Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold320
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: 2598547
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 499 characters in sequence are not A, C, G, or T
File 6 of 17
Found at i:775195 original size:16 final size:15
Alignment explanation
Indices: 775134--775207 Score: 51
Period size: 16 Copynumber: 4.8 Consensus size: 15
775124 AATGTTATTA
* *
775134 AAAAATAATTAAAAT
1 AAAAATAAATATAAT
* *
775149 ATAAATAAATTATGAT
1 AAAAATAAA-TATAAT
* *
775165 AATAATAAAAAATAAT
1 AAAAAT-AAATATAAT
775181 AAAAATATAATATAA-
1 AAAAATA-AATATAAT
*
775196 AAATATAAATAT
1 AAAAATAAATAT
775208 TTTAAAATTT
Statistics
Matches: 45, Mismatches: 11, Indels: 7
0.71 0.17 0.11
Matches are distributed among these distances:
14 5 0.11
15 14 0.31
16 23 0.51
17 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (15 bp):
AAAAATAAATATAAT
Found at i:775252 original size:2 final size:2
Alignment explanation
Indices: 775239--775282 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
775229 TTGATAAATT
*
775239 TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
775281 TA
1 TA
775283 ATTTACAAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:775910 original size:36 final size:32
Alignment explanation
Indices: 775870--775947 Score: 93
Period size: 36 Copynumber: 2.3 Consensus size: 32
775860 TAATATTTAA
775870 TTATTATTTAATAAAAATATAATTTTAACATATGTT
1 TTATTATTTAAT-AAAA-ATAATTTTAACA-AT-TT
* *
775906 TTATTATTTAATATAAATAATTTTAATAATTT
1 TTATTATTTAATAAAAATAATTTTAACAATTT
775938 TTAATTATTT
1 TT-ATTATTT
775948 GTTATATATG
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
32 4 0.10
33 9 0.23
34 11 0.28
35 3 0.08
36 12 0.31
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (32 bp):
TTATTATTTAATAAAAATAATTTTAACAATTT
Found at i:779526 original size:50 final size:50
Alignment explanation
Indices: 779463--779722 Score: 385
Period size: 50 Copynumber: 5.2 Consensus size: 50
779453 AGTTGCTTAG
* * * * *
779463 AGTCAACAATTATGGCTATCTCTTTCTATTATCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTATGGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
* *
779513 AGTCAACAGTTATGGCCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTATGGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
* *
779563 CGTCAACAATTATGGCCACCTCTCTCGATTGTCAAAGTTTGGTGAAGAAT
1 AGTCAACAATTATGGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
* *
779613 AGTCAACAATTACGGTCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTATGGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
* *
779663 AGTCAACAATTACGGCCACCTTTCTCGATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTATGGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
* *
779713 GGTTAACAAT
1 AGTCAACAAT
779723 GGCAACACCT
Statistics
Matches: 192, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 192 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (50 bp):
AGTCAACAATTATGGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
Found at i:787606 original size:50 final size:50
Alignment explanation
Indices: 787547--787656 Score: 184
Period size: 50 Copynumber: 2.2 Consensus size: 50
787537 AGTTGGTTAG
* * *
787547 AGTCAACAATTACGACCATCTCTCTCTATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGACCACCTCTCTCAATTATCAAAGGTTGGTGAAGAAT
*
787597 AGTCAACAATTACGGCCACCTCTCTCAATTATCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGACCACCTCTCTCAATTATCAAAGGTTGGTGAAGAAT
787647 AGTCAACAAT
1 AGTCAACAAT
787657 AACAACACCT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (50 bp):
AGTCAACAATTACGACCACCTCTCTCAATTATCAAAGGTTGGTGAAGAAT
Found at i:791431 original size:3 final size:3
Alignment explanation
Indices: 791425--791458 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
791415 GTTGTTGTTG
* *
791425 TTA TTA TTA TTG TTA TTA TTA TTA TCA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
791459 CATCATCATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:791437 original size:12 final size:12
Alignment explanation
Indices: 791422--791458 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
791412 GTTGTTGTTG
791422 TTGTTATTATTA
1 TTGTTATTATTA
791434 TTGTTATTATTA
1 TTGTTATTATTA
* *
791446 TTATCATTATTA
1 TTGTTATTATTA
791458 T
1 T
791459 CATCATCATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (12 bp):
TTGTTATTATTA
Found at i:800171 original size:15 final size:14
Alignment explanation
Indices: 800140--800182 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
800130 AACTAGTAGA
*
800140 ATAAAAAAATAAAAT
1 ATAAACAAAT-AAAT
*
800155 ATATAATAAATAAAT
1 ATA-AACAAATAAAT
800170 ATAAACAAATAAA
1 ATAAACAAATAAA
800183 AAAATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 9 0.36
15 10 0.40
16 6 0.24
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (14 bp):
ATAAACAAATAAAT
Found at i:801711 original size:2 final size:2
Alignment explanation
Indices: 801704--801733 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
801694 GATTGATTGC
801704 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
801734 CCATAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:803586 original size:13 final size:14
Alignment explanation
Indices: 803563--803592 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
803553 ACTTAAAAGC
803563 TTTTAAATTATTTA
1 TTTTAAATTATTTA
803577 TTTT-AATTATTTA
1 TTTTAAATTATTTA
803590 TTT
1 TTT
803593 GTGTTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTAAATTATTTA
Found at i:803814 original size:19 final size:20
Alignment explanation
Indices: 803771--803816 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
803761 AAACAAATTT
803771 TAATTTAATATCTTTAATAA
1 TAATTTAATATCTTTAATAA
* * *
803791 TAATTTTATATTTTTACT-A
1 TAATTTAATATCTTTAATAA
803810 TAATTTA
1 TAATTTA
803817 CCGTTGTGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (20 bp):
TAATTTAATATCTTTAATAA
Found at i:805788 original size:18 final size:18
Alignment explanation
Indices: 805765--805878 Score: 51
Period size: 18 Copynumber: 6.2 Consensus size: 18
805755 AAGTGGATGC
805765 TTATTAAAATTTATTTTA
1 TTATTAAAATTTATTTTA
*
805783 TTATT--ATTGTTATATTTA
1 TTATTAAAAT-TTAT-TTTA
* * *
805801 -AATTTAAATATATATTTA
1 TTATTAAAATTTAT-TTTA
*
805819 TTATT--AATTATAATTTA
1 TTATTAAAATT-TATTTTA
*
805836 TTATTTTAATATTTAATTTTA
1 TTA--TTAAAATTT-ATTTTA
*
805857 TTA-TAATAATTAATTTTA
1 TTATTAA-AATTTATTTTA
805875 TTAT
1 TTAT
805879 CATCGTTATT
Statistics
Matches: 72, Mismatches: 11, Indels: 25
0.67 0.10 0.23
Matches are distributed among these distances:
16 2 0.03
17 17 0.24
18 31 0.43
19 10 0.14
20 1 0.01
21 11 0.15
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.61
Consensus pattern (18 bp):
TTATTAAAATTTATTTTA
Found at i:805836 original size:17 final size:18
Alignment explanation
Indices: 805804--805840 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
805794 ATATTTAAAT
805804 TTAAATATATATTTATTA
1 TTAAATATATATTTATTA
*
805822 TTAATTATA-ATTTATTA
1 TTAAATATATATTTATTA
805839 TT
1 TT
805841 TTAATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAAATATATATTTATTA
Found at i:805968 original size:16 final size:16
Alignment explanation
Indices: 805949--805993 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
805939 AAAATATATT
805949 AAATATATTAAATTAA
1 AAATATATTAAATTAA
*
805965 AAATATATAAAAAATTAA
1 AAATATAT--TAAATTAA
805983 AAAT-TATTAAA
1 AAATATATTAAA
805994 ATTATATAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 3 0.12
16 8 0.32
17 3 0.12
18 11 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATATATTAAATTAA
Found at i:805988 original size:25 final size:26
Alignment explanation
Indices: 805932--805984 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
805922 AATAAAGGTG
* *
805932 AAAATGAAAAATATATTAAATATATT
1 AAAATTAAAAATATATTAAATAAATT
805958 -AAATTAAAAATATA-TAAA-AAATT
1 AAAATTAAAAATATATTAAATAAATT
805981 AAAA
1 AAAA
805985 ATTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
23 4 0.17
24 7 0.29
25 13 0.54
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (26 bp):
AAAATTAAAAATATATTAAATAAATT
Found at i:805996 original size:16 final size:17
Alignment explanation
Indices: 805949--805997 Score: 66
Period size: 16 Copynumber: 2.9 Consensus size: 17
805939 AAAATATATT
805949 AAATATATT-AAATTAA
1 AAATATATTAAAATTAA
*
805965 AAATATATAAAAAATTAA
1 AAATATAT-TAAAATTAA
805983 AAAT-TATTAAAATTA
1 AAATATATTAAAATTA
805998 TATAGTAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 15 0.52
17 3 0.10
18 11 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATATATTAAAATTAA
Found at i:806326 original size:14 final size:14
Alignment explanation
Indices: 806309--806356 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
806299 AGTTTTATTA
806309 AAATTTAATTAAAT
1 AAATTTAATTAAAT
*
806323 AAATTTATTTAAAT
1 AAATTTAATTAAAT
*
806337 AAATTT-ATCAAAT
1 AAATTTAATTAAAT
*
806350 TAATTTA
1 AAATTTA
806357 TAATTTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 10 0.34
14 19 0.66
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (14 bp):
AAATTTAATTAAAT
Found at i:806334 original size:25 final size:25
Alignment explanation
Indices: 806287--806336 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
806277 CAATTTATTT
* *
806287 TTTAATTAAATTAGTTTTATTAAAA
1 TTTAATTAAATAAATTTTATTAAAA
*
806312 TTTAATTAAATAAA-TTTATTTAAA
1 TTTAATTAAATAAATTTTATTAAAA
806336 T
1 T
806337 AAATTTATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TTTAATTAAATAAATTTTATTAAAA
Found at i:806421 original size:22 final size:24
Alignment explanation
Indices: 806379--806422 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
806369 TTTTAAATCA
806379 AACTAACAAAATAAATCAATATCG
1 AACTAACAAAATAAATCAATATCG
*
806403 AACTAA-AAAGTAAAT-AATAT
1 AACTAACAAAATAAATCAATAT
806423 TTTTATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 8 0.42
24 6 0.32
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.23
Consensus pattern (24 bp):
AACTAACAAAATAAATCAATATCG
Found at i:807205 original size:21 final size:20
Alignment explanation
Indices: 807168--807207 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
807158 ATTTATAAAA
* *
807168 ATTTTAATATCTTATAATTG
1 ATTTTAATATATGATAATTG
807188 ATTTTATATATATGATAATT
1 ATTTTA-ATATATGATAATT
807208 ATACTTATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (20 bp):
ATTTTAATATATGATAATTG
Found at i:807403 original size:20 final size:22
Alignment explanation
Indices: 807361--807410 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 22
807351 GATTTGAAAA
*
807361 AAATTATTTTATTAATTATTTTT
1 AAATTATTTTATT-ATTACTTTT
807384 AAATT-TTTTATT-TTACTTTT
1 AAATTATTTTATTATTACTTTT
807404 AAATTAT
1 AAATTAT
807411 ATGTTTAACG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 12 0.48
21 1 0.04
22 7 0.28
23 5 0.20
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
AAATTATTTTATTATTACTTTT
Found at i:807754 original size:16 final size:17
Alignment explanation
Indices: 807719--807755 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
807709 AGCACAAAAT
807719 TTTAA-AAATTATTTTA
1 TTTAATAAATTATTTTA
807735 -TTAATAAA-TATTTTA
1 TTTAATAAATTATTTTA
807750 TTTAAT
1 TTTAAT
807756 TTTTTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAATAAATTATTTTA
Found at i:810223 original size:31 final size:29
Alignment explanation
Indices: 810116--810224 Score: 91
Period size: 31 Copynumber: 3.7 Consensus size: 29
810106 ATTGAATCAT
*
810116 AATTTAATTTAATTTAAAATTATATAAAAA
1 AATTTAATTTAAATTAAAATTAT-TAAAAA
* *
810146 AATTAAAATTT-AATT-AAATCATCTTAAAAA
1 AATT-TAATTTAAATTAAAAT--TATTAAAAA
*
810176 TAATTTAA--TAAGTTAAAATTGATTAAAAA
1 -AATTTAATTTAAATTAAAATT-ATTAAAAA
810205 AATTTATATTTAAATTAAAA
1 AATTTA-ATTTAAATTAAAA
810225 CTTTTAATAA
Statistics
Matches: 62, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
28 8 0.13
29 15 0.24
30 19 0.31
31 20 0.32
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (29 bp):
AATTTAATTTAAATTAAAATTATTAAAAA
Found at i:815699 original size:19 final size:16
Alignment explanation
Indices: 815675--815719 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 16
815665 ATGAATAAAT
815675 TTAAAAATTTATATTACTA
1 TTAAAAATTTA-ATT--TA
815694 TTAAAAATATTAATTTA
1 TTAAAAAT-TTAATTTA
815711 TTAAAAATT
1 TTAAAAATT
815720 ATTTTTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 1 0.04
17 10 0.40
19 11 0.44
20 3 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAAATTTAATTTA
Found at i:815785 original size:20 final size:20
Alignment explanation
Indices: 815762--815799 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
815752 AAATTTAAAT
* *
815762 AAAAATATTTTTAATTAATA
1 AAAAATAATTTGAATTAATA
815782 AAAAATAATTTGAATTAA
1 AAAAATAATTTGAATTAA
815800 ACTCGAAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
AAAAATAATTTGAATTAATA
Found at i:816771 original size:29 final size:29
Alignment explanation
Indices: 816731--816786 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
816721 ATATATAATA
*
816731 AAATTTATTATATTATTT-TTATATTTATT
1 AAATATATTATATT-TTTATTATATTTATT
*
816760 AAATATATTATATTTTTATTGTATTTA
1 AAATATATTATATTTTTATTATATTTA
816787 AAATTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (29 bp):
AAATATATTATATTTTTATTATATTTATT
Found at i:816787 original size:26 final size:25
Alignment explanation
Indices: 816739--816796 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
816729 TAAAATTTAT
816739 TATATTAT-TTTTATATTTATTAAA
1 TATATTATATTTTATATTTATTAAA
816763 TATATTATATTTT-TATTGTATTTAAA
1 TATATTATATTTTATATT-TA-TTAAA
816789 -AT-TTATAT
1 TATATTATAT
816797 ATATAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
24 18 0.58
25 8 0.26
26 5 0.16
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
TATATTATATTTTATATTTATTAAA
Found at i:816949 original size:152 final size:151
Alignment explanation
Indices: 816656--816939 Score: 432
Period size: 153 Copynumber: 1.9 Consensus size: 151
816646 AATAATTATG
* *
816656 TAAATATAAATATAACATAAATTATTAAATATTTTAAAATTTAAAACACAAATATAATATTAAAC
1 TAAATATAAATATAACATAAATTATTAAATATTTTAAAATTTAAAACAAAAAAATAATATTAAAC
*
816721 ATATATAATAAAATTTATTATATTATTTTTATATTTATTAAATATATTATATTTTTATTGTATTT
66 ATATATAATAAAATTTATTATATTATTTTTATATTTATTAAATATATTATA-TTTTA-TCTATTT
816786 AAAATTTATATATATAAAATAAT
129 AAAATTTATATATATAAAATAAT
* * * *
816809 TAAATATAAATTTAACATAAATTATTAATTATTTTAAATTTTAAAATAAAAAAATAATATTAAA-
1 TAAATATAAATATAACATAAATTATTAAATATTTTAAAATTTAAAACAAAAAAATAATATTAAAC
* *
816873 GTATCA-AATAAAATTTTTTATATTATTTTTATATTTATTAAATATATTATA-TTTA-CTATTTA
66 ATAT-ATAATAAAATTTATTATATTATTTTTATATTTATTAAATATATTATATTTTATCTATTTA
816935 AAATT
130 AAATT
816940 CTTAGATATA
Statistics
Matches: 121, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
148 11 0.09
150 4 0.03
152 47 0.39
153 59 0.49
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (151 bp):
TAAATATAAATATAACATAAATTATTAAATATTTTAAAATTTAAAACAAAAAAATAATATTAAAC
ATATATAATAAAATTTATTATATTATTTTTATATTTATTAAATATATTATATTTTATCTATTTAA
AATTTATATATATAAAATAAT
Found at i:818209 original size:20 final size:21
Alignment explanation
Indices: 818184--818223 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
818174 TTTATTTTTT
*
818184 AATAAAAATTAAA-AAATAAA
1 AATAAAAAGTAAATAAATAAA
818204 AATAAAAAGTAAATAAATAA
1 AATAAAAAGTAAATAAATAA
818224 TAAGAAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (21 bp):
AATAAAAAGTAAATAAATAAA
Found at i:818637 original size:2 final size:2
Alignment explanation
Indices: 818630--818655 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
818620 GAATGGACAA
818630 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
818656 GTGTGTCGAT
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:819220 original size:15 final size:16
Alignment explanation
Indices: 819194--819226 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
819184 TCAAACAAAA
819194 TAAAAATATAATTAAT
1 TAAAAATATAATTAAT
819210 TAAAAAT-TAATTAAT
1 TAAAAATATAATTAAT
819225 TA
1 TA
819227 GCTGCATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAAAATATAATTAAT
Found at i:819806 original size:19 final size:19
Alignment explanation
Indices: 819784--819820 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
819774 ATTATATAAA
819784 ATTTTAAATAATATTTATG
1 ATTTTAAATAATATTTATG
* *
819803 ATTTTATATTATATTTAT
1 ATTTTAAATAATATTTAT
819821 ATTATATTTA
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:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
ATTTTAAATAATATTTATG
Found at i:819828 original size:30 final size:29
Alignment explanation
Indices: 819727--819871 Score: 92
Period size: 28 Copynumber: 5.1 Consensus size: 29
819717 TGTTTTATTT
* *
819727 TTTTAATTATATATT-TATATTAATTTTAATA
1 TTTTAATTATAT-TTATAT-TTTATATT-ATA
* * * * *
819758 TATTAA-TA-ATTTATGTATTATATAAAA
1 TTTTAATTATATTTATATTTTATATTATA
*
819785 TTTTAAATAATATTTATGATTTTATATTATA
1 TTTT-AATTATATTTAT-ATTTTATATTATA
819816 -TTTATATTATATTTA-ATATTT-TATTATA
1 TTTTA-ATTATATTTATAT-TTTATATTATA
819844 TTTTAATT-TA-TTATATTTTAT-TTATA
1 TTTTAATTATATTTATATTTTATATTATA
819870 TT
1 TT
819872 GTATTTAAAA
Statistics
Matches: 90, Mismatches: 14, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
26 13 0.14
27 10 0.11
28 20 0.22
29 13 0.14
30 20 0.22
31 14 0.16
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (29 bp):
TTTTAATTATATTTATATTTTATATTATA
Found at i:819836 original size:7 final size:6
Alignment explanation
Indices: 819794--819871 Score: 64
Period size: 5 Copynumber: 13.8 Consensus size: 6
819784 ATTTTAAATA
819794 ATATTT ATGATTT -TATATT ATATTT ATA-TT ATATTT AATATTT -TA-TT
1 ATATTT AT-ATTT ATAT-TT ATATTT ATATTT ATATTT -ATATTT ATATTT
*
819841 ATATTT -TAATT -TA-TT ATATTT -TATTT ATATT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATT
819872 GTATTTAAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 20
0.74 0.01 0.24
Matches are distributed among these distances:
4 4 0.07
5 24 0.39
6 20 0.33
7 13 0.21
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (6 bp):
ATATTT
Found at i:819876 original size:11 final size:11
Alignment explanation
Indices: 819805--819878 Score: 69
Period size: 11 Copynumber: 6.4 Consensus size: 11
819795 TATTTATGAT
*
819805 TTTATATTATA
1 TTTATATTTTA
*
819816 TTTATATTATA
1 TTTATATTTTA
819827 TTTAATATTTTA
1 TTT-ATATTTTA
819839 -TTATATTTTAA
1 TTTATATTTT-A
819850 TTTATTATATTTTA
1 --T-TTATATTTTA
*
819864 TTTATATTGTA
1 TTTATATTTTA
819875 TTTA
1 TTTA
819879 AAATTAATAA
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
10 7 0.13
11 30 0.55
12 8 0.15
14 1 0.02
15 9 0.16
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.66
Consensus pattern (11 bp):
TTTATATTTTA
Found at i:820742 original size:12 final size:12
Alignment explanation
Indices: 820725--820766 Score: 77
Period size: 12 Copynumber: 3.6 Consensus size: 12
820715 TTTTTATTAA
820725 ATTATATTTTAT
1 ATTATATTTTAT
820737 ATTATATTTTA-
1 ATTATATTTTAT
820748 ATTATATTTTAT
1 ATTATATTTTAT
820760 ATTATAT
1 ATTATAT
820767 CTAAAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.38
12 18 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTATATTTTAT
Found at i:820760 original size:30 final size:30
Alignment explanation
Indices: 820683--820762 Score: 76
Period size: 30 Copynumber: 2.7 Consensus size: 30
820673 TATTACATAA
*
820683 ATTTTAA-TATATTCGTATA-TTTATATCAT
1 ATTTTAATTATATT-TTATATTTTATATCAT
* ** *
820712 ATTTT-TTTATTAAATTATATTTTATATTAT
1 ATTTTAATTA-TATTTTATATTTTATATCAT
820742 ATTTTAATTATATTTTATATT
1 ATTTTAATTATATTTTATATT
820763 ATATCTAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
29 11 0.28
30 25 0.64
31 3 0.08
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (30 bp):
ATTTTAATTATATTTTATATTTTATATCAT
Found at i:825365 original size:21 final size:21
Alignment explanation
Indices: 825339--825381 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
825329 TTTTCTTCAT
825339 TTTAAAAT-GAAATTTAAAAAA
1 TTTAAAATAGAAA-TTAAAAAA
*
825360 TTTAAATTAGAAATTAAAAAA
1 TTTAAAATAGAAATTAAAAAA
825381 T
1 T
825382 CAAAAGTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
TTTAAAATAGAAATTAAAAAA
Found at i:825654 original size:9 final size:9
Alignment explanation
Indices: 825640--825880 Score: 93
Period size: 10 Copynumber: 25.9 Consensus size: 9
825630 TTTTGCATTC
825640 AAAAAATTT
1 AAAAAATTT
825649 AAAAAAATTAT
1 -AAAAAATT-T
**
825660 AAAAAATCC
1 AAAAAATTT
*
825669 ATAAAATTT
1 AAAAAATTT
* *
825678 TAAAAATAT
1 AAAAAATTT
825687 ATAAAAATTT
1 A-AAAAATTT
* *
825697 -TAAAA-GT
1 AAAAAATTT
*
825704 -AAAAATTCA
1 AAAAAATT-T
825713 AAAAAATTAT
1 AAAAAATT-T
**
825723 AAAAAATAA
1 AAAAAATTT
825732 AAATAAATATT
1 AAA-AAAT-TT
825743 CAAAAAATTAT
1 -AAAAAATT-T
*
825754 AAAAAATCT
1 AAAAAATTT
* *
825763 ATAAAATTC
1 AAAAAATTT
*
825772 AAAAAATAAT
1 AAAAAAT-TT
*
825782 ATAAATATTT
1 A-AAAAATTT
*
825792 AAAAAATCT
1 AAAAAATTT
*
825801 ATAAAAATAT
1 A-AAAAATTT
825811 AAAAAATTT
1 AAAAAATTT
825820 -AAAAA--T
1 AAAAAATTT
*
825826 --AAAATTC
1 AAAAAATTT
*
825833 AAAAAATAT
1 AAAAAATTT
*
825842 ATAAAATTTT
1 A-AAAAATTT
*
825852 AAAATAAATATA
1 -AAA-AAAT-TT
825864 AAAAAATTT
1 AAAAAATTT
825873 AAAAAATT
1 AAAAAATT
825881 ATGAAATATC
Statistics
Matches: 169, Mismatches: 42, Indels: 41
0.67 0.17 0.16
Matches are distributed among these distances:
5 4 0.02
6 1 0.01
7 5 0.03
8 9 0.05
9 57 0.34
10 71 0.42
11 18 0.11
12 4 0.02
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAAAATTT
Found at i:825663 original size:19 final size:19
Alignment explanation
Indices: 825641--825882 Score: 105
Period size: 19 Copynumber: 12.0 Consensus size: 19
825631 TTTGCATTCA
825641 AAAAATTTAAAAAAATTAT
1 AAAAATTTAAAAAAATTAT
* ** * *
825660 AAAAAATCCATAAAATTTT
1 AAAAATTTAAAAAAATTAT
**
825679 AAAAATATATAAAAATTTTAAAAGT
1 AAAAAT-T-TAAAAAAATT---A-T
*
825704 AAAAATTCAAAAAAATTAT
1 AAAAATTTAAAAAAATTAT
* *
825723 AAAAA-ATAAAAATAAATATT
1 AAAAATTTAAAAA-AATTA-T
*
825743 CAAAAAATTATAAAAAATCTAT
1 -AAAAATTTA-AAAAAAT-TAT
* *
825765 -AAAATTCAAAAAATAATAT
1 AAAAATTTAAAAAA-ATTAT
*
825784 AAATATTT-AAAAAATCTAT
1 AAAAATTTAAAAAAAT-TAT
* * *
825803 AAAAATATAAAAAATTTAAA
1 AAAAATTTAAAAAAATT-AT
* *
825823 AATAAAATTCAAAAAATATAT
1 AA-AAATTTAAAAAAAT-TAT
* *
825844 AAAATTTTAAAATAAATATAA
1 AAAAATTTAAAA-AAAT-TAT
825865 AAAAATTT-AAAAAATTAT
1 AAAAATTTAAAAAAATTAT
825883 GAAATATCTA
Statistics
Matches: 162, Mismatches: 41, Indels: 41
0.66 0.17 0.17
Matches are distributed among these distances:
18 8 0.05
19 56 0.35
20 34 0.21
21 37 0.23
22 6 0.04
23 13 0.08
24 1 0.01
25 7 0.04
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAAATTTAAAAAAATTAT
Found at i:825804 original size:38 final size:38
Alignment explanation
Indices: 825746--825920 Score: 124
Period size: 41 Copynumber: 4.3 Consensus size: 38
825736 AAATATTCAA
*
825746 AAAATTATAAAAAATCTATAAAATTCAAAAAA-T-AATAT
1 AAAATT-TAAAAAATCTATAAAATT-AAAAAATTAAAAAT
825784 AAATATTTAAAAAATCTATAAAAATATAAAAAATTTAAAAAT
1 AAA-ATTTAAAAAATCTAT-AAAAT-TAAAAAA-TTAAAAAT
* * * *
825826 AAAATTCAAAAAATATATAAAATTTTAAAATAAATATAAA-
1 AAAATTTAAAAAATCTATAAAA--TTAAAA-AATTAAAAAT
* *
825866 AAAATTTAAAAAAT-TATGAAATATCTATAAAATTCAAAAAG
1 AAAATTTAAAAAATCTAT-AAA-AT-TAAAAAATT-AAAAAT
*
825907 AAAACTTATAAAAA
1 AAAATTTA-AAAAA
825921 GTTAAAAAAT
Statistics
Matches: 112, Mismatches: 10, Indels: 26
0.76 0.07 0.18
Matches are distributed among these distances:
38 15 0.13
39 21 0.19
40 29 0.26
41 32 0.29
42 15 0.13
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (38 bp):
AAAATTTAAAAAATCTATAAAATTAAAAAATTAAAAAT
Found at i:825828 original size:61 final size:62
Alignment explanation
Indices: 825763--825880 Score: 170
Period size: 61 Copynumber: 1.9 Consensus size: 62
825753 TAAAAAATCT
* *
825763 ATAAAATTCAAAAAATA-ATATAAATATTT-AAA-AAATCTATAAAAATATAAAAAATTTAAAA
1 ATAAAATTCAAAAAATATATA-AAAT-TTTAAAATAAATATAAAAAAATATAAAAAATTTAAAA
*
825824 ATAAAATTCAAAAAATATATAAAATTTTAAAATAAATATAAAAAAATTTAAAAAATT
1 ATAAAATTCAAAAAATATATAAAATTTTAAAATAAATATAAAAAAATATAAAAAATT
825881 ATGAAATATC
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
60 3 0.06
61 24 0.47
62 24 0.47
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (62 bp):
ATAAAATTCAAAAAATATATAAAATTTTAAAATAAATATAAAAAAATATAAAAAATTTAAAA
Found at i:825862 original size:21 final size:21
Alignment explanation
Indices: 825836--825876 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
825826 AAAATTCAAA
* *
825836 AAATATATAAAATTTTAAAAT
1 AAATATAAAAAAATTTAAAAT
825857 AAATATAAAAAAATTTAAAA
1 AAATATAAAAAAATTTAAAA
825877 AATTATGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATATAAAAAAATTTAAAAT
Found at i:825942 original size:23 final size:23
Alignment explanation
Indices: 825914--825959 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
825904 AAGAAAACTT
825914 ATAAAAAGTTA-AAAAATATAAA
1 ATAAAAAGTTAGAAAAATATAAA
* *
825936 ATAAAAATTTAGAAAACTATAAA
1 ATAAAAAGTTAGAAAAATATAAA
825959 A
1 A
825960 ACTTATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (23 bp):
ATAAAAAGTTAGAAAAATATAAA
Found at i:825969 original size:18 final size:17
Alignment explanation
Indices: 825746--825987 Score: 93
Period size: 18 Copynumber: 14.2 Consensus size: 17
825736 AAATATTCAA
825746 AAAATTATAAAAAATCTAT
1 AAAA-TATAAAAAAT-TAT
825765 AAAAT-TCAAAAAATAATAT
1 AAAATAT-AAAAAAT--TAT
*
825784 AAATATTTAAAAAATCTAT
1 AAA-ATATAAAAAAT-TAT
825803 AAAAATATAAAAAATT-T
1 -AAAATATAAAAAATTAT
*
825820 AAAA-AT--AAAATTCAA
1 AAAATATAAAAAATT-AT
* *
825835 AAAATATATAAAATTTT
1 AAAATATAAAAAATTAT
*
825852 AAAATA-AATATAA--A-
1 AAAATATAA-AAAATTAT
*
825866 AAAATTTAAAAAATTAT
1 AAAATATAAAAAATTAT
* * *
825883 GAAATATCTATAAAATT-C
1 -AAA-ATATAAAAAATTAT
* *
825901 AAAA-A-GAAAACTTAT
1 AAAATATAAAAAATTAT
825916 AAAA-AGTTAAAAAA-TAT
1 AAAATA--TAAAAAATTAT
* *
825933 -AAA-ATAAAAATTTAG
1 AAAATATAAAAAATTAT
*
825948 AAAACTATAAAAACTTAT
1 AAAA-TATAAAAAATTAT
*
825966 AAAATTTAAAAAATTATT
1 AAAATATAAAAAATTA-T
825984 AAAA
1 AAAA
825988 AGTTAAATAA
Statistics
Matches: 170, Mismatches: 27, Indels: 53
0.68 0.11 0.21
Matches are distributed among these distances:
13 6 0.04
14 19 0.11
15 15 0.09
16 16 0.09
17 27 0.16
18 41 0.24
19 33 0.19
20 12 0.07
21 1 0.01
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAATATAAAAAATTAT
Found at i:826022 original size:17 final size:18
Alignment explanation
Indices: 825999--826042 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
825989 GTTAAATAAA
825999 AATAAAATTGAGAAAAAT
1 AATAAAATTGAGAAAAAT
* *
826017 AA-AAAAATGATAAAAAT
1 AATAAAATTGAGAAAAAT
826034 AATAAAATT
1 AATAAAATT
826043 CGAAAGTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (18 bp):
AATAAAATTGAGAAAAAT
Found at i:826091 original size:17 final size:17
Alignment explanation
Indices: 826071--826120 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
826061 TATTTAAAAA
826071 ATAAAAAGTTAGAAATT-
1 ATAAAAA-TTAGAAATTC
826088 ATAAAAATGTAGAACATTC
1 ATAAAAAT-TAGAA-ATTC
*
826107 AAAAAAATTAGAAA
1 ATAAAAATTAGAAA
826121 AATTTTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
16 1 0.03
17 13 0.45
18 8 0.28
19 7 0.24
ACGTcount: A:0.62, C:0.04, G:0.10, T:0.24
Consensus pattern (17 bp):
ATAAAAATTAGAAATTC
Found at i:826118 original size:18 final size:16
Alignment explanation
Indices: 826073--826120 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 16
826063 TTTAAAAAAT
*
826073 AAAAAGTTAGAAATTA
1 AAAAAATTAGAAATTA
*
826089 TAAAAATGTAGAACATTCA
1 AAAAAAT-TAGAA-ATT-A
826108 AAAAAATTAGAAA
1 AAAAAATTAGAAA
826121 AATTTTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 5 0.19
17 6 0.23
18 8 0.31
19 7 0.27
ACGTcount: A:0.62, C:0.04, G:0.10, T:0.23
Consensus pattern (16 bp):
AAAAAATTAGAAATTA
Found at i:826248 original size:17 final size:17
Alignment explanation
Indices: 826228--826385 Score: 80
Period size: 17 Copynumber: 9.3 Consensus size: 17
826218 TTTTTTAGAT
826228 TTTTAATAATTTTATAA
1 TTTTAATAATTTTATAA
*
826245 TTTT--TATTTTTATAA
1 TTTTAATAATTTTATAA
* *
826260 GTTTT-TTATTTTTATACA
1 -TTTTAATAATTTTATA-A
*
826278 TTTTTATAATATTT-T-A
1 TTTTAATAAT-TTTATAA
* * *
826294 TTTTCA-AATTTCATATT
1 TTTTAATAATTTTATA-A
* *
826311 TTTTGAA-AATTTTAGATT
1 TTTT-AATAATTTTATA-A
* *
826329 TTTTATTATTTTTATAA
1 TTTTAATAATTTTATAA
826346 TTTT-ATAATTTTATAGA
1 TTTTAATAATTTTATA-A
*
826363 TTTTTTATAATTTTATAA
1 -TTTTAATAATTTTATAA
826381 TTTTA
1 TTTTA
826386 TTTTAAATTT
Statistics
Matches: 112, Mismatches: 16, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
14 2 0.02
15 14 0.12
16 19 0.17
17 32 0.29
18 31 0.28
19 14 0.12
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTTAATAATTTTATAA
Found at i:826281 original size:33 final size:32
Alignment explanation
Indices: 826185--826389 Score: 118
Period size: 33 Copynumber: 6.2 Consensus size: 32
826175 AATTTTATAC
** * *
826185 ATTTTTATA-ATTTTTGCAATTTTTTTATTTTT
1 ATTTTT-TAGATTTTTATAATTTTATAATTTTT
826217 ATTTTTTAGATTTTTAATAATTTTATAATTTTT
1 ATTTTTTAGATTTTT-ATAATTTTATAATTTTT
*
826250 ATTTTTATA-AGTTTTT-TATTTTTATACATTTTT
1 ATTTTT-TAGA-TTTTTATAATTTTATA-ATTTTT
* * *
826283 ATAATATTTT--ATTTTCA-AATTTCATATTTTTT
1 AT--T-TTTTAGATTTTTATAATTTTATAATTTTT
** *
826315 GAAAATTTTAGATTTTTTATTATTTTTATAATTTTAT
1 --ATTTTTTAGA-TTTTTA-TAATTTTATAATTTT-T
*
826352 AATTTTATAGATTTTTTATAATTTTATAA-TTTT
1 -ATTTTTTAGA-TTTTTATAATTTTATAATTTTT
826385 ATTTT
1 ATTTT
826390 AAATTTTAAA
Statistics
Matches: 137, Mismatches: 19, Indels: 34
0.72 0.10 0.18
Matches are distributed among these distances:
31 6 0.04
32 31 0.23
33 41 0.30
34 17 0.12
35 12 0.09
36 29 0.21
37 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (32 bp):
ATTTTTTAGATTTTTATAATTTTATAATTTTT
Found at i:826282 original size:11 final size:9
Alignment explanation
Indices: 826177--826384 Score: 119
Period size: 9 Copynumber: 24.3 Consensus size: 9
826167 TTTTGGCAAA
826177 TTTTATACAT
1 TTTTATA-AT
826187 TTTTATAAT
1 TTTTATAAT
**
826196 TTTTGCAAT
1 TTTTATAAT
*
826205 TTTT-TTAT
1 TTTTATAAT
826213 TTTTAT--T
1 TTTTATAAT
*
826220 TTTTA-GAT
1 TTTTATAAT
826228 TTTTAATAA-
1 TTTT-ATAAT
826237 TTTTATAA-
1 TTTTATAAT
826245 TTTT-T-AT
1 TTTTATAAT
826252 TTTTATAAGT
1 TTTTATAA-T
826262 TTTT-T-AT
1 TTTTATAAT
826269 TTTTATACAT
1 TTTTATA-AT
826279 TTTTATAAT
1 TTTTATAAT
*
826288 ATTT-T-AT
1 TTTTATAAT
*
826295 TTTCA-AA-
1 TTTTATAAT
* *
826302 TTTCATATT
1 TTTTATAAT
*
826311 TTTTGA-AAA
1 TTTT-ATAAT
* *
826320 TTTTAGATT
1 TTTTATAAT
*
826329 TTTTATTAT
1 TTTTATAAT
826338 TTTTATAA-
1 TTTTATAAT
826346 TTTTATAA-
1 TTTTATAAT
826354 TTTTATAGATT
1 TTTTATA-A-T
826365 TTTTATAA-
1 TTTTATAAT
826373 TTTTATAAT
1 TTTTATAAT
826382 TTT
1 TTT
826385 ATTTTAAATT
Statistics
Matches: 158, Mismatches: 18, Indels: 45
0.71 0.08 0.20
Matches are distributed among these distances:
6 1 0.01
7 25 0.16
8 49 0.31
9 52 0.33
10 24 0.15
11 7 0.04
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:826297 original size:16 final size:15
Alignment explanation
Indices: 826185--826284 Score: 87
Period size: 17 Copynumber: 6.1 Consensus size: 15
826175 AATTTTATAC
826185 ATTTTTATAATTTTT
1 ATTTTTATAATTTTT
*
826200 GCAATTTTT-TTATTTTT
1 ---ATTTTTATAATTTTT
826217 ATTTTT-TAGATTTTT
1 ATTTTTATA-ATTTTT
826232 AATAATTTTATAATTTTT
1 -AT--TTTTATAATTTTT
826250 ATTTTTATAAGTTTTTT
1 ATTTTTATAA--TTTTT
826267 ATTTTTATACATTTTT
1 ATTTTTATA-ATTTTT
826283 AT
1 AT
826285 AATATTTTAT
Statistics
Matches: 72, Mismatches: 2, Indels: 18
0.78 0.02 0.20
Matches are distributed among these distances:
14 7 0.10
15 14 0.19
16 9 0.12
17 23 0.32
18 17 0.24
19 2 0.03
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (15 bp):
ATTTTTATAATTTTT
Found at i:826324 original size:41 final size:41
Alignment explanation
Indices: 826227--826335 Score: 105
Period size: 41 Copynumber: 2.6 Consensus size: 41
826217 ATTTTTTAGA
* **
826227 TTTTTAATAATTTTATAATTTTTATTTTTATAAGTTTTTTAT
1 TTTTTAA-AATTTTATAATTTTTATTTTCATAAGTTTCATAT
* *
826269 TTTTATACATTTTTATAATATTTTATTTTCA-AA-TTTCATAT
1 TTTT-TAAAATTTTATAAT-TTTTATTTTCATAAGTTTCATAT
* *
826310 TTTTTGAAAATTTTAGATTTTTTATT
1 TTTTT-AAAATTTTATAATTTTTATT
826336 ATTTTTATAA
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
40 8 0.15
41 19 0.35
42 16 0.29
43 12 0.22
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (41 bp):
TTTTTAAAATTTTATAATTTTTATTTTCATAAGTTTCATAT
Found at i:826340 original size:8 final size:8
Alignment explanation
Indices: 826338--826386 Score: 71
Period size: 8 Copynumber: 5.8 Consensus size: 8
826328 TTTTTATTAT
826338 TTTTATAA
1 TTTTATAA
826346 TTTTATAA
1 TTTTATAA
826354 TTTTATAGA
1 TTTTATA-A
826363 TTTTTTATAA
1 --TTTTATAA
826373 TTTTATAA
1 TTTTATAA
826381 TTTTAT
1 TTTTAT
826387 TTTAAATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
8 29 0.76
9 1 0.03
10 1 0.03
11 7 0.18
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (8 bp):
TTTTATAA
Found at i:826348 original size:19 final size:18
Alignment explanation
Indices: 826226--826428 Score: 128
Period size: 18 Copynumber: 11.5 Consensus size: 18
826216 TATTTTTTAG
*
826226 ATTTTTAATAATTTTATA
1 ATTTTTTATAATTTTATA
826244 A-TTTTTAT--TTTTATA
1 ATTTTTTATAATTTTATA
826259 AGTTTTTTAT--TTTTATA
1 A-TTTTTTATAATTTTATA
826276 CA-TTTTTATAATATTT-T-
1 -ATTTTTTATAAT-TTTATA
* *
826293 A-TTTTCA-AATTTCAT-
1 ATTTTTTATAATTTTATA
* *
826308 ATTTTTTGAAAATTTTA-G
1 ATTTTTT-ATAATTTTATA
*
826326 ATTTTTTATTATTTTTATA
1 ATTTTTTA-TAATTTTATA
826345 A--TTTTATAATTTTATA
1 ATTTTTTATAATTTTATA
826361 GATTTTTTATAATTTTATA
1 -ATTTTTTATAATTTTATA
*
826380 ATTTTATTTTAAATTTTAAATA
1 ATTTT-TTAT-AATTTT--ATA
* *
826402 ATTTTTTATAAGTTTCTA
1 ATTTTTTATAATTTTATA
*
826420 AATTTTTAT
1 ATTTTTTAT
826429 TTTACTTTTT
Statistics
Matches: 151, Mismatches: 14, Indels: 40
0.74 0.07 0.20
Matches are distributed among these distances:
14 2 0.01
15 13 0.09
16 26 0.17
17 28 0.19
18 38 0.25
19 22 0.15
20 11 0.07
21 3 0.02
22 8 0.05
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (18 bp):
ATTTTTTATAATTTTATA
Found at i:826448 original size:42 final size:40
Alignment explanation
Indices: 826375--826467 Score: 93
Period size: 42 Copynumber: 2.2 Consensus size: 40
826365 TTTTATAATT
826375 TTATAATTTTATTTTAAATTTTAAATAATTTTTTATAAGTT
1 TTATAATTTTATTTTAAATTTTAAATAATTTTTTATAA-TT
**
826416 TCTA-AATTTTTATTTTACTTTTTTAAAT-ATTTTTTATAAATT
1 T-TATAA-TTTTATTTTA-AATTTTAAATAATTTTTTAT-AATT
826458 TT-TCAATTTT
1 TTAT-AATTTT
826468 CAATTTTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
41 8 0.18
42 26 0.59
43 10 0.23
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (40 bp):
TTATAATTTTATTTTAAATTTTAAATAATTTTTTATAATT
Found at i:826481 original size:42 final size:40
Alignment explanation
Indices: 826343--826506 Score: 115
Period size: 40 Copynumber: 4.0 Consensus size: 40
826333 ATTATTTTTA
* *
826343 TAATTTTATAATTTTATAGATTTTTTAT-AATTTTATAATTT
1 TAATTTT-TAATTTTAAATATTTTTTATAAATTTT-TAATTT
* * *
826384 T-ATTTTAAATTTTAAATAATTTTTTATAAGTTTCTAAATTT
1 TAATTTTTAATTTTAAAT-ATTTTTTATAAATTT-TTAATTT
* *
826425 TTA-TTTTACTTTTTTAAATATTTTTTATAAATTTTTCAATTT
1 TAATTTTTA--ATTTTAAATATTTTTTATAAATTTTT-AATTT
* * *
826467 TCAATTTTT-ATTTT--TTATTTTTATATAATTTTTTATTTT
1 T-AATTTTTAATTTTAAATATTTTT-TATAAATTTTTAATTT
826506 T
1 T
826507 TCTTTTTGTT
Statistics
Matches: 99, Mismatches: 14, Indels: 22
0.73 0.10 0.16
Matches are distributed among these distances:
39 20 0.20
40 24 0.24
41 20 0.20
42 22 0.22
43 9 0.09
44 4 0.04
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.66
Consensus pattern (40 bp):
TAATTTTTAATTTTAAATATTTTTTATAAATTTTTAATTT
Found at i:828191 original size:19 final size:19
Alignment explanation
Indices: 828167--828229 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
828157 AACAAGTAAC
*
828167 TGTATCCATACATAAGTGT
1 TGTATCGATACATAAGTGT
828186 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
828199 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
828218 TGTATCGATACA
1 TGTATCGATACA
828230 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
15 2 0.05
17 2 0.05
19 22 0.59
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:828204 original size:13 final size:13
Alignment explanation
Indices: 828186--828210 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
828176 ACATAAGTGT
828186 TGTATCGATACAA
1 TGTATCGATACAA
828199 TGTATCGATACA
1 TGTATCGATACA
828211 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:828210 original size:32 final size:32
Alignment explanation
Indices: 828167--828237 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
828157 AACAAGTAAC
*
828167 TGTATCCATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
828199 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
828231 TGTATCG
1 TGTATCG
828238 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:837940 original size:20 final size:20
Alignment explanation
Indices: 837912--837986 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
837902 TCATACCCTG
837912 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
837932 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
837952 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
837972 ATGTATCGATACATT
1 ATGTATCGATACATT
837987 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:837979 original size:40 final size:39
Alignment explanation
Indices: 837912--837989 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
837902 TCATACCCTG
* *
837912 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
837952 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
837990 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:838928 original size:23 final size:23
Alignment explanation
Indices: 838901--838956 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
838891 AGCCTTTGAC
838901 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
838924 CATGCA-TTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
838946 CATGCATTTTT
1 CATGCATTTTT
838957 AACATGTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 22 0.69
23 10 0.31
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.62
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:838963 original size:20 final size:21
Alignment explanation
Indices: 838909--838963 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
838899 ACCATGCATT
**
838909 TTTTTTATTATGTTTCATGCA
1 TTTTTTAACATGTTTCATGCA
**
838930 TTTTTTTATTATGTTTCATGCA
1 -TTTTTTAACATGTTTCATGCA
838952 -TTTTTAACATGT
1 TTTTTTAACATGT
838964 CCAGCATCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 10 0.32
22 21 0.68
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (21 bp):
TTTTTTAACATGTTTCATGCA
Found at i:845118 original size:14 final size:16
Alignment explanation
Indices: 845087--845133 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
845077 AAAAAAAGTC
845087 AAAA-GCAAAAGCACAA
1 AAAATGCAAAAGCA-AA
845103 AAAATG-AAAAG-AAA
1 AAAATGCAAAAGCAAA
*
845117 AAAGTGCAAAAGCAAA
1 AAAATGCAAAAGCAAA
845133 A
1 A
845134 TAAAAAAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 7 0.26
15 6 0.22
16 13 0.48
17 1 0.04
ACGTcount: A:0.70, C:0.11, G:0.15, T:0.04
Consensus pattern (16 bp):
AAAATGCAAAAGCAAA
Found at i:846527 original size:28 final size:27
Alignment explanation
Indices: 846435--847012 Score: 825
Period size: 27 Copynumber: 21.0 Consensus size: 27
846425 AGTGTGACCT
* * *
846435 CTTTAAAGCCCACAAGTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
846462 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
846489 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
846517 CTTTTAAGTCCACAACTTCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
846544 CTTTTAAAGTCCACAACTCCGTGGCATT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
846572 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
846599 CTTTTAAGTCCATAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
846627 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
846655 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
846682 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
846709 CTTTTAAGTCCATAACTCCATGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
846737 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
846765 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
846793 CTTTTTAA-TCCATAACTCCATGGCACC
1 C-TTTTAAGTCCACAACTCCGTGGCACC
846820 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
846847 CTTGTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
846874 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
846901 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
846929 CTTTTAAGTCCATAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
846956 CTTTTAAAATCCACAACTCTGTGGCACT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
846984 CTTTTAAAATCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
847012 C
1 C
847013 ATTTCAAAAC
Statistics
Matches: 507, Mismatches: 35, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
26 6 0.01
27 265 0.52
28 214 0.42
29 22 0.04
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:846629 original size:110 final size:110
Alignment explanation
Indices: 846436--847012 Score: 867
Period size: 110 Copynumber: 5.2 Consensus size: 110
846426 GTGTGACCTC
* *
846436 TTTAAAGCCCACAAGTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
* * *
846501 CAACTCCGTGGCATCCCTTTTAAGTCCACAACTTCGTGGCATCCT
66 TAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCT
**
846546 TTTAAAGTCCACAACTCCGTGGCATTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
846611 TAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCCCT
66 TAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCA-CCCT
*
846657 TTT-AAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
* *
846721 TAACTCCATGGCATCTCTTTTAAAGTCCACAACTCCGTGGCACCCT
66 TAACTCCGTGGCATCCCTTTT-AAGTCCACAACTCCGTGGCACCCT
* *
846767 TTTAAAGTCCACAACTCCGTGGCACCCTTTTTAA-TCCATAACTCCATGGCACCCTTTTAAGTCC
1 TTTAAAGTCCACAACTCCGTGGCACCC-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
846831 ACAACTCCGTGGCA-CCCTTGTAAGTCCACAACTCCGTGGCACCCT
65 ATAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCT
* * *
846876 TTT-AAGACCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCC
* * * *
846940 ATAACTCTGTGGCA-CCCTTTTAAAATCCACAACTCTGTGGCACTCT
65 ATAACTCCGTGGCATCCCTTTT-AAGTCCACAACTCCGTGGCACCCT
* *
846986 TTTAAAATCCACAACTCTGTGGCACCC
1 TTTAAAGTCCACAACTCCGTGGCACCC
847013 ATTTCAAAAC
Statistics
Matches: 428, Mismatches: 31, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
107 6 0.01
108 38 0.09
109 57 0.13
110 213 0.50
111 108 0.25
112 6 0.01
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.28
Consensus pattern (110 bp):
TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
TAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCT
Found at i:847776 original size:32 final size:32
Alignment explanation
Indices: 846995--847768 Score: 1286
Period size: 32 Copynumber: 24.2 Consensus size: 32
846985 TTTTAAAATC
* * *
846995 CACAACTCTGTGGC-ACCCATTTCAAAACCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
847026 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
847058 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
847090 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
847122 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
847154 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
847186 CACAAGTCAGTGGCAA-CCATTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCA-TTTCAAAGCCCA
*
847218 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
847250 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
847282 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
847314 CACAAGTCGGTGGCAACCCTTTTCAATGCCTA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
847346 CACAAGTCGGTGGCAACCCATTTCAAAGCCTA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
847378 CACAAGTCGGTGGCAA-CCATTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCA-TTTCAAAGCCCA
*
847410 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
847442 CACAGGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
847474 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
847506 CACAAGTCGGTGGCAACCCATTTCAAAGCTCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
847538 CACAAGTCGGTGGCAA-CCATTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCA-TTTCAAAGCCCA
847570 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
847602 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
847634 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
847666 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
847698 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* ** * *
847730 CACGAGTCGGTGGCAATTCTTTTCAAGGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
847762 CATAAGT
1 CACAAGT
847769 TAGTGGCACC
Statistics
Matches: 702, Mismatches: 34, Indels: 13
0.94 0.05 0.02
Matches are distributed among these distances:
31 21 0.03
32 674 0.96
33 7 0.01
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.18
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:848372 original size:20 final size:20
Alignment explanation
Indices: 848344--848418 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
848334 TCATACCCTG
848344 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
848364 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
848384 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
848404 ATGTATCGATACATT
1 ATGTATCGATACATT
848419 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:848411 original size:40 final size:39
Alignment explanation
Indices: 848344--848421 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
848334 TCATACCCTG
* *
848344 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
848384 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
848422 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:849360 original size:23 final size:23
Alignment explanation
Indices: 849333--849388 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
849323 AGCCTTTGAC
849333 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
849356 CATGCA-TTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
849378 CATGCATTTTT
1 CATGCATTTTT
849389 AACATGTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 22 0.69
23 10 0.31
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.62
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:849395 original size:20 final size:21
Alignment explanation
Indices: 849341--849395 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
849331 ACCATGCATT
**
849341 TTTTTTATTATGTTTCATGCA
1 TTTTTTAACATGTTTCATGCA
**
849362 TTTTTTTATTATGTTTCATGCA
1 -TTTTTTAACATGTTTCATGCA
849384 -TTTTTAACATGT
1 TTTTTTAACATGT
849396 CCAGCATCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 10 0.32
22 21 0.68
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (21 bp):
TTTTTTAACATGTTTCATGCA
Found at i:856165 original size:26 final size:24
Alignment explanation
Indices: 856132--856215 Score: 91
Period size: 24 Copynumber: 3.4 Consensus size: 24
856122 CGTCCTCTGT
856132 AAAA-AAAAAGAAAGAAAAAAAACAC
1 AAAACAAAAA-AAA-AAAAAAAACAC
*
856157 AAAACAAAAACAAAAAAAAAACA-
1 AAAACAAAAAAAAAAAAAAAACAC
*
856180 AAAACAAAAAAAACAAAAAAAAAAC
1 AAAACAAAAAAAA-AAAAAAAACAC
*
856205 TACAACAAAAA
1 -AAAACAAAAA
856216 GGGTCCGGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
23 12 0.24
24 19 0.37
25 6 0.12
26 14 0.27
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.01
Consensus pattern (24 bp):
AAAACAAAAAAAAAAAAAAAACAC
Found at i:856172 original size:23 final size:22
Alignment explanation
Indices: 856146--856215 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
856136 AAAAAGAAAG
*
856146 AAAAAAAACACAAAACAAAAAC
1 AAAAAAAAAACAAAACAAAAAC
856168 AAAAAAAAAACAAAAACAAAAA-
1 AAAAAAAAAAC-AAAACAAAAAC
* * *
856190 AAACAAAAAA-AAAACTACAAC
1 AAAAAAAAAACAAAACAAAAAC
856211 AAAAA
1 AAAAA
856216 GGGTCCGGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 8 0.20
21 4 0.10
22 19 0.46
23 10 0.24
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.01
Consensus pattern (22 bp):
AAAAAAAAAACAAAACAAAAAC
Found at i:856189 original size:37 final size:37
Alignment explanation
Indices: 856132--856204 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
856122 CGTCCTCTGT
* * *
856132 AAAAAAAAAGAAAGAAAAAAAACACAAAACAAAAACA
1 AAAAAAAAACAAAGAAAAAAAAAACAAAAAAAAAACA
856169 AAAAAAAAACAAA-AACAAAAAAAACAAAAAAAAAAC
1 AAAAAAAAACAAAGAA-AAAAAAAACAAAAAAAAAAC
856205 TACAACAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 2 0.06
37 30 0.94
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (37 bp):
AAAAAAAAACAAAGAAAAAAAAAACAAAAAAAAAACA
Found at i:856204 original size:11 final size:11
Alignment explanation
Indices: 856134--856200 Score: 73
Period size: 11 Copynumber: 5.9 Consensus size: 11
856124 TCCTCTGTAA
*
856134 AAAAAAAGAAAG
1 AAAAAAA-AAAC
*
856146 AAAAAAAACAC
1 AAAAAAAAAAC
*
856157 AAAACAAAAAC
1 AAAAAAAAAAC
856168 AAAAAAAAAAC
1 AAAAAAAAAAC
856179 AAAAACAAAAA-
1 AAAAA-AAAAAC
856190 AAACAAAAAAA
1 AAA-AAAAAAA
856201 AAACTACAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
11 34 0.71
12 14 0.29
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:856215 original size:1 final size:1
Alignment explanation
Indices: 856132--856203 Score: 63
Period size: 1 Copynumber: 72.0 Consensus size: 1
856122 CGTCCTCTGT
* * * * * * * * *
856132 AAAAAAAAAGAAAGAAAAAAAACACAAAACAAAAACAAAAAAAAAACAAAAACAAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
856197 AAAAAAA
1 AAAAAAA
856204 CTACAACAAA
Statistics
Matches: 53, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.88, C:0.10, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:856215 original size:17 final size:16
Alignment explanation
Indices: 856135--856203 Score: 72
Period size: 15 Copynumber: 4.3 Consensus size: 16
856125 CCTCTGTAAA
*
856135 AAAAAAGAAAGAAAAA-
1 AAAAAA-AAACAAAAAC
*
856151 AAACACAAAACAAAAAC
1 AAA-AAAAAACAAAAAC
856168 AAAAAAAAAACAAAAAC
1 -AAAAAAAAACAAAAAC
856185 -AAAAAAAACAAAAA-
1 AAAAAAAAACAAAAAC
856199 AAAAA
1 AAAAA
856204 CTACAACAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
15 18 0.39
16 11 0.24
17 14 0.30
18 3 0.07
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (16 bp):
AAAAAAAAACAAAAAC
Found at i:857690 original size:29 final size:29
Alignment explanation
Indices: 857648--857908 Score: 330
Period size: 29 Copynumber: 9.1 Consensus size: 29
857638 AGACATTCCT
857648 CATCTTTTCCAAAGCCCACAAGTCAGTGG
1 CATCTTTTCCAAAGCCCACAAGTCAGTGG
857677 CATCTTTTCCAAAGCCCACAAGTCAGTGG
1 CATCTTTTCCAAAGCCCACAAGTCAGTGG
* * * *
857706 CAAC-CTTCAAAAGCCCACAAGTCCGTGG
1 CATCTTTTCCAAAGCCCACAAGTCAGTGG
*
857734 CATCTTTTCCAAAGCCCATAAGTCAGTGG
1 CATCTTTTCCAAAGCCCACAAGTCAGTGG
* * * *
857763 CAACCTTT-AAAAGCCCACAAGTCCGTGG
1 CATCTTTTCCAAAGCCCACAAGTCAGTGG
*
857791 CATCTTTTCCAAAGCTCACAAGTCAGTGG
1 CATCTTTTCCAAAGCCCACAAGTCAGTGG
* * * *
857820 CAAC-CTTCAAAAGCCCACAAGTCAGTGA
1 CATCTTTTCCAAAGCCCACAAGTCAGTGG
* *
857848 CACCCTTTTTCAAAGCCCACAAGTCAGTGG
1 CA-TCTTTTCCAAAGCCCACAAGTCAGTGG
* *
857878 TATCTTTTCAAAAGCCCACAAGTCAGTGG
1 CATCTTTTCCAAAGCCCACAAGTCAGTGG
857907 CA
1 CA
857909 ACCTTCAAAA
Statistics
Matches: 194, Mismatches: 34, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
28 69 0.36
29 104 0.54
30 21 0.11
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (29 bp):
CATCTTTTCCAAAGCCCACAAGTCAGTGG
Found at i:857936 original size:27 final size:30
Alignment explanation
Indices: 857906--857964 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
857896 CAAGTCAGTG
857906 GCAA-CCT-TCAAAAG-CACACAAATTGGT
1 GCAACCCTATCAAAAGCCACACAAATTGGT
*
857933 GCAACCCTATCAAAAGCCCACACAAGTTGGT
1 GCAACCCTATCAAAAG-CCACACAAATTGGT
857964 G
1 G
857965 GCATCTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 4 0.15
28 3 0.11
29 7 0.26
31 13 0.48
ACGTcount: A:0.37, C:0.29, G:0.17, T:0.17
Consensus pattern (30 bp):
GCAACCCTATCAAAAGCCACACAAATTGGT
Found at i:857937 original size:114 final size:115
Alignment explanation
Indices: 857648--857954 Score: 404
Period size: 114 Copynumber: 2.7 Consensus size: 115
857638 AGACATTCCT
* *
857648 CATCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTT
1 CATCTTTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCACACAAGTCAGTGGCAACCTT
* * * *
857713 CAAAAGCCCACAAGTCCGTGGCATCTTTTCCAAAGCCCATAAGTCAGTGG
66 CAAAAGCCCACAAGTCAGTGACACCTTTTCCAAAGCCCACAAGTCAGTGG
* * * *
857763 CAACCTTT-AAAAGCCCACAAGTCCGTGGCATCTTTTCCAAAGCTCACAAGTCAGTGGCAACCTT
1 CATCTTTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCACACAAGTCAGTGGCAACCTT
*
857827 CAAAAGCCCACAAGTCAGTGACACCCTTTTTCAAAGCCCACAAGTCAGTGG
66 CAAAAGCCCACAAGTCAGTGACA-CCTTTTCCAAAGCCCACAAGTCAGTGG
* * * * * **
857878 TATCTTTTCAAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCACACAAATTGGT-GCAACCCT
1 CATCTTTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCACACAAGTCAGTGGCAA-CCT
857941 ATCAAAAGCCCACA
65 -TCAAAAGCCCACA
857955 CAAGTTGGTG
Statistics
Matches: 167, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
114 78 0.47
115 54 0.32
116 35 0.21
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (115 bp):
CATCTTTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCACACAAGTCAGTGGCAACCTT
CAAAAGCCCACAAGTCAGTGACACCTTTTCCAAAGCCCACAAGTCAGTGG
Found at i:857940 original size:87 final size:87
Alignment explanation
Indices: 857658--857940 Score: 319
Period size: 87 Copynumber: 3.3 Consensus size: 87
857648 CATCTTTTCC
* * * *
857658 AAAGCCCACAAGTCAGTGGC-A-TCTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGC
1 AAAGCCCACAAGTCAGT-GCAACCCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGC
* * * *
857720 CCACAAGTCCGTGGCATCTTTTCC
65 CCACAAGTCAGTGGCAAC-CTTCA
* * * *
857744 AAAGCCCATAAGTCAGTGGCAA-CC--TTTAAAAGCCCACAAGTCCGTGGCATCTTTTCCAAAGC
1 AAAGCCCACAAGTCAGT-GCAACCCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGC
*
857806 TCACAAGTCAGTGGCAACCTTCA
65 CCACAAGTCAGTGGCAACCTTCA
*
857829 AAAGCCCACAAGTCAGTG-ACACCCTTTTTCAAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGC
1 AAAGCCCACAAGTCAGTGCA-ACCCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGC
857893 CCACAAGTCAGTGGCAACCTTCA
65 CCACAAGTCAGTGGCAACCTTCA
* * **
857916 AAAGCACACAAATTGGTGCAACCCT
1 AAAGCCCACAAGTCAGTGCAACCCT
857941 ATCAAAAGCC
Statistics
Matches: 167, Mismatches: 23, Indels: 13
0.82 0.11 0.06
Matches are distributed among these distances:
83 1 0.01
84 2 0.01
85 44 0.26
86 42 0.25
87 77 0.46
88 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (87 bp):
AAAGCCCACAAGTCAGTGCAACCCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCC
CACAAGTCAGTGGCAACCTTCA
Found at i:857947 original size:29 final size:28
Alignment explanation
Indices: 857884--857964 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 28
857874 GTGGTATCTT
* **
857884 TTCAAAAGCC-CACAAGTCAGTGGCAACC
1 TTCAAAAGCCACACAAATTGGT-GCAACC
857912 TTCAAAAG-CACACAAATTGGTGCAACCC
1 TTCAAAAGCCACACAAATTGGTGCAA-CC
*
857940 TATCAAAAGCCCACACAAGTTGGTG
1 T-TCAAAAG-CCACACAAATTGGTG
857965 GCATCTTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
27 5 0.11
28 19 0.43
29 7 0.16
31 13 0.30
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.17
Consensus pattern (28 bp):
TTCAAAAGCCACACAAATTGGTGCAACC
Found at i:857954 original size:57 final size:57
Alignment explanation
Indices: 857658--857908 Score: 385
Period size: 57 Copynumber: 4.4 Consensus size: 57
857648 CATCTTTTCC
857658 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
857715 AAAGCCCACAAGTCCGTGGCATCTTTTCCAAAGCCCATAAGTCAGTGGCAACCTTTA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* *
857772 AAAGCCCACAAGTCCGTGGCATCTTTTCCAAAGCTCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * * * *
857829 AAAGCCCACAAGTCAGTGACACCCTTTTTCAAAGCCCACAAGTCAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCA
857888 AAAGCCCACAAGTCAGTGGCA
1 AAAGCCCACAAGTCAGTGGCA
857909 ACCTTCAAAA
Statistics
Matches: 177, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
57 127 0.72
58 26 0.15
59 24 0.14
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (57 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:858129 original size:49 final size:47
Alignment explanation
Indices: 857971--858384 Score: 318
Period size: 49 Copynumber: 8.9 Consensus size: 47
857961 GGTGGCATCT
* * *
857971 TCTTCTAAGTCCAATATTGCTGGCCTTGAATTAGCATATTGG----CA
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGACTTCA
* * *
858015 CCTTTAAAT-CAATATCGCTGGCCTTGAATCAGCATATTGG----CA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGACTTCA
* * * *
858057 CCTTTAA-ACCAATGTCGCTGGCCTTGAATCAGCAGATTGGTATCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGG-A-CTTCA
*
858105 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGTACATTGGCATCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGG-A-CTTCA
* * * *
858154 TCTTTAAGTCTAATATCGCTAGCCTTGAATCAGCATATTGG-C-ACA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGACTTCA
* * *
858199 --TTTAAGTCCAATGTCGCCGACCTTGAATCAGCACATTGGTATCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGG-A-CTTCA
* * * *
858246 TCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGG-A-CTTCA
* * * ** *
858295 ACATTCCTAAGCCCAATGTCGCTGGCCTTGTCTCAGCACATTGG-CATTCT
1 TC-TT--TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGAC-TTCA
* * * *
858345 TCTTCAAGTCTAATGTCGCTGGCCATGAATCAGCACATTG
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
858385 TCATTCTTCG
Statistics
Matches: 302, Mismatches: 50, Indels: 33
0.78 0.13 0.09
Matches are distributed among these distances:
42 67 0.22
43 37 0.12
44 3 0.01
45 2 0.01
46 2 0.01
47 32 0.11
48 8 0.03
49 116 0.38
50 5 0.02
52 30 0.10
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (47 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGACTTCA
Found at i:858246 original size:141 final size:137
Alignment explanation
Indices: 857971--858292 Score: 454
Period size: 141 Copynumber: 2.3 Consensus size: 137
857961 GGTGGCATCT
* *
857971 TCTTCTAAGTCCAATATTGCTGGCCTTGAATTAGCATATTGGCA----CCTTTAAATCAATATCG
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCCTTTAAATCAATATCG
* * * * *
858032 CTGGCCTTGAATCAGCATATTGGCACCTTTAAACCAATGTCGCTGGCCTTGAATCAGCAGATTGG
65 CTAGCCTTGAATCAGCATATTGGCACATTTAAACCAATGTCGCCGACCTTGAATCAGCACATTGG
858097 TATCTTCA
130 TATCTTCA
* * *
858105 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGTACATTGGCATCTTCATCTTTAAGTCTAATAT
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC--CTTTAAATC-AATAT
*
858170 CGCTAGCCTTGAATCAGCATATTGGCACATTTAAGTCCAATGTCGCCGACCTTGAATCAGCACAT
63 CGCTAGCCTTGAATCAGCATATTGGCACATTTAA-ACCAATGTCGCCGACCTTGAATCAGCACAT
858235 TGGTATCTTCA
127 TGGTATCTTCA
* *
858246 TCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCATCTT
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
858293 TAACATTCCT
Statistics
Matches: 165, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
133 35 0.21
134 4 0.02
137 1 0.01
139 8 0.05
140 37 0.22
141 80 0.48
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.34
Consensus pattern (137 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCCTTTAAATCAATATCGC
TAGCCTTGAATCAGCATATTGGCACATTTAAACCAATGTCGCCGACCTTGAATCAGCACATTGGT
ATCTTCA
Found at i:858295 original size:92 final size:91
Alignment explanation
Indices: 857971--858295 Score: 351
Period size: 92 Copynumber: 3.5 Consensus size: 91
857961 GGTGGCATCT
* * * *
857971 TCTTCTAAGTCCAATATTGCTGGCCTTGAATTAGCATATTGGCACCTTTAAAT-CAATATCGCTG
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTAAGTCCAATATCGCTG
*
858035 GCCTTGAATCAGCATATTGG-----CA
65 GCCTTGAATCAGCACATTGGATCTTCA
* * * *
858057 CCTTTAA-ACCAATGTCGCTGGCCTTGAATCAGCAGATTGGTATCTTCATCTTTAAGTCCAATAT
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG------CATCTTTAAGTCCAATAT
*
858121 CGCTGGCCTTGAATCAGTACATTGGCATCTTCA
60 CGCTGGCCTTGAATCAGCACATTGG-ATCTTCA
* * * *
858154 TCTTTAAGTCTAATATCGCTAGCCTTGAATCAGCATATTGGCA-CATTTAAGTCCAATGTCGCCG
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATC-TTTAAGTCCAATATCGCTG
*
858218 ACCTTGAATCAGCACATTGGTATCTTCA
65 GCCTTGAATCAGCACATTGG-ATCTTCA
* *
858246 TCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTAA
858296 CATTCCTAAG
Statistics
Matches: 198, Mismatches: 25, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
84 28 0.14
85 3 0.02
86 3 0.02
90 9 0.05
91 30 0.15
92 88 0.44
93 1 0.01
97 8 0.04
98 28 0.14
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (91 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTAAGTCCAATATCGCTGG
CCTTGAATCAGCACATTGGATCTTCA
Found at i:862560 original size:19 final size:19
Alignment explanation
Indices: 862536--862591 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
862526 TGTAACAATA
862536 CATTGTATCGATACATGCT
1 CATTGTATCGATACATGCT
*
862555 CATTGTATCGATACATACT
1 CATTGTATCGATACATGCT
*
862574 CAATTGTATCAATACATG
1 C-ATTGTATCGATACATG
862592 AAACTAACAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:864087 original size:372 final size:370
Alignment explanation
Indices: 863404--864145 Score: 1358
Period size: 372 Copynumber: 2.0 Consensus size: 370
863394 ATGTCCTTAA
863404 CGGATTAACACCCAGGAGAAAAGATCTTTTTAGTTCAAATGGAAAACTTGGTGATTCAAGCTTCT
1 CGGATTAACACCCAGGAGAAAAGATCTTTTTAGTTCAAATGGAAAACTTGGTGATTCAAGCTTCT
863469 CAACAAATGCTGAACCAAGAAGAGATGTGTTATGGCATTAGAGAATAATTCAAATGCCATTGGAC
66 CAACAAATGCTGAACCAAGAAGAGATGTGTTATGGCATTAGAGAATAATTCAAATGCCATTGGAC
*
863534 TCGAAGGTCACTCGACTATGAGACCTCTATACTTCAACGGTGACAACTACTCATATTGGAGAACA
131 TCAAAGGTCACTCGACTATGAGACCTCTATACTTCAACGGTGACAACTACTCATATTGGAGAACA
*
863599 AAGATAAAGTCGTTTATTCAAGCTAATGACTACGAAGTGTGGAAGATCATTGTTAAAGGACCACA
196 AAGATAAAGTCATTTATTCAAGCTAATGACTACGAAGTGTGGAAGATCATTGTTAAAGGACCACA
* * *
863664 AGTTCCAACGAAGAGGGAAGATGACGTTGTCATTCCAAAGGAGAAAGATGAGTGGGATGAATTAG
261 AGTTCCAACGAAGAGGGAAGATGACGTTGTCATTCCAAAAGAGAAAGATGAGTAGGATGAATAAG
*
863729 ATACAAAAATGGCATAACTTAATGCCAAAGCAATGCACACATTAT
326 ACACAAAAATGGCATAACTTAATGCCAAAGCAATGCACACATTAT
863774 CGGATTAACACCCAGGAGAAAAGATCTTTTTAGTTCAAATGGAAAACTTGGTGATTCAAGCTTCT
1 CGGATTAACACCCAGGAGAAAAGATCTTTTTAGTTCAAATGGAAAACTTGGTGATTCAAGCTTCT
* *
863839 CAACAAATGCTGAACCAAGAAGAGGTGTGTCTTATGGCATTGGAGAATAATTCAAATGCCATTGG
66 CAACAAATGCTGAACCAAGAAGAGATGTG--TTATGGCATTAGAGAATAATTCAAATGCCATTGG
*
863904 ACTCAAAGGTCACTCGACTATGAGATCTCTATACTTCAACGGTGACAACTACTCATATTGGAGAA
129 ACTCAAAGGTCACTCGACTATGAGACCTCTATACTTCAACGGTGACAACTACTCATATTGGAGAA
* *
863969 CAAAGATAAAGTTATTTATTCAAGCTAATGACTATGAAGTGTGGAAGATCATTGTTAAAGGACCA
194 CAAAGATAAAGTCATTTATTCAAGCTAATGACTACGAAGTGTGGAAGATCATTGTTAAAGGACCA
*
864034 CATGTTCCAACGAAGAGGGAAGATGACGTTGTCATTCCAAAAGAGAAAGATGAGTAGGATGAATA
259 CAAGTTCCAACGAAGAGGGAAGATGACGTTGTCATTCCAAAAGAGAAAGATGAGTAGGATGAATA
864099 AGACACAAAAATGGCATAACTTAATGCCAAAGCAATGCACACATTAT
324 AGACACAAAAATGGCATAACTTAATGCCAAAGCAATGCACACATTAT
864146 TTTGTGCTCT
Statistics
Matches: 358, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
370 93 0.26
372 265 0.74
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (370 bp):
CGGATTAACACCCAGGAGAAAAGATCTTTTTAGTTCAAATGGAAAACTTGGTGATTCAAGCTTCT
CAACAAATGCTGAACCAAGAAGAGATGTGTTATGGCATTAGAGAATAATTCAAATGCCATTGGAC
TCAAAGGTCACTCGACTATGAGACCTCTATACTTCAACGGTGACAACTACTCATATTGGAGAACA
AAGATAAAGTCATTTATTCAAGCTAATGACTACGAAGTGTGGAAGATCATTGTTAAAGGACCACA
AGTTCCAACGAAGAGGGAAGATGACGTTGTCATTCCAAAAGAGAAAGATGAGTAGGATGAATAAG
ACACAAAAATGGCATAACTTAATGCCAAAGCAATGCACACATTAT
Found at i:869443 original size:14 final size:14
Alignment explanation
Indices: 869417--869482 Score: 53
Period size: 14 Copynumber: 4.4 Consensus size: 14
869407 GATTTAATAA
869417 AAATA-AAATTTTTT
1 AAATATAAA-TTTTT
869431 AAATATAAATTTTT
1 AAATATAAATTTTT
* *
869445 ATCATTAAAAAAATTTTT
1 A--A--ATATAAATTTTT
869463 AAATATAAATTTTT
1 AAATATAAATTTTT
*
869477 ATATAT
1 AAATAT
869483 TTATTATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
14 26 0.62
15 3 0.07
16 2 0.05
18 11 0.26
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATATAAATTTTT
Found at i:870109 original size:13 final size:13
Alignment explanation
Indices: 870093--870141 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
870083 AGGGATACAA
870093 GAGAGGGATGCTT
1 GAGAGGGATGCTT
** *
870106 GAGAGAAATGCTA
1 GAGAGGGATGCTT
*
870119 AAGAGGGATGCTT
1 GAGAGGGATGCTT
870132 GAGAGGGATG
1 GAGAGGGATG
870142 AGGGAGCCTC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.33, C:0.06, G:0.43, T:0.18
Consensus pattern (13 bp):
GAGAGGGATGCTT
Found at i:870110 original size:26 final size:26
Alignment explanation
Indices: 870081--870140 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
870071 AAAGAATTGA
870081 AGAGGGATAC-AAGAGAGGGATGCTTG
1 AGAGGGATACTAA-AGAGGGATGCTTG
** *
870107 AGAGAAATGCTAAAGAGGGATGCTTG
1 AGAGGGATACTAAAGAGGGATGCTTG
870133 AGAGGGAT
1 AGAGGGAT
870141 GAGGGAGCCT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.37, C:0.07, G:0.40, T:0.17
Consensus pattern (26 bp):
AGAGGGATACTAAAGAGGGATGCTTG
Found at i:870221 original size:24 final size:24
Alignment explanation
Indices: 870193--870238 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
870183 AATAAAAATT
870193 AGCCACCAA-TTTTGACAAACAATA
1 AGCCA-CAATTTTTGACAAACAATA
* *
870217 AGCCATAATTTTTTACAAACAA
1 AGCCACAATTTTTGACAAACAA
870239 AAAGGAACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.26
Consensus pattern (24 bp):
AGCCACAATTTTTGACAAACAATA
Found at i:870269 original size:27 final size:27
Alignment explanation
Indices: 870219--870297 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
870209 AAACAATAAG
* * *
870219 CCATAATTTTTTACAAACAAAAAGGAA
1 CCATTATTTTTGACAAACACAAAGGAA
* * *
870246 CCATTATTTTTGACAAATACAAAGTAG
1 CCATTATTTTTGACAAACACAAAGGAA
* *
870273 CCACTATTGTTGACAAACACAAAGG
1 CCATTATTTTTGACAAACACAAAGG
870298 GTGGCTTTTG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (27 bp):
CCATTATTTTTGACAAACACAAAGGAA
Found at i:874701 original size:13 final size:13
Alignment explanation
Indices: 874685--874720 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
874675 AGGGATATAA
874685 GAGAGGGATGCTT
1 GAGAGGGATGCTT
*
874698 GAGAGAGATGCTT
1 GAGAGGGATGCTT
*
874711 AAGAGGGATG
1 GAGAGGGATG
874721 AGAGAGCCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.06, G:0.44, T:0.19
Consensus pattern (13 bp):
GAGAGGGATGCTT
Found at i:874847 original size:27 final size:26
Alignment explanation
Indices: 874798--874874 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 26
874788 AAAAAATAAG
*
874798 CCATAATTTTTGACAAAAAAAAGGAA
1 CCATAATTTTTGACAAAACAAAGGAA
* *
874824 CCATTATTTTTGACAAATACAAAGTAA
1 CCATAATTTTTGACAAA-ACAAAGGAA
** *
874851 CCACCATTGTTGACAAACACAAAG
1 CCATAATTTTTGACAAA-ACAAAG
874875 AGTGGCTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 16 0.37
27 27 0.63
ACGTcount: A:0.47, C:0.18, G:0.10, T:0.25
Consensus pattern (26 bp):
CCATAATTTTTGACAAAACAAAGGAA
Found at i:875024 original size:30 final size:30
Alignment explanation
Indices: 874961--875031 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
874951 TTTTTAATTT
874961 TAAA-TTTTAAATTTATAATTTATACTTAAA
1 TAAATTTTTAAATTTATAATTTATAC-TAAA
*
874991 TAAATTTTTAAATTTA-AACTTGTATA-TACA
1 TAAATTTTTAAATTTATAA-TT-TATACTAAA
875021 TAAATTTTTAA
1 TAAATTTTTAA
875032 CTTAAATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
30 20 0.54
31 13 0.35
32 4 0.11
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.49
Consensus pattern (30 bp):
TAAATTTTTAAATTTATAATTTATACTAAA
Found at i:875269 original size:5 final size:6
Alignment explanation
Indices: 875252--875276 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
875242 TAATCCCACG
875252 AGAAAA AGAAAA AGAAAA AGAAAA A
1 AGAAAA AGAAAA AGAAAA AGAAAA A
875277 CTGGAAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:877920 original size:19 final size:21
Alignment explanation
Indices: 877898--877944 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
877888 TAAGTGAATT
877898 AAATATCA-A-CTTACTTTAA
1 AAATATCACATCTTACTTTAA
877917 AAAT-TCACATCTTACTTTAA
1 AAATATCACATCTTACTTTAA
877937 AAA-ATCAC
1 AAATATCAC
877945 GTAAATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.12
19 5 0.20
20 17 0.68
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATATCACATCTTACTTTAA
Found at i:877932 original size:20 final size:20
Alignment explanation
Indices: 877907--877944 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
877897 TAAATATCAA
*
877907 CTTACTTTAAAAATTCACAT
1 CTTACTTTAAAAAATCACAT
877927 CTTACTTTAAAAAATCAC
1 CTTACTTTAAAAAATCAC
877945 GTAAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.37
Consensus pattern (20 bp):
CTTACTTTAAAAAATCACAT
Found at i:878348 original size:14 final size:15
Alignment explanation
Indices: 878329--878357 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
878319 CTTCATTAGT
878329 TTTTATTAT-TTTTA
1 TTTTATTATATTTTA
878343 TTTTATTATATTTTA
1 TTTTATTATATTTTA
878358 ATATTTGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTATTATATTTTA
Found at i:878471 original size:27 final size:28
Alignment explanation
Indices: 878413--878471 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
878403 TAGTCATAAC
878413 AAATTCCTAAGTATATAATAAAAATGCT
1 AAATTCCTAAGTATATAATAAAAATGCT
* *
878441 AAATTCAC-AAGTATATGAT-AAAATGTT
1 AAATTC-CTAAGTATATAATAAAAATGCT
878468 AAAT
1 AAAT
878472 GTAATGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 11 0.39
28 16 0.57
29 1 0.04
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.32
Consensus pattern (28 bp):
AAATTCCTAAGTATATAATAAAAATGCT
Found at i:880246 original size:18 final size:19
Alignment explanation
Indices: 880225--880272 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
880215 ATTAACGTAT
*
880225 TAAAATTTA-TATAATATA
1 TAAAATATAGTATAATATA
880243 TAAAATATAGTTATAATATA
1 TAAAATATAG-TATAATATA
*
880263 AAATAATATA
1 TAA-AATATA
880273 AATATGATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.32
20 11 0.44
21 6 0.24
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
TAAAATATAGTATAATATA
Found at i:880284 original size:11 final size:11
Alignment explanation
Indices: 880233--880287 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
880223 ATTAAAATTT
880233 ATATAATAT--
1 ATATAATATAA
* *
880242 ATAAAATATAG
1 ATATAATATAA
*
880253 TTATAATATAA
1 ATATAATATAA
880264 A-ATAATATAA
1 ATATAATATAA
*
880274 ATATGATATAA
1 ATATAATATAA
880285 ATA
1 ATA
880288 ATTAATTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
9 8 0.22
10 10 0.27
11 19 0.51
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (11 bp):
ATATAATATAA
Found at i:880287 original size:27 final size:27
Alignment explanation
Indices: 880232--880288 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
880222 TATTAAAATT
* *
880232 TATATAATATATAAAATATAGTTATAA
1 TATAAAATATATAAAATATAGATATAA
880259 TATAAAATA-ATATAAATAT-GATATAA
1 TATAAAATATATA-AAATATAGATATAA
880285 -ATAA
1 TATAA
880289 TTAATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 4 0.15
26 9 0.33
27 14 0.52
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (27 bp):
TATAAAATATATAAAATATAGATATAA
Found at i:886514 original size:13 final size:13
Alignment explanation
Indices: 886496--886523 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
886486 ATACAAAGAT
886496 CAATGTATCGATA
1 CAATGTATCGATA
886509 CAATGTATCGATA
1 CAATGTATCGATA
886522 CA
1 CA
886524 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:886603 original size:33 final size:33
Alignment explanation
Indices: 886566--886630 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
886556 TAGCTTAAAA
886566 TGTATCGATACAAAAAAATATGTATCGATACAT
1 TGTATCGATACAAAAAAATATGTATCGATACAT
* ***
886599 TGTATCGATACAACATTTTATGTATCGATACA
1 TGTATCGATACAAAAAAATATGTATCGATACA
886631 AATTGTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAAAAAAATATGTATCGATACAT
Found at i:886604 original size:13 final size:13
Alignment explanation
Indices: 886586--886610 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
886576 CAAAAAAATA
886586 TGTATCGATACAT
1 TGTATCGATACAT
886599 TGTATCGATACA
1 TGTATCGATACA
886611 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:887622 original size:16 final size:16
Alignment explanation
Indices: 887601--887643 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
887591 AAAAAAATCA
*
887601 ATAAAAAATATAATAT
1 ATAAAATATATAATAT
*
887617 ATAAAATATAAAATAT
1 ATAAAATATATAATAT
887633 ATAAAATATAT
1 ATAAAATATAT
887644 GCATAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAAATATATAATAT
Found at i:887642 original size:7 final size:7
Alignment explanation
Indices: 887600--887633 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
887590 TAAAAAAATC
*
887600 AATAAAA
1 AATATAA
887607 AATATAA
1 AATATAA
*
887614 TATATAA
1 AATATAA
887621 AATATAA
1 AATATAA
887628 AATATA
1 AATATA
887634 TAAAATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATATAA
Found at i:887803 original size:4 final size:4
Alignment explanation
Indices: 887794--887832 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
887784 TTAGGTGGCA
*
887794 ATGC ATGC ATGC ATGC ATGC ATGC ATGC ATTC ATGC ATG
1 ATGC ATGC ATGC ATGC ATGC ATGC ATGC ATGC ATGC ATG
887833 AAATTGGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (4 bp):
ATGC
Found at i:889390 original size:22 final size:21
Alignment explanation
Indices: 889344--889390 Score: 51
Period size: 22 Copynumber: 2.1 Consensus size: 21
889334 CGGAGTGAAT
*
889344 TTTAGTGTGTTTTCAATTTTGA
1 TTTAGTGTGTTTT-AATTTTAA
889366 TTTAGATGTGTTTT-ATGTTTAA
1 TTTAG-TGTGTTTTAAT-TTTAA
889388 TTT
1 TTT
889391 TGTGGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 2 0.09
22 12 0.55
23 8 0.36
ACGTcount: A:0.19, C:0.02, G:0.17, T:0.62
Consensus pattern (21 bp):
TTTAGTGTGTTTTAATTTTAA
Found at i:898368 original size:21 final size:20
Alignment explanation
Indices: 898331--898369 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
898321 GTTTCGTGCT
*
898331 TGTTCTTGCTTGGTGTTTGA
1 TGTTCTTGCTTCGTGTTTGA
*
898351 TGTTGCTTGCTTCTTGTTT
1 TGTT-CTTGCTTCGTGTTT
898370 TTCTTTCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.03, C:0.13, G:0.26, T:0.59
Consensus pattern (20 bp):
TGTTCTTGCTTCGTGTTTGA
Found at i:898860 original size:53 final size:53
Alignment explanation
Indices: 898750--898861 Score: 120
Period size: 53 Copynumber: 2.1 Consensus size: 53
898740 CTTGTTTTGC
* * **
898750 TTTTGCAGCTCCATGCTACTTCCACGTGCTCTTGGTGCTCATCTTCTTTCATG
1 TTTTGCAGCTCCATGCTACTTCCACGCGCTCTTGCTGCTCATCTTCTTTCACA
* * * *
898803 TTTTGCAGCTCCATGCTGCTT-CTCGCGCTGTTGCTGCAT-ATTTTTCTTTCACA
1 TTTTGCAGCTCCATGCTACTTCCACGCGCTCTTGCTGC-TCA-TCTTCTTTCACA
898856 TTTTGC
1 TTTTGC
898862 TTTTGCAACT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
52 13 0.27
53 36 0.73
ACGTcount: A:0.11, C:0.29, G:0.17, T:0.44
Consensus pattern (53 bp):
TTTTGCAGCTCCATGCTACTTCCACGCGCTCTTGCTGCTCATCTTCTTTCACA
Found at i:899268 original size:7 final size:7
Alignment explanation
Indices: 899245--899284 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
899235 TGCATATATT
899245 TTTTATA
1 TTTTATA
*
899252 TTTTCTTA
1 TTTT-ATA
899260 TTTTATA
1 TTTTATA
899267 TTTTATA
1 TTTTATA
899274 TTTTATA
1 TTTTATA
899281 TTTT
1 TTTT
899285 TTGATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 24 0.80
8 6 0.20
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTATA
Found at i:899285 original size:15 final size:14
Alignment explanation
Indices: 899245--899316 Score: 76
Period size: 15 Copynumber: 5.0 Consensus size: 14
899235 TGCATATATT
899245 TTTTATATTTTCTTA
1 TTTTATATTTT-TTA
*
899260 TTTTATATTTTATA
1 TTTTATATTTTTTA
899274 TTTTATATTTTTTGA
1 TTTTATATTTTTT-A
*
899289 TTTT-T-TTTTTCA
1 TTTTATATTTTTTA
899301 TTTTATTATTATTTTA
1 TTTTA-TATT-TTTTA
899317 AGTTTATATA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
12 5 0.10
13 5 0.10
14 16 0.33
15 18 0.38
16 4 0.08
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (14 bp):
TTTTATATTTTTTA
Found at i:899291 original size:22 final size:22
Alignment explanation
Indices: 899245--899316 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
899235 TGCATATATT
*
899245 TTTTATATTTTCTTATTTTATA
1 TTTTATATTTTCATATTTTATA
*
899267 TTTTATATTTT-ATATTTTTTGA
1 TTTTATATTTTCATATTTTAT-A
* *
899289 TTTT-TTTTTTCATTTTATTATTA
1 TTTTATATTTTCATATT-TTA-TA
899312 TTTTA
1 TTTTA
899317 AGTTTATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
21 12 0.30
22 20 0.50
23 7 0.17
24 1 0.03
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (22 bp):
TTTTATATTTTCATATTTTATA
Found at i:899291 original size:29 final size:28
Alignment explanation
Indices: 899245--899325 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 28
899235 TGCATATATT
899245 TTTTATATTTTCTTATTTTATATTTTAT-A
1 TTTTATATTTT-TTATTTTATATTTT-TCA
899274 TTTTATATTTTTTGATTTT-T-TTTTTCA
1 TTTTATATTTTTT-ATTTTATATTTTTCA
*
899301 TTTTATTATTATTTTAAGTTTATAT
1 TTTTA-TATT-TTTT-ATTTTATAT
899326 AAAAAAATCG
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
26 1 0.02
27 10 0.23
28 7 0.16
29 24 0.55
30 1 0.02
31 1 0.02
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (28 bp):
TTTTATATTTTTTATTTTATATTTTTCA
Found at i:899314 original size:38 final size:38
Alignment explanation
Indices: 899239--899316 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 38
899229 TTTTTATGCA
*
899239 TATATTTTTTATATTTTCTTATTTTATATTTTATATTT
1 TATATTTTTTATATTTTCTTATTTCATATTTTATATTT
*
899277 TATATTTTTTGAT-TTTT-TT-TTTCATTTTATTATTATTT
1 TATATTTTTT-ATATTTTCTTATTTCATATT-TTA-TATTT
899315 TA
1 TA
899317 AGTTTATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
36 7 0.20
37 5 0.14
38 21 0.60
39 2 0.06
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (38 bp):
TATATTTTTTATATTTTCTTATTTCATATTTTATATTT
Found at i:901813 original size:2 final size:2
Alignment explanation
Indices: 901801--901833 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
901791 ATCTTCAAAC
*
901801 AT AT A- AT AT AT AT AT TT 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 AT
901834 TCCTATTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Done.