Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 324 of 328
Found at i:95949750 original size:31 final size:31
Alignment explanation
Indices: 95949714--95949786 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
95949704 ATTTAACAGA
*
95949714 GAGTGATTAAAATAGAAATAATCTAAAACGT
1 GAGTGACTAAAATAGAAATAATCTAAAACGT
* *
95949745 GAGTGACTGAAATAGAAATGATCTAAAACGT
1 GAGTGACTAAAATAGAAATAATCTAAAACGT
* *
95949776 TAGTGGCTAAA
1 GAGTGACTAAA
95949787 TTGACGACAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.47, C:0.08, G:0.21, T:0.25
Consensus pattern (31 bp):
GAGTGACTAAAATAGAAATAATCTAAAACGT
Found at i:95950042 original size:2 final size:2
Alignment explanation
Indices: 95950035--95950070 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
95950025 TAACTTAAGC
95950035 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95950071 CCAATTCTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95963390 original size:4 final size:4
Alignment explanation
Indices: 95963381--95963465 Score: 80
Period size: 4 Copynumber: 20.8 Consensus size: 4
95963371 CCCTTTTCTT
** * * *
95963381 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TCAC GTTTGC TCTC TGTA
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC TTTC
** *
95963431 ACTC TTTC TATC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
95963466 TTAACTTACT
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
4 61 0.94
5 3 0.05
6 1 0.02
ACGTcount: A:0.05, C:0.26, G:0.04, T:0.66
Consensus pattern (4 bp):
TTTC
Found at i:95964899 original size:13 final size:13
Alignment explanation
Indices: 95964881--95964907 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
95964871 TATTAAATGA
95964881 ATCTTAAGTTATT
1 ATCTTAAGTTATT
95964894 ATCTTAAGTTATT
1 ATCTTAAGTTATT
95964907 A
1 A
95964908 CTAGTGAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (13 bp):
ATCTTAAGTTATT
Found at i:95965797 original size:17 final size:18
Alignment explanation
Indices: 95965777--95965813 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
95965767 AAAAAATTTT
95965777 AAAG-TTATGAAAATA-AA
1 AAAGATTAT-AAAATAGAA
95965794 AAAGATTATAAAATAGAA
1 AAAGATTATAAAATAGAA
95965812 AA
1 AA
95965814 TTAAGAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.22
Consensus pattern (18 bp):
AAAGATTATAAAATAGAA
Found at i:95977420 original size:2 final size:2
Alignment explanation
Indices: 95977413--95977444 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
95977403 AGAAAACTAA
95977413 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95977445 GAGAAAGGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95983417 original size:16 final size:16
Alignment explanation
Indices: 95983395--95983433 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
95983385 TTACTTATTA
95983395 ATTATAAACTCATT-T
1 ATTATAAACTCATTCT
*
95983410 AGTTATAAAGTCATTCT
1 A-TTATAAACTCATTCT
95983427 ATTATAA
1 ATTATAA
95983434 TATCGTGACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 18 0.86
17 2 0.10
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (16 bp):
ATTATAAACTCATTCT
Found at i:95984539 original size:22 final size:23
Alignment explanation
Indices: 95984501--95984544 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
95984491 AGTTCCATTC
95984501 TAACCAAACCAAGTTT-GTTTCT
1 TAACCAAACCAAGTTTGGTTTCT
*
95984523 TAACCATACCCAA-TTTGGTTTC
1 TAACCA-AACCAAGTTTGGTTTC
95984545 CAACTTTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (23 bp):
TAACCAAACCAAGTTTGGTTTCT
Found at i:95996952 original size:10 final size:11
Alignment explanation
Indices: 95996931--95996962 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
95996921 TGATGCTTAA
95996931 TTTTTATAATT
1 TTTTTATAATT
95996942 TTTTTAT-A-T
1 TTTTTATAATT
95996951 TTTTTATAATT
1 TTTTTATAATT
95996962 T
1 T
95996963 CATAATGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.42
10 2 0.11
11 9 0.47
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:95997422 original size:13 final size:13
Alignment explanation
Indices: 95997404--95997429 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95997394 TTGAAAATAA
95997404 AAATATCAAAATT
1 AAATATCAAAATT
95997417 AAATATCAAAATT
1 AAATATCAAAATT
95997430 TGAAGATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATATCAAAATT
Found at i:96000234 original size:31 final size:31
Alignment explanation
Indices: 96000199--96000259 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
96000189 TAAAATTGTC
96000199 ATTGAACTATTCAAAAGTTTTCATTTAAGTT
1 ATTGAACTATTCAAAAGTTTTCATTTAAGTT
* *
96000230 ATTGAACTATTTAAAAGTTTTTATTTAAGT
1 ATTGAACTATTCAAAAGTTTTCATTTAAGT
96000260 CATCAAGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.48
Consensus pattern (31 bp):
ATTGAACTATTCAAAAGTTTTCATTTAAGTT
Found at i:96000271 original size:31 final size:31
Alignment explanation
Indices: 96000196--96000271 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
96000186 TTATAAAATT
*
96000196 GTCATTGAACTATTCAAAAGTTTTCATTTAA
1 GTCATTCAACTATTCAAAAGTTTTCATTTAA
* * * *
96000227 GTTATTGAACTATTTAAAAGTTTTTATTTAA
1 GTCATTCAACTATTCAAAAGTTTTCATTTAA
96000258 GTCA-TCAAGCTATT
1 GTCATTCAA-CTATT
96000272 AAGTTTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 3 0.08
31 36 0.92
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (31 bp):
GTCATTCAACTATTCAAAAGTTTTCATTTAA
Found at i:96003973 original size:31 final size:30
Alignment explanation
Indices: 96003938--96004029 Score: 107
Period size: 31 Copynumber: 3.0 Consensus size: 30
96003928 CAATTGAACT
96003938 TAAATTTTGAAATTTAAAAAAATATAGGGAC
1 TAAATTTT-AAATTTAAAAAAATATAGGGAC
** *
96003969 TAAATTTCTAAAAATAAAAATATATA--GAC
1 TAAATTT-TAAATTTAAAAAAATATAGGGAC
*
96003998 TAAATTTTAAATTTATAAAAAGTATAGGGAC
1 TAAATTTTAAATTTA-AAAAAATATAGGGAC
96004029 T
1 T
96004030 TATGGCACAT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
28 6 0.12
29 18 0.36
31 25 0.50
32 1 0.02
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.34
Consensus pattern (30 bp):
TAAATTTTAAATTTAAAAAAATATAGGGAC
Found at i:96005301 original size:197 final size:193
Alignment explanation
Indices: 96004838--96005422 Score: 861
Period size: 197 Copynumber: 3.0 Consensus size: 193
96004828 ATAAAGTTGG
*
96004838 TATCTTTTCTTTTTAGCTACATTTTTTTCTTAAATTAGTTACTAAATATTTCTATAGATTTGAAA
1 TATCTTTTCTTTTTAGCTACA--TTTTCCTTAAATTAGTTACTAAATATTTCTATAGATTTGAAA
96004903 ATTAGAGAAATTATTATGCCTCTTTCTGAATTATGATCTTGATCATCATAATCATGAAGTGTTTT
64 ATTAGAGAAATTATTATGCCTCTTTCTGAATTATGATCTTGATCATCATAATCATGAAGTGTTTT
* * * *
96004968 TGTTAATCTCTTTTTTATATCCTTTATTAATTTATTTTTGCAGGGAGAAGTGAACAGGTTTTCAG
129 TGTTAATCT-TTTTTAATATCCTTTATTAATTTAATTTTGCAGGGAGAAGAGAACAAGTTTTCAG
96005033 T
193 T
* * *
96005034 TATGTTTTCTTTTTAGCTAAATTTTCCTTAAATTAGTTACTAAATCTTTCTATAGATTTGAAAAT
1 TATCTTTTCTTTTTAGCTACATTTTCCTTAAATTAGTTACTAAATATTTCTATAGATTTGAAAAT
* * *
96005099 TAGAGAAATTATTATGCCTCTTTCTGAATTATGATCTTGATTATCATAATTACGAAGTGTTTTTG
66 TAGAGAAATTATTATGCCTCTTTCTGAATTATGATCTTGATCATCATAATCATGAAGTGTTTTTG
* * *
96005164 TTAATCTTTTTTAAAAAATATTCTTTGTTAATTTAATTTTGCCGGGAGAAGAGAACAAGTTTTCA
131 TTAATCTTTTTT----AATATCCTTTATTAATTTAATTTTGCAGGGAGAAGAGAACAAGTTTTCA
96005229 GT
192 GT
*
96005231 TATCTTTTCTTTTTAGCTACATTTTCCTTAAATTAGTTACTAAATATTTCTTTAGATTTGAAAAT
1 TATCTTTTCTTTTTAGCTACATTTTCCTTAAATTAGTTACTAAATATTTCTATAGATTTGAAAAT
* * *
96005296 TAGAGAATTTATTTTGCCTCTTTCTGAATTATGATCTTGATCATAATAATCATGAAGTGTTTTTG
66 TAGAGAAATTATTATGCCTCTTTCTGAATTATGATCTTGATCATCATAATCATGAAGTGTTTTTG
* * * * * *
96005361 TTAATCTTTTTT--TCT-TTTTATTTATTTATGTTTTTCAGGGAGAAGAGAACAGGTTTTCAGT
131 TTAATCTTTTTTAATATCCTTTATTAATTTA-ATTTTGCAGGGAGAAGAGAACAAGTTTTCAGT
96005422 T
1 T
96005423 TATGTTCATT
Statistics
Matches: 352, Mismatches: 32, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
190 10 0.03
191 31 0.09
193 5 0.01
194 111 0.32
196 19 0.05
197 176 0.50
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.48
Consensus pattern (193 bp):
TATCTTTTCTTTTTAGCTACATTTTCCTTAAATTAGTTACTAAATATTTCTATAGATTTGAAAAT
TAGAGAAATTATTATGCCTCTTTCTGAATTATGATCTTGATCATCATAATCATGAAGTGTTTTTG
TTAATCTTTTTTAATATCCTTTATTAATTTAATTTTGCAGGGAGAAGAGAACAAGTTTTCAGT
Found at i:96014440 original size:18 final size:19
Alignment explanation
Indices: 96014414--96014459 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 19
96014404 ATAAATAAAA
96014414 TATATTAAAAAAATT-ATAT
1 TATATT-AAAAAATTAATAT
96014433 TATA-TAAAAAATTAATAT
1 TATATTAAAAAATTAATAT
96014451 TAATATTAA
1 T-ATATTAA
96014460 TATATTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 7 0.29
20 3 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TATATTAAAAAATTAATAT
Found at i:96019263 original size:7 final size:7
Alignment explanation
Indices: 96019251--96019283 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
96019241 CATAATACAA
96019251 CCCCACC
1 CCCCACC
96019258 CCCCACC
1 CCCCACC
96019265 CCCCACC
1 CCCCACC
*
96019272 CCCCCCC
1 CCCCACC
96019279 CCCCA
1 CCCCA
96019284 AAAAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.12, C:0.88, G:0.00, T:0.00
Consensus pattern (7 bp):
CCCCACC
Found at i:96031414 original size:26 final size:24
Alignment explanation
Indices: 96031383--96031431 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
96031373 AATAATTTTT
*
96031383 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
96031409 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
96031432 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:96032660 original size:28 final size:27
Alignment explanation
Indices: 96032596--96032660 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
96032586 ACACAAATTG
* *
96032596 AAAATATAATAAAAAGTAATTATATTA
1 AAAATAAAATAAAAAGTAAATATATTA
* *
96032623 AAATTGAAAATAAAATGTAAATATGATTA
1 AAAAT-AAAATAAAAAGTAAATAT-ATTA
96032652 AAAATAAAA
1 AAAATAAAA
96032661 AATATATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 4 0.13
28 19 0.61
29 8 0.26
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (27 bp):
AAAATAAAATAAAAAGTAAATATATTA
Found at i:96033247 original size:27 final size:27
Alignment explanation
Indices: 96033217--96033269 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
96033207 TAATCACTTT
*
96033217 AATATTAAATTTAATCTAATATTTATA
1 AATATTAAATTAAATCTAATATTTATA
* *
96033244 AATATTAGATTAAATTTAATATTTAT
1 AATATTAAATTAAATCTAATATTTAT
96033270 CTTATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (27 bp):
AATATTAAATTAAATCTAATATTTATA
Found at i:96033354 original size:17 final size:17
Alignment explanation
Indices: 96033303--96033363 Score: 68
Period size: 17 Copynumber: 3.4 Consensus size: 17
96033293 ATCTACAAAA
96033303 TAAATTAAATTTAATAT
1 TAAATTAAATTTAATAT
* *
96033320 TAAGATCATTACTTTAATAT
1 TAA-AT--TAAATTTAATAT
96033340 TAAATTAAATTTAATAT
1 TAAATTAAATTTAATAT
*
96033357 CAAATTA
1 TAAATTA
96033364 TTAAAATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
17 19 0.53
18 2 0.06
19 2 0.06
20 13 0.36
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (17 bp):
TAAATTAAATTTAATAT
Found at i:96035853 original size:29 final size:29
Alignment explanation
Indices: 96035821--96035886 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
96035811 AAGTCTATAG
** *
96035821 TGACTATTTGCCAAATAAGAGTCTAGCAA
1 TGACTATTCACCAAACAAGAGTCTAGCAA
* *
96035850 TGACTATCCACCAAACAAGAGTTTAGCAA
1 TGACTATTCACCAAACAAGAGTCTAGCAA
*
96035879 TGAATATT
1 TGACTATT
96035887 ATTTAAGAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (29 bp):
TGACTATTCACCAAACAAGAGTCTAGCAA
Found at i:96037449 original size:46 final size:44
Alignment explanation
Indices: 96037390--96037504 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
96037380 ACAGGACAGA
* *
96037390 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
96037436 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
96037480 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
96037505 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:96037485 original size:44 final size:45
Alignment explanation
Indices: 96037390--96037523 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
96037380 ACAGGACAGA
* *
96037390 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
96037436 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
96037480 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
96037524 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:96043586 original size:46 final size:44
Alignment explanation
Indices: 96043527--96043641 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
96043517 ACAGGACAGA
* *
96043527 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
96043573 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
96043617 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
96043642 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:96043622 original size:44 final size:45
Alignment explanation
Indices: 96043527--96043660 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
96043517 ACAGGACAGA
* *
96043527 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
96043573 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
96043617 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
96043661 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:96047343 original size:3 final size:3
Alignment explanation
Indices: 96047335--96047371 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
96047325 GATTTTGCTT
96047335 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
96047372 AAATTGAGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:96059340 original size:24 final size:24
Alignment explanation
Indices: 96059308--96059354 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
96059298 AAGTCTGTTG
96059308 CAGTTCCTATTACATTTACATTTA
1 CAGTTCCTATTACATTTACATTTA
96059332 CAGTTCCTATTACATTTACATTT
1 CAGTTCCTATTACATTTACATTT
96059355 GCATAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.28, C:0.21, G:0.04, T:0.47
Consensus pattern (24 bp):
CAGTTCCTATTACATTTACATTTA
Found at i:96061236 original size:312 final size:312
Alignment explanation
Indices: 96060671--96061299 Score: 945
Period size: 312 Copynumber: 2.0 Consensus size: 312
96060661 AAGTTGCTTG
* * ** *
96060671 TCTGAGGAAGACTGATCAGAAGCAATTTCTTCTTTTTTAACTAACTGACGCTCATTTAGCTCTTC
1 TCTGAGGAAGACTGACCAGAAGCAATTTCTTCTCTAGTAACTAACTGAAGCTCATTTAGCTCTTC
* * * * *
96060736 TGTTACTCCAGCTGATGAGTCTTCATGGTTCCCATTGTGAAGCTTTTCAGTTTCTTTCCCTTTTT
66 TGTTACTCCAGCTGACGAGTCTTCACGGTTCCCATCGTCAAGCTTTTCAGCTTCTTTCCCTTTTT
* *
96060801 CTTTGTTTGCTTCAATCTCTTGTGATTCCTCAGTTAAGGAAGCCTGAGCAATAATGGTTTCTTGA
131 CTTCGTTTGCTTCAATCTCTTGTGATTCCTCAGTTAAGGAAGCCTGAACAATAATGGTTTCTTGA
* *
96060866 TCTATAACAGCTTTAGGCTCCTGAGGTCCTTCCTTTTCGAGAAGTTCCACTTCCTTCACCTTTTC
196 TCCATAACAGCTTCAGGCTCCTGAGGTCCTTCCTTTTCGAGAAGTTCCACTTCCTTCACCTTTTC
* * **
96060931 CCCCTCTTCTTCATTGGCCTCAGCTCCATGCTTTAGGTTCTCTTCAGTCAAT
261 CCCCTCTTCTTCACTGGCCTCAGCTCCACGCTTTAGGTTCTCAACAGTCAAT
* *
96060983 TCTGAGGAAGACTGACCAGAAGCAATTTCTTCTCTAGTAACTAATTGAAGCTCATTTAGCTTTTC
1 TCTGAGGAAGACTGACCAGAAGCAATTTCTTCTCTAGTAACTAACTGAAGCTCATTTAGCTCTTC
* **
96061048 TGTTTCTCCAGCTGACGAGTCTTCACGGTTCCCATCGTCAAGCTTTTTGGCTTCTTT-CCTTTTC
66 TGTTACTCCAGCTGACGAGTCTTCACGGTTCCCATCGTCAAGCTTTTCAGCTTCTTTCCCTTTT-
* * ** *
96061112 TCTTCGTTTGCTTCAATCTTTTGTGATTCCTCTGTTATTGAAGCCTGAACTATAATGGTTTCTTG
130 TCTTCGTTTGCTTCAATCTCTTGTGATTCCTCAGTTAAGGAAGCCTGAACAATAATGGTTTCTTG
* *
96061177 ATCCATAACAGCTTCAGGCTCCTGAGGTCTTTCCTTTTCGAGAATTTCCACTTCCTTCACCTTTT
195 ATCCATAACAGCTTCAGGCTCCTGAGGTCCTTCCTTTTCGAGAAGTTCCACTTCCTTCACCTTTT
** *
96061242 CTTCCTCTTCTTCACTGGCCTCAGCTCCACGCTTTGGGTTCTCAACAGTCAAT
260 CCCCCTCTTCTTCACTGGCCTCAGCTCCACGCTTTAGGTTCTCAACAGTCAAT
96061295 TCTGA
1 TCTGA
96061300 AGGCAAAGAT
Statistics
Matches: 283, Mismatches: 33, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
311 6 0.02
312 277 0.98
ACGTcount: A:0.18, C:0.26, G:0.16, T:0.40
Consensus pattern (312 bp):
TCTGAGGAAGACTGACCAGAAGCAATTTCTTCTCTAGTAACTAACTGAAGCTCATTTAGCTCTTC
TGTTACTCCAGCTGACGAGTCTTCACGGTTCCCATCGTCAAGCTTTTCAGCTTCTTTCCCTTTTT
CTTCGTTTGCTTCAATCTCTTGTGATTCCTCAGTTAAGGAAGCCTGAACAATAATGGTTTCTTGA
TCCATAACAGCTTCAGGCTCCTGAGGTCCTTCCTTTTCGAGAAGTTCCACTTCCTTCACCTTTTC
CCCCTCTTCTTCACTGGCCTCAGCTCCACGCTTTAGGTTCTCAACAGTCAAT
Found at i:96071759 original size:6 final size:6
Alignment explanation
Indices: 96071750--96071836 Score: 120
Period size: 6 Copynumber: 14.5 Consensus size: 6
96071740 TCTTTTCTCT
* * * *
96071750 TTCAGC TTCAGC TTCAGC TTCAGC ATCAGC ATCAGC ATCAGC TTCATC
1 TTCAGC TTCAGC TTCAGC TTCAGC TTCAGC TTCAGC TTCAGC TTCAGC
* *
96071798 TTCAGC TTCAGC ATCAGC ATCAGC TTCAGC TTCAGC TTC
1 TTCAGC TTCAGC TTCAGC TTCAGC TTCAGC TTCAGC TTC
96071837 CTTTATGTCT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 75 1.00
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.30
Consensus pattern (6 bp):
TTCAGC
Found at i:96071834 original size:30 final size:30
Alignment explanation
Indices: 96071751--96071836 Score: 145
Period size: 30 Copynumber: 2.9 Consensus size: 30
96071741 CTTTTCTCTT
* *
96071751 TCAGCTTCAGCTTCAGCTTCAGCATCAGCA
1 TCAGCATCAGCTTCAGCTTCAGCTTCAGCA
*
96071781 TCAGCATCAGCTTCATCTTCAGCTTCAGCA
1 TCAGCATCAGCTTCAGCTTCAGCTTCAGCA
96071811 TCAGCATCAGCTTCAGCTTCAGCTTC
1 TCAGCATCAGCTTCAGCTTCAGCTTC
96071837 CTTTATGTCT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (30 bp):
TCAGCATCAGCTTCAGCTTCAGCTTCAGCA
Found at i:96087837 original size:23 final size:22
Alignment explanation
Indices: 96087785--96087838 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
96087775 TTTAAGAACT
*
96087785 AATTTAAATTAAAAAAAATTTA
1 AATTTAAATTAAAAAAAATCTA
* *
96087807 AGTATTAAATTAAGAAAAATACTA
1 AAT-TTAAATTAAAAAAAAT-CTA
96087831 AATTTAAA
1 AATTTAAA
96087839 GATTACATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 2 0.08
23 20 0.77
24 4 0.15
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (22 bp):
AATTTAAATTAAAAAAAATCTA
Found at i:96092014 original size:4 final size:4
Alignment explanation
Indices: 96092007--96092062 Score: 112
Period size: 4 Copynumber: 14.0 Consensus size: 4
96091997 TGTGTGTATG
96092007 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
96092055 CATA CATA
1 CATA CATA
96092063 AATTTATATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:96092093 original size:2 final size:2
Alignment explanation
Indices: 96092088--96092122 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
96092078 ATATACATAC
96092088 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
96092123 ATATGTACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:96095702 original size:2 final size:2
Alignment explanation
Indices: 96095695--96095727 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
96095685 ATGAACCAAA
96095695 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
96095728 ATTAGAGCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96096470 original size:99 final size:98
Alignment explanation
Indices: 96096356--96096543 Score: 297
Period size: 99 Copynumber: 1.9 Consensus size: 98
96096346 TTCTATCCTT
* *
96096356 TTTATTATTATTTGTTTTATAATATTTTAAATATATATTTTTTTGGTGGAGCCATTCTAAATTGC
1 TTTATTATTATTTGTTTTATAATATTTTAAATATATAATTTTTTGGTGGAGCCATTCTAAATGGC
96096421 GCCA-CTAGTTCATTTAAACTTTTTGTTTAAAAA
66 GCCATCT-GTTCATTTAAACTTTTTGTTTAAAAA
*
96096454 TTTATTTATTATTTGTTTTATAATATTTTAAATGTATAATTTTTTGGTGGAGCCATTCTAAATGG
1 TTTA-TTATTATTTGTTTTATAATATTTTAAATATATAATTTTTTGGTGGAGCCATTCTAAATGG
* * *
96096519 TGCTATCTGTTTATTTAAACTTTTT
65 CGCCATCTGTTCATTTAAACTTTTT
96096544 TTAAATTTTT
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
98 4 0.05
99 76 0.93
100 2 0.02
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.53
Consensus pattern (98 bp):
TTTATTATTATTTGTTTTATAATATTTTAAATATATAATTTTTTGGTGGAGCCATTCTAAATGGC
GCCATCTGTTCATTTAAACTTTTTGTTTAAAAA
Found at i:96098477 original size:30 final size:30
Alignment explanation
Indices: 96098441--96098500 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
96098431 TTCCCGAGCC
96098441 TAGGGGCAAAAGTG-TAATTATGCAAAAGTT
1 TAGGGGCAAAA-TGATAATTATGCAAAAGTT
* *
96098471 TAGGGGCAAAATGATAATTTTGCCAAAGTT
1 TAGGGGCAAAATGATAATTATGCAAAAGTT
96098501 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGATAATTATGCAAAAGTT
Found at i:96098989 original size:47 final size:47
Alignment explanation
Indices: 96098920--96099091 Score: 235
Period size: 47 Copynumber: 3.7 Consensus size: 47
96098910 GATGGTTGAA
96098920 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGG
* * * *
96098967 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--ATG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
96099016 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGG
*
96099061 CATCCGAACTCGTTGAGTTGAGTCCAAGTTC
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC
96099092 ACTTATGGGC
Statistics
Matches: 108, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
45 2 0.02
46 2 0.02
47 86 0.80
48 2 0.02
49 2 0.02
50 5 0.05
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGG
Found at i:96099083 original size:94 final size:94
Alignment explanation
Indices: 96098922--96099099 Score: 338
Period size: 94 Copynumber: 1.9 Consensus size: 94
96098912 TGGTTGAACA
*
96098922 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
*
96098987 AGTCCGAGTTCACTTATGGATGTGAAATG
66 AGTCCAAGTTCACTTATGGATGTGAAATG
96099016 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
96099081 AGTCCAAGTTCACTTATGG
66 AGTCCAAGTTCACTTATGG
96099100 GCGGTTACAT
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 82 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (94 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
AGTCCAAGTTCACTTATGGATGTGAAATG
Found at i:96101981 original size:3 final size:3
Alignment explanation
Indices: 96101973--96102010 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
96101963 AAATGTAATA
96101973 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
96102011 AATGTTGAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:96102444 original size:22 final size:23
Alignment explanation
Indices: 96102400--96102448 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
96102390 TAATTTAATA
96102400 TTAATATTTTTATTTTTGAGAAT
1 TTAATATTTTTATTTTTGAGAAT
*
96102423 TTAAT-TTCTTTATTTTT-TGAAT
1 TTAATATT-TTTATTTTTGAGAAT
96102445 TTAA
1 TTAA
96102449 AAATTTAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (23 bp):
TTAATATTTTTATTTTTGAGAAT
Found at i:96102970 original size:5 final size:5
Alignment explanation
Indices: 96102962--96103006 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
96102952 ATCTAACCCC
96102962 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
96103007 GGACTGCCCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:96103351 original size:20 final size:22
Alignment explanation
Indices: 96103299--96103352 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 22
96103289 AATTTAAAAT
96103299 ATATTTTAAAA-AT--TAATAA
1 ATATTTTAAAATATCATAATAA
*
96103318 ATATTTTAAAATATCATAATTA
1 ATATTTTAAAATATCATAATAA
96103340 ATA-TTT-AAATATC
1 ATATTTTAAAATATC
96103353 CTTGTTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 11 0.35
20 9 0.29
21 3 0.10
22 8 0.26
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
ATATTTTAAAATATCATAATAA
Found at i:96104069 original size:20 final size:21
Alignment explanation
Indices: 96104038--96104090 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
96104028 AGTGGGTTGG
*
96104038 TTTAAT-TGTTTTAATTAATT
1 TTTAATATATTTTAATTAATT
* **
96104058 TTTAA-ATATTTTTATTGGTT
1 TTTAATATATTTTAATTAATT
96104078 TTTAATATATTTT
1 TTTAATATATTTT
96104091 TAAATTATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (21 bp):
TTTAATATATTTTAATTAATT
Found at i:96105780 original size:30 final size:30
Alignment explanation
Indices: 96105738--96105807 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
96105728 TTACTTTGGT
* *
96105738 AAATAGTAAAATTAT-ATTTTGATCATTTAA
1 AAATAATAAAATTATGA-TTTAATCATTTAA
* * *
96105768 AAATTATAAAATTTTGATTTAATCTTTTAA
1 AAATAATAAAATTATGATTTAATCATTTAA
96105798 AAATAATAAA
1 AAATAATAAA
96105808 GATATAAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 32 0.97
31 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (30 bp):
AAATAATAAAATTATGATTTAATCATTTAA
Found at i:96108009 original size:41 final size:41
Alignment explanation
Indices: 96107964--96108064 Score: 184
Period size: 41 Copynumber: 2.5 Consensus size: 41
96107954 CGTTTTTTAC
*
96107964 TAAAACGCCGCTAAAAACCAGGGCATTAGCGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGGGCATTAGCGACGCTTTAGG
*
96108005 TAAAACGCCGCTAAAAACCAGTGCATTAGCGACGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGGGCATTAGCGACGCTTTAGG
96108046 TAAAACGCCGCTAAAAACC
1 TAAAACGCCGCTAAAAACC
96108065 CCATAACCCC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.17
Consensus pattern (41 bp):
TAAAACGCCGCTAAAAACCAGGGCATTAGCGACGCTTTAGG
Found at i:96108242 original size:14 final size:14
Alignment explanation
Indices: 96108220--96108259 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
96108210 TTAATTATCA
* *
96108220 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
96108234 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
96108248 ATATGGTTTAAG
1 TTATGGTTTAAG
96108260 CTGGTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:96108843 original size:2 final size:2
Alignment explanation
Indices: 96108836--96108866 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
96108826 GAATATAAAC
96108836 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
96108867 AATGTGTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96109160 original size:15 final size:15
Alignment explanation
Indices: 96109140--96109195 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 15
96109130 TTTAATTTAG
*
96109140 AAGATAAATGTATAT
1 AAGATAAATATATAT
96109155 AAGATAAATATATAT
1 AAGATAAATATATAT
**
96109170 AA-ATTTATATATAT
1 AAGATAAATATATAT
*
96109184 AA-ATATATATAT
1 AAGATAAATATAT
96109196 GAAAAGTGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
14 21 0.57
15 16 0.43
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:96109181 original size:14 final size:14
Alignment explanation
Indices: 96109150--96109195 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
96109140 AAGATAAATG
*
96109150 TATATAAGATAAATA
1 TATATAA-ATATATA
*
96109165 TATATAAATTTATA
1 TATATAAATATATA
96109179 TATATAAATATATA
1 TATATAAATATATA
96109193 TAT
1 TAT
96109196 GAAAAGTGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 21 0.75
15 7 0.25
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (14 bp):
TATATAAATATATA
Found at i:96112353 original size:21 final size:21
Alignment explanation
Indices: 96112324--96112363 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
96112314 GTTTTTATAT
*
96112324 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
96112345 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
96112364 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:96112812 original size:21 final size:21
Alignment explanation
Indices: 96112783--96112822 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
96112773 GTTTTTATAT
*
96112783 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
96112804 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
96112823 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:96112914 original size:459 final size:460
Alignment explanation
Indices: 96111945--96113179 Score: 2402
Period size: 459 Copynumber: 2.7 Consensus size: 460
96111935 TTCTCTCCAA
96111945 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
96112010 CGAGTTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
66 CGAGTTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
*
96112075 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACTTTAATTTATTTCCA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
96112140 GTTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
196 GTTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
96112205 TATATTAAACATGTATGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAACTAATT
261 TATATTAAACATGTATGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAACTAATT
96112270 TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAAC
326 TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAAC
96112335 TTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGT
391 TTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGT
96112400 CCATT
456 CCATT
96112405 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
96112470 CGAGTTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
66 CGAGTTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
96112535 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
96112600 GTTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTA-TTTGT
196 GTTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
96112664 TATATTAAACATGTATGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAACTAATT
261 TATATTAAACATGTATGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAACTAATT
96112729 TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAAC
326 TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAAC
96112794 TTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGT
391 TTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGT
96112859 CCATT
456 CCATT
96112864 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTT-TAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
*
96112928 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
66 CGAGTTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
*
96112993 ATTTAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
96113058 GTTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
196 GTTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
*
96113123 TATATTAAACATGTTTGATTTTAATATTGCTATTATTTTTAAATGTCTTTAAAATTT
261 TATATTAAACATGTATGATTTTAATATT--TATTATTTTTAAATGTCTTTAAAATTT
96113180 TGTTATATTA
Statistics
Matches: 768, Mismatches: 4, Indels: 5
0.99 0.01 0.01
Matches are distributed among these distances:
458 190 0.25
459 298 0.39
460 253 0.33
461 27 0.04
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.42
Consensus pattern (460 bp):
CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
CGAGTTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
GTTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
TATATTAAACATGTATGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAACTAATT
TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAAC
TTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGT
CCATT
Found at i:96121052 original size:14 final size:15
Alignment explanation
Indices: 96121033--96121065 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
96121023 GAGAGACAAT
96121033 AAAAGAAT-TTTGAA
1 AAAAGAATATTTGAA
*
96121047 AAAAGAATATTTTAA
1 AAAAGAATATTTGAA
96121062 AAAA
1 AAAA
96121066 CCCATAAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (15 bp):
AAAAGAATATTTGAA
Found at i:96121988 original size:21 final size:21
Alignment explanation
Indices: 96121962--96122006 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
96121952 ACTTAGAGCA
96121962 GAGGCAGCAGCGAGGGAGGCG
1 GAGGCAGCAGCGAGGGAGGCG
96121983 GAGGCAGCAGCGAGGGAGGCG
1 GAGGCAGCAGCGAGGGAGGCG
96122004 GAG
1 GAG
96122007 TAGAACAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.18, G:0.58, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCG
Found at i:96122367 original size:43 final size:44
Alignment explanation
Indices: 96122304--96122420 Score: 139
Period size: 43 Copynumber: 2.7 Consensus size: 44
96122294 CTGAGCAAAT
* * *
96122304 TAGCGGCTTTTTTTACAAAAGCGCCGGTAAAAG-TACAGATCTA
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTTACAGATCTA
* * * * *
96122347 TAGCGGCGTTTTTTATAAAAGCGCCGCT-AAAGTTCCTGGTTTA
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTTACAGATCTA
*
96122390 CAGCGGCGTTTTTTAAAAAAGCGCCGCTAAA
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAA
96122421 GGTCCTGGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 4 0.06
43 57 0.90
44 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (44 bp):
TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTTACAGATCTA
Found at i:96122421 original size:43 final size:43
Alignment explanation
Indices: 96122347--96122671 Score: 322
Period size: 43 Copynumber: 7.6 Consensus size: 43
96122337 TACAGATCTA
* * *
96122347 TAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAGTTCCTGGT-TT
1 TAGCGGCGCTTTTATA-AAAAACGCCGCTAAAGGTCCTGGTCTT
* *
96122389 ACAGCGGCG-TTTTTTAAAAAAGCGCCGCTAAAGGTCCTGGTCTT
1 -TAGCGGCGCTTTTATAAAAAA-CGCCGCTAAAGGTCCTGGTCTT
* * ** *
96122433 TGGCGGCGCTTTTATAAAAAACGCCGCTATA-GAACT-ATACTTT
1 TAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCCTGGT-C-TT
*
96122476 TAGCGGCGCTTTTATAAAAAACGCCGCTATAGGTCCTGGTCTT
1 TAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCCTGGTCTT
* * * * * **
96122519 TGGCGGC-ATTTTTTTAAGAGTGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCCTGGTCTT
*
96122561 TAGCGGCGCTTTTATAAAAAACGCCGCTATAGGTCCTGGTCTT
1 TAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCCTGGTCTT
* * * * * *
96122604 TGGCGGCG-TTTTTTTAAGAGCGCCGCTAAAGGTCCTGGTTTT
1 TAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCCTGGTCTT
*
96122646 TAGCTGCGCTTTTATAAAAAACGCCG
1 TAGCGGCGCTTTTATAAAAAACGCCG
96122672 GGAACTTTTG
Statistics
Matches: 230, Mismatches: 43, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
41 1 0.00
42 76 0.33
43 135 0.59
44 17 0.07
45 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (43 bp):
TAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCCTGGTCTT
Found at i:96122581 original size:85 final size:85
Alignment explanation
Indices: 96122349--96122671 Score: 411
Period size: 85 Copynumber: 3.8 Consensus size: 85
96122339 CAGATCTATA
* * *
96122349 GCGGCGTTTTTTATAAAAGCGCCGCTAAAGTTCCTGGT-TTACAGCGGCG-TTTTTTAAAAAAGC
1 GCGGCGTTTTTT-TAAAAGCGCCGCTAAAGGTCCTGGTCTT-TAGCGGCGCTTTTATAAAAAA-C
*
96122412 GCCGCTAAAGGTCCTGGTCTTTG
63 GCCGCTATAGGTCCTGGTCTTTG
* * * * ** *
96122435 GCGGCGCTTTTATAAAAAACGCCGCTATA-GAACT-ATACTTTTAGCGGCGCTTTTATAAAAAAC
1 GCGGCG-TTTTTTTAAAAGCGCCGCTAAAGGTCCTGGT-C-TTTAGCGGCGCTTTTATAAAAAAC
96122498 GCCGCTATAGGTCCTGGTCTTTG
63 GCCGCTATAGGTCCTGGTCTTTG
* * *
96122521 GCGGCATTTTTTTAAGAGTGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCC
1 GCGGCGTTTTTTTAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCC
96122586 GCTATAGGTCCTGGTCTTTG
66 GCTATAGGTCCTGGTCTTTG
* * *
96122606 GCGGCGTTTTTTTAAGAGCGCCGCTAAAGGTCCTGGTTTTTAGCTGCGCTTTTATAAAAAACGCC
1 GCGGCGTTTTTTTAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCC
96122671 G
66 G
96122672 GGAACTTTTG
Statistics
Matches: 205, Mismatches: 25, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
84 1 0.00
85 127 0.62
86 58 0.28
87 19 0.09
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (85 bp):
GCGGCGTTTTTTTAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCC
GCTATAGGTCCTGGTCTTTG
Found at i:96122611 original size:128 final size:127
Alignment explanation
Indices: 96122347--96122592 Score: 350
Period size: 128 Copynumber: 1.9 Consensus size: 127
96122337 TACAGATCTA
* * * ** * * *
96122347 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTTCCTGGT-TTACAGCGGCGTTTTTTAAAAAAG
1 TAGCGGCGTTTTATA-AAAAACGCCGCTAAAGGTCCTGGTCTT-TGGCGGCATTTTTT-TAAGAG
* *
96122411 CGCCGCTAAAGGTCCTGGTCTTTGGCGGCGCTTTTATAAAAAACGCCGCTATAGAACTATACTTT
63 TGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTATAGAACTATACTTT
*
96122476 TAGCGGCGCTTTTATAAAAAACGCCGCTATAGGTCCTGGTCTTTGGCGGCATTTTTTTAAGAGTG
1 TAGCGGCG-TTTTATAAAAAACGCCGCTAAAGGTCCTGGTCTTTGGCGGCATTTTTTTAAGAGTG
96122541 CCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTATAG
65 CCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTATAG
96122593 GTCCTGGTCT
Statistics
Matches: 104, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
128 56 0.54
129 40 0.38
130 8 0.08
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (127 bp):
TAGCGGCGTTTTATAAAAAACGCCGCTAAAGGTCCTGGTCTTTGGCGGCATTTTTTTAAGAGTGC
CGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTATAGAACTATACTTT
Found at i:96127158 original size:19 final size:20
Alignment explanation
Indices: 96127134--96127174 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
96127124 TGATTCATTA
96127134 ACGTGGTGCTAAGTGG-TAT
1 ACGTGGTGCTAAGTGGATAT
96127153 ACGTGGTGCTAAGTGGATAT
1 ACGTGGTGCTAAGTGGATAT
96127173 AC
1 AC
96127175 CACAGTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.24, C:0.12, G:0.34, T:0.29
Consensus pattern (20 bp):
ACGTGGTGCTAAGTGGATAT
Found at i:96143319 original size:23 final size:23
Alignment explanation
Indices: 96143293--96143337 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
96143283 TGGGTATGTA
*
96143293 ATGACGTTATCTT-ACAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
96143316 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
96143338 TTAATTGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:96152727 original size:47 final size:47
Alignment explanation
Indices: 96152675--96153018 Score: 553
Period size: 47 Copynumber: 7.3 Consensus size: 47
96152665 GTACAAGATA
*
96152675 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
*
96152722 TATATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
96152769 TATATATGTGATAAGGCCGAATGGCCAATGTGGTGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
96152816 TATATATGTGACAAGACCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
*
96152863 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* ** * *
96152910 TATATATGTGACAAGGCCTAATGGCTGATGTGATGGATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
96152957 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
*
96153004 TATAAATGTGATAAG
1 TATATATGTGATAAG
96153019 TCCCGAAGGG
Statistics
Matches: 273, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 273 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:96154971 original size:38 final size:38
Alignment explanation
Indices: 96154926--96155038 Score: 163
Period size: 38 Copynumber: 3.0 Consensus size: 38
96154916 AATCCGGGCT
* *
96154926 TAAAGACCCGATGACTATAAGTAGAGATTGTGTCCGGG
1 TAAAGACCCGATGACTATATGTAGAGATTATGTCCGGG
*
96154964 TAAAGACCCGATGACTATATGTAGAGATTATGCCCGGG
1 TAAAGACCCGATGACTATATGTAGAGATTATGTCCGGG
* * * *
96155002 TAAAGATCCGATGGCTATGTGCAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGTAGAGATTATGTCCGG
96155039 ATTAAAATTC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 67 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGTAGAGATTATGTCCGGG
Found at i:96155151 original size:40 final size:40
Alignment explanation
Indices: 96155096--96155451 Score: 561
Period size: 40 Copynumber: 8.9 Consensus size: 40
96155086 CTCGACGATG
* * * *
96155096 ATCCGGGTTAAGTCCCGAAGAGTATTCGTGCTGGTGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTAT
*
96155136 ATCCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTAT
* *
96155176 ATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTAT
*
96155216 ATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTAT
*
96155256 ATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTAT
* *
96155296 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGTTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTAT
*
96155336 ATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTAT
*
96155376 ATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTAT
* *
96155416 ATCCAGGCTAAGTCTCGAAGAGCATTC-ATGCTGGTG
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGA-GCTGGTG
96155452 ATGTGTATTC
Statistics
Matches: 295, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 1 0.00
40 294 1.00
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTAT
Found at i:96159201 original size:47 final size:47
Alignment explanation
Indices: 96159149--96159492 Score: 562
Period size: 47 Copynumber: 7.3 Consensus size: 47
96159139 ACAAGATATA
*
96159149 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
*
96159196 TATATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
96159243 TATATATGTGATAAGGCCAAATGGCCAATGTGGTGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
*
96159290 TATATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
*
96159337 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* * * *
96159384 TATATATGTGACAAGGCCTAATGGCCGATGTGATGGATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* * *
96159431 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTTAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
*
96159478 TATAAATGTGATAAG
1 TATATATGTGATAAG
96159493 TCCCGAAGGG
Statistics
Matches: 276, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 276 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:96159298 original size:25 final size:25
Alignment explanation
Indices: 96159223--96159394 Score: 85
Period size: 25 Copynumber: 7.2 Consensus size: 25
96159213 CTAATGGCCA
96159223 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* ** ***
96159248 ATGTGAT-AAGGCCAAA-TGGCCA-
1 ATGTGATGAATGTGAAAGTGTATAT
*
96159270 ATGTGGTGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * *** ***
96159295 ATGTGA-CAAGGCCTAA-TGGCCA-
1 ATGTGATGAATGTGAAAGTGTATAT
96159317 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * ***
96159342 ATGTGAT-AAGGCCG-AA-TGGCCA-
1 ATGTGATGAATG-TGAAAGTGTATAT
96159364 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
96159389 ATGTGA
1 ATGTGA
96159395 CAAGGCCTAA
Statistics
Matches: 96, Mismatches: 40, Indels: 22
0.61 0.25 0.14
Matches are distributed among these distances:
22 20 0.21
23 25 0.26
24 25 0.26
25 26 0.27
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:96161597 original size:23 final size:23
Alignment explanation
Indices: 96161571--96161615 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
96161561 TGGGTATGTA
*
96161571 ATGACGTTATCTT-ACAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
96161594 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
96161616 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:96162244 original size:35 final size:35
Alignment explanation
Indices: 96162205--96162277 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
96162195 TAGAGGTGTC
96162205 ACTCCCTAGGGTTTAAATGCACATAATTTAAATCA
1 ACTCCCTAGGGTTTAAATGCACATAATTTAAATCA
96162240 ACTCCCTAGGGTTTAAATGCACATAATTTAAATCA
1 ACTCCCTAGGGTTTAAATGCACATAATTTAAATCA
96162275 ACT
1 ACT
96162278 AACCTTGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (35 bp):
ACTCCCTAGGGTTTAAATGCACATAATTTAAATCA
Found at i:96164163 original size:63 final size:63
Alignment explanation
Indices: 96164041--96164164 Score: 214
Period size: 62 Copynumber: 2.0 Consensus size: 63
96164031 TTCACACACT
* **
96164041 CTCCAAAATCGATTTATTTTCCTAAATCTTGAAAAAACGATTTATTCGACCAATTAAAAAAAA
1 CTCCAAAATCGATTTATTTTCCTAAATATTGAAAAAACGACCTATTCGACCAATTAAAAAAAA
96164104 CTCCAAAATCGATTTATTTTCCTAAATATT-AAAAAACGACCTATTCGACCAATTAAAAAAA
1 CTCCAAAATCGATTTATTTTCCTAAATATTGAAAAAACGACCTATTCGACCAATTAAAAAAA
96164165 TTCTACATAT
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
62 29 0.50
63 29 0.50
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.31
Consensus pattern (63 bp):
CTCCAAAATCGATTTATTTTCCTAAATATTGAAAAAACGACCTATTCGACCAATTAAAAAAAA
Found at i:96166210 original size:22 final size:19
Alignment explanation
Indices: 96166159--96166196 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
96166149 TAATTATTGT
*
96166159 TATATTTAATTTAATAAAA
1 TATATATAATTTAATAAAA
96166178 TATATATAATTTAATAAAA
1 TATATATAATTTAATAAAA
96166197 ATTTCAATAT
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TATATATAATTTAATAAAA
Found at i:96166238 original size:32 final size:31
Alignment explanation
Indices: 96166146--96166388 Score: 85
Period size: 27 Copynumber: 8.1 Consensus size: 31
96166136 TTATATTTTT
* *
96166146 ATATAATTATTGTTATATTTAATT-TAATAAA
1 ATATAATTATT-TTATATTAAATTATATTAAA
* **
96166177 ATAT-ATATAATTTA-A-TAAA--A-ATTTCA
1 ATATAAT-TATTTTATATTAAATTATATTAAA
96166203 ATATAATTATTTTTATATTAAATTATATTAAA
1 ATATAATTA-TTTTATATTAAATTATATTAAA
* * * * *
96166235 ATATTTCAAATATTTTTATAATTTAATAAAAATAAA
1 ATA--T-AATTA-TTTTAT-ATTAAATTATATTAAA
*
96166271 A-ATACA-TAATTTA-A-TAACATT-T-TT--A
1 ATATA-ATTATTTTATATTAA-ATTATATTAAA
96166296 ATATAATTATTTTTATATTAAATTATATTAAA
1 ATATAATTA-TTTTATATTAAATTATATTAAA
* * * *
96166328 ATAT-TTTATTTTAAATT--A-TATTTTGAA
1 ATATAATTATTTTATATTAAATTATATTAAA
* * *
96166355 ATA-AAATAGTTTCTATTAAATTATATTAAA
1 ATATAATTATTTTATATTAAATTATATTAAA
96166385 ATAT
1 ATAT
96166389 TTGAAATATT
Statistics
Matches: 153, Mismatches: 30, Indels: 58
0.63 0.12 0.24
Matches are distributed among these distances:
25 3 0.02
26 14 0.09
27 29 0.19
28 11 0.07
29 13 0.08
30 25 0.16
31 15 0.10
32 15 0.10
33 2 0.01
34 1 0.01
35 12 0.08
36 13 0.08
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (31 bp):
ATATAATTATTTTATATTAAATTATATTAAA
Found at i:96173047 original size:21 final size:21
Alignment explanation
Indices: 96173014--96173172 Score: 185
Period size: 21 Copynumber: 7.6 Consensus size: 21
96173004 CGTGTTTTAC
* *
96173014 TTTCTATTTAGCTCTTATGAG
1 TTTCTGTTCAGCTCTTATGAG
*
96173035 TTTCTGTTCAGCTCATATGAG
1 TTTCTGTTCAGCTCTTATGAG
*
96173056 TTTCTGTTCAGCTC-TACGAG
1 TTTCTGTTCAGCTCTTATGAG
* * *
96173076 CTTCTGTTGAACTCTTATGAG
1 TTTCTGTTCAGCTCTTATGAG
96173097 TTTCTGTTCAGCTCTTATGAG
1 TTTCTGTTCAGCTCTTATGAG
* * * *
96173118 CTTCTATTCAACTATTATGAG
1 TTTCTGTTCAGCTCTTATGAG
*
96173139 TTTCTGTTCAGCTCTTACGAG
1 TTTCTGTTCAGCTCTTATGAG
**
96173160 CCTCTGTTCAGCT
1 TTTCTGTTCAGCT
96173173 TTCGAGTTCT
Statistics
Matches: 115, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
20 16 0.14
21 99 0.86
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.44
Consensus pattern (21 bp):
TTTCTGTTCAGCTCTTATGAG
Found at i:96173113 original size:83 final size:84
Alignment explanation
Indices: 96173014--96173167 Score: 231
Period size: 83 Copynumber: 1.8 Consensus size: 84
96173004 CGTGTTTTAC
* * * *
96173014 TTTCTATTTAGCTCTTATGAGTTTCTGTTCAGCTCA-TATGAGTTTCTGTTCAGCTC-TACGAGC
1 TTTCTATTCAGCTCTTATGAGCTTCTATTCAACT-ATTATGAGTTTCTGTTCAGCTCTTACGAGC
*
96173077 TTCTGTTGAACTCTTATGAG
65 CTCTGTTGAACTCTTATGAG
*
96173097 TTTCTGTTCAGCTCTTATGAGCTTCTATTCAACTATTATGAGTTTCTGTTCAGCTCTTACGAGCC
1 TTTCTATTCAGCTCTTATGAGCTTCTATTCAACTATTATGAGTTTCTGTTCAGCTCTTACGAGCC
96173162 TCTGTT
66 TCTGTT
96173168 CAGCTTTCGA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
82 1 0.02
83 49 0.78
84 13 0.21
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.45
Consensus pattern (84 bp):
TTTCTATTCAGCTCTTATGAGCTTCTATTCAACTATTATGAGTTTCTGTTCAGCTCTTACGAGCC
TCTGTTGAACTCTTATGAG
Found at i:96173309 original size:2 final size:2
Alignment explanation
Indices: 96173302--96173328 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
96173292 ATTATATGTG
96173302 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
96173329 CAATATCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:96176854 original size:5 final size:5
Alignment explanation
Indices: 96176844--96176875 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
96176834 TGTATTGTGA
96176844 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
96176876 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:96176869 original size:9 final size:9
Alignment explanation
Indices: 96176845--96176875 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
96176835 GTATTGTGAA
96176845 AAATAAAAT
1 AAATAAAAT
96176854 AAAATAAAAT
1 -AAATAAAAT
96176864 AAATAAAAT
1 AAATAAAAT
96176873 AAA
1 AAA
96176876 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:96187316 original size:23 final size:22
Alignment explanation
Indices: 96187290--96187334 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
96187280 TTTATTTTGA
96187290 GAACTTTATTTTTTATGTTCTTT
1 GAACTTTATTTTTT-TGTTCTTT
* *
96187313 GAACTTTCTTTTTTTTTTCTTT
1 GAACTTTATTTTTTTGTTCTTT
96187335 ATTTTCTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.69
Consensus pattern (22 bp):
GAACTTTATTTTTTTGTTCTTT
Found at i:96188789 original size:23 final size:23
Alignment explanation
Indices: 96188726--96188789 Score: 58
Period size: 26 Copynumber: 2.7 Consensus size: 23
96188716 TTATTTAAAT
96188726 TTTTTTAAATAATTTAATGAATA
1 TTTTTTAAATAATTTAATGAATA
* *
96188749 TTTGTAATTCAATTATTTAAAT-AATA
1 TTT-T--TTAAATAATTT-AATGAATA
*
96188775 TTTTTTGAATAATTT
1 TTTTTTAAATAATTT
96188790 TTTCATCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
23 12 0.36
24 1 0.03
25 1 0.03
26 16 0.48
27 3 0.09
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (23 bp):
TTTTTTAAATAATTTAATGAATA
Found at i:96197603 original size:14 final size:15
Alignment explanation
Indices: 96197584--96197612 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
96197574 AAATAATTAT
96197584 AAAT-AAAATAAAAA
1 AAATAAAAATAAAAA
96197598 AAATAAAAATAAAAA
1 AAATAAAAATAAAAA
96197613 TGAAAGAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (15 bp):
AAATAAAAATAAAAA
Found at i:96198297 original size:19 final size:18
Alignment explanation
Indices: 96198260--96198302 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
96198250 TAAGTACTTG
* *
96198260 AATTTGGTTTTAAATTTT
1 AATTTGGTCTTAAAGTTT
96198278 AATTTGGTACTTAAAGTTT
1 AATTTGGT-CTTAAAGTTT
*
96198297 ATTTTG
1 AATTTG
96198303 ATCTAATTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.56
Consensus pattern (18 bp):
AATTTGGTCTTAAAGTTT
Found at i:96201831 original size:35 final size:35
Alignment explanation
Indices: 96201787--96201953 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
96201777 TCCTCATTGA
** *
96201787 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
96201822 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
96201862 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
96201897 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
96201932 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
96201954 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:96201870 original size:75 final size:73
Alignment explanation
Indices: 96201782--96201953 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
96201772 GGTTTTCCTC
** * * **
96201782 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
96201846 TCAGTATGG
65 TCAGTATGG
*
96201855 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
96201920 CTCAGTATGG
64 CTCAGTATGG
96201930 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
96201954 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:96209327 original size:35 final size:35
Alignment explanation
Indices: 96209283--96209449 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
96209273 TCCTCATTGA
** *
96209283 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
96209318 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
96209358 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
96209393 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
96209428 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
96209450 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:96209366 original size:75 final size:73
Alignment explanation
Indices: 96209278--96209449 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
96209268 GGTTTTCCTC
** * * **
96209278 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
96209342 TCAGTATGG
65 TCAGTATGG
*
96209351 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
96209416 CTCAGTATGG
64 CTCAGTATGG
96209426 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
96209450 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:96212017 original size:17 final size:19
Alignment explanation
Indices: 96211984--96212027 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
96211974 AATTCAAGAA
96211984 AATTTTTATAATTTTTCCTG
1 AATTTTTAT-ATTTTTCCTG
*
96212004 -ATTTTTAT-TTTTTCTTG
1 AATTTTTATATTTTTCCTG
96212021 AATTTTT
1 AATTTTT
96212028 TCCTCATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 8 0.36
18 6 0.27
19 8 0.36
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (19 bp):
AATTTTTATATTTTTCCTG
Found at i:96214535 original size:17 final size:19
Alignment explanation
Indices: 96214496--96214538 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
96214486 TTAAAAAAGA
96214496 ATTA-TTTTAACATTTTAT
1 ATTATTTTTAACATTTTAT
*
96214514 TTTATTTTTAA-A-TTTAT
1 ATTATTTTTAACATTTTAT
96214531 ATTATTTT
1 ATTATTTT
96214539 AAAAATCACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 12 0.55
18 4 0.18
19 6 0.27
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTATTTTTAACATTTTAT
Found at i:96214544 original size:18 final size:18
Alignment explanation
Indices: 96214496--96214544 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
96214486 TTAAAAAAGA
* *
96214496 ATTATTTTAACATTTTAT
1 ATTATTTTAAAAATTTAT
* *
96214514 TTTATTTT-TAAATTTAT
1 ATTATTTTAAAAATTTAT
96214531 ATTATTTTAAAAAT
1 ATTATTTTAAAAAT
96214545 CACTTAAAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTATTTTAAAAATTTAT
Found at i:96214625 original size:20 final size:20
Alignment explanation
Indices: 96214600--96214659 Score: 102
Period size: 20 Copynumber: 2.9 Consensus size: 20
96214590 ACATATAAAA
96214600 TTAAAAATTTAAAAATATTT
1 TTAAAAATTTAAAAATATTT
96214620 TTAAAAATTTAAAAATATTT
1 TTAAAAATTTAAAAATATTT
96214640 TTAAAAATTATTAAAAATAT
1 TTAAAAA-T-TTAAAAATAT
96214660 AATATATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
20 27 0.71
21 1 0.03
22 10 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAAAAATTTAAAAATATTT
Found at i:96214629 original size:10 final size:10
Alignment explanation
Indices: 96214600--96214657 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
96214590 ACATATAAAA
96214600 TTAAAAA-TT
1 TTAAAAATTT
*
96214609 TAAAAATATTT
1 TTAAAA-ATTT
96214620 TTAAAAA-TT
1 TTAAAAATTT
*
96214629 TAAAAATATTT
1 TTAAAA-ATTT
*
96214640 TTAAAAATTA
1 TTAAAAATTT
96214650 TTAAAAAT
1 TTAAAAAT
96214658 ATAATATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
9 12 0.30
10 14 0.35
11 14 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
TTAAAAATTT
Found at i:96214651 original size:13 final size:12
Alignment explanation
Indices: 96214607--96214659 Score: 55
Period size: 11 Copynumber: 4.9 Consensus size: 12
96214597 AAATTAAAAA
96214607 TTTAAAAATATT
1 TTTAAAAATATT
96214619 TTT-AAAA-A--
1 TTTAAAAATATT
96214627 TTTAAAAATATT
1 TTTAAAAATATT
96214639 TTT-AAAA-ATT
1 TTTAAAAATATT
*
96214649 ATTAAAAATAT
1 TTTAAAAATAT
96214660 AATATATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
8 3 0.09
9 4 0.12
10 7 0.21
11 12 0.35
12 8 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TTTAAAAATATT
Found at i:96222378 original size:15 final size:16
Alignment explanation
Indices: 96222360--96222391 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
96222350 AAATATAATA
96222360 ATAT-AAAATTACATT
1 ATATAAAAATTACATT
96222375 ATATAAAAATTACATT
1 ATATAAAAATTACATT
96222391 A
1 A
96222392 AAAAATCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATTACATT
Found at i:96222528 original size:122 final size:113
Alignment explanation
Indices: 96222402--96222874 Score: 503
Period size: 114 Copynumber: 4.0 Consensus size: 113
96222392 AAAAATCACA
* * * * *
96222402 AAACACTAAACTATAAACACTAACAATTTATAATCATATACTAACACAAAATAACTATAAAATTA
1 AAACACTAAACTATATA-ACTAACAATCT-TAA--AT-TACT-A-ATAAAATAGCTATAAAAATA
*
96222467 TTTTTTT-AAATACATTACTAAAAAAAATCACAATACACTAATACACACTAAACCACT
59 TTTTTTTAAAATATATTACT-AAAAAAATCACAATACACTAAT--ACACTAAACCACT
* *
96222524 AAACACTAACAATATATAACT--TAATCTTAAATTACTAATAAAATAGCTATAAAAATATTTTTT
1 AAACACTAA-ACTATATAACTAACAATCTTAAATTACTAATAAAATAGCTATAAAAATATTTTTT
96222587 TAAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACT
65 TAAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACT
* *
96222636 AAACACT-AACAATTTATA-TAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAATATTTT
1 AAACACTAAACTATATA-ACTAA-C-AATCTTAAATTACTAATAAAATAGCTATAAAAATATTTT
96222699 TTTAAAATATATTACTAAAAAAATTACAATACACTAATACACTAATACACTAAACCACT
63 TTTAAAATATATTACT---AAAA--A-AAT-CAC-AATACACTAATACACTAAACCACT
* * * *
96222758 AAACACT-AACAATTTATA-TAACCTAATCTTAAATTACTAATAAAATAGCTCTAAAATTATTTT
1 AAACACTAAACTATATA-ACTAA-C-AATCTTAAATTACTAATAAAATAGCTATAAAAATATTTT
**
96222821 TAAAAATATATTATTACTAAAAAAATCACAATACACTAATACACTAAA-CACT
63 TTTAAA-ATA-TATTACTAAAAAAATCACAATACACTAATACACTAAACCACT
96222873 AA
1 AA
96222875 CAATTTGTAA
Statistics
Matches: 318, Mismatches: 16, Indels: 41
0.85 0.04 0.11
Matches are distributed among these distances:
110 6 0.02
111 2 0.01
112 20 0.06
114 101 0.32
115 18 0.06
116 23 0.07
117 9 0.03
118 3 0.01
119 5 0.02
120 7 0.02
121 7 0.02
122 101 0.32
123 9 0.03
124 7 0.02
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (113 bp):
AAACACTAAACTATATAACTAACAATCTTAAATTACTAATAAAATAGCTATAAAAATATTTTTTT
AAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACT
Found at i:96222611 original size:114 final size:115
Alignment explanation
Indices: 96222449--96222864 Score: 624
Period size: 114 Copynumber: 3.6 Consensus size: 115
96222439 ATACTAACAC
* * *
96222449 AAAATAACTATAAAATTATTTTTTT-AAATACATTACTAAAAAAAATCACAATACACTAATACAC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACT-AAAAAAATCACAATACACTAATACAC
*
96222513 ACTAAACCACTAAACACTAACAA-TATATAACTTAATCTTAAATTACTAAT
65 ACTAAACCACTAAACACTAACAATTATATAACCTAATCTTAAATTACTAAT
96222563 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAAT--ACA
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACA
96222626 CTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
66 CTAAACCACTAAACACTAACAA-TTATATAACCTAATCTTAAATTACTAAT
*
96222677 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATTACAATACACTAATACACT
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAAT--AC-
96222742 AATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
63 ---ACACTAAACCACTAAACACTAACAA-TTATATAACCTAATCTTAAATTACTAAT
* * **
96222799 AAAATAGCTCTAAAATTATTTTTAAAAATATATTATTACTAAAAAAATCACAATACACTAATACA
1 AAAATAGCTATAAAAATATTTTTTTAAA-ATA-TATTACTAAAAAAATCACAATACACTAATACA
96222864 C
64 C
96222865 TAAACACTAA
Statistics
Matches: 279, Mismatches: 10, Indels: 22
0.90 0.03 0.07
Matches are distributed among these distances:
112 25 0.09
114 130 0.47
115 11 0.04
118 2 0.01
122 80 0.29
123 3 0.01
124 28 0.10
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (115 bp):
AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACA
CTAAACCACTAAACACTAACAATTATATAACCTAATCTTAAATTACTAAT
Found at i:96222739 original size:8 final size:8
Alignment explanation
Indices: 96222726--96222766 Score: 59
Period size: 8 Copynumber: 5.2 Consensus size: 8
96222716 AAAAAATTAC
96222726 AATACACT
1 AATACACT
96222734 AATACACT
1 AATACACT
96222742 AATACACT
1 AATACACT
96222750 AA-ACCACT
1 AATA-CACT
96222758 AA-ACACT
1 AATACACT
96222765 AA
1 AA
96222767 CAATTTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.22
8 25 0.78
ACGTcount: A:0.54, C:0.27, G:0.00, T:0.20
Consensus pattern (8 bp):
AATACACT
Found at i:96222802 original size:236 final size:229
Alignment explanation
Indices: 96222449--96222874 Score: 660
Period size: 236 Copynumber: 1.8 Consensus size: 229
96222439 ATACTAACAC
*
96222449 AAAATAACTATAAAATTATTTTTTTAAATACATTACTAAAAAAAATCACAATACACTAATACACA
1 AAAATAACTATAAAAATATTTTTTTAAATACATTACTAAAAAAAATCACAATACACTAATACACA
*
96222514 CTAAACCACTAAACACTAACAATATATAACTTAATCTTAAATTACTAATAAAATAGCTATAAAAA
66 CTAAACCACTAAACACTAACAATATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAA
**
96222579 TATTTTTTTAAA-ATA-TATTACTAAAAAAATCACAATACACTAATACACTAAACCACTAAACAC
131 TATTTTTAAAAATATATTATTACTAAAAAAATCACAATACACTAATACACTAAA-CACTAAACAC
96222642 TAACAATTTATATAACCTAATCTTAAATTACTAAT
195 TAACAATTTATATAACCTAATCTTAAATTACTAAT
* * *
96222677 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACT-AAAAAAATTACAATACACTAATACAC
1 AAAATAACTATAAAAATATTTTTTT-AAATACATTACTAAAAAAAATCACAATACACTAAT--AC
96222741 TAATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAG
63 ----ACACTAAACCACTAAACACTAACAA--TATATAACCTAATCTTAAATTACTAATAAAATAG
* *
96222806 CTCTAAAATTATTTTTAAAAATATATTATTACTAAAAAAATCACAATACACTAATACACTAAACA
122 CTATAAAAATATTTTTAAAAATATATTATTACTAAAAAAATCACAATACACTAATACACTAAACA
96222871 CTAA
187 CTAA
96222875 CAATTTGTAA
Statistics
Matches: 178, Mismatches: 9, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
228 44 0.25
229 11 0.06
230 2 0.01
234 25 0.14
236 50 0.28
237 9 0.05
238 37 0.21
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (229 bp):
AAAATAACTATAAAAATATTTTTTTAAATACATTACTAAAAAAAATCACAATACACTAATACACA
CTAAACCACTAAACACTAACAATATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAA
TATTTTTAAAAATATATTATTACTAAAAAAATCACAATACACTAATACACTAAACACTAAACACT
AACAATTTATATAACCTAATCTTAAATTACTAAT
Found at i:96223078 original size:3 final size:3
Alignment explanation
Indices: 96223072--96223111 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
96223062 TTACCCTTTT
*
96223072 TTC TTC TT- TTT TTC TTC TTC TTC TTC TTCC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC T
96223112 CCTCCTCCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:96223106 original size:16 final size:15
Alignment explanation
Indices: 96223072--96223111 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
96223062 TTACCCTTTT
*
96223072 TTCTTCTT-TTTTTC
1 TTCTTCTTCTTTTCC
96223086 TTCTTCTTCTTCTTCC
1 TTCTTCTTCTT-TTCC
96223102 TTCTTCTTCT
1 TTCTTCTTCT
96223112 CCTCCTCCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.35
15 2 0.09
16 13 0.57
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
TTCTTCTTCTTTTCC
Found at i:96224891 original size:19 final size:21
Alignment explanation
Indices: 96224864--96224915 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
96224854 ATTCTAGAAC
*
96224864 TTTATATAATA-TGCTA-ATTA
1 TTTA-ATAATATTGATATATTA
*
96224884 TTTAATAATGATTTATATATTA
1 TTTAATAAT-ATTGATATATTA
96224906 TTTAATAATA
1 TTTAATAATA
96224916 ATTTAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 5 0.19
20 5 0.19
21 4 0.15
22 13 0.48
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (21 bp):
TTTAATAATATTGATATATTA
Found at i:96224897 original size:11 final size:11
Alignment explanation
Indices: 96224878--96224921 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
96224868 TATAATATGC
96224878 TAATTATTTAA
1 TAATTATTTAA
*
96224889 TAATGATTT-A
1 TAATTATTTAA
96224899 TATATTATTTAA
1 TA-ATTATTTAA
*
96224911 TAATAATTTAA
1 TAATTATTTAA
96224922 AAAAAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 3 0.11
11 22 0.79
12 3 0.11
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (11 bp):
TAATTATTTAA
Found at i:96225026 original size:28 final size:25
Alignment explanation
Indices: 96224960--96225059 Score: 82
Period size: 28 Copynumber: 4.0 Consensus size: 25
96224950 ATAATAAAAT
*
96224960 AATATATAATTTATAAT-AAAATAA
1 AATATATAATGTATAATAAAAATAA
* *
96224984 AA-ATATAAGGAATAATAAATATAGTAA
1 AATATATAATGTATAATAAA-A-A-TAA
*
96225011 AATATATAATGTATAATAAAACTTATA
1 AATATATAATGTATAATAAAA-ATA-A
*
96225038 AATA-A-AATGTATAATAATAATA
1 AATATATAATGTATAATAAAAATA
96225060 TAACATAATG
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
23 11 0.18
24 6 0.10
25 14 0.23
26 4 0.07
27 11 0.18
28 15 0.25
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (25 bp):
AATATATAATGTATAATAAAAATAA
Found at i:96225037 original size:12 final size:12
Alignment explanation
Indices: 96224995--96225054 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 12
96224985 AATATAAGGA
96224995 ATAATAAATATAGT
1 ATAATAAA-AT-GT
*
96225009 AAAATATATAATGT
1 ATAATA-A-AATGT
96225023 ATAATAAAACT-T
1 ATAATAAAA-TGT
96225035 ATAAATAAAATGT
1 AT-AATAAAATGT
96225048 ATAATAA
1 ATAATAA
96225055 TAATATAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
12 11 0.28
13 12 0.31
14 12 0.31
15 3 0.08
16 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (12 bp):
ATAATAAAATGT
Found at i:96225067 original size:25 final size:24
Alignment explanation
Indices: 96224950--96225067 Score: 82
Period size: 23 Copynumber: 4.8 Consensus size: 24
96224940 CCATTAAAGA
* * *
96224950 ATAAT-AAA-ATAATATATAATTT
1 ATAATAAAATATAAAATAAAATGT
* * *
96224972 ATAATAAAATA-AAAATATAAGGA
1 ATAATAAAATATAAAATAAAATGT
96224995 ATAATAAATATAGTAAAATATATAATGT
1 ATAATAAA-ATA-TAAAATA-A-AATGT
96225023 ATAATAAAACT-TATAAATAAAATGT
1 ATAATAAAA-TATA-AAATAAAATGT
*
96225048 ATAATAATAATATAACATAA
1 ATAATAA-AATATAAAATAA
96225068 TGAATAATAT
Statistics
Matches: 77, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
22 5 0.06
23 19 0.25
24 4 0.05
25 18 0.23
26 13 0.17
27 6 0.08
28 12 0.16
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (24 bp):
ATAATAAAATATAAAATAAAATGT
Found at i:96225084 original size:17 final size:16
Alignment explanation
Indices: 96225048--96225096 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
96225038 AATAAAATGT
*
96225048 ATAATAATAATATAAC
1 ATAATAATAATATATC
*
96225064 ATAATGAATAATATATG
1 ATAAT-AATAATATATC
*
96225081 ATAAAAAATAATATAT
1 AT-AATAATAATATAT
96225097 ATACTATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 5 0.18
17 21 0.75
18 2 0.07
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (16 bp):
ATAATAATAATATATC
Found at i:96227075 original size:30 final size:30
Alignment explanation
Indices: 96227034--96227105 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
96227024 GTTGCTCTGG
* * *
96227034 GTGAAATGAACTCAAACCGCCCATGTCCAA
1 GTGATATGAACTCAAACCGCCAATATCCAA
** * *
96227064 GTGATATGAACTTGAGCCGCCAATATCCTA
1 GTGATATGAACTCAAACCGCCAATATCCAA
96227094 GTGATATGAACT
1 GTGATATGAACT
96227106 GCTCTGCAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (30 bp):
GTGATATGAACTCAAACCGCCAATATCCAA
Found at i:96228966 original size:22 final size:25
Alignment explanation
Indices: 96228932--96228976 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
96228922 AAAAGTAACC
*
96228932 TAAAAAATTTAAT-ATAT-TTAAAT
1 TAAAAAATGTAATAATATATTAAAT
96228955 TAAAAAA-GTAATAATATATTAA
1 TAAAAAATGTAATAATATATTAA
96228977 TATATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 11 0.58
24 4 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
TAAAAAATGTAATAATATATTAAAT
Found at i:96228989 original size:18 final size:19
Alignment explanation
Indices: 96228966--96229004 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
96228956 AAAAAAGTAA
96228966 TAATATATTAA-TATATTT
1 TAATATATTAAGTATATTT
96228984 TAATATATTAAGTATATTT
1 TAATATATTAAGTATATTT
96229003 TA
1 TA
96229005 TAGTCAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TAATATATTAAGTATATTT
Found at i:96229056 original size:17 final size:17
Alignment explanation
Indices: 96229019--96229083 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
96229009 CAACATTTTC
*
96229019 TTTTAATATATTTAAAG
1 TTTTAATATATTTAAAT
96229036 TTTTAATATATTTAAATTT
1 TTTTAATATATTTAAA--T
*
96229055 TTTTAAGT-TTTTTAAAT
1 TTTTAA-TATATTTAAAT
*
96229072 TTTAAATATATT
1 TTTTAATATATT
96229084 AAAAAATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
16 1 0.03
17 25 0.62
19 13 0.32
20 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
TTTTAATATATTTAAAT
Found at i:96229058 original size:19 final size:19
Alignment explanation
Indices: 96229019--96229074 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
96229009 CAACATTTTC
*
96229019 TTTTAATATATTTAAA--G
1 TTTTAATATATTTAAATTT
96229036 TTTTAATATATTTAAATTT
1 TTTTAATATATTTAAATTT
*
96229055 TTTTAAGT-TTTTTAAATTT
1 TTTTAA-TATATTTAAATTT
96229074 T
1 T
96229075 AAATATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 16 0.47
19 17 0.50
20 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (19 bp):
TTTTAATATATTTAAATTT
Found at i:96229097 original size:21 final size:21
Alignment explanation
Indices: 96229073--96229149 Score: 81
Period size: 21 Copynumber: 3.7 Consensus size: 21
96229063 TTTTTAAATT
96229073 TTAAATATATTAAAAAATATA
1 TTAAATATATTAAAAAATATA
96229094 TTAAATATATT--AAAAT-T-
1 TTAAATATATTAAAAAATATA
*
96229111 TTAAAATATATTTTTAAAAATATA
1 TT-AAATATA--TTAAAAAATATA
*
96229135 TTGAATATATTAAAA
1 TTAAATATATTAAAA
96229150 TATTAAAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
17 2 0.04
18 8 0.17
19 5 0.11
20 2 0.04
21 16 0.34
22 5 0.11
23 7 0.15
24 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (21 bp):
TTAAATATATTAAAAAATATA
Found at i:96229135 original size:41 final size:39
Alignment explanation
Indices: 96229068--96229158 Score: 130
Period size: 41 Copynumber: 2.3 Consensus size: 39
96229058 TAAGTTTTTT
96229068 AAATTTT-AAATATATTAAAAAATATATTAAATATATTA
1 AAATTTTAAAATATATTAAAAAATATATTAAATATATTA
* *
96229106 AAATTTTAAAATATATTTTTAAAAATATATTGAATATATTA
1 AAATTTTAAAATATA--TTAAAAAATATATTAAATATATTA
*
96229147 AAATATTAAAAT
1 AAATTTTAAAAT
96229159 TGTTTATACT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
38 7 0.15
39 7 0.15
41 33 0.70
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (39 bp):
AAATTTTAAAATATATTAAAAAATATATTAAATATATTA
Found at i:96229235 original size:69 final size:70
Alignment explanation
Indices: 96229120--96229286 Score: 234
Period size: 69 Copynumber: 2.4 Consensus size: 70
96229110 TTTAAAATAT
* * *
96229120 ATTTTTAAAAATATATTGAATATATTAAAATATTAAAATTGTTTATACTTAATATTTTTTAATAT
1 ATTTTTTAAAATATATTGAATATATTAAAATATTAAAATTGGTTATACTTAACATTTTTTAATAT
96229185 ATTTA
66 ATTTA
* *
96229190 ATTTTTTAAAATATATAT-ACTAT-TTAAAATTTTAAAATTGGTTATACTTAACATTTTTTAATA
1 ATTTTTTAAAATATAT-TGAATATATTAAAATATTAAAATTGGTTATACTTAACATTTTTTAATA
96229253 TATTTA
65 TATTTA
* *
96229259 ATTTTTTAAAGT-T-TTAAATATATTAAAA
1 ATTTTTTAAAATATATTGAATATATTAAAA
96229287 ACTATTTTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
66 1 0.01
67 5 0.06
68 7 0.08
69 54 0.62
70 19 0.22
71 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.51
Consensus pattern (70 bp):
ATTTTTTAAAATATATTGAATATATTAAAATATTAAAATTGGTTATACTTAACATTTTTTAATAT
ATTTA
Found at i:96229811 original size:20 final size:21
Alignment explanation
Indices: 96229779--96229832 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
96229769 TGATTAGTTA
96229779 TAATATATA-TTTTTAATTTT
1 TAATATATATTTTTTAATTTT
* **
96229799 TAATTTA-ATTTTTTTCTTTT
1 TAATATATATTTTTTAATTTT
96229819 TAATATATATTTTT
1 TAATATATATTTTT
96229833 AAGTAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.04
20 21 0.75
21 6 0.21
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
TAATATATATTTTTTAATTTT
Found at i:96229868 original size:19 final size:17
Alignment explanation
Indices: 96229820--96229884 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
96229810 TTTTCTTTTT
* *
96229820 AATATATATTTTTAAGTA
1 AATATATTTTTTTAA-CA
*
96229838 AATTTA-TTTTTTAACA
1 AATATATTTTTTTAACA
96229854 AATAAATATTTTTTTAACA
1 AAT--ATATTTTTTTAACA
96229873 AATATATTTTTT
1 AATATATTTTTT
96229885 AATTAATTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 4 0.10
17 16 0.40
18 7 0.17
19 13 0.32
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.54
Consensus pattern (17 bp):
AATATATTTTTTTAACA
Found at i:96229877 original size:15 final size:16
Alignment explanation
Indices: 96229820--96229886 Score: 71
Period size: 19 Copynumber: 3.9 Consensus size: 16
96229810 TTTTCTTTTT
*
96229820 AATATATATTTTTAAGTA
1 AATATAT-TTTTTAA-CA
*
96229838 AATTTATTTTTTAACA
1 AATATATTTTTTAACA
96229854 AATAAATATTTTTTTAACA
1 AAT--ATA-TTTTTTAACA
96229873 AATATATTTTTTAA
1 AATATATTTTTTAA
96229887 TTAATTCAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
16 12 0.28
17 10 0.23
18 8 0.19
19 13 0.30
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.52
Consensus pattern (16 bp):
AATATATTTTTTAACA
Found at i:96229980 original size:11 final size:11
Alignment explanation
Indices: 96229964--96230025 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 11
96229954 TTTGAATATC
96229964 TTTAAAAATAA
1 TTTAAAAATAA
96229975 TTTAAAAATTATAA
1 TTT-AAAA--ATAA
96229989 TTT-AAAAT-A
1 TTTAAAAATAA
96229998 -TTATAAAATAA
1 TTTA-AAAATAA
96230009 TTTAAAAAT-A
1 TTTAAAAATAA
96230019 TTTAAAA
1 TTTAAAA
96230026 TATTATAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
8 2 0.05
9 1 0.02
10 15 0.34
11 9 0.20
12 10 0.23
14 7 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TTTAAAAATAA
Found at i:96229990 original size:14 final size:15
Alignment explanation
Indices: 96229971--96230003 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
96229961 ATCTTTAAAA
96229971 ATAATTTAAAA-ATT
1 ATAATTTAAAATATT
96229985 ATAATTTAAAATATT
1 ATAATTTAAAATATT
96230000 ATAA
1 ATAA
96230004 AATAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATTTAAAATATT
Found at i:96230006 original size:10 final size:9
Alignment explanation
Indices: 96229988--96230035 Score: 60
Period size: 10 Copynumber: 4.9 Consensus size: 9
96229978 AAAAATTATA
96229988 ATTTAAAAT
1 ATTTAAAAT
96229997 ATTATAAAAT
1 ATT-TAAAAT
96230007 AATTTAAAAAT
1 -ATTT-AAAAT
96230018 ATTTAAAAT
1 ATTTAAAAT
96230027 ATTATAAAA
1 ATT-TAAAA
96230036 CTAATAATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 11 0.31
10 16 0.46
11 8 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
ATTTAAAAT
Found at i:96230034 original size:20 final size:21
Alignment explanation
Indices: 96229985--96230035 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
96229975 TTTAAAAATT
96229985 ATAATTT-AAAATATTATAAA
1 ATAATTTAAAAATATTATAAA
96230005 ATAATTTAAAAATATT-TAAA
1 ATAATTTAAAAATATTATAAA
96230025 AT-ATTATAAAA
1 ATAATT-TAAAA
96230036 CTAATAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.10
20 18 0.62
21 8 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
ATAATTTAAAAATATTATAAA
Found at i:96230043 original size:34 final size:33
Alignment explanation
Indices: 96229968--96230040 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 33
96229958 AATATCTTTA
96229968 AAAATAATTTAAAAATTATAATTTAAAATATTAT
1 AAAATAATTTAAAAA-TATAATTTAAAATATTAT
96230002 AAAATAATTT-AAAA-AT-ATTTAAAATATTAT
1 AAAATAATTTAAAAATATAATTTAAAATATTAT
96230032 AAAACTAAT
1 AAAA-TAAT
96230041 AATGAATTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
30 18 0.47
31 6 0.16
33 4 0.11
34 10 0.26
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (33 bp):
AAAATAATTTAAAAATATAATTTAAAATATTAT
Found at i:96230105 original size:21 final size:20
Alignment explanation
Indices: 96230081--96230162 Score: 85
Period size: 20 Copynumber: 3.9 Consensus size: 20
96230071 ATTTAAATGT
*
96230081 TTTATATTATTAAAAATAATA
1 TTTATATT-TAAAAAATAATA
*
96230102 TTTAACATTTAAAAAAT-ATA
1 TTT-ATATTTAAAAAATAATA
96230122 TTTTATATTTAAAAAATAATA
1 -TTTATATTTAAAAAATAATA
*
96230143 TTTAAAATTTTAAAAAATAA
1 TTT-ATA-TTTAAAAAATAA
96230163 ATTCAAAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
20 18 0.35
21 18 0.35
22 16 0.31
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTATATTTAAAAAATAATA
Found at i:96230115 original size:20 final size:20
Alignment explanation
Indices: 96230090--96230172 Score: 80
Period size: 20 Copynumber: 4.0 Consensus size: 20
96230080 TTTTATATTA
*
96230090 TTAAAAATAATATTTAACAT
1 TTAAAAATAATATTTAAAAT
* *
96230110 TTAAAAA-ATATATTTTATAT
1 TTAAAAATA-ATATTTAAAAT
96230130 TTAAAAAATAATATTTAAAATT
1 TT-AAAAATAATATTTAAAA-T
*
96230152 TTAAAAAATAA-ATTCAAAAT
1 TT-AAAAATAATATTTAAAAT
96230172 T
1 T
96230173 ATATATTTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
19 1 0.02
20 20 0.37
21 20 0.37
22 13 0.24
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAAAATAATATTTAAAAT
Done.