Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 26 of 325
Found at i:9759504 original size:18 final size:17
Alignment explanation
Indices: 9759474--9759507 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9759464 GATCCGATTG
*
9759474 AAAAACGAGAATTTTTT
1 AAAAACGAAAATTTTTT
9759491 AAAACACGAAAATTTTT
1 AAAA-ACGAAAATTTTT
9759508 GGGATCCGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (17 bp):
AAAAACGAAAATTTTTT
Found at i:9760048 original size:3 final size:3
Alignment explanation
Indices: 9760034--9760123 Score: 55
Period size: 3 Copynumber: 30.3 Consensus size: 3
9760024 ATATATACCA
* * *
9760034 AAT AAT ACAT AAT AAT ACT AA- AAT AA- AAT AAT AAGT AAC AAT AGT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
* * *
9760079 AA- AAT AAT AAG CAT AAT AAT AA- ATAT AAT GAT ATAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT A-AT AAT AAT AAT
9760123 A
1 A
9760124 CTATATATAA
Statistics
Matches: 66, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
2 9 0.14
3 47 0.71
4 10 0.15
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:9760062 original size:26 final size:26
Alignment explanation
Indices: 9760033--9760085 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
9760023 TATATATACC
*
9760033 AAATAATACA-TAATAATACTAAAATA
1 AAATAATA-AGTAACAATACTAAAATA
*
9760059 AAATAATAAGTAACAATAGTAAAATA
1 AAATAATAAGTAACAATACTAAAATA
9760085 A
1 A
9760086 TAAGCATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.25
Consensus pattern (26 bp):
AAATAATAAGTAACAATACTAAAATA
Found at i:9760106 original size:21 final size:21
Alignment explanation
Indices: 9760055--9760107 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
9760045 ATAATACTAA
9760055 AATAAAATAATAAGTAACAAT
1 AATAAAATAATAAGTAACAAT
* * *
9760076 AGTAAAATAATAAG-CATAAT
1 AATAAAATAATAAGTAACAAT
9760096 AATAAATATAAT
1 AATAAA-ATAAT
9760108 GATATATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (21 bp):
AATAAAATAATAAGTAACAAT
Found at i:9760212 original size:3 final size:3
Alignment explanation
Indices: 9760204--9760254 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
9760194 AAAAATAAGT
* * * *
9760204 ATA ATA AT- ATA TTA GATA GTA AAA ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9760249 ATA ATA
1 ATA ATA
9760255 TATGAAGGTT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 34 0.89
4 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:9760565 original size:29 final size:30
Alignment explanation
Indices: 9760533--9760589 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
9760523 ATTAGCAGCG
* *
9760533 TGAAAATGATAA-AATAACAAATATTTAAA
1 TGAAAATAATAAGAACAACAAATATTTAAA
*
9760562 TGAAGATAATAAGAACAACAAATATTTA
1 TGAAAATAATAAGAACAACAAATATTTA
9760590 GAAAGTAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.60, C:0.05, G:0.09, T:0.26
Consensus pattern (30 bp):
TGAAAATAATAAGAACAACAAATATTTAAA
Found at i:9764705 original size:20 final size:20
Alignment explanation
Indices: 9764651--9764705 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
9764641 TGAGTAAATT
9764651 AATTT-AAATTTAATTTATAA
1 AATTTCAAATTT-ATTTATAA
* **
9764671 TATTTCAAAAATATTT-TAA
1 AATTTCAAATTTATTTATAA
9764690 GAATTTCAAATTTATT
1 -AATTTCAAATTTATT
9764706 ATCAAATATG
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
19 3 0.11
20 20 0.74
21 4 0.15
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (20 bp):
AATTTCAAATTTATTTATAA
Found at i:9777779 original size:235 final size:225
Alignment explanation
Indices: 9777451--9777919 Score: 638
Period size: 235 Copynumber: 2.0 Consensus size: 225
9777441 ATGATTAATA
* **
9777451 TTTAGGGCTAATGTTTTAGTTTTCAACTTTCAAGGTTTAGTGTTCATGTTCCAAGATTTTCTTTT
1 TTTAGGGTTAATGTTTTAGTTTTCAACTTTCAAGGTTTAGTGTTCACATTCCAAGATTTTCTTTT
***
9777516 AGGGTTTATGGTCTTGGTACCCAATGCTTTTA-TTT-CACCTTTTATGATTTTTAGGGTTTAAAA
66 AGGGTTTACAATCTTGGTACCCAATGCTTTTATTTTGCA-CTTTTATGATTTTTAGGGTTTAAAA
* *
9777579 GGTAAGGCTAGGGCTTATGAATTTTGTTTTATGGTTTAGGATTTAGGATTTTA-AGGTTTATAAT
130 GGTAAGACTAGGGCTTATGAAATTTGTTTTATGGTTT---A---A-GA-TTTACA-GTTTATAAT
*
9777643 TTTATTGTTTATATTTGTGTTTTAAGGTTTTATCTTTTTTCT
186 TTTATTGTTTATATTTGGGTTTTAAGGTTTTA--TTTTTTCT
* * **
9777685 TTTAGGGTTAATGTTTTAGTGTTTTAATTTTCAAGGTTTAGTGTTCACATTTTAAGATTTTCTTT
1 TTTAGGGTTAATGTTTTAGT-TTTCAACTTTCAAGGTTTAGTGTTCACATTCCAAGATTTTCTTT
* * *
9777750 TGGGGTTTACAATCTTGGTACCCAATGCTTTTATTTTGCAGTTTTATGATTTTTAGGGTTTAAGA
65 TAGGGTTTACAATCTTGGTACCCAATGCTTTTATTTTGCACTTTTATGATTTTTAGGGTTTAAAA
* *
9777815 GGTAAGATTAGTGCTTATGAAATTTGTTTTATGGTTTAAGATTTACAGTTTATAATTTTATTGTT
130 GGTAAGACTAGGGCTTATGAAATTTGTTTTATGGTTTAAGATTTACAGTTTATAATTTTATTGTT
9777880 TATATTTGGGTTTTAAGGTTTTATTTTTTCT
195 TATATTTGGGTTTTAAGGTTTTATTTTTTCT
9777911 TTTAGGGTT
1 TTTAGGGTT
9777920 TCAAGGCTAG
Statistics
Matches: 213, Mismatches: 18, Indels: 16
0.86 0.07 0.06
Matches are distributed among these distances:
226 17 0.08
228 44 0.21
229 3 0.01
230 1 0.00
233 1 0.00
234 19 0.09
235 67 0.31
236 59 0.28
237 2 0.01
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (225 bp):
TTTAGGGTTAATGTTTTAGTTTTCAACTTTCAAGGTTTAGTGTTCACATTCCAAGATTTTCTTTT
AGGGTTTACAATCTTGGTACCCAATGCTTTTATTTTGCACTTTTATGATTTTTAGGGTTTAAAAG
GTAAGACTAGGGCTTATGAAATTTGTTTTATGGTTTAAGATTTACAGTTTATAATTTTATTGTTT
ATATTTGGGTTTTAAGGTTTTATTTTTTCT
Found at i:9777918 original size:28 final size:28
Alignment explanation
Indices: 9777870--9777925 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
9777860 CAGTTTATAA
*
9777870 TTTTATTGTTTATATTTGGGTTTTAAGG
1 TTTTATTGTTTATATTTGGGTTTCAAGG
* *
9777898 TTTTATTTTTTCT-TTTAGGGTTTCAAGG
1 TTTTATTGTTTATATTT-GGGTTTCAAGG
9777926 CTAGAGTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.16, C:0.04, G:0.20, T:0.61
Consensus pattern (28 bp):
TTTTATTGTTTATATTTGGGTTTCAAGG
Found at i:9791270 original size:17 final size:16
Alignment explanation
Indices: 9791250--9791295 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
9791240 AAAAAAACTT
*
9791250 AAAATTTTAAAAATTAC
1 AAAATTTTAAAAA-TAA
9791267 AAAATTTTAAAAATAA
1 AAAATTTTAAAAATAA
9791283 AAAATATTTAAAA
1 AAAAT-TTTAAAA
9791296 TTCAAAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 7 0.26
17 20 0.74
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATTTTAAAAATAA
Found at i:9791278 original size:16 final size:16
Alignment explanation
Indices: 9791250--9791302 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
9791240 AAAAAAACTT
9791250 AAAATTTTAAAAATTAC
1 AAAATTTT-AAAATTAC
* *
9791267 AAAATTTTAAAAATAA
1 AAAATTTTAAAATTAC
9791283 AAAATATTTAAAATT-C
1 AAAAT-TTTAAAATTAC
9791299 AAAA
1 AAAA
9791303 CTTAAAATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 15 0.48
17 16 0.52
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAATTTTAAAATTAC
Found at i:9797436 original size:19 final size:19
Alignment explanation
Indices: 9797412--9797449 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9797402 ATATTCATAC
*
9797412 GGTTCATGATTAAGAAAAT
1 GGTTCATAATTAAGAAAAT
*
9797431 GGTTCATAATTGAGAAAAT
1 GGTTCATAATTAAGAAAAT
9797450 TATGCATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (19 bp):
GGTTCATAATTAAGAAAAT
Found at i:9798597 original size:15 final size:15
Alignment explanation
Indices: 9798574--9798611 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
9798564 AATTCAGTAC
*
9798574 TTAAATTTTTAA-TA
1 TTAATTTTTTAACTA
9798588 TTTAATTTTTTAACTA
1 -TTAATTTTTTAACTA
9798604 TTAATTTT
1 TTAATTTT
9798612 CAATTTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.90
16 2 0.10
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
TTAATTTTTTAACTA
Found at i:9804690 original size:22 final size:22
Alignment explanation
Indices: 9804662--9804706 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
9804652 ACCAGCTGTT
9804662 TAAATATATATTTATATATTCA
1 TAAATATATATTTATATATTCA
9804684 TAAATATATATTTATATATTCA
1 TAAATATATATTTATATATTCA
9804706 T
1 T
9804707 TTATTTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (22 bp):
TAAATATATATTTATATATTCA
Found at i:9820241 original size:31 final size:31
Alignment explanation
Indices: 9820204--9820292 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 31
9820194 AAATGCCTAT
*
9820204 AATTAAAATAAAATTAAAATTTTATGTATAC
1 AATTAAAATAAAATTAAAATTTTATATATAC
* * * * * *
9820235 ATTTAAATTAAAATCAAAGTATTATATATAT
1 AATTAAAATAAAATTAAAATTTTATATATAC
*
9820266 AATT-ACATAAAATTAAAA-TTTATATAT
1 AATTAAAATAAAATTAAAATTTTATATAT
9820293 CAAAATATAC
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 8 0.18
30 10 0.22
31 27 0.60
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.40
Consensus pattern (31 bp):
AATTAAAATAAAATTAAAATTTTATATATAC
Found at i:9820304 original size:31 final size:28
Alignment explanation
Indices: 9820211--9820317 Score: 70
Period size: 31 Copynumber: 3.5 Consensus size: 28
9820201 TATAATTAAA
* * * *
9820211 ATAAAATTAAAATTTTATGTATACATTTAA
1 ATAAAA-TAAAA-TTTATATATAAAATTAC
* *
9820241 ATTAAAATCAAAGTATTATATATATAATTAC
1 A-TAAAAT-AAAAT-TTATATATAAAATTAC
9820272 ATAAAATTAAAATTTATATATCAAAATATAC
1 ATAAAA-TAAAATTTATATAT-AAAAT-TAC
* *
9820303 ATTAAATCAAATTTA
1 ATAAAATAAAATTTA
9820318 GTATCCTGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
29 8 0.13
30 24 0.39
31 30 0.48
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (28 bp):
ATAAAATAAAATTTATATATAAAATTAC
Found at i:9824083 original size:2 final size:2
Alignment explanation
Indices: 9824076--9824101 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9824066 TATACGCAAG
9824076 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
9824102 GACAAGAGTG
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:9824601 original size:20 final size:20
Alignment explanation
Indices: 9824576--9824616 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
9824566 TTCAACATTA
9824576 ATAGAATATTATGTACGTTG
1 ATAGAATATTATGTACGTTG
9824596 ATAGAATATTATGTACGTTG
1 ATAGAATATTATGTACGTTG
9824616 A
1 A
9824617 CAATTGGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.39
Consensus pattern (20 bp):
ATAGAATATTATGTACGTTG
Found at i:9826299 original size:29 final size:29
Alignment explanation
Indices: 9826266--9826328 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
9826256 CCAAATTAAA
9826266 CACCCTACTAAACCGAT-CACTAACTCCAT
1 CACCCTACTAAACC-ATCCACTAACTCCAT
*
9826295 CACCCTACTAAACCATCCACTACCTCCAT
1 CACCCTACTAAACCATCCACTAACTCCAT
9826324 CACCC
1 CACCC
9826329 CCACACCCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 2 0.06
29 30 0.94
ACGTcount: A:0.32, C:0.48, G:0.02, T:0.19
Consensus pattern (29 bp):
CACCCTACTAAACCATCCACTAACTCCAT
Found at i:9826341 original size:37 final size:37
Alignment explanation
Indices: 9826295--9826369 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
9826285 CTAACTCCAT
9826295 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
* *
9826332 CACCCTACTAAACCGTCCACTACCTCTATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
9826369 C
1 C
9826370 TACATCCATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.28, C:0.53, G:0.01, T:0.17
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:9826371 original size:18 final size:18
Alignment explanation
Indices: 9826311--9826383 Score: 60
Period size: 18 Copynumber: 4.0 Consensus size: 18
9826301 ACTAAACCAT
9826311 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
* * *
9826329 CCAC-ACC-CTACTAAACCGT
1 CCACTACCTCCA-T-CACC-C
*
9826348 CCACTACCTCTATCACCC
1 CCACTACCTCCATCACCC
*
9826366 CCACTACATCCATCACCC
1 CCACTACCTCCATCACCC
9826384 TACTTGTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
16 2 0.05
17 4 0.09
18 23 0.53
19 7 0.16
20 4 0.09
21 3 0.07
ACGTcount: A:0.26, C:0.55, G:0.01, T:0.18
Consensus pattern (18 bp):
CCACTACCTCCATCACCC
Found at i:9826468 original size:11 final size:12
Alignment explanation
Indices: 9826443--9826473 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
9826433 TTGTATGGGA
9826443 AGGATTTTGGAG
1 AGGATTTTGGAG
9826455 AGGATTTT-GAG
1 AGGATTTTGGAG
9826466 AGGATTTT
1 AGGATTTT
9826474 TGGAAGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.39
Consensus pattern (12 bp):
AGGATTTTGGAG
Found at i:9826827 original size:19 final size:18
Alignment explanation
Indices: 9826803--9826839 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
9826793 TTATGTTTCA
9826803 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
9826822 TATTATTATATATTTATT
1 TATTATTATATATTTATT
9826840 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:9826851 original size:17 final size:14
Alignment explanation
Indices: 9826811--9826841 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9826801 CATATTATTA
*
9826811 TATTATTTATTTAT
1 TATTATATATTTAT
9826825 TATTATATATTTAT
1 TATTATATATTTAT
9826839 TAT
1 TAT
9826842 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:9827160 original size:21 final size:21
Alignment explanation
Indices: 9827117--9827169 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
9827107 AGCACAATGT
*
9827117 TTATTAC-ATTATTGTATTTA
1 TTATTACTATTATTGTATTAA
* *
9827137 TTATTACTATTGTTTTATTAA
1 TTATTACTATTATTGTATTAA
*
9827158 TTATTTCTATTA
1 TTATTACTATTA
9827170 ATTACTATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (21 bp):
TTATTACTATTATTGTATTAA
Found at i:9827199 original size:13 final size:13
Alignment explanation
Indices: 9827149--9827199 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
9827139 ATTACTATTG
9827149 TTTTATTAATTAT
1 TTTTATTAATTAT
* *
9827162 TTCTATTAATTAC
1 TTTTATTAATTAT
*
9827175 TATTATT-ATTAT
1 TTTTATTAATTAT
*
9827187 TTTTATTATTTAT
1 TTTTATTAATTAT
9827200 ATATGGTTAG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
12 10 0.33
13 20 0.67
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTATTAATTAT
Found at i:9827523 original size:126 final size:126
Alignment explanation
Indices: 9827298--9827541 Score: 434
Period size: 126 Copynumber: 1.9 Consensus size: 126
9827288 CATTGATCTT
* * *
9827298 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATATAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATATAAAGAATTCGAAGAACCATGCCCTA
9827363 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
* *
9827424 CTCTCAAAAATTTTCAAAATAAAGGTAATGTTCGGTATTTAAAGAATTCGAAGAACCATGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATATAAAGAATTCGAAGAACCATGCCCTA
*
9827489 ACGTACTGGGTTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
9827542 AGGTACAAAC
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 112 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (126 bp):
CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATATAAAGAATTCGAAGAACCATGCCCTA
ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
Found at i:9828495 original size:18 final size:18
Alignment explanation
Indices: 9828463--9828497 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9828453 CCTACCCTAG
9828463 TTAGGGTTACGCCAAATC
1 TTAGGGTTACGCCAAATC
9828481 TTAGTGGTTAC-CCAAAT
1 TTAG-GGTTACGCCAAAT
9828498 AGGTGTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (18 bp):
TTAGGGTTACGCCAAATC
Found at i:9828886 original size:19 final size:19
Alignment explanation
Indices: 9828864--9828910 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
9828854 GACGTCTTCT
*
9828864 TTTGCATT-CATCCCATGCA
1 TTTGCATTACATCACAT-CA
9828883 TTTGCATTACATCACATCA
1 TTTGCATTACATCACATCA
*
9828902 TGTGCATTA
1 TTTGCATTA
9828911 ATTCAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.38
Consensus pattern (19 bp):
TTTGCATTACATCACATCA
Found at i:9838746 original size:13 final size:12
Alignment explanation
Indices: 9838720--9838800 Score: 62
Period size: 11 Copynumber: 6.8 Consensus size: 12
9838710 CTTCACTTTC
9838720 AAAA-AAAAA-G
1 AAAAGAAAAAGG
*
9838730 AAGAGAAAAAGG
1 AAAAGAAAAAGG
9838742 AAAGAGAAAAAAGG
1 AAA-AG-AAAAAGG
9838756 AAAAGGAAAAA-G
1 AAAA-GAAAAAGG
**
9838768 AAAAGAAAAACAA
1 AAAAGAAAAA-GG
*
9838781 AAAAGAGAAA-G
1 AAAAGAAAAAGG
9838792 AAAAGAAAA
1 AAAAGAAAA
9838801 GCAAATGAGA
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
10 3 0.05
11 19 0.33
12 8 0.14
13 17 0.29
14 11 0.19
ACGTcount: A:0.78, C:0.01, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAGG
Found at i:9838773 original size:5 final size:5
Alignment explanation
Indices: 9838720--9838801 Score: 53
Period size: 5 Copynumber: 16.0 Consensus size: 5
9838710 CTTCACTTTC
* * * *
9838720 AAAAA AAAAG AAGAG AAAAAG GAAAG AGAAA- AAAGG AAAAGG AAAAAG
1 AAAAG AAAAG AAAAG -AAAAG AAAAG A-AAAG AAAAG AAAA-G -AAAAG
*
9838768 AAAAG AAAA- ACAA- AAAAG AGAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG A-AAAG AAAAG AAAAG
9838802 CAAATGAGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
4 8 0.13
5 35 0.57
6 14 0.23
7 4 0.07
ACGTcount: A:0.77, C:0.01, G:0.22, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:9838777 original size:6 final size:6
Alignment explanation
Indices: 9838720--9838800 Score: 53
Period size: 6 Copynumber: 13.5 Consensus size: 6
9838710 CTTCACTTTC
* * *
9838720 AAAA-A AAAAG- AAGAGA AAAAGGA AAGAGAA AAAAGGA AAAGGA AAAAG-
1 AAAAGA AAAAGA AAAAGA AAAA-GA AAAAG-A AAAA-GA AAAAGA AAAAGA
* *
9838768 AAAAGA AAAACAA AAAAGA GAAAG- AAAAGA AAA
1 AAAAGA AAAA-GA AAAAGA AAAAGA AAAAGA AAA
9838801 GCAAATGAGA
Statistics
Matches: 58, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
5 17 0.29
6 22 0.38
7 18 0.31
8 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.21, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:9840246 original size:45 final size:45
Alignment explanation
Indices: 9840194--9840402 Score: 162
Period size: 45 Copynumber: 4.6 Consensus size: 45
9840184 AATCATCAGC
9840194 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAACAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAACAGAT
* ** ** *
9840239 CTTATCTTCACTGAGCAGGAGTGAAGCA-AATCAAATTTTGA-AGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAA-CATAACAG-AT
* * * * * * * *
9840285 CTTATCTCCA-TGTATC-GGCAATTGAGCAGATTCCAATCAT--CAG-C
1 CTTATCTTCACTG-AGCAGG-AGTGGAGCAG--GCTAAACATAACAGAT
*
9840329 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAACAGAT
*
9840374 CTTATCTTCACTGAGCAGGAGTGAAGCAG
1 CTTATCTTCACTGAGCAGGAGTGGAGCAG
9840403 ATCAAATTTT
Statistics
Matches: 123, Mismatches: 27, Indels: 28
0.69 0.15 0.16
Matches are distributed among these distances:
42 6 0.05
44 23 0.19
45 68 0.55
46 23 0.19
47 1 0.01
48 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (45 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAACAGAT
Found at i:9840312 original size:135 final size:135
Alignment explanation
Indices: 9840059--9841081 Score: 1334
Period size: 135 Copynumber: 7.6 Consensus size: 135
9840049 GATTTCGGCA
* * *
9840059 AGCCTTATC-CCACTGAGCAGGAATGGAGCAGGCT-AA-AT-ACTAGATCTTATCTTCGCTGAGC
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAAC-AGATCTTATCTTCACTGAGC
* * *
9840120 AGGAACG-GAA-TAGATCAAATTTTGGTGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTC
65 AGG-A-GTGAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTC
9840183 CAATCATC
128 CAATCATC
9840191 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAACAGATCTTATCTTCACTGAGCA
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAACAGATCTTATCTTCACTGAGCA
* * *
9840256 GGAGTGAAGCAAATCAAATTTTGAAGAATCTTATCTCCATGTATCGGCAATTGAGCAGATTCCAA
66 GGAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTCCAA
9840321 TCATC
131 TCATC
*
9840326 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGCA
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAACAGATCTTATCTTCACTGAGCA
** * * * *
9840391 GGAGTGAAGCAGATCAAATTTTGGCGAATCTTACCTCCATGTATCAGCAATGGAGCAGATTTCAG
66 GGAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTCCAA
*
9840456 CCATC
131 TCATC
* * * *
9840461 AGCCTTATCTTCACTGAGCAGAAGTGGAGCAGGCT-AA-AT-ACTATATCTTATATTCGCTGAGC
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAAC-AGATCTTATCTTCACTGAGC
* * * * * *
9840523 AGGAGCGGAGCAGATCAATTTTTGATGAATATTATCTCCATGTATCGGCAATGGAGCATATTTCA
65 AGGAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTCCA
** *
9840588 GCCACC
130 ATCATC
* ** *
9840594 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGGCCTTATCTTCGCTGAGCA
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAACAGATCTTATCTTCACTGAGCA
* * *
9840659 GGAGTGAAGCAGGTCAAAATTTGATGAATCTTATCTCCATGTATCGGCAATGGAGCATATTCCAA
66 GGAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTCCAA
9840724 TCATC
131 TCATC
* * * *
9840729 AGCTTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCATTAAGCA
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAACAGATCTTATCTTCACTGAGCA
* * * * *
9840794 GGAGTGAAGCAAATCAAATTTTGA-CAAGTCTTATCTCCATGTATCGGAAATGGAGTAGATTTCA
66 GGAGTGAAGCAGATCAAATTTTGATGAA-TCTTATCTCCATGTATCGGCAATGGAGCAGATTCCA
** *
9840858 GCCACC
130 ATCATC
* * * * * *
9840864 AGCCTTATTTTCACTAAGCAGGAGTGGAGCAGGCT--ATAT-ACTAGACCTTATCTTCGCTGAGT
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAAC-AGATCTTATCTTCACTGAGC
* *
9840926 AGGAGTGAAGCAGGTCAAATTTTGATGAATCTTATCTCCATGTATCGGCATTGGAGCAGATTCCA
65 AGGAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTCCA
9840991 ATCATC
130 ATCATC
* * * *
9840997 AGCCTTATCTTCACTGAGTAGGAGTGGAGCAGGCTAAACATACCAGATCTTTTCTTTACTGAGCA
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAACAGATCTTATCTTCACTGAGCA
* *
9841062 GGAGTAAAACAGATCAAATT
66 GGAGTGAAGCAGATCAAATT
9841082 ACAGTAGATC
Statistics
Matches: 775, Mismatches: 100, Indels: 29
0.86 0.11 0.03
Matches are distributed among these distances:
132 11 0.01
133 246 0.32
134 14 0.02
135 500 0.65
136 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (135 bp):
AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAACAGATCTTATCTTCACTGAGCA
GGAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTCCAA
TCATC
Found at i:9840611 original size:268 final size:267
Alignment explanation
Indices: 9840059--9841081 Score: 1412
Period size: 268 Copynumber: 3.8 Consensus size: 267
9840049 GATTTCGGCA
* * * *
9840059 AGCCTTATC-CCACTGAGCAGGAATGGAGCAGGCTAA-ATACTAGATCTTATCTTCGCTGAGCAG
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAACATACCAGACCTTATCTTCGCTGAGCAG
* *
9840122 GAACG-GAA-TAGATCAAATTTTGGTGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTCCA
66 G-A-GTGAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTCCA
9840185 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAACAGATCTTATCTTCAC
129 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACAT-ACAGATCTTATCTTCAC
*
9840250 TGAGCAGGAGTGAAGCAAATCAAATTTTGAAGAATCTTATCTCCATGTATCGGCAATTGAGCAGA
193 TGAGCAGGAGTGAAGCAAATCAAATTTTG-AGAATCTTATCTCCATGTATCGGCAATGGAGCAGA
* ** *
9840315 TTCCAATCATC
257 TTTCAGCCACC
* *
9840326 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGCA
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AACATACCAGACCTTATCTTCGCTGAGCA
** * * *
9840391 GGAGTGAAGCAGATCAAATTTTGGCGAATCTTACCTCCATGTATCAGCAATGGAGCAGATTTCAG
65 GGAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTCCAA
* * * * *
9840456 CCATCAGCCTTATCTTCACTGAGCAGAAGTGGAGCAGGCT-AA-ATACTATATCTTATATTCGCT
130 TCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAC-AGATCTTATCTTCACT
* * * * * *
9840519 GAGCAGGAGCGGAGCAGATCAATTTTTGATGAATATTATCTCCATGTATCGGCAATGGAGCATAT
194 GAGCAGGAGTGAAGCAAATCAAATTTTGA-GAATCTTATCTCCATGTATCGGCAATGGAGCAGAT
9840584 TTCAGCCACC
258 TTCAGCCACC
*
9840594 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGGCCTTATCTTCGCTGAGCA
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AACATACCAGACCTTATCTTCGCTGAGCA
* * * *
9840659 GGAGTGAAGCAGGTCAAAATTTGATGAATCTTATCTCCATGTATCGGCAATGGAGCATATTCCAA
65 GGAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTCCAA
* *
9840724 TCATCAGCTTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCATT
130 TCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATA-CAGATCTTATCTTCACT
* * * *
9840789 AAGCAGGAGTGAAGCAAATCAAATTTTGACAAGTCTTATCTCCATGTATCGGAAATGGAGTAGAT
194 GAGCAGGAGTGAAGCAAATCAAATTTTGAGAA-TCTTATCTCCATGTATCGGCAATGGAGCAGAT
9840854 TTCAGCCACC
258 TTCAGCCACC
* * * * *
9840864 AGCCTTATTTTCACTAAGCAGGAGTGGAGCAGGCT-ATATACTAGACCTTATCTTCGCTGAGTAG
1 AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAACATACCAGACCTTATCTTCGCTGAGCAG
* * *
9840928 GAGTGAAGCAGGTCAAATTTTGATGAATCTTATCTCCATGTATCGGCATTGGAGCAGATTCCAAT
66 GAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTCCAAT
* * *
9840993 CATCAGCCTTATCTTCACTGAGTAGGAGTGGAGCAGGCTAAACATACCAGATCTTTTCTTTACTG
131 CATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATA-CAGATCTTATCTTCACTG
* * *
9841058 AGCAGGAGTAAAACAGATCAAATT
195 AGCAGGAGTGAAGCAAATCAAATT
9841082 ACAGTAGATC
Statistics
Matches: 673, Mismatches: 72, Indels: 21
0.88 0.09 0.03
Matches are distributed among these distances:
267 12 0.02
268 423 0.63
269 12 0.02
270 225 0.33
271 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (267 bp):
AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAACATACCAGACCTTATCTTCGCTGAGCAG
GAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTCCAAT
CATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACAGATCTTATCTTCACTGA
GCAGGAGTGAAGCAAATCAAATTTTGAGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTC
AGCCACC
Found at i:9840784 original size:45 final size:45
Alignment explanation
Indices: 9840597--9840804 Score: 142
Period size: 45 Copynumber: 4.6 Consensus size: 45
9840587 AGCCACCAGC
**
9840597 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGGC
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
* * ***
9840642 CTTATCTTCGCTGAGCAGGAGTGAAGCAGG-TCAAA-ATTTGATGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAACATACCA-G-AT
* * * ** * * *
9840688 CTTATCTCCA-TGTATC-GGCAATGGAGCATATTCCAATCAT--CAGCT
1 CTTATCTTCACTG-AGCAGG-AGTGGAGC--AGGCTAAACATACCAGAT
9840733 -TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
* * *
9840777 CTTATCTTCATTAAGCAGGAGTGAAGCA
1 CTTATCTTCACTGAGCAGGAGTGGAGCA
9840805 AATCAAATTT
Statistics
Matches: 120, Mismatches: 29, Indels: 28
0.68 0.16 0.16
Matches are distributed among these distances:
42 7 0.06
44 25 0.21
45 65 0.54
46 17 0.14
47 1 0.01
48 3 0.03
49 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (45 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGAT
Found at i:9840816 original size:403 final size:403
Alignment explanation
Indices: 9840059--9841066 Score: 1545
Period size: 403 Copynumber: 2.5 Consensus size: 403
9840049 GATTTCGGCA
*
9840059 AGCCTTATC-CCACTGAGCAGGAA-TGGAGCAGGCTAAATACTAGATCTTATCTTCGCTGAGCAG
1 AGCCTTATCTTCACTGAGCA-GAAGTGGAGCAGGCTAAATACTAGATCTTATCTTCGCTGAGCAG
* ** * *
9840122 GAACGGAATAGATCAAATTTTGGTGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTCCAAT
65 GAGCGGAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTCCAAT
*
9840187 CATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATAACAGATCTTATCTTCACTG
130 CATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTG
* *
9840252 AGCAGGAGTGAAGCAAATCAAATTTTGAAGAATCTTATCTCCATGTATCGGCAATTGAGCAGATT
195 AGCAGGAGTGAAGCAAATCAAAATTTGAAGAATCTTATCTCCATGTATCGGCAATGGAGCAGATT
9840317 CCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTT
260 CCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTT
* * * *
9840382 CACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAA-TCTTACCTCCATGTATCAGCAATGGAG
325 CACTAAGCAGGAGTGAAGCAAATCAAATTTTGAC-AAGTCTTACCTCCATGTATCAGAAATGGAG
*
9840446 CAGATTTCAGCCATC
389 CAGATTTCAGCCACC
* *
9840461 AGCCTTATCTTCACTGAGCAGAAGTGGAGCAGGCTAAATACTATATCTTATATTCGCTGAGCAGG
1 AGCCTTATCTTCACTGAGCAGAAGTGGAGCAGGCTAAATACTAGATCTTATCTTCGCTGAGCAGG
* * * * **
9840526 AGCGGAGCAGATCAATTTTTGATGAATATTATCTCCATGTATCGGCAATGGAGCATATTTCAGCC
66 AGCGGAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTCCAATC
* ** *
9840591 ACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGGCCTTATCTTCGCTGA
131 ATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGA
** * *
9840656 GCAGGAGTGAAGCAGGTCAAAATTTGATGAATCTTATCTCCATGTATCGGCAATGGAGCATATTC
196 GCAGGAGTGAAGCAAATCAAAATTTGAAGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTC
*
9840721 CAATCATCAGCTTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTC
261 CAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTC
* * * *
9840786 ATTAAGCAGGAGTGAAGCAAATCAAATTTTGACAAGTCTTATCTCCATGTATCGGAAATGGAGTA
326 ACTAAGCAGGAGTGAAGCAAATCAAATTTTGACAAGTCTTACCTCCATGTATCAGAAATGGAGCA
9840851 GATTTCAGCCACC
391 GATTTCAGCCACC
* * * * * *
9840864 AGCCTTATTTTCACTAAGCAGGAGTGGAGCAGGCTATATACTAGACCTTATCTTCGCTGAGTAGG
1 AGCCTTATCTTCACTGAGCAGAAGTGGAGCAGGCTAAATACTAGATCTTATCTTCGCTGAGCAGG
* * * *
9840929 AGTGAAGCAGGTCAAATTTTGATGAATCTTATCTCCATGTATCGGCATTGGAGCAGATTCCAATC
66 AGCGGAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTCCAATC
* * *
9840994 ATCAGCCTTATCTTCACTGAGTAGGAGTGGAGCAGGCTAAACATACCAGATCTTTTCTTTACTGA
131 ATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGA
9841059 GCAGGAGT
196 GCAGGAGT
9841067 AAAACAGATC
Statistics
Matches: 543, Mismatches: 60, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
402 14 0.03
403 529 0.97
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (403 bp):
AGCCTTATCTTCACTGAGCAGAAGTGGAGCAGGCTAAATACTAGATCTTATCTTCGCTGAGCAGG
AGCGGAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTCCAATC
ATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGA
GCAGGAGTGAAGCAAATCAAAATTTGAAGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTC
CAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTC
ACTAAGCAGGAGTGAAGCAAATCAAATTTTGACAAGTCTTACCTCCATGTATCAGAAATGGAGCA
GATTTCAGCCACC
Found at i:9841332 original size:29 final size:29
Alignment explanation
Indices: 9841294--9841360 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
9841284 CCAAATTAAA
9841294 CACCCCACTAAACCGAT-CACTAACTCCAT
1 CACCCCACTAAACC-ATCCACTAACTCCAT
* *
9841323 CACCCTACTAAACCATCCACTACCTCCAT
1 CACCCCACTAAACCATCCACTAACTCCAT
9841352 CACCTCCAC
1 CACC-CCAC
9841361 ACCCTACTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 2 0.06
29 28 0.85
30 3 0.09
ACGTcount: A:0.31, C:0.49, G:0.01, T:0.18
Consensus pattern (29 bp):
CACCCCACTAAACCATCCACTAACTCCAT
Found at i:9841373 original size:37 final size:37
Alignment explanation
Indices: 9841317--9841397 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
9841307 CGATCACTAA
9841317 CTCCATCACCCTACTAAACCATCCACTACCTCCATCAC
1 CTCCA-CACCCTACTAAACCATCCACTACCTCCATCAC
*
9841355 CTCCACACCCTACTAAACCGTCCACTACCTCCATCAC
1 CTCCACACCCTACTAAACCATCCACTACCTCCATCAC
*
9841392 CCCCAC
1 CTCCAC
9841398 TACCTCCATC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 36 0.88
38 5 0.12
ACGTcount: A:0.27, C:0.53, G:0.01, T:0.19
Consensus pattern (37 bp):
CTCCACACCCTACTAAACCATCCACTACCTCCATCAC
Found at i:9841399 original size:18 final size:18
Alignment explanation
Indices: 9841376--9841411 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
9841366 ACTAAACCGT
9841376 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
9841394 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
9841412 TACTTGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.61, G:0.00, T:0.17
Consensus pattern (18 bp):
CCACTACCTCCATCACCC
Found at i:9841512 original size:12 final size:12
Alignment explanation
Indices: 9841470--9841519 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
9841460 ATTGTATGGG
*
9841470 GAGGATTTTGGA
1 GAGGATTTTTGA
9841482 GAGGA-TTTTGA
1 GAGGATTTTTGA
9841493 GAGGATTTTTG-
1 GAGGATTTTTGA
*
9841504 GAGGAATTTTTTA
1 GAGG-ATTTTTGA
9841517 GAG
1 GAG
9841520 AATACATGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
11 14 0.42
12 16 0.48
13 3 0.09
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (12 bp):
GAGGATTTTTGA
Found at i:9841519 original size:24 final size:23
Alignment explanation
Indices: 9841470--9841513 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
9841460 ATTGTATGGG
*
9841470 GAGGATTTTGGAGAGGATTTTGA
1 GAGGATTTTGGAGAGAATTTTGA
9841493 GAGGATTTTTGGAG-GAATTTT
1 GAGGA-TTTTGGAGAGAATTTT
9841514 TTAGAGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (23 bp):
GAGGATTTTGGAGAGAATTTTGA
Found at i:9841801 original size:20 final size:21
Alignment explanation
Indices: 9841768--9841806 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
9841758 CTTTATTCTC
*
9841768 ATTATTTTTATATTTATTTTT
1 ATTATTTTTATATTAATTTTT
*
9841789 ATTA-TTTTCTATTAATTT
1 ATTATTTTTATATTAATTT
9841807 AATTAATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (21 bp):
ATTATTTTTATATTAATTTTT
Found at i:9841809 original size:61 final size:62
Alignment explanation
Indices: 9841740--9841856 Score: 154
Period size: 61 Copynumber: 1.9 Consensus size: 62
9841730 TGCTTTACTG
9841740 TTAATTAATTAATTTGAGCTTTAT-TCTCATTATT-TT-TA-TATTTATTT-TTATTATTTTCTA
1 TTAATTAATTAATTTGAG--TTATGTCTCA-TATTATTATATTATTTATTTATTATTATTTTCTA
*
9841800 TTAATTTAATTAATTTGAGTTATGTTTCATATTATTATATTATTTATTTATTATTAT
1 TTAA-TTAATTAATTTGAGTTATGTCTCATATTATTATATTATTTATTTATTATTAT
9841857 ATATTTATTA
Statistics
Matches: 50, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
59 8 0.16
60 10 0.20
61 16 0.32
62 9 0.18
63 7 0.14
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (62 bp):
TTAATTAATTAATTTGAGTTATGTCTCATATTATTATATTATTTATTTATTATTATTTTCTA
Found at i:9841853 original size:19 final size:18
Alignment explanation
Indices: 9841829--9841865 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
9841819 TTATGTTTCA
9841829 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
9841848 TATTATTATATATTTATT
1 TATTATTATATATTTATT
9841866 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:9841877 original size:17 final size:14
Alignment explanation
Indices: 9841837--9841867 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9841827 CATATTATTA
*
9841837 TATTATTTATTTAT
1 TATTATATATTTAT
9841851 TATTATATATTTAT
1 TATTATATATTTAT
9841865 TAT
1 TAT
9841868 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:9842094 original size:21 final size:21
Alignment explanation
Indices: 9842070--9842111 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9842060 CTATATTTAA
*
9842070 TGTTATCGTCAACATATTTTT
1 TGTTATCATCAACATATTTTT
* *
9842091 TGTTATTATCATCATATTTTT
1 TGTTATCATCAACATATTTTT
9842112 AATATTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.07, T:0.57
Consensus pattern (21 bp):
TGTTATCATCAACATATTTTT
Found at i:9842556 original size:126 final size:126
Alignment explanation
Indices: 9842326--9842569 Score: 425
Period size: 126 Copynumber: 1.9 Consensus size: 126
9842316 CATTGATCTT
* * *
9842326 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAATAATCGTGCCCTA
1 CTCTAAAAAAATTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
* *
9842391 TCGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCAAATATCCTCTTACCAGTTCA
66 ACGTACTGGATTTCGCTTTCTTTGTTTGTCTTGAATATTCAAATATCCTCTTACCAGTTCA
9842452 CTCTAAAAAAATTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTAAAAAAATTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
* *
9842517 ACGTACTGGATTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 ACGTACTGGATTTCGCTTTCTTTGTTTGTCTTGAATATTCAAATATCCTCTTA
9842570 AGGCAAAAAC
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 111 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (126 bp):
CTCTAAAAAAATTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
ACGTACTGGATTTCGCTTTCTTTGTTTGTCTTGAATATTCAAATATCCTCTTACCAGTTCA
Found at i:9843406 original size:42 final size:42
Alignment explanation
Indices: 9843320--9843469 Score: 164
Period size: 43 Copynumber: 3.5 Consensus size: 42
9843310 GTCAATGTCT
* *
9843320 CAGATGTGGTCTTACA-TATAATCAAATATCGATGCC-ACTGTCC
1 CAGACGTGGTCTTACACGA-AATCAAATA-CGATGCCAAC-GTCC
*
9843363 CAGACG-GGTTTTTACACGAAATCAAATACGATGCCAACGTCC
1 CAGACGTGG-TCTTACACGAAATCAAATACGATGCCAACGTCC
* *
9843405 CAAACGTGGTCTTACACGTAAATCATAAGT-CGATGCCAATGTCC
1 CAGACGTGGTCTTACACG-AAATCA-AA-TACGATGCCAACGTCC
9843449 CAGACGTGGTCTTACACGAAA
1 CAGACGTGGTCTTACACGAAA
9843470 ACACATATCG
Statistics
Matches: 93, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
42 26 0.28
43 33 0.35
44 33 0.35
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
CAGACGTGGTCTTACACGAAATCAAATACGATGCCAACGTCC
Found at i:9843449 original size:44 final size:41
Alignment explanation
Indices: 9843312--9843469 Score: 167
Period size: 44 Copynumber: 3.7 Consensus size: 41
9843302 CGTACAATGT
* * *
9843312 CAATGTCTCAGATGTGGTCTTACA-TATAATCAAATATCGATGC
1 CAATGTCCCAGACGTGGTCTTACACGA-AATC-AA-ATCGATGC
* *
9843355 CACTGTCCCAGACG-GGTTTTTACACGAAATCAAATACGATGC
1 CAATGTCCCAGACGTGG-TCTTACACGAAATCAAAT-CGATGC
* *
9843397 CAACGTCCCAAACGTGGTCTTACACGTAAATCATAAGTCGATGC
1 CAATGTCCCAGACGTGGTCTTACACG-AAATCA-AA-TCGATGC
9843441 CAATGTCCCAGACGTGGTCTTACACGAAA
1 CAATGTCCCAGACGTGGTCTTACACGAAA
9843470 ACACATATCG
Statistics
Matches: 97, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
41 2 0.02
42 29 0.30
43 32 0.33
44 33 0.34
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (41 bp):
CAATGTCCCAGACGTGGTCTTACACGAAATCAAATCGATGC
Found at i:9843900 original size:17 final size:18
Alignment explanation
Indices: 9843878--9843913 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
9843868 TTTAGTTTTT
9843878 AATTCACAAAAT-CACAA
1 AATTCACAAAATACACAA
9843895 AATTCACAAAATACACAA
1 AATTCACAAAATACACAA
9843913 A
1 A
9843914 TTTCTTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.61, C:0.22, G:0.00, T:0.17
Consensus pattern (18 bp):
AATTCACAAAATACACAA
Found at i:9843903 original size:9 final size:9
Alignment explanation
Indices: 9843878--9843913 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
9843868 TTTAGTTTTT
9843878 AATTCACAA
1 AATTCACAA
9843887 AA-TCACAA
1 AATTCACAA
9843895 AATTCACAA
1 AATTCACAA
*
9843904 AATACACAA
1 AATTCACAA
9843913 A
1 A
9843914 TTTCTTTGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.61, C:0.22, G:0.00, T:0.17
Consensus pattern (9 bp):
AATTCACAA
Found at i:9855396 original size:12 final size:12
Alignment explanation
Indices: 9855375--9855405 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
9855365 GTAAAAAAAA
9855375 CGGTGCGCCCAC
1 CGGTGCGCCCAC
*
9855387 CGGTGTGCCCAC
1 CGGTGCGCCCAC
9855399 CGGTGCG
1 CGGTGCG
9855406 GTACTGACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.06, C:0.42, G:0.39, T:0.13
Consensus pattern (12 bp):
CGGTGCGCCCAC
Found at i:9859646 original size:21 final size:21
Alignment explanation
Indices: 9859620--9859661 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
9859610 ACTTTACTTA
9859620 TGGGTAATATGATTGTAACTC
1 TGGGTAATATGATTGTAACTC
9859641 TGGGTAATATGATTGTAACTC
1 TGGGTAATATGATTGTAACTC
9859662 AAGTTGGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (21 bp):
TGGGTAATATGATTGTAACTC
Found at i:9859768 original size:55 final size:57
Alignment explanation
Indices: 9859641--9859786 Score: 260
Period size: 55 Copynumber: 2.6 Consensus size: 57
9859631 ATTGTAACTC
9859641 TGGGTAATATGATTGTAACTCAAGTTGGAATGTTATCCTTCTCTAGAACTTTACTTA
1 TGGGTAATATGATTGTAACTCAAGTTGGAATGTTATCCTTCTCTAGAACTTTACTTA
* *
9859698 TGGGTAATATGATTGTAACTCACGTTGGAATGTTATCC-TCT-TAGAACTTTATTTA
1 TGGGTAATATGATTGTAACTCAAGTTGGAATGTTATCCTTCTCTAGAACTTTACTTA
9859753 TGGGTAATATGATTGTAACTCAAGTTGGAATGTT
1 TGGGTAATATGATTGTAACTCAAGTTGGAATGTT
9859787 GTCAGCCAGT
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
55 46 0.53
56 3 0.03
57 37 0.43
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (57 bp):
TGGGTAATATGATTGTAACTCAAGTTGGAATGTTATCCTTCTCTAGAACTTTACTTA
Found at i:9864944 original size:29 final size:29
Alignment explanation
Indices: 9864912--9864971 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
9864902 GGTTTGGTGG
*
9864912 TGGGTATATTTTTATTTTAATCATTTTCA
1 TGGGTACATTTTTATTTTAATCATTTTCA
9864941 TGGGTACATTTTTATTTTAATCATTTTCA
1 TGGGTACATTTTTATTTTAATCATTTTCA
9864970 TG
1 TG
9864972 CCCTTTCTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.23, C:0.08, G:0.12, T:0.57
Consensus pattern (29 bp):
TGGGTACATTTTTATTTTAATCATTTTCA
Found at i:9884455 original size:47 final size:47
Alignment explanation
Indices: 9884322--9884528 Score: 184
Period size: 47 Copynumber: 4.3 Consensus size: 47
9884312 ATAGTAAAAT
** * *
9884322 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAGCCCAGC
1 TATGGTCTTATACAGTAG-CACATATCAC--ACCGATGCCATAGCCCAGA
* * * * *
9884371 CATGGTCTTATAC-GGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
* *
9884417 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
* * * * *
9884464 TATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAAGCCATAGCCCAGC
1 TATGGTCTTATACAGTAGCACATATCACA-----CCGATGCCATAGCCCAGA
9884516 TATGGTCTTATAC
1 TATGGTCTTATAC
9884529 GGAAATCACA
Statistics
Matches: 130, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
46 27 0.21
47 55 0.42
48 10 0.08
49 11 0.08
52 27 0.21
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (47 bp):
TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
Found at i:9886734 original size:82 final size:82
Alignment explanation
Indices: 9886595--9886761 Score: 221
Period size: 82 Copynumber: 2.0 Consensus size: 82
9886585 TTTCACATTT
* * * *
9886595 TATAAAAGTAGCTAATTTTCAAATTTGGCCCTTCTAATATGTTTAAATTTGATATTTAATCTTTA
1 TATAAAAGTAGCTAATTTTCAAATTTGGCACTTCTAATATGCTTAAATTTGAGATTTAATCCTTA
9886660 TACT-TCAATTTCTAACA
66 TACTCT-AATTTCTAACA
* * **
9886677 TATAAAAGTGGCTAATTTTTAGTTTTGGTCACTT-TAATATGCTTAAATTTGAGATTTAATCCTT
1 TATAAAAGTAGCTAATTTTCAAATTTGG-CACTTCTAATATGCTTAAATTTGAGATTTAATCCTT
*
9886741 ATACTCTGATTTCTAACA
65 ATACTCTAATTTCTAACA
9886759 TAT
1 TAT
9886762 TTTGGTCTTT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
82 69 0.93
83 5 0.07
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.46
Consensus pattern (82 bp):
TATAAAAGTAGCTAATTTTCAAATTTGGCACTTCTAATATGCTTAAATTTGAGATTTAATCCTTA
TACTCTAATTTCTAACA
Found at i:9887733 original size:7 final size:7
Alignment explanation
Indices: 9887721--9887755 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
9887711 CTCTAATTTA
9887721 TATAAAT
1 TATAAAT
9887728 TATAAAT
1 TATAAAT
9887735 ATATAAAT
1 -TATAAAT
9887743 TATAAAT
1 TATAAAT
9887750 TA-AAAT
1 TATAAAT
9887756 AAGATTAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 4 0.15
7 16 0.59
8 7 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
TATAAAT
Found at i:9887739 original size:15 final size:15
Alignment explanation
Indices: 9887719--9887749 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9887709 ATCTCTAATT
9887719 TATATAAATTATAAA
1 TATATAAATTATAAA
9887734 TATATAAATTATAAA
1 TATATAAATTATAAA
9887749 T
1 T
9887750 TAAAATAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TATATAAATTATAAA
Found at i:9888879 original size:17 final size:17
Alignment explanation
Indices: 9888839--9888880 Score: 77
Period size: 16 Copynumber: 2.5 Consensus size: 17
9888829 CATACGATGA
9888839 TTGTTTATTTCTATTTT
1 TTGTTTATTTCTATTTT
9888856 TTG-TTATTTCTATTTT
1 TTGTTTATTTCTATTTT
9888872 TTGTTTATT
1 TTGTTTATT
9888881 GTATCTTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.76
Consensus pattern (17 bp):
TTGTTTATTTCTATTTT
Found at i:9898275 original size:15 final size:16
Alignment explanation
Indices: 9898231--9898280 Score: 57
Period size: 18 Copynumber: 3.0 Consensus size: 16
9898221 ATATATCAAA
*
9898231 TTTTAATTTTAATTTAAT
1 TTTTAA-TTAAATTT-AT
9898249 TTTTAGATTAAATTTAT
1 TTTTA-ATTAAATTTAT
9898266 TTTT-ATTAAATTTAT
1 TTTTAATTAAATTTAT
9898281 ATGGCACAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 11 0.37
17 6 0.20
18 12 0.40
19 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTTAATTAAATTTAT
Found at i:9898888 original size:32 final size:32
Alignment explanation
Indices: 9898826--9898888 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
9898816 TGTAGAATTT
* * *
9898826 TTTGAAATTTGTATTTAAACACTTTCAAAATG
1 TTTGAAATTTCTATTTAAAAACTTTAAAAATG
*
9898858 TTTGAAATTTCTCA-TTAAAAATTTTAAAAAT
1 TTTGAAATTTCT-ATTTAAAAACTTTAAAAAT
9898889 TTTAGCTAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 25 0.96
33 1 0.04
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.44
Consensus pattern (32 bp):
TTTGAAATTTCTATTTAAAAACTTTAAAAATG
Found at i:9899661 original size:16 final size:16
Alignment explanation
Indices: 9899640--9899672 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9899630 TGTGACAGAC
9899640 AAAAATGACATATTTT
1 AAAAATGACATATTTT
9899656 AAAAATGACATATTTT
1 AAAAATGACATATTTT
9899672 A
1 A
9899673 TCTTTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (16 bp):
AAAAATGACATATTTT
Found at i:9900798 original size:13 final size:13
Alignment explanation
Indices: 9900766--9900798 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
9900756 TACTAAGTAA
9900766 AAAACTTAAATATT
1 AAAA-TTAAATATT
9900780 -AAATTAAATATT
1 AAAATTAAATATT
9900792 AAAATTA
1 AAAATTA
9900799 TTATTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAATTAAATATT
Found at i:9905290 original size:16 final size:17
Alignment explanation
Indices: 9905259--9905291 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9905249 TTCATAAGTA
9905259 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
9905276 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
9905292 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:9906030 original size:46 final size:46
Alignment explanation
Indices: 9905597--9906034 Score: 556
Period size: 46 Copynumber: 9.5 Consensus size: 46
9905587 TATTTCAAAT
* *
9905597 ATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACC
1 ATGGTCTTACTCA-TTTCATATCAGGTTGCCATGGTATCTTTCAACC
* * * * * * *
9905643 ATAGTCTTATTCATTTCATGTCACGCTGTCATGGTATCTTTCAACT
1 ATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCAACC
* * * * *
9905689 ATGGTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTTAATC
1 ATGGTCTTACTCA-TTTCATATCAGGTTGCCATGGTATCTTTCAACC
* * * *
9905735 ATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACC
1 ATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCAACC
* *** *
9905781 ATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACC
1 ATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCAACC
* * *
9905827 ATGGTCTTATTCATTTCAAATCACGTTGCCATGGTATCTTTCAACC
1 ATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCAACC
*
9905873 ATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACC
1 ATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCAACC
* *
9905919 ATGGTATTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACC
1 ATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCAACC
* *
9905965 ATGGTATTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACC
1 ATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCAACC
*
9906011 ATGGTCTTACACATTTCATATCAG
1 ATGGTCTTACTCATTTCATATCAG
9906035 AGAGCACACA
Statistics
Matches: 358, Mismatches: 31, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
45 8 0.02
46 346 0.97
47 4 0.01
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
ATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCAACC
Found at i:9907367 original size:44 final size:45
Alignment explanation
Indices: 9907283--9907386 Score: 138
Period size: 44 Copynumber: 2.3 Consensus size: 45
9907273 CAGAAATGAG
* * *
9907283 CCATGTAAGTCCATATTAGAAATATGACTTTGGAGACAGGATTGAT
1 CCATGTAAGTCCATATTA-AAATATGACATTGGAGACAGGAATAAT
* *
9907329 CCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGAATAAT
1 CCATGTAAGTCCATATTAAAATATGACATTGGAGACAGGAATAAT
*
9907373 TCATGTAAGTCCAT
1 CCATGTAAGTCCAT
9907387 GTCAAAGACA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 35 0.67
46 17 0.33
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (45 bp):
CCATGTAAGTCCATATTAAAATATGACATTGGAGACAGGAATAAT
Found at i:9913756 original size:17 final size:17
Alignment explanation
Indices: 9913736--9913770 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
9913726 ATTAGGACAT
9913736 GGAAGGAATTTTTGAAA
1 GGAAGGAATTTTTGAAA
9913753 GGAAGGAATTTTTGAAA
1 GGAAGGAATTTTTGAAA
9913770 G
1 G
9913771 TTTAGTAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (17 bp):
GGAAGGAATTTTTGAAA
Found at i:9914754 original size:44 final size:45
Alignment explanation
Indices: 9914670--9914773 Score: 138
Period size: 44 Copynumber: 2.3 Consensus size: 45
9914660 CAGAAATGAG
* * *
9914670 CCATGTAAGTCCATATTAGAAATATGACTTTGGAGACAGGATTGAT
1 CCATGTAAGTCCATATTA-AAATATGACATTGGAGACAGGAATAAT
* *
9914716 CCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGAATAAT
1 CCATGTAAGTCCATATTAAAATATGACATTGGAGACAGGAATAAT
*
9914760 TCATGTAAGTCCAT
1 CCATGTAAGTCCAT
9914774 GTCAAAGACA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 35 0.67
46 17 0.33
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (45 bp):
CCATGTAAGTCCATATTAAAATATGACATTGGAGACAGGAATAAT
Found at i:9916110 original size:41 final size:41
Alignment explanation
Indices: 9916060--9916317 Score: 408
Period size: 41 Copynumber: 6.3 Consensus size: 41
9916050 AATTCATCAT
* *
9916060 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
9916101 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
9916142 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
9916183 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
9916224 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
9916265 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
9916306 ATTCATATCACC
1 ATTCAGATCACC
9916318 AATTCCAAAC
Statistics
Matches: 197, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 197 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:9916203 original size:82 final size:82
Alignment explanation
Indices: 9916066--9916317 Score: 495
Period size: 82 Copynumber: 3.1 Consensus size: 82
9916056 TCATATTCGG
9916066 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
9916131 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
9916148 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
9916213 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
*
9916230 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
9916295 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
9916312 ATCACC
1 ATCACC
9916318 AATTCCAAAC
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 169 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:9916554 original size:19 final size:19
Alignment explanation
Indices: 9916530--9916567 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9916520 TGTTCGATCC
*
9916530 ACACACATATATATATATT
1 ACACACATATACATATATT
9916549 ACACACATATACATATATT
1 ACACACATATACATATATT
9916568 CGCACATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (19 bp):
ACACACATATACATATATT
Found at i:9922352 original size:66 final size:67
Alignment explanation
Indices: 9922224--9922352 Score: 170
Period size: 67 Copynumber: 1.9 Consensus size: 67
9922214 TACTATGTGT
* * * * *
9922224 ACACCATGTAGACAAGAGAGCTACGGGATATATCTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGACAAGAAAGCTACGAGATATAACTAGCTAGGTCACATGCGTGGTACCAAGTGAA
9922289 GG
66 GG
* * * *
9922291 ACACCATGTAGACAAGAAAGTTACGAGATA-AACTGGCTAGGTCACATGGGTGGTACTAAGTG
1 ACACCATGTAGACAAGAAAGCTACGAGATATAACTAGCTAGGTCACATGCGTGGTACCAAGTG
9922353 TTCACCATGT
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
66 26 0.49
67 27 0.51
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.21
Consensus pattern (67 bp):
ACACCATGTAGACAAGAAAGCTACGAGATATAACTAGCTAGGTCACATGCGTGGTACCAAGTGAA
GG
Found at i:9922799 original size:16 final size:16
Alignment explanation
Indices: 9922778--9922811 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
9922768 TCAGAGACTG
9922778 AATGAGATATCAAATT
1 AATGAGATATCAAATT
9922794 AATGAGATATCAAATT
1 AATGAGATATCAAATT
9922810 AA
1 AA
9922812 ATCTTAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (16 bp):
AATGAGATATCAAATT
Found at i:9923489 original size:17 final size:17
Alignment explanation
Indices: 9923457--9923490 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
9923447 CAAAAAGAGA
9923457 ATGTTATATATCATGAC
1 ATGTTATATATCATGAC
9923474 ATGTATATATAT-ATGAC
1 ATGT-TATATATCATGAC
9923491 TAGTCTCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (17 bp):
ATGTTATATATCATGAC
Found at i:9932637 original size:6 final size:6
Alignment explanation
Indices: 9932626--9932652 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
9932616 AAATTGGATT
9932626 ATTTAA ATTTAA ATTTAA ATTTAA ATT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATT
9932653 AAAACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:9940751 original size:15 final size:15
Alignment explanation
Indices: 9940731--9940762 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
9940721 AATTTCTCCT
9940731 CAATCATAAGTCCCC
1 CAATCATAAGTCCCC
9940746 CAATCATAAGTCCCC
1 CAATCATAAGTCCCC
9940761 CA
1 CA
9940763 TTGTCGATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.41, G:0.06, T:0.19
Consensus pattern (15 bp):
CAATCATAAGTCCCC
Found at i:9951554 original size:16 final size:16
Alignment explanation
Indices: 9951535--9951568 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
9951525 TAGTAATACT
*
9951535 AATAATTTGACTAGAA
1 AATAATTTGACCAGAA
9951551 AATAATTTGACCAGAA
1 AATAATTTGACCAGAA
9951567 AA
1 AA
9951569 GGGAAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (16 bp):
AATAATTTGACCAGAA
Found at i:9955034 original size:17 final size:16
Alignment explanation
Indices: 9955006--9955037 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
9954996 TAAATTTTTT
9955006 AAAATAAAAAATATAA
1 AAAATAAAAAATATAA
9955022 AAAATAAACAAATATA
1 AAAATAAA-AAATATA
9955038 CAATAGTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATAAAAAATATAA
Found at i:9955294 original size:11 final size:13
Alignment explanation
Indices: 9955263--9955297 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
9955253 GAATATAAGC
*
9955263 ACAAGAAAGAGAA
1 ACAAAAAAGAGAA
9955276 ACAAAAAAGAGAA
1 ACAAAAAAGAGAA
*
9955289 AAAAAAAAG
1 ACAAAAAAG
9955298 CTTTGAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.77, C:0.06, G:0.17, T:0.00
Consensus pattern (13 bp):
ACAAAAAAGAGAA
Found at i:9958421 original size:20 final size:19
Alignment explanation
Indices: 9958351--9958420 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
9958341 TAACAAATTT
*
9958351 TAAAATTAAAAAATAATTA
1 TAAAATTAAAAAATTATTA
9958370 TAATAATTAAAAAAATT-TTA
1 TAA-AATT-AAAAAATTATTA
* * *
9958390 AAAAATT-TAAAATTATTT
1 TAAAATTAAAAAATTATTA
9958408 TAAAATTAAAAAA
1 TAAAATTAAAAAA
9958421 AATAAAGCTA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
17 6 0.15
18 8 0.20
19 11 0.27
20 9 0.22
21 7 0.17
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAATTAAAAAATTATTA
Found at i:9958691 original size:32 final size:31
Alignment explanation
Indices: 9958633--9958692 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
9958623 TTCAGAAAAC
* *
9958633 TAACAATGTTAATCATAAGGAGCAATTTATG
1 TAACAATGCTAATCATAAGGACCAATTTATG
* *
9958664 TAACGAATGCTAATCTTAATGACCAATTT
1 TAAC-AATGCTAATCATAAGGACCAATTT
9958693 GATCCAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 4 0.17
32 20 0.83
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (31 bp):
TAACAATGCTAATCATAAGGACCAATTTATG
Found at i:9961821 original size:79 final size:79
Alignment explanation
Indices: 9961721--9961953 Score: 367
Period size: 79 Copynumber: 2.9 Consensus size: 79
9961711 CCAATATTGA
* * * * ** *
9961721 CCATAAATTCCCTCTAATAGTGGTTCTATTGTTGATATTGAGTTATTCTAGAACATCTTTTTGCC
1 CCAT-AATCCCCTCTATTAGTGGTTCTGTAGTTGATATCAAGTTATTGTAGAACATCTTTTTGCC
9961786 AAATATACTTATTCC
65 AAATATACTTATTCC
9961801 CCATAATCCCCTCTATTAGTGGTTCTGTAGTTGATATCAAGTTATTGTAGAACATCTTTTTGCCA
1 CCATAATCCCCTCTATTAGTGGTTCTGTAGTTGATATCAAGTTATTGTAGAACATCTTTTTGCCA
9961866 AATATACTTATTCC
66 AATATACTTATTCC
* *
9961880 CCATAATCCCCTCTATTAGTGGTTCTGTCGTTGATATCAAGTTATTGTAGAACATCTTTTTGGCA
1 CCATAATCCCCTCTATTAGTGGTTCTGTAGTTGATATCAAGTTATTGTAGAACATCTTTTTGCCA
*
9961945 AATTTACTT
66 AATATACTT
9961954 TCAGATATAA
Statistics
Matches: 143, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
79 139 0.97
80 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (79 bp):
CCATAATCCCCTCTATTAGTGGTTCTGTAGTTGATATCAAGTTATTGTAGAACATCTTTTTGCCA
AATATACTTATTCC
Found at i:9963076 original size:91 final size:90
Alignment explanation
Indices: 9962921--9963100 Score: 326
Period size: 91 Copynumber: 2.0 Consensus size: 90
9962911 TTTCCTCCAA
9962921 TTTTTTTTCCCCTTTTAATAACATGGCTCTGTAAAAGAAGTACAAAATGGCTAGTTTGGTTGATC
1 TTTTTTTTCCCCTTTTAATAACATGGCTCTGTAAAAGAAGTACAAAATGGCTAGTTTGGTTGATC
9962986 AAAAAGATTCCAACATGTTACAATAT
66 AAAAAGATTCCAACAT-TTACAATAT
9963012 TTTTTTTTCCCCCTTTTAATAACATGGCTCTGTAAAAG-AGTACAAAATGGCTAGTTTGGTTGAT
1 TTTTTTTT-CCCCTTTTAATAACATGGCTCTGTAAAAGAAGTACAAAATGGCTAGTTTGGTTGAT
*
9963076 CAAAAAGATTCCAACATTTTCAATA
65 CAAAAAGATTCCAACATTTACAATA
9963101 GTTTATACTT
Statistics
Matches: 87, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
90 7 0.08
91 51 0.59
92 29 0.33
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (90 bp):
TTTTTTTTCCCCTTTTAATAACATGGCTCTGTAAAAGAAGTACAAAATGGCTAGTTTGGTTGATC
AAAAAGATTCCAACATTTACAATAT
Found at i:9968016 original size:23 final size:22
Alignment explanation
Indices: 9967983--9968032 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
9967973 ATATTTAATA
** *
9967983 TTTTT-AATTTAATTTATTACG
1 TTTTTAAATTTAAAATAATACG
9968004 TTTTTAAATTTTAAAATAATACG
1 TTTTTAAA-TTTAAAATAATACG
9968027 TTTTTA
1 TTTTTA
9968033 TTAATTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 5 0.21
22 2 0.08
23 17 0.71
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (22 bp):
TTTTTAAATTTAAAATAATACG
Found at i:9968048 original size:28 final size:26
Alignment explanation
Indices: 9968017--9968068 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
9968007 TTAAATTTTA
*
9968017 AAATAATACGTTTTTATTAATTTATTTC
1 AAATAATAC-ATTTTATT-ATTTATTTC
*
9968045 AAATTATACATTTTATTATTTATT
1 AAATAATACATTTTATTATTTATT
9968069 ATATATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 7 0.32
28 8 0.36
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.56
Consensus pattern (26 bp):
AAATAATACATTTTATTATTTATTTC
Found at i:9973577 original size:3 final size:3
Alignment explanation
Indices: 9973569--9973604 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
9973559 AATTAAAAAG
*
9973569 ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9973605 GGACTAGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9976701 original size:31 final size:30
Alignment explanation
Indices: 9976635--9976702 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
9976625 TATAATAATT
*
9976635 AAATTTATTAGGTCAACCTAAATAAATTTA
1 AAATTTTTTAGGTCAACCTAAATAAATTTA
* *
9976665 AAATTTTTTAGGT-AATCGTAATTAAATTATA
1 AAATTTTTTAGGTCAA-CCTAAATAAATT-TA
9976696 AAATTTT
1 AAATTTT
9976703 GAGATGTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 2 0.06
30 22 0.67
31 9 0.27
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (30 bp):
AAATTTTTTAGGTCAACCTAAATAAATTTA
Found at i:9985920 original size:24 final size:25
Alignment explanation
Indices: 9985873--9985920 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
9985863 GAAACTAAAA
* **
9985873 AATTTAATATAAATGATATTTTAAT
1 AATTTAAAATAAATGATAGATTAAT
9985898 AATTTAAAAT-AATGATAGATTAA
1 AATTTAAAATAAATGATAGATTAA
9985921 ATATTCAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (25 bp):
AATTTAAAATAAATGATAGATTAAT
Found at i:9985923 original size:25 final size:25
Alignment explanation
Indices: 9985868--9985923 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
9985858 GTTTAGAAAC
* * *
9985868 TAAAAAATTTAATATAAATGATATT
1 TAAATAATTTAAAATAAATGATAAT
*
9985893 TTAATAATTTAAAAT-AATGATAGAT
1 TAAATAATTTAAAATAAATGATA-AT
9985918 TAAATA
1 TAAATA
9985924 TTCAAGTACA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (25 bp):
TAAATAATTTAAAATAAATGATAAT
Found at i:9989271 original size:29 final size:29
Alignment explanation
Indices: 9989205--9989273 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
9989195 GTTATTAGCT
9989205 TTTAAGTACTAAAATAGATAAAGAAAAAGG
1 TTTAAGTACTAAAATAGATAAAGAAAAA-G
* *
9989235 TTCAAGTATTAAAATATGATAAA-AAATAA-
1 TTTAAGTACTAAAATA-GATAAAGAAA-AAG
9989264 TTTAAGTACT
1 TTTAAGTACT
9989274 CAATTGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
29 8 0.24
30 17 0.52
31 8 0.24
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.30
Consensus pattern (29 bp):
TTTAAGTACTAAAATAGATAAAGAAAAAG
Found at i:9993742 original size:27 final size:27
Alignment explanation
Indices: 9993712--9993771 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
9993702 CAACCTCTAC
9993712 GAAAACTCGTTGTATGGTTCACTAAGG
1 GAAAACTCGTTGTATGGTTCACTAAGG
9993739 GAAAACTCGTTGTATGGTTCACTAAGG
1 GAAAACTCGTTGTATGGTTCACTAAGG
*
9993766 AAAAAC
1 GAAAAC
9993772 ATCGGTTGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (27 bp):
GAAAACTCGTTGTATGGTTCACTAAGG
Found at i:9995491 original size:23 final size:25
Alignment explanation
Indices: 9995465--9995511 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
9995455 TATCATTCAT
*
9995465 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
9995488 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
9995512 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:9998857 original size:46 final size:46
Alignment explanation
Indices: 9998797--9998970 Score: 186
Period size: 46 Copynumber: 4.0 Consensus size: 46
9998787 TTTGACGTGA
* * * * * * *
9998797 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGT
9998843 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
*
9998889 TTCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
* *
9998927 TGCCATGGTATCTTTCAACCATGATCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAG
9998971 AGAGCACACT
Statistics
Matches: 109, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
38 31 0.28
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 4 0.04
46 65 0.60
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
Found at i:9998935 original size:38 final size:38
Alignment explanation
Indices: 9998884--9998959 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
9998874 CATCTCATAT
* *
9998884 CAGGTTTCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGATCTTACACA
9998922 CAGGTTGCCATGGTATCTTTCAACCATGATCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGATCTTACACA
9998960 TTTCATATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGATCTTACACA
Found at i:10004242 original size:3 final size:3
Alignment explanation
Indices: 10004236--10004266 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
10004226 TTATAAAAAA
10004236 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
10004267 CTCAACCTTA
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10005313 original size:22 final size:22
Alignment explanation
Indices: 10005244--10005332 Score: 92
Period size: 22 Copynumber: 4.0 Consensus size: 22
10005234 GATACTTTTA
10005244 ATGTGGTGTAATATTAGTTATGC
1 ATGTGGTGTAATATTAGTTAT-C
* **
10005267 ACGTGG-ACAATATT-GTTGCTATC
1 ATGTGGTGTAATATTAG-T--TATC
10005290 ATGTGGTGTAATATTAGTTATC
1 ATGTGGTGTAATATTAGTTATC
*
10005312 ATATGGTGTAATATTAGTTAT
1 ATGTGGTGTAATATTAGTTAT
10005333 GCACTTGGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
21 1 0.02
22 31 0.57
23 11 0.20
24 10 0.19
25 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (22 bp):
ATGTGGTGTAATATTAGTTATC
Found at i:10005392 original size:68 final size:68
Alignment explanation
Indices: 10005247--10005395 Score: 192
Period size: 68 Copynumber: 2.2 Consensus size: 68
10005237 ACTTTTAATG
* * *
10005247 TGGTGTAATATTAGTTATGCACGTGGACAATATTGTTGCTATCATGTGGTGTAATATTAGTTATC
1 TGGTATAATATTAGTTATGCACGTGGACAATATTGTTGCTATCATGTGGTGTAATACTAATTATC
10005312 ATA
66 ATA
* * * * *
10005315 TGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTGTAATACTAATTATG
1 TGGTATAATATTAGTTATGCACGTGGACAATATTGTTGCTATCATGTGGTGTAATACTAATTAT-
* *
10005380 TATT
65 CATA
10005384 TGG-ATAATATTA
1 TGGTATAATATTA
10005396 TTAATTTCTA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
68 66 0.93
69 5 0.07
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (68 bp):
TGGTATAATATTAGTTATGCACGTGGACAATATTGTTGCTATCATGTGGTGTAATACTAATTATC
ATA
Found at i:10005848 original size:14 final size:14
Alignment explanation
Indices: 10005789--10005842 Score: 90
Period size: 14 Copynumber: 3.8 Consensus size: 14
10005779 ACAGAAAAGT
10005789 AAATCATTTTCCAG
1 AAATCATTTTCCAG
10005803 AAATCATTTTCCAAG
1 AAATCATTTTCC-AG
*
10005818 AAATTATTTTCCAG
1 AAATCATTTTCCAG
10005832 AAATCATTTTC
1 AAATCATTTTC
10005843 TGGAAAACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
14 24 0.65
15 13 0.35
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:10007893 original size:23 final size:25
Alignment explanation
Indices: 10007867--10007913 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
10007857 TATCATTCAT
*
10007867 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
10007890 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
10007914 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:10008276 original size:45 final size:45
Alignment explanation
Indices: 10008174--10008522 Score: 428
Period size: 46 Copynumber: 7.8 Consensus size: 45
10008164 TTCGACGTGA
* * *
10008174 TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTC--TTTCATGTCACGT
*
10008220 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTCATGTCACGT
*
10008265 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTCATGTCACGT
*
10008309 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTCATGTCACGT
* * * *
10008354 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTC-TTTCATGTCACGT
* * * *
10008400 TGCCTTGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTC-TTTCATGTCACGT
* * *
10008446 TGCCATGGTATCTTTCAACCATGATCTTA--C--ACA---CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTCATGTCACGT
*
10008484 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTC-TTTCAT
10008523 ATCAGAGAGC
Statistics
Matches: 278, Mismatches: 16, Indels: 20
0.89 0.05 0.06
Matches are distributed among these distances:
38 33 0.12
40 1 0.00
41 2 0.01
43 2 0.01
44 49 0.18
45 81 0.29
46 110 0.40
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTCATGTCACGT
Found at i:10008337 original size:89 final size:89
Alignment explanation
Indices: 10008174--10008512 Score: 440
Period size: 89 Copynumber: 3.8 Consensus size: 89
10008164 TTCGACGTGA
* * * *
10008174 TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTA-T--TCTTCATGTCAGGTTGCCATGGTATCTTTCAA
10008238 CCATGGTCTTATTCTTTCATGTCACGT
63 CCATGGTCTTATTCTTTCATGTCACGT
*
10008265 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTCATGTCACGTTGCCATGGTATCTTTCAACCA
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTCATGTCAGGTTGCCATGGTATCTTTCAACCA
10008330 TGGTCTTATTCTTTCATGTCACGT
66 TGGTCTTATTCTTTCATGTCACGT
** * *
10008354 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCTTGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTC-T-TCATGTCAGGTTGCCATGGTATCTTTCAAC
** * *
10008419 CATGGTCTTACACATTTCATATCAGGT
64 CATGGTCTTATTC-TTTCATGTCACGT
* *
10008446 TGCCATGGTATCTTTCAACCATGATCTTA--C-ACA---CAGGTTGCCATGGTATCTTTCAACCA
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTCATGTCAGGTTGCCATGGTATCTTTCAACCA
10008505 TGGTCTTA
66 TGGTCTTA
10008513 CACATTTCAT
Statistics
Matches: 228, Mismatches: 16, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
84 33 0.14
87 2 0.01
88 4 0.02
89 82 0.36
90 3 0.01
91 65 0.29
92 39 0.17
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (89 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCTTCATGTCAGGTTGCCATGGTATCTTTCAACCA
TGGTCTTATTCTTTCATGTCACGT
Found at i:10008492 original size:38 final size:38
Alignment explanation
Indices: 10008441--10008516 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
10008431 CATTTCATAT
10008441 CAGGTTGCCATGGTATCTTTCAACCATGATCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGATCTTACACA
*
10008479 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGATCTTACACA
10008517 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGATCTTACACA
Found at i:10021550 original size:23 final size:23
Alignment explanation
Indices: 10021504--10021550 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
10021494 AAGTGACTAC
*
10021504 ATTTTATTATTTTAAATATTATA
1 ATTTTATTATTTTAAATATAATA
*
10021527 ATTTTACTTATTTTAATTA-AATA
1 ATTTTA-TTATTTTAAATATAATA
10021550 A
1 A
10021551 AATAATTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTTTATTATTTTAAATATAATA
Found at i:10030185 original size:32 final size:32
Alignment explanation
Indices: 10030149--10030211 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
10030139 CTAAATAGTA
*
10030149 TGTGATGAAATACA-TTTTATGGATTGCTTGTC
1 TGTGATAAAATA-AGTTTTATGGATTGCTTGTC
*
10030181 TGTGATAAAATAAGTTTTATGGGTTGCTTGT
1 TGTGATAAAATAAGTTTTATGGATTGCTTGT
10030212 TATGTTCTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.25, C:0.06, G:0.24, T:0.44
Consensus pattern (32 bp):
TGTGATAAAATAAGTTTTATGGATTGCTTGTC
Found at i:10030291 original size:96 final size:97
Alignment explanation
Indices: 10030121--10030316 Score: 349
Period size: 96 Copynumber: 2.0 Consensus size: 97
10030111 GGTGGATTGC
10030121 CTGCTTACATCTCTTAAGCTAAATAGTATGTGATGAAATACATTTTATGGATTGCTTGTCTGTGA
1 CTGCTTACATCTCTTAAGCTAAATAGTATGTGATGAAATACATTTTATGGATTGCTTGTCTGTGA
* *
10030186 TAAAATAAGTTTTATGGGTTGCTTGTTATGTT
66 TAAAATAAGTTTTATGAGTTGCTTCTTATGTT
*
10030218 CTGCTTACATCTCTTAAGCT-AATAGTATGTGATGAAATACGTTTTATGGATTGCTTGTCTGTGA
1 CTGCTTACATCTCTTAAGCTAAATAGTATGTGATGAAATACATTTTATGGATTGCTTGTCTGTGA
*
10030282 TAAAGTAAGTTTTATGAGTTGCTTCTTATGTT
66 TAAAATAAGTTTTATGAGTTGCTTCTTATGTT
10030314 CTG
1 CTG
10030317 TTTATGGATA
Statistics
Matches: 95, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
96 75 0.79
97 20 0.21
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (97 bp):
CTGCTTACATCTCTTAAGCTAAATAGTATGTGATGAAATACATTTTATGGATTGCTTGTCTGTGA
TAAAATAAGTTTTATGAGTTGCTTCTTATGTT
Found at i:10030294 original size:32 final size:32
Alignment explanation
Indices: 10030245--10030305 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
10030235 GCTAATAGTA
*
10030245 TGTGATGAAATACGTTTTATG-GATTGCTTGTC
1 TGTGATGAAATAAGTTTTATGAG-TTGCTTGTC
10030277 TGTGAT-AAAGTAAGTTTTATGAGTTGCTT
1 TGTGATGAAA-TAAGTTTTATGAGTTGCTT
10030306 CTTATGTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 3 0.12
32 22 0.85
33 1 0.04
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.44
Consensus pattern (32 bp):
TGTGATGAAATAAGTTTTATGAGTTGCTTGTC
Found at i:10031568 original size:45 final size:46
Alignment explanation
Indices: 10031517--10031610 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
10031507 TTAATGTTTG
10031517 AATAAAA-TTTCTTTTGATTACAATATTTTGTAAATTTGCAATAAC
1 AATAAAATTTTCTTTTGATTACAATATTTTGTAAATTTGCAATAAC
*
10031562 AATAAAATTTTCTTTTGTTTACAATATTTTGTAAATTTGCAATAAC
1 AATAAAATTTTCTTTTGATTACAATATTTTGTAAATTTGCAATAAC
10031608 AAT
1 AAT
10031611 GTCGATAATG
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 7 0.15
46 40 0.85
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (46 bp):
AATAAAATTTTCTTTTGATTACAATATTTTGTAAATTTGCAATAAC
Found at i:10040799 original size:54 final size:54
Alignment explanation
Indices: 10040717--10040826 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
10040707 ATGCTTGGTA
*
10040717 CAGTACAAAATATATCAGATTTCTTTCTCAGTATACACATATTAGTTCCTTCAG
1 CAGTACAAAATATATCAGATTTCTTTCTCAATATACACATATTAGTTCCTTCAG
10040771 CAGTACAAAATATATCAGATTTCTTTCTCAATATACACATATTAGTTCCTTCAG
1 CAGTACAAAATATATCAGATTTCTTTCTCAATATACACATATTAGTTCCTTCAG
10040825 CA
1 CA
10040827 ATTTTTTATA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (54 bp):
CAGTACAAAATATATCAGATTTCTTTCTCAATATACACATATTAGTTCCTTCAG
Found at i:10042854 original size:16 final size:16
Alignment explanation
Indices: 10042800--10042859 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
10042790 TTTTGCCTAT
10042800 GTTTTTTAGGGTTAG-
1 GTTTTTTAGGGTTAGA
* *
10042815 GATTTTTAAGGTTTA-A
1 G-TTTTTTAGGGTTAGA
*
10042831 -TTGATTTAGGGTTAGA
1 GTT-TTTTAGGGTTAGA
10042847 GTTTTTTAGGGTT
1 GTTTTTTAGGGTT
10042860 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 9
0.69 0.12 0.18
Matches are distributed among these distances:
14 2 0.06
15 9 0.26
16 21 0.62
17 2 0.06
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (16 bp):
GTTTTTTAGGGTTAGA
Found at i:10043000 original size:20 final size:19
Alignment explanation
Indices: 10042950--10043000 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 19
10042940 AGTTTAGGGT
10042950 ATTA-GGTTAATTGATTAA
1 ATTAGGGTTAATTGATTAA
10042968 ATTAGGG---ATTGATTAA
1 ATTAGGGTTAATTGATTAA
10042984 ATTTAGGGTTAATTGAT
1 A-TTAGGGTTAATTGAT
10043001 ACATAATCGT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 10 0.36
17 6 0.21
18 4 0.14
19 2 0.07
20 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (19 bp):
ATTAGGGTTAATTGATTAA
Found at i:10043756 original size:126 final size:126
Alignment explanation
Indices: 10043531--10043775 Score: 382
Period size: 126 Copynumber: 1.9 Consensus size: 126
10043521 TTTCTGCAAG
* *
10043531 AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGTACAATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCACAATGCACTGTC
*
10043596 AGCAAAATTTCTGAAAAAAGCTCCCACATGGACGCTCTTTCACTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGAAAAAAGCTACCACATGGACGCTCTTTCACTACAGTAGTTCGTAGAAA
* ***
10043657 AATAATTCTGAGTATACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGTTGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCACAATGCACTGTC
* * ** *
10043722 AGTAAAATTTCTGAAAAAAGCTACCACGTGGACGCTCTTTTGCTATAGTAGTTC
66 AGCAAAATTTCTGAAAAAAGCTACCACATGGACGCTCTTTCACTACAGTAGTTC
10043776 ATATTCAGCA
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
126 107 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCACAATGCACTGTC
AGCAAAATTTCTGAAAAAAGCTACCACATGGACGCTCTTTCACTACAGTAGTTCGTAGAAA
Found at i:10043799 original size:60 final size:60
Alignment explanation
Indices: 10043720--10043834 Score: 194
Period size: 60 Copynumber: 1.9 Consensus size: 60
10043710 GGTTGCACTG
* * *
10043720 TCAGTAAAATTTCTGAAAAAAGCTACCACGTGGACGCTCTTTTGCTATAGTAGTTCATAT
1 TCAGCAAAATTTCTAAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTTCATAT
*
10043780 TCAGCAAAATTTCTAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTT
1 TCAGCAAAATTTCTAAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
10043835 TGTAGAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (60 bp):
TCAGCAAAATTTCTAAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTTCATAT
Found at i:10043910 original size:186 final size:186
Alignment explanation
Indices: 10043594--10043963 Score: 598
Period size: 186 Copynumber: 2.0 Consensus size: 186
10043584 CAATGCACTG
*
10043594 TCAGCAAAATTTCTGAAAAAAGCTCCCACATGGACGCTCTTTCACTACAGTAGTTCGTAGAAAAA
1 TCAGCAAAATTTCTAAAAAAAGCTCCCACATGGACGCTCTTTCACTACAGTAGTTCGTAGAAAAA
* * **
10043659 TAATTCTGAGTATACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGTTGCACTGTCAG
66 TAATTCTGAATAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGAATGCACTGTCAG
* * *
10043724 TAAAATTTCTGAAAAAAGCTACCACGTGGACGCTCTTTTGCTATAGTAGTTCATAT
131 TAAAATTTCTGAAAAAAACTACCACGTAGACGCTCTTTTGCTACAGTAGTTCATAT
* ** *
10043780 TCAGCAAAATTTCTAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTGTAGAAAAA
1 TCAGCAAAATTTCTAAAAAAAGCTCCCACATGGACGCTCTTTCACTACAGTAGTTCGTAGAAAAA
*
10043845 TAATTCTGAATAGACGTTTCTGAACAAATAGTGTC-AAAATCGCTTCAAGCAGAATGCATTGTCA
66 TAATTCTGAATAGACGTTTCTGAACAAATAGTGTCGAAAA-CGCTTCAAGCAGAATGCACTGTCA
*
10043909 GTAAAATTTCTGAAAAAAACTCCCACGTAGACGCTCTTTTGCTACAGTAGTTCAT
130 GTAAAATTTCTGAAAAAAACTACCACGTAGACGCTCTTTTGCTACAGTAGTTCAT
10043964 GGAAAAATAA
Statistics
Matches: 169, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
185 4 0.02
186 165 0.98
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (186 bp):
TCAGCAAAATTTCTAAAAAAAGCTCCCACATGGACGCTCTTTCACTACAGTAGTTCGTAGAAAAA
TAATTCTGAATAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGAATGCACTGTCAG
TAAAATTTCTGAAAAAAACTACCACGTAGACGCTCTTTTGCTACAGTAGTTCATAT
Found at i:10044017 original size:126 final size:126
Alignment explanation
Indices: 10043780--10044097 Score: 462
Period size: 126 Copynumber: 2.5 Consensus size: 126
10043770 TAGTTCATAT
* *
10043780 TCAGCAAAATTTCT-AAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTGTAGAAAA
1 TCAGTAAAATTTCTGAAAAAAA-CTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAA
* * *
10043844 ATAATTCTGAATAGACGTTTCTGAACAAATAGTGTCAAAATCGCTTCAAGC-AGAATGCATTG
65 ATAATTCTGAATAGACGTGTCTGAACAAATAGTGTCAAAATCACTTCAAGCAAG-ATGCACTG
* * *
10043906 TCAGTAAAATTTCTGAAAAAAACTCCCACGTAGACGCTCTTTTGCTACAGTAGTTCATGGAAAAA
1 TCAGTAAAATTTCTGAAAAAAACTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAAA
* * *
10043971 TAATTCTGAGTAGACGTGTCTGAACAAATAGTGTTGAAAA-CACTTCAAGTAAGATGCACTG
66 TAATTCTGAATAGACGTGTCTGAACAAATAGTG-TCAAAATCACTTCAAGCAAGATGCACTG
* * *
10044032 CCAGTAAAATTTCTGAAAAAAACTCCCACATGGATGCTCTTTTGCTACAGTAGTTCGTAGAAAAA
1 TCAGTAAAATTTCTGAAAAAAACTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAAA
10044097 T
66 T
10044098 GAGGCTATAA
Statistics
Matches: 172, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
126 158 0.92
127 14 0.08
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (126 bp):
TCAGTAAAATTTCTGAAAAAAACTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAAA
TAATTCTGAATAGACGTGTCTGAACAAATAGTGTCAAAATCACTTCAAGCAAGATGCACTG
Found at i:10045757 original size:46 final size:46
Alignment explanation
Indices: 10045699--10045928 Score: 361
Period size: 46 Copynumber: 5.0 Consensus size: 46
10045689 TTTCTGTCAT
* * *
10045699 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
10045745 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* **
10045791 GTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* **
10045837 GTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
10045883 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
10045929 AGAGCACACT
Statistics
Matches: 177, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 177 1.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.39
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
Found at i:10051676 original size:16 final size:16
Alignment explanation
Indices: 10051657--10051695 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
10051647 AATTTTTCCC
*
10051657 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCCTTCTT
10051673 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
10051689 TCTTTCC
1 TTTTTCC
10051696 CCTGCTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:10051748 original size:16 final size:18
Alignment explanation
Indices: 10051722--10051759 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
10051712 TTTCATCCTT
10051722 TTTTTCTTTTTCTATT-C
1 TTTTTCTTTTTCTATTCC
10051739 TTTTTCTTTTT-TATTCC
1 TTTTTCTTTTTCTATTCC
10051756 TTTT
1 TTTT
10051760 ATCTAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTCTTTTTCTATTCC
Found at i:10054624 original size:18 final size:18
Alignment explanation
Indices: 10054582--10054624 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
10054572 GACTAGGAAA
* *
10054582 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
*
10054600 AGAATACATATAAGGGCT
1 AGGATACATATAAGGGCT
10054618 AGGATAC
1 AGGATAC
10054625 GCACCTAGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Done.