Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 141 of 195
Found at i:23763066 original size:39 final size:39
Alignment explanation
Indices: 23763007--23763084 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
23762997 CAATTTGTTG
**
23763007 TTGAACCAATAGTAGTACTTTCTTTA-AAAAGATGTTTTC
1 TTGAACCAATAGTAACACTTTCTTTAGAAAA-ATGTTTTC
*
23763046 TTGAACCAGTAGTAACACTTTCTTTAGAAAAATGTTTTC
1 TTGAACCAATAGTAACACTTTCTTTAGAAAAATGTTTTC
23763085 GTTTTCAACC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
39 31 0.89
40 4 0.11
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (39 bp):
TTGAACCAATAGTAACACTTTCTTTAGAAAAATGTTTTC
Found at i:23764299 original size:3 final size:3
Alignment explanation
Indices: 23764291--23764315 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
23764281 TTTGAATGGG
23764291 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
23764316 CAAAAGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:23764680 original size:3 final size:3
Alignment explanation
Indices: 23764672--23764720 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
23764662 ATATTAACTT
* * * *
23764672 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ACA ACA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23764720 A
1 A
23764721 CAAAGCTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.24
Consensus pattern (3 bp):
ATA
Found at i:23766225 original size:18 final size:17
Alignment explanation
Indices: 23766176--23766228 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
23766166 CTTAAACCTT
*
23766176 TATTTTGTACTTAAATAA
1 TATTTTG-ATTTAAATAA
* * *
23766194 GATTTTAATATAAATCAA
1 TATTTTGATTTAAAT-AA
23766212 TATTTTGATTTAAATAA
1 TATTTTGATTTAAATAA
23766229 AAGGTTTATT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (17 bp):
TATTTTGATTTAAATAA
Found at i:23768114 original size:18 final size:18
Alignment explanation
Indices: 23768064--23768115 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
23768054 TCTCAAAATA
*
23768064 TATATATATATATATT-TT
1 TATATATAT-TATATTAAT
*
23768082 TAAATAT-TTAT-TTAAT
1 TATATATATTATATTAAT
23768098 TATATATATTATATTAAT
1 TATATATATTATATTAAT
23768116 AAATTTATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 2 0.07
16 10 0.36
17 5 0.18
18 11 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATATATATTATATTAAT
Found at i:23770163 original size:2 final size:2
Alignment explanation
Indices: 23770156--23770182 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23770146 AATCTGAGAC
23770156 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
23770183 TATTTGAGTT
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:23775886 original size:6 final size:6
Alignment explanation
Indices: 23775875--23775905 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
23775865 ACTCAAAAGC
*
23775875 AGAGAA AGAGAA AGAGAA AGAGAG AGAGAA A
1 AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA A
23775906 TAGCAGTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (6 bp):
AGAGAA
Found at i:23780076 original size:22 final size:22
Alignment explanation
Indices: 23780051--23780094 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
23780041 ATTTTTTGTC
*
23780051 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
23780073 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
23780095 TAAATACACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:23780500 original size:2 final size:2
Alignment explanation
Indices: 23780493--23780519 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23780483 ATCTTCCTTA
23780493 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 A
23780520 AACTAAATTC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23781499 original size:39 final size:39
Alignment explanation
Indices: 23781451--23781527 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
23781441 AACCAATCCT
*
23781451 TTCAGTCCCACTAAGCATTCTGGTTAA-TTTTCCATTTTG
1 TTCAATCCCACTAAGCATTCTGG-TAAGTTTTCCATTTTG
23781490 TTCAATCCCACTAAGCATTCTGGTAAGTTTTCCATTTT
1 TTCAATCCCACTAAGCATTCTGGTAAGTTTTCCATTTT
23781528 TTTGACTGAC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 3 0.08
39 33 0.92
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.43
Consensus pattern (39 bp):
TTCAATCCCACTAAGCATTCTGGTAAGTTTTCCATTTTG
Found at i:23784934 original size:54 final size:54
Alignment explanation
Indices: 23784839--23784955 Score: 135
Period size: 54 Copynumber: 2.2 Consensus size: 54
23784829 GCAATTTCCT
* * * *
23784839 AACCAACCCTTTCAAAACCAGATTCCCAACCATTCTATTCAAAACTAGAATCTC
1 AACCAACCCTTTCAAAACCAGAATCCCAACCAGTCCATTCAAAACCAGAATCTC
* * * * * *
23784893 AACCAACCCTTTCAAAACTAGAATCTCAACTAGTCCCTTCAAAACCAGATTCTT
1 AACCAACCCTTTCAAAACCAGAATCCCAACCAGTCCATTCAAAACCAGAATCTC
*
23784947 AACCTACCC
1 AACCAACCC
23784956 AATCGATCAG
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.38, C:0.34, G:0.04, T:0.24
Consensus pattern (54 bp):
AACCAACCCTTTCAAAACCAGAATCCCAACCAGTCCATTCAAAACCAGAATCTC
Found at i:23784937 original size:27 final size:27
Alignment explanation
Indices: 23784839--23784922 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
23784829 GCAATTTCCT
* * *
23784839 AACCAACCCTTTCAAAACCAGATTCCC
1 AACCAACCCTTTCAAAACTAGAATCTC
**
23784866 AACC-ATTCTATTCAAAACTAGAATCTC
1 AACCAACCCT-TTCAAAACTAGAATCTC
23784893 AACCAACCCTTTCAAAACTAGAATCTC
1 AACCAACCCTTTCAAAACTAGAATCTC
23784920 AAC
1 AAC
23784923 TAGTCCCTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 3 0.06
27 42 0.88
28 3 0.06
ACGTcount: A:0.40, C:0.33, G:0.04, T:0.23
Consensus pattern (27 bp):
AACCAACCCTTTCAAAACTAGAATCTC
Found at i:23789823 original size:24 final size:22
Alignment explanation
Indices: 23789769--23789828 Score: 57
Period size: 24 Copynumber: 2.6 Consensus size: 22
23789759 ATATTATATT
*
23789769 TATATAATTAATCAACAAATTA
1 TATATAATTAAACAACAAATTA
* *
23789791 TAATTTAATTAAACAATTAAATTCA
1 T-ATATAATTAAACAA-CAAATT-A
*
23789816 TATATAATAAAAC
1 TATATAATTAAAC
23789829 TTATACATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
22 1 0.03
23 12 0.40
24 15 0.50
25 2 0.07
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (22 bp):
TATATAATTAAACAACAAATTA
Found at i:23791224 original size:15 final size:14
Alignment explanation
Indices: 23791181--23791227 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 14
23791171 AAATTATAAG
23791181 AAAAATTTTATTTA
1 AAAAATTTTATTTA
23791195 ATAGAAATTTT-TTTA
1 A-A-AAATTTTATTTA
23791210 AAAAATTATTATTTA
1 AAAAATT-TTATTTA
23791225 AAA
1 AAA
23791228 TTAAATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.17
14 4 0.14
15 13 0.45
16 7 0.24
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (14 bp):
AAAAATTTTATTTA
Found at i:23792792 original size:13 final size:13
Alignment explanation
Indices: 23792786--23792870 Score: 55
Period size: 13 Copynumber: 6.2 Consensus size: 13
23792776 ATTTTTTCTA
23792786 TTTATTTATTTAT
1 TTTATTTATTTAT
*
23792799 TTTATTTATATAT
1 TTTATTTATTTAT
*
23792812 AGTTATTTATTTA-
1 -TTTATTTATTTAT
* * *
23792825 TCTGTTTATTTGT
1 TTTATTTATTTAT
*
23792838 TTTCCATCTATGTTATT
1 TTT--ATTTAT-TTA-T
23792855 TTTCATTTATTTAT
1 TTT-ATTTATTTAT
23792869 TT
1 TT
23792871 GTTATTCATT
Statistics
Matches: 54, Mismatches: 12, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
12 8 0.15
13 14 0.26
14 13 0.24
15 7 0.13
16 8 0.15
17 4 0.07
ACGTcount: A:0.21, C:0.06, G:0.05, T:0.68
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:23792793 original size:4 final size:4
Alignment explanation
Indices: 23792770--23792883 Score: 56
Period size: 4 Copynumber: 28.2 Consensus size: 4
23792760 TCTTGGTATT
* *
23792770 TTTA -TTA TTTT TTCTA TTTA TTTA TTTA TTTTA TTTA TATATA GTTA
1 TTTA TTTA TTTA TT-TA TTTA TTTA TTTA -TTTA TTTA T-T-TA TTTA
* * * ** * *
23792817 TTTA TTTA TCTG TTTA TTTG TTT- TCCA TCTA TGTTA TTT- TTCA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA
* *
23792864 TTTA TTT- GTTA TTCA TTTA T
1 TTTA TTTA TTTA TTTA TTTA T
23792884 CTATAAATAT
Statistics
Matches: 82, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
3 8 0.10
4 60 0.73
5 12 0.15
6 2 0.02
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:23792794 original size:17 final size:17
Alignment explanation
Indices: 23792770--23792835 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 17
23792760 TCTTGGTATT
23792770 TTTA-TTATTT-TTTCTA
1 TTTATTTATTTATTT-TA
23792786 TTTATTTATTTATTTTA
1 TTTATTTATTTATTTTA
*
23792803 TTTATATATAGTTA-TTTA
1 TTTAT-T-TATTTATTTTA
* *
23792821 TTTATCTGTTTATTT
1 TTTATTTATTTATTT
23792836 GTTTTCCATC
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
16 8 0.20
17 15 0.37
18 13 0.32
19 5 0.12
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTATTTATTTATTTTA
Found at i:23792823 original size:35 final size:35
Alignment explanation
Indices: 23792784--23792879 Score: 99
Period size: 35 Copynumber: 2.7 Consensus size: 35
23792774 TTATTTTTTC
23792784 TATTTATTTATTTATTT-TATTT-ATATATAGTTATT
1 TATTTATTTATTTATTTGT-TTTCATATAT-GTTATT
* * *
23792819 TATTTATCTGTTTATTTGTTTTCCATCTATGTTATT
1 TATTTATTTATTTATTTGTTTT-CATATATGTTATT
*
23792855 T-TTCATTTATTTATTTGTTATTCAT
1 TATTTATTTATTTATTTGTT-TTCAT
23792880 TTATCTATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
35 36 0.71
36 10 0.20
37 5 0.10
ACGTcount: A:0.22, C:0.06, G:0.05, T:0.67
Consensus pattern (35 bp):
TATTTATTTATTTATTTGTTTTCATATATGTTATT
Found at i:23793030 original size:27 final size:27
Alignment explanation
Indices: 23793000--23793054 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
23792990 AATTGTACCA
* *
23793000 ACATATTGGAATATTCAAATTTTTAAT
1 ACATATTAGAAGATTCAAATTTTTAAT
* *
23793027 ACATATTAGAAGATTTAAGTTTTTAAT
1 ACATATTAGAAGATTCAAATTTTTAAT
23793054 A
1 A
23793055 AATTGTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (27 bp):
ACATATTAGAAGATTCAAATTTTTAAT
Found at i:23797529 original size:3 final size:3
Alignment explanation
Indices: 23797523--23797558 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
23797513 TATTAGATTA
23797523 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
23797559 TTTGTATTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:23803603 original size:38 final size:38
Alignment explanation
Indices: 23803561--23803651 Score: 137
Period size: 38 Copynumber: 2.4 Consensus size: 38
23803551 TAAGAAGATG
* *
23803561 TTTTATTTTTAAAATTATGTGCCTCTGTTAGGAGGACC
1 TTTTATTTTTAAAATTATATGCCTCTGTTACGAGGACC
* *
23803599 TTTTATTTTTAAAGTTATATGCCTCTGTTACGAGGAGC
1 TTTTATTTTTAAAATTATATGCCTCTGTTACGAGGACC
23803637 TTTTATTTTTTAAAA
1 TTTTA-TTTTTAAAA
23803652 AAAGTTGTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 39 0.83
39 8 0.17
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.48
Consensus pattern (38 bp):
TTTTATTTTTAAAATTATATGCCTCTGTTACGAGGACC
Found at i:23804419 original size:4 final size:4
Alignment explanation
Indices: 23804410--23804461 Score: 59
Period size: 4 Copynumber: 12.2 Consensus size: 4
23804400 ATTTTTTTCC
* *
23804410 TATT TATT TATT TATTT TATT TATGT ATAGT TATT TATT TATT TGTT TATT
1 TATT TATT TATT TA-TT TATT TAT-T -TATT TATT TATT TATT TATT TATT
23804461 T
1 T
23804462 GTTTTTCATC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 33 0.80
5 6 0.15
6 2 0.05
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:23804459 original size:35 final size:36
Alignment explanation
Indices: 23804410--23804498 Score: 103
Period size: 35 Copynumber: 2.5 Consensus size: 36
23804400 ATTTTTTTCC
* *
23804410 TATTTATTTATTTATTT-TATTT-ATGTATAGTTATT
1 TATTTATTTGTTTATTTGTATTTCATCTAT-GTTATT
*
23804445 TATTTATTTGTTTATTTGTTTTTCATCTATGTTATT
1 TATTTATTTGTTTATTTGTATTTCATCTATGTTATT
* *
23804481 T-GTCATTTGTTTATTTGT
1 TATTTATTTGTTTATTTGT
23804499 TATTGATTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
35 31 0.66
36 11 0.23
37 5 0.11
ACGTcount: A:0.19, C:0.03, G:0.09, T:0.69
Consensus pattern (36 bp):
TATTTATTTGTTTATTTGTATTTCATCTATGTTATT
Found at i:23807515 original size:3 final size:3
Alignment explanation
Indices: 23807507--23807545 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
23807497 GAGCAAATCA
23807507 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23807546 TGGACCGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23810919 original size:14 final size:14
Alignment explanation
Indices: 23810902--23810939 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
23810892 ATTAGATTAC
23810902 TTCAATTATTTTTT
1 TTCAATTATTTTTT
23810916 TTCAATTA-TTTTT
1 TTCAATTATTTTTT
*
23810929 TTCAAGTATTT
1 TTCAATTATTT
23810940 AAATTATTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (14 bp):
TTCAATTATTTTTT
Found at i:23814697 original size:3 final size:3
Alignment explanation
Indices: 23814691--23814721 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
23814681 TTTTTTCTCT
23814691 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
23814722 GTTTGTTCGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:23817069 original size:16 final size:16
Alignment explanation
Indices: 23817048--23817104 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 16
23817038 TTAATTTTTT
23817048 TTAAAATTTTTTATAA
1 TTAAAATTTTTTATAA
23817064 TTAAAA--TTTTATAA
1 TTAAAATTTTTTATAA
*
23817078 TT--ATTTTTTTATAA
1 TTAAAATTTTTTATAA
* *
23817092 GTAAAATTATTTA
1 TTAAAATTTTTTA
23817105 ACAAAAGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 1 0.03
14 19 0.58
16 13 0.39
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
TTAAAATTTTTTATAA
Found at i:23829918 original size:16 final size:16
Alignment explanation
Indices: 23829897--23829947 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
23829887 TTTGATCTCG
23829897 GGGTTTAAAGGTTTTA
1 GGGTTTAAAGGTTTTA
23829913 GGGTTT--A-GTTTTA
1 GGGTTTAAAGGTTTTA
*
23829926 AGGTTTGAAAGG-TTTA
1 GGGTTT-AAAGGTTTTA
23829942 GGGTTT
1 GGGTTT
23829948 TGATTTTAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 11 0.38
14 1 0.03
16 16 0.55
17 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.45
Consensus pattern (16 bp):
GGGTTTAAAGGTTTTA
Found at i:23829955 original size:30 final size:29
Alignment explanation
Indices: 23829879--23829971 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 29
23829869 AATTTTGGAT
***
23829879 TTTAGGGTTTTGATCTCGGGGTTT-AAAGG
1 TTTAGGGTTTTGAT-TTTAGGTTTGAAAGG
*
23829908 TTTTAGGGTTTAG-TTTTAAGGTTTGAAAGG
1 -TTTAGGGTTTTGATTTT-AGGTTTGAAAGG
23829938 TTTAGGGTTTTGATTTTAGTGTTTG--AGG
1 TTTAGGGTTTTGATTTTAG-GTTTGAAAGG
23829966 TTTAGG
1 TTTAGG
23829972 ATTTAAGGGT
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
28 10 0.19
29 19 0.35
30 25 0.46
ACGTcount: A:0.18, C:0.02, G:0.32, T:0.47
Consensus pattern (29 bp):
TTTAGGGTTTTGATTTTAGGTTTGAAAGG
Found at i:23830480 original size:10 final size:10
Alignment explanation
Indices: 23830467--23830496 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
23830457 TAAAAATATT
23830467 TTTAAAAAAA
1 TTTAAAAAAA
23830477 TTTAAAAAAA
1 TTTAAAAAAA
*
23830487 TATAAAAAAA
1 TTTAAAAAAA
23830497 AATTATCTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
TTTAAAAAAA
Found at i:23831441 original size:19 final size:18
Alignment explanation
Indices: 23831414--23831452 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
23831404 CCCTTGTTTT
23831414 TTTTATCTTTTTTTAATTA
1 TTTTATC-TTTTTTAATTA
*
23831433 TTTTCTCTTTTTTAATTA
1 TTTTATCTTTTTTAATTA
23831451 TT
1 TT
23831453 AATTATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTATCTTTTTTAATTA
Found at i:23831834 original size:21 final size:21
Alignment explanation
Indices: 23831805--23831844 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23831795 AAAAATTTTA
*
23831805 TTTTGTTTTTATTTTTGTTGT
1 TTTTGTTTTCATTTTTGTTGT
*
23831826 TTTTTTTTTCATTTTTGTT
1 TTTTGTTTTCATTTTTGTT
23831845 AGTCAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.05, C:0.03, G:0.10, T:0.82
Consensus pattern (21 bp):
TTTTGTTTTCATTTTTGTTGT
Found at i:23831938 original size:34 final size:34
Alignment explanation
Indices: 23831900--23831975 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
23831890 AACGAGATTG
*
23831900 AGATTTAACTGCAAGTCAAAAAATAAAGAGACCT
1 AGATTTAACTGCAAGTCAAAAAATAAAGAGACCA
* * * * * *
23831934 AGATTAAATTGTAAGTCAGAAACTAAAGAGATCA
1 AGATTTAACTGCAAGTCAAAAAATAAAGAGACCA
23831968 AGATTTAA
1 AGATTTAA
23831976 TCGCGAGTTG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.50, C:0.11, G:0.16, T:0.24
Consensus pattern (34 bp):
AGATTTAACTGCAAGTCAAAAAATAAAGAGACCA
Found at i:23832113 original size:36 final size:36
Alignment explanation
Indices: 23832038--23832129 Score: 112
Period size: 36 Copynumber: 2.6 Consensus size: 36
23832028 CAATGACTGA
* * ** *
23832038 GATTGAATCGTGAGTCAAAAGGATAAAGATGACCGG
1 GATTGAACCGTGAGTCAAGAGGATAAAGACAACCAG
*
23832074 GATTGAACCGTGAGTCAAGAGGATAAAGACAACTAG
1 GATTGAACCGTGAGTCAAGAGGATAAAGACAACCAG
**
23832110 GATTGAACCACGAGTCAAGA
1 GATTGAACCGTGAGTCAAGA
23832130 AAATTATGTC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.40, C:0.14, G:0.28, T:0.17
Consensus pattern (36 bp):
GATTGAACCGTGAGTCAAGAGGATAAAGACAACCAG
Found at i:23832264 original size:34 final size:34
Alignment explanation
Indices: 23832182--23832421 Score: 153
Period size: 34 Copynumber: 7.0 Consensus size: 34
23832172 AGGACTAGGG
** * *
23832182 TTGAACCGCAAGTTAGAGAATAATGATGA-CTAAGA
1 TTGAACCGTGAGTCAGAGAATAATGA-GATC-GAGA
* * *
23832217 TTAAACCG-CAGTCAGAGAAGAATGAGATCGAGA
1 TTGAACCGTGAGTCAGAGAATAATGAGATCGAGA
* * ** *
23832250 TTGAACCGTGAGTCATAAAATAACAACGACCGAGA
1 TTGAACCGTGAGTCAGAGAATAATGA-GATCGAGA
* * *
23832285 TTAAACCGTAAGTCAGAGAATAATGAGATTGAGA
1 TTGAACCGTGAGTCAGAGAATAATGAGATCGAGA
*** * *
23832319 TTGAACTACGAGTCATAGAATAATGATGA-CTGGGA
1 TTGAACCGTGAGTCAGAGAATAATGA-GATC-GAGA
* ** *
23832354 TTAAATTGTGAGTCAGAGAATAATGAGATCGGGA
1 TTGAACCGTGAGTCAGAGAATAATGAGATCGAGA
** * * *
23832388 TTGAACCACGAGCCAAAGAATAATGAGATTGAGA
1 TTGAACCGTGAGTCAGAGAATAATGAGATCGAGA
23832422 CTGAGCTGTG
Statistics
Matches: 156, Mismatches: 43, Indels: 13
0.74 0.20 0.06
Matches are distributed among these distances:
33 12 0.08
34 83 0.53
35 61 0.39
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (34 bp):
TTGAACCGTGAGTCAGAGAATAATGAGATCGAGA
Found at i:23832307 original size:35 final size:34
Alignment explanation
Indices: 23832214--23832307 Score: 91
Period size: 35 Copynumber: 2.8 Consensus size: 34
23832204 ATGATGACTA
* * ** *
23832214 AGATTAAACCG-CAGTCAGAGAAGAATGAGATCG
1 AGATTAAACCGTAAGTCAGAGAATAACAAGACCG
* * * *
23832247 AGATTGAACCGTGAGTCATAAAATAACAACGACCG
1 AGATTAAACCGTAAGTCAGAGAATAACAA-GACCG
23832282 AGATTAAACCGTAAGTCAGAGAATAA
1 AGATTAAACCGTAAGTCAGAGAATAA
23832308 TGAGATTGAG
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
33 10 0.21
34 11 0.23
35 26 0.55
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.17
Consensus pattern (34 bp):
AGATTAAACCGTAAGTCAGAGAATAACAAGACCG
Found at i:23832408 original size:69 final size:69
Alignment explanation
Indices: 23832198--23832421 Score: 247
Period size: 69 Copynumber: 3.3 Consensus size: 69
23832188 CGCAAGTTAG
* * * **
23832198 AGAATAATGATGACTAAGATTAAACCG-CAGTCAGAGAAGAATGAGATCGAGATTGAACCGTGAG
1 AGAATAATGATGACTGAGATTAAACCGTAAGTCAGAGAATAATGAGATCGAGATTGAACCACGAG
23832262 TCATA
66 TCA-A
** * * * *
23832267 A-AATAACAACGACCGAGATTAAACCGTAAGTCAGAGAATAATGAGATTGAGATTGAACTACGAG
1 AGAATAATGATGACTGAGATTAAACCGTAAGTCAGAGAATAATGAGATCGAGATTGAACCACGAG
*
23832331 TCAT
66 TCAA
* ** * *
23832335 AGAATAATGATGACTGGGATTAAATTGTGAGTCAGAGAATAATGAGATCGGGATTGAACCACGAG
1 AGAATAATGATGACTGAGATTAAACCGTAAGTCAGAGAATAATGAGATCGAGATTGAACCACGAG
*
23832400 CCAA
66 TCAA
*
23832404 AGAATAATGA-GATTGAGA
1 AGAATAATGATGACTGAGA
23832422 CTGAGCTGTG
Statistics
Matches: 126, Mismatches: 27, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
68 27 0.21
69 99 0.79
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (69 bp):
AGAATAATGATGACTGAGATTAAACCGTAAGTCAGAGAATAATGAGATCGAGATTGAACCACGAG
TCAA
Found at i:23833485 original size:24 final size:23
Alignment explanation
Indices: 23833448--23833521 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 23
23833438 ACTTTCCCTT
23833448 TTTTTTTC-TCTTTTTTTTTTTACA
1 TTTTTTTCAT-TTTTTTTTTTTA-A
*
23833472 TTTTTTTCATTTTTTGTTTTT-A
1 TTTTTTTCATTTTTTTTTTTTAA
23833494 TTTTTTTACATTTTTTGTTTTTT-A
1 TTTTTTT-CATTTTTT-TTTTTTAA
23833518 TTTT
1 TTTT
23833522 AAGTAAAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
22 8 0.18
23 8 0.18
24 28 0.62
25 1 0.02
ACGTcount: A:0.09, C:0.07, G:0.03, T:0.81
Consensus pattern (23 bp):
TTTTTTTCATTTTTTTTTTTTAA
Found at i:23833491 original size:23 final size:22
Alignment explanation
Indices: 23833448--23833514 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 22
23833438 ACTTTCCCTT
* *
23833448 TTTTTTTCTCTTTTTTTTTTTACA
1 TTTTTTTC-ATTTTTTGTTTT-CA
*
23833472 TTTTTTTCATTTTTTGTTTTTA
1 TTTTTTTCATTTTTTGTTTTCA
23833494 TTTTTTTACATTTTTTGTTTT
1 TTTTTTT-CATTTTTTGTTTT
23833515 TTATTTTAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
22 8 0.21
23 23 0.59
24 8 0.21
ACGTcount: A:0.09, C:0.07, G:0.03, T:0.81
Consensus pattern (22 bp):
TTTTTTTCATTTTTTGTTTTCA
Found at i:23833498 original size:32 final size:32
Alignment explanation
Indices: 23833449--23833509 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
23833439 CTTTCCCTTT
23833449 TTTTTTCTCTTTTTTTTTTTACATTTTTTTCA
1 TTTTTTCTCTTTTTTTTTTTACATTTTTTTCA
*
23833481 TTTTTTGT-TTTTATTTTTTTACATTTTTT
1 TTTTTTCTCTTTT-TTTTTTTACATTTTTT
23833510 GTTTTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.10, C:0.08, G:0.02, T:0.80
Consensus pattern (32 bp):
TTTTTTCTCTTTTTTTTTTTACATTTTTTTCA
Found at i:23833521 original size:23 final size:23
Alignment explanation
Indices: 23833458--23833521 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
23833448 TTTTTTTCTC
* *
23833458 TTTTTT-TTTTTACATTTTTTTCA
1 TTTTTTGTTTTT-TATTTTTTACA
23833481 TTTTTTG-TTTTTATTTTTTTACA
1 TTTTTTGTTTTTTA-TTTTTTACA
23833504 TTTTTTGTTTTTTATTTT
1 TTTTTTGTTTTTTATTTT
23833522 AAGTAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
22 1 0.03
23 29 0.81
24 6 0.17
ACGTcount: A:0.11, C:0.05, G:0.03, T:0.81
Consensus pattern (23 bp):
TTTTTTGTTTTTTATTTTTTACA
Found at i:23844982 original size:37 final size:37
Alignment explanation
Indices: 23844941--23845023 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 37
23844931 GCTAAATTTG
23844941 GGGTTT-AGACTTTTAAGATTTCGG-ATTTTGGATTTTA
1 GGGTTTCA-ACTTTTAAGATTT-GGAATTTTGGATTTTA
* * *
23844978 GGGTTTCAATTTTTAGGGTTTGGAATTTTGGATTTTA
1 GGGTTTCAACTTTTAAGATTTGGAATTTTGGATTTTA
*
23845015 GGATTTCAA
1 GGGTTTCAA
23845024 TCTCGGGGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
36 2 0.05
37 37 0.93
38 1 0.03
ACGTcount: A:0.22, C:0.05, G:0.25, T:0.48
Consensus pattern (37 bp):
GGGTTTCAACTTTTAAGATTTGGAATTTTGGATTTTA
Found at i:23846647 original size:16 final size:17
Alignment explanation
Indices: 23846623--23846656 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
23846613 CTTTTTTGTC
23846623 TTTCTTTTTTTTATTAT
1 TTTCTTTTTTTTATTAT
23846640 TTTC-TTTTTTTATTAT
1 TTTCTTTTTTTTATTAT
23846656 T
1 T
23846657 AATTGTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTCTTTTTTTTATTAT
Found at i:23846689 original size:6 final size:6
Alignment explanation
Indices: 23846678--23846713 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
23846668 TTATTTAATT
23846678 AAAATA AAAATA AAAAT- AAAAT- AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
23846714 TATGTTTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:23846698 original size:11 final size:11
Alignment explanation
Indices: 23846677--23846713 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
23846667 TTTATTTAAT
23846677 TAAAATAAAAA
1 TAAAATAAAAA
23846688 TAAAA-ATAAAA
1 TAAAATA-AAAA
23846699 TAAAATAAAAA
1 TAAAATAAAAA
23846710 TAAA
1 TAAA
23846714 TATGTTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.04
11 22 0.92
12 1 0.04
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:23846804 original size:28 final size:28
Alignment explanation
Indices: 23846773--23846836 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
23846763 AAATTGGGCT
*
23846773 TGAAGTCCAATTGAGTCAAAATCGAGCC
1 TGAAGTCCAATTGAGCCAAAATCGAGCC
*
23846801 TGAAGCCCAATTGAGCCAAAATCGAGCC
1 TGAAGTCCAATTGAGCCAAAATCGAGCC
*
23846829 TGAGGTCC
1 TGAAGTCC
23846837 GATTAAATCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (28 bp):
TGAAGTCCAATTGAGCCAAAATCGAGCC
Found at i:23849835 original size:44 final size:44
Alignment explanation
Indices: 23849764--23849850 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
23849754 ACCAATTGGA
* *
23849764 CGAGAGCTAAGTGCTATACCATAAGAGCCACCTCTAGAATCTTG
1 CGAGAGCTAAATGCTATACCATAAGAGCCACCTCTAAAATCTTG
** *
23849808 CGAGAGCTAAATGCTATATGATGAGAGCCACCTCTAAAATCTT
1 CGAGAGCTAAATGCTATACCATAAGAGCCACCTCTAAAATCTT
23849851 AATGTCTAGT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (44 bp):
CGAGAGCTAAATGCTATACCATAAGAGCCACCTCTAAAATCTTG
Found at i:23867825 original size:7 final size:7
Alignment explanation
Indices: 23867814--23867844 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
23867804 AGTTTACAAT
*
23867814 CTGCATT
1 CTGCATC
23867821 CTGCATC
1 CTGCATC
23867828 CTGCATC
1 CTGCATC
23867835 CTGCATC
1 CTGCATC
23867842 CTG
1 CTG
23867845 GTTTCAGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.39, G:0.16, T:0.32
Consensus pattern (7 bp):
CTGCATC
Found at i:23868260 original size:2 final size:2
Alignment explanation
Indices: 23868255--23868279 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23868245 ATTTTACTTT
23868255 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
23868280 TGTGTGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23880078 original size:129 final size:129
Alignment explanation
Indices: 23879820--23880072 Score: 292
Period size: 129 Copynumber: 1.9 Consensus size: 129
23879810 AACAAGTAAA
* ***
23879820 TATCATTACAAATATAATAAAAATTTTCGTAATAAATTTTTTTTAATTGTATAAAATATTTTTAA
1 TATCATTACAAATATAATAAAAATTTTCGTAATAAAATTTTTTTAATTGTATAAAATATTAGAAA
* * * * * *
23879885 AAATTTAAGAAATAACATTGAAAATCCGTTGCAAATAAAATAAGTATTTGCAGCAATACGTTTT
66 AAACTTAAGAAACAACATCGAAAATCCATTGCAAATAAAACAAGTATTTGCAACAATACGTTTT
* * *
23879949 TATCATTACAAATATAATAAAAGTTTTTGTAATAATAATTTTTTTCATTGTATAAAATATTAAGA
1 TATCATTACAAATATAATAAAAATTTTCGTAATAA-AATTTTTTTAATTGTATAAAATATT-AGA
* * * * * *
23880014 AAAAACTTAAGTAACGATATCGAAAAAT-TATTGCAAATTAAACAAGTTTTATGCAACAA
64 AAAAACTTAAGAAACAACATCG-AAAATCCATTGCAAATAAAACAAGTATT-TGCAACAA
23880073 CTTTTTTTTT
Statistics
Matches: 101, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
129 33 0.33
130 23 0.23
131 33 0.33
132 12 0.12
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (129 bp):
TATCATTACAAATATAATAAAAATTTTCGTAATAAAATTTTTTTAATTGTATAAAATATTAGAAA
AAACTTAAGAAACAACATCGAAAATCCATTGCAAATAAAACAAGTATTTGCAACAATACGTTTT
Found at i:23880354 original size:131 final size:128
Alignment explanation
Indices: 23879954--23880365 Score: 357
Period size: 131 Copynumber: 3.1 Consensus size: 128
23879944 GTTTTTATCA
* *
23879954 TTACAAATATAATAAAAGTTTTTGTAATAATAATTTTTT-TCATTGTATAAAATATTAAGAAA-A
1 TTACAAATATAATAAAA-TTTTTGTAACAA-CATTTTTTGTCATTGTATAAAATATTAA-AAATA
* * * * * * *
23880017 AACTTAAGTAACGATATCGAAAAATTATTGCAAATTAAACAAGTTTTATGCAACAACTTTTTTTT
63 AA-TTAAGTAACGATTTTGAAAAATTATTGTAAATAAAAAAAGTTTCA--CAACAA-TTTTTTAT
23880082 TATTG
124 TATTG
* * ** * **
23880087 TTATAAATA-ATATAAATTTTTTAAAACAACATTGTTTGTTGTTGTATAAAATATTAAAATATAA
1 TTACAAATATA-ATAAAATTTTTGTAACAACATTTTTTGTCATTGTATAAAATATTAAAA-ATAA
* * * * * *
23880151 TTTAAGCAACAATTTTAAAAAATTGTT-TCAAATAAAAAAAAGTATTCGCAACAA-TTTTTATTA
64 ATTAAGTAACGATTTTGAAAAATTATTGT-AAAT-AAAAAAAGT-TTCACAACAATTTTTTATTA
23880214 TTG
126 TTG
** * **
23880217 CAACAAATATAATAAAATTTTTCGTAACAACGTTTTTTGTCATTACATAAAATATTTAAAAATAA
1 TTACAAATATAATAAAATTTTT-GTAACAACATTTTTTGTCATTGTATAAAATA-TTAAAAATAA
* * * *
23880282 ATTAAGTAACGATTTTGAAAAATCATTGTAAATAAAATAAGGTTTCACAATAATTTTTTATTGTT
64 ATTAAGTAACGATTTTGAAAAATTATTGTAAATAAAA-AAAGTTTCACAACAATTTTTTATTATT
23880347 G
128 G
23880348 TTACAAATAATAGATAAA
1 TTACAAAT-ATA-ATAAA
23880366 TTCACAACGG
Statistics
Matches: 218, Mismatches: 46, Indels: 30
0.74 0.16 0.10
Matches are distributed among these distances:
130 39 0.18
131 82 0.38
132 68 0.31
133 27 0.12
134 2 0.01
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (128 bp):
TTACAAATATAATAAAATTTTTGTAACAACATTTTTTGTCATTGTATAAAATATTAAAAATAAAT
TAAGTAACGATTTTGAAAAATTATTGTAAATAAAAAAAGTTTCACAACAATTTTTTATTATTG
Found at i:23880466 original size:20 final size:20
Alignment explanation
Indices: 23880428--23880466 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
23880418 CAACAATTAT
*
23880428 AAAATATCATTATAAATATA
1 AAAATATCATCATAAATATA
23880448 AAAATAT-ATCATAACATAT
1 AAAATATCATCATAA-ATAT
23880467 TTTGTGTCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATATCATCATAAATATA
Found at i:23880641 original size:20 final size:22
Alignment explanation
Indices: 23880594--23880642 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 22
23880584 AAAAAACTAT
*
23880594 TTAAATTTTTTAAATTAAATAA
1 TTAAATTTGTTAAATTAAATAA
23880616 -TAAATTTGTT-AA-TAAATAA
1 TTAAATTTGTTAAATTAAATAA
23880635 TTAAATTT
1 TTAAATTT
23880643 TATTTATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 7 0.28
20 9 0.36
21 9 0.36
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TTAAATTTGTTAAATTAAATAA
Found at i:23880714 original size:20 final size:19
Alignment explanation
Indices: 23880653--23880714 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
23880643 TATTTATTAG
*
23880653 TTTATTATATAAACAATAAAT
1 TTTATTAT-T-AATAATAAAT
*
23880674 TTTA-T-TT-ATAATTAA-
1 TTTATTATTAATAATAAAT
23880689 TTTATTATGTAATAATAAAT
1 TTTATTAT-TAATAATAAAT
23880709 TTTATT
1 TTTATT
23880715 TTTATATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
15 4 0.12
16 7 0.21
17 1 0.03
18 2 0.06
19 8 0.24
20 7 0.21
21 4 0.12
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (19 bp):
TTTATTATTAATAATAAAT
Found at i:23880812 original size:12 final size:12
Alignment explanation
Indices: 23880795--23880828 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
23880785 AGTTGTTAAC
*
23880795 TTGAAAGGAAAA
1 TTGAAAGAAAAA
*
23880807 TTGAAAAAAAAA
1 TTGAAAGAAAAA
23880819 TTGAAAGAAA
1 TTGAAAGAAA
23880829 CTATGAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.18, T:0.18
Consensus pattern (12 bp):
TTGAAAGAAAAA
Found at i:23885775 original size:17 final size:15
Alignment explanation
Indices: 23885750--23885784 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 15
23885740 CCACTTTATC
23885750 AAAAATCTTTGAAGAA
1 AAAAATCTTTGAA-AA
23885766 AAAAATTCTTTGAAAA
1 AAAAA-TCTTTGAAAA
23885782 AAA
1 AAA
23885785 TTTTCTCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.60, C:0.06, G:0.09, T:0.26
Consensus pattern (15 bp):
AAAAATCTTTGAAAA
Found at i:23890511 original size:67 final size:64
Alignment explanation
Indices: 23890408--23890748 Score: 262
Period size: 67 Copynumber: 5.3 Consensus size: 64
23890398 TATAATTGAT
* ** * * * *
23890408 GATCAATTAAGGCGTTGGTGTACAAAAATGCCTTAATTGATAAATCATTATAATTTTTAAAATA
1 GATCAATTAAGGCATTTTTGTATAGAAACGCCTTAATTGATCAATCATTATAATTTTTAAAATA
* * * ** * * *
23890472 GATGGGCAATTAATGCATTTTTGTACATAATTGCTTTAATTAATCAAT-TTTATAA--TTTAAAA
1 GAT---CAATTAAGGCATTTTTGTATAGAAACGCCTTAATTGATCAATCATTATAATTTTTAAAA
23890534 GTTA
63 --TA
* * * **
23890538 AATCAATTAAGGCGTTTATGTATAGAAACGCCTTAATTGATCAATCATTATAATTTTTAAGCTA
1 GATCAATTAAGGCATTTTTGTATAGAAACGCCTTAATTGATCAATCATTATAATTTTTAAAATA
* * * * * *
23890602 GATGGGCAATTAAGACATTTTTGTATACAAAGGCCTTAATTGATTAGT-TTTATAA--TTTAAAA
1 GAT---CAATTAAGGCATTTTTGTATAGAAACGCCTTAATTGATCAATCATTATAATTTTTAAAA
23890664 GTTA
63 --TA
** * * *
23890668 GATCAATTAAGGTGTTTGTGTATAGAAACGCTTTAATTGATTAATCATTATAATTTTTAAAATA
1 GATCAATTAAGGCATTTTTGTATAGAAACGCCTTAATTGATCAATCATTATAATTTTTAAAATA
*
23890732 GATTAATTAAGGCATTT
1 GATCAATTAAGGCATTT
23890749 CAGATTACAA
Statistics
Matches: 215, Mismatches: 46, Indels: 32
0.73 0.16 0.11
Matches are distributed among these distances:
63 67 0.31
64 47 0.22
66 33 0.15
67 68 0.32
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.40
Consensus pattern (64 bp):
GATCAATTAAGGCATTTTTGTATAGAAACGCCTTAATTGATCAATCATTATAATTTTTAAAATA
Found at i:23890642 original size:130 final size:130
Alignment explanation
Indices: 23890409--23890734 Score: 456
Period size: 130 Copynumber: 2.5 Consensus size: 130
23890399 ATAATTGATG
* * * *
23890409 ATCAATTAAGGCGTTGGTGTACAAAAATGCCTTAATTGATAAATCATTATAATTTTTAAAATAGA
1 ATCAATTAAGGCGTTTGTGTATAGAAACGCCTTAATTGATAAATCATTATAATTTTTAAAATAGA
* ** *
23890474 TGGGCAATTAATGCATTTTTGTACATAATTGCTTTAATTAATCAATTTTATAATTTAAAAGTTAA
66 TGGGCAATTAATGCATTTTTGTACACAAAGGCCTTAATTAATCAATTTTATAATTTAAAAGTTAA
* * **
23890539 ATCAATTAAGGCGTTTATGTATAGAAACGCCTTAATTGATCAATCATTATAATTTTTAAGCTAGA
1 ATCAATTAAGGCGTTTGTGTATAGAAACGCCTTAATTGATAAATCATTATAATTTTTAAAATAGA
* * * *
23890604 TGGGCAATTAA-GACATTTTTGTATACAAAGGCCTTAATTGATTAGTTTTATAATTTAAAAGTTA
66 TGGGCAATTAATG-CATTTTTGTACACAAAGGCCTTAATTAATCAATTTTATAATTTAAAAGTTA
*
23890668 G
130 A
* * *
23890669 ATCAATTAAGGTGTTTGTGTATAGAAACGCTTTAATTGATTAATCATTATAATTTTTAAAATAGA
1 ATCAATTAAGGCGTTTGTGTATAGAAACGCCTTAATTGATAAATCATTATAATTTTTAAAATAGA
23890734 T
66 T
23890735 TAATTAAGGC
Statistics
Matches: 172, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
129 1 0.01
130 171 0.99
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.40
Consensus pattern (130 bp):
ATCAATTAAGGCGTTTGTGTATAGAAACGCCTTAATTGATAAATCATTATAATTTTTAAAATAGA
TGGGCAATTAATGCATTTTTGTACACAAAGGCCTTAATTAATCAATTTTATAATTTAAAAGTTAA
Found at i:23894692 original size:30 final size:28
Alignment explanation
Indices: 23894642--23894783 Score: 97
Period size: 29 Copynumber: 4.8 Consensus size: 28
23894632 CATCATTAAA
* *
23894642 AAAATTTTGAAAAAAT-TAAAAAGTTTT
1 AAAATTTTTAAAAATTCTAAAAAGTTTT
*
23894669 AAAATTTTTTCAAAAATTCTAAAATAATTTTT
1 AAAA-TTTTT-AAAAATTCT-AAA-AAGTTTT
* ** *
23894701 AAAAATTAAAAAAATTTCTAAAAGGGTTTGT
1 AAAATTTTTAAAAA-TTCTAAAA-AGTTT-T
**
23894732 AAAATTTTTAAAAATTCTAAAATTTTTT
1 AAAATTTTTAAAAATTCTAAAAAGTTTT
* * *
23894760 AAATATTCTAAAAAATTTTAAAAA
1 AAA-ATTTTTAAAAATTCTAAAAA
23894784 ATTCAAAACA
Statistics
Matches: 89, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
27 4 0.04
28 8 0.09
29 26 0.29
30 20 0.22
31 21 0.24
32 10 0.11
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (28 bp):
AAAATTTTTAAAAATTCTAAAAAGTTTT
Found at i:23894710 original size:39 final size:38
Alignment explanation
Indices: 23894667--23894791 Score: 101
Period size: 39 Copynumber: 3.2 Consensus size: 38
23894657 TTAAAAAGTT
23894667 TTAAAATTTTTTCAAAAATTCTAAAATAATTTTTAAAAA
1 TTAAAATTTTTTCAAAAATTCTAAAA-AATTTTTAAAAA
*** * **
23894706 TTAAAAAAATTTCTAAAAGGGTT-TGTAAAATTTTTAAAAA
1 TTAAAATTTTTTC-AAAA--ATTCTAAAAAATTTTTAAAAA
* *
23894746 TTCTAAAATTTTTT-AAATATTCTAAAAAATTTTAAAAAA
1 -T-TAAAATTTTTTCAAAAATTCTAAAAAATTTTTAAAAA
23894785 TTCAAAA
1 TT-AAAA
23894792 CAATAAATAT
Statistics
Matches: 65, Mismatches: 14, Indels: 15
0.69 0.15 0.16
Matches are distributed among these distances:
37 1 0.02
38 7 0.11
39 24 0.37
40 19 0.29
41 4 0.06
42 10 0.15
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (38 bp):
TTAAAATTTTTTCAAAAATTCTAAAAAATTTTTAAAAA
Found at i:23894716 original size:19 final size:19
Alignment explanation
Indices: 23894669--23894791 Score: 66
Period size: 19 Copynumber: 6.1 Consensus size: 19
23894659 AAAAAGTTTT
*
23894669 AAAATTTTTTCAAAAATTCTAA
1 AAAAATTTTT-AAAAA-T-TAA
*
23894691 AATAATTTTTAAAAATTAA
1 AAAAATTTTTAAAAATTAA
* * **
23894710 AAAAATTTCTAAAAGGGTTTG
1 AAAAATTTTTAAAA--ATTAA
* **
23894731 TAAAATTTTTAAAAATTCT
1 AAAAATTTTTAAAAATTAA
* * *
23894750 AAAATTTTTTAAATATTCTA
1 AAAAATTTTTAAAAATT-AA
*
23894770 AAAAATTTTAAAAAATTCAA
1 AAAAATTTTTAAAAATT-AA
23894790 AA
1 AA
23894792 CAATAAATAT
Statistics
Matches: 77, Mismatches: 21, Indels: 8
0.73 0.20 0.08
Matches are distributed among these distances:
19 31 0.40
20 19 0.25
21 19 0.25
22 8 0.10
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (19 bp):
AAAAATTTTTAAAAATTAA
Found at i:23894784 original size:10 final size:10
Alignment explanation
Indices: 23894640--23894786 Score: 77
Period size: 10 Copynumber: 14.8 Consensus size: 10
23894630 ATCATCATTA
23894640 AAAAAATTTT
1 AAAAAATTTT
23894650 GAAAAAA--TT
1 -AAAAAATTTT
*
23894659 AAAAAGTTTT
1 AAAAAATTTT
**
23894669 AAAATTTTTT
1 AAAAAATTTT
* *
23894679 CAAAAATTCT
1 AAAAAATTTT
23894689 AAAATAATTTT
1 AAAA-AATTTT
* *
23894700 TAAAAA-TTA
1 AAAAAATTTT
23894709 AAAAAATTTCT
1 AAAAAATTT-T
***
23894720 AAAAGGGTTT
1 AAAAAATTTT
**
23894730 GTAAAATTTT
1 AAAAAATTTT
* *
23894740 TAAAAATTCT
1 AAAAAATTTT
*
23894750 -AAAATTTTT
1 AAAAAATTTT
* * *
23894759 TAAATATTCT
1 AAAAAATTTT
23894769 AAAAAATTTT
1 AAAAAATTTT
23894779 AAAAAATT
1 AAAAAATT
23894787 CAAAACAATA
Statistics
Matches: 98, Mismatches: 32, Indels: 13
0.69 0.22 0.09
Matches are distributed among these distances:
8 5 0.05
9 16 0.16
10 57 0.58
11 20 0.20
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.40
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:23894842 original size:36 final size:36
Alignment explanation
Indices: 23894757--23894851 Score: 111
Period size: 37 Copynumber: 2.6 Consensus size: 36
23894747 TCTAAAATTT
* *
23894757 TTTAAATATTCTAAAAAATTTTAAAAAATTCAAAACAA
1 TTTAAAT-TTCT-AAAAATTTTAAAAAATCCAAAAAAA
*
23894795 -TAAATATTTTCTAAAAATTTTAAAAAATCCAAAAAAA
1 TTTAA-A-TTTCTAAAAATTTTAAAAAATCCAAAAAAA
*
23894832 TTTAAATTTCTCAAAATTTT
1 TTTAAATTTCTAAAAATTTT
23894852 TTAAAATATT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 13 0.27
37 27 0.55
38 8 0.16
39 1 0.02
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (36 bp):
TTTAAATTTCTAAAAATTTTAAAAAATCCAAAAAAA
Found at i:23895127 original size:27 final size:26
Alignment explanation
Indices: 23895097--23895170 Score: 62
Period size: 28 Copynumber: 2.7 Consensus size: 26
23895087 CAATTATAAT
23895097 TTTTCTATATTTTTTAATTT-CTAAAA
1 TTTT-TATATTTTTTAATTTACTAAAA
* * *
23895123 CTTTTTTGAAATTTTTTATTTTATTAAAA
1 --TTTTT-ATATTTTTTAATTTACTAAAA
23895152 TTTTTAGT-TTTTTTAATTT
1 TTTTTA-TATTTTTTAATTT
23895171 TTATTTTTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
26 11 0.29
27 6 0.16
28 16 0.42
29 5 0.13
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (26 bp):
TTTTTATATTTTTTAATTTACTAAAA
Found at i:23895154 original size:18 final size:16
Alignment explanation
Indices: 23895124--23895237 Score: 79
Period size: 17 Copynumber: 6.6 Consensus size: 16
23895114 TTTCTAAAAC
*
23895124 TTTTTTGAAATTTTTTA
1 TTTTTT-AAAATTTTTA
23895141 TTTTATTAAAATTTTTA
1 TTTT-TTAAAATTTTTA
*
23895158 GTTTTTT-TAATTTTTA
1 -TTTTTTAAAATTTTTA
*
23895174 TTTTTCAAAATTTTTTTA
1 TTTTTTAAAA--TTTTTA
*
23895192 TTTTTTAGAATGTTTACTA
1 TTTTTTAAAAT-TTT--TA
23895211 TTTTTT-AAATTAGTTTA
1 TTTTTTAAAATT--TTTA
*
23895228 TTTTTCAAAA
1 TTTTTTAAAA
23895238 AAATTTAGAA
Statistics
Matches: 78, Mismatches: 8, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
15 5 0.06
16 11 0.14
17 26 0.33
18 26 0.33
19 10 0.13
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (16 bp):
TTTTTTAAAATTTTTA
Found at i:23895189 original size:33 final size:33
Alignment explanation
Indices: 23895135--23895197 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
23895125 TTTTTGAAAT
*
23895135 TTTTTATTTTATTAAAA-TTTTTAGTTTTTTTAA
1 TTTTTATTTTATCAAAATTTTTTA-TTTTTTTAA
23895168 TTTTTATTTT-TCAAAATTTTTTTATTTTTT
1 TTTTTATTTTATCAAAA-TTTTTTATTTTTT
23895198 AGAATGTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 5 0.19
33 16 0.59
34 6 0.22
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (33 bp):
TTTTTATTTTATCAAAATTTTTTATTTTTTTAA
Found at i:23895633 original size:11 final size:10
Alignment explanation
Indices: 23895603--23895745 Score: 60
Period size: 10 Copynumber: 14.0 Consensus size: 10
23895593 AAAAAATGTA
23895603 AAAATTTTTT
1 AAAATTTTTT
* *
23895613 AGAATATTTTC
1 AAAAT-TTTTT
23895624 AAAATTTTTT
1 AAAATTTTTT
*
23895634 AAAAAGTTTTT
1 -AAAATTTTTT
* *
23895645 ATAGTTGTTTT
1 AAAATT-TTTT
*
23895656 -GAATTTTTT
1 AAAATTTTTT
* *
23895665 GGAAA--TTTC
1 -AAAATTTTTT
* *
23895674 AAAAATTTCT
1 AAAATTTTTT
*
23895684 AGAAA-ATTTT
1 A-AAATTTTTT
*
23895694 AAAATGTTTT
1 AAAATTTTTT
23895704 AAAATTTTTTT
1 AAAA-TTTTTT
** *
23895715 AAAAGATTTA
1 AAAATTTTTT
23895725 AAAATTTTTT
1 AAAATTTTTT
23895735 AAAACTTTTTT
1 AAAA-TTTTTT
23895746 TTTTAAAATT
Statistics
Matches: 97, Mismatches: 25, Indels: 21
0.68 0.17 0.15
Matches are distributed among these distances:
8 3 0.03
9 10 0.10
10 43 0.44
11 41 0.42
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (10 bp):
AAAATTTTTT
Found at i:23895643 original size:21 final size:21
Alignment explanation
Indices: 23895603--23895643 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23895593 AAAAAATGTA
*
23895603 AAAATTTTTTAGAATATTTTC
1 AAAATTTTTTAGAAAATTTTC
23895624 AAAATTTTTTA-AAAAGTTTT
1 AAAATTTTTTAGAAAA-TTTT
23895644 TATAGTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (21 bp):
AAAATTTTTTAGAAAATTTTC
Found at i:23895716 original size:21 final size:20
Alignment explanation
Indices: 23895690--23895738 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
23895680 TTCTAGAAAA
* *
23895690 TTTTAAAATGTTTTAAAATTT
1 TTTTAAAA-GATTTAAAAATT
23895711 TTTTAAAAGATTTAAAAATT
1 TTTTAAAAGATTTAAAAATT
23895731 TTTTAAAA
1 TTTTAAAA
23895739 CTTTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (20 bp):
TTTTAAAAGATTTAAAAATT
Found at i:23897244 original size:37 final size:37
Alignment explanation
Indices: 23897198--23897270 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
23897188 GATTAAAATA
* * * *
23897198 AAATAATTAAAATTATTTTTTAAAATTTTATATAATT
1 AAATAATTAAAATAATTTTTAAAAATATAATATAATT
* *
23897235 AAATTATTAATATAATTTTTAAAAATATAATATAAT
1 AAATAATTAAAATAATTTTTAAAAATATAATATAAT
23897271 ATGTAAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (37 bp):
AAATAATTAAAATAATTTTTAAAAATATAATATAATT
Found at i:23897978 original size:29 final size:31
Alignment explanation
Indices: 23897920--23897986 Score: 102
Period size: 29 Copynumber: 2.2 Consensus size: 31
23897910 TGTTAAAGAC
* *
23897920 TTATTTATGTATAAATTAAAAATTTTAAAAT
1 TTATTTATGTATAAATTAAAAATATAAAAAT
23897951 TTATTTATGTAT-AA-TAAAAATATAAAAAT
1 TTATTTATGTATAAATTAAAAATATAAAAAT
23897980 TTATTTA
1 TTATTTA
23897987 AATAAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 20 0.59
30 2 0.06
31 12 0.35
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (31 bp):
TTATTTATGTATAAATTAAAAATATAAAAAT
Found at i:23898001 original size:23 final size:25
Alignment explanation
Indices: 23897953--23898005 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
23897943 TTTAAAATTT
23897953 ATTTATGTATAATAAAAATATAAAA
1 ATTTATGTATAATAAAAATATAAAA
*
23897978 ATTTATTTA-AAT-AAAATGAT-AAA
1 ATTTATGTATAATAAAAAT-ATAAAA
23898001 ATTTA
1 ATTTA
23898006 AAAAACTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 13 0.50
24 5 0.19
25 8 0.31
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40
Consensus pattern (25 bp):
ATTTATGTATAATAAAAATATAAAA
Found at i:23899736 original size:156 final size:156
Alignment explanation
Indices: 23899452--23899770 Score: 611
Period size: 156 Copynumber: 2.0 Consensus size: 156
23899442 CCATGGAAAT
23899452 TAACAGTGATCAACTAGACTTTGAAGATTTCCTAATTCTAGCTGCTGCTGATGATCATGAAGGAA
1 TAACAGTGATCAACTAGACTTTGAAGATTTCCTAATTCTAGCTGCTGCTGATGATCATGAAGGAA
23899517 CTAAGGAAACTACTTCCTCTTCTTGTCTTAAAATGTCCACCACACTTTCTCAAAACCCTTTCCTT
66 CTAAGGAAACTACTTCCTCTTCTTGTCTTAAAATGTCCACCACACTTTCTCAAAACCCTTTCCTT
23899582 TCATCACATGAGAATAAGATCATGAC
131 TCATCACATGAGAATAAGATCATGAC
*
23899608 TAACAGTGATCAACTAGACTTTGAAGATTTTCTAATTCTAGCTGCTGCTGATGATCATGAAGGAA
1 TAACAGTGATCAACTAGACTTTGAAGATTTCCTAATTCTAGCTGCTGCTGATGATCATGAAGGAA
*
23899673 CTAAGGAAATTACTTCCTCTTCTTGTCTTAAAATGTCCACCACACTTTCTCAAAACCCTTTCCTT
66 CTAAGGAAACTACTTCCTCTTCTTGTCTTAAAATGTCCACCACACTTTCTCAAAACCCTTTCCTT
23899738 TCATCACATGAGAATAAGATCATGAC
131 TCATCACATGAGAATAAGATCATGAC
*
23899764 TAGCAGT
1 TAACAGT
23899771 TCAATCAATG
Statistics
Matches: 160, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
156 160 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (156 bp):
TAACAGTGATCAACTAGACTTTGAAGATTTCCTAATTCTAGCTGCTGCTGATGATCATGAAGGAA
CTAAGGAAACTACTTCCTCTTCTTGTCTTAAAATGTCCACCACACTTTCTCAAAACCCTTTCCTT
TCATCACATGAGAATAAGATCATGAC
Found at i:23902855 original size:21 final size:21
Alignment explanation
Indices: 23902812--23902855 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
23902802 TGGAATTGAG
*
23902812 CAGAAGCTGAAGTACCAAGAA
1 CAGAAGCTGAAGTACCAAAAA
*
23902833 CAGAAGCTGTAA-TAGCAAAAA
1 CAGAAGCTG-AAGTACCAAAAA
23902854 CA
1 CA
23902856 CGTTGACTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.50, C:0.18, G:0.20, T:0.11
Consensus pattern (21 bp):
CAGAAGCTGAAGTACCAAAAA
Found at i:23903580 original size:3 final size:3
Alignment explanation
Indices: 23903572--23903598 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
23903562 GGCTACTGCT
23903572 ACC ACC ACC ACC ACC ACC ACC ACC ACC
1 ACC ACC ACC ACC ACC ACC ACC ACC ACC
23903599 CCAACACCTT
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:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
ACC
Found at i:23909234 original size:97 final size:97
Alignment explanation
Indices: 23909068--23909260 Score: 280
Period size: 97 Copynumber: 2.0 Consensus size: 97
23909058 TTAATAAATG
* * *
23909068 AATATAAATAAATAAAAATCAAACATATTCACAAACAATTCGTCGAAAACTCTATTTATTTATAC
1 AATATAAACAAATAAAAATCAAACATATTCACAAACAATTCATCGAAAACTCTATTCATTTATAC
**
23909133 CTTTAGTCATGCGACATTAGTAATGATGAGTA
66 CTTTAGTCACACGACATTAGTAATGATGAGTA
* * * * *
23909165 AATATAAACAAATGAAAA-CTAAACATATTCACGAACAGTTTATTGAAAACTCTATTCATTTATA
1 AATATAAACAAATAAAAATC-AAACATATTCACAAACAATTCATCGAAAACTCTATTCATTTATA
23909229 CCTTTAGTCACACGACATTAGTAATGATGAGT
65 CCTTTAGTCACACGACATTAGTAATGATGAGT
23909261 TTTTCTTGAA
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
96 1 0.01
97 84 0.99
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.32
Consensus pattern (97 bp):
AATATAAACAAATAAAAATCAAACATATTCACAAACAATTCATCGAAAACTCTATTCATTTATAC
CTTTAGTCACACGACATTAGTAATGATGAGTA
Found at i:23909520 original size:22 final size:21
Alignment explanation
Indices: 23909495--23909553 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
23909485 AAATATTTAT
23909495 TAAATATTGAAAAAATAAAAAA
1 TAAATA-TGAAAAAATAAAAAA
*
23909517 TAAATAGGAAAAATATAAAAAA
1 TAAATATGAAAAA-ATAAAAAA
* *
23909539 GAAAAAGTGAAAAAA
1 TAAATA-TGAAAAAA
23909554 GAAACCAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 6 0.19
22 19 0.61
23 6 0.19
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (21 bp):
TAAATATGAAAAAATAAAAAA
Found at i:23909861 original size:17 final size:17
Alignment explanation
Indices: 23909842--23909874 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23909832 TTTAAAATTT
23909842 TTTTAATT-TTAAAAAA
1 TTTTAATTATTAAAAAA
*
23909858 TTTTATTTATTAAAAAA
1 TTTTAATTATTAAAAAA
23909875 AGTTAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTAATTATTAAAAAA
Found at i:23912900 original size:28 final size:28
Alignment explanation
Indices: 23912869--23912925 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
23912859 AATCTTAATG
*
23912869 TATTTGTAATA-TTTTGTATGTAAATTAA
1 TATTTGTAATACTTTTGTAT-TAAAATAA
* *
23912897 TATTTTTATTACTTTTGTATTAAAATAA
1 TATTTGTAATACTTTTGTATTAAAATAA
23912925 T
1 T
23912926 TATAAAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (28 bp):
TATTTGTAATACTTTTGTATTAAAATAA
Found at i:23913096 original size:35 final size:35
Alignment explanation
Indices: 23913013--23913084 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
23913003 AGACACACAT
* *
23913013 TCTACTATTTTAGTATCAATTACTTAATAAATAAA
1 TCTAATATTTTAGCATCAATTACTTAATAAATAAA
23913048 TCTAATATTTTAGCATCAATTACTTAATAAATAAA
1 TCTAATATTTTAGCATCAATTACTTAATAAATAAA
23913083 TC
1 TC
23913085 GATTTACTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.42
Consensus pattern (35 bp):
TCTAATATTTTAGCATCAATTACTTAATAAATAAA
Found at i:23913569 original size:3 final size:3
Alignment explanation
Indices: 23913561--23913586 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
23913551 TTTCTTTCTT
23913561 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
23913587 GCTTTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:23920437 original size:2 final size:2
Alignment explanation
Indices: 23920430--23920458 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23920420 GCAAGTGAGA
23920430 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 A
23920459 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23920463 original size:2 final size:2
Alignment explanation
Indices: 23920458--23920492 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
23920448 ATATATATAT
* *
23920458 AG AG AG AG AG AG AG AG AG AG AA AG AA AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
23920493 AGCCAGATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23928216 original size:11 final size:11
Alignment explanation
Indices: 23928200--23928231 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
23928190 AAATGATATG
23928200 ATAATATAAAT
1 ATAATATAAAT
23928211 ATAATATAAAT
1 ATAATATAAAT
23928222 ATAATATAAA
1 ATAATATAAA
23928232 AAAGATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:23928217 original size:19 final size:19
Alignment explanation
Indices: 23928173--23928230 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
23928163 AATAAGTTTG
* * *
23928173 ATAATTTGATAATTTAAAA
1 ATAATATGATAATATAAAT
*
23928192 ATGATATGATAATATAAAT
1 ATAATATGATAATATAAAT
23928211 ATAATAT-A-AATAT-AAT
1 ATAATATGATAATATAAAT
23928227 ATAA
1 ATAA
23928231 AAAAGATATG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
16 7 0.21
17 5 0.15
18 1 0.03
19 21 0.62
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
ATAATATGATAATATAAAT
Found at i:23929010 original size:15 final size:15
Alignment explanation
Indices: 23928992--23929021 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23928982 AAATAAGTAA
23928992 ATTTTAAAATATTTT
1 ATTTTAAAATATTTT
23929007 ATTTTAAAATATTTT
1 ATTTTAAAATATTTT
23929022 TTTGTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTTAAAATATTTT
Found at i:23929134 original size:24 final size:24
Alignment explanation
Indices: 23929102--23929157 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
23929092 AAATTAATTT
*
23929102 AATAAAAATAATAGATATAACACA
1 AATAAAAATAATAAATATAACACA
23929126 AATAAAAATAATAAATATAACACA
1 AATAAAAATAATAAATATAACACA
23929150 AATAAAAA
1 AATAAAAA
23929158 CTTATTAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.20
Consensus pattern (24 bp):
AATAAAAATAATAAATATAACACA
Found at i:23931155 original size:15 final size:15
Alignment explanation
Indices: 23931135--23931174 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
23931125 CAAATTAAGA
*
23931135 ATTATATTATAATAT
1 ATTATATTATAACAT
23931150 ATTATATTATAACAT
1 ATTATATTATAACAT
*
23931165 ATAATATTAT
1 ATTATATTAT
23931175 TTAATGAGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATATTATAACAT
Found at i:23931924 original size:22 final size:22
Alignment explanation
Indices: 23931897--23931955 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
23931887 TGATTTTTTT
23931897 ATTTTATTTTGATTTATCTTTA
1 ATTTTATTTTGATTTATCTTTA
**
23931919 ATTTTA-AGTGCATTTATCTTTA
1 ATTTTATTTTG-ATTTATCTTTA
23931941 ATATTTATTTT-ATTT
1 AT-TTTATTTTGATTT
23931956 TACCTTATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
21 2 0.07
22 23 0.77
23 4 0.13
24 1 0.03
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.64
Consensus pattern (22 bp):
ATTTTATTTTGATTTATCTTTA
Found at i:23933699 original size:95 final size:95
Alignment explanation
Indices: 23933585--23933775 Score: 364
Period size: 95 Copynumber: 2.0 Consensus size: 95
23933575 ATAAAAATAA
*
23933585 TTTATGAAAATAAAAAAAAAGGAATATAATCCTTAAAAAAATGAAAGTTGACCAAGCAGTGGTGA
1 TTTATGAAAATAAAAAAAAAAGAATATAATCCTTAAAAAAATGAAAGTTGACCAAGCAGTGGTGA
*
23933650 AATTCTAGAAATTAAAAATGGTTGAATTTC
66 AATTCTAGAAATAAAAAATGGTTGAATTTC
23933680 TTTATGAAAATAAAAAAAAAAGAATATAATCCTTAAAAAAATGAAAGTTGACCAAGCAGTGGTGA
1 TTTATGAAAATAAAAAAAAAAGAATATAATCCTTAAAAAAATGAAAGTTGACCAAGCAGTGGTGA
23933745 AATTCTAGAAATAAAAAATGGTTGAATTTC
66 AATTCTAGAAATAAAAAATGGTTGAATTTC
23933775 T
1 T
23933776 AGTAGTTTGT
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.27
Consensus pattern (95 bp):
TTTATGAAAATAAAAAAAAAAGAATATAATCCTTAAAAAAATGAAAGTTGACCAAGCAGTGGTGA
AATTCTAGAAATAAAAAATGGTTGAATTTC
Found at i:23933930 original size:17 final size:17
Alignment explanation
Indices: 23933864--23933931 Score: 52
Period size: 17 Copynumber: 3.8 Consensus size: 17
23933854 ATGTGCTTTC
23933864 AAATAATAATAAAATTAAA
1 AAATAA-AAT-AAATTAAA
*
23933883 AGAATAAAAT--TTTAGAA
1 A-AATAAAATAAATTA-AA
23933900 GAAA-AAACATAAATTAAA
1 -AAATAAA-ATAAATTAAA
23933918 AAATAAAATAAATT
1 AAATAAAATAAATT
23933932 TGATGTTGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
16 6 0.15
17 16 0.40
18 6 0.15
19 7 0.17
20 5 0.12
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.25
Consensus pattern (17 bp):
AAATAAAATAAATTAAA
Found at i:23936051 original size:104 final size:105
Alignment explanation
Indices: 23935925--23936508 Score: 462
Period size: 105 Copynumber: 5.4 Consensus size: 105
23935915 TTATAATTAT
* *
23935925 TTTTTTATTCT-AAAAAAATTCTTGAAAAAGTAAAAAGAAAAGATTTGGTGAGATTTTGGTGCAT
1 TTTTTTATTGTAAAAAAAATTCTTGAAAAAGTAAAAAGAAAAGATTTGGTGAGATTTTGGTGCAC
* * *
23935989 AAAGATTACCTTTCTTAAATAAGAAAGGTAGTATTTGTAG
66 AAAGACTATCTTTCTTACATAAGAAAGGTAGTATTTGTAG
* * * * * **
23936029 -TTTTTGTTGTAAAAAAAGTTCTTGAGAAAA-TAAAAGGAGAAGATTTGGTAAGATTTTAATGCA
1 TTTTTTATTGTAAAAAAAATTCTTGA-AAAAGTAAAAAGAAAAGATTTGGTGAGATTTTGGTGCA
* * * ** * * *
23936092 TAAAAACTACCTTTCTTATGTAATAAAGGTAACT-TTTGTAA
65 CAAAGACTATCTTTCTTACATAAGAAAGGT-AGTATTTGTAG
* *
23936133 TTTTTTATTGTAAAAAAAATTCTT-AGAAAAG-AAAAAGGAGAAGATTTGGTGAGATTTTGATGC
1 TTTTTTATTGTAAAAAAAATTCTTGA-AAAAGTAAAAA-GAAAAGATTTGGTGAGATTTTGGTGC
* * * *** * *
23936196 ACAAAAATTATGTTTCTTACATAAGAGCTGTAGTCTTTATAG
64 ACAAAGACTATCTTTCTTACATAAGAAAGGTAGTATTTGTAG
*
23936238 TTTTTTTGTTGTAAAAAAAAGTTCTTGGAAAAGTAAAATTCTTAGAAAAGTAAAAAGAAAAGATT
1 -TTTTTTATTGTAAAAAAAA-TTCTT------G-AAAA-----AG-----TAAAAAGAAAAGATT
* *
23936303 TGGTGAGATTTTGGTGCACAAAGACTATCTTTCTTACATAATAAAGGTAATATTTGTAG
47 TGGTGAGATTTTGGTGCACAAAGACTATCTTTCTTACATAAGAAAGGTAGTATTTGTAG
* ** * * * * *
23936362 TTTTTTATTGT-GAAAATTTTTTTAAAAAAAGTAAAAAGAGAAGATTTAGTGAGATTTTGGTGTA
1 TTTTTTATTGTAAAAAAAATTCTT-GAAAAAGTAAAAAGAAAAGATTTGGTGAGATTTTGGTGCA
* * * *
23936426 CCAAGACTATATTTCTTACATAAGAAATGTAGTCTTTGTAG
65 CAAAGACTATCTTTCTTACATAAGAAAGGTAGTATTTGTAG
* ** *
23936467 CTTTTTATTGTAAAAAAAATTCTTGGGAAAGTAAAAGGAAAA
1 TTTTTTATTGTAAAAAAAATTCTTGAAAAAGTAAAAAGAAAA
23936509 AATTCAATAA
Statistics
Matches: 380, Mismatches: 71, Indels: 57
0.75 0.14 0.11
Matches are distributed among these distances:
103 8 0.02
104 84 0.22
105 165 0.43
106 26 0.07
107 5 0.01
110 2 0.01
114 3 0.01
115 5 0.01
116 1 0.00
119 2 0.01
121 4 0.01
122 4 0.01
123 10 0.03
124 56 0.15
125 5 0.01
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.36
Consensus pattern (105 bp):
TTTTTTATTGTAAAAAAAATTCTTGAAAAAGTAAAAAGAAAAGATTTGGTGAGATTTTGGTGCAC
AAAGACTATCTTTCTTACATAAGAAAGGTAGTATTTGTAG
Found at i:23936285 original size:17 final size:18
Alignment explanation
Indices: 23936254--23936292 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
23936244 TGTTGTAAAA
*
23936254 AAAAGTTCTTGGAAAAGT
1 AAAAGTTCTTAGAAAAGT
23936272 AAAA-TTCTTAGAAAAGT
1 AAAAGTTCTTAGAAAAGT
23936289 AAAA
1 AAAA
23936293 AGAAAAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.54, C:0.05, G:0.15, T:0.26
Consensus pattern (18 bp):
AAAAGTTCTTAGAAAAGT
Found at i:23936485 original size:229 final size:229
Alignment explanation
Indices: 23936042--23936503 Score: 576
Period size: 229 Copynumber: 2.0 Consensus size: 229
23936032 TTGTTGTAAA
* * *
23936042 AAAAGTTCTTGAGAAAATAAAAGGAGAAGATTTGGTAAGATTTTAATGCATAAAAACTACCTTTC
1 AAAAGTTCTTGAGAAAATAAAAAGAAAAGATTTGGTAAGATTTTAATGCACAAAAACTACCTTTC
** *
23936107 TTATGTAATAAAGGTAACTTTTGTAATTTTTTATTGTAAAAAAAATTCTTAGAAAAGAAAAAGGA
66 TTACATAATAAAGGTAACTTTTGTAATTTTTTATTGTAAAAAAAATTCTTAAAAAAGAAAAAGGA
* * * **
23936172 GAAGATTTGGTGAGATTTTGATGCACAAAAATTATGTTTCTTACATAAGAGCTGTAGTCTTTATA
131 GAAGATTTAGTGAGATTTTGATGCACAAAAACTATATTTCTTACATAAGAAATGTAGTCTTTATA
* *
23936237 GTTTTTTTGTTGTAAAAAAAAGTTCTTGGAAAAGT
196 GTCTTTTTATTGTAAAAAAAA-TTCTTGGAAAAGT
* ** * *
23936272 AAAA-TTCTT-AGAAAAGTAAAAAGAAAAGATTTGGTGAGATTTTGGTGCACAAAGACTATCTTT
1 AAAAGTTCTTGAGAAAA-TAAAAAGAAAAGATTTGGTAAGATTTTAATGCACAAAAACTACCTTT
* * ** *
23936335 CTTACATAATAAAGGTAA-TATTTGTAGTTTTTTATTGT-GAAAATTTTTTTAAAAAAAGTAAAA
65 CTTACATAATAAAGGTAACT-TTTGTAATTTTTTATTGTAAAAAAAATTCTT-AAAAAAG-AAAA
* * * *
23936398 A-GAGAAGATTTAGTGAGATTTTGGTGTACCAAGACTATATTTCTTACATAAGAAATGTAGTCTT
127 AGGAGAAGATTTAGTGAGATTTTGATGCACAAAAACTATATTTCTTACATAAGAAATGTAGTCTT
* *
23936462 TGTAG-CTTTTTATTGTAAAAAAAATTCTTGGGAAAGT
192 TATAGTCTTTTTATTGTAAAAAAAATTCTTGGAAAAGT
23936499 AAAAG
1 AAAAG
23936504 GAAAAAATTC
Statistics
Matches: 198, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
227 16 0.08
228 32 0.16
229 141 0.71
230 9 0.05
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.36
Consensus pattern (229 bp):
AAAAGTTCTTGAGAAAATAAAAAGAAAAGATTTGGTAAGATTTTAATGCACAAAAACTACCTTTC
TTACATAATAAAGGTAACTTTTGTAATTTTTTATTGTAAAAAAAATTCTTAAAAAAGAAAAAGGA
GAAGATTTAGTGAGATTTTGATGCACAAAAACTATATTTCTTACATAAGAAATGTAGTCTTTATA
GTCTTTTTATTGTAAAAAAAATTCTTGGAAAAGT
Found at i:23939217 original size:2 final size:2
Alignment explanation
Indices: 23939212--23939247 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
23939202 GATGTGTGTG
23939212 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
23939248 ATGAGTATTT
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):
TA
Found at i:23946398 original size:21 final size:20
Alignment explanation
Indices: 23946372--23946514 Score: 121
Period size: 20 Copynumber: 7.0 Consensus size: 20
23946362 TATAAATGTA
*
23946372 ATTATATATTTATTTGCATG
1 ATTATATATTTAATTGCATG
23946392 ATT-TATACTGTTAATTGCATG
1 ATTATATA-T-TTAATTGCATG
* *
23946413 ATTATACATTTATTTGCATG
1 ATTATATATTTAATTGCATG
*
23946433 ATT-TATACTGTTAACTGCATG
1 ATTATATA-T-TTAATTGCATG
*
23946454 ATTATATATTTAATTACATG
1 ATTATATATTTAATTGCATG
* * **
23946474 -TTTTACATTGTTTGTTGCATG
1 ATTATATA-T-TTAATTGCATG
*
23946495 ATTAAATATTTAATTGCATG
1 ATTATATATTTAATTGCATG
23946515 TCTATTTGCA
Statistics
Matches: 96, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
19 12 0.12
20 37 0.39
21 36 0.38
22 11 0.11
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.50
Consensus pattern (20 bp):
ATTATATATTTAATTGCATG
Found at i:23946515 original size:41 final size:41
Alignment explanation
Indices: 23946372--23946514 Score: 187
Period size: 41 Copynumber: 3.5 Consensus size: 41
23946362 TATAAATGTA
*
23946372 ATTATATATTTATTTGCATGATTTATACTGTTAATTGCATG
1 ATTATATATTTAATTGCATGATTTATACTGTTAATTGCATG
* * *
23946413 ATTATACATTTATTTGCATGATTTATACTGTTAACTGCATG
1 ATTATATATTTAATTGCATGATTTATACTGTTAATTGCATG
* * * * **
23946454 ATTATATATTTAATTACATGTTTTACATTGTTTGTTGCATG
1 ATTATATATTTAATTGCATGATTTATACTGTTAATTGCATG
*
23946495 ATTAAATATTTAATTGCATG
1 ATTATATATTTAATTGCATG
23946515 TCTATTTGCA
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 89 1.00
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.50
Consensus pattern (41 bp):
ATTATATATTTAATTGCATGATTTATACTGTTAATTGCATG
Found at i:23946631 original size:24 final size:24
Alignment explanation
Indices: 23946604--23946665 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
23946594 TTATTGCTGC
*
23946604 ATGATTTTATATTTATTGCATGAT
1 ATGATATTATATTTATTGCATGAT
23946628 ATGATATTATATGTTATTGCATGAT
1 ATGATATTATAT-TTATTGCATGAT
*
23946653 -TAATATTATATTT
1 ATGATATTATATTT
23946666 GAATGGTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
23 2 0.06
24 21 0.60
25 12 0.34
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.53
Consensus pattern (24 bp):
ATGATATTATATTTATTGCATGAT
Found at i:23946749 original size:20 final size:18
Alignment explanation
Indices: 23946747--23946855 Score: 75
Period size: 18 Copynumber: 6.0 Consensus size: 18
23946737 CATGAATAGT
*
23946747 TATTAATATATTTGCATGG
1 TATT-ATATATTTGCATGA
23946766 TATT-TATATTATTGCATGA
1 TATTATATA-T-TTGCATGA
*
23946785 -A-AATATATTTGCATGA
1 TATTATATATTTGCATGA
* **
23946801 TATCATATATTTATATGA
1 TATTATATATTTGCATGA
*
23946819 TTGTTAT-TA-TTGCATGA
1 -TATTATATATTTGCATGA
23946836 TAATTAATATATTTGCATGA
1 T-ATT-ATATATTTGCATGA
23946856 CATTCTTGCA
Statistics
Matches: 70, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
16 9 0.13
17 14 0.20
18 22 0.31
19 17 0.24
20 8 0.11
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.48
Consensus pattern (18 bp):
TATTATATATTTGCATGA
Found at i:23952291 original size:13 final size:13
Alignment explanation
Indices: 23952273--23952297 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23952263 CTCTGCGTTA
23952273 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
23952286 TTTTTTCTTTTT
1 TTTTTTCTTTTT
23952298 GATAAAAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:23957264 original size:22 final size:22
Alignment explanation
Indices: 23957239--23957282 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
23957229 ATTTTTTATC
23957239 CTTAATTCTAGGA-ATACAAATA
1 CTTAATT-TAGGAGATACAAATA
*
23957261 CTTAATTTTGGAGATACAAATA
1 CTTAATTTAGGAGATACAAATA
23957283 TAAATATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTTAGGAGATACAAATA
Found at i:23960749 original size:22 final size:22
Alignment explanation
Indices: 23960721--23960764 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
23960711 TTTTTTGTTC
* *
23960721 TTAATTTTAGGGATATAAATAT
1 TTAATTTTAGAGATACAAATAT
23960743 TTAATTTTAGAGATACAAATAT
1 TTAATTTTAGAGATACAAATAT
23960765 AAATATACAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (22 bp):
TTAATTTTAGAGATACAAATAT
Found at i:23966718 original size:7 final size:7
Alignment explanation
Indices: 23966706--23966731 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
23966696 TTTAAGTTTG
23966706 ATTTAAA
1 ATTTAAA
23966713 ATTTAAA
1 ATTTAAA
23966720 ATTTAAA
1 ATTTAAA
23966727 ATTTA
1 ATTTA
23966732 GTTAGAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
ATTTAAA
Found at i:23966742 original size:18 final size:18
Alignment explanation
Indices: 23966688--23966743 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
23966678 TCTAATATTA
*
23966688 AATTT-AAATTTAAGTTTG
1 AATTTAAAATTT-AGTTAG
23966706 -ATTTAAAATTTA---A-
1 AATTTAAAATTTAGTTAG
23966719 AATTTAAAATTTAGTTAG
1 AATTTAAAATTTAGTTAG
23966737 AATTTAA
1 AATTTAA
23966744 TCAAATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
14 12 0.39
17 6 0.19
18 13 0.42
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (18 bp):
AATTTAAAATTTAGTTAG
Found at i:23967560 original size:22 final size:21
Alignment explanation
Indices: 23967529--23967602 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 21
23967519 ATTAAGTTAT
*
23967529 TAATAATTTATTATAAAATTA
1 TAATAATTTACTATAAAATTA
* *
23967550 TAACTATTTTACTACT-AATTTA
1 TAA-TAATTTACTA-TAAAATTA
23967572 TTAATAATTTACTATAAAATTA
1 -TAATAATTTACTATAAAATTA
23967594 TCAATAATT
1 T-AATAATT
23967603 AATTAATTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
21 5 0.12
22 34 0.79
23 4 0.09
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATAATTTACTATAAAATTA
Found at i:23967610 original size:30 final size:29
Alignment explanation
Indices: 23967571--23967639 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 29
23967561 CTACTAATTT
23967571 ATTAATAATTTACTATAAAATTATCAATA
1 ATTAATAATTTACTATAAAATTATCAATA
* * *
23967600 ATTAATTAATTTATTATTAAATTATCATTA
1 ATTAA-TAATTTACTATAAAATTATCAATA
*
23967630 ATTTATAATT
1 ATTAATAATT
23967640 AAATAATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 10 0.29
30 25 0.71
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (29 bp):
ATTAATAATTTACTATAAAATTATCAATA
Found at i:23967615 original size:22 final size:21
Alignment explanation
Indices: 23967590--23967660 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 21
23967580 TTACTATAAA
23967590 ATTATCAATAATTAATTAATTT
1 ATTAT-AATAATTAATTAATTT
*
23967612 ATTATTA-AATTATCATTAATTT
1 ATTATAATAATTA--ATTAATTT
* *
23967634 ATAATTAAATAATTAA-TGATTT
1 ATTA-T-AATAATTAATTAATTT
23967656 ATTAT
1 ATTAT
23967661 TATGTTATTC
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
20 5 0.13
21 2 0.05
22 24 0.62
23 2 0.05
24 1 0.03
25 5 0.13
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (21 bp):
ATTATAATAATTAATTAATTT
Found at i:23967619 original size:44 final size:44
Alignment explanation
Indices: 23967525--23967615 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
23967515 AGGTATTAAG
* * *
23967525 TTATTAATAATTTATTATAAAATTATAACTATTTTACTACTAAT
1 TTATTAATAATTTACTATAAAATTATAACTAATTAACTACTAAT
23967569 TTATTAATAATTTACTATAAAATTATCAA-TAATTAA-T--TAAT
1 TTATTAATAATTTACTATAAAATTAT-AACTAATTAACTACTAAT
23967610 TTATTA
1 TTATTA
23967616 TTAAATTATC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
41 10 0.23
43 1 0.02
44 30 0.70
45 2 0.05
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (44 bp):
TTATTAATAATTTACTATAAAATTATAACTAATTAACTACTAAT
Found at i:23967649 original size:30 final size:30
Alignment explanation
Indices: 23967588--23967649 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
23967578 ATTTACTATA
* *
23967588 AAATTATCAATAATTAATTAATTTATTATT
1 AAATTATCAATAATTAATTAATTAATAATT
* *
23967618 AAATTATCATTAATTTA-TAATTAAATAATT
1 AAATTATCAATAATTAATTAATT-AATAATT
23967648 AA
1 AA
23967650 TGATTTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (30 bp):
AAATTATCAATAATTAATTAATTAATAATT
Found at i:23967660 original size:66 final size:66
Alignment explanation
Indices: 23967590--23967726 Score: 161
Period size: 66 Copynumber: 2.1 Consensus size: 66
23967580 TTACTATAAA
*
23967590 ATTATCA-ATAATT-AATTAATTTATTATTAAATTATCATTAATTTATAATTAAATAATTAATGA
1 ATTATCATATAATTCAA--AATTTATTATTAAATTATCAATAATTTATAATTAAATAATTAATGA
*
23967653 TTT
64 TAT
* * * * * * *
23967656 ATTATTATGTTATTCAAAATTTCTTATTAAATTATCAATGATTTATTATTAAATTATTAATGATA
1 ATTATCATATAATTCAAAATTTATTATTAAATTATCAATAATTTATAATTAAATAATTAATGATA
23967721 T
66 T
23967722 ATTAT
1 ATTAT
23967727 TATGTTATTA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
66 54 0.90
67 4 0.07
68 2 0.03
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (66 bp):
ATTATCATATAATTCAAAATTTATTATTAAATTATCAATAATTTATAATTAAATAATTAATGATA
T
Found at i:23967662 original size:22 final size:22
Alignment explanation
Indices: 23967600--23968093 Score: 130
Period size: 22 Copynumber: 22.5 Consensus size: 22
23967590 ATTATCAATA
23967600 ATTAATTAATTTATTATTAAATT
1 ATTAA-TAATTTATTATTAAATT
* * * *
23967623 ATCATTAATTTATAATTAAATA
1 ATTAATAATTTATTATTAAATT
* **
23967645 ATTAATGATTTATTATTATGTT
1 ATTAATAATTTATTATTAAATT
*
23967667 ATTCAA-AATTTCTTATTAAATT
1 ATT-AATAATTTATTATTAAATT
* *
23967689 ATCAATGATTTATTATTAAATT
1 ATTAATAATTTATTATTAAATT
* * **
23967711 ATTAATGATATATTATTATGTT
1 ATTAATAATTTATTATTAAATT
* * *
23967733 ATT-ATATATTTACTACTATATT
1 ATTAATA-ATTTATTATTAAATT
** * * * * *
23967755 ACCATTGATTTACTATTTAGTT
1 ATTAATAATTTATTATTAAATT
* * *
23967777 -TTCGATTATTTATTATAAAATT
1 ATT-AATAATTTATTATTAAATT
* * *
23967799 ATCACA-GATTTATTACTAAATT
1 ATTA-ATAATTTATTATTAAATT
*** * * * *
23967821 ATCCGTAATTCACTACTAAGTT
1 ATTAATAATTTATTATTAAATT
* * *
23967843 ATCATTGATTTA-TATTAAATT
1 ATTAATAATTTATTATTAAATT
*
23967864 ATCT-ATAATTTATTATTAAGTT
1 AT-TAATAATTTATTATTAAATT
* * ** *
23967886 ATTGATAATTTACTACCAATTT
1 ATTAATAATTTATTATTAAATT
* *
23967908 A-TATTGATTTACTT-TTAAATT
1 ATTAATAATTTA-TTATTAAATT
* * * * *
23967929 -TTCAATGATTAATTACTAGATA
1 ATT-AATAATTTATTATTAAATT
* * *
23967951 ATCATTGATTTATTATTAAATT
1 ATTAATAATTTATTATTAAATT
* * * *
23967973 ATTTATAATTTACTACTAAGTTT
1 ATTAATAATTTATTATTAA-ATT
* *
23967996 ATTAATTAA-TTACTATTTAATT
1 ATTAA-TAATTTATTATTAAATT
* * *
23968018 A-AAACTAAATTATTATTAAGTT
1 ATTAA-TAATTTATTATTAAATT
* * *
23968040 ATCACTAATTT-TCTAATAAATT
1 ATTAATAATTTAT-TATTAAATT
* * * * *
23968062 ATTATTGATTTCTTGTTAAGTT
1 ATTAATAATTTATTATTAAATT
*
23968084 ATCAATAATT
1 ATTAATAATT
23968094 AATTGTTATC
Statistics
Matches: 332, Mismatches: 117, Indels: 45
0.67 0.24 0.09
Matches are distributed among these distances:
21 40 0.12
22 264 0.80
23 25 0.08
24 3 0.01
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (22 bp):
ATTAATAATTTATTATTAAATT
Found at i:23967727 original size:66 final size:66
Alignment explanation
Indices: 23967607--23967735 Score: 204
Period size: 66 Copynumber: 2.0 Consensus size: 66
23967597 ATAATTAATT
* *
23967607 AATTTATTATTAAATTATCATTAATTTATAATTAAATAATTAATGATTTATTATTATGTTATTCA
1 AATTTATTATTAAATTATCAATAATTTATAATTAAATAATTAATGATATATTATTATGTTATTCA
23967672 A
66 A
* * * *
23967673 AATTTCTTATTAAATTATCAATGATTTATTATTAAATTATTAATGATATATTATTATGTTATT
1 AATTTATTATTAAATTATCAATAATTTATAATTAAATAATTAATGATATATTATTATGTTATT
23967736 ATATATTTAC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (66 bp):
AATTTATTATTAAATTATCAATAATTTATAATTAAATAATTAATGATATATTATTATGTTATTCA
A
Found at i:23967764 original size:66 final size:66
Alignment explanation
Indices: 23967607--23967771 Score: 190
Period size: 66 Copynumber: 2.5 Consensus size: 66
23967597 ATAATTAATT
* * * * *
23967607 AATTTATTATTAAATTATCATTAATTTATAATTAAATAATTAATGATTTATTATTATGTTATTCA
1 AATTTCTTACTAAATTATCATTGATTTATTATTAAATAATTAATGATATATTATTATGTTATTCA
23967672 A
66 A
* * *
23967673 AATTTCTTATTAAATTATCAATGATTTATTATTAAATTATTAATGATATATTATTATGTTATT-A
1 AATTTCTTACTAAATTATCATTGATTTATTATTAAATAATTAATGATATATTATTATGTTATTCA
23967737 TA
66 -A
* * * *
23967739 TATTTAC-TACTATATTACCATTGATTTACTATT
1 AATTT-CTTACTAAATTATCATTGATTTATTATT
23967772 TAGTTTTCGA
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 1 0.01
66 83 0.98
67 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (66 bp):
AATTTCTTACTAAATTATCATTGATTTATTATTAAATAATTAATGATATATTATTATGTTATTCA
A
Found at i:23967873 original size:43 final size:44
Alignment explanation
Indices: 23967805--23967887 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 44
23967795 AATTATCACA
*
23967805 GATTTATTACTAAATTATCCGTAATTCACTACTAAGTTATCATT
1 GATTTATTACTAAATTATCCATAATTCACTACTAAGTTATCATT
* * * * *
23967849 GATTTA-TATTAAATTATCTATAATTTATTATTAAGTTAT
1 GATTTATTACTAAATTATCCATAATTCACTACTAAGTTAT
23967888 TGATAATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 27 0.82
44 6 0.18
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (44 bp):
GATTTATTACTAAATTATCCATAATTCACTACTAAGTTATCATT
Found at i:23967876 original size:65 final size:64
Alignment explanation
Indices: 23967784--23967946 Score: 150
Period size: 65 Copynumber: 2.5 Consensus size: 64
23967774 GTTTTCGATT
* * * *
23967784 ATTTATTATAAAATTATCACAGATTTATTACTAAATTATCCG-TAATTCACTACTAAGTTATCAT
1 ATTTACTATTAAATTATCATA-ATTTATTACTAAATTAT-CGATAATTCACTACCAAGTTAT-AT
23967848 TG
63 TG
* * * * *
23967850 ATTTA-TATTAAATTATCTATAATTTATTATTAAGTTATTGATAATTTACTACCAATTTATATTG
1 ATTTACTATTAAATTATC-ATAATTTATTACTAAATTATCGATAATTCACTACCAAGTTATATTG
* * * *
23967914 ATTTACTTTTAAATTTTCAATGATTAATTACTA
1 ATTTACTATTAAATTATC-ATAATTTATTACTA
23967947 GATAATCATT
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
64 10 0.12
65 63 0.79
66 7 0.09
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.48
Consensus pattern (64 bp):
ATTTACTATTAAATTATCATAATTTATTACTAAATTATCGATAATTCACTACCAAGTTATATTG
Found at i:23968629 original size:9 final size:9
Alignment explanation
Indices: 23968617--23968662 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
23968607 TTAAAAAATT
23968617 AAAAAAAGA
1 AAAAAAAGA
23968626 AAAAAAAGCA
1 AAAAAAAG-A
*
23968636 AAAAAAAAA
1 AAAAAAAGA
23968645 AAAACAAAGA
1 AAAA-AAAGA
*
23968655 ATAAAAAG
1 AAAAAAAG
23968663 GACGGCACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 17 0.53
10 15 0.47
ACGTcount: A:0.85, C:0.04, G:0.09, T:0.02
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:23968638 original size:15 final size:15
Alignment explanation
Indices: 23968620--23968662 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23968610 AAAAATTAAA
23968620 AAAAGAAAAAAAAGC
1 AAAAGAAAAAAAAGC
* *
23968635 AAAAAAAAAAAAAAC
1 AAAAGAAAAAAAAGC
*
23968650 -AAAGAATAAAAAG
1 AAAAGAAAAAAAAG
23968663 GACGGCACAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.84, C:0.05, G:0.09, T:0.02
Consensus pattern (15 bp):
AAAAGAAAAAAAAGC
Found at i:23968660 original size:20 final size:21
Alignment explanation
Indices: 23968616--23968661 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
23968606 ATTAAAAAAT
23968616 TAAAAAAAGAAAAAAAAGCAA
1 TAAAAAAAGAAAAAAAAGCAA
23968637 -AAAAAAA-AAAAACAAAG-AA
1 TAAAAAAAGAAAAA-AAAGCAA
23968656 TAAAAA
1 TAAAAA
23968662 GGACGGCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.85, C:0.04, G:0.07, T:0.04
Consensus pattern (21 bp):
TAAAAAAAGAAAAAAAAGCAA
Found at i:23968661 original size:16 final size:16
Alignment explanation
Indices: 23968618--23968652 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
23968608 TAAAAAATTA
23968618 AAAAAAGAAAAAAAAGC
1 AAAAAA-AAAAAAAAGC
23968635 AAAAAAAAAAAAAA-C
1 AAAAAAAAAAAAAAGC
23968650 AAA
1 AAA
23968653 GAATAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 8 0.44
17 6 0.33
ACGTcount: A:0.89, C:0.06, G:0.06, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAGC
Found at i:23969868 original size:19 final size:19
Alignment explanation
Indices: 23969844--23969881 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
23969834 AGACCCACAT
*
23969844 TTGTTTTTAGCCCAGCAAC
1 TTGTTTTCAGCCCAGCAAC
23969863 TTGTTTTCAGCCCAGCAAC
1 TTGTTTTCAGCCCAGCAAC
23969882 CTGGATTCAT
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:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (19 bp):
TTGTTTTCAGCCCAGCAAC
Done.