Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold109
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: 1855911
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.34
Warning! 69956 characters in sequence are not A, C, G, or T
File 1 of 13
Found at i:595 original size:15 final size:15
Alignment explanation
Indices: 565--606 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
555 ATTATTTATT
565 ATTTAAATAATAATTTA
1 ATTTAAAT--TAATTTA
*
582 ATTTTAATTAATTTA
1 ATTTAAATTAATTTA
597 ATTTAAATTA
1 ATTTAAATTA
607 TAAAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 16 0.70
17 7 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTAAATTAATTTA
Found at i:2764 original size:15 final size:15
Alignment explanation
Indices: 2744--2776 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2734 ATTACGATGT
*
2744 ATATTTAAAATATAA
1 ATATTTAAAAAATAA
2759 ATATTTAAAAAATAA
1 ATATTTAAAAAATAA
2774 ATA
1 ATA
2777 AATAACTCGA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
ATATTTAAAAAATAA
Found at i:5969 original size:7 final size:7
Alignment explanation
Indices: 5957--6002 Score: 85
Period size: 7 Copynumber: 6.7 Consensus size: 7
5947 TACATTTTTA
5957 ATATAAT
1 ATATAAT
5964 ATATAAT
1 ATATAAT
5971 ATATAAT
1 ATATAAT
5978 ATATAAT
1 ATATAAT
5985 ATATAAT
1 ATATAAT
5992 ATATAA-
1 ATATAAT
5998 ATATA
1 ATATA
6003 TTAAGTAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
6 5 0.13
7 34 0.87
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATATAAT
Found at i:6450 original size:45 final size:45
Alignment explanation
Indices: 6367--6454 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
6357 AATATGTTTA
* **
6367 AAAATTTTATAATATAAATTATTATATCAAAATTTATATAAATTT
1 AAAATTTTAAAATATAAATTATTATATCAAAAAATATATAAATTT
6412 AAAATATTTAAAATAT-AATTATTATAT-AATAAAATATATAAAT
1 AAAAT-TTTAAAATATAAATTATTATATCAA-AAAATATATAAAT
6455 ATAACATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 2 0.05
45 27 0.71
46 9 0.24
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (45 bp):
AAAATTTTAAAATATAAATTATTATATCAAAAAATATATAAATTT
Found at i:7220 original size:19 final size:18
Alignment explanation
Indices: 7178--7223 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
7168 TTTATAATTA
*
7178 AATTTAAATAAAAATATT
1 AATTTAAATAAAAATAAT
* *
7196 ATTTTAATTAATAAATAAT
1 AATTTAAATAA-AAATAAT
7215 AATTTAAAT
1 AATTTAAAT
7224 TAGATTGAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTTAAATAAAAATAAT
Found at i:7224 original size:20 final size:18
Alignment explanation
Indices: 7178--7225 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
7168 TTTATAATTA
7178 AATTTAAA-TAAAAATAT
1 AATTTAAATTAAAAATAT
* *
7195 TATTTTAATTAATAAATAAT
1 AATTTAAATTAA-AAAT-AT
7215 AATTTAAATTA
1 AATTTAAATTA
7226 GATTGAACGA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 6 0.25
18 3 0.12
19 4 0.17
20 11 0.46
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTTAAATTAAAAATAT
Found at i:9412 original size:15 final size:14
Alignment explanation
Indices: 9379--9417 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
9369 ATTTAGAAAA
*
9379 TAAAAAATTCGAAT
1 TAAAAAATTTGAAT
*
9393 AAAAAAATTTGAATT
1 TAAAAAATTTGAA-T
9408 TAAAAAATTT
1 TAAAAAATTT
9418 TAAAACTAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (14 bp):
TAAAAAATTTGAAT
Found at i:20615 original size:3 final size:3
Alignment explanation
Indices: 20607--20655 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
20597 TCGAATATTT
20607 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
20655 A
1 A
20656 AAAGAACATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22752 original size:17 final size:19
Alignment explanation
Indices: 22710--22752 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
22700 GGTTTATTTA
22710 AATTTAATATTGAAAATAT
1 AATTTAATATTGAAAATAT
*
22729 AAGTTAATA-T-AAAATAT
1 AATTTAATATTGAAAATAT
*
22746 TATTTAA
1 AATTTAA
22753 ATTTTTTAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 12 0.57
18 1 0.05
19 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
AATTTAATATTGAAAATAT
Found at i:23640 original size:3 final size:3
Alignment explanation
Indices: 23632--23668 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
23622 TTAAAATATT
23632 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
23669 AGAACATGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:25536 original size:132 final size:132
Alignment explanation
Indices: 25369--26462 Score: 1695
Period size: 132 Copynumber: 8.3 Consensus size: 132
25359 AATGAAAACA
*
25369 TATACTTCTTAAA-CTATAAACTTCAGACTTTGTTTTCAATTTTATTGAGCGAAAAGGAAATGGT
1 TATACTTCTTAAAGC-ATAAACTTCAGACTTTGTTTTCAAATTTATTGAGCGAAAAGGAAATGGT
* * * * *
25433 TGATATACGCTGAGCAAGCTAAGTCAAGGTCTTTGCAATTTGTATGCATAGGTTGAATGAGAGCC
65 TGATAGATGCTAAGCAAGCTAAGTCAAGGTCTTTGCAATTTGCATGCATAGGTTGAACGAGAGCC
25498 ACG
130 ACG
*
25501 TATACTTCTTAAAGCATAAACTTCAGACATTGTTTTCAAATTTATTGAGCGAAAAGGAAAAT-GT
1 TATACTTCTTAAAGCATAAACTTCAGACTTTGTTTTCAAATTTATTGAGCGAAAAGG-AAATGGT
* * * * *
25565 TGATTGACGCTGAGCAAGCTAAGTCAAGGTCTTTGCAATTTGTATGCATAGGTTGAATGAGAGCC
65 TGATAGATGCTAAGCAAGCTAAGTCAAGGTCTTTGCAATTTGCATGCATAGGTTGAACGAGAGCC
25630 ACG
130 ACG
*
25633 TATACTTCTTAAAGCATAAACTTCAGACTTTGTTTTCCAATTTATTGAGCGAAAAGGAAATGGTT
1 TATACTTCTTAAAGCATAAACTTCAGACTTTGTTTTCAAATTTATTGAGCGAAAAGGAAATGGTT
*
25698 GATAGATGCTAAGCAAGCTAAGTCAAGGTCTTCT-CAATTTGCATGCATAGGTTGAACGAAAGCC
66 GATAGATGCTAAGCAAGCTAAGTCAAGGTCTT-TGCAATTTGCATGCATAGGTTGAACGAGAGCC
25762 ACG
130 ACG
* * *
25765 TATACCTCTTAAAGCGTAAACTTCAGACTTTATTTTCAAATTTATTGAGCGAAAAGGAAATGGTT
1 TATACTTCTTAAAGCATAAACTTCAGACTTTGTTTTCAAATTTATTGAGCGAAAAGGAAATGGTT
* *
25830 GACAGATGCTAAGCAAGCTAAGTCAAGGTCTTTGCAATTTGCATGCATAGGTTGAATGAGAGCCA
66 GATAGATGCTAAGCAAGCTAAGTCAAGGTCTTTGCAATTTGCATGCATAGGTTGAACGAGAGCCA
25895 CG
131 CG
* *
25897 TATACTTCTTAAAGCATAAACTTCAGACTTTGTTTTCCAATTTATTGAGCGGAAAGGAAATGGTT
1 TATACTTCTTAAAGCATAAACTTCAGACTTTGTTTTCAAATTTATTGAGCGAAAAGGAAATGGTT
*
25962 GATAGATGCTAAGCAAGCTAAGTCAAGGTCTTCT-CAATTTGCATGCATAGGTTGAACGAAAGCC
66 GATAGATGCTAAGCAAGCTAAGTCAAGGTCTT-TGCAATTTGCATGCATAGGTTGAACGAGAGCC
26026 ACG
130 ACG
* * * *
26029 TATACCTCTTAAAGCGTAAACTTCAGACTTTATTTTCAAATTTATTGAGCCAAAAGGAAATGGTT
1 TATACTTCTTAAAGCATAAACTTCAGACTTTGTTTTCAAATTTATTGAGCGAAAAGGAAATGGTT
* *
26094 GACAGATGCTAAGCAAGCTAAGTCAAGGTCTTTGCAATTTGCATGCATAGGTTGAATGAGAGCCA
66 GATAGATGCTAAGCAAGCTAAGTCAAGGTCTTTGCAATTTGCATGCATAGGTTGAACGAGAGCCA
26159 CG
131 CG
*
26161 TATACTTCTTAAAGCATAAACTTCAGACTTTGTTTTCCAATTTATTGAGCGAAAAGGAAATGGTT
1 TATACTTCTTAAAGCATAAACTTCAGACTTTGTTTTCAAATTTATTGAGCGAAAAGGAAATGGTT
* * *
26226 GATAGATGCTAAGCCAGCTAAGTCAAGGTGTTCT-CAATTTGCATGCATAGGTTGAACGAAAGCC
66 GATAGATGCTAAGCAAGCTAAGTCAAGGTCTT-TGCAATTTGCATGCATAGGTTGAACGAGAGCC
26290 ACG
130 ACG
* * * * *
26293 TATACCTCTTAAGGC----GCTTCAGACTTTATTTTTAAATTTATTGAGCGAAAAGGAAATGGTT
1 TATACTTCTTAAAGCATAAACTTCAGACTTTGTTTTCAAATTTATTGAGCGAAAAGGAAATGGTT
*
26354 GACAGATGCTAAGCAAGCTAAGTCAAGGTCTTTGCAATTTGCATGCATAGGTTGAACGAGAGCCA
66 GATAGATGCTAAGCAAGCTAAGTCAAGGTCTTTGCAATTTGCATGCATAGGTTGAACGAGAGCCA
26419 CG
131 CG
* * *
26421 TATACCTT-TTAAAGCATAAAGTTTAGACTTTGCTTTCAAATT
1 TATA-CTTCTTAAAGCATAAACTTCAGACTTTGTTTTCAAATT
26463 ATTAGACATG
Statistics
Matches: 884, Mismatches: 64, Indels: 28
0.91 0.07 0.03
Matches are distributed among these distances:
127 1 0.00
128 113 0.13
129 2 0.00
131 6 0.01
132 754 0.85
133 8 0.01
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (132 bp):
TATACTTCTTAAAGCATAAACTTCAGACTTTGTTTTCAAATTTATTGAGCGAAAAGGAAATGGTT
GATAGATGCTAAGCAAGCTAAGTCAAGGTCTTTGCAATTTGCATGCATAGGTTGAACGAGAGCCA
CG
Found at i:27278 original size:24 final size:25
Alignment explanation
Indices: 27251--27338 Score: 70
Period size: 24 Copynumber: 3.4 Consensus size: 25
27241 GTATTGTATT
* *
27251 TATTATAATTATAAA-TATAATAAA
1 TATTATAATAATAAATTAAAATAAA
*
27275 TATTATTATAATAAATTAAAATAAA
1 TATTATAATAATAAATTAAAATAAA
* * * *
27300 TAATAAAAATATTAAAATTATTAAATAAT
1 T-ATTATAATAAT-AAATTA--AAATAAA
27329 TATTATAATA
1 TATTATAATA
27339 TTTTATTATA
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
24 13 0.27
25 9 0.18
26 7 0.14
27 6 0.12
28 7 0.14
29 7 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
TATTATAATAATAAATTAAAATAAA
Found at i:28409 original size:21 final size:22
Alignment explanation
Indices: 28359--28417 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
28349 ATTTTTTAAA
*
28359 AAATTATTTTTACATTAATATTT
1 AAATTATTTTTA-ATTAATATGT
*
28382 ATA-TATTTTTAATTAA-ATGT
1 AAATTATTTTTAATTAATATGT
*
28402 AAATTATTTTTTATTA
1 AAATTATTTTTAATTA
28418 TTAACTGACA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 5 0.16
21 16 0.52
22 8 0.26
23 2 0.06
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
AAATTATTTTTAATTAATATGT
Found at i:29234 original size:92 final size:92
Alignment explanation
Indices: 29072--29252 Score: 299
Period size: 92 Copynumber: 2.0 Consensus size: 92
29062 CTTAAGACAA
* *
29072 TATACAACTTGCTAGAAGAGGTATAATTTTATCTTCTCGATTGCATCAATCATTTTCACAAACAA
1 TATACAACTTGCTAAAAGAGGTACAATTTTATCTTCTCGATTGCATCAATCATTTTCACAAACAA
29137 AATTCATAAAATTACTTCTAGACGGGT
66 AATTCATAAAATTACTTCTAGACGGGT
* * *
29164 TATATAACTTGCTAAAAGGGGTACAATTTTCTCTTCTCGATTGCATCAATCATTTTCACAAACAA
1 TATACAACTTGCTAAAAGAGGTACAATTTTATCTTCTCGATTGCATCAATCATTTTCACAAACAA
* *
29229 AATTCATGAAATTATTTCTAGACG
66 AATTCATAAAATTACTTCTAGACG
29253 AGTTGTAATT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 82 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (92 bp):
TATACAACTTGCTAAAAGAGGTACAATTTTATCTTCTCGATTGCATCAATCATTTTCACAAACAA
AATTCATAAAATTACTTCTAGACGGGT
Found at i:29306 original size:3 final size:3
Alignment explanation
Indices: 29293--29335 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
29283 AATAATTTAA
* * *
29293 AAT AA- AAT AAT AAT AAT GAT GAT GAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
29336 AGAATGTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:30488 original size:13 final size:13
Alignment explanation
Indices: 30470--30494 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30460 TTAAGACTGT
30470 TTGAAATATTAAC
1 TTGAAATATTAAC
30483 TTGAAATATTAA
1 TTGAAATATTAA
30495 AGGAAATGGT
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:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (13 bp):
TTGAAATATTAAC
Found at i:33575 original size:174 final size:175
Alignment explanation
Indices: 33285--33635 Score: 643
Period size: 174 Copynumber: 2.0 Consensus size: 175
33275 ATATTATCTT
33285 ATCTCGATTAAATTTTAGATTGCATATATTACTAATTAGTTTTAAGTTAAATGCTTAACATACAA
1 ATCTCGATTAAATTTTAGATTGCATATATTACTAATTAGTTTTAAGTTAAATGCTTAACATACAA
*
33350 GTATAGTATCAAAGTCTAGTTTTGTTCTGTTATTCATGCATGTTATCCACCTGTTACT-TTTTCT
66 GTATAGTATCAAAGTCTAGTTCTGTTCTGTTATTCATGCATGTTATCCACCTGTTACTCTTTT-T
33414 AAGTTTATCACATGATAG-TTTTTTATCTTACATACACATAATGGG
130 AAGTTTATCACATGATAGTTTTTTTATCTTACATACACATAATGGG
*
33459 ATCTCGATTAAATTTTAGATTGCATGTATTACTAATTAGTTTTAAGTTAAATGCTTAACATACAA
1 ATCTCGATTAAATTTTAGATTGCATATATTACTAATTAGTTTTAAGTTAAATGCTTAACATACAA
33524 GTATAGTATCAAAGTCTAGTTCTGTTCTGTTATTCATGCATGTTATCCACCTGTTACTCTTTTTA
66 GTATAGTATCAAAGTCTAGTTCTGTTCTGTTATTCATGCATGTTATCCACCTGTTACTCTTTTTA
*
33589 AGTTTATCACATGATAGTTTTTTTTATCTTACATACACATGATGGG
131 AGTTTATCACATGATAG-TTTTTTTATCTTACATACACATAATGGG
33635 A
1 A
33636 CCTGTTAAAG
Statistics
Matches: 171, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
174 140 0.82
175 4 0.02
176 27 0.16
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.44
Consensus pattern (175 bp):
ATCTCGATTAAATTTTAGATTGCATATATTACTAATTAGTTTTAAGTTAAATGCTTAACATACAA
GTATAGTATCAAAGTCTAGTTCTGTTCTGTTATTCATGCATGTTATCCACCTGTTACTCTTTTTA
AGTTTATCACATGATAGTTTTTTTATCTTACATACACATAATGGG
Found at i:34039 original size:50 final size:50
Alignment explanation
Indices: 33965--34223 Score: 446
Period size: 50 Copynumber: 5.2 Consensus size: 50
33955 AGTTGTTGCC
* * *
33965 ATTGTTGACTATCCTTCACTAACCTTTGACAATAGAGAGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
34015 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCGTA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
34065 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
* *
34115 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAAAGGTGACCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
34165 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAAAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
34215 ATTGTTGAC
1 ATTGTTGAC
34224 TCTAAGTATA
Statistics
Matches: 199, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 199 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (50 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
Found at i:38683 original size:50 final size:50
Alignment explanation
Indices: 38614--38872 Score: 446
Period size: 50 Copynumber: 5.2 Consensus size: 50
38604 AGTTGTTGCC
* *
38614 ATTGTTGACTATCCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
38664 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCGTA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
38714 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
* *
38764 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAAATGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
* *
38814 ATTGTTGATGATTCTTCACCAACCTTTGACAATAGAGAAAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
38864 ATTGTTGAC
1 ATTGTTGAC
38873 TCTAAGTATA
Statistics
Matches: 198, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 198 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (50 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
Found at i:40454 original size:3 final size:3
Alignment explanation
Indices: 40446--40488 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
40436 AATTTAAAAT
*
40446 ATA ATA ATA AGA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
40489 ATTTATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:40653 original size:201 final size:201
Alignment explanation
Indices: 40294--40662 Score: 512
Period size: 200 Copynumber: 1.9 Consensus size: 201
40284 CATCTCTATC
*
40294 ATTTTTTCTACTGAAGACAATATACAACTTGCTAGAAGGGATACAATTTTCTCTTCTAAGTTGCA
1 ATTTTTTCCACTGAAGACAATATACAACTTGCTAGAAGGGATACAATTTTCTCTTCTAAGTTGCA
* * * * * ** * *
40359 TCAATTATTTTAACAAATGAGATTCATTAAATTGTTTCTAGATGAGTTGTAATTTTTTCTATCTG
66 TCAATCATTTTAACAAATGAAATTCATGAAATTATTTCTAAACAAGTTGCAATTTTTTCTATCTC
*
40424 AAAAGTGTAAATAATTTAAAATATAATAATAAGAATAATAATAATAATAATAATAATAATAATAA
131 AAAAGTCTAAATAATTTAAAATATAATAATAAGAATAATAATAATAATAATAATAATAATAATAA
40489 ATTTAT
196 ATTTAT
* * * * *
40495 ATTTTTTCCACTGAAGGCAATATACAACTTGCTA-AAGGGGTATAATTTTCTCTTGTCAGTTGCA
1 ATTTTTTCCACTGAAGACAATATACAACTTGCTAGAAGGGATACAATTTTCTCTTCTAAGTTGCA
*
40559 TCAATCATTTTCACAAATGAAATT-ATGAAATTATTTCTAAACAAGTTGCAATTTTTT-TATCTC
66 TCAATCATTTTAACAAATGAAATTCATGAAATTATTTCTAAACAAGTTGCAATTTTTTCTATCTC
* * * *
40622 AAAAGTCTTAGTAATTTAAAAT-TGAATAATAATACTAATAA
131 AAAAGTCTAAATAATTTAAAATAT-AATAATAAGAATAATAA
40663 AAGAATGTAT
Statistics
Matches: 146, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
197 1 0.01
198 39 0.27
199 27 0.18
200 47 0.32
201 32 0.22
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (201 bp):
ATTTTTTCCACTGAAGACAATATACAACTTGCTAGAAGGGATACAATTTTCTCTTCTAAGTTGCA
TCAATCATTTTAACAAATGAAATTCATGAAATTATTTCTAAACAAGTTGCAATTTTTTCTATCTC
AAAAGTCTAAATAATTTAAAATATAATAATAAGAATAATAATAATAATAATAATAATAATAATAA
ATTTAT
Found at i:41385 original size:17 final size:17
Alignment explanation
Indices: 41363--41398 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
41353 AACCTTTTGA
*
41363 GTCCATTGGAGGTTTAG
1 GTCCATTAGAGGTTTAG
41380 GTCCATTAGAGGTTTAG
1 GTCCATTAGAGGTTTAG
41397 GT
1 GT
41399 AAAATAGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.11, G:0.33, T:0.36
Consensus pattern (17 bp):
GTCCATTAGAGGTTTAG
Found at i:43186 original size:32 final size:30
Alignment explanation
Indices: 43125--43201 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 30
43115 AATAATTAAA
*
43125 ATATAATA-AAAATATATATTTTAAAATTT
1 ATATAATATAAAATATATATATTAAAATTT
*
43154 ATATAATATAAATTATTAATATATTAAAATTT
1 ATATAATATAAAATA-T-ATATATTAAAATTT
*
43186 ACATAAATATAAAATA
1 ATAT-AATATAAAATA
43202 CGTTAAACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
29 8 0.20
30 5 0.12
31 1 0.03
32 16 0.40
33 10 0.25
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (30 bp):
ATATAATATAAAATATATATATTAAAATTT
Found at i:45075 original size:18 final size:18
Alignment explanation
Indices: 45052--45086 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
45042 TTGATATATA
45052 TTTTAT-TTTTAATTAATT
1 TTTTATATTTT-ATTAATT
45070 TTTTATATTTTATTAAT
1 TTTTATATTTTATTAAT
45087 AAATTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATATTTTATTAATT
Found at i:45332 original size:32 final size:32
Alignment explanation
Indices: 45281--45351 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
45271 TTTCTTATCT
*
45281 TATTTTTTTCTAAACATCTTTATTA-ATTTGTC
1 TATTTTTTTCTAAACATCTTT-GTACATTTGTC
45313 TATTTCTTTTCTAAA-ATCTTTGTACATTTGTC
1 TATTT-TTTTCTAAACATCTTTGTACATTTGTC
*
45345 TACTTTT
1 TATTTTT
45352 GATACCCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 4 0.11
32 22 0.63
33 9 0.26
ACGTcount: A:0.23, C:0.14, G:0.04, T:0.59
Consensus pattern (32 bp):
TATTTTTTTCTAAACATCTTTGTACATTTGTC
Found at i:46185 original size:37 final size:37
Alignment explanation
Indices: 46144--46219 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
46134 TGGCGATTCT
* *
46144 ACTATGATTGTCAGTATTTGGGTGACAGTGCCAATCC
1 ACTATGATTGTCAGAATTTGGGTGACAGCGCCAATCC
* *
46181 ACTATGATTGTTAGAATTTGGGTGGCAGCGCCAATCC
1 ACTATGATTGTCAGAATTTGGGTGACAGCGCCAATCC
46218 AC
1 AC
46220 GAAAAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (37 bp):
ACTATGATTGTCAGAATTTGGGTGACAGCGCCAATCC
Found at i:54385 original size:49 final size:48
Alignment explanation
Indices: 54281--54482 Score: 266
Period size: 48 Copynumber: 4.2 Consensus size: 48
54271 CAATGTGCCA
* * * *
54281 ATTCAAGGCCAACAACATCGAGCTAAGGGAAAAGTGGACAATGTGCTG
1 ATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAATATGCTG
*
54329 ATTCAAGGCTAGCGACATTGAGCTAAGGGAAAAGTAGGACAATATGCTG
1 ATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGT-GGACAATATGCTG
* * *
54378 AATCAAGGCCAGCGATATTGAGCTAAGGGAAAAGTGGACAATATACTG
1 ATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAATATGCTG
* * *
54426 ATTCAAGGCCAGCGACATTGAGCTAA--TAAAGGT-GTCAATATGCTG
1 ATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAATATGCTG
*
54471 ATTCAATGCCAG
1 ATTCAAGGCCAG
54483 TGATATTTGA
Statistics
Matches: 137, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
45 21 0.15
46 5 0.04
48 67 0.49
49 44 0.32
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (48 bp):
ATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAATATGCTG
Found at i:54697 original size:28 final size:28
Alignment explanation
Indices: 54638--55439 Score: 1008
Period size: 28 Copynumber: 28.2 Consensus size: 28
54628 TACCAACTCG
*
54638 TGTGGGCTTTGAAATGAATTGCCACCGACT
1 TGTGGGCTTTGAAATG-A-TGCCACTGACT
**
54668 TGTGGGCTTTGAAATGATGCCACAAACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* *
54696 TGTGGGATTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* * *
54724 TGTAGGCTTTAAAATAGGTTGCCACTGACTT
1 TGTGGGCTTTGAAAT--GATGCCACTGAC-T
* * *
54755 GTGTGGGCTTTTAAATGAGTTACCA-TCAACT
1 -TGTGGGCTTTGAAATGA--TGCCACT-GACT
54786 TGCGTGGGCTTTGAAA-GAATGCCAC-GAACT
1 T--GTGGGCTTTGAAATG-ATGCCACTG-ACT
54816 TGTGGGCTTTGAAA-GAATGCCACTGACT
1 TGTGGGCTTTGAAATG-ATGCCACTGACT
* * *
54844 TGTGGGCTTTAAAAAAGATGCCACTAACT
1 TGTGGGCTTT-GAAATGATGCCACTGACT
* *
54873 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
*
54901 TGTGGGCTTTGGAAA-GATGCCACTAACT
1 TGTGGGCTTT-GAAATGATGCCACTGACT
*
54929 TGTAGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
*
54957 TGTAGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* *
54985 TGTAGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* *
55013 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* *
55041 TGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
*
55069 TGTGGGCTTTAAAATGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* *
55097 TGTGGGCTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* *
55125 TGTTGGCTTTGGAAA-GATGCCACTAACT
1 TGTGGGCTTT-GAAATGATGCCACTGACT
55153 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
55181 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
*
55209 TGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTG-AAATGATGCCACTGACT
55238 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
*
55266 TGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTG-AAATGATGCCACTGACT
*
55295 TGTAGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
*
55323 TGTGGGC-TTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTG-AAATGATGCCACTGACT
*
55351 TGTGGGCTTTGAGAAAGATGCCACTGACT
1 TGTGGGCTTTGA-AATGATGCCACTGACT
*
55380 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* * *
55408 TGTGGGCTTTGAAA-GGTGCCACGGAGT
1 TGTGGGCTTTGAAATGATGCCACTGACT
55435 TGTGG
1 TGTGG
55440 ACTTCAAAAG
Statistics
Matches: 698, Mismatches: 50, Indels: 51
0.87 0.06 0.06
Matches are distributed among these distances:
27 26 0.04
28 481 0.69
29 117 0.17
30 38 0.05
31 4 0.01
32 32 0.05
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAATGATGCCACTGACT
Found at i:55437 original size:27 final size:27
Alignment explanation
Indices: 54638--55593 Score: 837
Period size: 28 Copynumber: 33.8 Consensus size: 27
54628 TACCAACTCG
* *
54638 TGTGGGCTTTGAAATGAATTGCCACCGACT
1 TGTGGGCTTTGAAA-G--GTGCCACTGACT
* **
54668 TGTGGGCTTTGAAATGATGCCACAAACT
1 TGTGGGCTTTGAAA-GGTGCCACTGACT
*
54696 TGTGGGATTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGG-TGCCACTGACT
* *
54724 TGTAGGCTTTAAAATAGGTTGCCACTGACTT
1 TGTGGGCTTT-GAA-AGG-TGCCACTGAC-T
* * *
54755 GTGTGGGCTTTTAAATGAGTTACCA-TCAACT
1 -TGTGGGCTTTGAAA-G-G-TGCCACT-GACT
*
54786 TGCGTGGGCTTTGAAAGAATGCCAC-GAACT
1 T--GTGGGCTTTGAAAG-GTGCCACTG-ACT
*
54816 TGTGGGCTTTGAAAGAATGCCACTGACT
1 TGTGGGCTTTGAAAG-GTGCCACTGACT
* * *
54844 TGTGGGCTTTAAAAAAGATGCCACTAACT
1 TGTGGGCTTT--GAAAGGTGCCACTGACT
*
54873 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGG-TGCCACTGACT
* *
54901 TGTGGGCTTTGGAAAGATGCCACTAACT
1 TGTGGGCTTT-GAAAGGTGCCACTGACT
* *
54929 TGTAGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAA-GGTGCCACTGACT
* *
54957 TGTAGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAA-GGTGCCACTGACT
*
54985 TGTAGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGG-TGCCACTGACT
55013 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAA-GGTGCCACTGACT
*
55041 TGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGG-TGCCACTGACT
* *
55069 TGTGGGCTTTAAAATGATGCCACTGACT
1 TGTGGGCTTTGAAA-GGTGCCACTGACT
*
55097 TGTGGGCTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGG-TGCCACTGACT
* * *
55125 TGTTGGCTTTGGAAAGATGCCACTAACT
1 TGTGGGCTTT-GAAAGGTGCCACTGACT
*
55153 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAA-GGTGCCACTGACT
*
55181 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAA-GGTGCCACTGACT
55209 TGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTG-AAAGG-TGCCACTGACT
*
55238 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAA-GGTGCCACTGACT
55266 TGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTG-AAAGG-TGCCACTGACT
* *
55295 TGTAGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAA-GGTGCCACTGACT
55323 TGTGGGC-TTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTG-AAAGG-TGCCACTGACT
*
55351 TGTGGGCTTTGAGAAAGATGCCACTGACT
1 TGTGGGCTTT--GAAAGGTGCCACTGACT
*
55380 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTG-AAAGGTGCCACTGACT
* *
55408 TGTGGGCTTTGAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGTGCCACTGACT
* ** * * *
55435 TGTGGACTTCAAAAGATACCAC-GAAGT
1 TGTGGGCTTTGAAAGGTGCCACTG-ACT
* * * * *
55462 TGT-GGATTTAAAAGGGTGTCACGGAGT
1 TGTGGGCTTTGAAA-GGTGCCACTGACT
* * * *
55489 TGTGGACTTTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAA-GGTGCCACTGACT
* * * *
55517 TGTGGACTTTAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTGAAAG-GTGCCACTGACT
* * * *
55545 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAA-GGTGCCACTGACT
*
55572 TGTGGACTTT-AAAGGGTGCCAC
1 TGTGGGCTTTGAAA-GGTGCCAC
55594 GGAGTTGTAG
Statistics
Matches: 816, Mismatches: 66, Indels: 91
0.84 0.07 0.09
Matches are distributed among these distances:
26 8 0.01
27 107 0.13
28 505 0.62
29 111 0.14
30 47 0.06
31 9 0.01
32 29 0.04
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (27 bp):
TGTGGGCTTTGAAAGGTGCCACTGACT
Found at i:55508 original size:82 final size:82
Alignment explanation
Indices: 54974--55880 Score: 686
Period size: 82 Copynumber: 10.9 Consensus size: 82
54964 TTTGAAATGA
* * * * * * * * * *
54974 TGCCACTGACTTGTAGG-CTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTG
1 TGCCACGGAGTTGT-GGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGG
* * *
55038 ACTTGTGGGCTTTAAAAGGA
64 AGTTGTGGAC-TTAAAAGGG
* * * * * * * * * **
55058 TGCCACTGACTTGTGGGCTTTAAAATGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCATTGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGA
* * *
55123 CTTGTTGG-CTTTGGAAA-GA
65 GTTG-TGGAC-TT-AAAAGGG
** * * * * * * * * * * *
55142 TGCCACTAACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGA
* * *
55207 CTTGTGGGCTTTGAAAAGGA
65 GTTGTGGAC-TT-AAAAGGG
* * * * * * * * * *
55227 TGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTG
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGATGCCACGG
* * * *
55292 ACTTGTAGG-CTTTGAAATGA
64 AGTTGT-GGAC-TTAAAAGGG
* * * * * * * * *
55312 TGCCACTGACTTGTGGGCTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAGAAA-GATGCCACT
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TT-A-AAAGGATGCCACG
* * *
55376 GACTTGTGGGCTTTGAAAA-GA
63 GAGTTGTGGAC-TT-AAAAGGG
* * * * * *
55397 TGCCACTGACTTGTGGGCTTTGAAA-GGTGCCACGGAGTTGTGGACTTCAAAA-GATACCACGAA
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGATGCCACGGA
*
55460 GTTGTGGATTTAAAAGGG
65 GTTGTGGACTTAAAAGGG
* *
55478 TGTCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAA-GAGTGCCACGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGA-TGCCACGG
55542 AGTTGTGGACTTAAAAGGG
64 AGTTGTGGACTTAAAAGGG
* * *
55561 TGCCACGGAGTTGTGGACTTT-AAAGGGTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACGAAG
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAG
55625 TTGTGGACTTAAAAGGG
66 TTGTGGACTTAAAAGGG
* * * * *
55642 TACCATGGAGTTGTGGAC-TTAAAAGGGTACCAAGAAGTTGTGGACTTTAAAA-GAGTGCCACGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGA-TGCCACGG
*
55705 AGTTGTGGATTTAAAAGGG
64 AGTTGTGGACTTAAAAGGG
*
55724 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAG
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAG
*
55789 TTGTGGACTTAAAAGAG
66 TTGTGGACTTAAAAGGG
* * *
55806 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGATACCACGGAG
1 TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAG
55871 TTGTGGACTT
66 TTGTGGACTT
55881 TGAAAAGGTC
Statistics
Matches: 737, Mismatches: 66, Indels: 42
0.87 0.08 0.05
Matches are distributed among these distances:
80 6 0.01
81 92 0.12
82 216 0.29
83 79 0.11
84 159 0.22
85 154 0.21
86 29 0.04
87 2 0.00
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (82 bp):
TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAG
TTGTGGACTTAAAAGGG
Found at i:55516 original size:28 final size:28
Alignment explanation
Indices: 54789--55888 Score: 890
Period size: 28 Copynumber: 39.5 Consensus size: 28
54779 ATCAACTTGC
* * * *
54789 GTGGGCTTTGAAAGAATGCCAC-GAACTT
1 GTGGACTTTAAAAGGATGCCACTG-AGTT
* * * *
54817 GTGGGCTTTGAAAGAATGCCACTGACTT
1 GTGGACTTTAAAAGGATGCCACTGAGTT
* * * *
54845 GTGGGCTTTAAAAAAGATGCCACTAACTT
1 GTGGACTTT-AAAAGGATGCCACTGAGTT
* * * *
54874 GTGGGCTTTGAAAGGATGCCACTAACTT
1 GTGGACTTTAAAAGGATGCCACTGAGTT
* * * *
54902 GTGGGCTTTGGAAA-GATGCCACTAACTT
1 GTGGACTTT-AAAAGGATGCCACTGAGTT
* * *
54930 GTAGG-CTTTGAAATGATGCCACTGACTT
1 GT-GGACTTTAAAAGGATGCCACTGAGTT
* * *
54958 GTAGG-CTTTGAAATGATGCCACTGACTT
1 GT-GGACTTTAAAAGGATGCCACTGAGTT
* *
54986 GTAGG-CTTTGAAAGGATGCCACTGACTT
1 GT-GGACTTTAAAAGGATGCCACTGAGTT
* * * *
55014 GTGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGACTTTAAAAGGATGCCACTGAGTT
* *
55042 GTGGGCTTTAAAAGGATGCCACTGACTT
1 GTGGACTTTAAAAGGATGCCACTGAGTT
* * *
55070 GTGGGCTTTAAAATGATGCCACTGACTT
1 GTGGACTTTAAAAGGATGCCACTGAGTT
* * * *
55098 GTGGGCTTTGAAAGGATGCCATTGACTT
1 GTGGACTTTAAAAGGATGCCACTGAGTT
* * *
55126 GTTGG-CTTTGGAAA-GATGCCACTAACTT
1 G-TGGACTTT-AAAAGGATGCCACTGAGTT
* * * *
55154 GTGGGCTTTGAAATGATGCCACTGACTT
1 GTGGACTTTAAAAGGATGCCACTGAGTT
* * * *
55182 GTGGGCTTTGAAATGATGCCACTGACTT
1 GTGGACTTTAAAAGGATGCCACTGAGTT
* *
55210 GTGGGCTTTGAAAAGGATGCCACTGACTT
1 GTGGACTTT-AAAAGGATGCCACTGAGTT
* * * *
55239 GTGGGCTTTGAAATGATGCCACTGACTT
1 GTGGACTTTAAAAGGATGCCACTGAGTT
* *
55267 GTGGGCTTTGAAAAGGATGCCACTGACTT
1 GTGGACTTT-AAAAGGATGCCACTGAGTT
* * *
55296 GTAGG-CTTTGAAATGATGCCACTGACTT
1 GT-GGACTTTAAAAGGATGCCACTGAGTT
* * *
55324 GTGGGCTTGAAAAGGATGCCACTGACTT
1 GTGGACTTTAAAAGGATGCCACTGAGTT
* *
55352 GTGGGCTTTGAGAAA-GATGCCACTGACTT
1 GTGGACTTT-A-AAAGGATGCCACTGAGTT
* *
55381 GTGGGCTTTGAAAA-GATGCCACTGACTT
1 GTGGACTTT-AAAAGGATGCCACTGAGTT
* * *
55409 GTGGGCTTTGAAAGG-TGCCACGGAGTT
1 GTGGACTTTAAAAGGATGCCACTGAGTT
* *
55436 GTGGACTTCAAAA-GATACCAC-GAAGTT
1 GTGGACTTTAAAAGGATGCCACTG-AGTT
* * *
55463 GTGGA-TTTAAAAGGGTGTCACGGAGTT
1 GTGGACTTTAAAAGGATGCCACTGAGTT
* *
55490 GTGGACTTTAAAAGGGTGCCACAGAGTT
1 GTGGACTTTAAAAGGATGCCACTGAGTT
*
55518 GTGGACTTTAAAA-GAGTGCCACGGAGTT
1 GTGGACTTTAAAAGGA-TGCCACTGAGTT
* *
55546 GTGGAC-TTAAAAGGGTGCCACGGAGTT
1 GTGGACTTTAAAAGGATGCCACTGAGTT
* *
55573 GTGGACTTT-AAAGGGTGCCACGGAGTT
1 GTGGACTTTAAAAGGATGCCACTGAGTT
* *
55600 GTAGAC-TTAAAAGGGTGCCAC-GAAGTT
1 GTGGACTTTAAAAGGATGCCACTG-AGTT
* *
55627 GTGGAC-TTAAAAGGGTACCA-TGGAGTT
1 GTGGACTTTAAAAGGATGCCACT-GAGTT
* * *
55654 GTGGAC-TTAAAAGGGTACCA-AGAAGTT
1 GTGGACTTTAAAAGGATGCCACTG-AGTT
*
55681 GTGGACTTTAAAA-GAGTGCCACGGAGTT
1 GTGGACTTTAAAAGGA-TGCCACTGAGTT
* *
55709 GTGGA-TTTAAAAGGGTGCCACGGAGTT
1 GTGGACTTTAAAAGGATGCCACTGAGTT
*
55736 GTGGACTTTAAAAGGATGCCACGGAGTT
1 GTGGACTTTAAAAGGATGCCACTGAGTT
*
55764 GTGGAC-TTAAAAGGATGCCACGGAGTT
1 GTGGACTTTAAAAGGATGCCACTGAGTT
*
55791 GTGGAC-TTAAAA-GAGTGCCACGGAGTT
1 GTGGACTTTAAAAGGA-TGCCACTGAGTT
*
55818 GTGGACTTTAAAAGGATGCCACAGAGTT
1 GTGGACTTTAAAAGGATGCCACTGAGTT
* *
55846 GTGGAC-TTAAAAGGATACCACGGAGTT
1 GTGGACTTTAAAAGGATGCCACTGAGTT
55873 GTGGACTTTGAAAAGG
1 GTGGACTTT-AAAAGG
55889 TCACAGTACT
Statistics
Matches: 974, Mismatches: 58, Indels: 79
0.88 0.05 0.07
Matches are distributed among these distances:
26 14 0.01
27 283 0.29
28 550 0.56
29 122 0.13
30 5 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (28 bp):
GTGGACTTTAAAAGGATGCCACTGAGTT
Found at i:55550 original size:56 final size:56
Alignment explanation
Indices: 54657--55888 Score: 969
Period size: 56 Copynumber: 22.0 Consensus size: 56
54647 TGAAATGAAT
* * ** *
54657 TGCCACCGACTTGTGGGCTTTGAAATGA-TGCCACAAACTTGTGGGA-TTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTT-AAAAGAGTGCCACGGACTTGT-GGACTTTAAAAGGA
* * * * * *
54713 TGCCACTGACTTGTAGGCTTTAAAATAGGTTGCCACTGACTTGTGTGGGCTTTTAAATGAGT
1 TGCCACTGACTTGTGGGCTTTAAAAGA-G-TGCCACGGAC-T-TGTGGAC-TTTAAAAG-GA
* * * * * * * *
54775 TACCA-TCAACTTGCGTGGGCTTTGAAAGAATGCCACGAACTTGTGGGCTTTGAAAGAA
1 TGCCACT-GACTT--GTGGGCTTTAAAAGAGTGCCACGGACTTGTGGACTTTAAAAGGA
* ** * *
54833 TGCCACTGACTTGTGGGCTTTAAAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTAAAAGAG-TGCCACGGACTTGTGGACTTTAAAAGGA
* * ** * *
54890 TGCCACTAACTTGTGGGCTTTGGAAAGA-TGCCACTAACTTGTAGG-CTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTT-AAAAGAGTGCCACGGACTTGT-GGACTTTAAAAGGA
* * * *
54946 TGCCACTGACTTGTAGGCTTTGAAATGA-TGCCACTGACTTGTAGG-CTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTT-AAAAGAGTGCCACGGACTTGT-GGACTTTAAAAGGA
* * * *
55002 TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGA
1 TGCCACTGACTTGTGGGCTTTAAAAGAGTGCCACGGACTTGTGGACTTTAAAAGGA
* * *
55058 TGCCACTGACTTGTGGGCTTTAAAATGA-TGCCACTGACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTAAAA-GAGTGCCACGGACTTGTGGACTTTAAAAGGA
* * * ** * * *
55114 TGCCATTGACTTGTTGGCTTTGGAAAGA-TGCCACTAACTTGTGGGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTT-AAAAGAGTGCCACGGACTTGTGGACTTTAAAAGGA
* * *
55170 TGCCACTGACTTGTGGGCTTTGAAATGA-TGCCACTGACTTGTGGGCTTTGAAAAGGA
1 TGCCACTGACTTGTGGGCTTT-AAAAGAGTGCCACGGACTTGTGGACTTT-AAAAGGA
* * *
55227 TGCCACTGACTTGTGGGCTTTGAAATGA-TGCCACTGACTTGTGGGCTTTGAAAAGGA
1 TGCCACTGACTTGTGGGCTTT-AAAAGAGTGCCACGGACTTGTGGACTTT-AAAAGGA
* * * * *
55284 TGCCACTGACTTGTAGGCTTTGAAATGA-TGCCACTGACTTGTGGGCTTGAAAAGGA
1 TGCCACTGACTTGTGGGCTTT-AAAAGAGTGCCACGGACTTGTGGACTTTAAAAGGA
* *
55340 TGCCACTGACTTGTGGGCTTTGAGAAAGA-TGCCACTGACTTGTGGGCTTTGAAAA-GA
1 TGCCACTGACTTGTGGGCTTT-A-AAAGAGTGCCACGGACTTGTGGACTTT-AAAAGGA
* * *
55397 TGCCACTGACTTGTGGGCTTTGAAAG-GTGCCACGGAGTTGTGGACTTCAAAA-GA
1 TGCCACTGACTTGTGGGCTTTAAAAGAGTGCCACGGACTTGTGGACTTTAAAAGGA
* * * * * * *
55451 TACCAC-GAAGTTGT-GGATTTAAAAGGGTGTCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACTG-ACTTGTGGGCTTTAAAAGAGTGCCACGGACTTGTGGACTTTAAAAGGA
* * * * *
55506 TGCCACAGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTAAAAGAGTGCCACGGACTTGTGGACTTTAAAAGGA
* * * * * * *
55561 TGCCACGGAGTTGTGGACTTT-AAAGGGTGCCACGGAGTTGTAGAC-TTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTAAAAGAGTGCCACGGACTTGTGGACTTTAAAAGGA
* * * * * * *
55615 TGCCAC-GAAGTTGTGGAC-TTAAAAGGGTACCATGGAGTTGTGGAC-TTAAAAGGG
1 TGCCACTG-ACTTGTGGGCTTTAAAAGAGTGCCACGGACTTGTGGACTTTAAAAGGA
* * * * * *
55669 TACCA-AGAAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGA-TTTAAAAGGG
1 TGCCACTG-ACTTGTGGGCTTTAAAAGAGTGCCACGGACTTGTGGACTTTAAAAGGA
* * * *
55724 TGCCACGGAGTTGTGGACTTTAAAAG-GATGCCACGGAGTTGTGGAC-TTAAAAGGA
1 TGCCACTGACTTGTGGGCTTTAAAAGAG-TGCCACGGACTTGTGGACTTTAAAAGGA
* * * *
55779 TGCCACGGAGTTGTGGAC-TTAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGA
1 TGCCACTGACTTGTGGGCTTTAAAAGAGTGCCACGGACTTGTGGACTTTAAAAGGA
* * * * *
55834 TGCCACAGAGTTGTGGAC-TTAAAAG-GATACCACGGAGTTGTGGACTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTAAAAGAG-TGCCACGGACTTGTGGACTTT-AAAAGG
55889 TCACAGTACT
Statistics
Matches: 1040, Mismatches: 96, Indels: 80
0.86 0.08 0.07
Matches are distributed among these distances:
53 13 0.01
54 160 0.15
55 222 0.21
56 356 0.34
57 208 0.20
58 24 0.02
59 10 0.01
60 10 0.01
61 8 0.01
62 17 0.02
64 12 0.01
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (56 bp):
TGCCACTGACTTGTGGGCTTTAAAAGAGTGCCACGGACTTGTGGACTTTAAAAGGA
Found at i:57246 original size:33 final size:34
Alignment explanation
Indices: 57186--57250 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
57176 CGTTTTTTAT
* * *
57186 TTTTTTTGTTTCCTTTTTTATTTTGCTTTTGCAC
1 TTTTTTTCTTTCCATTTTTATTATGCTTTTGCAC
*
57220 TTTTTTTCTTTTCATTTTT-TTATGCTTTTGC
1 TTTTTTTCTTTCCATTTTTATTATGCTTTTGC
57251 TTTTGACTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 11 0.41
34 16 0.59
ACGTcount: A:0.06, C:0.14, G:0.08, T:0.72
Consensus pattern (34 bp):
TTTTTTTCTTTCCATTTTTATTATGCTTTTGCAC
Found at i:63798 original size:37 final size:37
Alignment explanation
Indices: 63756--63854 Score: 137
Period size: 37 Copynumber: 2.7 Consensus size: 37
63746 CGACAAGTAA
*
63756 TATTTGGGTGGCTTG-GCCAATCCACTATGATTGTCAG
1 TATTTGGGTGGC-AGCGCCAATCCACTATGATTGTCAG
* * *
63793 TATTTGGATGGCAGTGCCAATCCACTATGATTGTTAG
1 TATTTGGGTGGCAGCGCCAATCCACTATGATTGTCAG
*
63830 AATTTGGGTGGCAGCGCCAATCCAC
1 TATTTGGGTGGCAGCGCCAATCCAC
63855 AGAAAAATAA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 1 0.02
37 54 0.98
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (37 bp):
TATTTGGGTGGCAGCGCCAATCCACTATGATTGTCAG
Found at i:66506 original size:27 final size:26
Alignment explanation
Indices: 66476--66570 Score: 104
Period size: 27 Copynumber: 3.7 Consensus size: 26
66466 ACCCTTTGTG
66476 TTTGTCAAAAATGGTGGTTACTTTTTA
1 TTTGTCAAAAATGGTGGTT-CTTTTTA
* *
66503 TTTGTCAAAAATAGTGGTTCATTTTTG
1 TTTGTCAAAAATGGTGGTTC-TTTTTA
* * *
66530 TTTGTCAAAAATTGTGG--CTTGTTG
1 TTTGTCAAAAATGGTGGTTCTTTTTA
*
66554 TTTGTCAAAATTGGTGG
1 TTTGTCAAAAATGGTGG
66571 CTAATTTTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
24 20 0.33
25 1 0.02
26 1 0.02
27 39 0.64
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.46
Consensus pattern (26 bp):
TTTGTCAAAAATGGTGGTTCTTTTTA
Found at i:66644 original size:13 final size:13
Alignment explanation
Indices: 66626--66656 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
66616 GGCTCCATCC
66626 TCCCTCTCATGTA
1 TCCCTCTCATGTA
*
66639 TCCCTCTCTTGTA
1 TCCCTCTCATGTA
66652 TCCCT
1 TCCCT
66657 TTTCAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.42, G:0.06, T:0.42
Consensus pattern (13 bp):
TCCCTCTCATGTA
Found at i:69136 original size:21 final size:22
Alignment explanation
Indices: 69107--69152 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
69097 TGTTCAGACA
** *
69107 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
69129 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
69150 AGT
1 AGT
69153 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:71038 original size:27 final size:26
Alignment explanation
Indices: 71008--71109 Score: 102
Period size: 27 Copynumber: 3.9 Consensus size: 26
70998 AAAAGTCACC
71008 CTTTGTGTTTATCAAAAATGGTGGTT
1 CTTTGTGTTTATCAAAAATGGTGGTT
* *
71034 ACTTTGTATTTGTCAAAAATGGTGGTT
1 -CTTTGTGTTTATCAAAAATGGTGGTT
* *
71061 CTTTTTTGTTTATCAAAAATTGTGG--
1 C-TTTGTGTTTATCAAAAATGGTGGTT
* *
71086 C-TTGTTGTTTGTCAAAATTGGTGG
1 CTTTG-TGTTTATCAAAAATGGTGG
71110 CTAATTTTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
23 2 0.03
24 16 0.25
25 1 0.02
26 1 0.02
27 43 0.68
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.47
Consensus pattern (26 bp):
CTTTGTGTTTATCAAAAATGGTGGTT
Found at i:71100 original size:24 final size:24
Alignment explanation
Indices: 71042--71111 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
71032 TTACTTTGTA
* *
71042 TTTGTCAAAAATGGTGGTTCTTTTTTG
1 TTTGTCAAAAATTGTGG--C-TTGTTG
*
71069 TTTATCAAAAATTGTGGCTTGTTG
1 TTTGTCAAAAATTGTGGCTTGTTG
71093 TTTGTC-AAAATTGGTGGCT
1 TTTGTCAAAAATT-GTGGCT
71112 AATTTTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
23 6 0.16
24 16 0.42
25 1 0.03
27 15 0.39
ACGTcount: A:0.21, C:0.09, G:0.23, T:0.47
Consensus pattern (24 bp):
TTTGTCAAAAATTGTGGCTTGTTG
Found at i:72614 original size:3 final size:3
Alignment explanation
Indices: 72606--72637 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
72596 CATTAAGACC
*
72606 TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
72638 GATTCCAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:76831 original size:28 final size:28
Alignment explanation
Indices: 76800--76853 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
76790 TTTTATAAAA
* *
76800 TTATATTTATATTAACATTTATATATTT
1 TTATAATTAGATTAACATTTATATATTT
* *
76828 TTATAATTAGATTTATATTTATATAT
1 TTATAATTAGATTAACATTTATATAT
76854 AAAAAACACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (28 bp):
TTATAATTAGATTAACATTTATATATTT
Found at i:77262 original size:23 final size:22
Alignment explanation
Indices: 77231--77366 Score: 78
Period size: 23 Copynumber: 5.9 Consensus size: 22
77221 AAATATAATT
*
77231 ATATGAATATAATATATATAAA
1 ATATAAATATAATATATATAAA
**
77253 ATATTAAATATTTTATATAATATAA
1 ATA-TAAATATAATATAT-ATA-AA
* * * * *
77278 ATATATATTTTAAAATTTATATA
1 ATATA-AATATAATATATATAAA
* *
77301 ATATAAATTATTAATATAAAAAAA
1 ATATAAA-TA-TAATATATATAAA
*
77325 TATATAAATATAA-ATCTA-AAA
1 -ATATAAATATAATATATATAAA
77346 TATATAAATATATATATATAT
1 -ATATAAATATA-ATATATAT
77367 TATATAGAAT
Statistics
Matches: 84, Mismatches: 20, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
21 15 0.18
22 8 0.10
23 25 0.30
24 18 0.21
25 18 0.21
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.42
Consensus pattern (22 bp):
ATATAAATATAATATATATAAA
Found at i:77320 original size:29 final size:29
Alignment explanation
Indices: 77266--77366 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 29
77256 TTAAATATTT
* * *
77266 TATATAATATAAA-TATATATTTTAAAATT
1 TATATAATATAAATTAT-TAATATAAAATA
*
77295 TATATAATATAAATTATTAATATAAAAAAA
1 TATATAATATAAATTATTAATAT-AAAATA
*
77325 TATATAAATATAAATCTA-AAATATATAAATA
1 TATAT-AATATAAAT-TATTAATATA-AAATA
77356 TATATATATAT
1 TATATA-ATAT
77367 TATATAGAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
29 17 0.28
30 14 0.23
31 27 0.45
32 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (29 bp):
TATATAATATAAATTATTAATATAAAATA
Found at i:77428 original size:2 final size:2
Alignment explanation
Indices: 77421--77452 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
77411 TTTATAATTT
77421 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
77453 CACACACACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:77829 original size:5 final size:5
Alignment explanation
Indices: 77819--77855 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
77809 ATTTTTATTA
* *
77819 TAATT TAATT TAATT TAATT TAATT AAATT TGATT TA
1 TAATT TAATT TAATT TAATT TAATT TAATT TAATT TA
77856 TCAATACTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (5 bp):
TAATT
Found at i:78881 original size:74 final size:75
Alignment explanation
Indices: 78793--78941 Score: 255
Period size: 74 Copynumber: 2.0 Consensus size: 75
78783 TATATATATA
78793 TATATATGGGACCTTATTTCATTAAATTCGAATGCAAGATA-TTTGACAACTTGCTAATATGATA
1 TATATATGGGACCTTATTTCATTAAATTCGAATGCAAGATATTTTGACAACTTGCTAATATGATA
78857 AAATAATTTT
66 AAATAATTTT
* *
78867 TATATATGGGACCTTATTTCATTAAATTCGAATGCAGGATATTTTTACAACTTGCTAATATGATA
1 TATATATGGGACCTTATTTCATTAAATTCGAATGCAAGATATTTTGACAACTTGCTAATATGATA
* *
78932 GAATAGTTTT
66 AAATAATTTT
78942 CTTTGCAAAG
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
74 40 0.57
75 30 0.43
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (75 bp):
TATATATGGGACCTTATTTCATTAAATTCGAATGCAAGATATTTTGACAACTTGCTAATATGATA
AAATAATTTT
Found at i:81729 original size:2 final size:2
Alignment explanation
Indices: 81722--81747 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
81712 ATTTTATTGA
81722 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
81748 GTAGAGTCCT
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:86332 original size:17 final size:17
Alignment explanation
Indices: 86312--86351 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
86302 ATATGGATGA
* *
86312 ATATTCGATATTAATAT
1 ATATTCAATATCAATAT
86329 ATATTCAATATCAATAT
1 ATATTCAATATCAATAT
86346 AT-TTCA
1 ATATTCA
86352 TTTTTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (17 bp):
ATATTCAATATCAATAT
Found at i:91782 original size:16 final size:15
Alignment explanation
Indices: 91761--91793 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
91751 ATATTTGATA
91761 TAAAAAATTATATATT
1 TAAAAAATTATAT-TT
91777 TAAAAAATTATATTT
1 TAAAAAATTATATTT
91792 TA
1 TA
91794 TAATTATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAAAAATTATATTT
Found at i:92118 original size:13 final size:13
Alignment explanation
Indices: 92102--92146 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
92092 ATATATATAT
92102 ATATTATATTTAA
1 ATATTATATTTAA
*
92115 ATATTTATAATTTAT
1 ATA-TTAT-ATTTAA
92130 AT-TTATATTTAA
1 ATATTATATTTAA
92142 ATATT
1 ATATT
92147 TATCAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 7 0.26
13 9 0.33
14 4 0.15
15 7 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATATTATATTTAA
Found at i:92118 original size:21 final size:21
Alignment explanation
Indices: 92092--92134 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
92082 TAGCATATAC
92092 ATATATATATATATTATATTTAA
1 ATATATATA-AT-TTATATTTAA
*
92115 ATATTTATAATTTATATTTA
1 ATATATATAATTTATATTTA
92135 TATTTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 2 0.11
23 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATATATAATTTATATTTAA
Found at i:92138 original size:6 final size:6
Alignment explanation
Indices: 92093--92140 Score: 51
Period size: 6 Copynumber: 7.3 Consensus size: 6
92083 AGCATATACA
*
92093 TATATA TATATAT TATATT TAAATATT TATAATT TATATT TATATT TA
1 TATATT TATAT-T TATATT T--ATATT TAT-ATT TATATT TATATT TA
92141 AATATTTATC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
6 20 0.54
7 11 0.30
8 6 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (6 bp):
TATATT
Found at i:92337 original size:22 final size:23
Alignment explanation
Indices: 92311--92355 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
92301 GATGATATTA
* *
92311 AAAAAATTAAAATATAAATTTTT
1 AAAAGATTAAAATAAAAATTTTT
*
92334 AAAAGGTTAAAATAAAAATTTT
1 AAAAGATTAAAATAAAAATTTT
92356 ACCACTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
AAAAGATTAAAATAAAAATTTTT
Found at i:93046 original size:17 final size:17
Alignment explanation
Indices: 93010--93042 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
93000 AATATTCATG
93010 TTTAAAATTTTAATATA
1 TTTAAAATTTTAATATA
*
93027 TTTAATATTTT-ATATA
1 TTTAAAATTTTAATATA
93043 ATTTTTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTAAAATTTTAATATA
Found at i:93641 original size:6 final size:6
Alignment explanation
Indices: 93624--93697 Score: 69
Period size: 6 Copynumber: 12.2 Consensus size: 6
93614 TAATATTAAA
* * *
93624 AAATTT -AATTT AAATTT AAATTT AAATTT AAACTT AAATAT AAATAATA
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAAT--TT
* * *
93673 AAATTT GAAGTT AAATTT AATTTT A
1 AAATTT AAATTT AAATTT AAATTT A
93698 TTAAATAAAT
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
5 5 0.09
6 45 0.83
8 4 0.07
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (6 bp):
AAATTT
Found at i:93754 original size:19 final size:19
Alignment explanation
Indices: 93691--93775 Score: 55
Period size: 19 Copynumber: 4.3 Consensus size: 19
93681 AGTTAAATTT
*
93691 AATTT-TATTAAATAAATAA
1 AATTTATATTTAA-AAATAA
* * *
93710 AATTAATTATGTAAAATTAAA
1 AATTTA-TATTTAAAAAT-AA
** *
93731 TAATTTATATTTTTAAATTA
1 -AATTTATATTTAAAAATAA
*
93751 AATTCATATTTAAAAATAA
1 AATTTATATTTAAAAATAA
93770 AATTTA
1 AATTTA
93776 ATTAAGTTTA
Statistics
Matches: 47, Mismatches: 15, Indels: 8
0.67 0.21 0.11
Matches are distributed among these distances:
19 24 0.51
20 4 0.09
21 14 0.30
22 5 0.11
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (19 bp):
AATTTATATTTAAAAATAA
Found at i:94850 original size:14 final size:14
Alignment explanation
Indices: 94831--94877 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
94821 AATACGATGA
*
94831 AAATATAAAAATTT
1 AAATATAAAATTTT
94845 AAATATAATAATTTT
1 AAATATAA-AATTTT
* *
94860 AAATTTTAAATTTT
1 AAATATAAAATTTT
94874 AAAT
1 AAAT
94878 TTTAATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AAATATAAAATTTT
Found at i:94866 original size:7 final size:7
Alignment explanation
Indices: 94854--94890 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
94844 TAAATATAAT
94854 AATTTTA
1 AATTTTA
94861 AATTTTA
1 AATTTTA
94868 AATTTTA
1 AATTTTA
94875 AATTTT-
1 AATTTTA
94881 AA-TTTA
1 AATTTTA
94887 AATT
1 AATT
94891 ATTTTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 3 0.11
6 4 0.14
7 21 0.75
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AATTTTA
Found at i:94999 original size:13 final size:13
Alignment explanation
Indices: 94981--95013 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
94971 TTTTAAATTG
*
94981 TTTATTCTTAATA
1 TTTATTATTAATA
94994 TTTATTATTAATA
1 TTTATTATTAATA
95007 TTTATTA
1 TTTATTA
95014 AAATTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTATTATTAATA
Found at i:95232 original size:13 final size:13
Alignment explanation
Indices: 95214--95254 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
95204 CACCCTTCAT
95214 TATTAATATTTAC
1 TATTAATATTTAC
*
95227 TATTAATATTCA-
1 TATTAATATTTAC
*
95239 TAATAATATTTAC
1 TATTAATATTTAC
95252 TAT
1 TAT
95255 ACCTAATGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (13 bp):
TATTAATATTTAC
Found at i:95399 original size:2 final size:2
Alignment explanation
Indices: 95394--95420 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
95384 ACGGCTCTCT
95394 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
95421 GGGTTCCAGT
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:101748 original size:2 final size:2
Alignment explanation
Indices: 101741--101781 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
101731 TTGAGTGGCT
101741 TA TA TA 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 TA TA TA T
101782 GAGCTTAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:101911 original size:19 final size:19
Alignment explanation
Indices: 101863--101913 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
101853 TACAAATTGG
*
101863 ATTGAGTTAAATTTGTCGA
1 ATTGAGTTAAGTTTGTCGA
101882 ATTGAGTTAAGTTTGTCGA
1 ATTGAGTTAAGTTTGTCGA
101901 ATTGAGTTAAGTT
1 ATTGAGTTAAGTT
101914 CGTTGATCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.29, C:0.04, G:0.24, T:0.43
Consensus pattern (19 bp):
ATTGAGTTAAGTTTGTCGA
Found at i:102356 original size:3 final size:3
Alignment explanation
Indices: 102348--102373 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
102338 GCTCATATTG
102348 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
102374 GACTTTAGAG
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:102533 original size:17 final size:18
Alignment explanation
Indices: 102493--102534 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
102483 TCATGAGTAA
* *
102493 AATAATATTAATTTAATT
1 AATAAAATTAATTTAAAT
102511 AA-AAAATTAA-TTAAAT
1 AATAAAATTAATTTAAAT
102527 AATAAAAT
1 AATAAAAT
102535 ATATTTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 7 0.33
17 12 0.57
18 2 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAAAATTAATTTAAAT
Found at i:103114 original size:2 final size:2
Alignment explanation
Indices: 103107--103163 Score: 66
Period size: 2 Copynumber: 30.0 Consensus size: 2
103097 CTTGGAGATA
*
103107 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT -T AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
103147 AT AC A- AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
103164 TTTAAGGGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
1 3 0.06
2 45 0.94
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:103997 original size:23 final size:23
Alignment explanation
Indices: 103936--103997 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
103926 CATCATGTTA
*
103936 TATTTAAGATATTATTTTTATATT
1 TATTTAA-ATATTATTTTTATATG
103960 TA-TTAAATATATATTTTTATATCG
1 TATTTAAATAT-TATTTTTATAT-G
103984 TATTTAAA-ATTATT
1 TATTTAAATATTATT
103998 AAATTTATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
22 4 0.12
23 19 0.56
24 6 0.18
25 5 0.15
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTTAAATATTATTTTTATATG
Found at i:106488 original size:2 final size:2
Alignment explanation
Indices: 106481--106506 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
106471 ACAAAAGCTA
106481 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
106507 GCAAATGTTT
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:107695 original size:2 final size:2
Alignment explanation
Indices: 107688--107718 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
107678 TCATCCATTC
107688 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
107719 ATTGAACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:112178 original size:2 final size:2
Alignment explanation
Indices: 112171--112212 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
112161 AGAAATTCCC
112171 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
112213 ATCTGTAACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:112713 original size:3 final size:3
Alignment explanation
Indices: 112705--112735 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
112695 AGGTCTTCCT
112705 GAA GAA GAA GAA GAA GAA GAA GAA GAA -AA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
112736 TGGCTGAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:112933 original size:18 final size:20
Alignment explanation
Indices: 112912--112951 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
112902 TTATTATTTT
112912 ATATATTTATT-T-ATATAA
1 ATATATTTATTATGATATAA
*
112930 ATATTTTTATTATGATATAA
1 ATATATTTATTATGATATAA
112950 AT
1 AT
112952 TTATAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 1 0.05
20 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
ATATATTTATTATGATATAA
Found at i:112939 original size:26 final size:26
Alignment explanation
Indices: 112887--112936 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
112877 TATAAATTGG
* *
112887 TATATTTATATTATATTATTATTTTA
1 TATATTTATATTATATAAATATTTTA
112913 TATATTTAT-TTATATAAATATTTT
1 TATATTTATATTATATAAATATTTT
112937 TATTATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (26 bp):
TATATTTATATTATATAAATATTTTA
Found at i:113245 original size:14 final size:13
Alignment explanation
Indices: 113225--113258 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
113215 TTATTATTTA
113225 AAATATAATTAAT
1 AAATATAATTAAT
*
113238 ATAATATATTTAAT
1 A-AATATAATTAAT
113252 AAATATA
1 AAATATA
113259 TTACATTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAATATAATTAAT
Found at i:113343 original size:18 final size:19
Alignment explanation
Indices: 113315--113372 Score: 66
Period size: 18 Copynumber: 3.1 Consensus size: 19
113305 AAATTTTAAA
113315 TATAGATATAATATATTTAT
1 TATA-ATATAATATATTTAT
*
113335 TA-AATATAATATATTAAT
1 TATAATATAATATATTTAT
*
113353 TATATTATAA-ATATTATAT
1 TATAATATAATATATT-TAT
113372 T
1 T
113373 TATTAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 21 0.64
19 10 0.30
20 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TATAATATAATATATTTAT
Found at i:113351 original size:14 final size:13
Alignment explanation
Indices: 113324--113382 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 13
113314 ATATAGATAT
*
113324 AATATATTTATTA
1 AATATAATTATTA
113337 AATATAATATATTA
1 AATATAAT-TATTA
*
113351 ATTAT-ATTA-TA
1 AATATAATTATTA
113362 AATATTATATTTATTA
1 AATA-TA-A-TTATTA
113378 AATAT
1 AATAT
113383 GTTATATATG
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
11 5 0.14
12 3 0.08
13 9 0.24
14 10 0.27
15 4 0.11
16 6 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AATATAATTATTA
Found at i:113354 original size:4 final size:5
Alignment explanation
Indices: 113321--113438 Score: 56
Period size: 5 Copynumber: 24.6 Consensus size: 5
113311 TAAATATAGA
* * * *
113321 TATAA TATAT T-TAT TA-AA TATAA TATAT TA-AT TATAT TATA- AATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * *
113367 TATAT T-TAT TA-AA TATGT TATAT ATGTATT TATAT T-T-T TATAT TATATT
1 TATAT TATAT TATAT TATAT TATAT -TATA-T TATAT TATAT TATAT TATA-T
* *
113416 TAAAT TA-AT TATTT TAATAT TAT
1 TATAT TATAT TATAT T-ATAT TAT
113439 TTGCATCCTA
Statistics
Matches: 86, Mismatches: 14, Indels: 26
0.68 0.11 0.21
Matches are distributed among these distances:
3 2 0.02
4 27 0.31
5 42 0.49
6 14 0.16
7 1 0.01
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:113358 original size:23 final size:23
Alignment explanation
Indices: 113310--113377 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
113300 ACTTAAAATT
*
113310 TTAAATATAGATATAATATATT-TA
1 TTAAATATA-ATATATTA-ATTATA
113334 TTAAATATAATATATTAATTATA
1 TTAAATATAATATATTAATTATA
* *
113357 TTATAA-ATATTATATTTATTA
1 TTA-AATATAATATATTAATTA
113378 AATATGTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
22 3 0.08
23 25 0.64
24 11 0.28
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (23 bp):
TTAAATATAATATATTAATTATA
Found at i:113376 original size:18 final size:19
Alignment explanation
Indices: 113321--113389 Score: 74
Period size: 18 Copynumber: 3.8 Consensus size: 19
113311 TAAATATAGA
* *
113321 TATAATATATT-TATTAAA
1 TATAATATATTATATTTAT
113339 TATAATATATTA-ATTATAT
1 TATAATATATTATATT-TAT
113358 TATAA-ATATTATATTTAT
1 TATAATATATTATATTTAT
*
113376 TA-AATATGTTATAT
1 TATAATATATTATAT
113390 ATGTATTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
17 2 0.05
18 33 0.75
19 9 0.20
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (19 bp):
TATAATATATTATATTTAT
Found at i:113376 original size:27 final size:28
Alignment explanation
Indices: 113346--113420 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 28
113336 AAATATAATA
113346 TATTAATTATATTATAAATA-TTATATT
1 TATTAATTATATTATAAATATTTATATT
* * *
113373 TATTAAATATGTTATATATGTATTTATATT
1 TATTAATTATATTATA-A-ATATTTATATT
113403 T-TTATATTATATT-TAAAT
1 TATTA-ATTATATTATAAAT
113421 TAATTATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
27 15 0.39
28 2 0.05
29 7 0.18
30 14 0.37
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (28 bp):
TATTAATTATATTATAAATATTTATATT
Found at i:113427 original size:20 final size:18
Alignment explanation
Indices: 113327--113438 Score: 62
Period size: 18 Copynumber: 6.4 Consensus size: 18
113317 TAGATATAAT
* *
113327 ATATT-TATTAAATATAA
1 ATATTATATTATATTTAA
113344 TATATTA-ATTATATTATAA
1 -ATATTATATTATATT-TAA
113363 ATATTATATT-TA-TTAA
1 ATATTATATTATATTTAA
*
113379 ATATGTTATATATGTATTTATA
1 ATA--TTATAT-TATATTTA-A
* *
113401 TTTTTATATTATATTT-A
1 ATATTATATTATATTTAA
113418 A-ATTA-ATTAT-TTT-A
1 ATATTATATTATATTTAA
113432 ATATTAT
1 ATATTAT
113439 TTGCATCCTA
Statistics
Matches: 76, Mismatches: 7, Indels: 24
0.71 0.07 0.22
Matches are distributed among these distances:
14 5 0.07
15 9 0.12
16 9 0.12
17 2 0.03
18 25 0.33
19 13 0.17
20 8 0.11
21 3 0.04
22 2 0.03
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
ATATTATATTATATTTAA
Found at i:113440 original size:43 final size:43
Alignment explanation
Indices: 113326--113440 Score: 121
Period size: 43 Copynumber: 2.7 Consensus size: 43
113316 ATAGATATAA
* *
113326 TATATTTATTAAATA--TAATATATTAATTATATTATAAATAT
1 TATATTTATTAAATATGTTATATATTATTTATATTATAAATAT
**
113367 TATATTTATTAAATATGTTATATATGTATTTATATT-TTTATAT
1 TATATTTATTAAATATGTTATATAT-TATTTATATTATAAATAT
* *
113410 TATATTTAAATTAATTATTTTA-ATATTATTT
1 TATATTT--ATTAAATATGTTATATATTATTT
113441 GCATCCTAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
41 15 0.24
43 24 0.38
44 13 0.21
45 11 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (43 bp):
TATATTTATTAAATATGTTATATATTATTTATATTATAAATAT
Found at i:116546 original size:24 final size:24
Alignment explanation
Indices: 116514--116563 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
116504 ATAGGATGGA
*
116514 TTCTGTCATCTTGTTTTCTAACCC
1 TTCTGTCATCTTCTTTTCTAACCC
116538 TTCTGTCATCTTCTTTTCTAACCC
1 TTCTGTCATCTTCTTTTCTAACCC
116562 TT
1 TT
116564 TTTTTTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.30, G:0.06, T:0.52
Consensus pattern (24 bp):
TTCTGTCATCTTCTTTTCTAACCC
Found at i:118376 original size:21 final size:22
Alignment explanation
Indices: 118339--118392 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
118329 ATTTCCCTTT
118339 TTTTTAAAGAAT-CATATAA-AA
1 TTTTTAAA-AATACATATAATAA
*
118360 TTTTTAAAAATATATATAATAA
1 TTTTTAAAAATACATATAATAA
*
118382 -ATTTAAAAATA
1 TTTTTAAAAATA
118393 AAAACTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 3 0.10
21 24 0.83
22 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
TTTTTAAAAATACATATAATAA
Found at i:122634 original size:2 final size:2
Alignment explanation
Indices: 122627--122661 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
122617 TGAATCCTCA
122627 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
122662 GGCTTAAGCC
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:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:124150 original size:22 final size:22
Alignment explanation
Indices: 124095--124155 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
124085 ATTGATATAA
124095 AATTTTTATTTTTTATAAAATT
1 AATTTTTATTTTTTATAAAATT
* *
124117 -ATCACTTGATTTTTT-TAAAATT
1 AAT--TTTTATTTTTTATAAAATT
124139 AATTTTTAATTTTTTAT
1 AATTTTT-ATTTTTTAT
124156 CTTGATATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
21 4 0.13
22 14 0.47
23 12 0.40
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (22 bp):
AATTTTTATTTTTTATAAAATT
Found at i:124330 original size:2 final size:2
Alignment explanation
Indices: 124323--124361 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
124313 TTATATTTAC
* *
124323 AT AT AT AT AT AT AT AT AG AT AT AG AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
124362 CTTGTTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (2 bp):
AT
Found at i:124588 original size:24 final size:23
Alignment explanation
Indices: 124521--124589 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 23
124511 TAAAAAATTT
*
124521 AAAAATTA-TAATTATAATTTTA
1 AAAAAATATTAATTATAATTTTA
* *
124543 AAAAAATTATGTTATTAT-ATTTTC
1 AAAAAA-TAT-TAATTATAATTTTA
124567 AAAAAATATTAATATATAATTTT
1 AAAAAATATTAAT-TATAATTTT
124590 TTTGTTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 16 0.42
25 6 0.16
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (23 bp):
AAAAAATATTAATTATAATTTTA
Found at i:125091 original size:18 final size:19
Alignment explanation
Indices: 125065--125116 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
125055 TTTACATATC
*
125065 TATATTATTTTTATATT-A
1 TATAATATTTTTATATTAA
*
125083 TATAATA-TTTTATTTTAA
1 TATAATATTTTTATATTAA
*
125101 TTTAATTATTTTTATA
1 TATAA-TATTTTTATA
125117 AGAAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 8 0.30
18 11 0.41
19 2 0.07
20 6 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATAATATTTTTATATTAA
Found at i:130155 original size:20 final size:21
Alignment explanation
Indices: 130130--130175 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
130120 CCTAGGTTTG
130130 ATTTAAAAGTTA-ATTTT-AAT
1 ATTTAAAA-TTATATTTTAAAT
130150 ATTT-AAATTATATTTTAAAT
1 ATTTAAAATTATATTTTAAAT
130170 ATTTAA
1 ATTTAA
130176 TTATTAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 3 0.13
19 8 0.35
20 11 0.48
21 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
ATTTAAAATTATATTTTAAAT
Found at i:130195 original size:31 final size:30
Alignment explanation
Indices: 130131--130196 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 30
130121 CTAGGTTTGA
130131 TTTAAAAGTTAATTTTAATATTTAAATTATAT
1 TTTAAAAGTTAATTTTAATATTT--ATTATAT
*
130163 TTTAAATATTTAATTATTAATATTT-TTATAT
1 TTTAAA-AGTTAATT-TTAATATTTATTATAT
130194 TTT
1 TTT
130197 TATAATTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
31 9 0.29
32 6 0.19
33 7 0.23
34 9 0.29
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (30 bp):
TTTAAAAGTTAATTTTAATATTTATTATAT
Found at i:130800 original size:17 final size:18
Alignment explanation
Indices: 130765--130800 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
130755 TAATATAATT
130765 TTTTAAATATATAAAAAA
1 TTTTAAATATATAAAAAA
*
130783 TTTTAAATA-ATTAAAAA
1 TTTTAAATATATAAAAAA
130800 T
1 T
130801 ACATATATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTTAAATATATAAAAAA
Found at i:131217 original size:2 final size:2
Alignment explanation
Indices: 131210--131235 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
131200 TAAGCCAACA
131210 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
131236 TAACAAAAAT
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:131492 original size:25 final size:26
Alignment explanation
Indices: 131467--131562 Score: 83
Period size: 25 Copynumber: 3.7 Consensus size: 26
131457 GAATTATTAT
*
131467 TTAATAATAAAAATAATATTTTTAT-
1 TTAATAATAAAAATAATATTTTAATA
* * *
131492 TTAAATTTAATTATAAA-AATATGTAAATA
1 TT-AA--TAA-TAAAAATAATATTTTAATA
131521 TTAAT-ATAAAAATAATATTTTAATA
1 TTAATAATAAAAATAATATTTTAATA
131546 TT-ATAATAAATAATAAT
1 TTAATAATAAA-AATAAT
131563 TTTAGAGGTT
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
24 7 0.12
25 20 0.36
26 9 0.16
28 13 0.23
29 7 0.12
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (26 bp):
TTAATAATAAAAATAATATTTTAATA
Found at i:131528 original size:22 final size:22
Alignment explanation
Indices: 131493--131534 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
131483 TATTTTTATT
131493 TAAATTTAATTATAAAAATATG
1 TAAATTTAATTATAAAAATATG
131515 TAAATATTAA-TATAAAAATA
1 TAAAT-TTAATTATAAAAATA
131535 ATATTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAATTTAATTATAAAAATATG
Found at i:135355 original size:272 final size:264
Alignment explanation
Indices: 134869--135355 Score: 709
Period size: 272 Copynumber: 1.8 Consensus size: 264
134859 AGCAGATCCA
* *
134869 AATTAATAAGCAAATAAATGTAGCCAAAAGTAACAGCTGATAAAGCAACCATGAAATTTTCTCGC
1 AATTAATAAGCAAATAAATGTAGCCAAAAGTAACAGCTAAAAAAGCAACCATGAAATTTTCTCGC
134934 ATTTAAGAACAGATCTAAGAAAATTAAAAGAACCCAGATCATAAAATGACCTCAATTAATACAAA
66 ATTTAAGAACAGATCTAAGAAAATTAAAAGAACCCAGATCATAAAATGACCTCAATTAATACAAA
* * * * *
134999 AAACAGCAAATTTTTAAAGAAACCCGATCATTGATCACATTTGATCCTCCATCGAATGACACTGA
131 AAACA-CAAATTTTTAAAGAAACACGACCATTGATCACATTTGATCATCCATCAAAAGACACTGA
135064 AAAATTGGAAAACTTTGACTAGAATAAATCAATCAAATTCCAGATAGAGAAATAGAAACACACAA
195 AAAATTGGAAAACTTTGACTAGAATAAATCAATCAAATTCCAGATAGAGAAATAGAAACACACAA
135129 ATTCC
260 ATTCC
*
135134 AATTAATAAGCAAATAAATGTAGCC-AAAGTAATAGCTAAAAAAGCAACCCAAAAACATGAAATT
1 AATTAATAAGCAAATAAATGTAGCCAAAAGTAACAGCTAAAAAAGCAA--C-----CATGAAATT
135198 TTCTCGCATTTAAGAACAGATCTAAGAAACA-TAAGAA-ATACCCAGATCATAAAATGACCTCAA
59 TTCTCGCATTTAAGAACAGATCTAAGAAA-ATTAA-AAGA-ACCCAGATCATAAAATGACCTCAA
135261 TTAATACAGAAAAAC-CAAATTTTTCAAAGAAACACGACCATTGATCACATTTGATCATCCCA-C
121 TTAATACA-AAAAACACAAATTTTT-AAAGAAACACGACCATTGATCACATTTGATCAT-CCATC
135324 AAAAGACACTG-AAAA-TGAGAAAACTTTTGACT
183 AAAAGACACTGAAAAATTG-GAAAAC-TTTGACT
135356 TACAAGTTGA
Statistics
Matches: 199, Mismatches: 8, Indels: 23
0.87 0.03 0.10
Matches are distributed among these distances:
264 19 0.10
265 25 0.13
266 1 0.01
270 2 0.01
271 61 0.31
272 82 0.41
273 9 0.05
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.23
Consensus pattern (264 bp):
AATTAATAAGCAAATAAATGTAGCCAAAAGTAACAGCTAAAAAAGCAACCATGAAATTTTCTCGC
ATTTAAGAACAGATCTAAGAAAATTAAAAGAACCCAGATCATAAAATGACCTCAATTAATACAAA
AAACACAAATTTTTAAAGAAACACGACCATTGATCACATTTGATCATCCATCAAAAGACACTGAA
AAATTGGAAAACTTTGACTAGAATAAATCAATCAAATTCCAGATAGAGAAATAGAAACACACAAA
TTCC
Found at i:135852 original size:15 final size:14
Alignment explanation
Indices: 135832--135862 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
135822 TAATAACATC
135832 AAAATAATATATTTA
1 AAAATAATAT-TTTA
135847 AAAATAATATTTTA
1 AAAATAATATTTTA
135861 AA
1 AA
135863 CTCTATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAATAATATTTTA
Found at i:135946 original size:19 final size:19
Alignment explanation
Indices: 135922--135987 Score: 55
Period size: 19 Copynumber: 3.3 Consensus size: 19
135912 AATAACAATT
135922 TAATATTTATAATAATTAA
1 TAATATTTATAATAATTAA
*
135941 TAATATACTTAATAATATATTTA
1 TAATAT--TT-ATAATA-ATTAA
*
135964 -AATA-TTAGCAATAATTAA
1 TAATATTTA-TAATAATTAA
135982 TAATAT
1 TAATAT
135988 AACATTTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 13
0.70 0.06 0.25
Matches are distributed among these distances:
18 5 0.14
19 16 0.43
21 2 0.05
22 10 0.27
23 4 0.11
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (19 bp):
TAATATTTATAATAATTAA
Found at i:136104 original size:12 final size:12
Alignment explanation
Indices: 136089--136125 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
136079 AATTATATAT
136089 TACATTTAATAA
1 TACATTTAATAA
136101 TACATATTAA-AA
1 TACAT-TTAATAA
136113 TAC-TTTAATAA
1 TACATTTAATAA
136124 TA
1 TA
136126 ATATATCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
10 4 0.17
11 5 0.22
12 10 0.43
13 4 0.17
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (12 bp):
TACATTTAATAA
Found at i:138584 original size:73 final size:69
Alignment explanation
Indices: 138498--138710 Score: 177
Period size: 74 Copynumber: 2.9 Consensus size: 69
138488 TAATACCAAT
*
138498 CTTAAAAATTTTAAGATCTATAATCAAATTAAAAAATAAATATTAAATTTTTATAAAT-AAAATT
1 CTTAAAAA-TTTAA-A-CTATAATCAAATTAAAAAATAAATATTAAATTTTTACAAATCAAAA-T
138562 AAATTACA
62 AAATTACA
* * *
138570 CAATTAAAAATTTAAAC-ACATATCATACTTAATAAAA-AACACATTTAAATTTTTACAAATCAA
1 C--TTAAAAATTTAAACTATA-ATCA-AATTAA-AAAATAA-ATA-TTAAATTTTTACAAATCAA
*
138633 AATAAATTATA
59 AATAAATTACA
* *
138644 CTCTAAAAATTTAAACCCATATAATCAAA-TAAAAAATAAAT-TTAAACTTCTACAAAT-AGAAA
1 CT-TAAAAATTTAAA--C-TATAATCAAATTAAAAAATAAATATTAAATTTTTACAAATCA-AAA
138706 TAAAT
61 TAAAT
138711 AATAACTCTA
Statistics
Matches: 116, Mismatches: 10, Indels: 31
0.74 0.06 0.20
Matches are distributed among these distances:
70 3 0.03
71 27 0.23
72 10 0.09
73 28 0.24
74 36 0.31
75 6 0.05
76 4 0.03
77 2 0.02
ACGTcount: A:0.56, C:0.10, G:0.01, T:0.33
Consensus pattern (69 bp):
CTTAAAAATTTAAACTATAATCAAATTAAAAAATAAATATTAAATTTTTACAAATCAAAATAAAT
TACA
Found at i:138698 original size:71 final size:70
Alignment explanation
Indices: 138516--138721 Score: 225
Period size: 71 Copynumber: 2.8 Consensus size: 70
138506 TTTTAAGATC
* *
138516 TATAATCAAATTAAAAAATAAATATTAAATTTTTATAAATAAAATTAAATTACACAAT-TAAAAA
1 TATAATCAAA-TAAAAAATAAAT-TTAAATTTTTACAAATAAAA-TAAATTATAC--TCTAAAAA
138580 TTTAAACACA
61 TTTAAACACA
* * * *
138590 TATCATACTTAATAAAAAACACATTTAAATTTTTACAAATCAAAATAAATTATACTCTAAAAATT
1 TATAAT-C-AAATAAAAAATAAATTTAAATTTTTACAAAT-AAAATAAATTATACTCTAAAAATT
*
138655 TAAACCCA
63 TAAACACA
* * *
138663 TATAATCAAATAAAAAATAAATTTAAACTTCTACAAATAGAAATAAATAATAACTCTAA
1 TATAATCAAATAAAAAATAAATTTAAATTTTTACAAATA-AAATAAATTAT-ACTCTAA
138722 TCAAATTAAT
Statistics
Matches: 112, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
70 1 0.01
71 36 0.32
72 9 0.08
73 20 0.18
74 29 0.26
75 15 0.13
76 2 0.02
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (70 bp):
TATAATCAAATAAAAAATAAATTTAAATTTTTACAAATAAAATAAATTATACTCTAAAAATTTAA
ACACA
Found at i:138778 original size:23 final size:24
Alignment explanation
Indices: 138724--138778 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
138714 AACTCTAATC
*
138724 AAATT-AATCTTATAAATAAAAAT
1 AAATTAAACCTTATAAATAAAAAT
*
138747 AAATCAAACCTTA-AAAT-AAAAT
1 AAATTAAACCTTATAAATAAAAAT
138769 AAAATTAAAC
1 -AAATTAAAC
138779 TACCTACAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 5 0.19
23 16 0.59
24 6 0.22
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (24 bp):
AAATTAAACCTTATAAATAAAAAT
Found at i:139542 original size:23 final size:22
Alignment explanation
Indices: 139506--139577 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
139496 ATAGAATAAT
139506 TAATATTTTT-ATTTATT-AATA
1 TAAT-TTTTTAATTTATTAAATA
139527 TAAATTTTTTAAATTTAATTAAATA
1 T-AATTTTTT-AATTT-ATTAAATA
* * *
139552 TTATTTTTTATTTTATTAAAAA
1 TAATTTTTTAATTTATTAAATA
139574 TAAT
1 TAAT
139578 AATTAATACA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
21 6 0.14
22 13 0.31
23 8 0.19
24 10 0.24
25 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TAATTTTTTAATTTATTAAATA
Found at i:139645 original size:18 final size:18
Alignment explanation
Indices: 139600--139645 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
139590 ATTTCAATAC
*
139600 TATTTTTTTAATTTAATT
1 TATTTTTTAAATTTAATT
* * *
139618 AATTTCTTAAATTTATTT
1 TATTTTTTAAATTTAATT
139636 TATTTTTTAA
1 TATTTTTTAA
139646 TAATTAATAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTTTTTAAATTTAATT
Found at i:141027 original size:15 final size:14
Alignment explanation
Indices: 141007--141037 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
140997 TAATAACATC
141007 AAAATAATATATTTA
1 AAAATAATAT-TTTA
141022 AAAATAATATTTTA
1 AAAATAATATTTTA
141036 AA
1 AA
141038 CTCTATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAATAATATTTTA
Found at i:141120 original size:19 final size:19
Alignment explanation
Indices: 141096--141161 Score: 55
Period size: 19 Copynumber: 3.3 Consensus size: 19
141086 AATAACAATT
141096 TAATATTTATAATAATTAA
1 TAATATTTATAATAATTAA
*
141115 TAATATACTTAATAATATATTTA
1 TAATAT--TT-ATAATA-ATTAA
*
141138 -AATA-TTAGCAATAATTAA
1 TAATATTTA-TAATAATTAA
141156 TAATAT
1 TAATAT
141162 AACATTTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 13
0.70 0.06 0.25
Matches are distributed among these distances:
18 5 0.14
19 16 0.43
21 2 0.05
22 10 0.27
23 4 0.11
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (19 bp):
TAATATTTATAATAATTAA
Found at i:141278 original size:12 final size:12
Alignment explanation
Indices: 141263--141299 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
141253 AATTATATAT
141263 TACATTTAATAA
1 TACATTTAATAA
141275 TACATATTAA-AA
1 TACAT-TTAATAA
141287 TAC-TTTAATAA
1 TACATTTAATAA
141298 TA
1 TA
141300 ATATATCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
10 4 0.17
11 5 0.22
12 10 0.43
13 4 0.17
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (12 bp):
TACATTTAATAA
Found at i:143759 original size:73 final size:69
Alignment explanation
Indices: 143673--143885 Score: 177
Period size: 74 Copynumber: 2.9 Consensus size: 69
143663 TAATACCAAT
*
143673 CTTAAAAATTTTAAGATCTATAATCAAATTAAAAAATAAATATTAAATTTTTATAAAT-AAAATT
1 CTTAAAAA-TTTAA-A-CTATAATCAAATTAAAAAATAAATATTAAATTTTTACAAATCAAAA-T
143737 AAATTACA
62 AAATTACA
* * *
143745 CAATTAAAAATTTAAAC-ACATATCATACTTAATAAAA-AACACATTTAAATTTTTACAAATCAA
1 C--TTAAAAATTTAAACTATA-ATCA-AATTAA-AAAATAA-ATA-TTAAATTTTTACAAATCAA
*
143808 AATAAATTATA
59 AATAAATTACA
* *
143819 CTCTAAAAATTTAAACCCATATAATCAAA-TAAAAAATAAAT-TTAAACTTCTACAAAT-AGAAA
1 CT-TAAAAATTTAAA--C-TATAATCAAATTAAAAAATAAATATTAAATTTTTACAAATCA-AAA
143881 TAAAT
61 TAAAT
143886 AATAACTCTA
Statistics
Matches: 116, Mismatches: 10, Indels: 31
0.74 0.06 0.20
Matches are distributed among these distances:
70 3 0.03
71 27 0.23
72 10 0.09
73 28 0.24
74 36 0.31
75 6 0.05
76 4 0.03
77 2 0.02
ACGTcount: A:0.56, C:0.10, G:0.01, T:0.33
Consensus pattern (69 bp):
CTTAAAAATTTAAACTATAATCAAATTAAAAAATAAATATTAAATTTTTACAAATCAAAATAAAT
TACA
Found at i:143873 original size:71 final size:70
Alignment explanation
Indices: 143691--143896 Score: 225
Period size: 71 Copynumber: 2.8 Consensus size: 70
143681 TTTTAAGATC
* *
143691 TATAATCAAATTAAAAAATAAATATTAAATTTTTATAAATAAAATTAAATTACACAAT-TAAAAA
1 TATAATCAAA-TAAAAAATAAAT-TTAAATTTTTACAAATAAAA-TAAATTATAC--TCTAAAAA
143755 TTTAAACACA
61 TTTAAACACA
* * * *
143765 TATCATACTTAATAAAAAACACATTTAAATTTTTACAAATCAAAATAAATTATACTCTAAAAATT
1 TATAAT-C-AAATAAAAAATAAATTTAAATTTTTACAAAT-AAAATAAATTATACTCTAAAAATT
*
143830 TAAACCCA
63 TAAACACA
* * *
143838 TATAATCAAATAAAAAATAAATTTAAACTTCTACAAATAGAAATAAATAATAACTCTAA
1 TATAATCAAATAAAAAATAAATTTAAATTTTTACAAATA-AAATAAATTAT-ACTCTAA
143897 TCAAATTAAT
Statistics
Matches: 112, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
70 1 0.01
71 36 0.32
72 9 0.08
73 20 0.18
74 29 0.26
75 15 0.13
76 2 0.02
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (70 bp):
TATAATCAAATAAAAAATAAATTTAAATTTTTACAAATAAAATAAATTATACTCTAAAAATTTAA
ACACA
Found at i:143953 original size:23 final size:24
Alignment explanation
Indices: 143899--143953 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
143889 AACTCTAATC
*
143899 AAATT-AATCTTATAAATAAAAAT
1 AAATTAAACCTTATAAATAAAAAT
*
143922 AAATCAAACCTTA-AAAT-AAAAT
1 AAATTAAACCTTATAAATAAAAAT
143944 AAAATTAAAC
1 -AAATTAAAC
143954 TACCTACAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 5 0.19
23 16 0.59
24 6 0.22
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (24 bp):
AAATTAAACCTTATAAATAAAAAT
Found at i:144237 original size:24 final size:23
Alignment explanation
Indices: 144188--144258 Score: 58
Period size: 23 Copynumber: 3.1 Consensus size: 23
144178 CCATATAATC
* *
144188 AAATAAA-AAATTTAATAAA-AA
1 AAATAAATCAATTTTATAAATAA
*
144209 TAAATTAAATTAATTTTATAAATAA
1 -AAA-TAAATCAATTTTATAAATAA
*
144234 AAATAAATCATATCTTA-AAATAA
1 AAATAAATCA-ATTTTATAAATAA
144257 AA
1 AA
144259 TAACTTTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
22 3 0.07
23 18 0.44
24 18 0.44
25 2 0.05
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATAAATCAATTTTATAAATAA
Found at i:144259 original size:22 final size:21
Alignment explanation
Indices: 144205--144261 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
144195 AAATTTAATA
* * *
144205 AAAATAAATTAAATTAATTTT
1 AAAATAAAATAAATCAATCTT
144226 ATAAATAAAAATAAATCATATCTT
1 A-AAAT-AAAATAAATCA-ATCTT
144250 AAAATAAAATAA
1 AAAATAAAATAA
144262 CTTTAAACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 1 0.03
22 11 0.37
23 13 0.43
24 5 0.17
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATAAAATAAATCAATCTT
Found at i:144607 original size:23 final size:22
Alignment explanation
Indices: 144571--144642 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
144561 ATAGAATAAT
144571 TAATATTTTT-ATTTATT-AATA
1 TAAT-TTTTTAATTTATTAAATA
144592 TAAATTTTTTAAATTTAATTAAATA
1 T-AATTTTTT-AATTT-ATTAAATA
* * *
144617 TTATTTTTTATTTTATTAAAAA
1 TAATTTTTTAATTTATTAAATA
144639 TAAT
1 TAAT
144643 AATTAATACA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
21 6 0.14
22 13 0.31
23 8 0.19
24 10 0.24
25 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TAATTTTTTAATTTATTAAATA
Found at i:144710 original size:18 final size:18
Alignment explanation
Indices: 144665--144710 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
144655 ATTTCAATAC
*
144665 TATTTTTTTAATTTAATT
1 TATTTTTTAAATTTAATT
* * *
144683 AATTTCTTAAATTTATTT
1 TATTTTTTAAATTTAATT
144701 TATTTTTTAA
1 TATTTTTTAA
144711 TAATTAATAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTTTTTAAATTTAATT
Found at i:146837 original size:21 final size:22
Alignment explanation
Indices: 146821--146875 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
146811 AATTAATTTT
146821 TTATTTT-TTTAAGTTAATATA
1 TTATTTTATTTAAGTTAATATA
146842 TTATTTTATTTATA-TTAATA-A
1 TTATTTTATTTA-AGTTAATATA
*
146863 TTATATTATTTAA
1 TTATTTTATTTAA
146876 TAAAAAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 1 0.03
21 19 0.61
22 10 0.32
23 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TTATTTTATTTAAGTTAATATA
Found at i:146892 original size:21 final size:20
Alignment explanation
Indices: 146841--146898 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
146831 AAGTTAATAT
* *
146841 ATTATTTTATTTATATTAATA
1 ATTATTTTATTTA-ATAAAAA
*
146862 ATTATATTATTTAATAAAAA
1 ATTATTTTATTTAATAAAAA
*
146882 ATATATTTTATTAAATA
1 AT-TATTTTATTTAATA
146899 TTTAATATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 7 0.23
21 24 0.77
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTATTTTATTTAATAAAAA
Found at i:147266 original size:13 final size:13
Alignment explanation
Indices: 147229--147266 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
147219 TATCAGATAT
*
147229 AATATAATTATAA
1 AATATAATTATTA
*
147242 AATATAA-AATTA
1 AATATAATTATTA
147254 AATATAATTATTA
1 AATATAATTATTA
147267 TATAAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AATATAATTATTA
Found at i:147273 original size:23 final size:24
Alignment explanation
Indices: 147229--147274 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
147219 TATCAGATAT
147229 AATATAATTATAAAATATAAAATTA
1 AATATAATTAT-AAATATAAAATTA
*
147254 AATATAATTAT-TATATAAAAT
1 AATATAATTATAAATATAAAAT
147275 ATGTAGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
25 11 0.55
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AATATAATTATAAATATAAAATTA
Found at i:147619 original size:3 final size:3
Alignment explanation
Indices: 147611--147641 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
147601 TAAACTTGGT
147611 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
147642 TTATTATATT
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:148167 original size:23 final size:24
Alignment explanation
Indices: 148140--148187 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 24
148130 TAAAATTATT
148140 ATTT-ATTAATAAAAAT-ATTTTTA
1 ATTTAATT-ATAAAAATAATTTTTA
148163 ATTTAATTATAAAAATAATTTTTA
1 ATTTAATTATAAAAATAATTTTTA
148187 A
1 A
148188 ACAATAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTTAATTATAAAAATAATTTTTA
Done.