Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 402 of 425
Found at i:122845959 original size:17 final size:16
Alignment explanation
Indices: 122845919--122845967 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
122845909 TCGTAGTTAG
122845919 TTTTTGTTTTAATTTTA
1 TTTTTG-TTTAATTTTA
* *
122845936 TTATTGTTTAATTTATT
1 TTTTTGTTTAATTT-TA
*
122845953 TTTTTGTCTAATTTT
1 TTTTTGTTTAATTTT
122845968 TCACGTTGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 9 0.33
17 18 0.67
ACGTcount: A:0.18, C:0.02, G:0.06, T:0.73
Consensus pattern (16 bp):
TTTTTGTTTAATTTTA
Found at i:122849458 original size:25 final size:27
Alignment explanation
Indices: 122849407--122849466 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 27
122849397 TTAAAATTGT
*
122849407 TTTTTATTTTCTTTTATTGAGCATTTA
1 TTTTTATTTTCTTTTACTGAGCATTTA
* *
122849434 TTTTT-TTTTCTTTT-CTGTGCCTTTA
1 TTTTTATTTTCTTTTACTGAGCATTTA
*
122849459 TTATTATT
1 TTTTTATT
122849467 ATTTTTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 12 0.43
26 11 0.39
27 5 0.18
ACGTcount: A:0.13, C:0.10, G:0.07, T:0.70
Consensus pattern (27 bp):
TTTTTATTTTCTTTTACTGAGCATTTA
Found at i:122849464 original size:3 final size:3
Alignment explanation
Indices: 122849456--122849491 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
122849446 TTCTGTGCCT
*
122849456 TTA TTA TTA TTA TTT TTA TTA TTA TTA TTA TCTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
122849492 TATCTATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:122849475 original size:15 final size:15
Alignment explanation
Indices: 122849455--122849484 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
122849445 TTTCTGTGCC
122849455 TTTATTATTATTATT
1 TTTATTATTATTATT
122849470 TTTATTATTATTATT
1 TTTATTATTATTATT
122849485 ATCTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTATTATTATTATT
Found at i:122852209 original size:130 final size:131
Alignment explanation
Indices: 122851975--122852238 Score: 397
Period size: 130 Copynumber: 2.0 Consensus size: 131
122851965 TAACTATTCA
* *
122851975 TTTAAAAATTCTTTAAAACGAAGGCAATACTCGATGTTTGGCAATTCAGAAATCGTGCCCTATCG
1 TTTAAAAATTCTTCAAAACGAAGGCAATACTCGATGTTTGGCAATTCAGAAATCGTGCCCGATCG
* *
122852040 TGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAAACGAATATTC-CTTTGAAATTTCACTCATG-
66 TGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAAACGAATATTCTCTTAG-AATTTCACACATGT
122852103 TC
130 TC
* ** * * *
122852105 TTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGAATCGTGCTCGATCG
1 TTTAAAAATTCTTCAAAACGAAGGCAATACTCGATGTTTGGCAATTCAGAAATCGTGCCCGATCG
* *
122852170 TGCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATATTCTCTTAGAATTTCACACATGTT
66 TGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAAACGAATATTCTCTTAGAATTTCACACATGTT
122852235 C
131 C
122852236 TTT
1 TTT
122852239 GAATTCTAAA
Statistics
Matches: 120, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
130 111 0.93
131 9 0.08
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (131 bp):
TTTAAAAATTCTTCAAAACGAAGGCAATACTCGATGTTTGGCAATTCAGAAATCGTGCCCGATCG
TGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAAACGAATATTCTCTTAGAATTTCACACATGTT
C
Found at i:122853024 original size:17 final size:16
Alignment explanation
Indices: 122853001--122853062 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 16
122852991 TTCATTTATT
*
122853001 TATTATTACTATAATA
1 TATTATTATTATAATA
*
122853017 TGATTATTAATATTAAT-
1 T-ATTATTATTA-TAATA
122853034 T-TTATTATTATAATCA
1 TATTATTATTATAAT-A
122853050 TATTATTATTATA
1 TATTATTATTATA
122853063 GTATTCCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 4 0.10
15 8 0.21
16 2 0.05
17 21 0.54
18 4 0.10
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (16 bp):
TATTATTATTATAATA
Found at i:122864815 original size:13 final size:13
Alignment explanation
Indices: 122864799--122864824 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
122864789 AATTTAGGAA
122864799 AAAAATTATAAAT
1 AAAAATTATAAAT
122864812 AAAAATTATAAAT
1 AAAAATTATAAAT
122864825 TTCCAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAATTATAAAT
Found at i:122867264 original size:2 final size:2
Alignment explanation
Indices: 122867257--122867282 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
122867247 GCATAATTTA
122867257 AT 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
122867283 GACTAGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:122867626 original size:2 final size:2
Alignment explanation
Indices: 122867619--122867645 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
122867609 ATAAAAACAG
122867619 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
122867646 TGGCAAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:122868257 original size:22 final size:24
Alignment explanation
Indices: 122868227--122868271 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
122868217 GTTTTTTTAA
122868227 TATTATTTA-ACAATATTT-TAAAG
1 TATTATTTATA-AATATTTCTAAAG
122868250 TATT-TTTATAAATATTTCTAAA
1 TATTATTTATAAATATTTCTAAA
122868272 AACTAATAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (24 bp):
TATTATTTATAAATATTTCTAAAG
Found at i:122876531 original size:39 final size:39
Alignment explanation
Indices: 122876458--122876555 Score: 119
Period size: 39 Copynumber: 2.5 Consensus size: 39
122876448 TATTGATAAA
* ** *
122876458 TACATATAAA-CTTAAATTGTTGATTTTTATTAATTTGT
1 TACATATAAATTTTAAATTGTTGAAATTTATTAATTTCT
*
122876496 TTCATATAAAATTTTAAATTGTT-AAATTTATTAATTTCT
1 TACATAT-AAATTTTAAATTGTTGAAATTTATTAATTTCT
122876535 TACATATAAATTTATAAATTG
1 TACATATAAATTT-TAAATTG
122876556 CTGATTTTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
38 12 0.24
39 29 0.57
40 10 0.20
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (39 bp):
TACATATAAATTTTAAATTGTTGAAATTTATTAATTTCT
Found at i:122878152 original size:21 final size:19
Alignment explanation
Indices: 122878086--122878154 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
122878076 TTCTATAAAT
* *
122878086 TTTTAATACTTTTATAACA
1 TTTTAATATTTTTATAATA
*
122878105 ATTTAATATTTTTATAATA
1 TTTTAATATTTTTATAATA
122878124 TTTATAATATTCATTT-TAATA
1 TTT-TAATATT--TTTATAATA
122878145 CTTTTAATAT
1 -TTTTAATAT
122878155 AAATACCTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
19 18 0.43
20 7 0.17
21 11 0.26
22 6 0.14
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTAATATTTTTATAATA
Found at i:122878271 original size:30 final size:29
Alignment explanation
Indices: 122878230--122878296 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 29
122878220 ATTCTTTCTT
* **
122878230 ATTTTTCATAATATATTAATGGTTTTTATA
1 ATTTTTAATAATATATTAAT-CATTTTATA
*
122878260 ATTTTTAATAATATTTTAATCATTTTATA
1 ATTTTTAATAATATATTAATCATTTTATA
*
122878289 ATTATTAA
1 ATTTTTAA
122878297 AAATTTTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (29 bp):
ATTTTTAATAATATATTAATCATTTTATA
Found at i:122878286 original size:29 final size:28
Alignment explanation
Indices: 122878230--122878313 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 28
122878220 ATTCTTTCTT
* * *
122878230 ATTTTTCATAATATATTAATGGTTTTTATA
1 ATTTTTAATAATATTTTAAT--ATTTTATA
122878260 ATTTTTAATAATATTTTAATCATTTTATA
1 ATTTTTAATAATATTTTAAT-ATTTTATA
* *
122878289 ATTATTAAAAAT-TTTATAATATTTT
1 ATTTTTAATAATATTT-TAATATTTT
122878314 TCTACAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
28 8 0.17
29 21 0.45
30 18 0.38
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (28 bp):
ATTTTTAATAATATTTTAATATTTTATA
Found at i:122878344 original size:19 final size:19
Alignment explanation
Indices: 122878297--122878345 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
122878287 TAATTATTAA
* *
122878297 AAATTTTATAATATTTTTCT
1 AAATTTT-TTATAGTTTTCT
122878317 ACAA-TTTTTATAGTTTTCT
1 A-AATTTTTTATAGTTTTCT
122878336 AAATTTTTTA
1 AAATTTTTTA
122878346 ATCATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 2 0.08
19 17 0.68
20 4 0.16
21 2 0.08
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (19 bp):
AAATTTTTTATAGTTTTCT
Found at i:122879386 original size:18 final size:17
Alignment explanation
Indices: 122879364--122879409 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
122879354 CACTATTAAA
122879364 ATATTAAAATATTAATTT
1 ATATTAAAATATT-ATTT
* *
122879382 TTATTATAATATTATTT
1 ATATTAAAATATTATTT
*
122879399 ATATTGAAATA
1 ATATTAAAATA
122879410 ATTGTAATTG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
ATATTAAAATATTATTT
Found at i:122881883 original size:86 final size:87
Alignment explanation
Indices: 122881733--122881900 Score: 295
Period size: 86 Copynumber: 1.9 Consensus size: 87
122881723 GTATGTTGGG
* *
122881733 TATACGACTTTTGTAGTATGTAGCATCATTCACAATAGTGTAATTCATAGCTAAACTAATGGGTA
1 TATACGACTTTTGTAATATGTAGCATCATTCACAATAGTGAAATTCATAGCTAAACTAATGGGTA
122881798 AATGAT-ATCTTCTCATTGATAT
66 AATGATAAT-TTCTCATTGATAT
122881820 TATA-GACTTTTGTAATATGTAGCATCATTCACAATAGTGAAATTCATAGCTAAACTAATGGGTA
1 TATACGACTTTTGTAATATGTAGCATCATTCACAATAGTGAAATTCATAGCTAAACTAATGGGTA
122881884 AATGATAATTTCTCATT
66 AATGATAATTTCTCATT
122881901 AACATTACAT
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
86 72 0.92
87 6 0.08
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (87 bp):
TATACGACTTTTGTAATATGTAGCATCATTCACAATAGTGAAATTCATAGCTAAACTAATGGGTA
AATGATAATTTCTCATTGATAT
Found at i:122884915 original size:26 final size:25
Alignment explanation
Indices: 122884859--122884922 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 25
122884849 AAATTAATTT
* * *
122884859 TTATATAATTTTTTAAATTT-TTATA
1 TTATAT-ATTTTTAAAATTTCATAAA
122884884 TATATATATATTTTAAAATTTCATAAA
1 T-TATATAT-TTTTAAAATTTCATAAA
122884911 TTATA-ATTTTTA
1 TTATATATTTTTA
122884923 TTTACAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
24 5 0.15
25 5 0.15
26 19 0.58
27 4 0.12
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
TTATATATTTTTAAAATTTCATAAA
Found at i:122889410 original size:20 final size:21
Alignment explanation
Indices: 122889385--122889432 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
122889375 ATAAAAATCT
*
122889385 TAATTAATAAATATCT-TTTA
1 TAATTAATAAATATCTATTAA
122889405 TAATTAATAAATATCTATTAA
1 TAATTAATAAATATCTATTAA
122889426 TAATTAA
1 TAATTAA
122889433 ATACATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATTAATAAATATCTATTAA
Found at i:122889667 original size:13 final size:13
Alignment explanation
Indices: 122889649--122889673 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
122889639 TACACTTGTC
122889649 TTTTATTTATTTA
1 TTTTATTTATTTA
122889662 TTTTATTTATTT
1 TTTTATTTATTT
122889674 CATATAAAAA
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:122890525 original size:17 final size:17
Alignment explanation
Indices: 122890503--122890557 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
122890493 GAGTAAGCAT
122890503 TTCAAATGCTTAGTAAG
1 TTCAAATGCTTAGTAAG
122890520 TTCAAAACTGC--A-TAAG
1 TTC-AAA-TGCTTAGTAAG
122890536 ATTTCAAATGCTTAGTAAG
1 --TTCAAATGCTTAGTAAG
122890555 TTC
1 TTC
122890558 GTATAACAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 14
0.69 0.00 0.31
Matches are distributed among these distances:
16 7 0.23
17 10 0.32
18 7 0.23
19 7 0.23
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (17 bp):
TTCAAATGCTTAGTAAG
Found at i:122890542 original size:35 final size:36
Alignment explanation
Indices: 122890487--122890557 Score: 119
Period size: 35 Copynumber: 2.0 Consensus size: 36
122890477 CAGAGAAAAG
122890487 AAAACTGAGTAAGCATTTCAAATGCTTAGTAAGTTC
1 AAAACTGAGTAAGCATTTCAAATGCTTAGTAAGTTC
122890523 AAAACTGCA-TAAG-ATTTCAAATGCTTAGTAAGTTC
1 AAAACTG-AGTAAGCATTTCAAATGCTTAGTAAGTTC
122890558 GTATAACAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 22 0.65
36 11 0.32
37 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (36 bp):
AAAACTGAGTAAGCATTTCAAATGCTTAGTAAGTTC
Found at i:122891051 original size:24 final size:25
Alignment explanation
Indices: 122891019--122891066 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
122891009 CTTATAGGAG
*
122891019 CCATAATCGGGAAGTTCACAAAGAA
1 CCATAATCGGGAAGCTCACAAAGAA
122891044 CCAT-ATCGGGAAGCTCACAAAGA
1 CCATAATCGGGAAGCTCACAAAGA
122891067 GTCATGTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.15
Consensus pattern (25 bp):
CCATAATCGGGAAGCTCACAAAGAA
Found at i:122893097 original size:15 final size:15
Alignment explanation
Indices: 122893077--122893130 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
122893067 ATACTACAAA
122893077 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
122893092 ATATTTATAATTATAAT
1 ATATTTATTA-T-TAAT
*
122893109 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
122893126 ATATT
1 ATATT
122893131 AATATTGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:122893116 original size:19 final size:19
Alignment explanation
Indices: 122893092--122893128 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
122893082 TATTATTAAT
*
122893092 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
122893111 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
122893129 TTAATATTGA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:122893227 original size:22 final size:21
Alignment explanation
Indices: 122893184--122893237 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
122893174 TTATTATTTT
*
122893184 TAAATTTTATTATTAAAATAA
1 TAAATTATATTATTAAAATAA
* *
122893205 TAAATTATATTAATTATATTAA
1 TAAATTATATT-ATTAAAATAA
122893227 T-AATT-TATTAT
1 TAAATTATATTAT
122893238 ATGACTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 4 0.14
21 14 0.48
22 9 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TAAATTATATTATTAAAATAA
Found at i:122897735 original size:10 final size:10
Alignment explanation
Indices: 122897720--122897744 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
122897710 CAGTATAATC
122897720 ATTTTGCTTG
1 ATTTTGCTTG
122897730 ATTTTGCTTG
1 ATTTTGCTTG
122897740 ATTTT
1 ATTTT
122897745 ATGGTCATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.08, G:0.16, T:0.64
Consensus pattern (10 bp):
ATTTTGCTTG
Found at i:122898551 original size:2 final size:2
Alignment explanation
Indices: 122898544--122898576 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
122898534 AAATAAATAA
122898544 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
122898577 AACATAGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:122908778 original size:29 final size:29
Alignment explanation
Indices: 122908732--122908802 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
122908722 TACATGTAAC
* *
122908732 AATTTTAATAATTTTATATTTTAAAAAAAT
1 AATTATAATAATTATATATTTT-AAAAAAT
122908762 AA-TATAATAATTATATATTTTAAAAAAT
1 AATTATAATAATTATATATTTTAAAAAAT
*
122908790 AATTTTAATAATT
1 AATTATAATAATT
122908803 TTAAAATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.24
29 26 0.70
30 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
AATTATAATAATTATATATTTTAAAAAAT
Found at i:122908792 original size:20 final size:22
Alignment explanation
Indices: 122908767--122908808 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
122908757 AAAATAATAT
122908767 AATAATTAT-AT-ATTTTAAAA
1 AATAATTATAATAATTTTAAAA
*
122908787 AATAATTTTAATAATTTTAAAA
1 AATAATTATAATAATTTTAAAA
122908809 TTATTTGCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 2 0.11
22 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATAATTATAATAATTTTAAAA
Found at i:122909301 original size:8 final size:8
Alignment explanation
Indices: 122909273--122909306 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
122909263 AATTAAAACT
122909273 TAAAATAA
1 TAAAATAA
*
122909281 TACAATCAA
1 TAAAAT-AA
122909290 TAAAATAA
1 TAAAATAA
122909298 TAAAATAA
1 TAAAATAA
122909306 T
1 T
122909307 TGTTTTGGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (8 bp):
TAAAATAA
Found at i:122912253 original size:3 final size:3
Alignment explanation
Indices: 122912245--122912270 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
122912235 TTTGCACATT
122912245 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
122912271 TCATTTGTTA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:122912434 original size:3 final size:3
Alignment explanation
Indices: 122912426--122912483 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
122912416 AAAAAATTTA
122912426 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
122912474 TAT TAT TAT T
1 TAT TAT TAT T
122912484 TTGTTTTATT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:122917031 original size:66 final size:67
Alignment explanation
Indices: 122916956--122917089 Score: 202
Period size: 66 Copynumber: 2.0 Consensus size: 67
122916946 AGTCCTTTTC
* *
122916956 AGAGAGCACACTCTCGCGAACCTCATTTCTTACAGCAGA-ATTAGC-AGTCCA-GCTAAATCCCC
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAG-AGAGATTA-CTAGTCCAGGCTAAATCCCA
122917018 TGTA
64 TGTA
*
122917022 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGTGAGATTACTAGTCCAGGCTAAATCCCATG
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGAGAGATTACTAGTCCAGGCTAAATCCCATG
122917087 TA
66 TA
122917089 A
1 A
122917090 TGACAAATAC
Statistics
Matches: 62, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
65 3 0.05
66 44 0.71
67 15 0.24
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGAGAGATTACTAGTCCAGGCTAAATCCCATG
TA
Found at i:122917253 original size:58 final size:58
Alignment explanation
Indices: 122917158--122917301 Score: 189
Period size: 58 Copynumber: 2.5 Consensus size: 58
122917148 CATTTACTTT
* * * * * * * *
122917158 GGATTACCCGTCCGGGATAAATCCATTTCGCACATATTTTTTGGGAGGGCTTATATCA
1 GGATCACCCGTCCGGGCTAGATCCTTTTCACACATATTCTTTAGGAAGGCTTATATCA
122917216 GGATCACCCGTCCGGGCTAGATCCTTTTCACACATATTCTTTAGGAAGGCTTATATCA
1 GGATCACCCGTCCGGGCTAGATCCTTTTCACACATATTCTTTAGGAAGGCTTATATCA
* * *
122917274 GGATCACCCGTTCGAGCTAGATTCTTTT
1 GGATCACCCGTCCGGGCTAGATCCTTTT
122917302 TACTGTCAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 75 1.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.33
Consensus pattern (58 bp):
GGATCACCCGTCCGGGCTAGATCCTTTTCACACATATTCTTTAGGAAGGCTTATATCA
Found at i:122919781 original size:20 final size:20
Alignment explanation
Indices: 122919744--122919799 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
122919734 TACAAAAAAA
* *
122919744 TCAAAATATTTTTCAAAAGTT
1 TCAAAATATTTAT-AAAAATT
122919765 T-AAAATATTTATAAAAATT
1 TCAAAATATTTATAAAAATT
122919784 TCAAAA-ATTTA-AAAAA
1 TCAAAATATTTATAAAAA
122919800 AAATTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 5 0.16
19 12 0.38
20 14 0.44
21 1 0.03
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (20 bp):
TCAAAATATTTATAAAAATT
Found at i:122919801 original size:21 final size:21
Alignment explanation
Indices: 122919777--122919817 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
122919767 AAATATTTAT
122919777 AAAAATTTCAAAAATT-TAAAA
1 AAAAATTT-AAAAATTCTAAAA
122919798 AAAAATTTAAAAATTCTAAA
1 AAAAATTTAAAAATTCTAAA
122919818 GAATATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAATTTAAAAATTCTAAAA
Found at i:122919809 original size:11 final size:12
Alignment explanation
Indices: 122919786--122919810 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
122919776 TAAAAATTTC
122919786 AAAAATTTAAAA
1 AAAAATTTAAAA
122919798 AAAAATTTAAAA
1 AAAAATTTAAAA
122919810 A
1 A
122919811 TTCTAAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATTTAAAA
Found at i:122922212 original size:2 final size:2
Alignment explanation
Indices: 122922205--122922229 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
122922195 AATAACGGTT
122922205 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
122922230 TTATGTTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:122928739 original size:34 final size:34
Alignment explanation
Indices: 122928696--122928764 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
122928686 TAAGTTTTAG
*
122928696 ATTTAATTTGTGGATGAAAGGTGAGAACAAGAGA
1 ATTTAATTTGTGGATGAAAGGTAAGAACAAGAGA
122928730 ATTTAATTTGTGGATGAAAGGTAAGAACAAGAGA
1 ATTTAATTTGTGGATGAAAGGTAAGAACAAGAGA
122928764 A
1 A
122928765 ATTAGTGAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.43, C:0.03, G:0.28, T:0.26
Consensus pattern (34 bp):
ATTTAATTTGTGGATGAAAGGTAAGAACAAGAGA
Found at i:122932826 original size:38 final size:38
Alignment explanation
Indices: 122932756--122932842 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 38
122932746 AAATATAACC
* *
122932756 AAAAATAAATAAAATTTAAAAATACTTAAATCA-ATAATT
1 AAAAATAAA-AAAATTGAAAAATACATAAATCACA-AATT
*
122932795 AAAAATAAAAAAATTGATAAAATTCAT-AATCACAAATT
1 AAAAATAAAAAAATTGA-AAAATACATAAATCACAAATT
122932833 AAAAA-AAAAA
1 AAAAATAAAAA
122932843 CTAAAATCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
37 5 0.12
38 21 0.49
39 17 0.40
ACGTcount: A:0.68, C:0.06, G:0.01, T:0.25
Consensus pattern (38 bp):
AAAAATAAAAAAATTGAAAAATACATAAATCACAAATT
Found at i:122937934 original size:44 final size:45
Alignment explanation
Indices: 122937844--122937972 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
122937834 GACAGAACGA
*
122937844 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
122937890 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
122937934 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
122937973 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:122945322 original size:44 final size:45
Alignment explanation
Indices: 122945232--122945360 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
122945222 GACAGAACGA
*
122945232 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
122945278 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
122945322 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
122945361 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:122947486 original size:30 final size:30
Alignment explanation
Indices: 122947452--122947647 Score: 252
Period size: 30 Copynumber: 6.5 Consensus size: 30
122947442 CTAAATTTTA
122947452 ACCTTTTCCACCACCAACTCCACTAGCCAC
1 ACCTTTTCCACCACCAACTCCACTAGCCAC
* *
122947482 ACCTTTTCCACCACTAACTCCACAAGCCAC
1 ACCTTTTCCACCACCAACTCCACTAGCCAC
*
122947512 ACCTTTTCCGCCACCAACTCCACTAGCCAC
1 ACCTTTTCCACCACCAACTCCACTAGCCAC
* *
122947542 TCCTTTTCCACCACCAACTCCACTAGCTAC
1 ACCTTTTCCACCACCAACTCCACTAGCCAC
*
122947572 ACCTTTTCCACCACCAAATCCACTAGCCAC
1 ACCTTTTCCACCACCAACTCCACTAGCCAC
* ** * *
122947602 A-CTTGCTCCATTACCTACTCCACTAACCAC
1 ACCTT-TTCCACCACCAACTCCACTAGCCAC
*
122947632 A-CTTGCTCCACCACCA
1 ACCTT-TTCCACCACCA
122947648 CTTGTACCTA
Statistics
Matches: 145, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
29 3 0.02
30 142 0.98
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.22
Consensus pattern (30 bp):
ACCTTTTCCACCACCAACTCCACTAGCCAC
Found at i:122949482 original size:2 final size:2
Alignment explanation
Indices: 122949475--122949506 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
122949465 CTCCAATGCC
122949475 AT AT AT AT 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 AT
122949507 GGGCTTACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:122951017 original size:2 final size:2
Alignment explanation
Indices: 122951010--122951094 Score: 86
Period size: 2 Copynumber: 43.0 Consensus size: 2
122951000 CTATATTACG
* *
122951010 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTA T- TT TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * *
122951052 TA TA TC TT TA -A TA CTA TA T- TA TT TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
122951093 TA
1 TA
122951095 CTTTACATGT
Statistics
Matches: 70, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
1 3 0.04
2 63 0.90
3 4 0.06
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (2 bp):
TA
Found at i:122951134 original size:22 final size:22
Alignment explanation
Indices: 122951104--122951211 Score: 71
Period size: 22 Copynumber: 4.9 Consensus size: 22
122951094 ACTTTACATG
*
122951104 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
122951126 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
122951151 CTATATTATGTACATATTTTTAA
1 TTATATTATGTATATA-TTTTAA
* * *
122951174 -TATTATCACGTATTTATTTT--
1 TTA-TATTATGTATATATTTTAA
*
122951194 TTATA-TATGTACATATTT
1 TTATATTATGTATATATTT
122951212 ATGTAGTATT
Statistics
Matches: 67, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
19 9 0.13
20 2 0.03
21 2 0.03
22 17 0.25
23 12 0.18
24 13 0.19
25 12 0.18
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:122951160 original size:25 final size:24
Alignment explanation
Indices: 122951110--122951196 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 24
122951100 CATGTTATCT
*
122951110 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
122951136 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
** * *
122951161 TACATA-TTTTTAA-TATTATCACG
1 TATGTATTTTTTAACTA-TATTATG
*
122951184 TATTTATTTTTTA
1 TATGTATTTTTTA
122951197 TATATGTACA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
22 2 0.04
23 10 0.20
24 17 0.33
25 15 0.29
26 7 0.14
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:122951178 original size:20 final size:20
Alignment explanation
Indices: 122951153--122951211 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
122951143 TTTTTACACT
122951153 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
122951173 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
122951196 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
122951212 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:122951350 original size:16 final size:15
Alignment explanation
Indices: 122951326--122951360 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
122951316 TAATTATTAT
122951326 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
122951342 TATTTTAATATTTTA
1 TATTCTAATATTTTA
122951357 TATT
1 TATT
122951361 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:122961512 original size:73 final size:74
Alignment explanation
Indices: 122961368--122961523 Score: 197
Period size: 73 Copynumber: 2.1 Consensus size: 74
122961358 ATTTTCGTTT
* * * * *
122961368 TTTCAATTTATGATTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAGGACATG
1 TTTCAATTTATGACTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGCTAAGCATCAGGACACG
*
122961433 CTGAGGTAA
66 CCGAGGTAA
* * * *
122961442 TTTCAATTTATGCCTTTC-AAAAATCAACTCATATTGCAAGAGGTGAGCTAAGCCTCGGGGCACG
1 TTTCAATTTATGACTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGCTAAGCATCAGGACACG
*
122961506 CCGAGGTAT
66 CCGAGGTAA
*
122961515 TTTTAATTT
1 TTTCAATTT
122961524 CTGTTTTCAA
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
73 54 0.77
74 16 0.23
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.32
Consensus pattern (74 bp):
TTTCAATTTATGACTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGCTAAGCATCAGGACACG
CCGAGGTAA
Found at i:122961557 original size:13 final size:13
Alignment explanation
Indices: 122961514--122961557 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
122961504 CGCCGAGGTA
122961514 TTTTTAATTTCTG
1 TTTTTAATTTCTG
* *
122961527 TTTTCAATTTTTG
1 TTTTTAATTTCTG
*
122961540 CTTTTAATTTCTG
1 TTTTTAATTTCTG
122961553 TTTTT
1 TTTTT
122961558 CAAAATCAAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.14, C:0.09, G:0.07, T:0.70
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:122961621 original size:98 final size:97
Alignment explanation
Indices: 122961456--122961725 Score: 389
Period size: 98 Copynumber: 2.8 Consensus size: 97
122961446 AATTTATGCC
* * * * *
122961456 TTTCAAAAATCAACTCATATTGCAAGAGGTGAGCTAAGCCTCGGGGCACGCCGAGGTATTTTTAA
1 TTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
** ** *
122961521 TTTCTGTTTTCAATTTTTGCTTTTAATTTCTGTT
65 TTTCTGTTTTCAATTTTACCTTACAAATTCTG-T
122961555 TTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAAT
1 TTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAAT
122961620 TTCTGTTTTTCAATTTTACCTTACAAATTCTGT
66 TTCTG-TTTTCAATTTTACCTTACAAATTCTGT
* *
122961653 TTTC-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAT
1 TTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAAT
*
122961717 TTTTGTTTT
66 TTCTGTTTT
122961726 TTTAATTTAT
Statistics
Matches: 157, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
96 4 0.03
97 62 0.39
98 66 0.42
99 25 0.16
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (97 bp):
TTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAAT
TTCTGTTTTCAATTTTACCTTACAAATTCTGT
Found at i:122961695 original size:97 final size:99
Alignment explanation
Indices: 122961456--122961726 Score: 395
Period size: 97 Copynumber: 2.8 Consensus size: 99
122961446 AATTTATGCC
* * * * *
122961456 TTTCAAAAATCAACTCATATTGCAAGAGGTGAGCTAAGCCTCGGGGCACGCCGAGGTATTTTTAA
1 TTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA
** ** *
122961521 TTTCTG-TTTTCAATTTTTGCTTTTAATTTCTGTT
65 TTTCTGTTTTTCAATTTTACCTTACAAATTCTGTT
122961555 TTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAAT
1 TTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAAT
122961620 TTCTGTTTTTCAATTTTACCTTACAAATTCTG-T
66 TTCTGTTTTTCAATTTTACCTTACAAATTCTGTT
* *
122961653 TTTC-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAT
1 TTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAAT
*
122961717 TTTTGTTTTT
66 TTCTGTTTTT
122961727 TTAATTTATG
Statistics
Matches: 158, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
97 67 0.42
98 66 0.42
99 25 0.16
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (99 bp):
TTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAAT
TTCTGTTTTTCAATTTTACCTTACAAATTCTGTT
Found at i:122961906 original size:76 final size:75
Alignment explanation
Indices: 122961737--122962038 Score: 327
Period size: 76 Copynumber: 4.0 Consensus size: 75
122961727 TTAATTTATG
* * *
122961737 TTTCAAAAAAAATCAACTCATATTGCG-GAAGTGAGTTGAGCCTCA--AGACGCTGAGGTAATTT
1 TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
122961799 C-AATT-TTTGT
65 CAAATTCTTT-T
122961809 TTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG-GGATATTT
1 TT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG-TATTT
122961871 TCAAATTCTATTT
64 TCAAATTCT-TTT
*
122961884 TTATCAAAAAAAT-AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTT
1 TT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
* **
122961948 CAATTTCTGCT
65 CAAATTCTTTT
* * * * **
122961959 TTTCAAAAGAATCAACTCATATTGTGAGAGGTGAGTTGAGTCTC-GGACCACACGTCGAGGTCCT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACGC-T-GAGGTATT
*
122962023 TTCAAATTCTGTT
63 TTCAAATTCTTTT
122962036 TTT
1 TTT
122962039 AATTTCTTTT
Statistics
Matches: 199, Mismatches: 16, Indels: 25
0.83 0.07 0.10
Matches are distributed among these distances:
70 20 0.10
71 17 0.09
72 4 0.02
73 15 0.08
74 16 0.08
75 42 0.21
76 57 0.29
77 28 0.14
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (75 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
AAATTCTTTT
Found at i:122962255 original size:71 final size:71
Alignment explanation
Indices: 122962155--122962292 Score: 240
Period size: 71 Copynumber: 1.9 Consensus size: 71
122962145 CTGTTTTAAT
*
122962155 TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGTCACATTGAGGTATTTTCAAT
1 TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACATTGAGGTATTTTCAAT
122962220 TTATCA
66 TTATCA
* * *
122962226 TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACCCGTTGAGGTATTTTCAAT
1 TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACATTGAGGTATTTTCAAT
122962291 TT
66 TT
122962293 CTGCTCAATT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (71 bp):
TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACATTGAGGTATTTTCAAT
TTATCA
Found at i:122962351 original size:155 final size:156
Alignment explanation
Indices: 122962070--122962417 Score: 435
Period size: 154 Copynumber: 2.2 Consensus size: 156
122962060 ATGTGTTTCA
* * * *
122962070 AAAAAATCAGCTCATATTGCGAGAGGTG-GTTGAACCTCAAGACGCTGAGGTGTTTTCCATTTCT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCTGAGGTATTTTCAATTTC-
** *
122962134 ATTTTCAATTTCTGTTTTAATTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA-A
65 ATGCTCAATTTATGTTTT-ATTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCATA
*
122962198 GTCACATTGAGGTATTTTCAA-TT-TA-TCATC
129 -T-AC--TGAGGT-GTTTCAATTTCTATTCATC
*
122962228 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACCCGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA--CGCTGAGGTATTTTCAATTT
*
122962293 C-TGCTCAATTTATG-TTT-TTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATA
64 CATGCTCAATTTATGTTTTATTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCATA
* **
122962354 TGCTGAGGTGTTTCAATTTCTATTTTTC
129 TACTGAGGTGTTTCAATTTCTATTCATC
122962382 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
122962418 ATTGGCTTAC
Statistics
Matches: 170, Mismatches: 13, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
151 6 0.04
152 8 0.05
153 2 0.01
154 40 0.24
155 39 0.23
156 4 0.02
158 30 0.18
159 23 0.14
161 18 0.11
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (156 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCTGAGGTATTTTCAATTTCA
TGCTCAATTTATGTTTTATTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCATATA
CTGAGGTGTTTCAATTTCTATTCATC
Found at i:122962386 original size:69 final size:70
Alignment explanation
Indices: 122962297--122962640 Score: 283
Period size: 69 Copynumber: 4.8 Consensus size: 70
122962287 CAATTTCTGC
* * *
122962297 TCAATTTATGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATATGCTGAG
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACACGCTGAG
122962361 GTGTT
66 GTGTT
* *
122962366 TCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATTGGCTTACACG
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC-----CTCACACG
* *
122962431 CGGAGGTATTTT
61 CTGAGG--TGTT
* *
122962443 TCAATCTCTG--TTT------GTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACG
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-C-C---TCACACG
122962500 CTGAGGTGTTT
61 CTGAGGTG-TT
* * * * *
122962511 TCAACTTCTGTTTTTCAAAAAAATCAACTCATGTTGCAAGAGGTGAATTGAGCCTCAGGACACGT
1 TCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC---ACACGC
122962576 TGAGGTAGTT
62 TGAGGT-GTT
* ** ** *
122962586 TTAATTTCTGTTCATCAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTC
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
122962641 GGGGCACGCT
Statistics
Matches: 218, Mismatches: 31, Indels: 47
0.74 0.10 0.16
Matches are distributed among these distances:
66 1 0.00
67 1 0.00
68 10 0.05
69 54 0.25
70 39 0.18
72 2 0.01
74 33 0.15
75 39 0.18
76 2 0.01
77 37 0.17
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (70 bp):
TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACACGCTGAG
GTGTT
Found at i:122962654 original size:74 final size:76
Alignment explanation
Indices: 122962457--122962665 Score: 255
Period size: 74 Copynumber: 2.8 Consensus size: 76
122962447 TCTCTGTTTG
* *
122962457 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGT-GTTTTCAACTTCTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GACACGCTGAGGTAGTTTTCAATTTCTG
**
122962521 TTTTTCAAAAAAA
64 TTCATCAAAAAAA
* * * * *
122962534 TCAACTCATGTTGCAAGAGGTGAATTGAGCCTCAGGACACGTTGAGGTAGTTTT-AATTTCTGTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAGTTTTCAATTTCTGTT
122962598 CATC-AAAAAA
66 CATCAAAAAAA
** * *
122962608 TCAACTCATATTGCGAGAAATGAGTTAAGCCTCGGGGCACGCTGAGGTA-TTTTCAATT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAGTTTTCAATT
122962666 AATGTTTTTT
Statistics
Matches: 112, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
73 4 0.04
74 50 0.45
75 22 0.20
76 6 0.05
77 30 0.27
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (76 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAGTTTTCAATTTCTGTT
CATCAAAAAAA
Found at i:122962800 original size:87 final size:84
Alignment explanation
Indices: 122962603--122962900 Score: 319
Period size: 88 Copynumber: 3.4 Consensus size: 84
122962593 CTGTTCATCA
* *
122962603 AAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCGGGGCAC-GCTGAGGTATTTTCAATTA
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGTCACTGCTGAGGTATTTTCAA--A
* *
122962667 ATGTTTTTTTAATTTATGCTTTT
64 ATCTGTTTTTAATTT-TG-TTTT
* * * *
122962690 CAAGAATCAACTCATATTACGAGAAATGAGTTGAGCCTCGGGTCACATACCGAGGTATTTTCAAA
1 -AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGTCAC-TGCTGAGGTATTTTCAAA
*
122962755 ATCTGTTTTACAAATTTTGTTTT
64 ATCTGTTTT--TAATTTTGTTTT
* * * * **
122962778 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGTCAC-TGCTGAGGTATTTTCAAAA
*
122962843 TCTGTTTTTAATGTCTAGTTTT
65 TCTGTTTTTAAT-T-TTGTTTT
* *
122962865 AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 AAA-AATCAACTCATATTGCGAGAAATGAGTTGAGC
122962901 TCAGAATCAC
Statistics
Matches: 178, Mismatches: 25, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
85 3 0.02
86 1 0.01
87 71 0.40
88 82 0.46
89 2 0.01
90 19 0.11
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (84 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGTCACTGCTGAGGTATTTTCAAAAT
CTGTTTTTAATTTTGTTTT
Found at i:122963608 original size:28 final size:29
Alignment explanation
Indices: 122963543--122963695 Score: 178
Period size: 27 Copynumber: 5.4 Consensus size: 29
122963533 AATCTTAGCC
122963543 TTTCCACCACCAACTCCACTAGCCACACCT
1 TTTCCACCACCAACTCCACTAGCCACA-CT
122963573 ATTT-CACCACCAACTCCACTAGCCAC-CT
1 -TTTCCACCACCAACTCCACTAGCCACACT
122963601 TTTCCACCA-CAACTCCACTAGCCACAC-
1 TTTCCACCACCAACTCCACTAGCCACACT
122963628 TTTCCACCACCAA-TCCA-TAGCCACACT
1 TTTCCACCACCAACTCCACTAGCCACACT
* * *
122963655 TGCTCCA-TACCTACTCCACTA-CCACACT
1 T-TTCCACCACCAACTCCACTAGCCACACT
*
122963683 TGCTCCACCACCA
1 T-TTCCACCACCA
122963696 CTTGTACCTA
Statistics
Matches: 109, Mismatches: 5, Indels: 18
0.83 0.04 0.14
Matches are distributed among these distances:
26 9 0.08
27 37 0.34
28 33 0.30
29 5 0.05
30 22 0.20
31 3 0.03
ACGTcount: A:0.27, C:0.48, G:0.04, T:0.21
Consensus pattern (29 bp):
TTTCCACCACCAACTCCACTAGCCACACT
Found at i:122963674 original size:55 final size:55
Alignment explanation
Indices: 122963553--122963695 Score: 159
Period size: 55 Copynumber: 2.5 Consensus size: 55
122963543 TTTCCACCAC
* * *
122963553 CAACTCCACTAGCCACACCTATTTCACCACCAACTCCACTAGCCACCTTTTCCACCA
1 CAACTCCACTAGCCACA-CT-TTCCACCACCAACTCCACTAGCCACCTTCTCCAACA
122963610 CAACTCCACTAGCCACACTTTCCACCACCAA-TCCA-TAGCCACACTTGCTCCATAC-
1 CAACTCCACTAGCCACACTTTCCACCACCAACTCCACTAGCCAC-CTT-CTCCA-ACA
*
122963665 CTACTCCACTA-CCACACTTGCTCCACCACCA
1 CAACTCCACTAGCCACACTT--TCCACCACCA
122963696 CTTGTACCTA
Statistics
Matches: 77, Mismatches: 4, Indels: 11
0.84 0.04 0.12
Matches are distributed among these distances:
53 7 0.09
54 15 0.19
55 25 0.32
56 13 0.17
57 17 0.22
ACGTcount: A:0.28, C:0.48, G:0.04, T:0.20
Consensus pattern (55 bp):
CAACTCCACTAGCCACACTTTCCACCACCAACTCCACTAGCCACCTTCTCCAACA
Found at i:122964254 original size:25 final size:26
Alignment explanation
Indices: 122964226--122964296 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 26
122964216 ATTCTAAATT
*
122964226 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATATATTAATA
* *
122964251 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
*
122964276 CTATATTATTTATATATATAT
1 CTATATTATGTATATATATAT
122964297 ATTTTTTACA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
24 2 0.05
25 35 0.92
26 1 0.03
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.54
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:122964295 original size:29 final size:28
Alignment explanation
Indices: 122964255--122964347 Score: 93
Period size: 29 Copynumber: 3.3 Consensus size: 28
122964245 ATTATACTAT
122964255 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* ** *
122964284 TTTATATATATATATTTTTTAC-ATGTTA
1 TTTATGTATATAT-TTTAATACTATATTA
122964312 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
*
122964339 TGTATGTAT
1 TTTATGTAT
122964348 TTTTTACATA
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
26 7 0.13
27 6 0.12
28 10 0.19
29 29 0.56
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:122964299 original size:14 final size:14
Alignment explanation
Indices: 122964236--122964300 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
122964226 CTATATTACG
*
122964236 TATATATATAT-TA
1 TATATATTTATATA
*
122964249 TACTAT-TTTATGTA
1 TA-TATATTTATATA
*
122964263 TATATCTTTA-ATA
1 TATATATTTATATA
122964276 CTATATTATTTATATA
1 -TATA-TATTTATATA
122964292 TATATATTT
1 TATATATTT
122964301 TTTACATGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
13 11 0.26
14 20 0.47
15 9 0.21
16 3 0.07
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (14 bp):
TATATATTTATATA
Found at i:122964335 original size:46 final size:45
Alignment explanation
Indices: 122964285--122964404 Score: 111
Period size: 46 Copynumber: 2.6 Consensus size: 45
122964275 ACTATATTAT
* *
122964285 TTATA-TA-TATATATTTTTTACATGTTATCTTATGTATATATTTTAA
1 TTATATTAGTATATATTTTTTACA---TATATTATGTACATATTTTAA
*
122964331 TTATATTATGTATGTATTTTTTACATATATTATGTACATATTTTAA
1 TTATATTA-GTATATATTTTTTACATATATTATGTACATATTTTAA
* * *
122964377 -TATTATCACGTATTTATTTTTTATATAT
1 TTA-TATTA-GTATATATTTTTTACATAT
122964405 GTACATATTT
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
45 2 0.03
46 45 0.71
47 2 0.03
49 14 0.22
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (45 bp):
TTATATTAGTATATATTTTTTACATATATTATGTACATATTTTAA
Found at i:122964339 original size:22 final size:22
Alignment explanation
Indices: 122964309--122964414 Score: 78
Period size: 22 Copynumber: 4.9 Consensus size: 22
122964299 TTTTTACATG
*
122964309 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
122964331 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
*
122964356 -TATATTATGTACATATTTTAA
1 TTATATTATGTATATATTTTAA
* * *
122964377 -TATTATCACGTATTTATTTT--
1 TTA-TATTATGTATATATTTTAA
*
122964397 TTATA-TATGTACATATTT
1 TTATATTATGTATATATTT
122964415 ATGTAGTATT
Statistics
Matches: 67, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
19 9 0.13
20 2 0.03
21 5 0.07
22 31 0.46
24 19 0.28
25 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.58
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:122964359 original size:24 final size:26
Alignment explanation
Indices: 122964315--122964366 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
122964305 CATGTTATCT
122964315 TATGTATATATTTTAATTATATTATG
1 TATGTATATATTTTAATTATATTATG
122964341 TATGTAT-T-TTTTACA-TATATTATG
1 TATGTATATATTTTA-ATTATATTATG
122964365 TA
1 TA
122964367 CATATTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 16 0.64
25 2 0.08
26 7 0.28
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.58
Consensus pattern (26 bp):
TATGTATATATTTTAATTATATTATG
Found at i:122964556 original size:16 final size:15
Alignment explanation
Indices: 122964532--122964566 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
122964522 TAATTATTAT
122964532 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
122964548 TATTTTAATATTTTA
1 TATTCTAATATTTTA
122964563 TATT
1 TATT
122964567 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:122968215 original size:51 final size:51
Alignment explanation
Indices: 122968155--122968285 Score: 244
Period size: 51 Copynumber: 2.6 Consensus size: 51
122968145 TTTGAGTACT
122968155 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTA
* *
122968206 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTA
122968257 TCTGATCAGTGACAAGTGACAAGTGATAA
1 TCTGATCAGTGACAAGTGACAAGTGATAA
122968286 ATATGATCCG
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
51 78 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.27
Consensus pattern (51 bp):
TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTA
Found at i:122975213 original size:132 final size:131
Alignment explanation
Indices: 122974957--122975240 Score: 424
Period size: 132 Copynumber: 2.2 Consensus size: 131
122974947 CTCTAGGGAG
* * ** * *
122974957 CTGCTTCATTGCAACATCAGGAAGCCTAGATTCACCGTCTTTGATCTGTTCCACTGCAACTTAGG
1 CTGCTTCACTGCAACTTCAGGAAGCAAAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTAGG
* *
122975022 GAAACGAGATCTAAAATTTCAACCTACTTCACTACAACCTTAGGGAGCTAGGTTAGTGACTTAAA
66 GAAACGAAATCTAAAATTTCAACCTACTCCACTACAACCTTAGGGAGCTAGGTTAGTGACTTAAA
122975087 T
131 T
* *
122975088 CTGCTTCACTGCAACTTCAGGAAGTAAAGATTCATCGTCTTCGATCTGCTCCACTGCAACTTCAG
1 CTGCTTCACTGCAACTTCAGGAAGCAAAGATTCACCGTCTTCGATCTGCTCCACTGCAACTT-AG
* * * *
122975153 GGAGATGAAATCTAAAATTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAA
65 GGAAACGAAATCTAAAATTTCAACCTACTCCACTACAACCTTAGGGAGCTAGGTTAGTGACTTAA
122975218 AT
130 AT
*
122975220 CTGCTTTACTGCAACTTCAGG
1 CTGCTTCACTGCAACTTCAGG
122975241 GAAACAGGAT
Statistics
Matches: 137, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
131 54 0.39
132 83 0.61
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (131 bp):
CTGCTTCACTGCAACTTCAGGAAGCAAAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTAGG
GAAACGAAATCTAAAATTTCAACCTACTCCACTACAACCTTAGGGAGCTAGGTTAGTGACTTAAA
T
Found at i:122980730 original size:122 final size:122
Alignment explanation
Indices: 122980509--122981012 Score: 522
Period size: 122 Copynumber: 4.0 Consensus size: 122
122980499 GCGTGACCTG
* * * *
122980509 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAAATTGAAAATACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACAAAAAACTAAAAATACCTCAGC
122980574 GTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
63 GTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAACAAAAATTAAA
* *
122980635 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAAC-ATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACAAAAAACTAAAAATACCTCAGCGTG
* *
122980699 CCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAA
66 CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATT-AAA
** * * * * * * *
122980757 ATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAAT-ATGAGTTGATTAAAACAAAAAAT
1 A-GGCTCAAC---TC---A-CCTC-TCGCA-ATAT-G-AGTCA--A--T--TTAAAACAAAAAAC
*
122980821 TGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAA
48 TAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAA
122980886 CAAAAATTAAA
112 CAAAAATTAAA
*
122980897 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTT-------AAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACAAAAAACTAAAAATACCTCAGCGTG
* * * *
122980955 TCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAACAATTAAA
66 CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
122981012 A
1 A
122981013 ATACCTCAAC
Statistics
Matches: 319, Mismatches: 37, Indels: 55
0.78 0.09 0.13
Matches are distributed among these distances:
115 15 0.05
116 60 0.19
121 12 0.04
122 65 0.20
123 9 0.03
124 7 0.02
125 2 0.01
126 29 0.09
127 1 0.00
128 2 0.01
129 3 0.01
130 5 0.02
131 6 0.02
132 5 0.02
133 3 0.01
134 2 0.01
135 1 0.00
136 2 0.01
137 1 0.00
139 12 0.04
140 65 0.20
141 12 0.04
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (122 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACAAAAAACTAAAAATACCTCAGCGTG
CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:122980778 original size:71 final size:70
Alignment explanation
Indices: 122980635--122980897 Score: 352
Period size: 69 Copynumber: 3.7 Consensus size: 70
122980625 AAAAATTAAA
* * * * *
122980635 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAAATACCTCAGCGTG
122980699 CCCCG
66 CCCCG
* *
122980704 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-AAAACAAAAATTAAAAATACCTCAGCGT
* **
122980769 GTCTTG
65 GCCCCG
* *
122980775 AGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTAAAACAAAAAATTGAAAATACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAC-AAAAATTAAAAATACCTCAGCGT
122980838 GCCCCG
65 GCCCCG
*
122980844 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT--AAAACAAAAATTAAAA
122980898 GGCTTAACTC
Statistics
Matches: 167, Mismatches: 20, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
68 5 0.03
69 82 0.49
70 5 0.03
71 60 0.36
72 10 0.06
73 5 0.03
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (70 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAAATACCTCAGCGTG
CCCCG
Found at i:122980864 original size:262 final size:258
Alignment explanation
Indices: 122980472--122981064 Score: 1028
Period size: 256 Copynumber: 2.3 Consensus size: 258
122980462 ACAACGTAAA
* * * * * *
122980472 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
122980537 TTGAAATTAAAACACAAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGC
66 TTG--ATTAAAACACAAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGC
122980602 AATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAA
129 AATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAA
122980667 TTTAAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAG
194 TTT-----A-AAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAG
122980732 TTGATT
253 TTGATT
122980738 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
122980803 TTGATT-AAA-ACAAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAA
66 TTGATTAAAACACAAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAA
122980866 TATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATT
131 TATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATT
*
122980931 TAAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
196 TAAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
*
122980994 TTGAAAACAACAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
122981059 TTGATT
66 TTGATT
122981065 TTCCTTGAAA
Statistics
Matches: 319, Mismatches: 8, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
256 130 0.41
257 1 0.00
262 120 0.38
263 3 0.01
264 3 0.01
266 62 0.19
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.26
Consensus pattern (258 bp):
TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTAAAACACAAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAA
TATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATT
TAAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
Found at i:122986100 original size:12 final size:12
Alignment explanation
Indices: 122986080--122986115 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
122986070 TGGGATATGC
*
122986080 AATGTATGAATG
1 AATGCATGAATG
122986092 AATGCATGAATG
1 AATGCATGAATG
122986104 AATGCATGAATG
1 AATGCATGAATG
122986116 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:122988131 original size:35 final size:35
Alignment explanation
Indices: 122988067--122988134 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
122988057 ACACAATATG
* *
122988067 GTATTTAAAATATATATATATATGTATATATAATA
1 GTATTTAAAATATATACATATATGAATATATAATA
122988102 GTATTTAAGAATATATACATA-A-GAAATATATAA
1 GTATTTAA-AATATATACATATATG-AATATATAA
122988135 CTAATGGCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 1 0.03
35 17 0.59
36 11 0.38
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.40
Consensus pattern (35 bp):
GTATTTAAAATATATACATATATGAATATATAATA
Found at i:122988704 original size:17 final size:16
Alignment explanation
Indices: 122988684--122988726 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
122988674 TTTTCTTCTT
122988684 TTTTTTTTTGGGTTAGG
1 TTTTTTTTTGGG-TAGG
*
122988701 TTTTTTTTAGGGTAGG
1 TTTTTTTTTGGGTAGG
122988717 TTTTTCTTTT
1 TTTTT-TTTT
122988727 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.07, C:0.02, G:0.23, T:0.67
Consensus pattern (16 bp):
TTTTTTTTTGGGTAGG
Found at i:122988736 original size:16 final size:15
Alignment explanation
Indices: 122988717--122988752 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
122988707 TTAGGGTAGG
*
122988717 TTTTTCTTTTTCTTTT
1 TTTTTCTTTGT-TTTT
122988733 TTTTTCTTTGTTTTT
1 TTTTTCTTTGTTTTT
122988748 TTTTT
1 TTTTT
122988753 GGGTTAGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (15 bp):
TTTTTCTTTGTTTTT
Found at i:122997603 original size:12 final size:12
Alignment explanation
Indices: 122997569--122997603 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
122997559 ATTGGATAAA
122997569 TAAATAAAATAT
1 TAAATAAAATAT
* *
122997581 TAAACAGAATAT
1 TAAATAAAATAT
122997593 TAAATAAAATA
1 TAAATAAAATA
122997604 GTTTTTTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:122998827 original size:16 final size:16
Alignment explanation
Indices: 122998793--122998826 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
122998783 AAATGGGCTA
122998793 TTTATTATTATTTGGT
1 TTTATTATTATTTGGT
122998809 TTTATTATT-TTTGGT
1 TTTATTATTATTTGGT
122998824 TTT
1 TTT
122998827 TGTATGGGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.74
Consensus pattern (16 bp):
TTTATTATTATTTGGT
Found at i:122999077 original size:44 final size:44
Alignment explanation
Indices: 122999018--122999280 Score: 221
Period size: 44 Copynumber: 6.0 Consensus size: 44
122999008 AAGAATTGTC
* * *
122999018 GCTTCAATCTGCTCCACTGCAACTTCATGGAGATAAGA-TCTGTA
1 GCTTTAATCTACTCCACTGCAACTTCAAGGAGATAAGATTC-GTA
* ** * *
122999062 GTTTTAAT-TCACTCCACTATAACTTCAAGAAGATAAGATTCGTG
1 GCTTTAATCT-ACTCCACTGCAACTTCAAGGAGATAAGATTCGTA
* *
122999106 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGT-
1 GCTTTAATCTACTCCACTGCAACTTCAAGGAGATAAGATTCGTA
* * * * *
122999149 -CATTTACAATTTGCTCCACTGCAACTTCAGGGAGTTGAGATTCGTA
1 GC-TTT--AATCTACTCCACTGCAACTTCAAGGAGATAAGATTCGTA
* * * * * * * *
122999195 ACTTCAACCTGCTCCACTGCAACTTC-AGTAAGACAAGGTTCGTG
1 GCTTTAATCTACTCCACTGCAACTTCAAG-GAGATAAGATTCGTA
*
122999239 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCG
1 GCTTTAATCTACTCCACTGCAACTTCAAGGAGATAAGATTCG
122999281 CTATGATAAC
Statistics
Matches: 174, Mismatches: 35, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
42 1 0.01
43 5 0.03
44 126 0.72
45 39 0.22
46 2 0.01
47 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
GCTTTAATCTACTCCACTGCAACTTCAAGGAGATAAGATTCGTA
Found at i:122999494 original size:44 final size:44
Alignment explanation
Indices: 122999446--122999646 Score: 136
Period size: 44 Copynumber: 4.5 Consensus size: 44
122999436 CCTTCTCCAG
* *
122999446 TGCAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTGCTCTTA-
1 TGCAACTTCAGGGAGATAAGATTTATAGCTTTAATCTACTC-TAC
* * ** * ** * *
122999490 TGCAACCTCAGAGAGATAAGATTTGCCATCTTCGATCTACTCCAA
1 TGCAACTTCAGGGAGATAAGATTT-ATAGCTTTAATCTACTCTAC
* * * *
122999535 TTCAACTTCAGGGAGATAAGATCTATAACTTCT-ATCTACTCCAC
1 TGCAACTTCAGGGAGATAAGATTTATAGCTT-TAATCTACTCTAC
* * * * * * * * *
122999579 TACAACTTTAGAGAGATGAGGTTAATGGCTTTAATCTGCTCTAT
1 TGCAACTTCAGGGAGATAAGATTTATAGCTTTAATCTACTCTAC
*
122999623 TGTAACTTCAGGGAGATAAGATTT
1 TGCAACTTCAGGGAGATAAGATTT
122999647 GCTATGGTAG
Statistics
Matches: 115, Mismatches: 38, Indels: 8
0.71 0.24 0.05
Matches are distributed among these distances:
43 1 0.01
44 83 0.72
45 31 0.27
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAAGATTTATAGCTTTAATCTACTCTAC
Found at i:123011629 original size:14 final size:14
Alignment explanation
Indices: 123011610--123011652 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
123011600 GATGCAAATG
123011610 ATAATATAAGAACA
1 ATAATATAAGAACA
* * *
123011624 ATAATAAAAAAATA
1 ATAATATAAGAACA
123011638 ATAATATAAGTAACA
1 ATAATATAAG-AACA
123011653 GCAACAACAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 19 0.86
15 3 0.14
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (14 bp):
ATAATATAAGAACA
Found at i:123011660 original size:3 final size:3
Alignment explanation
Indices: 123011649--123011743 Score: 181
Period size: 3 Copynumber: 31.7 Consensus size: 3
123011639 TAATATAAGT
*
123011649 AAC AGC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
123011697 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
123011744 TAATAATAAT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 90 1.00
ACGTcount: A:0.66, C:0.33, G:0.01, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:123011748 original size:3 final size:3
Alignment explanation
Indices: 123011742--123011775 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
123011732 CAACAACAAC
*
123011742 AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
123011776 GAAAATCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:123012982 original size:15 final size:16
Alignment explanation
Indices: 123012952--123012984 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
123012942 AAATGGACTA
123012952 TTTATTATTATTTGGT
1 TTTATTATTATTTGGT
123012968 TTTATTATT-TTTGGT
1 TTTATTATTATTTGGT
123012983 TT
1 TT
123012985 CTGTATGGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (16 bp):
TTTATTATTATTTGGT
Found at i:123015984 original size:28 final size:30
Alignment explanation
Indices: 123015944--123016002 Score: 68
Period size: 28 Copynumber: 2.0 Consensus size: 30
123015934 ACATATTCAA
* *
123015944 ATTAAATTTTTAA-AAT-TTATATTTATAT
1 ATTAAAATATTAATAATATTATATTTATAT
* *
123015972 ATTAAAATATTAATAATATTATTTTTTTAT
1 ATTAAAATATTAATAATATTATATTTATAT
123016002 A
1 A
123016003 GTTTCATTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
28 11 0.44
29 3 0.12
30 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (30 bp):
ATTAAAATATTAATAATATTATATTTATAT
Found at i:123016527 original size:16 final size:17
Alignment explanation
Indices: 123016495--123016534 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
123016485 ACAAGAAAAC
123016495 ATAAAATATATTAATAG
1 ATAAAATATATTAATAG
123016512 AGTAAAATA-A-TAATAG
1 A-TAAAATATATTAATAG
123016528 ATAAAAT
1 ATAAAAT
123016535 GTGGTCGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 6 0.27
16 7 0.32
17 2 0.09
18 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (17 bp):
ATAAAATATATTAATAG
Found at i:123017285 original size:39 final size:39
Alignment explanation
Indices: 123017242--123017347 Score: 97
Period size: 40 Copynumber: 2.7 Consensus size: 39
123017232 AGAACGAGCA
123017242 TTAGCGGCGCTTTTTAAAAACGCCGCTATATG-TACAACT
1 TTAGCGGCGCTTTTTAAAAACGCCGCTA-ATGCTACAACT
* * * * ** *
123017281 TTAGCAGCGCTTTGTAGAAAATGCCACTAATGCTTGATCT
1 TTAGCGGCGCTTTTTA-AAAACGCCGCTAATGCTACAACT
**
123017321 TTAGCGGCATTTTTTAAAAAACGCCGC
1 TTAGCGGCGCTTTTT-AAAAACGCCGC
123017348 AAAAAAATTA
Statistics
Matches: 51, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
39 17 0.33
40 33 0.65
41 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (39 bp):
TTAGCGGCGCTTTTTAAAAACGCCGCTAATGCTACAACT
Found at i:123017771 original size:15 final size:14
Alignment explanation
Indices: 123017751--123017788 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
123017741 ACTATTGTAA
123017751 GGTTTATGGATTAT
1 GGTTTATGGATTAT
*
123017765 GGGTTTAGGGATTAT
1 -GGTTTATGGATTAT
123017780 GGTTTATGG
1 GGTTTATGG
123017789 GTTAAAGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.45
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:123017806 original size:21 final size:22
Alignment explanation
Indices: 123017761--123017806 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
123017751 GGTTTATGGA
* * *
123017761 TTATGGGTTTAGGGATTATGGT
1 TTATGGGTTAAAGGATTAGGGT
123017783 TTATGGGTTAAAGG-TTAGGGT
1 TTATGGGTTAAAGGATTAGGGT
123017804 TTA
1 TTA
123017807 AGTTTTAAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (22 bp):
TTATGGGTTAAAGGATTAGGGT
Found at i:123017900 original size:7 final size:7
Alignment explanation
Indices: 123017751--123017901 Score: 52
Period size: 7 Copynumber: 21.0 Consensus size: 7
123017741 ACTATTGTAA
*
123017751 GGTTTAT
1 GGTTTAG
*
123017758 GGATTATG
1 GGTTTA-G
123017766 GGTTTAG
1 GGTTTAG
* *
123017773 GGATTAT
1 GGTTTAG
123017780 GGTTTATG
1 GGTTTA-G
* *
123017788 GGTTAAA
1 GGTTTAG
123017795 GG-TTAG
1 GGTTTAG
*
123017801 GGTTTAA
1 GGTTTAG
*
123017808 GTTTTAAG
1 GGTTT-AG
* *
123017816 GGGTTGG
1 GGTTTAG
*
123017823 GGTTTAA
1 GGTTTAG
*
123017830 GATTTAG
1 GGTTTAG
* *
123017837 GGCTTAAA
1 GG-TTTAG
* *
123017845 GGTTAAT
1 GGTTTAG
*
123017852 GGTTTAT
1 GGTTTAG
* *
123017859 GTTTTAT
1 GGTTTAG
*
123017866 GGTTTAA
1 GGTTTAG
*
123017873 GGTCTAG
1 GGTTTAG
*
123017880 GGGTTAG
1 GGTTTAG
123017887 GGATTTAG
1 GG-TTTAG
123017895 GGTTTAG
1 GGTTTAG
123017902 ATTAATTAGT
Statistics
Matches: 103, Mismatches: 35, Indels: 12
0.69 0.23 0.08
Matches are distributed among these distances:
6 4 0.04
7 74 0.72
8 25 0.24
ACGTcount: A:0.22, C:0.01, G:0.35, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:123021723 original size:54 final size:54
Alignment explanation
Indices: 123021641--123021806 Score: 262
Period size: 54 Copynumber: 3.1 Consensus size: 54
123021631 AGGAAGCGTC
* * *
123021641 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
123021695 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* **
123021749 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTATCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTG-ATCTGGTGGCTCTGCCACATATATCTGTT
123021803 CTGG
1 CTGG
123021807 CAGCCACGCT
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
54 88 0.84
55 17 0.16
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:123021796 original size:27 final size:26
Alignment explanation
Indices: 123021641--123021806 Score: 215
Period size: 27 Copynumber: 6.2 Consensus size: 26
123021631 AGGAAGCGTC
* * *
123021641 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
123021668 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
123021695 CTGGTGGCTCTGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
123021722 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
123021749 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* **
123021777 CTGGTGACTCTATCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
123021803 CTGG
1 CTGG
123021807 CAGCCACGCT
Statistics
Matches: 126, Mismatches: 8, Indels: 11
0.87 0.06 0.08
Matches are distributed among these distances:
26 8 0.06
27 100 0.79
28 18 0.14
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:123021797 original size:81 final size:81
Alignment explanation
Indices: 123021641--123021806 Score: 237
Period size: 81 Copynumber: 2.0 Consensus size: 81
123021631 AGGAAGCGTC
*
123021641 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGACTCT
*
123021706 GCCACGATTATCTGAT
66 ACCACGATTATCTGAT
* * *
123021722 CTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGAT-TATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCAC-ATATATCTGT-TCTGGTGACT
* *
123021786 CTATCAC-ATTATCTGTT
64 CTACCACGATTATCTGAT
123021803 CTGG
1 CTGG
123021807 CAGCCACGCT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
81 60 0.79
82 16 0.21
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGACTCT
ACCACGATTATCTGAT
Found at i:123025607 original size:83 final size:83
Alignment explanation
Indices: 123025468--123025632 Score: 321
Period size: 83 Copynumber: 2.0 Consensus size: 83
123025458 CTTTGTGCTA
*
123025468 AATTTGTACCACCAGCCTTAATGGTCTCTCCCTTTCTTTATCATTTCTATTCTTGCTACTTAATT
1 AATTTGTACCACCAGACTTAATGGTCTCTCCCTTTCTTTATCATTTCTATTCTTGCTACTTAATT
123025533 ATCAAAAATGGGTGCACT
66 ATCAAAAATGGGTGCACT
123025551 AATTTGTACCACCAGACTTAATGGTCTCTCCCTTTCTTTATCATTTCTATTCTTGCTACTTAATT
1 AATTTGTACCACCAGACTTAATGGTCTCTCCCTTTCTTTATCATTTCTATTCTTGCTACTTAATT
123025616 ATCAAAAATGGGTGCAC
66 ATCAAAAATGGGTGCAC
123025633 CAACAGACTC
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.41
Consensus pattern (83 bp):
AATTTGTACCACCAGACTTAATGGTCTCTCCCTTTCTTTATCATTTCTATTCTTGCTACTTAATT
ATCAAAAATGGGTGCACT
Found at i:123027532 original size:20 final size:21
Alignment explanation
Indices: 123027479--123027540 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 21
123027469 CAAATTTCAA
123027479 AAATTAAACATAATATAATATTT
1 AAATTAAA-ATAA-ATAATATTT
* *
123027502 AAAATAGAAATAAATATTATTT
1 AAATTA-AAATAAATAATATTT
123027524 -AATTAAAATAAAATAAT
1 AAATTAAAAT-AAATAAT
123027541 TTTTTAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 4 0.12
21 10 0.30
22 8 0.24
23 9 0.27
24 2 0.06
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATTAAAATAAATAATATTT
Found at i:123027608 original size:43 final size:42
Alignment explanation
Indices: 123027547--123027667 Score: 179
Period size: 43 Copynumber: 2.8 Consensus size: 42
123027537 TAATTTTTTA
* * *
123027547 AAAGGTTATGATTTTTAGCGGCGTTTGTGTGAAAAGCGCCGCT
1 AAAGGTTGTGTTTTTTAGCGGCGTTTGTG-GAAAAGCGCCACT
123027590 AAAGGTTGTGTTTTTTAGCGGCGTTTGTGGAAAAAGCGCCACT
1 AAAGGTTGTGTTTTTTAGCGGCGTTTGTGG-AAAAGCGCCACT
*
123027633 AAAGGTCGTGTTTTTTAGCGGCGTTTGTGGGAAAA
1 AAAGGTTGTGTTTTTTAGCGGCGTTTGT-GGAAAA
123027668 ACATTTTTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
42 1 0.01
43 69 0.96
44 2 0.03
ACGTcount: A:0.23, C:0.12, G:0.31, T:0.33
Consensus pattern (42 bp):
AAAGGTTGTGTTTTTTAGCGGCGTTTGTGGAAAAGCGCCACT
Found at i:123031716 original size:40 final size:39
Alignment explanation
Indices: 123031556--123031718 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
123031546 TGTGTATGAA
*
123031556 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
123031595 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
123031634 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
123031673 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
123031713 TGTGCG
1 TGTGCG
123031719 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:123031734 original size:40 final size:39
Alignment explanation
Indices: 123031556--123031749 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
123031546 TGTGTATGAA
* *
123031556 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
123031595 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
123031634 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
123031673 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
123031713 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
123031750 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:123039619 original size:40 final size:39
Alignment explanation
Indices: 123039459--123039621 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
123039449 TGTGTATGAA
*
123039459 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
123039498 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
123039537 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
123039576 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
123039616 TGTGCG
1 TGTGCG
123039622 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:123039637 original size:40 final size:39
Alignment explanation
Indices: 123039459--123039652 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
123039449 TGTGTATGAA
* *
123039459 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
123039498 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
123039537 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
123039576 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
123039616 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
123039653 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:123043227 original size:39 final size:38
Alignment explanation
Indices: 123043160--123043294 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
123043150 ACCAATATGG
* *
123043160 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAATTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGTAATAATTGA
* * *
123043199 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGTAATAATTGA
* * * * * * *
123043237 TACCTAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGTAATA-ATTGA
*
123043278 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
123043295 ACTCGAGGTC
Statistics
Matches: 72, Mismatches: 19, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
38 17 0.24
39 36 0.50
40 4 0.06
41 15 0.21
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGTAATAATTGA
Found at i:123044835 original size:17 final size:17
Alignment explanation
Indices: 123044813--123044847 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
123044803 GAATGCTCTC
*
123044813 TGTTTCTTATTCTTCTT
1 TGTTTCTTATTATTCTT
*
123044830 TGTTTCTTTTTATTCTT
1 TGTTTCTTATTATTCTT
123044847 T
1 T
123044848 TTCTTCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.74
Consensus pattern (17 bp):
TGTTTCTTATTATTCTT
Found at i:123044917 original size:13 final size:13
Alignment explanation
Indices: 123044877--123044910 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
123044867 ACATATATAT
* *
123044877 ATAATATTATTTA
1 ATAATAATAGTTA
123044890 ATAATAATAGTTA
1 ATAATAATAGTTA
123044903 ATAATAAT
1 ATAATAAT
123044911 TTATAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
ATAATAATAGTTA
Found at i:123048207 original size:42 final size:42
Alignment explanation
Indices: 123048096--123048217 Score: 136
Period size: 42 Copynumber: 2.9 Consensus size: 42
123048086 TATCATACTA
** * ** *
123048096 ATGCCATATATCAGATATGGTCTTATATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACATAATCTCATATCG
* * * * *
123048138 ATGGCAATAGCCCAGCTATGGTTTTACACAAAATCTCATATCG
1 AT-GCCATATCCCAGATATGGTCTTACACATAATCTCATATCG
123048181 ATGCCATATCCCAGATATGGTCTTACACATAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACATAATCTCA
123048218 GTAACCCTAA
Statistics
Matches: 63, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
42 32 0.51
43 31 0.49
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACATAATCTCATATCG
Found at i:123052642 original size:26 final size:27
Alignment explanation
Indices: 123052603--123052699 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 27
123052593 TTAGTTTACC
* *
123052603 AAATTACTGAAATACCCTTGGTTTA-AA
1 AAATTACTGAAATA-CCTTCGATTAGAA
*
123052630 AAATTATTG-AATACCTTCGATTAGAA
1 AAATTACTGAAATACCTTCGATTAGAA
** * *
123052656 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACTGAAATACCTTCGATTAGAA
**
123052683 AAATTACCAAAATACCT
1 AAATTACTGAAATACCT
123052700 CTGGTTTGTA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
25 8 0.14
26 12 0.20
27 39 0.66
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATTACTGAAATACCTTCGATTAGAA
Found at i:123052834 original size:27 final size:28
Alignment explanation
Indices: 123052655--123052834 Score: 192
Period size: 27 Copynumber: 6.6 Consensus size: 28
123052645 TTCGATTAGA
* *
123052655 AAAATTACCAAAATACCCTC-GATTAGC
1 AAAATTACCAAAATACCCTCTGATTTGT
*
123052682 AAAATTACCAAAATA-CCTCTGGTTTGT
1 AAAATTACCAAAATACCCTCTGATTTGT
* *
123052709 AAAATTACCAAAACACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTCTGATTTGT
* *
123052736 AAAATTAACAAAATACCC-CTAATTTGT
1 AAAATTACCAAAATACCCTCTGATTTGT
* ** *
123052763 AAAATTACTAAAATACCCTC-GACCTAT
1 AAAATTACCAAAATACCCTCTGATTTGT
* *
123052790 AAAATTACTAAAATACCCTC-GACTTGT
1 AAAATTACCAAAATACCCTCTGATTTGT
*
123052817 AAAATTACCAAAGTACCC
1 AAAATTACCAAAATACCC
123052835 CCGATTTACA
Statistics
Matches: 132, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
26 4 0.03
27 125 0.95
28 3 0.02
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (28 bp):
AAAATTACCAAAATACCCTCTGATTTGT
Found at i:123052903 original size:27 final size:27
Alignment explanation
Indices: 123052873--123053011 Score: 197
Period size: 27 Copynumber: 5.1 Consensus size: 27
123052863 CAATTTACAA
*
123052873 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAG
*
123052900 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAG
123052927 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAG
* * * *
123052954 AAATACCGAAATTCCCCTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAG
* * *
123052981 AATTATCGAGATACCCTTGTGGGGTAA
1 AATTATCGAAATACCCTTGTAGGGTAG
123053008 AATT
1 AATT
123053012 GCCATTTTGC
Statistics
Matches: 98, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.27
Consensus pattern (27 bp):
AATTATCGAAATACCCTTGTAGGGTAG
Found at i:123053443 original size:22 final size:21
Alignment explanation
Indices: 123053392--123053455 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 21
123053382 CCAATTATTT
* *
123053392 TGATTATGGCTTTGCGCCAAC
1 TGATTATGGCTCTGTGCCAAC
* *
123053413 TTACATATGGCTCTGTGCCAACC
1 TGA-TTATGGCTCTGTGCCAA-C
* *
123053436 TGATTATGGTTGTGTGCCAA
1 TGATTATGGCTCTGTGCCAA
123053456 ACGTTTTTTC
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
21 2 0.06
22 28 0.85
23 3 0.09
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.34
Consensus pattern (21 bp):
TGATTATGGCTCTGTGCCAAC
Found at i:123053695 original size:26 final size:25
Alignment explanation
Indices: 123053621--123053720 Score: 101
Period size: 27 Copynumber: 3.8 Consensus size: 25
123053611 TAAGTGGCTT
* *
123053621 TGCCACATTATCTGTTTCTGGTGGCTA
1 TGCCACAATATCTG-TTCTGGT-GCTC
*
123053648 TGCCACAAATATCTATTCTGGTGCTC
1 TGCCAC-AATATCTGTTCTGGTGCTC
*
123053674 TGCCACAATATCTGTATATGGTGACTC
1 TGCCACAATATCTGT-TCTGGTG-CTC
* *
123053701 TGTCACAATATTTGTTCTGG
1 TGCCACAATATCTGTTCTGG
123053721 CAGCCATGCT
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
25 8 0.13
26 19 0.31
27 29 0.47
28 6 0.10
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (25 bp):
TGCCACAATATCTGTTCTGGTGCTC
Found at i:123053847 original size:6 final size:6
Alignment explanation
Indices: 123053838--123053935 Score: 58
Period size: 6 Copynumber: 15.8 Consensus size: 6
123053828 TTGCATTCAC
* * * * *
123053838 ATTCTG ATTCTA ATTCTG -TTACCTG ATACTG ATCCTG ATTCT- ATCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
123053888 ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTA ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCT
123053936 CATTTTTATT
Statistics
Matches: 71, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
5 5 0.07
6 54 0.76
7 8 0.11
8 4 0.06
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.45
Consensus pattern (6 bp):
ATTCTG
Found at i:123053869 original size:25 final size:25
Alignment explanation
Indices: 123053841--123053930 Score: 69
Period size: 25 Copynumber: 3.6 Consensus size: 25
123053831 CATTCACATT
123053841 CTGATTCTAATTCTGTTACCTGATA
1 CTGATTCTAATTCTGTTACCTGATA
* * * * * *
123053866 CTGATCCTGATTCTATCACCTAATT
1 CTGATTCTAATTCTGTTACCTGATA
*
123053891 CTGATTCTGATTCTGATT--CTG-TCA
1 CTGATTCTAATTCTG-TTACCTGAT-A
123053915 CCTGATTCTAATTCTG
1 -CTGATTCTAATTCTG
123053931 ATTCTCATTT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
23 1 0.02
24 2 0.04
25 46 0.92
26 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.43
Consensus pattern (25 bp):
CTGATTCTAATTCTGTTACCTGATA
Found at i:123053933 original size:31 final size:31
Alignment explanation
Indices: 123053866--123053935 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
123053856 TTACCTGATA
* *
123053866 CTGATCCTGATTCTATCACCTAATTCTGATT
1 CTGATTCTGATTCTATCACCTAATTCTAATT
* *
123053897 CTGATTCTGATTCTGTCACCTGATTCTAATT
1 CTGATTCTGATTCTATCACCTAATTCTAATT
123053928 CTGATTCT
1 CTGATTCT
123053936 CATTTTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.20, C:0.24, G:0.11, T:0.44
Consensus pattern (31 bp):
CTGATTCTGATTCTATCACCTAATTCTAATT
Found at i:123054988 original size:47 final size:49
Alignment explanation
Indices: 123054875--123054997 Score: 146
Period size: 47 Copynumber: 2.6 Consensus size: 49
123054865 ACTAAGTGCC
* * * *
123054875 AATATCATGGCTCGAAGCCAACTCAAT-ATATCTCACGCCCGAAGTGGT
1 AATATCATGGCTCGAAGCCAAATCAATGATAGCTCACGACCGAAGTCGT
*
123054923 AATATCATGGCCCGAAGCCAAATCAATGA-AGCTCAC-ACCGAAGTACG-
1 AATATCATGGCTCGAAGCCAAATCAATGATAGCTCACGACCGAAGT-CGT
* *
123054970 AATATCATGGTTCAAAGCCAAATCAATG
1 AATATCATGGCTCGAAGCCAAATCAATG
123054998 TATCCCCTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
47 32 0.49
48 32 0.49
49 1 0.02
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (49 bp):
AATATCATGGCTCGAAGCCAAATCAATGATAGCTCACGACCGAAGTCGT
Found at i:123056978 original size:21 final size:21
Alignment explanation
Indices: 123056952--123057013 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
123056942 ATGAGAGCTA
123056952 AACGAAAACCTATAAGGGTTG
1 AACGAAAACCTATAAGGGTTG
* * * *
123056973 AACGAAAGCTTGTAAGAGTTG
1 AACGAAAACCTATAAGGGTTG
* *
123056994 AACGGAAACCCATAAGGGTT
1 AACGAAAACCTATAAGGGTT
123057014 AAACAGAAGC
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.19
Consensus pattern (21 bp):
AACGAAAACCTATAAGGGTTG
Found at i:123057003 original size:42 final size:42
Alignment explanation
Indices: 123056926--123057110 Score: 183
Period size: 42 Copynumber: 4.4 Consensus size: 42
123056916 AAAGCCCGAA
* * ** * *
123056926 GGTTGAACAGAAGCTTATGAGAGCTAAACGAAAACCTATAAG
1 GGTTAAACAGAAGCTCAAAAGAGCTAAACGGAAACCCATAAG
* *** * *
123056968 GGTTGAAC-GAAAGCTTGTAAGAGTTGAACGGAAACCCATAAG
1 GGTTAAACAG-AAGCTCAAAAGAGCTAAACGGAAACCCATAAG
*
123057010 GGTTAAACAGAAGCTCAAAAGAGCTAAACGGAAACCCATAAC
1 GGTTAAACAGAAGCTCAAAAGAGCTAAACGGAAACCCATAAG
* * * *
123057052 GGTTAAACAAAAGCTCAAAAGAACTGAACGGAAGCCCATAAG
1 GGTTAAACAGAAGCTCAAAAGAGCTAAACGGAAACCCATAAG
* *
123057094 GGTTAAACGGAAACTCA
1 GGTTAAACAGAAGCTCA
123057111 TATGAGTTAA
Statistics
Matches: 120, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
41 1 0.01
42 118 0.98
43 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (42 bp):
GGTTAAACAGAAGCTCAAAAGAGCTAAACGGAAACCCATAAG
Found at i:123057058 original size:21 final size:21
Alignment explanation
Indices: 123056994--123057112 Score: 64
Period size: 21 Copynumber: 5.7 Consensus size: 21
123056984 GTAAGAGTTG
*
123056994 AACGGAAACCCATAAGGGTTA
1 AACGGAAACCCATAAAGGTTA
* * * *
123057015 AACAGAAGCTCA-AAAGAGCTA
1 AACGGAAACCCATAAAG-GTTA
*
123057036 AACGGAAACCCATAACGGTTA
1 AACGGAAACCCATAAAGGTTA
* * ** *
123057057 AAC-AAAAGCTCA-AAAGAACTG
1 AACGGAAA-CCCATAAAG-GTTA
* *
123057078 AACGGAAGCCCATAAGGGTTA
1 AACGGAAACCCATAAAGGTTA
*
123057099 AACGGAAACTCATA
1 AACGGAAACCCATA
123057113 TGAGTTAACA
Statistics
Matches: 67, Mismatches: 25, Indels: 12
0.64 0.24 0.12
Matches are distributed among these distances:
20 9 0.13
21 50 0.75
22 8 0.12
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (21 bp):
AACGGAAACCCATAAAGGTTA
Found at i:123057080 original size:84 final size:84
Alignment explanation
Indices: 123056926--123057110 Score: 217
Period size: 84 Copynumber: 2.2 Consensus size: 84
123056916 AAAGCCCGAA
* * ** * * * * *** *
123056926 GGTTGAACAGAAGCTTATGAGAGCTAAACGAAAACCTATAAGGGTTGAACGAAAGCTTGTAAGAG
1 GGTTAAACAGAAGCTCAAAAGAGCTAAACGAAAACCCATAACGGTTAAACAAAAGCTCAAAAGAA
*
123056991 TTGAACGGAAACCCATAAG
66 CTGAACGGAAACCCATAAG
*
123057010 GGTTAAACAGAAGCTCAAAAGAGCTAAACGGAAACCCATAACGGTTAAACAAAAGCTCAAAAGAA
1 GGTTAAACAGAAGCTCAAAAGAGCTAAACGAAAACCCATAACGGTTAAACAAAAGCTCAAAAGAA
*
123057075 CTGAACGGAAGCCCATAAG
66 CTGAACGGAAACCCATAAG
* *
123057094 GGTTAAACGGAAACTCA
1 GGTTAAACAGAAGCTCA
123057111 TATGAGTTAA
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (84 bp):
GGTTAAACAGAAGCTCAAAAGAGCTAAACGAAAACCCATAACGGTTAAACAAAAGCTCAAAAGAA
CTGAACGGAAACCCATAAG
Found at i:123057230 original size:24 final size:24
Alignment explanation
Indices: 123057203--123057248 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
123057193 AGTAATTTGT
123057203 CATCAATTCATCCTTTACATTTTC
1 CATCAATTCATCCTTTACATTTTC
123057227 CATCAATTCATCCTTTACATTT
1 CATCAATTCATCCTTTACATTT
123057249 GTAGTGTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.46
Consensus pattern (24 bp):
CATCAATTCATCCTTTACATTTTC
Done.