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 327 of 328
Found at i:96946098 original size:25 final size:25
Alignment explanation
Indices: 96945942--96946098 Score: 95
Period size: 25 Copynumber: 6.3 Consensus size: 25
96945932 TCAAATAACT
* *
96945942 TGCCACAAAGGCTTTCCAGATTATA
1 TGCCACAAAGGCTTTCTAGATAATA
* * * * * *
96945967 CGTCACATAGGCTTTTTACATAATT
1 TGCCACAAAGGCTTTCTAGATAATA
* * * *
96945992 TGTCACAATGACTTTCCAGATAATA
1 TGCCACAAAGGCTTTCTAGATAATA
* * *
96946017 CGCCATAATGGCTTT-TAAGATAATA
1 TGCCACAAAGGCTTTCT-AGATAATA
* * *
96946042 TGCCACATAGGATTT-TCAAATAACT-
1 TGCCACAAAGGCTTTCT-AGATAA-TA
*
96946067 TGACACAAAGGCTTTCTAGATAATA
1 TGCCACAAAGGCTTTCTAGATAATA
96946092 TGCCACA
1 TGCCACA
96946099 TAAACCTTGT
Statistics
Matches: 95, Mismatches: 33, Indels: 8
0.70 0.24 0.06
Matches are distributed among these distances:
24 1 0.01
25 92 0.97
26 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (25 bp):
TGCCACAAAGGCTTTCTAGATAATA
Found at i:96947643 original size:14 final size:14
Alignment explanation
Indices: 96947615--96947765 Score: 50
Period size: 15 Copynumber: 10.4 Consensus size: 14
96947605 TTTGTTGTTT
96947615 TATTATATTATTAC
1 TATTATATTATTAC
96947629 TATTAGTATTA-TAC
1 TATTA-TATTATTAC
96947643 T-TGTAT-TTA-TA-
1 TAT-TATATTATTAC
*
96947654 T-TTATTTTATT-C
1 TATTATATTATTAC
*
96947666 TAATACCATTATTATTAC
1 T-AT--TAT-ATTATTAC
* *
96947684 TACTTCTATTATTAT
1 TA-TTATATTATTAC
*
96947699 TATTATTATTATTAT
1 TATTA-TATTATTAC
*
96947714 TATTATTATTATTTTC
1 TATTA-TATTA-TTAC
*
96947730 ATACATATATATTGTTA-
1 -T--AT-TATATTATTAC
96947747 T-TTATATTATTAC
1 TATTATATTATTAC
96947760 TATTAT
1 TATTAT
96947766 TAACGCTCTT
Statistics
Matches: 106, Mismatches: 11, Indels: 40
0.68 0.07 0.25
Matches are distributed among these distances:
10 3 0.03
11 5 0.05
12 16 0.15
13 4 0.04
14 18 0.17
15 34 0.32
16 6 0.06
17 7 0.07
18 5 0.05
19 6 0.06
20 2 0.02
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (14 bp):
TATTATATTATTAC
Found at i:96947681 original size:3 final size:3
Alignment explanation
Indices: 96947673--96947986 Score: 80
Period size: 3 Copynumber: 106.3 Consensus size: 3
96947663 TTCTAATACC
* *
96947673 ATT ATT ATT ACT ACTT CT- ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
96947718 ATT ATT ATT -TT CA-T ACAT ATAT ATT GTT ATT -TAT ATT ATT ACT ATT
1 ATT ATT ATT ATT -ATT A-TT AT-T ATT ATT ATT AT-T ATT ATT ATT ATT
** ** * ** * * * *
96947764 ATT AAC GCT CTT ATT ATT GCT ATT ATT ATCC CTT -TT ACT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
* * * * *
96947809 ATT ATT ACT ATCT TTT TTT ATGT -TT ATT TTT ATT AAT ATT ATT ATT
1 ATT ATT ATT AT-T ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
96947855 A-T AAT CTT ATT -TT ATT ACT ATT ATC ATT -TT -TT A-A ATT ATT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * ** * * ** *
96947898 ACT ATT ATT CTT -TT ACC ATT -TA ATAC ATT ATT ATT GCT ATT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
* * * * *
96947942 GTT ATT ATT ACT ATT ACT ATT -GT ATT ATT ACT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
96947987 CATTTTCTTT
Statistics
Matches: 217, Mismatches: 72, Indels: 44
0.65 0.22 0.13
Matches are distributed among these distances:
2 21 0.10
3 183 0.84
4 13 0.06
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:96947969 original size:20 final size:20
Alignment explanation
Indices: 96947944--96947982 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
96947934 CTATTTTTGT
96947944 TATTATTACTATTACTATTG
1 TATTATTACTATTACTATTG
*
96947964 TATTATTACTATTATTATT
1 TATTATTACTATTACTATT
96947983 ATTACATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.59
Consensus pattern (20 bp):
TATTATTACTATTACTATTG
Found at i:96948394 original size:3 final size:3
Alignment explanation
Indices: 96948149--96948378 Score: 155
Period size: 3 Copynumber: 76.7 Consensus size: 3
96948139 CAAACTTTAG
* *
96948149 ATT ATTT ATT ATT -TGT ATT ATT ATT ATT ATT ACT ACT ATTT ATT ATT
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
** * * * *
96948196 ACC ATT ATT ATT ACT ATT ATT TTT ACTT -TT ATT ACT ATT ACT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
* * * * * *
96948240 ATT ATT TTT ATT TTT ATT TTT ATT TTCT ATT ACT ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
* * * * * * *
96948286 ATT AAT ACT AAT ATT AAT ATT CTT ATT ATT ATC ATT AGT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
96948334 -TT -TT ACT ACT ATT ATT ATT ATC AAT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
96948379 CGTTTTCATT
Statistics
Matches: 175, Mismatches: 43, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
2 9 0.05
3 156 0.89
4 10 0.06
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:96953876 original size:20 final size:20
Alignment explanation
Indices: 96953851--96953893 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
96953841 TTGTTTGGAA
*
96953851 CTTTTTCCAGGATTCTTGAT
1 CTTTTTCCAGGATTCTTCAT
*
96953871 CTTTTTCTAGGATTCTTCAT
1 CTTTTTCCAGGATTCTTCAT
96953891 CTT
1 CTT
96953894 AAAATATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.21, G:0.12, T:0.53
Consensus pattern (20 bp):
CTTTTTCCAGGATTCTTCAT
Found at i:96955958 original size:20 final size:20
Alignment explanation
Indices: 96955933--96955972 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
96955923 TGGAGATGGT
96955933 AATAAAGATTCTGGCTGGAC
1 AATAAAGATTCTGGCTGGAC
96955953 AATAAAGATTCTGGCTGGAC
1 AATAAAGATTCTGGCTGGAC
96955973 TCATGGGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (20 bp):
AATAAAGATTCTGGCTGGAC
Found at i:96985112 original size:45 final size:45
Alignment explanation
Indices: 96985040--96985126 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 45
96985030 CAAATCTACC
*
96985040 CTTTGAACTTAATTCTTATTAGCTTAATGAA-ATATAATGACTTAT
1 CTTTGAACTTAATTCTTACTAGCTTAAT-AACATATAATGACTTAT
* *
96985085 CTTTTAACTTAATTCTTACTAGTTTAATAACATATAATGACT
1 CTTTGAACTTAATTCTTACTAGCTTAATAACATATAATGACT
96985127 AATAAATAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 2 0.05
45 36 0.95
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.45
Consensus pattern (45 bp):
CTTTGAACTTAATTCTTACTAGCTTAATAACATATAATGACTTAT
Found at i:96989667 original size:14 final size:16
Alignment explanation
Indices: 96989648--96989686 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
96989638 TAATTCATGA
96989648 TTCAAAAATT-TC-AT
1 TTCAAAAATTGTCAAT
96989662 TTCAAAAATTGTCAAT
1 TTCAAAAATTGTCAAT
*
96989678 TCCAAAAAT
1 TTCAAAAAT
96989687 GATAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.45
15 2 0.09
16 10 0.45
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (16 bp):
TTCAAAAATTGTCAAT
Found at i:96992214 original size:17 final size:17
Alignment explanation
Indices: 96992192--96992252 Score: 68
Period size: 17 Copynumber: 3.4 Consensus size: 17
96992182 AGTCATCTTA
96992192 ACATTATTTAAATATTT
1 ACATTATTTAAATATTT
* * *
96992209 ACATTATAATTATCATCTTA
1 ACATTAT--TTA-AATATTT
96992229 ACATTATTTAAATATTT
1 ACATTATTTAAATATTT
96992246 ACATTAT
1 ACATTAT
96992253 AGTAGTATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 18 0.51
18 3 0.09
19 3 0.09
20 11 0.31
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (17 bp):
ACATTATTTAAATATTT
Found at i:96992234 original size:20 final size:18
Alignment explanation
Indices: 96992184--96992238 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 18
96992174 TTTTATATAG
96992184 TCATCTTAACATTATTTA
1 TCATCTTAACATTATTTA
* * *
96992202 -AATATTTACATTATAATTA
1 TCATCTTAACATTAT--TTA
96992221 TCATCTTAACATTATTTA
1 TCATCTTAACATTATTTA
96992239 AATATTTACA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
17 11 0.39
18 3 0.11
19 3 0.11
20 11 0.39
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (18 bp):
TCATCTTAACATTATTTA
Found at i:96993382 original size:20 final size:23
Alignment explanation
Indices: 96993357--96993398 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 23
96993347 ATTATAACAC
96993357 TTTTTT-TATAA-ATA-AGTATA
1 TTTTTTGTATAATATATAGTATA
96993377 TTTTTTGTATAATATATAGTAT
1 TTTTTTGTATAATATATAGTAT
96993399 GCACATGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 5 0.26
22 3 0.16
23 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (23 bp):
TTTTTTGTATAATATATAGTATA
Found at i:96993533 original size:22 final size:24
Alignment explanation
Indices: 96993503--96993546 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
96993493 ACACAAATTA
96993503 ATTTCATAATATA-TTTTTTTAGG
1 ATTTCATAATATAGTTTTTTTAGG
96993526 ATTT-ATAATATAGTTTTTTTA
1 ATTTCATAATATAGTTTTTTTA
96993547 AAAAAGTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (24 bp):
ATTTCATAATATAGTTTTTTTAGG
Found at i:96994214 original size:22 final size:22
Alignment explanation
Indices: 96994186--96994227 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
96994176 AATTTAAAAT
96994186 TTATATT-TATTAAATAATTTAA
1 TTATATTCTA-TAAATAATTTAA
*
96994208 TTATATTCTATAATTAATTT
1 TTATATTCTATAAATAATTT
96994228 TAAAGAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATATTCTATAAATAATTTAA
Found at i:96994722 original size:11 final size:11
Alignment explanation
Indices: 96994685--96994735 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
96994675 TATTTTTTTC
96994685 TGTTTT-TTAT
1 TGTTTTCTTAT
*
96994695 TGTTTTGTTGA-
1 TGTTTTCTT-AT
*
96994706 TATTTTCTTAT
1 TGTTTTCTTAT
96994717 TGTTTTCTTAT
1 TGTTTTCTTAT
96994728 TGTTTTCT
1 TGTTTTCT
96994736 CATTATTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 7 0.20
11 27 0.77
12 1 0.03
ACGTcount: A:0.10, C:0.06, G:0.12, T:0.73
Consensus pattern (11 bp):
TGTTTTCTTAT
Found at i:96994733 original size:22 final size:22
Alignment explanation
Indices: 96994685--96994744 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
96994675 TATTTTTTTC
*
96994685 TGTTTT-TTATTGTTTTGTTGA
1 TGTTTTCTTATTGTTTTCTTGA
*
96994706 TATTTTCTTATTGTTTTCTT-A
1 TGTTTTCTTATTGTTTTCTTGA
* *
96994727 TTGTTTTCTCATTATTTT
1 -TGTTTTCTTATTGTTTT
96994745 ACTACTGTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.12, C:0.07, G:0.10, T:0.72
Consensus pattern (22 bp):
TGTTTTCTTATTGTTTTCTTGA
Found at i:96994743 original size:33 final size:32
Alignment explanation
Indices: 96994673--96994744 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 32
96994663 ATAAAAAAAA
* *
96994673 ATTATTTTTTTCTGTTTTTTATTGTTTTGTTG
1 ATTATTTTTTTCTGTTTTTTATTGTTTTGCTC
96994705 A-TATTTTCTTAT-TGTTTTCTTATTGTTTT-CTC
1 ATTATTTT-TT-TCTGTTTT-TTATTGTTTTGCTC
96994737 ATTATTTT
1 ATTATTTT
96994745 ACTACTGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
31 6 0.18
32 11 0.32
33 17 0.50
ACGTcount: A:0.12, C:0.07, G:0.08, T:0.72
Consensus pattern (32 bp):
ATTATTTTTTTCTGTTTTTTATTGTTTTGCTC
Found at i:96994744 original size:11 final size:11
Alignment explanation
Indices: 96994706--96994744 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
96994696 GTTTTGTTGA
96994706 TATTTTCTTAT
1 TATTTTCTTAT
*
96994717 TGTTTTCTTAT
1 TATTTTCTTAT
* *
96994728 TGTTTTCTCAT
1 TATTTTCTTAT
96994739 TATTTT
1 TATTTT
96994745 ACTACTGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.13, C:0.10, G:0.05, T:0.72
Consensus pattern (11 bp):
TATTTTCTTAT
Found at i:96997154 original size:20 final size:20
Alignment explanation
Indices: 96997112--96997175 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
96997102 ATATAGATAT
*
96997112 TTATT-AATTATTATTATT-
1 TTATTAAATTATAATTATTA
*
96997130 CTATTAAATTATAATT-TATA
1 TTATTAAATTATAATTAT-TA
*
96997150 TTATTAAATTATGATTATTA
1 TTATTAAATTATAATTATTA
96997170 TTATTA
1 TTATTA
96997176 TTAAAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
18 5 0.13
19 10 0.26
20 22 0.58
21 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
TTATTAAATTATAATTATTA
Found at i:96997483 original size:13 final size:14
Alignment explanation
Indices: 96997465--96997511 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 14
96997455 TTATAAAGTT
96997465 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
96997478 AATAAAAGAAATGA
1 AATAAAATAAAAGA
96997492 AATAAAAT-AAAGA
1 AATAAAATAAAAGA
96997505 AATAAAA
1 AATAAAA
96997512 CAAAGTAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 22 0.76
14 7 0.24
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.15
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:96997505 original size:18 final size:18
Alignment explanation
Indices: 96997469--96997523 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
96997459 AAAGTTAATA
* *
96997469 AAATAAAAGAATA-AAAG
1 AAATAAAACAAAATAAAG
* *
96997486 AAATGAAATAAAATAAAG
1 AAATAAAACAAAATAAAG
*
96997504 AAATAAAACAAAGTAAAG
1 AAATAAAACAAAATAAAG
96997522 AA
1 AA
96997524 GAAACAGAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
17 10 0.32
18 21 0.68
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.13
Consensus pattern (18 bp):
AAATAAAACAAAATAAAG
Found at i:96998552 original size:12 final size:12
Alignment explanation
Indices: 96998535--96998559 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
96998525 GCCGACTACT
96998535 GTTACTGTTACC
1 GTTACTGTTACC
96998547 GTTACTGTTACC
1 GTTACTGTTACC
96998559 G
1 G
96998560 ATTCGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:96998587 original size:45 final size:45
Alignment explanation
Indices: 96998537--96998643 Score: 171
Period size: 45 Copynumber: 2.4 Consensus size: 45
96998527 CGACTACTGT
*
96998537 TACTGTTACCGTTACTGTTACCGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAA
*
96998582 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
*
96998627 TACTGTTACTGTTACTG
1 TACTGTTACCGTTACTG
96998644 CTACTGCTAC
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
45 57 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.40
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
Found at i:96999760 original size:27 final size:27
Alignment explanation
Indices: 96999705--96999768 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
96999695 AAAATGTCTC
*
96999705 TAAATTAAT-AAATATTAATTCATCGA
1 TAAATTAATAAAATATTAATTCATCAA
*
96999731 TAAATTAATAAAATATTCA-TCTATCAA
1 TAAATTAATAAAATATTAATTC-ATCAA
*
96999758 TAAACTAATAA
1 TAAATTAATAA
96999769 CCTCGATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 11 0.33
27 22 0.67
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (27 bp):
TAAATTAATAAAATATTAATTCATCAA
Found at i:97008515 original size:2 final size:2
Alignment explanation
Indices: 97008508--97008533 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
97008498 TATAAAAATA
97008508 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
97008534 GTACTTTTTT
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:97010214 original size:23 final size:23
Alignment explanation
Indices: 97010180--97010223 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
97010170 TTCTACCCAT
97010180 AATTATCATCTCAACA-CAAAGG
1 AATTATCATCTCAACATCAAAGG
* *
97010202 AATTGATCTTCTCTACATCAAA
1 AATT-ATCATCTCAACATCAAA
97010224 CCAAAGCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.30
Consensus pattern (23 bp):
AATTATCATCTCAACATCAAAGG
Found at i:97012594 original size:6 final size:6
Alignment explanation
Indices: 97012583--97012629 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
97012573 AACAGCAGTT
* * *
97012583 CCAGCA CCAGCA CCAGCA CCAGCA CCAACA CCAACA CCAACA CCAGC
1 CCAGCA CCAGCA CCAGCA CCAGCA CCAGCA CCAGCA CCAGCA CCAGC
97012630 CCCCTCCCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.38, C:0.51, G:0.11, T:0.00
Consensus pattern (6 bp):
CCAGCA
Found at i:97016418 original size:2 final size:2
Alignment explanation
Indices: 97016413--97016442 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
97016403 ATAAGAAGAC
97016413 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
97016443 GATAATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97017600 original size:14 final size:14
Alignment explanation
Indices: 97017581--97017630 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 14
97017571 ATATTTTAAT
97017581 TATTTTAAAAAATA
1 TATTTTAAAAAATA
97017595 TATTTTTATTAAATAATA
1 TA-TTTTA--AAA-AATA
97017613 T-TTTTAAAAAA-A
1 TATTTTAAAAAATA
97017625 TATTTT
1 TATTTT
97017631 TTCTGACAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
12 2 0.06
13 6 0.19
14 5 0.16
15 5 0.16
16 5 0.16
17 3 0.10
18 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATTTTAAAAAATA
Found at i:97017615 original size:16 final size:14
Alignment explanation
Indices: 97017583--97017631 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
97017573 ATTTTAATTA
*
97017583 TTTTAAAAAATATAT
1 TTTTAAAATA-ATAT
97017598 TTTTATTAAATAATAT
1 TTTTA--AAATAATAT
*
97017614 TTTTAAAAAAATAT
1 TTTTAAAATAATAT
97017628 TTTT
1 TTTT
97017632 TCTGACAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 12 0.40
15 5 0.17
16 9 0.30
17 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTTAAAATAATAT
Found at i:97020727 original size:2 final size:2
Alignment explanation
Indices: 97020720--97020754 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
97020710 AAATAATTAT
97020720 TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
97020755 TTTAGTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:97020763 original size:12 final size:12
Alignment explanation
Indices: 97020717--97020764 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
97020707 TAAAAATAAT
97020717 TATT-ATATATA
1 TATTAATATATA
97020728 TATATATATATATA
1 TAT-TA-ATATATA
97020742 TATTAATATATA
1 TATTAATATATA
* *
97020754 TTTTAGTATAT
1 TATTAATATAT
97020765 CTTTATAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 3 0.09
12 17 0.53
13 2 0.06
14 10 0.31
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (12 bp):
TATTAATATATA
Found at i:97037071 original size:5 final size:5
Alignment explanation
Indices: 97037061--97037088 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
97037051 ACACACAAAA
97037061 ATTAT ATTAT ATTAT ATTAT ATTAT ATT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATT
97037089 GTTATATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATTAT
Found at i:97037390 original size:3 final size:3
Alignment explanation
Indices: 97037384--97037410 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
97037374 AGGCACGTGC
97037384 GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG
97037411 TTGTTAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:97040239 original size:15 final size:16
Alignment explanation
Indices: 97040215--97040247 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
97040205 AACTATTTTT
97040215 TTTATATTTT-TAATA
1 TTTATATTTTATAATA
*
97040230 TTTATTTTTTATAATA
1 TTTATATTTTATAATA
97040246 TT
1 TT
97040248 ATAATGCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTATATTTTATAATA
Found at i:97045157 original size:53 final size:53
Alignment explanation
Indices: 97045034--97045142 Score: 200
Period size: 53 Copynumber: 2.1 Consensus size: 53
97045024 TATCTCAAAC
*
97045034 TCTCTTGAATGTCTTTTTTGTGGTAAGGAATGAGAATTTAGGAACCATCTTCT
1 TCTCTTGAATGTCTTTTTTGTGGTAAGGAATGAGAATCTAGGAACCATCTTCT
*
97045087 TCTCTTGAATGTCTTTTTTGTGGTAAGGAATGAGAATCTAGGAACCATTTTCT
1 TCTCTTGAATGTCTTTTTTGTGGTAAGGAATGAGAATCTAGGAACCATCTTCT
97045140 TCT
1 TCT
97045143 TCTTCTTTTC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (53 bp):
TCTCTTGAATGTCTTTTTTGTGGTAAGGAATGAGAATCTAGGAACCATCTTCT
Found at i:97045168 original size:30 final size:28
Alignment explanation
Indices: 97045134--97045195 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 28
97045124 CTAGGAACCA
97045134 TTTTCTTCTTCTTCTTTTCTTTTTCTATTT
1 TTTTCTTCTTCTT-TTTT-TTTTTCTATTT
* *
97045164 TTTTCTTCTTCTTTTTTTTTTTTTTTTT
1 TTTTCTTCTTCTTTTTTTTTTTCTATTT
97045192 TTTT
1 TTTT
97045196 GCAAATTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 13 0.43
29 4 0.13
30 13 0.43
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (28 bp):
TTTTCTTCTTCTTTTTTTTTTTCTATTT
Found at i:97045169 original size:16 final size:15
Alignment explanation
Indices: 97045134--97045195 Score: 67
Period size: 14 Copynumber: 4.3 Consensus size: 15
97045124 CTAGGAACCA
* *
97045134 TTTTCTTCTTC-TTC
1 TTTTCTTTTTCTTTT
97045148 TTTTCTTTTTCTATTT
1 TTTTCTTTTTCT-TTT
*
97045164 TTTTCTTCTTCTTTT
1 TTTTCTTTTTCTTTT
97045179 TTTT-TTTTT-TTTT
1 TTTTCTTTTTCTTTT
97045192 TTTT
1 TTTT
97045196 GCAAATTAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
13 8 0.19
14 14 0.33
15 7 0.17
16 13 0.31
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTCTTTTTCTTTT
Found at i:97045171 original size:27 final size:27
Alignment explanation
Indices: 97045133--97045194 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
97045123 TCTAGGAACC
*
97045133 ATTTTCTTCTTCTTCTTTTCTTTTTCT
1 ATTTTTTTCTTCTTCTTTTCTTTTTCT
* *
97045160 ATTTTTTTCTTCTTCTTTTTTTTTTTT
1 ATTTTTTTCTTCTTCTTTTCTTTTTCT
*
97045187 TTTTTTTT
1 ATTTTTTT
97045195 TGCAAATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (27 bp):
ATTTTTTTCTTCTTCTTTTCTTTTTCT
Found at i:97045180 original size:24 final size:24
Alignment explanation
Indices: 97045142--97045192 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
97045132 CATTTTCTTC
97045142 TTCTTCTTTTCTTTTTCTATTTTT
1 TTCTTCTTTTCTTTTTCTATTTTT
* * *
97045166 TTCTTCTTCTTTTTTTTTTTTTTTT
1 TTCTTCTT-TTCTTTTTCTATTTTT
97045191 TT
1 TT
97045193 TTTGCAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (24 bp):
TTCTTCTTTTCTTTTTCTATTTTT
Found at i:97048742 original size:25 final size:25
Alignment explanation
Indices: 97048696--97048744 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
97048686 ACTTGAGATG
* *
97048696 AATTCATTAAATTATTTATATTTAA
1 AATTAATTAAATTATATATATTTAA
97048721 AATTAATTAAATTATCAT-TATTTA
1 AATTAATTAAATTAT-ATATATTTA
97048745 CAAAATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (25 bp):
AATTAATTAAATTATATATATTTAA
Found at i:97048995 original size:20 final size:18
Alignment explanation
Indices: 97048956--97048996 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
97048946 AAAATATATA
*
97048956 TTATTTTTTAAGATATGT
1 TTATTTTTTAAGAAATGT
97048974 TTATTTCTTTAATGAAATGT
1 TTATTT-TTTAA-GAAATGT
97048994 TTA
1 TTA
97048997 AGATATGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 5 0.25
20 9 0.45
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (18 bp):
TTATTTTTTAAGAAATGT
Found at i:97051657 original size:25 final size:25
Alignment explanation
Indices: 97051623--97051674 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
97051613 TCTGATCAAA
97051623 ATTAGAGCTTTGTTTGCACGATGTT
1 ATTAGAGCTTTGTTTGCACGATGTT
97051648 ATTAGAGCTTTGTTTGCACGATGTT
1 ATTAGAGCTTTGTTTGCACGATGTT
97051673 AT
1 AT
97051675 GTAGGAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.21, C:0.12, G:0.23, T:0.44
Consensus pattern (25 bp):
ATTAGAGCTTTGTTTGCACGATGTT
Found at i:97052258 original size:17 final size:17
Alignment explanation
Indices: 97052233--97052266 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
97052223 TAATGATAAA
*
97052233 TTTCATTGAAAAGTACT
1 TTTCATTGAAAACTACT
*
97052250 TTTCTTTGAAAACTACT
1 TTTCATTGAAAACTACT
97052267 GACTATTGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (17 bp):
TTTCATTGAAAACTACT
Found at i:97057582 original size:23 final size:23
Alignment explanation
Indices: 97057539--97057582 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
97057529 AAAGCTAAAT
*
97057539 ATATCAAATAATAATGGAAAAAC
1 ATATCAAATAATAACGGAAAAAC
*
97057562 ATATCAAATAATAACGTAAAA
1 ATATCAAATAATAACGGAAAA
97057583 GCACTTATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.09, G:0.07, T:0.23
Consensus pattern (23 bp):
ATATCAAATAATAACGGAAAAAC
Found at i:97058458 original size:2 final size:2
Alignment explanation
Indices: 97058451--97058496 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
97058441 ATATACGCAT
97058451 TA TA TA TA 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
97058493 TA TA
1 TA TA
97058497 GATTCTGAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:97061085 original size:5 final size:5
Alignment explanation
Indices: 97061075--97061105 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
97061065 TGACATCTCC
97061075 CATTG CATTG CATTG CATTG CATTG CATTG C
1 CATTG CATTG CATTG CATTG CATTG CATTG C
97061106 TTACTGGTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (5 bp):
CATTG
Found at i:97063964 original size:15 final size:15
Alignment explanation
Indices: 97063944--97063976 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
97063934 GATCATAAAC
97063944 GAAAGTGAAAAGTTG
1 GAAAGTGAAAAGTTG
*
97063959 GAAAGTGAACAGTTG
1 GAAAGTGAAAAGTTG
97063974 GAA
1 GAA
97063977 CTTAGCTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.33, T:0.18
Consensus pattern (15 bp):
GAAAGTGAAAAGTTG
Found at i:97067840 original size:75 final size:75
Alignment explanation
Indices: 97067721--97067892 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
97067711 CATGGCAAAG
** *
97067721 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
97067780 CCATACTGAGC
65 CCATACCGAGC
97067791 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
97067856 CATACCGAGT
66 CATACCGAGC
***
97067866 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
97067893 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:97067859 original size:35 final size:35
Alignment explanation
Indices: 97067724--97067890 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
97067714 GGCAAAGTGT
* **
97067724 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
97067759 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
97067794 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
97067834 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
97067870 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
97067891 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:97067882 original size:36 final size:35
Alignment explanation
Indices: 97067820--97067890 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
97067810 ATTATCAAAT
* *
97067820 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
97067855 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
97067891 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:97070599 original size:16 final size:15
Alignment explanation
Indices: 97070573--97070604 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
97070563 GCTAGATCGG
97070573 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
97070588 CAAAATGCCGAAAAGC
1 CAAAA-GCCGAAAAGC
97070604 C
1 C
97070605 GGTATTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.28, G:0.19, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:97070883 original size:28 final size:28
Alignment explanation
Indices: 97070852--97070916 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
97070842 ATTTACTAGA
* *
97070852 ATACCCCTATGTATGCAAATTTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
97070880 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
97070908 ATACCCCTA
1 ATACCCCTA
97070917 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:97071068 original size:27 final size:27
Alignment explanation
Indices: 97071010--97071099 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 27
97071000 AGGAAGCGTC
* *
97071010 CTGGTGGCTATGCCACAAATTATCTATT
1 CTGGTGGCAATGCCACAAA-TATCTGTT
** *
97071038 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCAATGCCACAAATATCTGTT
*
97071065 CTGGTGGCATTGCCACAAAATATCTGTAT
1 CTGGTGGCAATGCCAC-AAATATCTGT-T
97071094 CTGGTG
1 CTGGTG
97071100 ACTCTCTCAC
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 21 0.40
28 25 0.47
29 7 0.13
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.33
Consensus pattern (27 bp):
CTGGTGGCAATGCCACAAATATCTGTT
Found at i:97071118 original size:55 final size:56
Alignment explanation
Indices: 97071010--97071124 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 56
97071000 AGGAAGCGTC
* *
97071010 CTGGTGGCTATGCCACAAATTATCTATTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTATTCTGGTGACCCTGCCACATATATCTGTAT
* * *
97071065 CTGGTGGC-ATTGCCACAAAATATCTGTATCTGGTGACTCT-CTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTAT-TCTGGTGACCCTGC-CACATATATCTGTAT
97071121 CTGG
1 CTGG
97071125 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTATTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:97072209 original size:11 final size:10
Alignment explanation
Indices: 97072181--97072214 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
97072171 AGCCTGTAAG
97072181 TATTCTGAAT
1 TATTCTGAAT
*
97072191 TTTTCTGAAT
1 TATTCTGAAT
97072201 ATATTCTGAAT
1 -TATTCTGAAT
97072212 TAT
1 TAT
97072215 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:97079074 original size:30 final size:30
Alignment explanation
Indices: 97079040--97079099 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
97079030 ACTTAACAAG
97079040 CAAATGCCTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
* *
97079070 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
97079100 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.12, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAAAAAAATTAA
Found at i:97081921 original size:21 final size:21
Alignment explanation
Indices: 97081878--97081961 Score: 75
Period size: 21 Copynumber: 4.1 Consensus size: 21
97081868 CGTGTTTGCT
* * *
97081878 TTCCGTTTAGCTCTTACGAGC
1 TTCCGTTTAGCACTTATGTGC
*
97081899 TTCCGTTTAGCACTTGTGTGC
1 TTCCGTTTAGCACTTATGTGC
* * *
97081920 TTCAG-TTAGC-CTT-CGGGC
1 TTCCGTTTAGCACTTATGTGC
*
97081938 TTCTGTTTAGCACTTATGTGC
1 TTCCGTTTAGCACTTATGTGC
97081959 TTC
1 TTC
97081962 AGCTAGACTT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
18 7 0.14
19 8 0.16
20 8 0.16
21 27 0.54
ACGTcount: A:0.12, C:0.25, G:0.21, T:0.42
Consensus pattern (21 bp):
TTCCGTTTAGCACTTATGTGC
Found at i:97081940 original size:39 final size:39
Alignment explanation
Indices: 97081897--97081978 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 39
97081887 GCTCTTACGA
* * *
97081897 GCTTCCGTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGG
1 GCTTCCGTTTAGCACTTATGTGCTTCAGCTAGACTTCGG
*
97081936 GCTTCTGTTTAGCACTTATGTGCTTCAGCTAGACTTCGG
1 GCTTCCGTTTAGCACTTATGTGCTTCAGCTAGACTTCGG
97081975 GCTT
1 GCTT
97081979 TAGATCACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.39
Consensus pattern (39 bp):
GCTTCCGTTTAGCACTTATGTGCTTCAGCTAGACTTCGG
Found at i:97084599 original size:44 final size:45
Alignment explanation
Indices: 97084509--97084637 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
97084499 GACAGAACAA
*
97084509 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
97084555 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
97084599 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
97084638 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:97090740 original size:44 final size:45
Alignment explanation
Indices: 97090650--97090778 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
97090640 GACAGAACAA
*
97090650 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
97090696 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
97090740 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
97090779 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:97092926 original size:12 final size:12
Alignment explanation
Indices: 97092901--97092934 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
97092891 TTTGTGATCA
97092901 AAATTGAAAGTG
1 AAATTGAAAGTG
* *
97092913 AAAGTGAAATTG
1 AAATTGAAAGTG
97092925 AAATTGAAAG
1 AAATTGAAAG
97092935 GGATAAGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (12 bp):
AAATTGAAAGTG
Found at i:97095847 original size:19 final size:19
Alignment explanation
Indices: 97095819--97095856 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
97095809 TCACACCCCT
*
97095819 GACAATTCCAAAAAAAATA
1 GACAAATCCAAAAAAAATA
*
97095838 GACAAATCCATAAAAAATA
1 GACAAATCCAAAAAAAATA
97095857 AAAAGGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.16, G:0.05, T:0.16
Consensus pattern (19 bp):
GACAAATCCAAAAAAAATA
Found at i:97108452 original size:21 final size:21
Alignment explanation
Indices: 97108413--97108452 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
97108403 TTATAACAAC
* *
97108413 AATAAAGGAAGATATATTTCA
1 AATAAAGAAAGATAAATTTCA
*
97108434 AATAAAGAAATATAAATTT
1 AATAAAGAAAGATAAATTT
97108453 AGTAACATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (21 bp):
AATAAAGAAAGATAAATTTCA
Found at i:97114522 original size:31 final size:32
Alignment explanation
Indices: 97114473--97114536 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
97114463 TATTTATAAA
*
97114473 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
97114504 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
97114536 A
1 A
97114537 CAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:97114986 original size:15 final size:15
Alignment explanation
Indices: 97114966--97115022 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
97114956 CGATGAATTT
97114966 ATTGAATTTATATTG
1 ATTGAATTTATATTG
** *
97114981 ATTGAAACTATTTTG
1 ATTGAATTTATATTG
97114996 ATTGAATTTATATTG
1 ATTGAATTTATATTG
97115011 ATTGAA-TTATAT
1 ATTGAATTTATAT
97115023 AATATATATG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 6 0.17
15 30 0.83
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:97115459 original size:21 final size:23
Alignment explanation
Indices: 97115377--97115465 Score: 101
Period size: 23 Copynumber: 4.0 Consensus size: 23
97115367 GCTTTACCGA
* * *
97115377 TCAGACACTTTGTGTGTTGTATT
1 TCAGGCACCTTGTGTGTCGTATT
97115400 TCAGGCACCTTGTGTGTCGTATT
1 TCAGGCACCTTGTGTGTCGTATT
*
97115423 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTTGTGTGTCGTATT
* * *
97115445 T-AGGCACTTTATGTGCCGTAT
1 TCAGGCACCTTGTGTGTCGTAT
97115466 ACTGATCAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.25
22 4 0.07
23 39 0.68
ACGTcount: A:0.15, C:0.20, G:0.25, T:0.40
Consensus pattern (23 bp):
TCAGGCACCTTGTGTGTCGTATT
Found at i:97115635 original size:19 final size:21
Alignment explanation
Indices: 97115611--97115649 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
97115601 TGATCAAGCT
97115611 ATTGAAATG-GAA-TGAAAAA
1 ATTGAAATGAGAATTGAAAAA
*
97115630 ATTGAATTGAGAATTGAAAA
1 ATTGAAATGAGAATTGAAAA
97115650 TTTAGATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.21, T:0.26
Consensus pattern (21 bp):
ATTGAAATGAGAATTGAAAAA
Found at i:97138150 original size:1 final size:1
Alignment explanation
Indices: 97138144--97138176 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
97138134 ATGGAAAATT
97138144 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
97138177 CTAAGAAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:97138449 original size:2 final size:2
Alignment explanation
Indices: 97138442--97138476 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
97138432 CTCAACAACC
97138442 TA TA TA TA 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 TA TA TA TA T
97138477 TCTGCTTTGT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:97144904 original size:2 final size:2
Alignment explanation
Indices: 97144897--97144929 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
97144887 CGAAATTACA
97144897 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
97144930 GAAAATCTCA
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:97145331 original size:24 final size:24
Alignment explanation
Indices: 97145286--97145331 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
97145276 ATTAACATTC
* *
97145286 ACGGAGTTAAAATATTTTTTTTGT
1 ACGGAGTTAAAATATATATTTTGT
* *
97145310 ACGGATTTAAATTATATATTTT
1 ACGGAGTTAAAATATATATTTT
97145332 TATAATAGTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (24 bp):
ACGGAGTTAAAATATATATTTTGT
Found at i:97150438 original size:19 final size:19
Alignment explanation
Indices: 97150414--97150452 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
97150404 ATCCAAACAC
97150414 CAGAAAAGTAAATCATTTT
1 CAGAAAAGTAAATCATTTT
97150433 CAGAAAAGTAAATCATTTT
1 CAGAAAAGTAAATCATTTT
97150452 C
1 C
97150453 CGGAAAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (19 bp):
CAGAAAAGTAAATCATTTT
Found at i:97159963 original size:18 final size:18
Alignment explanation
Indices: 97159936--97159981 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
97159926 ACCTTTGTCT
*
97159936 TTTTCCTTTTTTCTTAAA
1 TTTTCTTTTTTTCTTAAA
97159954 TTTTCTTTTTTTCTTAAA
1 TTTTCTTTTTTTCTTAAA
97159972 TTTTCTTTTT
1 TTTTCTTTTT
97159982 ATAATTACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTCTTTTTTTCTTAAA
Found at i:97162855 original size:2 final size:2
Alignment explanation
Indices: 97162848--97162892 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
97162838 TATTAGCTCT
97162848 TA TA TA TA 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
97162890 TA T
1 TA T
97162893 GCTGTATGCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:97163484 original size:15 final size:15
Alignment explanation
Indices: 97163464--97163495 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
97163454 TGATAAATTG
*
97163464 AAAAATTAAGTATTA
1 AAAAATTAAGTACTA
97163479 AAAAATTAAGTACTA
1 AAAAATTAAGTACTA
97163494 AA
1 AA
97163496 TTCAAGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.28
Consensus pattern (15 bp):
AAAAATTAAGTACTA
Found at i:97166989 original size:16 final size:16
Alignment explanation
Indices: 97166945--97166999 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
97166935 TAATTTTTTA
97166945 AAAATTATAAATATAT
1 AAAATTATAAATATAT
97166961 AAACTATTA-AAATA-AT
1 AAA--ATTATAAATATAT
97166977 AAAATTCATAAATATAT
1 AAAATT-ATAAATATAT
*
97166994 ATAATT
1 AAAATT
97167000 TAATTCTGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
14 3 0.09
15 1 0.03
16 13 0.39
17 12 0.36
18 4 0.12
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATTATAAATATAT
Found at i:97169769 original size:61 final size:61
Alignment explanation
Indices: 97169694--97169819 Score: 252
Period size: 61 Copynumber: 2.1 Consensus size: 61
97169684 AAGGTCAAAT
97169694 ACACAATTAGGAACAAGTAATTCCACAAATATAAAATCAAACCTCACTCTTATACCACACC
1 ACACAATTAGGAACAAGTAATTCCACAAATATAAAATCAAACCTCACTCTTATACCACACC
97169755 ACACAATTAGGAACAAGTAATTCCACAAATATAAAATCAAACCTCACTCTTATACCACACC
1 ACACAATTAGGAACAAGTAATTCCACAAATATAAAATCAAACCTCACTCTTATACCACACC
97169816 ACAC
1 ACAC
97169820 CAGCTCTGTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.46, C:0.29, G:0.05, T:0.21
Consensus pattern (61 bp):
ACACAATTAGGAACAAGTAATTCCACAAATATAAAATCAAACCTCACTCTTATACCACACC
Found at i:97173314 original size:65 final size:65
Alignment explanation
Indices: 97173241--97173374 Score: 259
Period size: 65 Copynumber: 2.1 Consensus size: 65
97173231 AAATAAATGG
*
97173241 AAAGGGAACGTGTTTCTTTTTTAAATTAACAGTGGGAATCCAGGTAAAGATCATAAAGAAAAGGA
1 AAAGGGAACATGTTTCTTTTTTAAATTAACAGTGGGAATCCAGGTAAAGATCATAAAGAAAAGGA
97173306 AAAGGGAACATGTTTCTTTTTTAAATTAACAGTGGGAATCCAGGTAAAGATCATAAAGAAAAGGA
1 AAAGGGAACATGTTTCTTTTTTAAATTAACAGTGGGAATCCAGGTAAAGATCATAAAGAAAAGGA
97173371 AAAG
1 AAAG
97173375 TAATTACCAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.25
Consensus pattern (65 bp):
AAAGGGAACATGTTTCTTTTTTAAATTAACAGTGGGAATCCAGGTAAAGATCATAAAGAAAAGGA
Found at i:97179944 original size:25 final size:25
Alignment explanation
Indices: 97179910--97179960 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
97179900 TTGTACTTAG
97179910 GCTCACAACCATATTAGCCAAATAA
1 GCTCACAACCATATTAGCCAAATAA
97179935 GCTCACAACCATATTAGCCAAATAA
1 GCTCACAACCATATTAGCCAAATAA
97179960 G
1 G
97179961 ACAATTTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.27, G:0.10, T:0.20
Consensus pattern (25 bp):
GCTCACAACCATATTAGCCAAATAA
Found at i:97183558 original size:13 final size:13
Alignment explanation
Indices: 97183540--97183567 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
97183530 ATATCTCTAA
97183540 AAATTTTCGAAAT
1 AAATTTTCGAAAT
97183553 AAATTTTCGAAAT
1 AAATTTTCGAAAT
97183566 AA
1 AA
97183568 TTTCTTCAGA
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:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (13 bp):
AAATTTTCGAAAT
Found at i:97184289 original size:9 final size:9
Alignment explanation
Indices: 97184269--97184299 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
97184259 AACATATCAT
97184269 ATTAATTTTA
1 ATTAA-TTTA
97184279 ATTAATTTA
1 ATTAATTTA
97184288 ATTAATTTA
1 ATTAATTTA
97184297 ATT
1 ATT
97184300 TTACTTAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTAATTTA
Found at i:97184342 original size:20 final size:20
Alignment explanation
Indices: 97184294--97184344 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
97184284 TTTAATTAAT
*
97184294 TTAATTTTACTTAATCAAAA
1 TTAATTTTCCTTAATCAAAA
*
97184314 TTAATTTTCCTTGATCAAAA
1 TTAATTTTCCTTAATCAAAA
97184334 TTAATTTTCCT
1 TTAATTTTCCT
97184345 AAAAACCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.02, T:0.49
Consensus pattern (20 bp):
TTAATTTTCCTTAATCAAAA
Found at i:97189961 original size:46 final size:44
Alignment explanation
Indices: 97189857--97189964 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
97189847 TGTCTTTGAC
** * * *
97189857 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
97189901 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
97189947 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
97189965 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:97197091 original size:46 final size:44
Alignment explanation
Indices: 97196991--97197098 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
97196981 TGTCTTTGAC
** * * * *
97196991 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCAGTCTCCAAAGCCATATATAAT
*
97197035 ATGGACTTACATGGCTCAATCCAGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCAGTCTCCAAAGCCATA--TATAAT
97197081 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
97197099 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 32 0.58
46 23 0.42
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCAGTCTCCAAAGCCATATATAAT
Found at i:97219265 original size:13 final size:12
Alignment explanation
Indices: 97219247--97219276 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
97219237 AGGATCCATC
97219247 TTTTTCTCTTTTT
1 TTTTTCT-TTTTT
97219260 TTTTTCTTTTTT
1 TTTTTCTTTTTT
97219272 TTTTT
1 TTTTT
97219277 TACTTTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:97219277 original size:13 final size:13
Alignment explanation
Indices: 97219247--97219283 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
97219237 AGGATCCATC
*
97219247 TTTTTCTCTTTTT
1 TTTTTCTTTTTTT
97219260 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
97219273 TTTTTACTTTT
1 TTTTT-CTTTT
97219284 CTATCATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Found at i:97220926 original size:20 final size:19
Alignment explanation
Indices: 97220901--97220961 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
97220891 TTAAAACAAT
97220901 TTTAACTTTGATTGAAAATA
1 TTTAAC-TTGATTGAAAATA
* *
97220921 TTTAACTCGATTGAAAACA
1 TTTAACTTGATTGAAAATA
97220940 TTTTAACTTGATT-AAAAT-
1 -TTTAACTTGATTGAAAATA
97220958 TTTA
1 TTTA
97220962 TTGAAAAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 4 0.11
19 15 0.42
20 17 0.47
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (19 bp):
TTTAACTTGATTGAAAATA
Found at i:97220934 original size:19 final size:19
Alignment explanation
Indices: 97220910--97220961 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
97220900 TTTTAACTTT
97220910 GATTGAAAATATTTAACTC
1 GATTGAAAATATTTAACTC
* *
97220929 GATTGAAAACATTTTAACTT
1 GATTGAAAATA-TTTAACTC
97220949 GATT-AAAAT-TTTA
1 GATTGAAAATATTTA
97220962 TTGAAAAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 4 0.14
19 14 0.48
20 11 0.38
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (19 bp):
GATTGAAAATATTTAACTC
Found at i:97221097 original size:24 final size:23
Alignment explanation
Indices: 97221053--97221097 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
97221043 CTTTTGTTCA
*
97221053 ATTTTAACTTTTATTTAAAAAAC
1 ATTTTAACTTTTATATAAAAAAC
* *
97221076 ATTTTAATTTGTTATATCAAAA
1 ATTTTAACTT-TTATATAAAAA
97221098 CATATTATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (23 bp):
ATTTTAACTTTTATATAAAAAAC
Found at i:97224099 original size:26 final size:26
Alignment explanation
Indices: 97224063--97224172 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
97224053 CATGATATTC
97224063 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
97224089 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
97224115 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
97224141 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
97224167 TTATCA
1 TTATCA
97224173 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:97226911 original size:31 final size:31
Alignment explanation
Indices: 97226873--97226931 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
97226863 TTTGGCTAGA
*
97226873 CATTGTATAATTCGATTCTTCATACATAATG
1 CATTGTATAATTCGATCCTTCATACATAATG
97226904 CATTGTATAATTCGATCCTTCATACATA
1 CATTGTATAATTCGATCCTTCATACATA
97226932 GTGTATTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.41
Consensus pattern (31 bp):
CATTGTATAATTCGATCCTTCATACATAATG
Found at i:97227184 original size:21 final size:20
Alignment explanation
Indices: 97227160--97227198 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
97227150 GTTTTGATGA
97227160 AGGTATCAATACCTTAGGCCT
1 AGGTATCAATACC-TAGGCCT
*
97227181 AGGTATCGATACCTAGGC
1 AGGTATCAATACCTAGGC
97227199 TTTAATATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (20 bp):
AGGTATCAATACCTAGGCCT
Found at i:97231148 original size:64 final size:65
Alignment explanation
Indices: 97231030--97231163 Score: 261
Period size: 64 Copynumber: 2.1 Consensus size: 65
97231020 ATGGTATTGA
97231030 TGAGTACATCAATCATGGTATATATATATATTGATACATGGAAATTATTGTACTAACTTGAATGT
1 TGAGTACATCAATCATGGTATATATATATATTGATACATGGAAATTATTGTACTAACTTGAATGT
97231095 TGAGTACATCAATCATGGTATATATAT-TATTGATACATGGAAATTATTGTACTAACTTGAATGT
1 TGAGTACATCAATCATGGTATATATATATATTGATACATGGAAATTATTGTACTAACTTGAATGT
97231159 TGAGT
1 TGAGT
97231164 TTGTGCATGT
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
64 42 0.61
65 27 0.39
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (65 bp):
TGAGTACATCAATCATGGTATATATATATATTGATACATGGAAATTATTGTACTAACTTGAATGT
Found at i:97234558 original size:31 final size:31
Alignment explanation
Indices: 97234522--97234580 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
97234512 TTCATCCAGG
* *
97234522 TAAGCCTTGTTTTTCATCCGTTCTTCAACTT
1 TAAGCCTTCTTTTTCATCCATTCTTCAACTT
*
97234553 TAAGCCTTCTTTTTCTTCCATTCTTCAA
1 TAAGCCTTCTTTTTCATCCATTCTTCAA
97234581 TTTTTCCATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.17, C:0.27, G:0.07, T:0.49
Consensus pattern (31 bp):
TAAGCCTTCTTTTTCATCCATTCTTCAACTT
Found at i:97236234 original size:92 final size:93
Alignment explanation
Indices: 97236111--97236288 Score: 304
Period size: 92 Copynumber: 1.9 Consensus size: 93
97236101 CTTTTCTTAA
* * * *
97236111 CCTTTATTTAATTTTGTTAGGATTGAGCTCTGATTAGATATTTTGTTTTGGGTTTAATTGTTGAT
1 CCTTTATTTAACTTTATTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAATTGTTGAT
97236176 TCATCTTTTTTCTATTATTTCTTCTTCG
66 TCATCTTTTTTCTATTATTTCTTCTTCG
*
97236204 CCTTTATTT-ACTTTATTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAATTGTTTAT
1 CCTTTATTTAACTTTATTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAATTGTTGAT
97236268 TCATCTTTTTTCTATTATTTC
66 TCATCTTTTTTCTATTATTTC
97236289 CTGGCAGCTC
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 71 0.89
93 9 0.11
ACGTcount: A:0.19, C:0.11, G:0.14, T:0.57
Consensus pattern (93 bp):
CCTTTATTTAACTTTATTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAATTGTTGAT
TCATCTTTTTTCTATTATTTCTTCTTCG
Found at i:97236760 original size:25 final size:25
Alignment explanation
Indices: 97236726--97236775 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
97236716 AAGGTTAATG
97236726 CTATTTGTCAATTCCCATTCAACAT
1 CTATTTGTCAATTCCCATTCAACAT
*
97236751 CTATTTGTCAATTCCTATTCAACAT
1 CTATTTGTCAATTCCCATTCAACAT
97236776 TCTCTCTCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.04, T:0.42
Consensus pattern (25 bp):
CTATTTGTCAATTCCCATTCAACAT
Found at i:97237708 original size:24 final size:24
Alignment explanation
Indices: 97237681--97237741 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
97237671 TATATGTAAA
*
97237681 AATAATTTAAAATATAAATTTATT
1 AATAATATAAAATATAAATTTATT
*
97237705 AAT-ATATATATATATAAATTTATT
1 AATAATATA-AAATATAAATTTATT
*
97237729 AATATATGTAAAA
1 AATA-ATATAAAA
97237742 ATAGCTTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
23 4 0.13
24 20 0.67
25 2 0.07
26 4 0.13
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
AATAATATAAAATATAAATTTATT
Found at i:97237861 original size:20 final size:19
Alignment explanation
Indices: 97237816--97237853 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
97237806 TATCCAAATA
97237816 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
97237835 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
97237854 TCTAGAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:97241476 original size:137 final size:137
Alignment explanation
Indices: 97241140--97241562 Score: 776
Period size: 137 Copynumber: 3.1 Consensus size: 137
97241130 TATTGGGCCT
**
97241140 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
97241205 AGCCCCTTATTCAGATAACAGTATGGCCTATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
*
97241269 CATACGC
131 CATATGC
*
97241276 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAATTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
97241341 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
97241406 CATATGC
131 CATATGC
*
97241413 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
97241478 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
97241543 CATATGC
131 CATATGC
97241550 AAGCCCATTTGGG
1 AAGCCCATTTGGG
97241563 GAGACTACTC
Statistics
Matches: 278, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
136 122 0.44
137 156 0.56
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:97243385 original size:26 final size:26
Alignment explanation
Indices: 97243349--97243484 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
97243339 CATGATATTC
* *
97243349 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
* *
97243375 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
97243401 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
97243427 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
97243453 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
97243479 TTATCA
1 TTATCA
97243485 ATTTGTATCA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 108 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:97244357 original size:47 final size:47
Alignment explanation
Indices: 97244249--97244358 Score: 134
Period size: 47 Copynumber: 2.3 Consensus size: 47
97244239 CGGGATAAGT
* * *
97244249 ACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTAC
1 ACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTAC
* * *
97244296 ACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-AC
1 ACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTAC
97244343 ACATAGTG-TCTCATCG
1 ACATAGTGCT-TCATCG
97244359 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 50 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.26
Consensus pattern (47 bp):
ACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTAC
Found at i:97245123 original size:4 final size:4
Alignment explanation
Indices: 97245114--97245192 Score: 61
Period size: 4 Copynumber: 19.2 Consensus size: 4
97245104 CCCTTTTTTA
* ** * **
97245114 TTTC TTTC TTTC TTTC CTTC TTTC TTTC TCAC GTTTGC TCTC TGTT- AGTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC T-TTC TTTC
*
97245164 TTTC TATC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
97245193 CACGTTTGCT
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
3 1 0.02
4 51 0.89
5 4 0.07
6 1 0.02
ACGTcount: A:0.04, C:0.27, G:0.05, T:0.65
Consensus pattern (4 bp):
TTTC
Found at i:97245224 original size:50 final size:51
Alignment explanation
Indices: 97245114--97245224 Score: 174
Period size: 50 Copynumber: 2.2 Consensus size: 51
97245104 CCCTTTTTTA
* *
97245114 TTTCT-TTCTTTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTTAGTC
1 TTTCTATTCTTTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTAACTC
*
97245164 TTTCTA-TCTTTCTTTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAACT-
1 TTTCTATTCTTTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTAACTC
97245213 TTTCTATTCTTT
1 TTTCTATTCTTT
97245225 ACTCATTATT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
49 6 0.11
50 50 0.89
ACGTcount: A:0.06, C:0.26, G:0.06, T:0.61
Consensus pattern (51 bp):
TTTCTATTCTTTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTAACTC
Found at i:97245236 original size:14 final size:14
Alignment explanation
Indices: 97245217--97245247 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
97245207 GTAACTTTTC
97245217 TATTCTTTACTCAT
1 TATTCTTTACTCAT
*
97245231 TATTCTTTATTCAT
1 TATTCTTTACTCAT
97245245 TAT
1 TAT
97245248 ACTATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTCTTTACTCAT
Found at i:97249533 original size:58 final size:58
Alignment explanation
Indices: 97249401--97249566 Score: 210
Period size: 58 Copynumber: 2.8 Consensus size: 58
97249391 TTCTAATATT
* * * *
97249401 ATATATTATAATTTTTA-TAAATCATATTTTAATAATAATTATATTAAGAATGTTATTAAA
1 ATAT-TTATTATTTTTATTAAATTATA-TTTAATAATAATTATATTAA-AATATGATTAAA
* * * *
97249461 TTATATATTA-TTTTATTAAATTTTATTTAATAATAATTATGTTAAAATATGATTAAA
1 ATATTTATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATGATTAAA
*
97249518 ATATTTATTATTTTTATTAAATTATATTTAATAATAATTTTATTAAAAT
1 ATATTTATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAAT
97249567 TTAATAACAA
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
57 18 0.20
58 59 0.65
59 11 0.12
60 3 0.03
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (58 bp):
ATATTTATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATGATTAAA
Found at i:97249538 original size:21 final size:23
Alignment explanation
Indices: 97249512--97249566 Score: 60
Period size: 26 Copynumber: 2.3 Consensus size: 23
97249502 TTAAAATATG
*
97249512 ATTAAAATATTT-AT-TATTTTT
1 ATTAAAATATTTAATATAATTTT
97249533 ATTAAATTATATTTAATAATAATTTT
1 ATTAAA--ATATTTAAT-ATAATTTT
97249559 ATTAAAAT
1 ATTAAAAT
97249567 TTAATAACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 6 0.21
23 6 0.21
24 4 0.14
26 12 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTAAAATATTTAATATAATTTT
Found at i:97266354 original size:19 final size:21
Alignment explanation
Indices: 97266316--97266360 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
97266306 TTAATAAAAT
97266316 TTAAAAATATAATTTCATTTA
1 TTAAAAATATAATTTCATTTA
*
97266337 TTAAAAA-AT-ATTTTATTTA
1 TTAAAAATATAATTTCATTTA
*
97266356 ATAAA
1 TTAAA
97266361 TTATGATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 13 0.59
20 2 0.09
21 7 0.32
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAAAAATATAATTTCATTTA
Found at i:97269649 original size:28 final size:28
Alignment explanation
Indices: 97269605--97269801 Score: 263
Period size: 28 Copynumber: 7.0 Consensus size: 28
97269595 GATTAACACT
*
97269605 TGTAGACTATTGCTTGAAAGATAGTCCA
1 TGTAGACTCTTGCTTGAAAGATAGTCCA
*
97269633 TGTGGACTCTTGCTTGAAAGATAGTCCA
1 TGTAGACTCTTGCTTGAAAGATAGTCCA
*
97269661 TGTAGACTCTT-ATTGGAAAGATAGTCCA
1 TGTAGACTCTTGCTT-GAAAGATAGTCCA
*
97269689 TGTGGACTCTTGCTTGAAAGATAGTCCA
1 TGTAGACTCTTGCTTGAAAGATAGTCCA
* *
97269717 TGCAGACTCTT-ATTGGAAAGATAGTCCA
1 TGTAGACTCTTGCTT-GAAAGATAGTCCA
* *
97269745 TGTGGACTCTTGCTTGAAAGATAGTTCA
1 TGTAGACTCTTGCTTGAAAGATAGTCCA
* * *
97269773 TGCAAACTCTTGCTTGAAAGATAATCCA
1 TGTAGACTCTTGCTTGAAAGATAGTCCA
97269801 T
1 T
97269802 ACGGACTATA
Statistics
Matches: 147, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
27 4 0.03
28 139 0.95
29 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (28 bp):
TGTAGACTCTTGCTTGAAAGATAGTCCA
Found at i:97269808 original size:56 final size:56
Alignment explanation
Indices: 97269620--97269801 Score: 303
Period size: 56 Copynumber: 3.2 Consensus size: 56
97269610 ACTATTGCTT
*
97269620 GAAAGATAGTCCATGTGGACTCTTGCTTGAAAGATAGTCCATGTAGACTCTTATTG
1 GAAAGATAGTCCATGTGGACTCTTGCTTGAAAGATAGTCCATGCAGACTCTTATTG
97269676 GAAAGATAGTCCATGTGGACTCTTGCTTGAAAGATAGTCCATGCAGACTCTTATTG
1 GAAAGATAGTCCATGTGGACTCTTGCTTGAAAGATAGTCCATGCAGACTCTTATTG
* * *
97269732 GAAAGATAGTCCATGTGGACTCTTGCTTGAAAGATAGTTCATGCAAACTCTTGCTT-
1 GAAAGATAGTCCATGTGGACTCTTGCTTGAAAGATAGTCCATGCAGACTCTT-ATTG
*
97269788 GAAAGATAATCCAT
1 GAAAGATAGTCCAT
97269802 ACGGACTATA
Statistics
Matches: 120, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
56 118 0.98
57 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (56 bp):
GAAAGATAGTCCATGTGGACTCTTGCTTGAAAGATAGTCCATGCAGACTCTTATTG
Found at i:97279748 original size:2 final size:2
Alignment explanation
Indices: 97279741--97279767 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
97279731 ACAATTATTC
97279741 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
97279768 TTAAATGGCA
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:97284704 original size:33 final size:32
Alignment explanation
Indices: 97284630--97284709 Score: 85
Period size: 32 Copynumber: 2.5 Consensus size: 32
97284620 TTTTAGAGGA
* *
97284630 ATATT-GTTATCATTTAACAAAATTAAAGTTG
1 ATATTAGTTATCATTTAACAAAATGAAAATTG
*
97284661 ATA-TATGTTATTATTTCAA-AAAATGAAAATGTG
1 ATATTA-GTTATCATTT-AACAAAATGAAAAT-TG
97284694 ATATTAGTTATCATTT
1 ATATTAGTTATCATTT
97284710 TACAGAACTG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
30 1 0.03
31 3 0.08
32 18 0.45
33 16 0.40
34 2 0.05
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (32 bp):
ATATTAGTTATCATTTAACAAAATGAAAATTG
Found at i:97285761 original size:52 final size:52
Alignment explanation
Indices: 97285699--97285798 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
97285689 GTAGTTAGAA
**
97285699 GCAACCTGCCTTAGACAGTACCAATAGTGTGTGTGGTCCCAGAGGCTTCCAC
1 GCAACCTGCCTTAGACAGTACCAATAGTGTGTACGGTCCCAGAGGCTTCCAC
* *
97285751 GCAACGTGCCTTAGACAGTACCAATAGTGTGTACGGTCCTAGAGGCTT
1 GCAACCTGCCTTAGACAGTACCAATAGTGTGTACGGTCCCAGAGGCTT
97285799 TTCTGTCGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (52 bp):
GCAACCTGCCTTAGACAGTACCAATAGTGTGTACGGTCCCAGAGGCTTCCAC
Found at i:97288430 original size:6 final size:7
Alignment explanation
Indices: 97288408--97288454 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
97288398 TATCAATTTA
*
97288408 AAACCCA
1 AAACCCT
97288415 AAACCCT
1 AAACCCT
97288422 AAA-CCT
1 AAACCCT
97288428 AAACCCT
1 AAACCCT
*
97288435 AAAACCTT
1 -AAACCCT
97288443 AAAACCCT
1 -AAACCCT
97288451 AAAC
1 AAAC
97288455 AACTAGAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
6 6 0.17
7 16 0.46
8 13 0.37
ACGTcount: A:0.51, C:0.36, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:97288430 original size:21 final size:21
Alignment explanation
Indices: 97288408--97288454 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
97288398 TATCAATTTA
97288408 AAACCC-AAAACCCTAAACCT
1 AAACCCTAAAACCCTAAACCT
*
97288428 AAACCCTAAAACCTTAAAACCCT
1 AAACCCTAAAACCCT-AAA-CCT
97288451 AAAC
1 AAAC
97288455 AACTAGAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 7 0.30
22 3 0.13
23 7 0.30
ACGTcount: A:0.51, C:0.36, G:0.00, T:0.13
Consensus pattern (21 bp):
AAACCCTAAAACCCTAAACCT
Found at i:97288445 original size:8 final size:8
Alignment explanation
Indices: 97288406--97288453 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
97288396 TTTATCAATT
97288406 TAAAACCC
1 TAAAACCC
97288414 -AAAACCC
1 TAAAACCC
97288421 T-AAA-CC
1 TAAAACCC
97288427 T-AAACCC
1 TAAAACCC
*
97288434 TAAAACCT
1 TAAAACCC
97288442 TAAAACCC
1 TAAAACCC
97288450 TAAA
1 TAAA
97288454 CAACTAGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 6 0.17
7 13 0.37
8 16 0.46
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (8 bp):
TAAAACCC
Found at i:97295504 original size:6 final size:6
Alignment explanation
Indices: 97295488--97295527 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
97295478 CTTGGTTATT
* * *
97295488 GTCTTC TTCTTC GTCTTC GTCATC GTCTTC GTCATC GTCT
1 GTCTTC GTCTTC GTCTTC GTCTTC GTCTTC GTCTTC GTCT
97295528 GGGCTTTCTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.05, C:0.33, G:0.15, T:0.47
Consensus pattern (6 bp):
GTCTTC
Found at i:97301609 original size:18 final size:19
Alignment explanation
Indices: 97301564--97301613 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
97301554 CCAGGATCAA
*
97301564 TTTGAAACAAAATGGAAAAT
1 TTTGAAA-AACATGGAAAAT
97301584 TTTAGAAAAACAT-GAAAAT
1 TTT-GAAAAACATGGAAAAT
97301603 TTTGAAAAACA
1 TTTGAAAAACA
97301614 GGGGTCACAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 8 0.29
19 9 0.32
20 7 0.25
21 4 0.14
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (19 bp):
TTTGAAAAACATGGAAAAT
Found at i:97301938 original size:17 final size:17
Alignment explanation
Indices: 97301916--97301956 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
97301906 GTGTGGGTGA
97301916 CCGTGTGTGGCACACGG
1 CCGTGTGTGGCACACGG
97301933 CCGTGTGTGGCACACGG
1 CCGTGTGTGGCACACGG
97301950 CCGTGTG
1 CCGTGTG
97301957 CCAGCTCGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.10, C:0.29, G:0.41, T:0.20
Consensus pattern (17 bp):
CCGTGTGTGGCACACGG
Found at i:97302650 original size:20 final size:20
Alignment explanation
Indices: 97302614--97302651 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
97302604 GACTAAACCG
*
97302614 AAAACTTTAGAACTTTTTAC
1 AAAACTTTAGAAATTTTTAC
97302634 AAAAC-TTAGAAAATTTTT
1 AAAACTTTAG-AAATTTTT
97302652 CACTAAACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (20 bp):
AAAACTTTAGAAATTTTTAC
Done.