGAAATTTAATATCATT
Found at i:23464529 original size:31 final size:29
Alignment explanation
Indices: 23464494--23464551 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
23464484 TATTCAATAA
*
23464494 ATATAAAATTTATATTTTTAATTTATTTTAC
1 ATATAAAATTTATA--ATTAATTTATTTTAC
**
23464525 ATATATTATTTATAATTAATTTATTTT
1 ATATAAAATTTATAATTAATTTATTTT
23464552 TTTAATCGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 12 0.50
31 12 0.50
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (29 bp):
ATATAAAATTTATAATTAATTTATTTTAC
Found at i:23466300 original size:44 final size:44
Alignment explanation
Indices: 23466226--23466309 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
23466216 TTCTATATAC
23466226 TATATGGTCTGTCATTAGGTACTTAATGCTTAATTTGTTGATAT
1 TATATGGTCTGTCATTAGGTACTTAATGCTTAATTTGTTGATAT
* * * **
23466270 TATATTGTCTGTCATTAGTTTCTTGCTGCTTAATTTGTTG
1 TATATGGTCTGTCATTAGGTACTTAATGCTTAATTTGTTG
23466310 GTGGTAGGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.20, C:0.11, G:0.18, T:0.51
Consensus pattern (44 bp):
TATATGGTCTGTCATTAGGTACTTAATGCTTAATTTGTTGATAT
Found at i:23474719 original size:22 final size:22
Alignment explanation
Indices: 23474693--23474735 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
23474683 TGTATATTTA
*
23474693 TATTTGTATATTTAGAATTAAG
1 TATTTGTATATCTAGAATTAAG
*
23474715 TATTTGTATCTCTAGAATTAA
1 TATTTGTATATCTAGAATTAA
23474736 AGATAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.49
Consensus pattern (22 bp):
TATTTGTATATCTAGAATTAAG
Found at i:23475005 original size:25 final size:25
Alignment explanation
Indices: 23474977--23475026 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
23474967 ATTGTTGACT
* *
23474977 TCTTTTTTAGGTCTTCATTGCCGAA
1 TCTTGTTTAGGCCTTCATTGCCGAA
* *
23475002 TCTTGTTTAGGCCTTTATTGTCGAA
1 TCTTGTTTAGGCCTTCATTGCCGAA
23475027 CCCTTTCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.48
Consensus pattern (25 bp):
TCTTGTTTAGGCCTTCATTGCCGAA
Found at i:23476571 original size:21 final size:20
Alignment explanation
Indices: 23476525--23476571 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
23476515 TTGCAGATGT
23476525 CATTTTTGAAGAAAGTAAAC
1 CATTTTTGAAGAAAGTAAAC
*
23476545 CATTTTTGAAGAAAGTAAAT
1 CATTTTTGAAGAAAGTAAAC
23476565 CATTTTT
1 CATTTTT
23476572 TACTCAACCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (20 bp):
CATTTTTGAAGAAAGTAAAC
Found at i:23478692 original size:22 final size:22
Alignment explanation
Indices: 23478666--23478709 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
23478656 TGTATATTTA
*
23478666 TATTTGTATCTTTAGAATTAAG
1 TATTTGTATCTCTAGAATTAAG
23478688 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCTCTAGAATTAAG
23478710 GATAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.48
Consensus pattern (22 bp):
TATTTGTATCTCTAGAATTAAG
Found at i:23492287 original size:26 final size:27
Alignment explanation
Indices: 23492258--23492322 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
23492248 CTCTGGCCAT
23492258 TGATTTTGAAATG-AAAAAAGCTCAAA
1 TGATTTTGAAATGTAAAAAAGCTCAAA
*
23492284 TGATTTTGAAATGTAAAAAAGCTCAAT
1 TGATTTTGAAATGTAAAAAAGCTCAAA
*
23492311 TGATTGTGAAAT
1 TGATTTTGAAAT
23492323 TTGTCTAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 13 0.36
27 23 0.64
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.32
Consensus pattern (27 bp):
TGATTTTGAAATGTAAAAAAGCTCAAA
Found at i:23493658 original size:34 final size:33
Alignment explanation
Indices: 23493627--23493705 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 33
23493617 CCAAAAATGC
* * *
23493627 ATTTTTGAAAGATTATATGACTTTTTGAAAATAA
1 ATTTTTGAAAAATT-TATAACTTTTGGAAAATAA
* *
23493661 AATTTTGAACAAATTTATAACTTTTGGAAAATAT
1 ATTTTTGAA-AAATTTATAACTTTTGGAAAATAA
23493695 ATTTTTGAAAA
1 ATTTTTGAAAA
23493706 CTTATGAGGA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
33 2 0.05
34 32 0.84
35 4 0.11
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (33 bp):
ATTTTTGAAAAATTTATAACTTTTGGAAAATAA
Found at i:23494126 original size:3 final size:3
Alignment explanation
Indices: 23494118--23494150 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
23494108 CTGTCATTTA
23494118 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23494151 TGATTTTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23496232 original size:3 final size:3
Alignment explanation
Indices: 23496224--23496254 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
23496214 ATTTCAACCT
23496224 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
23496255 CTTAGTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23503595 original size:19 final size:21
Alignment explanation
Indices: 23503548--23503597 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
23503538 AAATATGATT
23503548 TAAAATTTTAATAATAATTATA
1 TAAAA-TTTAATAATAATTATA
23503570 TATAAATTTAATAA-AATTA-A
1 TA-AAATTTAATAATAATTATA
23503590 TAAAATTT
1 TAAAATTT
23503598 TATATTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 6 0.22
20 3 0.11
21 5 0.19
22 10 0.37
23 3 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAAATTTAATAATAATTATA
Found at i:23503635 original size:13 final size:13
Alignment explanation
Indices: 23503617--23503641 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23503607 TATCAACATA
23503617 AATTTTGATATAT
1 AATTTTGATATAT
23503630 AATTTTGATATA
1 AATTTTGATATA
23503642 AAATACGATA
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
AATTTTGATATAT
Found at i:23505833 original size:30 final size:30
Alignment explanation
Indices: 23505797--23505855 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
23505787 CAGGAGGTGA
23505797 GAAATTTATGAACACCTGATCTACTTTTAG
1 GAAATTTATGAACACCTGATCTACTTTTAG
*
23505827 GAAATTTATGAACACCTGTTCTACTTTTA
1 GAAATTTATGAACACCTGATCTACTTTTA
23505856 TGTGACGCGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (30 bp):
GAAATTTATGAACACCTGATCTACTTTTAG
Found at i:23527401 original size:34 final size:34
Alignment explanation
Indices: 23527358--23527425 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
23527348 CTTCAAATTG
*
23527358 ATGACTTGTTTGATCAGTTACAAGGAGCAAAGGT
1 ATGACTTGTTTGATCAGTTACAAAGAGCAAAGGT
23527392 ATGACTTGTTTGATCAGTTACAAAGAGCAAAGGT
1 ATGACTTGTTTGATCAGTTACAAAGAGCAAAGGT
23527426 CTTTTTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (34 bp):
ATGACTTGTTTGATCAGTTACAAAGAGCAAAGGT
Found at i:23535695 original size:20 final size:20
Alignment explanation
Indices: 23535658--23535695 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23535648 AAATTAACAT
*
23535658 AATAAAAATATATTAAAATA
1 AATAAAAATATATCAAAATA
23535678 AATAAAAAT-TCATCAAAA
1 AATAAAAATAT-ATCAAAA
23535696 ATAATATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
AATAAAAATATATCAAAATA
Found at i:23537433 original size:145 final size:145
Alignment explanation
Indices: 23537170--23537460 Score: 564
Period size: 145 Copynumber: 2.0 Consensus size: 145
23537160 ATTTTAAAGT
*
23537170 GTATCTAAATATAAAAAATTTGTTTTTGGCCAAAAAAAAAAATTGTGCTAAACTGAAAAAAAAAA
1 GTATCTAAATATAAAAAAATTGTTTTTGGCCAAAAAAAAAAATTGTGCTAAACTGAAAAAAAAAA
*
23537235 AGTAAAAAAGAATAAGAGATGAGGAAGGAGATACAAAATCTAACTGTCCTCTGGCACTTGTCTGA
66 AGTAAAAAAGAATAAGAGATGAGGAAGGAGAAACAAAATCTAACTGTCCTCTGGCACTTGTCTGA
23537300 ATTTTAGGATGACCA
131 ATTTTAGGATGACCA
23537315 GTATCTAAATATAAAAAAATTGTTTTTGGCCAAAAAAAAAAATTGTGCTAAACTGAAAAAAAAAA
1 GTATCTAAATATAAAAAAATTGTTTTTGGCCAAAAAAAAAAATTGTGCTAAACTGAAAAAAAAAA
23537380 AGTAAAAAAGAATAAGAGATGAGGAAGGAGAAACAAAATCTAACTGTCCTCTGGCACTTGTCTGA
66 AGTAAAAAAGAATAAGAGATGAGGAAGGAGAAACAAAATCTAACTGTCCTCTGGCACTTGTCTGA
23537445 ATTTTAGGATGACCA
131 ATTTTAGGATGACCA
23537460 G
1 G
23537461 AAAAATAGTT
Statistics
Matches: 144, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 144 1.00
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.25
Consensus pattern (145 bp):
GTATCTAAATATAAAAAAATTGTTTTTGGCCAAAAAAAAAAATTGTGCTAAACTGAAAAAAAAAA
AGTAAAAAAGAATAAGAGATGAGGAAGGAGAAACAAAATCTAACTGTCCTCTGGCACTTGTCTGA
ATTTTAGGATGACCA
Found at i:23537516 original size:4 final size:4
Alignment explanation
Indices: 23537507--23537537 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
23537497 TTTATATGCA
23537507 TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGT
1 TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGT
23537538 GTGTATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.26, T:0.74
Consensus pattern (4 bp):
TGTT
Found at i:23540482 original size:61 final size:61
Alignment explanation
Indices: 23540387--23540506 Score: 240
Period size: 61 Copynumber: 2.0 Consensus size: 61
23540377 GTGTCCAATG
23540387 AAAAATAGGTTACATGCAATCACAGGTATGAATGTATATAAATATAAAAGATAATGCATAT
1 AAAAATAGGTTACATGCAATCACAGGTATGAATGTATATAAATATAAAAGATAATGCATAT
23540448 AAAAATAGGTTACATGCAATCACAGGTATGAATGTATATAAATATAAAAGATAATGCAT
1 AAAAATAGGTTACATGCAATCACAGGTATGAATGTATATAAATATAAAAGATAATGCAT
23540507 TTTAAAGTGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.49, C:0.08, G:0.15, T:0.28
Consensus pattern (61 bp):
AAAAATAGGTTACATGCAATCACAGGTATGAATGTATATAAATATAAAAGATAATGCATAT
Found at i:23541690 original size:3 final size:3
Alignment explanation
Indices: 23541645--23541670 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
23541635 ACTCTAACCA
23541645 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
23541671 AGACCTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:23542768 original size:9 final size:9
Alignment explanation
Indices: 23542734--23542779 Score: 56
Period size: 9 Copynumber: 4.7 Consensus size: 9
23542724 ATTTTAAATT
23542734 TTAATAATAA
1 TTAATAA-AA
23542744 TTATATATAAA
1 TTA-ATA-AAA
23542755 TTTAATAAAA
1 -TTAATAAAA
23542765 TTAATAAAA
1 TTAATAAAA
23542774 TTAATA
1 TTAATA
23542780 TTTTTATATC
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
9 15 0.45
10 6 0.18
11 8 0.24
12 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
TTAATAAAA
Found at i:23542774 original size:19 final size:21
Alignment explanation
Indices: 23542728--23542779 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
23542718 AAAAAAATTT
*
23542728 TAAATTTTAATAATAATTATA
1 TAAAATTTAATAATAATTATA
23542749 TATAAATTTAATAA-AATTA-A
1 TA-AAATTTAATAATAATTATA
23542769 TAAAA-TTAATA
1 TAAAATTTAATA
23542780 TTTTTATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.21
19 3 0.10
20 3 0.10
21 7 0.24
22 10 0.34
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAAATTTAATAATAATTATA
Found at i:23543243 original size:166 final size:166
Alignment explanation
Indices: 23542960--23543259 Score: 422
Period size: 166 Copynumber: 1.8 Consensus size: 166
23542950 TCAAACTCAG
* * * * *
23542960 TGCAAATGTAGATGGTCAAATAATTTAAACTTTTGTTAAATTGCTAAATTCATATAGTCCAAGTT
1 TGCAAATGTAGATGGTCAAACAATTAAAACTTTTATCAAATTGCCAAATTCATATAGTCCAAGTT
* * * *
23543025 TAGCAGTTTATTTTGGGTTACAGGTCCCTCAGTTTTGGGTTTGGGCAACTTCCACAGAACTCACT
66 TAGCAGTTTATTTGGGGTTACAGGTCCCTCAGCTTTCGGTTTGGACAACTTCCACAGAACTCACT
23543090 CACTCTACATATCCACAATATACGTAATATATAACT
131 CACTCTACATATCCACAATATACGTAATATATAACT
* * *
23543126 TGCAGATGTAGATGGTCAAACAATTAAAACTTTTATCAAATTTCCAAATTCATATAGTCGAAGTT
1 TGCAAATGTAGATGGTCAAACAATTAAAACTTTTATCAAATTGCCAAATTCATATAGTCCAAGTT
** * * * *
23543191 TAGCAGTTTATTTGGGGTTGGAGGTTCCT-ATGCTTTCGGTTTGGATAACTTCCACATACCTCAC
66 TAGCAGTTTATTTGGGGTTACAGGTCCCTCA-GCTTTCGGTTTGGACAACTTCCACAGAACTCAC
23543255 TCACT
130 TCACT
23543260 TTGCACCCCC
Statistics
Matches: 115, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
165 1 0.01
166 114 0.99
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (166 bp):
TGCAAATGTAGATGGTCAAACAATTAAAACTTTTATCAAATTGCCAAATTCATATAGTCCAAGTT
TAGCAGTTTATTTGGGGTTACAGGTCCCTCAGCTTTCGGTTTGGACAACTTCCACAGAACTCACT
CACTCTACATATCCACAATATACGTAATATATAACT
Found at i:23545669 original size:54 final size:55
Alignment explanation
Indices: 23545587--23545692 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
23545577 AGTATAGACT
* *
23545587 ACCTATACTAATGCTTGAAGCCTATCAGTATA-AATTGTATGTTTTAATTTTCTC
1 ACCTATACTAATGCTAGAAGCCTATCAGTATAGAATTATATGTTTTAATTTTCTC
* * * *
23545641 ACCTATACTAATGGCTAG-TGCTTATCAGTTTAGACTTATATGTTTTAATTTT
1 ACCTATACTAAT-GCTAGAAGCCTATCAGTATAGAATTATATGTTTTAATTTT
23545693 TATTGCCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 23 0.52
55 21 0.48
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.44
Consensus pattern (55 bp):
ACCTATACTAATGCTAGAAGCCTATCAGTATAGAATTATATGTTTTAATTTTCTC
Found at i:23545824 original size:146 final size:146
Alignment explanation
Indices: 23545529--23545854 Score: 399
Period size: 146 Copynumber: 2.2 Consensus size: 146
23545519 ATTAGTAGAT
* *
23545529 ACTTGTATGTTTTAA-TTTTCTTGCCTATA-TCGATGGTTAATGCCCGTCAGTATAGACTACCTA
1 ACTTATATGTTTTAATTTTTCTTGCCTATACT-GACGGTTAATGCCCGTCAGTATAGACTACCTA
* * * * ***
23545592 TACTAATGCTTGAAGCCTATCAGTATAAATTGTATGTTTTAATTTTCTCACCTATACTAATGGCT
65 TACTAATACTTAAAGCCCATCAGTATAAATTGTATGTTTTAATTTTCTCACATATACTAACAACT
* * * *
23545657 AGTGCTTATCAGTTTAG
130 AGTGCTCATCAATATAA
* * *
23545674 ACTTATATGTTTTAATTTTTATTGCCTATACTGACGGTTAATGCCTGTTAGTATAGACTACCTAT
1 ACTTATATGTTTTAATTTTTCTTGCCTATACTGACGGTTAATGCCCGTCAGTATAGACTACCTAT
* * * *
23545739 ACTAATACTTAAAGCCCGTCGGTATAGATTGTATGTTTTAATTTTCTCACATATACTGACAACTA
66 ACTAATACTTAAAGCCCATCAGTATAAATTGTATGTTTTAATTTTCTCACATATACTAACAACTA
23545804 CCGT-C-CATCAATATAA
131 --GTGCTCATCAATATAA
* *
23545820 ACTTATATATTTTAATTTTTCTTACCTATACTGAC
1 ACTTATATGTTTTAATTTTTCTTGCCTATACTGAC
23545855 ATTTAACATC
Statistics
Matches: 154, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
145 14 0.09
146 136 0.88
147 2 0.01
148 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (146 bp):
ACTTATATGTTTTAATTTTTCTTGCCTATACTGACGGTTAATGCCCGTCAGTATAGACTACCTAT
ACTAATACTTAAAGCCCATCAGTATAAATTGTATGTTTTAATTTTCTCACATATACTAACAACTA
GTGCTCATCAATATAA
Found at i:23545867 original size:56 final size:55
Alignment explanation
Indices: 23545774--23545904 Score: 163
Period size: 56 Copynumber: 2.4 Consensus size: 55
23545764 AGATTGTATG
* * *
23545774 TTTTAATTTTCTCACATATACTGACAACTACCGTCCATCAATATAAACTTATATA
1 TTTTAATTTTCTTACATATACTGACAACTAACATCCATCAATATAAACTTATATA
* ** * * *
23545829 TTTTAATTTTTCTTACCTATACTGACATTTAACATCCATCAGTATAGACTTATATT
1 TTTTAA-TTTTCTTACATATACTGACAACTAACATCCATCAATATAAACTTATATA
*
23545885 TTTTAATTTTCTTACTTATA
1 TTTTAATTTTCTTACATATA
23545905 TCGACAGTTA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 19 0.29
56 46 0.71
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.46
Consensus pattern (55 bp):
TTTTAATTTTCTTACATATACTGACAACTAACATCCATCAATATAAACTTATATA
Found at i:23545931 original size:55 final size:55
Alignment explanation
Indices: 23545760--23546004 Score: 188
Period size: 55 Copynumber: 4.5 Consensus size: 55
23545750 AAGCCCGTCG
* * * * * ** * **
23545760 GTATAGA-TTGTATGTTTTAATTTTCTCACATATACTGACAACTACCGTCCATCA
1 GTATAGACTTATATGTTTTAATTTTCTTACCTATACCGACAATTAGAGACTGTCA
* * * * * * **
23545814 ATATAAACTTATATATTTTAATTTTTCTTACCTATACTGACATTTA-ACATCCATCA
1 GTATAGACTTATATGTTTTAA-TTTTCTTACCTATACCGACAATTAGAGA-CTGTCA
* * * * * *
23545870 GTATAGACTTATATTTTTTAATTTTCTTACTTATATCGACAGTTAGATACTGTTA
1 GTATAGACTTATATGTTTTAATTTTCTTACCTATACCGACAATTAGAGACTGTCA
* * * * *
23545925 GTATAGAATTGTATGCTTTAATTTTCTTACCTATACCGATAATTAGAGATTGTCA
1 GTATAGACTTATATGTTTTAATTTTCTTACCTATACCGACAATTAGAGACTGTCA
*
23545980 GTATAGACTTATATGTTTTATTTTT
1 GTATAGACTTATATGTTTTAATTTT
23546005 TTAGTATATT
Statistics
Matches: 150, Mismatches: 37, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
54 5 0.03
55 99 0.66
56 46 0.31
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (55 bp):
GTATAGACTTATATGTTTTAATTTTCTTACCTATACCGACAATTAGAGACTGTCA
Found at i:23553880 original size:34 final size:35
Alignment explanation
Indices: 23553801--23553903 Score: 127
Period size: 34 Copynumber: 2.9 Consensus size: 35
23553791 ATTGAATAGT
* *
23553801 GTTATTAAAGGTATTTCTGGCCAGAAACACCTTTTG
1 GTTATTAAAGGCATTTCTGGCCAGAAACACC-TTTA
* *
23553837 GTTATTAAAGGCATTTTTGGCTAGAAACACC-TTA
1 GTTATTAAAGGCATTTCTGGCCAGAAACACCTTTA
** *
23553871 GTTATTAAAGGTGTTTCTAGCCAGAAACACCTT
1 GTTATTAAAGGCATTTCTGGCCAGAAACACCTT
23553904 GAATAATCCT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
34 28 0.49
35 1 0.02
36 28 0.49
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (35 bp):
GTTATTAAAGGCATTTCTGGCCAGAAACACCTTTA
Found at i:23556382 original size:10 final size:10
Alignment explanation
Indices: 23556367--23556398 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
23556357 ATACTCATAA
23556367 ATGAATATTT
1 ATGAATATTT
23556377 ATGAATATTT
1 ATGAATATTT
*
23556387 ATGAACATTT
1 ATGAATATTT
23556397 AT
1 AT
23556399 TTAATAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (10 bp):
ATGAATATTT
Found at i:23558837 original size:64 final size:64
Alignment explanation
Indices: 23558715--23558838 Score: 164
Period size: 64 Copynumber: 1.9 Consensus size: 64
23558705 CTTAAATTGA
* *
23558715 CAAAAATACCTTGAATAATCCTCTTAAATTTTTATGAGTAGATTATTGAAAGTGTTTTTTTTTC
1 CAAAAACACCTTGAATAATCCTCTTAAATTTTTATGAGTAGATTATTGAAAGTATTTTTTTTTC
* *
23558779 CAAAAACACCTTGAATAATCC-CTTTCAATTTTTATGA-TGGGATTATTG-AAGATATTTTTT
1 CAAAAACACCTTGAATAATCCTC-TTAAATTTTTATGAGT-AGATTATTGAAAG-TATTTTTT
23558839 AGCTACAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
63 5 0.09
64 48 0.91
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (64 bp):
CAAAAACACCTTGAATAATCCTCTTAAATTTTTATGAGTAGATTATTGAAAGTATTTTTTTTTC
Found at i:23560763 original size:21 final size:21
Alignment explanation
Indices: 23560739--23560783 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
23560729 CTTTGTATTT
* *
23560739 ATGATAATCTGAGCGAGAGAG
1 ATGATAATATGAGAGAGAGAG
**
23560760 ATGATGGTATGAGAGAGAGAG
1 ATGATAATATGAGAGAGAGAG
23560781 ATG
1 ATG
23560784 TAGAAAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.04, G:0.38, T:0.20
Consensus pattern (21 bp):
ATGATAATATGAGAGAGAGAG
Found at i:23561327 original size:22 final size:22
Alignment explanation
Indices: 23561289--23561351 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
23561279 TAAAATTAAA
*
23561289 TATTATATTT-TATTTTTTTATT
1 TATTA-ATTTATAATTTTTTATT
*
23561311 TATTAATTTATAATTTTATATT
1 TATTAATTTATAATTTTTTATT
23561333 TGA--AATTTAATAATTTTTT
1 T-ATTAATTT-ATAATTTTTT
23561352 TATTGTTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
21 9 0.26
22 25 0.71
23 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TATTAATTTATAATTTTTTATT
Found at i:23564343 original size:17 final size:17
Alignment explanation
Indices: 23564321--23564354 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
23564311 ATGAGACATC
23564321 AAAAAAGAATAAGCATT
1 AAAAAAGAATAAGCATT
*
23564338 AAAAAAGAATGAGCATT
1 AAAAAAGAATAAGCATT
23564355 GACAAGATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.15, T:0.18
Consensus pattern (17 bp):
AAAAAAGAATAAGCATT
Found at i:23565036 original size:18 final size:18
Alignment explanation
Indices: 23565013--23565073 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
23565003 TCCACCACAG
23565013 ATGTATCATCTACCTCAA
1 ATGTATCATCTACCTCAA
* ** *
23565031 ATGTATGC-TCCATTTTAA
1 ATGTAT-CATCTACCTCAA
* *
23565049 ATGTATCATTTACCACAA
1 ATGTATCATCTACCTCAA
23565067 ATGTATC
1 ATGTATC
23565074 CCCCACCATA
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
17 1 0.03
18 29 0.94
19 1 0.03
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (18 bp):
ATGTATCATCTACCTCAA
Found at i:23565086 original size:36 final size:36
Alignment explanation
Indices: 23565004--23565094 Score: 101
Period size: 36 Copynumber: 2.5 Consensus size: 36
23564994 CCTTAAATAT
* * * * *
23565004 CCACCACAGATGTATCATCTACCTCAAATGTATGCT
1 CCACCATAAATGTATCATCTACCACAAATGTATCCC
*** *
23565040 CCATTTTAAATGTATCATTTACCACAAATGTATCCC
1 CCACCATAAATGTATCATCTACCACAAATGTATCCC
23565076 CCACCATAAATGTATCATC
1 CCACCATAAATGTATCATC
23565095 CTCAAATATA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.33, C:0.29, G:0.08, T:0.31
Consensus pattern (36 bp):
CCACCATAAATGTATCATCTACCACAAATGTATCCC
Found at i:23574241 original size:356 final size:357
Alignment explanation
Indices: 23573580--23574330 Score: 1051
Period size: 356 Copynumber: 2.1 Consensus size: 357
23573570 AGGCATATAT
* * * *
23573580 CCTTTAATAATTCCTATCACAGTTTATAGATAATTAGTGAAGGTGGTTTCAGATAATAATGCCTT
1 CCTTTAATAATTCCTATCACAGTTTGTAGATAATTAGTGAAGCTGGTTTCAGATAACAACGCCTT
* *
23573645 TAATAATTTCCTTAAAAAAAGTTTTTTGGATTATTAAAGGTGTCTTTTATTATGAAAAGCCTTTA
66 TAATAATTTCCTTAAAAAAAGTTTTTCGGATTATTAAAGGCGTCTTTTATTATGAAAAGCCTTTA
* * *
23573710 ATATATCACGATGGTTATGAAAGGCATTTATTCAAAAAGTCACCTTCAATATACCTTTAAACTTT
131 ATATACCACGATGGTTATGAAAGGCATTTATTCAAAAAGGCACCTTCAATATACCTTTAAACTTA
*
23573775 GTAATCCATTACTGAAGGCATTTGTTAATAACAGACACCTTAAAAATTTTCTCACTAAAAATTTT
196 GTAATCCATTACTGAAGGCATTTATTAATAACAGACACCTTAAAAATTTTCTCACTAAAAATTTT
* * * * *
23573840 GAGAATCAGTAAAGGCATCTTCTACTATAAAATACGTTTTATATACCACCACATAAATTTTAACA
261 GAGAATCAGTAAAGGCATATTCTACTATAAAATACCTTCTATATACCACCACACAAATTCTAACA
*
23573905 TGGTTATTAAAGGCGTATACCCAAGAAAGATG
326 TGATTATTAAAGGCGTATACCCAAGAAAGATG
*
23573937 CCTTTAATAATTCCTATCACAGTTTGTATATAATTAGTGAAGACT-GTTGT-AGATAACAACGCC
1 CCTTTAATAATTCCTATCACAGTTTGTAGATAATTAGTGAAG-CTGGTT-TCAGATAACAACGCC
* * *
23574000 TTTAATAATTT-TTCTAAAAAAA-TTTTTCGGATTATTAAAGGCGTCTTTTATTATGACACGCCT
64 TTTAATAATTTCCT-TAAAAAAAGTTTTTCGGATTATTAAAGGCGTCTTTTATTATGAAAAGCCT
* * * ** * * *
23574063 TTAATATACCATGATGGTTATGGAAGGCGTTTATTTGAAAAGGCATCTTTAATTTACCTTTAAAC
128 TTAATATACCACGATGGTTATGAAAGGCATTTATTCAAAAAGGCACCTTCAATATACCTTTAAAC
** * * * **
23574128 TTAGTAATCCATTACTGAAGGTGTTTATTAATAACAGACGCCTTCAAAATTTTTTTGCTAAAAAT
193 TTAGTAATCCATTACTGAAGGCATTTATTAATAACAGACACCTTAAAAATTTTCTCACTAAAAAT
* * * * * *
23574193 TTTGAGAATTATTAAAGGCATATTCTAGTGTAAAATGCCTTCTATATACCGCCACACAAATTCTA
258 TTTGAGAATCAGTAAAGGCATATTCTACTATAAAATACCTTCTATATACCACCACACAAATTCTA
* *
23574258 ACATGATTATTGAAGGCGTATATCCAAGAAAGATG
323 ACATGATTATTAAAGGCGTATACCCAAGAAAGATG
*
23574293 CCTTTAATAATTTCTATCACAGTTTGTAGATAATTAGT
1 CCTTTAATAATTCCTATCACAGTTTGTAGATAATTAGT
23574331 AAAGGTAATT
Statistics
Matches: 346, Mismatches: 45, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
356 271 0.78
357 73 0.21
358 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (357 bp):
CCTTTAATAATTCCTATCACAGTTTGTAGATAATTAGTGAAGCTGGTTTCAGATAACAACGCCTT
TAATAATTTCCTTAAAAAAAGTTTTTCGGATTATTAAAGGCGTCTTTTATTATGAAAAGCCTTTA
ATATACCACGATGGTTATGAAAGGCATTTATTCAAAAAGGCACCTTCAATATACCTTTAAACTTA
GTAATCCATTACTGAAGGCATTTATTAATAACAGACACCTTAAAAATTTTCTCACTAAAAATTTT
GAGAATCAGTAAAGGCATATTCTACTATAAAATACCTTCTATATACCACCACACAAATTCTAACA
TGATTATTAAAGGCGTATACCCAAGAAAGATG
Found at i:23584020 original size:16 final size:18
Alignment explanation
Indices: 23583994--23584034 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
23583984 ATGCACACAT
*
23583994 TTTATTATTGATT-TTTA
1 TTTATTTTTGATTATTTA
23584011 -TTATTTTTGATTATTTA
1 TTTATTTTTGATTATTTA
23584028 TTTATTT
1 TTTATTT
23584035 AAAACTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 11 0.52
17 4 0.19
18 6 0.29
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTATTTTTGATTATTTA
Found at i:23584519 original size:17 final size:17
Alignment explanation
Indices: 23584497--23584531 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
23584487 ATCAAAAACT
23584497 TTTATTATATT-TTATTA
1 TTTATTAT-TTATTATTA
23584514 TTTATTATTTATTATTA
1 TTTATTATTTATTATTA
23584531 T
1 T
23584532 AAAACAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATTATTTATTATTA
Found at i:23586681 original size:49 final size:45
Alignment explanation
Indices: 23586623--23586888 Score: 171
Period size: 45 Copynumber: 5.9 Consensus size: 45
23586613 TTAAAAAAAA
* *
23586623 AAAAAGCTCCTTTAAGCAGAGGCTCAACAGCTTTAAAAATCTCATCTTG
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACA-ATTTAAAAA--T-ATCTTG
* *
23586672 AAAAAGCTCCTCTAAGTAGAGGCTCAACAATTTTAAAATATCTTG
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAATTTAAAAATATCTTG
* * ** *
23586717 AAAAAGCTCATCTCAGCAGAAACT---CAATCT----ATCA-C--G
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAATTTAAAAAT-ATCTTG
*
23586753 AAAAAGCTCCTATCAA-CAGAGGCTCAACAACTTT-AAAATATCTTG
1 AAAAAGCTCCTCT-AAGCAGAGGCTCAACAA-TTTAAAAATATCTTG
* * *
23586798 AAAAAGCTCATCTCAGCAAAGGCTCAACAACTTTAAAAAAATCTTATCTTCG
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAA-TTT--AAAAA---TATCTT-G
* *
23586850 -AAAAGCTCCTCTAAGTAGATGCTCAACAATTTTAAAAAT
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAA-TTTAAAAAT
23586889 CTCATCATGT
Statistics
Matches: 171, Mismatches: 26, Indels: 43
0.71 0.11 0.18
Matches are distributed among these distances:
36 18 0.11
37 1 0.01
38 3 0.02
39 4 0.02
40 2 0.01
42 6 0.04
43 3 0.02
44 1 0.01
45 54 0.32
46 2 0.01
48 11 0.06
49 32 0.19
51 33 0.19
52 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.26
Consensus pattern (45 bp):
AAAAAGCTCCTCTAAGCAGAGGCTCAACAATTTAAAAATATCTTG
Found at i:23586854 original size:51 final size:51
Alignment explanation
Indices: 23586791--23586887 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 51
23586781 AACTTTAAAA
*
23586791 TATCTTGAAAAAGCTCATCTCAGCAAAGGCTCAACAACTTTAAAAAAATCT
1 TATCTTGAAAAAGCTCATCTAAGCAAAGGCTCAACAACTTTAAAAAAATCT
* * * * *
23586842 TATCTTCG-AAAAGCTCCTCTAAGTAGATGCTCAACAATTTTAAAAA
1 TATCTT-GAAAAAGCTCATCTAAGCAAAGGCTCAACAACTTTAAAAA
23586888 TCTCATCATG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 38 0.97
52 1 0.03
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (51 bp):
TATCTTGAAAAAGCTCATCTAAGCAAAGGCTCAACAACTTTAAAAAAATCT
Found at i:23587776 original size:17 final size:17
Alignment explanation
Indices: 23587754--23587786 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23587744 TGAGTCATTA
23587754 TTTTTCATTTTTTTAAC
1 TTTTTCATTTTTTTAAC
23587771 TTTTTCATTTTTTTAA
1 TTTTTCATTTTTTTAA
23587787 GCAAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTCATTTTTTTAAC
Found at i:23587974 original size:24 final size:24
Alignment explanation
Indices: 23587942--23587989 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
23587932 TCATGTTCAT
23587942 TTGGAAGGATCCTTTTTAGCACTA
1 TTGGAAGGATCCTTTTTAGCACTA
*
23587966 TTGGAAGGATCTTTTTTAGCACTA
1 TTGGAAGGATCCTTTTTAGCACTA
23587990 AGTCTCCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (24 bp):
TTGGAAGGATCCTTTTTAGCACTA
Found at i:23596607 original size:16 final size:17
Alignment explanation
Indices: 23596582--23596621 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
23596572 TGCACACATT
23596582 TTATTATTGATT-TTTA
1 TTATTATTGATTATTTA
*
23596598 TTATTTTTGATTATTTA
1 TTATTATTGATTATTTA
23596615 TT-TTATT
1 TTATTATT
23596622 TAAAACTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (17 bp):
TTATTATTGATTATTTA
Found at i:23597886 original size:22 final size:24
Alignment explanation
Indices: 23597831--23597889 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
23597821 TTTTGTTTTT
* *
23597831 TTTTTTTTTGTATTTGATAAAAGG
1 TTTTTTTTTGAATTTGATAAAAGC
* *
23597855 TTATTTTTTGAATTTGGT-AAA-C
1 TTTTTTTTTGAATTTGATAAAAGC
23597877 TTTTTTTTTGAAT
1 TTTTTTTTTGAAT
23597890 CTATTTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 12 0.40
23 3 0.10
24 15 0.50
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.61
Consensus pattern (24 bp):
TTTTTTTTTGAATTTGATAAAAGC
Found at i:23598220 original size:25 final size:23
Alignment explanation
Indices: 23598186--23598233 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 23
23598176 GAAGAAGAAG
23598186 GAAAAAGAAAGAAAGAAAAAAAATA
1 GAAAAAGAAA-AAA-AAAAAAAATA
*
23598211 GAAAAAGAAAAAAAATAAAAATA
1 GAAAAAGAAAAAAAAAAAAAATA
23598234 ATAATGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.41
24 3 0.14
25 10 0.45
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.06
Consensus pattern (23 bp):
GAAAAAGAAAAAAAAAAAAAATA
Found at i:23598226 original size:17 final size:16
Alignment explanation
Indices: 23598187--23598231 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
23598177 AAGAAGAAGG
*
23598187 AAAAAGAAAGAAAGAAA
1 AAAAATAAA-AAAGAAA
23598204 AAAAATAGAAAAAGAAA
1 AAAAATA-AAAAAGAAA
23598221 AAAAATAAAAA
1 AAAAATAAAAA
23598232 TAATAATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 4 0.15
17 20 0.77
18 2 0.08
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.04
Consensus pattern (16 bp):
AAAAATAAAAAAGAAA
Found at i:23600765 original size:17 final size:17
Alignment explanation
Indices: 23600732--23600769 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
23600722 TCTTTCCCTC
*
23600732 TCTCTCTTTAGCTAATT
1 TCTCTCTTTAGCAAATT
23600749 TCTCTCTTTATG-AAATT
1 TCTCTCTTTA-GCAAATT
23600766 TCTC
1 TCTC
23600770 AATAATTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.18, C:0.24, G:0.05, T:0.53
Consensus pattern (17 bp):
TCTCTCTTTAGCAAATT
Found at i:23601886 original size:3 final size:3
Alignment explanation
Indices: 23601873--23602004 Score: 56
Period size: 3 Copynumber: 43.7 Consensus size: 3
23601863 AAGGAATGGA
* * * * *
23601873 AAT AA- AAT AAT AAT AAT AAT AAT AAG AAT AAG AAT AAT GAT ATT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
23601920 AAC AAC AAC AAT AAC AAT AAC AAC AAC AAT AAT AA- ATAT ATAT ACAGA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT A-A-T
**
23601968 AAT ACC AA- AGA- AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AA
23602005 CAACAACAAA
Statistics
Matches: 103, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
2 5 0.05
3 90 0.87
4 7 0.07
5 1 0.01
ACGTcount: A:0.65, C:0.08, G:0.04, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:23602045 original size:65 final size:65
Alignment explanation
Indices: 23601929--23602068 Score: 167
Period size: 65 Copynumber: 2.2 Consensus size: 65
23601919 CAACAACAAC
* * * *
23601929 AATAACAATAACAACAACAATAATAAATATATATACAGAAATACCAAAGAAATAATAATAATAAT
1 AATAATAATAACAACAACAATAATAAATATATATACAGAAATACCAAAGAAAGAAAAAAAATAAT
* * *
23601994 AATAATAATAACAACAACAA-ATATATATATATATATAGAAATA-CATGAGAAAGAAAAAAAATA
1 AATAATAATAACAACAACAATA-ATAAATATATATACAGAAATACCA-AAGAAAGAAAAAAAATA
23602057 AT
64 AT
* *
23602059 AGTGATAATA
1 AATAATAATA
23602069 TATCATAATA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
64 3 0.05
65 61 0.95
ACGTcount: A:0.64, C:0.08, G:0.06, T:0.23
Consensus pattern (65 bp):
AATAATAATAACAACAACAATAATAAATATATATACAGAAATACCAAAGAAAGAAAAAAAATAAT
Found at i:23602436 original size:114 final size:113
Alignment explanation
Indices: 23602223--23602619 Score: 447
Period size: 114 Copynumber: 3.5 Consensus size: 113
23602213 TGAATTTGAA
* * ** *
23602223 AAATGATTTGGACTGAGCCAAAATCGGGTGACCAGGATAAAACCACAAGTCAGAATGAAGTAACC
1 AAATGATCTGGACTGAGCCAAGATCAAGTGACCA-GATGAAACCACAAGTCA-AATGAAGTAACC
* * * *
23602288 AAGATCGAA-TTGAGGTAAAAAATGATTGGGACAAAACTATGAATCATGAG
64 AA-AACCAAGTCGAGGTAAAAAATGATTGGGACAAAACTATGAATCATAAG
* *
23602338 AAATGATCTGGACTGAGCTAAGAGCAAGTGACCGAGATGAAACCACAAGTCAAATGAAGTAACCA
1 AAATGATCTGGACTGAGCCAAGATCAAGTGACC-AGATGAAACCACAAGTCAAATGAAGTAACCA
* * * *
23602403 AAACCAAGTCGAGGTTAAAAATAATTGGGACAAAATTATGAATCATAAA
65 AAACCAAGTCGAGGTAAAAAATGATTGGGACAAAACTATGAATCATAAG
* ** ** * *
23602452 AAATGATCTGGACTGAGCCAAGTTCAAGTGACCAGGACAAAACCATGAGTCAAATAAAGCAACCA
1 AAATGATCTGGACTGAGCCAAGATCAAGTGACCA-GATGAAACCACAAGTCAAATGAAGTAACCA
* ** * **
23602517 AAGCCAAGTCGAGGTAAAAAATGATTGGGATGAAACCACCAATCATAAG
65 AAACCAAGTCGAGGTAAAAAATGATTGGGACAAAACTATGAATCATAAG
* *
23602566 AAAT-AGTCTGGACTGAGCCAAGATCAAGTGACTAGAATGAAACCACGAGTCAAA
1 AAATGA-TCTGGACTGAGCCAAGATCAAGTGACCAG-ATGAAACCACAAGTCAAA
23602620 ATAAAGCGAC
Statistics
Matches: 238, Mismatches: 39, Indels: 11
0.83 0.14 0.04
Matches are distributed among these distances:
113 7 0.03
114 187 0.79
115 43 0.18
116 1 0.00
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (113 bp):
AAATGATCTGGACTGAGCCAAGATCAAGTGACCAGATGAAACCACAAGTCAAATGAAGTAACCAA
AACCAAGTCGAGGTAAAAAATGATTGGGACAAAACTATGAATCATAAG
Found at i:23602663 original size:114 final size:113
Alignment explanation
Indices: 23602443--23602733 Score: 264
Period size: 114 Copynumber: 2.5 Consensus size: 113
23602433 CAAAATTATG
* * * *
23602443 AATCATAAAAAATGATCTGGACTGAGCCAAGTTCAAGTGACCAGGACAAAACCATGAGTCAAATA
1 AATCATAAGAAATG-TCTGGACTGAGCCAAGATCAAGTGACCAGAACAAAACCACGAGTCAAATA
* * ****
23602508 AAGCAACCAAAGCCAAGTCGAGGTAAAAAATGATTGGGATGAAACCACC
65 AAGCAACCAAAGCCAAGCCAAGGTAAAAAATGACCAAGATGAAACCACC
* **
23602557 AATCATAAGAAATAGTCTGGACTGAGCCAAGATCAAGTGACTAGAATGAAACCACGAGTCAAAAT
1 AATCATAAGAAAT-GTCTGGACTGAGCCAAGATCAAGTGACCAGAACAAAACCACGAGTC-AAAT
* * * * ***
23602622 AAAGCGA-C-AAGATCGAGCCAAGGTCAAAAATGACCAAGATGAAACCTTG
64 AAAGCAACCAAAG-CCAAGCCAAGGTAAAAAATGACCAAGATGAAACCACC
** ** * * *
23602671 AATCATAAGAAATGGTCTAAACTGAGTTAAAATCAAGTGATC-GAGACAAAACTACGAGTCAAA
1 AATCATAAGAAAT-GTCTGGACTGAGCCAAGATCAAGTGACCAGA-ACAAAACCACGAGTCAAA
23602734 AATAAAACGA
Statistics
Matches: 142, Mismatches: 31, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
113 8 0.06
114 123 0.87
115 11 0.08
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (113 bp):
AATCATAAGAAATGTCTGGACTGAGCCAAGATCAAGTGACCAGAACAAAACCACGAGTCAAATAA
AGCAACCAAAGCCAAGCCAAGGTAAAAAATGACCAAGATGAAACCACC
Found at i:23602935 original size:120 final size:118
Alignment explanation
Indices: 23602559--23603135 Score: 424
Period size: 121 Copynumber: 4.8 Consensus size: 118
23602549 AAACCACCAA
* *
23602559 TCATAAGAAAT-AGTCTGGACTGAGCCAAGATCA-AGTGACT-AGAATGAAACCACGAGTC-AAA
1 TCATAAGAAATGA-TCTGGACTGAGCTAAGATTAGA-TGACTGAG-ATGAAA-CACGAGTCAAAA
* * * * * * * * * *
23602620 ATAAAGCGA-CAAGATCGAGCCAAGGT---CAA-AAATGACCAAGATGAAACCTTGAA
62 ATGAAGCGACCAGGATCGAGTCAAGGTAAAAAATAAATGATCGA-ATAAAAACATGAG
* ** * * * **
23602673 TCATAAGAAATGGTCTAAACTGAGTTAAAATCA-AGTGA-TCGAGACAAAACTACGAGTCAAAAA
1 TCATAAGAAATGATCTGGACTGAGCTAAGATTAGA-TGACT-GAGATGAAAC-ACGAGTCAAAAA
* * * * * * * *
23602736 TAAAACGACCAGGATAGAATTAAAGGTAAAAAATAAATGACTGGAATGAAATCATGAG
63 TGAAGCGACCAGGATCG-AGTCAAGGTAAAAAATAAATGA-TCGAATAAAAACATGAG
* * * *
23602794 TCATAAGAAATGATCTAGACTGAGCCAAGATTAGGTGACTGAGATGAAATCATGAGTCAAAAATG
1 TCATAAGAAATGATCTGGACTGAGCTAAGATTAGATGACTGAGATGAAA-CACGAGTCAAAAATG
* * * * **
23602859 AAGTGACCAGGATTGAGTTAAGATAAAAAATAAATGATCGAGATAAAAACACAAG
65 AAGCGACCAGGATCGAGTCAAGGTAAAAAATAAATGATCGA-ATAAAAACATGAG
* * *
23602914 TCATAAGAAATGATTTGGACTGAGCTAAGGATTAGATGATTGAGATGAAACCACGAGTAAAAAAT
1 TCATAAGAAATGATCTGGACTGAGCTAA-GATTAGATGACTGAGATGAAA-CACGAGTCAAAAAT
* * * ** *
23602979 GAAGCAACTAGGATCGAGTCGAGGTCGAAAATAAATGATC-AAAAAGAAAGCATGAG
64 GAAGCGACCAGGATCGAGTCAAGGTAAAAAATAAATGATCGAATAA-AAA-CATGAG
* *
23603035 TCATAAAAAATGATCTGGACTGAGCTAAGATCAGATGACT-AGGATGAAACTACGAGTCAAAAAT
1 TCATAAGAAATGATCTGGACTGAGCTAAGATTAGATGACTGA-GATGAAAC-ACGAGTCAAAAAT
* * * *
23603099 GAAGTGACTAGGATCGAGTCGAGGTCAAAAATAAATG
64 GAAGCGACCAGGATCGAGTCAAGGTAAAAAATAAATG
23603136 TTCAAGATGA
Statistics
Matches: 371, Mismatches: 71, Indels: 36
0.78 0.15 0.08
Matches are distributed among these distances:
113 2 0.01
114 42 0.11
115 13 0.04
116 6 0.02
117 6 0.02
119 8 0.02
120 122 0.33
121 169 0.46
122 3 0.01
ACGTcount: A:0.46, C:0.13, G:0.22, T:0.19
Consensus pattern (118 bp):
TCATAAGAAATGATCTGGACTGAGCTAAGATTAGATGACTGAGATGAAACACGAGTCAAAAATGA
AGCGACCAGGATCGAGTCAAGGTAAAAAATAAATGATCGAATAAAAACATGAG
Found at i:23603112 original size:33 final size:32
Alignment explanation
Indices: 23603070--23603175 Score: 94
Period size: 32 Copynumber: 3.3 Consensus size: 32
23603060 TAAGATCAGA
23603070 TGACTAGGATGAAACTACGAGTCAAAAATGAAG
1 TGACTAGGATGAAACTACGAGTCAAAAAT-AAG
* *
23603103 TGACTAGGATCG--AGT-CGAGGTCAAAAATAAA
1 TGACTAGGAT-GAAACTACGA-GTCAAAAATAAG
* *
23603134 TG-TTCAAGATGAAACTACGAGTCAAAAATAAAG
1 TGACT-AGGATGAAACTACGAGTCAAAAAT-AAG
*
23603167 CGACTAGGA
1 TGACTAGGA
23603176 CCGAGTCGAG
Statistics
Matches: 56, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
30 2 0.04
31 11 0.20
32 22 0.39
33 19 0.34
34 2 0.04
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.19
Consensus pattern (32 bp):
TGACTAGGATGAAACTACGAGTCAAAAATAAG
Found at i:23603156 original size:120 final size:119
Alignment explanation
Indices: 23602759--23603161 Score: 427
Period size: 120 Copynumber: 3.4 Consensus size: 119
23602749 ATAGAATTAA
* ** * * * *
23602759 AGGTAAAAAATAAATGA-CTGGAATGAAATCATGAGTCATAAGAAATGATCTAGACTGAGCCAAG
1 AGGTCAAAAATAAATGATCAAG-ATGAAA-CACGAGTCATAAAAAATGATCTGGACTGAGCTAAG
* * * * **
23602823 ATTAGGTGACTGAGATGAAA-TCATGAGTCAAAAATGAAGTGACCAGGATTGAGTTA
64 ATTAGATGACTGAGATGAAACT-ACGAGTCAAAAATGAAGTGACTAGGATCGAGTCG
* * * * * * *
23602879 AGATAAAAAATAAATGATCGAGATAAAAACACAAGTCATAAGAAATGATTTGGACTGAGCTAAGG
1 AGGTCAAAAATAAATGATCAAGAT-GAAACACGAGTCATAAAAAATGATCTGGACTGAGCTAA-G
* * * **
23602944 ATTAGATGATTGAGATGAAACCACGAGTAAAAAATGAAGCAACTAGGATCGAGTCG
64 ATTAGATGACTGAGATGAAACTACGAGTCAAAAATGAAGTGACTAGGATCGAGTCG
* * * *
23603000 AGGTCGAAAATAAATGATCAAAAAGAAAGCATGAGTCATAAAAAATGATCTGGACTGAGCTAAGA
1 AGGTCAAAAATAAATGATCAAGATGAAA-CACGAGTCATAAAAAATGATCTGGACTGAGCTAAGA
*
23603065 TCAGATGACT-AGGATGAAACTACGAGTCAAAAATGAAGTGACTAGGATCGAGTCG
65 TTAGATGACTGA-GATGAAACTACGAGTCAAAAATGAAGTGACTAGGATCGAGTCG
*
23603120 AGGTCAAAAATAAATGTTCAAGATGAAACTACGAGTCA-AAAA
1 AGGTCAAAAATAAATGATCAAGATGAAAC-ACGAGTCATAAAA
23603162 TAAAGCGACT
Statistics
Matches: 234, Mismatches: 42, Indels: 15
0.80 0.14 0.05
Matches are distributed among these distances:
119 6 0.03
120 130 0.56
121 98 0.42
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (119 bp):
AGGTCAAAAATAAATGATCAAGATGAAACACGAGTCATAAAAAATGATCTGGACTGAGCTAAGAT
TAGATGACTGAGATGAAACTACGAGTCAAAAATGAAGTGACTAGGATCGAGTCG
Found at i:23603181 original size:64 final size:64
Alignment explanation
Indices: 23603077--23603199 Score: 210
Period size: 64 Copynumber: 1.9 Consensus size: 64
23603067 AGATGACTAG
* * *
23603077 GATGAAACTACGAGTCAAAAATGAAGTGACTAGGATCGAGTCGAGGTCAAAAATAAATGTTCAA
1 GATGAAACTACGAGTCAAAAATAAAGCGACTAGGACCGAGTCGAGGTCAAAAATAAATGTTCAA
*
23603141 GATGAAACTACGAGTCAAAAATAAAGCGACTAGGACCGAGTCGAGGTCGAAAATAAATG
1 GATGAAACTACGAGTCAAAAATAAAGCGACTAGGACCGAGTCGAGGTCAAAAATAAATG
23603200 ACCAAGATAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.18
Consensus pattern (64 bp):
GATGAAACTACGAGTCAAAAATAAAGCGACTAGGACCGAGTCGAGGTCAAAAATAAATGTTCAA
Found at i:23603206 original size:64 final size:64
Alignment explanation
Indices: 23603077--23603221 Score: 209
Period size: 64 Copynumber: 2.3 Consensus size: 64
23603067 AGATGACTAG
* * * **
23603077 GATGAAACTACGAGTCAAAAATGAAGTGACTAGGATCGAGTCGAGGTCAAAAATAAATGTTCAA
1 GATGAAACTACGAGTCAAAAATAAAGCGACTAGGACCGAGTCGAGGTCAAAAATAAATGACCAA
*
23603141 GATGAAACTACGAGTCAAAAATAAAGCGACTAGGACCGAGTCGAGGTCGAAAATAAATGACCAA
1 GATGAAACTACGAGTCAAAAATAAAGCGACTAGGACCGAGTCGAGGTCAAAAATAAATGACCAA
* * *
23603205 GATAAAACCACAAGTCA
1 GATGAAACTACGAGTCA
23603222 CAAGAAATGA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 72 1.00
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.17
Consensus pattern (64 bp):
GATGAAACTACGAGTCAAAAATAAAGCGACTAGGACCGAGTCGAGGTCAAAAATAAATGACCAA
Found at i:23603278 original size:184 final size:184
Alignment explanation
Indices: 23602956--23603289 Score: 456
Period size: 184 Copynumber: 1.8 Consensus size: 184
23602946 TAGATGATTG
* * *
23602956 AGATGAAACCACGAGTAAAAAATGAAGCAACTAGGATCGAGTCGAGGTCGAAAATAAATGATCAA
1 AGATGAAACCACGAGTAAAAAATAAAGCAACTAGGACCGAGTCGAGGTCGAAAATAAATGACCAA
* ** * * * *
23603021 AAAGAAAGCATGAGTCATAAAAAATGATCTGGACTGAGCTAAGATCAGATGACTAGGATGAAACT
66 AAAGAAACCACAAGTCACAAAAAATGATCTGGACTGAGCCAAGATCAGATGACTAGGACGAAACC
*
23603086 ACGAGTCAAAAATGAAGTGACTAGGATCGAGTCGAGGTCAAAAATAAATGTTCA
131 ACGAGTCAAAAATAAAGTGACTAGGATCGAGTCGAGGTCAAAAATAAATGTTCA
* * *
23603140 AGATGAAACTACGAGTCAAAAATAAAGCGACTAGGACCGAGTCGAGGTCGAAAATAAATGACCAA
1 AGATGAAACCACGAGTAAAAAATAAAGCAACTAGGACCGAGTCGAGGTCGAAAATAAATGACCAA
* * * * *
23603205 GATA-AAACCACAAGTCACAAGAAATGATCTGGACTGAGCCAAGATTAGGTGA-TAGAGGCGAAA
66 -AAAGAAACCACAAGTCACAAAAAATGATCTGGACTGAGCCAAGATCAGATGACTAG-GACGAAA
*
23603268 CCATGAGTCAAAAATAAAGTGA
129 CCACGAGTCAAAAATAAAGTGA
23603290 TCAAGACCGA
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
183 3 0.02
184 123 0.96
185 2 0.02
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.17
Consensus pattern (184 bp):
AGATGAAACCACGAGTAAAAAATAAAGCAACTAGGACCGAGTCGAGGTCGAAAATAAATGACCAA
AAAGAAACCACAAGTCACAAAAAATGATCTGGACTGAGCCAAGATCAGATGACTAGGACGAAACC
ACGAGTCAAAAATAAAGTGACTAGGATCGAGTCGAGGTCAAAAATAAATGTTCA
Found at i:23603316 original size:184 final size:184
Alignment explanation
Indices: 23602956--23603339 Score: 452
Period size: 184 Copynumber: 2.1 Consensus size: 184
23602946 TAGATGATTG
* * *
23602956 AGATGAAACCACGAGTAAAAAATGAAGCAACTAGGATCGAGTCGAGGTCGAAAATAAATGATCAA
1 AGATGAAACCACGAGTAAAAAATAAAGCAACTAGGACCGAGTCGAGGTCGAAAATAAATGACCAA
* ** * * * *
23603021 AAAGAAAGCATGAGTCATAAAAAATGATCTGGACTGAGCTAAGATCAGATGACTAGGATGAAACT
66 AAAGAAACCACAAGTCACAAAAAATGATCTGGACTGAGCCAAGATCAGATGACTAGGACGAAACC
* * * *
23603086 ACGAGTCAAAAATGAAGTGACTAGGATCGAGTCGAGGTCAAAAATAAATGTTCA
131 ACGAGTCAAAAATAAAGTGACTAAGACCGAGTCAAGGTCAAAAATAAATGTTCA
* * *
23603140 AGATGAAACTACGAGTCAAAAATAAAGCGACTAGGACCGAGTCGAGGTCGAAAATAAATGACCAA
1 AGATGAAACCACGAGTAAAAAATAAAGCAACTAGGACCGAGTCGAGGTCGAAAATAAATGACCAA
* * * * *
23603205 GATA-AAACCACAAGTCACAAGAAATGATCTGGACTGAGCCAAGATTAGGTGA-TAGAGGCGAAA
66 -AAAGAAACCACAAGTCACAAAAAATGATCTGGACTGAGCCAAGATCAGATGACTAG-GACGAAA
* * **
23603268 CCATGAGTCAAAAATAAAGTGA-TCAAGACCGAGTTAAGGTTGAAAATAAATGATT-A
129 CCACGAGTCAAAAATAAAGTGACT-AAGACCGAGTCAAGGTCAAAAATAAATG-TTCA
* *
23603324 GGACGAAACCACGAGT
1 AGATGAAACCACGAGT
23603340 TATAAGAAAT
Statistics
Matches: 167, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
183 4 0.02
184 159 0.95
185 4 0.02
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.17
Consensus pattern (184 bp):
AGATGAAACCACGAGTAAAAAATAAAGCAACTAGGACCGAGTCGAGGTCGAAAATAAATGACCAA
AAAGAAACCACAAGTCACAAAAAATGATCTGGACTGAGCCAAGATCAGATGACTAGGACGAAACC
ACGAGTCAAAAATAAAGTGACTAAGACCGAGTCAAGGTCAAAAATAAATGTTCA
Found at i:23603389 original size:120 final size:120
Alignment explanation
Indices: 23603145--23603431 Score: 294
Period size: 120 Copynumber: 2.4 Consensus size: 120
23603135 GTTCAAGATG
* * * *
23603145 AAACTACGAGTCAAAAATAAAGCGACTAGGACCGAGTCGAGGTCGAAAATAAATGACCAAGATAA
1 AAACCACGAGTCAAAAATAAAGCGACTAAGACCGAGTCAAGGTCGAAAATAAATGACCAAGACAA
* * * * *
23603210 AACCACAAGTCACAAGAAATGATCTGGACTGAGCCAAGATTAGGTGATAGAGGCG
66 AACCACAAGTCACAAGAAATGATCAGGACTGAGCCAAAATCAGGTGATACAGGCA
* * * * ** * *
23603265 AAACCATGAGTCAAAAATAAAGTGA-TCAAGACCGAGTTAAGGTTGAAAATAAATGATTAGGACG
1 AAACCACGAGTCAAAAATAAAGCGACT-AAGACCGAGTCAAGGTCGAAAATAAATGACCAAGACA
* * *
23603329 AAACCACGAGTTATAAGAAATGATCAGGACTGAGCCAAAATCAGGT-A-ACCAGGACA
65 AAACCACAAGTCACAAGAAATGATCAGGACTGAGCCAAAATCAGGTGATA-CAGG-CA
* ** *
23603385 AAACCACGAGTCAAAAATGAAA-CAACTAAGACTAAGTCAACGTCGAA
1 AAACCACGAGTCAAAAAT-AAAGCGACTAAGACCGAGTCAAGGTCGAA
23603432 GATGGATGAC
Statistics
Matches: 134, Mismatches: 28, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
118 1 0.01
119 5 0.04
120 124 0.93
121 4 0.03
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.16
Consensus pattern (120 bp):
AAACCACGAGTCAAAAATAAAGCGACTAAGACCGAGTCAAGGTCGAAAATAAATGACCAAGACAA
AACCACAAGTCACAAGAAATGATCAGGACTGAGCCAAAATCAGGTGATACAGGCA
Found at i:23603692 original size:30 final size:31
Alignment explanation
Indices: 23603636--23603693 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
23603626 GCAAAGATAC
**
23603636 AAGATTCGCTAAGATTTTTAGATTCGTATGA
1 AAGATTCGCTAAGATTTCAAGATTCGTATGA
*
23603667 AAGATTCG-TAAGATTTCAAGTTTCGTA
1 AAGATTCGCTAAGATTTCAAGATTCGTA
23603694 AAGGTTTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 16 0.67
31 8 0.33
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (31 bp):
AAGATTCGCTAAGATTTCAAGATTCGTATGA
Found at i:23604726 original size:10 final size:9
Alignment explanation
Indices: 23604713--23604737 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
23604703 AATTTTGTAA
23604713 TTTTTTTCT
1 TTTTTTTCT
23604722 TTTTTTTCT
1 TTTTTTTCT
23604731 TTTTTTT
1 TTTTTTT
23604738 GCATAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:23608469 original size:7 final size:7
Alignment explanation
Indices: 23608457--23608489 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
23608447 TAAGACTTAC
23608457 TTTTTAT
1 TTTTTAT
23608464 TTTTTAT
1 TTTTTAT
23608471 TTTTTAT
1 TTTTTAT
23608478 TTTTTAT
1 TTTTTAT
23608485 TTTTT
1 TTTTT
23608490 TAAGAATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:23608752 original size:13 final size:14
Alignment explanation
Indices: 23608734--23608769 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
23608724 AGTTAAGAAT
23608734 AAAATAAAAT-AAA
1 AAAATAAAATGAAA
23608747 AAAATAAAATGAAA
1 AAAATAAAATGAAA
23608761 AAAATAAAA
1 AAAATAAAA
23608770 CCTGCGATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (14 bp):
AAAATAAAATGAAA
Found at i:23609635 original size:3 final size:3
Alignment explanation
Indices: 23609627--23609721 Score: 70
Period size: 3 Copynumber: 31.3 Consensus size: 3
23609617 GAACGGAAAT
* * *
23609627 ATA ATA ATA ATA ATA ATA ATA ATA ACA ATAA ATA TATA TACA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA -ATA -ATA ATA ATA
** * *
23609675 CCA A-A GA-A ATA ATA ATA ATA ATA ATA AGA GTA ATA AT- ATA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23609718 ATA A
1 ATA A
23609722 CAACAAATAT
Statistics
Matches: 75, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
2 4 0.05
3 62 0.83
4 9 0.12
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:23609757 original size:72 final size:71
Alignment explanation
Indices: 23609634--23609773 Score: 219
Period size: 72 Copynumber: 2.0 Consensus size: 71
23609624 AATATAATAA
*
23609634 TAATAATAATAATAATAACAATAAATATATATACAAAAATACCAAAGAAATAATAATAATAATAA
1 TAATAATAATAATAATAACAACAAATATATATACAAAAATACCAAAGAAATAATAATAATAATAA
23609699 TAAGAG
66 TAAGAG
* * *
23609705 TAATAAT-ATAATAATAACAACAAATATATATATATAGAAATACCATAGAAATACTAATAATAAT
1 TAATAATAATAATAATAACAACAAATATATATACA-A-AAATACCAAAGAAATAATAATAATAAT
23609769 AATAA
64 AATAA
23609774 TGATGATGAT
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
70 25 0.40
71 8 0.13
72 30 0.48
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (71 bp):
TAATAATAATAATAATAACAACAAATATATATACAAAAATACCAAAGAAATAATAATAATAATAA
TAAGAG
Found at i:23612163 original size:17 final size:17
Alignment explanation
Indices: 23612141--23612176 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
23612131 TATAAATTTA
* *
23612141 ATAAAATTTAAAAATAT
1 ATAAAATTAAAAAAAAT
23612158 ATAAAATTAAAAAAAAT
1 ATAAAATTAAAAAAAAT
23612175 AT
1 AT
23612177 TTTTGTATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAAATTAAAAAAAAT
Found at i:23627500 original size:16 final size:17
Alignment explanation
Indices: 23627474--23627508 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
23627464 TTTTGTTTTC
23627474 TTTTCATCTTTTCATTT
1 TTTTCATCTTTTCATTT
*
23627491 TTTTCA-CTTTTTATTT
1 TTTTCATCTTTTCATTT
23627507 TT
1 TT
23627509 AATTAACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTCATCTTTTCATTT
Found at i:23627760 original size:44 final size:42
Alignment explanation
Indices: 23627683--23628032 Score: 217
Period size: 40 Copynumber: 8.4 Consensus size: 42
23627673 CTCAAATAAC
* *
23627683 ATAAAAA-CTCCTCTAAATAGAGGCTTC-ACGACTTTGAAAAA
1 ATAAAAAGCTCCTTTAAATAGAGGC-TCAATGACTTTGAAAAA
*
23627724 GTAAACAATGCTCCTTTAAATAGAGGCTCAATGACTTTAGAAAAA
1 ATAAA-AA-GCTCCTTTAAATAGAGGCTCAATGACTTT-GAAAAA
** *
23627769 ATAAATCAAGCT-CTTCTAAATAGAGGCTCAACAACTTTG-AACA
1 ATAAA--AAGCTCCTT-TAAATAGAGGCTCAATGACTTTGAAAAA
* * *
23627812 AT-AAAGGCTCCTCTAAATAGAGACTCAATGACTTT-AAAAA
1 ATAAAAAGCTCCTTTAAATAGAGGCTCAATGACTTTGAAAAA
* * * *
23627852 ATAAAAAGCTCTTTTAAACAGAGGCAC-ATCAACTTTG-AAAA
1 ATAAAAAGCTCCTTTAAATAGAGGCTCAAT-GACTTTGAAAAA
* * * * ** *
23627893 A-CAAAGGCTCCTTTAAATAGAAGCACAACAACTTT-AGAAA
1 ATAAAAAGCTCCTTTAAATAGAGGCTCAATGACTTTGAAAAA
* **
23627933 AT-AAAAGACT-TTTCTAAATAGAGG-TACAACAACTTTG-AAAA
1 ATAAAAAG-CTCCTT-TAAATAGAGGCT-CAATGACTTTGAAAAA
* * * ** *
23627974 AT-AAAAGCTCCTCTAAACAGAGGCACAACAACTTTAAAAAA
1 ATAAAAAGCTCCTTTAAATAGAGGCTCAATGACTTTGAAAAA
* *
23628015 ATAAAAAACTCCTCTAAA
1 ATAAAAAGCTCCTTTAAA
23628033 CAAAAGCACA
Statistics
Matches: 248, Mismatches: 38, Indels: 45
0.75 0.11 0.14
Matches are distributed among these distances:
40 87 0.35
41 73 0.29
42 18 0.07
43 7 0.03
44 27 0.11
45 33 0.13
46 3 0.01
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (42 bp):
ATAAAAAGCTCCTTTAAATAGAGGCTCAATGACTTTGAAAAA
Found at i:23627888 original size:81 final size:82
Alignment explanation
Indices: 23627733--23628101 Score: 343
Period size: 81 Copynumber: 4.5 Consensus size: 82
23627723 AGTAAACAAT
* * * ** * *
23627733 GCTCCTTTAAATAGAGGCTCAATGACTTTAGAAAAAATAAATCAAGCTCTTCTAAATAGAGGCTC
1 GCTCCTCTAAATAGAGACACAACAACTTTA-AAAAAATAAA--AAGCTCTTCTAAACAGAGGCAC
*
23627798 AACAACTTTGAACAATAAAG
63 AACAACTTTGAAAAATAAAG
* ** * *
23627818 GCTCCTCTAAATAGAGACTCAATGACTTT-AAAAAATAAAAAGCTCTTTTAAACAGAGGCACATC
1 GCTCCTCTAAATAGAGACACAACAACTTTAAAAAAATAAAAAGCTCTTCTAAACAGAGGCACAAC
*
23627882 AACTTTGAAAAACAAAG
66 AACTTTGAAAAATAAAG
* * * * *
23627899 GCTCCTTTAAATAGA-AGCACAACAACTTT-AGAAAAT-AAAAGACTTTTCTAAATAGAGGTACA
1 GCTCCTCTAAATAGAGA-CACAACAACTTTAAAAAAATAAAAAG-CTCTTCTAAACAGAGGCACA
*
23627961 ACAACTTTGAAAAATAAAA
64 ACAACTTTGAAAAATAAAG
* * * * * *
23627980 GCTCCTCTAAACAGAGGCACAACAACTTTAAAAAAATAAAAAACTCCTCTAAACAAAAGCACAAC
1 GCTCCTCTAAATAGAGACACAACAACTTTAAAAAAATAAAAAGCTCTTCTAAACAGAGGCACAAC
23628045 AACTTT-AGAAAATAAAAG
66 AACTTTGA-AAAAT-AAAG
* * * ** * *
23628063 GCTCTTCTAAACAAAGGTATAACAACTTTAGAAAAATAA
1 GCTCCTCTAAATAGAGACACAACAACTTTAAAAAAATAA
23628102 CAGCTCCTCG
Statistics
Matches: 240, Mismatches: 37, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
80 6 0.03
81 123 0.51
82 33 0.14
83 51 0.21
85 27 0.11
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.23
Consensus pattern (82 bp):
GCTCCTCTAAATAGAGACACAACAACTTTAAAAAAATAAAAAGCTCTTCTAAACAGAGGCACAAC
AACTTTGAAAAATAAAG
Found at i:23627893 original size:41 final size:41
Alignment explanation
Indices: 23627683--23628110 Score: 325
Period size: 41 Copynumber: 10.3 Consensus size: 41
23627673 CTCAAATAAC
* *
23627683 ATAAAAA-CTCCTCTAAATAGAGGCTTC-ACGACTTTGAAAA
1 ATAAAAAGCTCCTCTAAATAGAGGC-ACAACAACTTTGAAAA
* * **
23627723 AGTAAACAATGCTCCTTTAAATAGAGGCTCAATGACTTTAGAAAAA
1 A-TAAA-AA-GCTCCTCTAAATAGAGGCACAACAACTTT-G-AAAA
* * *
23627769 ATAAATCAAGCTCTTCTAAATAGAGGCTCAACAACTTTGAACA
1 ATAAA--AAGCTCCTCTAAATAGAGGCACAACAACTTTGAAAA
* * * ** *
23627812 AT-AAAGGCTCCTCTAAATAGAGACTCAATGACTTTAAAAA
1 ATAAAAAGCTCCTCTAAATAGAGGCACAACAACTTTGAAAA
* * * *
23627852 ATAAAAAGCTCTTTTAAACAGAGGCACATCAACTTTGAAAA
1 ATAAAAAGCTCCTCTAAATAGAGGCACAACAACTTTGAAAA
* * * *
23627893 A-CAAAGGCTCCTTTAAATAGAAGCACAACAACTTT-AGAAA
1 ATAAAAAGCTCCTCTAAATAGAGGCACAACAACTTTGA-AAA
** *
23627933 AT-AAAAGACTTTTCTAAATAGAGGTACAACAACTTTGAAAA
1 ATAAAAAG-CTCCTCTAAATAGAGGCACAACAACTTTGAAAA
* *
23627974 AT-AAAAGCTCCTCTAAACAGAGGCACAACAACTTTAAAAAA
1 ATAAAAAGCTCCTCTAAATAGAGGCACAACAACTTT-GAAAA
* * * *
23628015 ATAAAAAACTCCTCTAAACAAAAGCACAACAACTTT-AGAAA
1 ATAAAAAGCTCCTCTAAATAGAGGCACAACAACTTTGA-AAA
* * * * * *
23628056 ATAAAAGGCTCTTCTAAACAAAGGTATAACAACTTTAGAAAA
1 ATAAAAAGCTCCTCTAAATAGAGGCACAACAACTTT-GAAAA
*
23628098 AT-AACAGCTCCTC
1 ATAAAAAGCTCCTC
23628111 GACAATTATA
Statistics
Matches: 317, Mismatches: 53, Indels: 35
0.78 0.13 0.09
Matches are distributed among these distances:
39 1 0.00
40 93 0.29
41 113 0.36
42 40 0.13
43 8 0.03
44 24 0.08
45 30 0.09
46 8 0.03
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23
Consensus pattern (41 bp):
ATAAAAAGCTCCTCTAAATAGAGGCACAACAACTTTGAAAA
Found at i:23628361 original size:21 final size:21
Alignment explanation
Indices: 23628328--23628377 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
23628318 GCAAGACTCG
*
23628328 CATCCAACA-TTTAAAGATTCT
1 CATCCAA-ATTTTAAAGATTCA
* *
23628349 CATTCAAATTTTAGAGATTCA
1 CATCCAAATTTTAAAGATTCA
23628370 CATCCAAA
1 CATCCAAA
23628378 AGTTCAAAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (21 bp):
CATCCAAATTTTAAAGATTCA
Found at i:23628415 original size:20 final size:20
Alignment explanation
Indices: 23628378--23628416 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23628368 CACATCCAAA
**
23628378 AGTTCAAAGCTTTTCATTTG
1 AGTTCAAAGCTTCACATTTG
*
23628398 AGTTCAAAGGTTCACATTT
1 AGTTCAAAGCTTCACATTT
23628417 AGACAAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (20 bp):
AGTTCAAAGCTTCACATTTG
Found at i:23628552 original size:109 final size:107
Alignment explanation
Indices: 23628348--23628553 Score: 243
Period size: 109 Copynumber: 1.9 Consensus size: 107
23628338 TTAAAGATTC
* **
23628348 TCATTCAAATTTTAGAGATTCACATCCAAAAGTTCAAAGCTTTTCATTTGAGTTCAAAGGTTCAC
1 TCATTCAAATTTTAGAGATTCACATCCAAAAGTTCAAAACTTTTCATTCAAGTTCAAAGGTTCAC
**** * * *
23628413 ATTTAGACAAATTTGGGGTTCACATCCAAAAGGTTTAAGCTATT
66 ATTTAG--AAATTTCACATTAAAACCCAAAAGGTTTAAGCTATT
* *
23628457 TCATTCAAATTTTGGAGATTCACATCCAAAAGTTTAAAACTTTTCATTCAAGTTCAAAGGTTCAC
1 TCATTCAAATTTTAGAGATTCACATCCAAAAGTTCAAAACTTTTCATTCAAGTTCAAAGGTTCAC
*
23628522 ATTTAG-AGTTTCACATCTAAAAGCCTCAAAAG
66 ATTTAGAAATTTCACAT-TAAAA-CC-CAAAAG
23628554 TTCTTATTTA
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
106 5 0.06
107 3 0.04
108 1 0.01
109 72 0.89
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.34
Consensus pattern (107 bp):
TCATTCAAATTTTAGAGATTCACATCCAAAAGTTCAAAACTTTTCATTCAAGTTCAAAGGTTCAC
ATTTAGAAATTTCACATTAAAACCCAAAAGGTTTAAGCTATT
Found at i:23628591 original size:22 final size:22
Alignment explanation
Indices: 23628550--23628622 Score: 71
Period size: 23 Copynumber: 3.4 Consensus size: 22
23628540 AAAAGCCTCA
*
23628550 AAAG-TTCTTATTT-AAAACTT
1 AAAGATTCTCATTTGAAAACTT
23628570 AAAGATTCTCATTTGAAAACTT
1 AAAGATTCTCATTTGAAAACTT
* *
23628592 CAAA-ATTCCTCATTTGAGAACTC
1 -AAAGATT-CTCATTTGAAAACTT
*
23628615 AAAAATTC
1 AAAGATTC
23628623 AAAGATTCTC
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
20 4 0.09
21 8 0.18
22 14 0.31
23 19 0.42
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (22 bp):
AAAGATTCTCATTTGAAAACTT
Found at i:23628607 original size:23 final size:22
Alignment explanation
Indices: 23628547--23628618 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 22
23628537 TCTAAAAGCC
*
23628547 TCAAAAGTTCTTATTT-AAAACT
1 TCAAAA-TTCTCATTTGAAAACT
23628569 T-AAAGATTCTCATTTGAAAACT
1 TCAAA-ATTCTCATTTGAAAACT
*
23628591 TCAAAATTCCTCATTTGAGAAC-
1 TCAAAATT-CTCATTTGAAAACT
23628613 TCAAAA
1 TCAAAA
23628619 ATTCAAAGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
21 11 0.25
22 18 0.41
23 15 0.34
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (22 bp):
TCAAAATTCTCATTTGAAAACT
Found at i:23629159 original size:62 final size:62
Alignment explanation
Indices: 23629000--23629173 Score: 183
Period size: 62 Copynumber: 2.8 Consensus size: 62
23628990 AGCTTTTTAG
* * * * * *
23629000 CACTAGCCAGTTTAGAACAAATTCTAT-CTTCTATCACTTGGTCACTACTTATAGGCTTCTCAA
1 CACTAGCCA-TTTAGAACAAATTTTGTCCTT-TATCACTTGATCACCAATCATAGGCTTCTCAA
* ** *
23629063 CACTAGCCA-TTAGAATAAATTTTGTCCTCCATCACTT-ATCACCAATCATAGGTTTCTCAA
1 CACTAGCCATTTAGAACAAATTTTGTCCTTTATCACTTGATCACCAATCATAGGCTTCTCAA
* * *
23629123 CACTAACCATTTTAGAACAAATTTTGTCCTTTATCACTTGGTCATCAATCA
1 CACTAGCCA-TTTAGAACAAATTTTGTCCTTTATCACTTGATCACCAATCA
23629174 NNNNNNNNNN
Statistics
Matches: 91, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
60 26 0.29
61 20 0.22
62 27 0.30
63 18 0.20
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.35
Consensus pattern (62 bp):
CACTAGCCATTTAGAACAAATTTTGTCCTTTATCACTTGATCACCAATCATAGGCTTCTCAA
Found at i:23630942 original size:9 final size:11
Alignment explanation
Indices: 23630914--23630963 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
23630904 TTGCTTCAGA
23630914 TCTCTCTTTTT
1 TCTCTCTTTTT
23630925 TCTCTCTTTTT
1 TCTCTCTTTTT
*
23630936 TCCCT-TTTTAT
1 TCTCTCTTTT-T
*
23630947 TTTCTCTTTCTT
1 TCTCTCTTT-TT
23630959 TCTCT
1 TCTCT
23630964 AGAAATCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
10 4 0.12
11 19 0.59
12 8 0.25
13 1 0.03
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (11 bp):
TCTCTCTTTTT
Found at i:23631556 original size:18 final size:19
Alignment explanation
Indices: 23631533--23631579 Score: 78
Period size: 18 Copynumber: 2.5 Consensus size: 19
23631523 GGTTTCATAT
*
23631533 AAAGTAAAAACACAC-TAA
1 AAAGTAAAAACACACAAAA
23631551 AAAGTAAAAACACACAAAA
1 AAAGTAAAAACACACAAAA
23631570 AAAGTAAAAA
1 AAAGTAAAAA
23631580 TATTTAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.72, C:0.13, G:0.06, T:0.09
Consensus pattern (19 bp):
AAAGTAAAAACACACAAAA
Found at i:23632242 original size:10 final size:10
Alignment explanation
Indices: 23632227--23632260 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
23632217 TTGTAAAGTC
23632227 GGTGAGAGGT
1 GGTGAGAGGT
23632237 GGTGAGAGGT
1 GGTGAGAGGT
* *
23632247 GGAGAGAGTT
1 GGTGAGAGGT
23632257 GGTG
1 GGTG
23632261 GGATGTGGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.59, T:0.21
Consensus pattern (10 bp):
GGTGAGAGGT
Found at i:23632259 original size:20 final size:20
Alignment explanation
Indices: 23632230--23632270 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23632220 TAAAGTCGGT
23632230 GAGAGGTGGTGAGAGGTGGA
1 GAGAGGTGGTGAGAGGTGGA
* * *
23632250 GAGAGTTGGTGGGATGTGGA
1 GAGAGGTGGTGAGAGGTGGA
23632270 G
1 G
23632271 GTTAAGCTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.59, T:0.20
Consensus pattern (20 bp):
GAGAGGTGGTGAGAGGTGGA
Found at i:23632596 original size:64 final size:60
Alignment explanation
Indices: 23632450--23632601 Score: 153
Period size: 64 Copynumber: 2.4 Consensus size: 60
23632440 ACCTCTTTCA
* * * * *
23632450 AAAATTTTTTGTATAGATTATTGAAAGTATTTTGGCCAAAATCACCATCAATTATCCTTTC
1 AAAATTTTTTG-ATGGATTATTGAAGGCATTTTGGCCAAAATCACCATCAATAATCCTTCC
* * * *
23632511 AAATTTTTTATGAGGGATTATTGAAGGCATTTTTGGCTGAAAA-CACCTTCAATAATCCCTCTCC
1 AAAATTTTT-TGATGGATTATTGAAGGCA-TTTTGGC-CAAAATCACCATCAATAAT-CCT-TCC
23632575 AAAATTTTTTGAATGGATTATTGAAGG
1 AAAATTTTTTG-ATGGATTATTGAAGG
23632602 TATATTTAGT
Statistics
Matches: 74, Mismatches: 11, Indels: 9
0.79 0.12 0.10
Matches are distributed among these distances:
61 21 0.28
62 20 0.27
63 9 0.12
64 24 0.32
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (60 bp):
AAAATTTTTTGATGGATTATTGAAGGCATTTTGGCCAAAATCACCATCAATAATCCTTCC
Found at i:23635854 original size:6 final size:6
Alignment explanation
Indices: 23635845--23635874 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
23635835 TTTTTGGCCA
23635845 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
23635875 TTTGTGCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:23638168 original size:19 final size:17
Alignment explanation
Indices: 23638133--23638174 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
23638123 AAAACTTACA
23638133 ATATAAAATATGAATAT
1 ATATAAAATATGAATAT
23638150 GATATGAAAATAT-ATATAT
1 -ATAT-AAAATATGA-ATAT
23638169 ATATAA
1 ATATAA
23638175 GTAATACGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.09
18 9 0.41
19 11 0.50
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (17 bp):
ATATAAAATATGAATAT
Found at i:23640598 original size:28 final size:28
Alignment explanation
Indices: 23640558--23640615 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
23640548 AATTGAGTTA
23640558 AGCATAAGTAATCTCTTTTAAGTATTGG
1 AGCATAAGTAATCTCTTTTAAGTATTGG
23640586 AGCATAAGTAATCTCTTTTAAGTATTGG
1 AGCATAAGTAATCTCTTTTAAGTATTGG
23640614 AG
1 AG
23640616 TGGGTTAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (28 bp):
AGCATAAGTAATCTCTTTTAAGTATTGG
Found at i:23645126 original size:19 final size:19
Alignment explanation
Indices: 23645102--23645143 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
23645092 GAGCCGTTCA
*
23645102 TTTTTTATATTTTATTTAT
1 TTTTTTATATGTTATTTAT
*
23645121 TTTTTTATGTGTTATTTAT
1 TTTTTTATATGTTATTTAT
23645140 TTTT
1 TTTT
23645144 AGGAGTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.79
Consensus pattern (19 bp):
TTTTTTATATGTTATTTAT
Found at i:23645297 original size:62 final size:61
Alignment explanation
Indices: 23645199--23645338 Score: 158
Period size: 61 Copynumber: 2.3 Consensus size: 61
23645189 AAAATAAAAT
* * * **
23645199 AATAAAAATTTTTCAAAAAGAAATATTTTTGAGAAAAAGTT-AGAAGTACCAATTTTTCTTAAA
1 AATAAAAA-TTTTAAAAAAGAAACATTTTAGAG-AAAAGTTGA-AAGTACCAATTTCCCTTAAA
* *
23645262 AATAAAAATTATAAAAAAGAAACATTTTA-AGGAAAAGTTGAAAGTATCAATTTCCCTTAAA
1 AATAAAAATTTTAAAAAAGAAACATTTTAGA-GAAAAGTTGAAAGTACCAATTTCCCTTAAA
*
23645323 AATAAAATTTTTAAAA
1 AATAAAAATTTTAAAA
23645339 TAAAAATTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
61 39 0.59
62 19 0.29
63 8 0.12
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (61 bp):
AATAAAAATTTTAAAAAAGAAACATTTTAGAGAAAAGTTGAAAGTACCAATTTCCCTTAAA
Found at i:23645501 original size:60 final size:58
Alignment explanation
Indices: 23645358--23645570 Score: 266
Period size: 57 Copynumber: 3.6 Consensus size: 58
23645348 TCAAGAAAGG
* * * *
23645358 TATTTTAAGGAAAAGTTGAAAATATCAAATTTCCTTGAAATTAAAACTT-AAAAAAAA
1 TATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTCAAAAAAAA
* * *
23645415 TATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAGATTAAAATTTCAAAAAAAA
1 TATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTCAAAAAAAA
* * * * * * *
23645473 TACATTTTGAGGAAAAGTTGGAACTATCAATTTTTCTTAAAAATAAAATTATCAAGAAAAG
1 T--ATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATT-TCAAAAAAAA
23645534 TATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 TATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
23645571 TATAAAAGCA
Statistics
Matches: 133, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
57 42 0.32
58 9 0.07
59 32 0.24
60 41 0.31
61 9 0.07
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (58 bp):
TATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTCAAAAAAAA
Found at i:23645560 original size:59 final size:59
Alignment explanation
Indices: 23645335--23645570 Score: 264
Period size: 60 Copynumber: 4.0 Consensus size: 59
23645325 TAAAATTTTT
** * * *
23645335 AAAATAAAAATTATCAAGAAAGGTATTTTAAGGAAAAGTTGAAAATATCAAATTTCCTTG
1 AAAAT-AAAATTATCAAGAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* * *
23645395 AAATTAAAACTTA--AA-AAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAATAAAA-TTATCAAGAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* * * * * * *
23645452 AGATTAAAATT-TCAAAAAAAATACATTTTGAGGAAAAGTTGGAACTATCAATTTTTCTTA
1 AAAATAAAATTATCAAGAAAAAT--ATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
*
23645512 AAAATAAAATTATCAAGAAAAGTATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAATAAAATTATCAAGAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
23645571 TATAAAAGCA
Statistics
Matches: 148, Mismatches: 21, Indels: 15
0.80 0.11 0.08
Matches are distributed among these distances:
56 2 0.01
57 45 0.30
58 8 0.05
59 36 0.24
60 48 0.32
61 9 0.06
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (59 bp):
AAAATAAAATTATCAAGAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
Found at i:23661863 original size:19 final size:21
Alignment explanation
Indices: 23661841--23661883 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
23661831 CATTTTCAAC
*
23661841 TTTTAAT-TTTGAAATCAT-T
1 TTTTAATGTTTCAAATCATAT
*
23661860 TTTTTATGTTTCAAATCATAT
1 TTTTAATGTTTCAAATCATAT
23661881 TTT
1 TTT
23661884 CAAACTCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 10 0.50
21 4 0.20
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (21 bp):
TTTTAATGTTTCAAATCATAT
Found at i:23663906 original size:3 final size:3
Alignment explanation
Indices: 23663898--23663940 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
23663888 TATATTTTTG
23663898 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
23663941 CATTTCTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23664373 original size:12 final size:11
Alignment explanation
Indices: 23664356--23664424 Score: 95
Period size: 11 Copynumber: 6.3 Consensus size: 11
23664346 GATTTAGGAA
23664356 TTTTTTTGGATT
1 TTTTTTTGGA-T
23664368 TTTTTTTGGAT
1 TTTTTTTGGAT
23664379 TTTTTTTGGAT
1 TTTTTTTGGAT
23664390 TTTTTTTGGA-
1 TTTTTTTGGAT
*
23664400 TTTTTTTGGGT
1 TTTTTTTGGAT
* *
23664411 TTTTCTAGGAT
1 TTTTTTTGGAT
23664422 TTT
1 TTT
23664425 GGAAGAACTT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
10 9 0.17
11 33 0.63
12 10 0.19
ACGTcount: A:0.09, C:0.01, G:0.19, T:0.71
Consensus pattern (11 bp):
TTTTTTTGGAT
Found at i:23664833 original size:12 final size:12
Alignment explanation
Indices: 23664812--23664849 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
23664802 TTTTTTTTCA
*
23664812 TTTTATATTTAT
1 TTTTAAATTTAT
23664824 TTTTAAATTTAT
1 TTTTAAATTTAT
*
23664836 TTTT-ATTTTAT
1 TTTTAAATTTAT
23664847 TTT
1 TTT
23664850 AACCCATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTAAATTTAT
Found at i:23665057 original size:21 final size:22
Alignment explanation
Indices: 23665021--23665063 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
23665011 AAAGTCCTTC
*
23665021 CAAAAAAATAAAAAATAGTTTT
1 CAAAAAAATAAAAAATAATTTT
*
23665043 CAAATAAAT-AAAAATAATTTT
1 CAAAAAAATAAAAAATAATTTT
23665064 TATCCTCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (22 bp):
CAAAAAAATAAAAAATAATTTT
Found at i:23671504 original size:19 final size:19
Alignment explanation
Indices: 23671476--23671512 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23671466 TGGGTTATAA
*
23671476 AATGGAAGAAATGCAAAAC
1 AATGGAAGAAAGGCAAAAC
*
23671495 AATGGTAGAAAGGCAAAA
1 AATGGAAGAAAGGCAAAA
23671513 AAAACAATCC
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:0.57, C:0.08, G:0.24, T:0.11
Consensus pattern (19 bp):
AATGGAAGAAAGGCAAAAC
Found at i:23676133 original size:41 final size:39
Alignment explanation
Indices: 23676035--23676140 Score: 115
Period size: 41 Copynumber: 2.6 Consensus size: 39
23676025 CCTCTAGACG
* * *
23676035 AATGAAAAATAGTTTCTTTGCCAAAATATGCTTCTTAGCT
1 AATGAAAAATAGTTTCTTTGCC-AAAGATGCCTCTAAGCT
* *
23676075 AATGAAAGATGGTTTCTTTGCCAAAGATGCACCTCTAAGC-
1 AATGAAAAATAGTTTCTTTGCCAAAGATG--CCTCTAAGCT
*
23676115 AGATGAAAAATAGTTTCTTTACCAAA
1 A-ATGAAAAATAGTTTCTTTGCCAAA
23676141 TATATGTATT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 6 0.11
40 21 0.38
41 28 0.51
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (39 bp):
AATGAAAAATAGTTTCTTTGCCAAAGATGCCTCTAAGCT
Found at i:23676672 original size:117 final size:116
Alignment explanation
Indices: 23676308--23676913 Score: 380
Period size: 114 Copynumber: 5.2 Consensus size: 116
23676298 CTATCCACTC
* **
23676308 ATTTGATCTCGACTCATGTCAGATCATCCTTTGACCTGTACAT-T-AGTCTAGTCATTTATTTTT
1 ATTTGATCTCGACTCATGTCAGATCATTCTTTGACCTGTA-ATATCAGTCCGGTCATTTATTTTT
* * * * *
23676371 GACTTTGACTCAGTCCTGGTTGTTTCATTTTAACTTGCAACATTATCCCATTT
65 GAC-TTGACTCAGTCCTGGTCGTTTTATTTTAACTTGCGACATCATCCCAGTT
* * * * *
23676424 ATTTGATCTCGACTCATGTCAGATCATT-TTTAGACTTGTGACATCAGTCCGATCATATATTTTT
1 ATTTGATCTCGACTCATGTCAGATCATTCTTT-GACCTGTAATATCAGTCCGGTCATTTATTTTT
* * *** * * * *
23676488 TATCTTGACTCCA-TCTTGGTC-ACCT-TTTT-ACTTGTGGCATCATCCTAGTC
65 GA-CTTGACT-CAGTCCTGGTCGTTTTATTTTAACTTGCGACATCATCCCAGTT
* * * *
23676538 ATTTGATCTCGACTCATGTCATATCATTCTCTGACCCGCAATATCAGTCCGGTCATTTATTTTTG
1 ATTTGATCTCGACTCATGTCAGATCATTCTTTGACCTGTAATATCAGTCCGGTCATTTATTTTTG
* **
23676603 ACATTAACTTGGTCCTGGTCGTTTTATTTTAACTTGCGACATCATCCCAGTT
66 AC-TTGACTCAGTCCTGGTCGTTTTATTTTAACTTGCGACATCATCCCAGTT
* * * * ** * **
23676655 ATTTGATCTTGACTCATGTTAGATCA-TCTTCAGACTTGCGATATTAGTCTTGTCATTTATTTTT
1 ATTTGATCTCGACTCATGTCAGATCATTCTT-TGACCTGTAATATCAGTCCGGTCATTTATTTTT
* ** * * ** * *
23676719 GACTTTGACTC-GATCTTGGTC--ACT-TTCTGACTTGCGGTATCGTCCTAGTT
65 GAC-TTGACTCAG-TCCTGGTCGTTTTATTTTAACTTGCGACATCATCCCAGTT
* * *** * *
23676769 GTTTGATCTTGACTCATGTCAGATCA-TCTTTTGACCTACGATAT-AGTTCAGTCATTTATTTTT
1 ATTTGATCTCGACTCATGTCAGATCATTC-TTTGACCTGTAATATCAGTCCGGTCATTTA-TTTT
* * * * * * ** *
23676832 TGACCTCGACT-TGATTCTGGTCATTTCATTTTGACTTGCGGTATTATCCCA-TT
64 TGA-CTTGACTCAG-TCCTGGTCGTTTTATTTTAACTTGCGACATCATCCCAGTT
* * *
23676885 CATCTAATCTCGACTCATATCAGATCATT
1 -ATTTGATCTCGACTCATGTCAGATCATT
23676914 TTTAGACTCG
Statistics
Matches: 379, Mismatches: 89, Indels: 42
0.74 0.17 0.08
Matches are distributed among these distances:
113 12 0.03
114 155 0.41
115 15 0.04
116 44 0.12
117 149 0.39
118 4 0.01
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.43
Consensus pattern (116 bp):
ATTTGATCTCGACTCATGTCAGATCATTCTTTGACCTGTAATATCAGTCCGGTCATTTATTTTTG
ACTTGACTCAGTCCTGGTCGTTTTATTTTAACTTGCGACATCATCCCAGTT
Done.