Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 239 of 255
Found at i:78191305 original size:6 final size:6
Alignment explanation
Indices: 78191294--78191320 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
78191284 TTTTATTGTG
78191294 GAAGGA GAAGGA GAAGGA GAAGGA GAA
1 GAAGGA GAAGGA GAAGGA GAAGGA GAA
78191321 AAATATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (6 bp):
GAAGGA
Found at i:78194354 original size:19 final size:18
Alignment explanation
Indices: 78194327--78194363 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
78194317 AATATATATA
78194327 TTTTTAACCCAAACTTTT
1 TTTTTAACCCAAACTTTT
*
78194345 TTTTTGAACCCCAACTTTT
1 TTTTT-AACCCAAACTTTT
78194364 GTAAGAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.24, C:0.24, G:0.03, T:0.49
Consensus pattern (18 bp):
TTTTTAACCCAAACTTTT
Found at i:78195686 original size:29 final size:29
Alignment explanation
Indices: 78195604--78195685 Score: 101
Period size: 31 Copynumber: 2.7 Consensus size: 29
78195594 AAATCTCAAA
* * *
78195604 TCTATACATGAACTTTGGTCTAATGTTCAAT
1 TCTATACATGAACTTTGAT-T-TTGTGCAAT
78195635 TCTATACATGAACTTTGATTTTGTGCAAT
1 TCTATACATGAACTTTGATTTTGTGCAAT
*
78195664 TTTATACATGAAACTTTGATTT
1 TCTATACATG-AACTTTGATTT
78195686 GATCCAATTC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
29 16 0.35
30 12 0.26
31 18 0.39
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.45
Consensus pattern (29 bp):
TCTATACATGAACTTTGATTTTGTGCAAT
Found at i:78195694 original size:30 final size:29
Alignment explanation
Indices: 78195604--78195696 Score: 98
Period size: 29 Copynumber: 3.1 Consensus size: 29
78195594 AAATCTCAAA
* * *
78195604 TCTATACATGAACTTTGGTCTAATGTTCAAT
1 TCTATACATGAACTTTGAT-T-TTGTCCAAT
*
78195635 TCTATACATGAACTTTGATTTTGTGCAAT
1 TCTATACATGAACTTTGATTTTGTCCAAT
*
78195664 TTTATACATGAAACTTTGA-TTTGATCCAAT
1 TCTATACATG-AACTTTGATTTTG-TCCAAT
78195694 TCT
1 TCT
78195697 CACAAATTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
29 20 0.37
30 16 0.30
31 18 0.33
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (29 bp):
TCTATACATGAACTTTGATTTTGTCCAAT
Found at i:78202715 original size:21 final size:23
Alignment explanation
Indices: 78202675--78202716 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
78202665 GGTTATTAGA
78202675 ATTTTACAAATTAAAAAATATTT
1 ATTTTACAAATTAAAAAATATTT
*
78202698 ATTTTA-AAA-TAAATAATAT
1 ATTTTACAAATTAAAAAATAT
78202717 AAAATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 3 0.17
23 6 0.33
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTTTACAAATTAAAAAATATTT
Found at i:78213976 original size:30 final size:29
Alignment explanation
Indices: 78213942--78214070 Score: 108
Period size: 30 Copynumber: 4.4 Consensus size: 29
78213932 AAAATTTTAA
78213942 ATTAATAATAATAAAATTATATTTTAATAT
1 ATTAA-AATAATAAAATTATATTTTAATAT
78213972 ATTAAAATAATAAAAATT-TAATTTTAATAT
1 ATTAAAATAAT-AAAATTAT-ATTTTAATAT
* * * *
78214002 TTTAAATTTTATAAAA--ATA--TAAAT-T
1 ATTAAA-ATAATAAAATTATATTTTAATAT
*
78214027 ATTAAAATAATAAAATTATATTTTTAGTAT
1 ATTAAAATAATAAAATTATA-TTTTAATAT
*
78214057 AATAAAATATATAA
1 ATTAAAATA-ATAA
78214071 TTTAATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
24 7 0.09
25 6 0.08
26 7 0.09
28 1 0.01
29 11 0.14
30 39 0.50
31 7 0.09
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (29 bp):
ATTAAAATAATAAAATTATATTTTAATAT
Found at i:78214026 original size:17 final size:18
Alignment explanation
Indices: 78214004--78214045 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
78213994 TTTAATATTT
78214004 TAAATT-TTATAAA-AATA
1 TAAATTATTA-AAATAATA
78214021 TAAATTATTAAAATAATA
1 TAAATTATTAAAATAATA
78214039 -AAATTAT
1 TAAATTAT
78214046 ATTTTTAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATTATTAAAATAATA
Found at i:78214074 original size:22 final size:22
Alignment explanation
Indices: 78214033--78214074 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
78214023 AATTATTAAA
*
78214033 ATAATAAAATTATATTTTTAGT
1 ATAATAAAATTATATATTTAGT
78214055 ATAATAAAA-TATATAATTTA
1 ATAATAAAATTATAT-ATTTA
78214075 ATTCCGTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
ATAATAAAATTATATATTTAGT
Found at i:78215859 original size:14 final size:14
Alignment explanation
Indices: 78215840--78215870 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
78215830 TTTCTCCTCC
*
78215840 TTTGCCCCTAGTTT
1 TTTGCCCATAGTTT
78215854 TTTGCCCATAGTTT
1 TTTGCCCATAGTTT
78215868 TTT
1 TTT
78215871 TCCTGAAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.23, G:0.13, T:0.55
Consensus pattern (14 bp):
TTTGCCCATAGTTT
Found at i:78217755 original size:21 final size:22
Alignment explanation
Indices: 78217726--78217770 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
78217716 TTGTCATAAT
*
78217726 ATATATATTTGTTATATATGCA
1 ATATATATTTGTTATATATACA
*
78217748 ATAT-TATTTGTTATGTATACA
1 ATATATATTTGTTATATATACA
78217769 AT
1 AT
78217771 TATCTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (22 bp):
ATATATATTTGTTATATATACA
Found at i:78218205 original size:21 final size:20
Alignment explanation
Indices: 78218181--78218237 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
78218171 TTCAATATCG
*
78218181 TATTTTTACATATCATGTATA
1 TATTTTTACATATCATAT-TA
* *
78218202 TATTTCTA-ATATTATATTA
1 TATTTTTACATATCATATTA
*
78218221 TATTTTT-CATATTATAT
1 TATTTTTACATATCATAT
78218238 CATGTACATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 17 0.55
20 7 0.23
21 7 0.23
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (20 bp):
TATTTTTACATATCATATTA
Found at i:78218224 original size:19 final size:19
Alignment explanation
Indices: 78218200--78218237 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
78218190 ATATCATGTA
78218200 TATATTTCTAATATTATAT
1 TATATTTCTAATATTATAT
* *
78218219 TATATTTTTCATATTATAT
1 TATATTTCTAATATTATAT
78218238 CATGTACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TATATTTCTAATATTATAT
Found at i:78220231 original size:12 final size:12
Alignment explanation
Indices: 78220203--78220244 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
78220193 AATAGATTTA
78220203 AAATAATAATA-
1 AAATAATAATAT
78220214 ATAATAATAATAT
1 A-AATAATAATAT
78220227 AAATAACTAA-AT
1 AAATAA-TAATAT
78220239 AAATAA
1 AAATAA
78220245 ATCCAAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.04
12 23 0.82
13 4 0.14
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (12 bp):
AAATAATAATAT
Found at i:78222521 original size:31 final size:29
Alignment explanation
Indices: 78222466--78222541 Score: 75
Period size: 31 Copynumber: 2.6 Consensus size: 29
78222456 GGATTATTTG
* * *
78222466 AAAGTTTTCATTCAAGTCATTGAATTATT
1 AAAGTTTTTATTTAAGTCACTGAATTATT
* *
78222495 CACAAGTTTTTATTTAAGTCGCTGAATTGTT
1 -A-AAGTTTTTATTTAAGTCACTGAATTATT
78222526 AAA-TTTTT-TTTAAGTC
1 AAAGTTTTTATTTAAGTC
78222542 CAACTAGCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 8 0.20
28 5 0.12
29 2 0.05
30 2 0.05
31 23 0.57
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (29 bp):
AAAGTTTTTATTTAAGTCACTGAATTATT
Found at i:78224245 original size:4 final size:4
Alignment explanation
Indices: 78224236--78224284 Score: 89
Period size: 4 Copynumber: 12.2 Consensus size: 4
78224226 GCTGGTAAAA
*
78224236 ACAT ACAT ACAT ACAT ACGT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
78224284 A
1 A
78224285 AGTGGTTCAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:78225531 original size:14 final size:14
Alignment explanation
Indices: 78225512--78225545 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
78225502 AAGGCTTGCG
78225512 AATTAAATGTGTAT
1 AATTAAATGTGTAT
78225526 AATTAAATGTGTAT
1 AATTAAATGTGTAT
78225540 AATTAA
1 AATTAA
78225546 TACATACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (14 bp):
AATTAAATGTGTAT
Found at i:78226336 original size:30 final size:30
Alignment explanation
Indices: 78226278--78226336 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
78226268 AAGTTATTTT
*
78226278 CTTGTTAAGAGTTAATTGCTGGATTATTCA
1 CTTGTTAAGAGTTAATTGCGGGATTATTCA
*
78226308 CTTGTTAAGGGTTAATTGACGGGA-TATTC
1 CTTGTTAAGAGTTAATTG-CGGGATTATTC
78226337 CCACAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.25, C:0.10, G:0.24, T:0.41
Consensus pattern (30 bp):
CTTGTTAAGAGTTAATTGCGGGATTATTCA
Found at i:78227534 original size:22 final size:22
Alignment explanation
Indices: 78227493--78227535 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
78227483 ACATAATATT
* * *
78227493 AATATTTTTAATTTTTAATTAA
1 AATATTTTAAAATTTAAATTAA
78227515 AATATTTTAAAATTTAAATTA
1 AATATTTTAAAATTTAAATTA
78227536 TAGTTTGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATATTTTAAAATTTAAATTAA
Found at i:78229134 original size:16 final size:16
Alignment explanation
Indices: 78229103--78229141 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
78229093 TGTTGTTTAG
*
78229103 TAGAATAACTCATGTT
1 TAGAACAACTCATGTT
* *
78229119 TGGAACAACTCGTGTT
1 TAGAACAACTCATGTT
78229135 TAGAACA
1 TAGAACA
78229142 CTCTTTGTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (16 bp):
TAGAACAACTCATGTT
Found at i:78229162 original size:24 final size:24
Alignment explanation
Indices: 78229130--78229177 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
78229120 GGAACAACTC
78229130 GTGTTTAGAACACTCTTTGTCAAG
1 GTGTTTAGAACACTCTTTGTCAAG
78229154 GTGTTTAGAACACTCTTTGTCAAG
1 GTGTTTAGAACACTCTTTGTCAAG
78229178 ACTATCTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.38
Consensus pattern (24 bp):
GTGTTTAGAACACTCTTTGTCAAG
Found at i:78230831 original size:14 final size:14
Alignment explanation
Indices: 78230812--78230841 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
78230802 ATATTCAAAC
78230812 AATAACAATAAAAT
1 AATAACAATAAAAT
*
78230826 AATAACAATATAAT
1 AATAACAATAAAAT
78230840 AA
1 AA
78230842 CGAGTGGTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAACAATAAAAT
Found at i:78234176 original size:18 final size:18
Alignment explanation
Indices: 78234153--78234187 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
78234143 TTTCTAATAT
*
78234153 ACGAAATCAAATGTCTAC
1 ACGAAATCAAATCTCTAC
78234171 ACGAAATCAAATCTCTA
1 ACGAAATCAAATCTCTA
78234188 TTCATTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.23, G:0.09, T:0.23
Consensus pattern (18 bp):
ACGAAATCAAATCTCTAC
Found at i:78245365 original size:22 final size:22
Alignment explanation
Indices: 78245322--78245365 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
78245312 AATATTAATA
*
78245322 TATATATTTTTAATTGATATTT
1 TATATATTTTTAATTGAAATTT
78245344 TATATATTTTATAATT-AAATTT
1 TATATATTTT-TAATTGAAATTT
78245366 AAATAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TATATATTTTTAATTGAAATTT
Found at i:78246748 original size:11 final size:10
Alignment explanation
Indices: 78246719--78246785 Score: 59
Period size: 10 Copynumber: 6.7 Consensus size: 10
78246709 CGCTGGTTTT
*
78246719 TTAATAATTA
1 TTAAAAATTA
78246729 -TACAAAATTA
1 TTA-AAAATTA
78246739 TTTAAAAATTA
1 -TTAAAAATTA
*
78246750 -TAAAAAATA
1 TTAAAAATTA
*
78246759 TT-AACATTA
1 TTAAAAATTA
78246768 TTTAAAAATTA
1 -TTAAAAATTA
78246779 TTAAAAA
1 TTAAAAA
78246786 GAATATATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
9 15 0.33
10 16 0.35
11 13 0.28
12 2 0.04
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:78246748 original size:21 final size:21
Alignment explanation
Indices: 78246718--78246785 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
78246708 CCGCTGGTTT
* *
78246718 TTTAATAATTATACAAAATTA
1 TTTAAAAATTATAAAAAATTA
78246739 TTTAAAAATTATAAAAAA-TA
1 TTTAAAAATTATAAAAAATTA
* *
78246759 -TT-AACATTATTTAAAAATTA
1 TTTAAAAATTA-TAAAAAATTA
78246779 -TTAAAAA
1 TTTAAAAA
78246786 GAATATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 6 0.15
19 8 0.21
20 6 0.15
21 19 0.49
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTAAAAATTATAAAAAATTA
Found at i:78246960 original size:20 final size:20
Alignment explanation
Indices: 78246935--78246976 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
78246925 TATATATTTG
*
78246935 AATTAT-AAGAAATTGTAAAA
1 AATTATCAAG-AATTATAAAA
78246955 AATTATCAAGAATTATAAAA
1 AATTATCAAGAATTATAAAA
78246975 AA
1 AA
78246977 AAAAGTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (20 bp):
AATTATCAAGAATTATAAAA
Found at i:78251780 original size:21 final size:22
Alignment explanation
Indices: 78251751--78251797 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
78251741 CAGAAGGAGT
*
78251751 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
78251773 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
78251794 GAGT
1 GAGT
78251798 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:78257540 original size:27 final size:27
Alignment explanation
Indices: 78257508--78257563 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
78257498 AATGTTTATA
78257508 AACATAAGGTTCATCTACATTTTGCTC
1 AACATAAGGTTCATCTACATTTTGCTC
*
78257535 AACATAAGGTTCATCTACGTTTTGCTC
1 AACATAAGGTTCATCTACATTTTGCTC
78257562 AA
1 AA
78257564 ATCCAAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (27 bp):
AACATAAGGTTCATCTACATTTTGCTC
Found at i:78260125 original size:39 final size:39
Alignment explanation
Indices: 78260068--78260388 Score: 472
Period size: 39 Copynumber: 8.3 Consensus size: 39
78260058 CGGGATTTTA
* * * *
78260068 AGCCCGAATATAATACCAGCAC-AAAGCCTACGGGACTTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC-TT
*
78260107 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* *
78260146 AGCCCGGATATAACACCAGCACGAGTGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* *
78260185 GGCCCGGATATAACACCAGCACGAATGCTTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
*
78260224 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* * *
78260263 AGCCCGGAAATAACACCAGCACAAATGCCTTTGGG-CTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
78260301 AGCCCGGATATAACACCAGCACGAATGCCTTC-GGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
78260339 AGCCC-GATATAACACCAGCACGAATGCCTTC-GGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
*
78260376 AACCCGGATATAA
1 AGCCCGGATATAA
78260389 TTCTCCATTA
Statistics
Matches: 259, Mismatches: 20, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
37 38 0.15
38 47 0.18
39 163 0.63
40 11 0.04
ACGTcount: A:0.29, C:0.30, G:0.23, T:0.18
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
Found at i:78270187 original size:20 final size:19
Alignment explanation
Indices: 78270158--78270208 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
78270148 TTTATATCTT
78270158 TTTTAGAATTTTAAA-ATTTA
1 TTTT-GAATTTTAAATA-TTA
*
78270178 TTTTGAAATTTTGAATATTA
1 TTTTG-AATTTTAAATATTA
78270198 TTTTGAATTTT
1 TTTTGAATTTT
78270209 TTTTGTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 7 0.25
20 20 0.71
21 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (19 bp):
TTTTGAATTTTAAATATTA
Found at i:78274873 original size:21 final size:21
Alignment explanation
Indices: 78274844--78274884 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
78274834 ATCTGCTCAA
* *
78274844 ACTCTACCTGTTTTGGAGTAC
1 ACTCCACCTGTTGTGGAGTAC
78274865 ACTCCACCTGTTGTGGAGTA
1 ACTCCACCTGTTGTGGAGTA
78274885 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (21 bp):
ACTCCACCTGTTGTGGAGTAC
Found at i:78277818 original size:21 final size:23
Alignment explanation
Indices: 78277796--78277839 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
78277786 ACTTGCACCT
78277796 CCCATTT-TTGACTTTTCAACTC
1 CCCATTTATTGACTTTTCAACTC
*
78277818 CCCCTTTAATTGACTTTTCAAC
1 CCCATTT-ATTGACTTTTCAAC
78277840 AGTTATACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
24 13 0.68
ACGTcount: A:0.20, C:0.32, G:0.05, T:0.43
Consensus pattern (23 bp):
CCCATTTATTGACTTTTCAACTC
Found at i:78278765 original size:8 final size:8
Alignment explanation
Indices: 78278717--78278783 Score: 52
Period size: 8 Copynumber: 8.5 Consensus size: 8
78278707 TTTTACATAC
78278717 TTAAAATT
1 TTAAAATT
78278725 TTATAATATT
1 TTA-AA-ATT
*
78278735 TAATAAATT
1 TTA-AAATT
* *
78278744 TTAATATC
1 TTAAAATT
78278752 TT--AATT
1 TTAAAATT
78278758 TTAAAATT
1 TTAAAATT
78278766 TT-AAATT
1 TTAAAATT
78278773 TT-AAATT
1 TTAAAATT
78278780 TTAA
1 TTAA
78278784 CGTCTACTTC
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
6 4 0.08
7 14 0.29
8 15 0.31
9 7 0.15
10 8 0.17
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (8 bp):
TTAAAATT
Found at i:78278766 original size:22 final size:22
Alignment explanation
Indices: 78278739--78278783 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
78278729 AATATTTAAT
78278739 AAATTTTAATATCTT-AATTTTA
1 AAATTTTAA-ATCTTAAATTTTA
*
78278761 AAATTTTAAATTTTAAATTTTA
1 AAATTTTAAATCTTAAATTTTA
78278783 A
1 A
78278784 CGTCTACTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
AAATTTTAAATCTTAAATTTTA
Found at i:78278773 original size:7 final size:7
Alignment explanation
Indices: 78278738--78278783 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
78278728 TAATATTTAA
78278738 TAAATTT
1 TAAATTT
*
78278745 TAATATCT
1 TAA-ATTT
78278753 T-AATTT
1 TAAATTT
78278759 TAAAATTT
1 T-AAATTT
78278767 TAAATTT
1 TAAATTT
78278774 TAAATTT
1 TAAATTT
78278781 TAA
1 TAA
78278784 CGTCTACTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 4 0.12
7 20 0.59
8 10 0.29
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (7 bp):
TAAATTT
Found at i:78293971 original size:20 final size:21
Alignment explanation
Indices: 78293946--78293986 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
78293936 GAACATAACC
*
78293946 TTAAAA-ATTTTAAAATTTAA
1 TTAAAATAATTTAAAATTTAA
*
78293966 TTAAAATAATTTAAAGTTTAA
1 TTAAAATAATTTAAAATTTAA
78293987 AGATAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTAAAATAATTTAAAATTTAA
Found at i:78294981 original size:17 final size:18
Alignment explanation
Indices: 78294949--78294986 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
78294939 TTTCTAATTC
78294949 AATAAAAATAATTTACCA
1 AATAAAAATAATTTACCA
*
78294967 AATAAAAGTAA-TTACCA
1 AATAAAAATAATTTACCA
78294984 AAT
1 AAT
78294987 GTTTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.61, C:0.11, G:0.03, T:0.26
Consensus pattern (18 bp):
AATAAAAATAATTTACCA
Found at i:78295193 original size:29 final size:29
Alignment explanation
Indices: 78295160--78295218 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
78295150 AAAAAATTTG
*
78295160 AATTACAATTATAAGT-AATACATT-CAAAT
1 AATTACAATCATAA-TAAATA-ATTACAAAT
*
78295189 AATTATAATCATAATAAATAATTACAAAT
1 AATTACAATCATAATAAATAATTACAAAT
78295218 A
1 A
78295219 CACAACACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (29 bp):
AATTACAATCATAATAAATAATTACAAAT
Found at i:78303829 original size:30 final size:30
Alignment explanation
Indices: 78303795--78303862 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
78303785 ATATTAAAAA
78303795 ATTAAAT-TTAAATTGATAAAAAAATTACTG
1 ATTAAATGTTAAATT-ATAAAAAAATTACTG
* * * *
78303825 ATTAAAATGTTTAATTTTAAAAAATTTAGTG
1 ATT-AAATGTTAAATTATAAAAAAATTACTG
78303856 ATTAAAT
1 ATTAAAT
78303863 AAAAAGTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 7 0.22
31 19 0.59
32 6 0.19
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.41
Consensus pattern (30 bp):
ATTAAATGTTAAATTATAAAAAAATTACTG
Found at i:78305541 original size:13 final size:13
Alignment explanation
Indices: 78305523--78305547 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78305513 CAAATAAAAA
78305523 ACATTAAAAAATC
1 ACATTAAAAAATC
78305536 ACATTAAAAAAT
1 ACATTAAAAAAT
78305548 ACGAAGGAGG
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:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (13 bp):
ACATTAAAAAATC
Found at i:78305632 original size:22 final size:21
Alignment explanation
Indices: 78305588--78305633 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
78305578 AAAGAACGAA
**
78305588 AAAAATAAAAAGAAAAATTTT
1 AAAAATAAAAAGAAAAAAATT
*
78305609 AAAAATATAAAGGAAAAAAATT
1 AAAAATA-AAAAGAAAAAAATT
78305631 AAA
1 AAA
78305634 TTATTCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.20
Consensus pattern (21 bp):
AAAAATAAAAAGAAAAAAATT
Found at i:78311757 original size:17 final size:17
Alignment explanation
Indices: 78311719--78311760 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
78311709 TAATTAATTT
*
78311719 TTTTTATAATTTTTATAC
1 TTTTTA-AATTTTAATAC
78311737 TTTTTAAATTTTAAATA-
1 TTTTTAAATTTT-AATAC
78311754 TTTTTAA
1 TTTTTAA
78311761 TAAATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTAAATTTTAATAC
Found at i:78312879 original size:20 final size:21
Alignment explanation
Indices: 78312830--78312879 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
78312820 AGGGAGAAGT
78312830 AGAACATAATGGAAAATAAAA
1 AGAACATAATGGAAAATAAAA
* * * *
78312851 AAAAAATAA-GGAAAGTTAAA
1 AGAACATAATGGAAAATAAAA
78312871 AGAACATAA
1 AGAACATAA
78312880 AAGATAAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.68, C:0.04, G:0.14, T:0.14
Consensus pattern (21 bp):
AGAACATAATGGAAAATAAAA
Found at i:78326389 original size:13 final size:13
Alignment explanation
Indices: 78326373--78326399 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
78326363 AGAAAAAAGA
78326373 ATGCTTATTGATG
1 ATGCTTATTGATG
78326386 ATGCTTATTGATG
1 ATGCTTATTGATG
78326399 A
1 A
78326400 ATCAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.44
Consensus pattern (13 bp):
ATGCTTATTGATG
Found at i:78330092 original size:46 final size:47
Alignment explanation
Indices: 78329982--78330103 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 47
78329972 TGTCTTCGAC
** * *
78329982 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* * *
78330032 ATGGGCTTATATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
78330078 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
78330104 CTGTCCTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 33 0.53
50 29 0.47
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:78333968 original size:25 final size:25
Alignment explanation
Indices: 78333927--78333981 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
78333917 TATTTTATAT
*
78333927 TATTTTTTTGTTTTTTTAAATAAAA
1 TATTTTTTTGTTATTTTAAATAAAA
* *
78333952 TATTATTTTT-TTATTTTTATTAAAA
1 TATT-TTTTTGTTATTTTAAATAAAA
78333977 TATTT
1 TATTT
78333982 AAATATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 20 0.77
26 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
TATTTTTTTGTTATTTTAAATAAAA
Found at i:78334323 original size:20 final size:19
Alignment explanation
Indices: 78334288--78334358 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 19
78334278 CATCCACACC
*
78334288 GAAAGAGAGAAAAAAAAGAGA
1 GAAAG-GAGAAGAAAAAGA-A
78334309 GAAAGGAGAAGAAAAA-AA
1 GAAAGGAGAAGAAAAAGAA
* *
78334327 G-AAGAAGAAGAATAAGAA
1 GAAAGGAGAAGAAAAAGAA
78334345 GAAA-GA-AAGAAAAA
1 GAAAGGAGAAGAAAAA
78334359 AGATAATGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 19 0.44
18 6 0.14
19 3 0.07
20 10 0.23
21 5 0.12
ACGTcount: A:0.72, C:0.00, G:0.27, T:0.01
Consensus pattern (19 bp):
GAAAGGAGAAGAAAAAGAA
Found at i:78334612 original size:60 final size:60
Alignment explanation
Indices: 78334518--78334636 Score: 186
Period size: 60 Copynumber: 2.0 Consensus size: 60
78334508 TTATTTTTTA
* * *
78334518 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTAAAAAATT-TTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTT-AAAAATTATTGTGTTTG
*
78334578 TAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTATAAATTATTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTAAAAATTATTGTGTTT
78334637 AGTTTAGTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 6 0.11
60 48 0.89
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTAAAAATTATTGTGTTTG
Found at i:78337524 original size:33 final size:33
Alignment explanation
Indices: 78337437--78337529 Score: 87
Period size: 33 Copynumber: 2.8 Consensus size: 33
78337427 TCCTGACTCA
* * * * *
78337437 TATCCACCTCAATGCTCCGCTCCTTCCGGCCCG
1 TATCAACCACAATACTCCACTCCTCCCGGCCCG
* ** *
78337470 TATCCACCACCGTACTTCACTCCTCCCGGCCCG
1 TATCAACCACAATACTCCACTCCTCCCGGCCCG
* *
78337503 TATCAATCGCAATACTCCACTCCTCCC
1 TATCAACCACAATACTCCACTCCTCCC
78337530 AGCTCAAGTT
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.17, C:0.48, G:0.11, T:0.24
Consensus pattern (33 bp):
TATCAACCACAATACTCCACTCCTCCCGGCCCG
Found at i:78343757 original size:15 final size:15
Alignment explanation
Indices: 78343734--78343768 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
78343724 AAGCAGTTAC
*
78343734 ATCGCCGACTCCGGG
1 ATCGGCGACTCCGGG
*
78343749 ATCGGCGACTCGGGG
1 ATCGGCGACTCCGGG
78343764 ATCGG
1 ATCGG
78343769 TCGGTCGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.14, C:0.31, G:0.40, T:0.14
Consensus pattern (15 bp):
ATCGGCGACTCCGGG
Found at i:78348867 original size:14 final size:15
Alignment explanation
Indices: 78348843--78348871 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
78348833 TTAACAGAAA
78348843 GTATCAAAAACTAAT
1 GTATCAAAAACTAAT
78348858 GTAT-AAAAACTAAT
1 GTATCAAAAACTAAT
78348872 TTACCCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (15 bp):
GTATCAAAAACTAAT
Found at i:78352971 original size:3 final size:3
Alignment explanation
Indices: 78352951--78352985 Score: 52
Period size: 3 Copynumber: 11.0 Consensus size: 3
78352941 AAGAAGTTAT
78352951 TCA TGCA TCA TGCA TCA TCA TCA TCA TCA TCA TCA
1 TCA T-CA TCA T-CA TCA TCA TCA TCA TCA TCA TCA
78352986 CCACCAACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 24 0.80
4 6 0.20
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.31
Consensus pattern (3 bp):
TCA
Found at i:78355534 original size:12 final size:11
Alignment explanation
Indices: 78355515--78355545 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
78355505 TTATTATTAC
78355515 TGTTTTTTTAT
1 TGTTTTTTTAT
78355526 TGCTTTTTTTAT
1 TG-TTTTTTTAT
78355538 TGTTTTTT
1 TGTTTTTT
78355546 CATTATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.06, C:0.03, G:0.10, T:0.81
Consensus pattern (11 bp):
TGTTTTTTTAT
Found at i:78355933 original size:19 final size:19
Alignment explanation
Indices: 78355906--78355946 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
78355896 TAAAACATAT
*
78355906 TTTATTAAATAGAATTATA
1 TTTAATAAATAGAATTATA
78355925 TTTAATAAATAGAATTATA
1 TTTAATAAATAGAATTATA
78355944 TTT
1 TTT
78355947 CTAAATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTAATAAATAGAATTATA
Found at i:78358499 original size:11 final size:11
Alignment explanation
Indices: 78358483--78358507 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
78358473 TTCCTTTTTC
78358483 TTTTTTTTGTT
1 TTTTTTTTGTT
78358494 TTTTTTTTGTT
1 TTTTTTTTGTT
78358505 TTT
1 TTT
78358508 CCCATTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:78359218 original size:26 final size:26
Alignment explanation
Indices: 78359189--78359296 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
78359179 TAGTACAAAT
78359189 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
78359215 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
78359241 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
78359267 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
78359293 TGAT
1 TGAT
78359297 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:78360811 original size:26 final size:26
Alignment explanation
Indices: 78360782--78360834 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
78360772 TTTACAGTTT
*
78360782 TACCTCTAGTAGATAAATT-ACCGAAA
1 TACCCCTAG-AGATAAATTGACCGAAA
* *
78360808 TACCCCTAGAGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
78360834 T
1 T
78360835 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:78363131 original size:32 final size:32
Alignment explanation
Indices: 78363090--78363153 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
78363080 CCAAATAAAA
78363090 GAAAAATAAAGTTTTTTTAAAACATTCCATTT
1 GAAAAATAAAGTTTTTTTAAAACATTCCATTT
78363122 GAAAAATAAAGTTTTTTTAAAACATTCCATTT
1 GAAAAATAAAGTTTTTTTAAAACATTCCATTT
78363154 TACAAGGCCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (32 bp):
GAAAAATAAAGTTTTTTTAAAACATTCCATTT
Found at i:78364502 original size:13 final size:14
Alignment explanation
Indices: 78364484--78364625 Score: 50
Period size: 14 Copynumber: 9.9 Consensus size: 14
78364474 TTATTATATA
78364484 TATTATTT-TTATG
1 TATTATTTATTATG
78364497 TATTATTTATTA--
1 TATTATTTATTATG
*
78364509 TATTATTTA-TATTT
1 TATTATTTATTA-TG
*
78364523 TATTATATATT-T-
1 TATTATTTATTATG
* *
78364535 TATTTATATATTATA
1 TA-TTATTTATTATG
78364550 TCATTTTATTATATATAT-
1 T-A--TTATT-TAT-TATG
78364568 TATTCATTATATTAT-
1 TATT-ATT-TATTATG
*
78364583 T-TTCATTTTATTATA
1 TATT-A-TTTATTATG
*
78364598 TATTACTTTATTATT
1 TATTA-TTTATTATG
*
78364613 TTTTATTTATTAT
1 TATTATTTATTAT
78364626 TATGTATAAT
Statistics
Matches: 108, Mismatches: 5, Indels: 31
0.75 0.03 0.22
Matches are distributed among these distances:
11 2 0.02
12 11 0.10
13 18 0.17
14 30 0.28
15 24 0.22
16 10 0.09
17 6 0.06
18 4 0.04
19 3 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (14 bp):
TATTATTTATTATG
Found at i:78364561 original size:33 final size:32
Alignment explanation
Indices: 78364499--78364625 Score: 70
Period size: 33 Copynumber: 3.8 Consensus size: 32
78364489 TTTTTATGTA
78364499 TTATTTATTATATTATTTATATTTTATTATAT-ATT
1 TTATTTA-TATATTATTT-TA--TTATTATATCATT
*
78364534 TTATTTATATATTATATCATT-TTATTATAT-ATA
1 TTATTTATATATTAT-T--TTATTATTATATCATT
* *
78364567 TTATTCATTATATTATTTTCATT-TTATTAT-ATA
1 TTATTTA-TATATTATTTT-ATTATTA-TATCATT
78364600 TTACTTTAT-TATT-TTTTATTTATTAT
1 TTA-TTTATATATTATTTTA-TTATTAT
78364626 TATGTATAAT
Statistics
Matches: 79, Mismatches: 3, Indels: 24
0.75 0.03 0.23
Matches are distributed among these distances:
30 1 0.01
31 9 0.11
32 10 0.13
33 30 0.38
34 19 0.24
35 8 0.10
36 1 0.01
37 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (32 bp):
TTATTTATATATTATTTTATTATTATATCATT
Found at i:78364565 original size:35 final size:35
Alignment explanation
Indices: 78364499--78364609 Score: 108
Period size: 35 Copynumber: 3.1 Consensus size: 35
78364489 TTTTTATGTA
78364499 TTATTTATTATATTATTTAT-ATTTTA-T-TATATATT
1 TTATTTA-TATATTA--TATCATTTTATTATATATATT
78364534 TTATTTATATATTATATCATTTTATTATATATATT
1 TTATTTATATATTATATCATTTTATTATATATATT
*
78364569 ATTCA-TTATATTATT-T-TCATTTTATTATATATTACT
1 -TT-ATTTATA-TATTATATCATTTTATTATATA-TATT
78364605 TTATT
1 TTATT
78364610 ATTTTTTATT
Statistics
Matches: 67, Mismatches: 1, Indels: 16
0.80 0.01 0.19
Matches are distributed among these distances:
32 3 0.04
33 6 0.09
34 9 0.13
35 33 0.49
36 11 0.16
37 5 0.07
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.65
Consensus pattern (35 bp):
TTATTTATATATTATATCATTTTATTATATATATT
Found at i:78364569 original size:68 final size:68
Alignment explanation
Indices: 78364475--78364601 Score: 186
Period size: 68 Copynumber: 1.9 Consensus size: 68
78364465 TGTAAAAAAT
* * *
78364475 TATTATATATATTATTTTTATGTATTATTTATTATATTATTTAT-ATTTTATTATATATTTTATT
1 TATTATATATATTATTTATATATATTATTCATTATATTATTT-TCATTTTATTATATATTTTATT
78364539 TATA
65 TATA
*
78364543 TATTATATCATTTTA-TTATATATATTATTCATTATATTATTTTCATTTTATTATATATT
1 TATTATAT-ATATTATTTATATATATTATTCATTATATTATTTTCATTTTATTATATATT
78364602 ACTTTATTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
67 1 0.02
68 47 0.89
69 5 0.09
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (68 bp):
TATTATATATATTATTTATATATATTATTCATTATATTATTTTCATTTTATTATATATTTTATTT
ATA
Found at i:78364587 original size:14 final size:14
Alignment explanation
Indices: 78364544--78364596 Score: 63
Period size: 14 Copynumber: 3.7 Consensus size: 14
78364534 TTATTTATAT
*
78364544 ATTATATCATTTT-
1 ATTATATTATTTTC
78364557 ATTATATATATTATTC
1 ATTATAT-TATT-TTC
78364573 ATTATATTATTTTC
1 ATTATATTATTTTC
*
78364587 ATTTTATTAT
1 ATTATATTAT
78364597 ATATTACTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
13 7 0.20
14 15 0.43
15 6 0.17
16 7 0.20
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTATATTATTTTC
Found at i:78364610 original size:50 final size:47
Alignment explanation
Indices: 78364474--78364611 Score: 122
Period size: 50 Copynumber: 2.9 Consensus size: 47
78364464 ATGTAAAAAA
* * * *
78364474 TTATTATATATATTATTTTTATGTATTAT-TTA-TTATATTATTTATATT
1 TTATTATATAT-TT-TATTTATATATTATATCACTT-TATTATATATATT
*
78364522 TTATTATATATTTTATTTATATATTATATCATTTTATTATATATATT
1 TTATTATATATTTTATTTATATATTATATCACTTTATTATATATATT
*
78364569 ATTCATTATATTATTTTCATTT-TAT-TATATATTACTTTATTAT
1 -TT-ATTATA-TATTTT-ATTTATATAT-TATATCACTTTATTAT
78364612 TTTTTATTTA
Statistics
Matches: 77, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
46 12 0.16
47 16 0.21
48 15 0.19
49 7 0.09
50 23 0.30
51 4 0.05
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (47 bp):
TTATTATATATTTTATTTATATATTATATCACTTTATTATATATATT
Found at i:78364621 original size:29 final size:28
Alignment explanation
Indices: 78364480--78364625 Score: 99
Period size: 30 Copynumber: 5.1 Consensus size: 28
78364470 AAAATTATTA
* *
78364480 TATATATTATTT-TTATGTATTATTTA-
1 TATATATTATTTATTATTTTTTATTTAT
*
78364506 T-TATATTATTTA-TATTTTATTATATAT
1 TATATATTATTTATTATTTT-TTATTTAT
* *
78364533 TTTAT-TTATATATTATATCATTTTA-TTAT
1 TATATATTATTTATTAT-T--TTTTATTTAT
*
78364562 ATATATTATTCATTATATTA-TTTTCATTTTAT
1 -TATA-TATT-ATT-TATTATTTTTTA-TTTAT
78364594 TATATATTACTTTATTATTTTTTATTTAT
1 TATATATTA-TTTATTATTTTTTATTTAT
78364623 TAT
1 TAT
78364626 TATGTATAAT
Statistics
Matches: 94, Mismatches: 9, Indels: 31
0.70 0.07 0.23
Matches are distributed among these distances:
25 14 0.15
26 7 0.07
27 7 0.07
28 6 0.06
29 18 0.19
30 21 0.22
31 7 0.07
32 7 0.07
33 2 0.02
34 5 0.05
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.66
Consensus pattern (28 bp):
TATATATTATTTATTATTTTTTATTTAT
Found at i:78366309 original size:19 final size:19
Alignment explanation
Indices: 78366259--78366330 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
78366249 CAATTACAAA
*
78366259 AAAAATTTAAAATAATTTT
1 AAAAATTCAAAATAATTTT
78366278 CAAAAACTT-AAAATAATTTT
1 -AAAAA-TTCAAAATAATTTT
*
78366298 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
78366317 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
78366331 TTATATATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
18 6 0.13
19 16 0.35
20 22 0.48
21 2 0.04
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:78366337 original size:20 final size:19
Alignment explanation
Indices: 78366259--78366335 Score: 63
Period size: 19 Copynumber: 4.1 Consensus size: 19
78366249 CAATTACAAA
*
78366259 AAAAATTTAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
78366278 CAAAAACTT-AAAATAATTT-T
1 -AAAAA-TTCAAAAT-ATTTAT
*
78366298 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
78366317 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
78366335 A
1 A
78366336 TATATTTTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
18 13 0.25
19 20 0.39
20 16 0.31
21 2 0.04
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:78371836 original size:24 final size:24
Alignment explanation
Indices: 78371809--78371884 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
78371799 TTAATTTAAT
78371809 TTAATCTTATAGATAAATATTTTA
1 TTAATCTTATAGATAAATATTTTA
* ***
78371833 TTAAT-TTAATA-TTAAATATAACA
1 TTAATCTT-ATAGATAAATATTTTA
*
78371856 TTTATCTTATAGATAAATATTTTA
1 TTAATCTTATAGATAAATATTTTA
78371880 TTAAT
1 TTAAT
78371885 TTAATATTAA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
23 17 0.44
24 22 0.56
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (24 bp):
TTAATCTTATAGATAAATATTTTA
Found at i:78371849 original size:23 final size:23
Alignment explanation
Indices: 78371822--78371895 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
78371812 ATCTTATAGA
78371822 TAAATATTTTATTAATTTAATAT
1 TAAATATTTTATTAATTTAATAT
*** * *
78371845 TAAATATAACATTTATCTT-ATAGA
1 TAAATATTTTATTAAT-TTAATA-T
78371869 TAAATATTTTATTAATTTAATAT
1 TAAATATTTTATTAATTTAATAT
78371892 TAAA
1 TAAA
78371896 ATAATCATTT
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
23 21 0.55
24 17 0.45
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (23 bp):
TAAATATTTTATTAATTTAATAT
Found at i:78371853 original size:29 final size:30
Alignment explanation
Indices: 78371794--78371853 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
78371784 TGTTATATTT
* *
78371794 AATATTTAATTTAATTTAATCTTATAGATA
1 AATATTTAATTTAATTTAATATTAAAGATA
* *
78371824 AATATTTTA-TTAATTTAATATTAAATATA
1 AATATTTAATTTAATTTAATATTAAAGATA
78371853 A
1 A
78371854 CATTTATCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (30 bp):
AATATTTAATTTAATTTAATATTAAAGATA
Found at i:78371868 original size:47 final size:47
Alignment explanation
Indices: 78371807--78371905 Score: 173
Period size: 47 Copynumber: 2.1 Consensus size: 47
78371797 ATTTAATTTA
78371807 ATTTAATCTTATAGATAAATATTTTATTAATTTAATATTAAATATAA-C
1 ATTT-ATCTTATAGATAAATATTTTATTAATTTAATATTAAA-ATAATC
78371855 ATTTATCTTATAGATAAATATTTTATTAATTTAATATTAAAATAATC
1 ATTTATCTTATAGATAAATATTTTATTAATTTAATATTAAAATAATC
78371902 ATTT
1 ATTT
78371906 TAATATTAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
46 4 0.08
47 42 0.84
48 4 0.08
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (47 bp):
ATTTATCTTATAGATAAATATTTTATTAATTTAATATTAAAATAATC
Found at i:78371897 original size:24 final size:24
Alignment explanation
Indices: 78371823--78371898 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
78371813 TCTTATAGAT
78371823 AAATATTTTATTAATTTAATATT-
1 AAATATTTTATTAATTTAATATTA
*** * *
78371846 AAATATAACATTTATCTT-ATA-GA
1 AAATATTTTATTAAT-TTAATATTA
78371869 TAAATATTTTATTAATTTAATATTA
1 -AAATATTTTATTAATTTAATATTA
78371894 AAATA
1 AAATA
78371899 ATCATTTTAA
Statistics
Matches: 38, Mismatches: 10, Indels: 9
0.67 0.18 0.16
Matches are distributed among these distances:
23 16 0.42
24 21 0.55
25 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (24 bp):
AAATATTTTATTAATTTAATATTA
Found at i:78377659 original size:23 final size:22
Alignment explanation
Indices: 78377632--78377697 Score: 60
Period size: 24 Copynumber: 2.8 Consensus size: 22
78377622 TTAAGTTTTG
*
78377632 TAATTTATTAAATAATATAATTT
1 TAATTTATTAAATAATATAA-AT
**
78377655 TAATTTATGTAGTTAATATAAAT
1 TAATTTAT-TAAATAATATAAAT
78377678 TAATATTATTCAAGATAATA
1 TAAT-TTATT-AA-ATAATA
78377698 ATTAATAAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
23 14 0.41
24 15 0.44
25 5 0.15
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (22 bp):
TAATTTATTAAATAATATAAAT
Found at i:78380541 original size:5 final size:5
Alignment explanation
Indices: 78380531--78380559 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
78380521 GAACCTCGCT
78380531 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
78380560 TTGTCATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:78382352 original size:41 final size:41
Alignment explanation
Indices: 78382108--78382346 Score: 283
Period size: 41 Copynumber: 5.8 Consensus size: 41
78382098 TTAAACAGAT
* * * *
78382108 TCACCGGCAATT-TGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGC-ATTAAGCCTGCTAGACTTAAAGTCTGAAAT--GTA
* *
78382150 -CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
78382190 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
78382231 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
78382272 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* * *
78382311 CTTCACCGGCATTAAGCCTACTAGACGTAACGTCTG
1 --TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
78382347 TATTACATTC
Statistics
Matches: 180, Mismatches: 11, Indels: 13
0.88 0.05 0.06
Matches are distributed among these distances:
39 2 0.01
40 9 0.05
41 167 0.93
42 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.27
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
Found at i:78391208 original size:19 final size:19
Alignment explanation
Indices: 78391181--78391225 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
78391171 CCACTCCCAA
78391181 AAAATATATAT-TAT-TTTT
1 AAAATA-ATATCTATATTTT
78391199 AAAATAATATCTATATTTT
1 AAAATAATATCTATATTTT
78391218 AAAATAAT
1 AAAATAAT
78391226 TTTATATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.16
18 9 0.36
19 12 0.48
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATAATATCTATATTTT
Found at i:78391233 original size:18 final size:18
Alignment explanation
Indices: 78391181--78391233 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
78391171 CCACTCCCAA
*
78391181 AAAATATATATTAT-TTTT
1 AAAATA-ATTTTATATTTT
*
78391199 AAAATAATATCTATATTTT
1 AAAATAAT-TTTATATTTT
78391218 AAAATAATTTTATATT
1 AAAATAATTTTATATT
78391234 AAAATTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 2 0.07
18 16 0.53
19 12 0.40
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
AAAATAATTTTATATTTT
Found at i:78391235 original size:16 final size:19
Alignment explanation
Indices: 78391197--78391238 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 19
78391187 TATATTATTT
*
78391197 TTAAAATAATATCTATATT
1 TTAAAATAATATCTATATA
78391216 TTAAAATAAT-T-T-TATA
1 TTAAAATAATATCTATATA
78391232 TTAAAAT
1 TTAAAAT
78391239 TTGAAACACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 10 0.45
17 1 0.05
18 1 0.05
19 10 0.45
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TTAAAATAATATCTATATA
Found at i:78398228 original size:15 final size:15
Alignment explanation
Indices: 78398208--78398240 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
78398198 ACCAATCAAT
78398208 ATTTATTTTAAA-TAA
1 ATTTA-TTTAAATTAA
78398223 ATTTATTTAAATTAA
1 ATTTATTTAAATTAA
78398238 ATT
1 ATT
78398241 AAATCTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTATTTAAATTAA
Found at i:78398231 original size:19 final size:21
Alignment explanation
Indices: 78398207--78398256 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 21
78398197 AACCAATCAA
78398207 TATTTATTTTAAA-TAAAT-T
1 TATTTATTTTAAATTAAATCT
**
78398226 TATTTAAATTAAATTAAATCT
1 TATTTATTTTAAATTAAATCT
*
78398247 TTTTTATTTT
1 TATTTATTTT
78398257 CTCTTATATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 11 0.46
20 5 0.21
21 8 0.33
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTATTTTAAATTAAATCT
Found at i:78399179 original size:26 final size:26
Alignment explanation
Indices: 78399140--78399206 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 26
78399130 TTTGACACCT
*
78399140 TTTTGTTTTCTTTTCATATTTC-T-TTTG
1 TTTT-TTTTCTTTT-AT-TTTCATATTTC
78399167 TTTTTTTTCTTTTATTTTCATATTTC
1 TTTTTTTTCTTTTATTTTCATATTTC
78399193 TTTTTTTTACTTTT
1 TTTTTTTT-CTTTT
78399207 TTATTTTGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
24 4 0.11
25 3 0.08
26 20 0.56
27 9 0.25
ACGTcount: A:0.09, C:0.10, G:0.03, T:0.78
Consensus pattern (26 bp):
TTTTTTTTCTTTTATTTTCATATTTC
Found at i:78399185 original size:31 final size:29
Alignment explanation
Indices: 78399139--78399213 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 29
78399129 TTTTGACACC
* *
78399139 TTTTTGTTTTCTTTTCATATTTCTTTTGTT
1 TTTTTTTTTTATTTTCATATTTCTTTT-TT
78399169 TTTTTTCTTTTATTTTCATATTTCTTTTTT
1 TTTTTT-TTTTATTTTCATATTTCTTTTTT
**
78399199 TTACTTTTTTATTTT
1 TTTTTTTTTTATTTT
78399214 GTTCCTTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 9 0.22
30 11 0.28
31 20 0.50
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.79
Consensus pattern (29 bp):
TTTTTTTTTTATTTTCATATTTCTTTTTT
Found at i:78399274 original size:21 final size:18
Alignment explanation
Indices: 78399234--78399298 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 18
78399224 AAATTGTATC
78399234 TTTTTATTTTTTTTTAAT
1 TTTTTATTTTTTTTTAAT
*
78399252 TTTTTGATTTTTTGATTTCAT
1 TTTTT-ATTTTTT--TTTAAT
*
78399273 TTTTTCATTTTGTTTT-AT
1 TTTTT-ATTTTTTTTTAAT
78399291 TTTTTATT
1 TTTTTATT
78399299 ATTAACTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 3 0.07
18 12 0.29
19 10 0.24
21 16 0.39
ACGTcount: A:0.14, C:0.03, G:0.05, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTTTTTTAAT
Found at i:78399490 original size:37 final size:34
Alignment explanation
Indices: 78399348--78399490 Score: 119
Period size: 37 Copynumber: 4.0 Consensus size: 34
78399338 TTATAATACT
*
78399348 TTTTTTAAAATTTTAATTATTATTTTTAAAAAT-A
1 TTTTTTAAAATTTTAA-TATTATTTTTAAAATTAA
* * * *
78399382 TTTTTT-TAACTTTAGATATATATTTGTGAAATTAA
1 TTTTTTAAAATTTTA-ATAT-TATTTTTAAAATTAA
* * *
78399417 TTTTTTATATATTTTAAAAATGTATTTTTCAAATTAA
1 TTTTTTA-AAATTTT-AATAT-TATTTTTAAAATTAA
78399454 TTTTTTAAAATTTTACATATTAATTTTTAAATATTAA
1 TTTTTTAAAATTTTA-ATATT-ATTTTTAAA-ATTAA
78399491 CCATATTTTT
Statistics
Matches: 85, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
33 9 0.11
34 17 0.20
35 9 0.11
36 17 0.20
37 32 0.38
38 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (34 bp):
TTTTTTAAAATTTTAATATTATTTTTAAAATTAA
Found at i:78399709 original size:20 final size:20
Alignment explanation
Indices: 78399637--78399711 Score: 59
Period size: 20 Copynumber: 3.7 Consensus size: 20
78399627 CTGGTGGAGC
78399637 CATTTCAAATATTAAACATA
1 CATTTCAAATATTAAACATA
*
78399657 CGTTTCAAATTGTATGTAAA-ATTA
1 CATTTCAAA---TAT-TAAACA-TA
*
78399681 -A--TAAAATATTAAACATA
1 CATTTCAAATATTAAACATA
78399698 CATTTCAAATATTA
1 CATTTCAAATATTA
78399712 TAAAACTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
17 6 0.14
18 5 0.12
20 17 0.40
21 4 0.10
23 4 0.10
24 6 0.14
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (20 bp):
CATTTCAAATATTAAACATA
Found at i:78399775 original size:37 final size:35
Alignment explanation
Indices: 78399728--78399837 Score: 116
Period size: 34 Copynumber: 3.1 Consensus size: 35
78399718 TAATAATTTC
* *
78399728 AAAACTAATTTGAAAAATATATATTTAAAATTTATAA
1 AAAAATAATTTCAAAAATATATATTTAAAA-TT-TAA
* * *
78399765 AAAAATAATTTCACAAATATATATCT-AAAGTTAA
1 AAAAATAATTTCAAAAATATATATTTAAAATTTAA
* *
78399799 AAAAATAATTTTAAAAATA-ATAATTAAAATTGTAA
1 AAAAATAATTTCAAAAATATATATTTAAAATT-TAA
78399834 AAAA
1 AAAA
78399838 TTGTAAAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
33 4 0.07
34 24 0.39
35 8 0.13
36 3 0.05
37 22 0.36
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.34
Consensus pattern (35 bp):
AAAAATAATTTCAAAAATATATATTTAAAATTTAA
Found at i:78399918 original size:13 final size:13
Alignment explanation
Indices: 78399900--78399924 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78399890 TTAAATAAAC
78399900 AAAATAATATAAG
1 AAAATAATATAAG
78399913 AAAATAATATAA
1 AAAATAATATAA
78399925 AACTTAAAAA
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:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
AAAATAATATAAG
Found at i:78400066 original size:21 final size:20
Alignment explanation
Indices: 78400037--78400084 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
78400027 CAAACTTTTC
78400037 AAAAA-TTAAAAAAAAAGTTA
1 AAAAATTTAAAAAAAAA-TTA
*
78400057 AAAAATTTAAAAAGAAATTA
1 AAAAATTTAAAAAAAAATTA
78400077 AAGAAATT
1 AA-AAATT
78400085 GTATTTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (20 bp):
AAAAATTTAAAAAAAAATTA
Found at i:78400155 original size:14 final size:14
Alignment explanation
Indices: 78400136--78400162 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
78400126 AAAAATATGG
78400136 TTAATATTTAAAAA
1 TTAATATTTAAAAA
78400150 TTAATATTTAAAA
1 TTAATATTTAAAA
78400163 TTTTAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAATATTTAAAAA
Found at i:78400177 original size:37 final size:35
Alignment explanation
Indices: 78400136--78400277 Score: 126
Period size: 37 Copynumber: 4.0 Consensus size: 35
78400126 AAAAATATGG
78400136 TTAATATTTAAAAATTAATATTTAAAATTTTAAAAAA
1 TTAAT-TTTAAAAA-TAATATTTAAAATTTTAAAAAA
* * * *
78400173 TTAATTTGAAAAATACTTTTTTAAAATATATAAAAAA
1 TTAATTTTAAAAATA-ATATTTAAAAT-TTTAAAAAA
* * * *
78400210 TTAATTTCACAAAT-ATATATATAAA-GTTAAAAAA
1 TTAATTTTAAAAATAATATTTA-AAATTTTAAAAAA
* * *
78400244 ATATTTTTAAAAATAATAATTAAAATTTTAAAAA
1 TTAATTTTAAAAATAATATTTAAAATTTTAAAAA
78400278 GGTATTATAA
Statistics
Matches: 82, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
34 20 0.24
35 18 0.22
36 19 0.23
37 25 0.30
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (35 bp):
TTAATTTTAAAAATAATATTTAAAATTTTAAAAAA
Found at i:78400383 original size:15 final size:16
Alignment explanation
Indices: 78400330--78400399 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 16
78400320 AGTTAATAAT
*
78400330 AAAAAATAAAACAAAATA
1 AAAAAAT-AAA-AAGATA
78400348 AACAAAATGAAATAAGA-A
1 AA-AAAAT-AAA-AAGATA
78400366 AAAAACA-AAAAAG-TA
1 AAAAA-ATAAAAAGATA
78400381 AAAAAATAAAAAGATA
1 AAAAAATAAAAAGATA
78400397 AAA
1 AAA
78400400 TTTATTAAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
14 1 0.02
15 15 0.34
16 8 0.18
17 3 0.07
18 6 0.14
19 11 0.25
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAAAATAAAAAGATA
Found at i:78400384 original size:9 final size:8
Alignment explanation
Indices: 78400330--78400399 Score: 59
Period size: 8 Copynumber: 8.4 Consensus size: 8
78400320 AGTTAATAAT
78400330 AAAAAATAA
1 AAAAAAT-A
78400339 AACAAAATA
1 AA-AAAATA
*
78400348 AACAAAATG
1 AA-AAAATA
* *
78400357 AAATAAGA
1 AAAAAATA
*
78400365 AAAAAACA
1 AAAAAATA
*
78400373 AAAAAGTA
1 AAAAAATA
78400381 AAAAAATA
1 AAAAAATA
*
78400389 AAAAGATA
1 AAAAAATA
78400397 AAA
1 AAA
78400400 TTTATTAAGG
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
8 32 0.64
9 13 0.26
10 5 0.10
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.10
Consensus pattern (8 bp):
AAAAAATA
Found at i:78400433 original size:17 final size:17
Alignment explanation
Indices: 78400413--78400457 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
78400403 ATTAAGGAAC
*
78400413 AAAATAAAAAAGAAAAT
1 AAAAGAAAAAAGAAAAT
* *
78400430 AAAAGAAATATGAAAAT
1 AAAAGAAAAAAGAAAAT
78400447 AAAAGAAAAAA
1 AAAAGAAAAAA
78400458 ACAAAAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (17 bp):
AAAAGAAAAAAGAAAAT
Found at i:78400466 original size:30 final size:29
Alignment explanation
Indices: 78400413--78400481 Score: 104
Period size: 30 Copynumber: 2.4 Consensus size: 29
78400403 ATTAAGGAAC
* *
78400413 AAAATAAAAAAGAAAATAAAAGAAATATG
1 AAAATAAAAAAAAAAACAAAAGAAATATG
78400442 AAAATAAAAGAAAAAAACAAAAGAAATATG
1 AAAATAAAA-AAAAAAACAAAAGAAATATG
78400472 AAAA-AAAAAA
1 AAAATAAAAAA
78400482 TCAGAAGGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 2 0.05
29 13 0.35
30 22 0.59
ACGTcount: A:0.80, C:0.01, G:0.09, T:0.10
Consensus pattern (29 bp):
AAAATAAAAAAAAAAACAAAAGAAATATG
Found at i:78400480 original size:17 final size:17
Alignment explanation
Indices: 78400424--78400479 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 17
78400414 AAATAAAAAA
78400424 GAAAATAAAAGAAATAT
1 GAAAATAAAAGAAATAT
78400441 GAAAATAAAAG-AA-A-
1 GAAAATAAAAGAAATAT
*
78400455 -AAAACAAAAGAAATAT
1 GAAAATAAAAGAAATAT
78400471 GAAAA-AAAA
1 GAAAATAAAA
78400480 AATCAGAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
13 9 0.26
14 2 0.06
15 2 0.06
16 6 0.18
17 15 0.44
ACGTcount: A:0.77, C:0.02, G:0.11, T:0.11
Consensus pattern (17 bp):
GAAAATAAAAGAAATAT
Found at i:78400670 original size:47 final size:47
Alignment explanation
Indices: 78400616--78400707 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 47
78400606 TTCAACATGA
* *
78400616 CTCCACTAAAAAATAACTTTTTAACAACCCTTGCTGACGTGGCACGG
1 CTCCACTAAAAAATAACTTTTTAACAACCCTTACTAACGTGGCACGG
78400663 CTCCACTAAAAAATAACTTTTTAACAACCCTTACTAACGTGGCAC
1 CTCCACTAAAAAATAACTTTTTAACAACCCTTACTAACGTGGCAC
78400708 TGTAATGACG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.26
Consensus pattern (47 bp):
CTCCACTAAAAAATAACTTTTTAACAACCCTTACTAACGTGGCACGG
Found at i:78403009 original size:13 final size:13
Alignment explanation
Indices: 78402991--78403018 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
78402981 ATGTTTTTCC
78402991 CATGAACTATAAA
1 CATGAACTATAAA
78403004 CATGAACTATAAA
1 CATGAACTATAAA
78403017 CA
1 CA
78403019 AAATAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.18, G:0.07, T:0.21
Consensus pattern (13 bp):
CATGAACTATAAA
Found at i:78403175 original size:20 final size:20
Alignment explanation
Indices: 78403122--78403183 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
78403112 CATCATTATT
78403122 CAAGTTTCTATGGAATATCA
1 CAAGTTTCTATGGAATATCA
* *
78403142 CAA----ATAT-TAATATCA
1 CAAGTTTCTATGGAATATCA
78403157 CAAGTTTCTATGGAATATCA
1 CAAGTTTCTATGGAATATCA
78403177 CAAGTTT
1 CAAGTTT
78403184 TTTGGGGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
15 10 0.30
16 3 0.09
19 3 0.09
20 17 0.52
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (20 bp):
CAAGTTTCTATGGAATATCA
Found at i:78405905 original size:18 final size:18
Alignment explanation
Indices: 78405884--78405940 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
78405874 CTCGAAAAGT
78405884 TAAAAAAATGTAATCAAA
1 TAAAAAAATGTAATCAAA
* *
78405902 TAAAATAATG-CATACAAA
1 TAAAAAAATGTAAT-CAAA
78405920 CTAAAAAAATGTAATCAAA
1 -TAAAAAAATGTAATCAAA
78405939 TA
1 TA
78405941 GAACAATGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
17 2 0.06
18 15 0.47
19 13 0.41
20 2 0.06
ACGTcount: A:0.63, C:0.09, G:0.05, T:0.23
Consensus pattern (18 bp):
TAAAAAAATGTAATCAAA
Found at i:78405925 original size:37 final size:37
Alignment explanation
Indices: 78405884--78405957 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
78405874 CTCGAAAAGT
*
78405884 TAAAAAAATGTAATCAAATAAAATAATGCATACAAAC
1 TAAAAAAATGTAATCAAATAAAACAATGCATACAAAC
*
78405921 TAAAAAAATGTAATCAAATAGAACAATGCATACAAAC
1 TAAAAAAATGTAATCAAATAAAACAATGCATACAAAC
78405958 AATTAATACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.61, C:0.12, G:0.07, T:0.20
Consensus pattern (37 bp):
TAAAAAAATGTAATCAAATAAAACAATGCATACAAAC
Found at i:78405930 original size:19 final size:18
Alignment explanation
Indices: 78405884--78405950 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
78405874 CTCGAAAAGT
*
78405884 TAAAAAAATGTAATCAAA
1 TAAAAAAATGCAATCAAA
*
78405902 TAAAATAATGC-ATACAAA
1 TAAAAAAATGCAAT-CAAA
*
78405920 CTAAAAAAATGTAATCAAA
1 -TAAAAAAATGCAATCAAA
* *
78405939 TAGAACAATGCA
1 TAAAAAAATGCA
78405951 TACAAACAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
17 2 0.05
18 22 0.56
19 13 0.33
20 2 0.05
ACGTcount: A:0.61, C:0.10, G:0.07, T:0.21
Consensus pattern (18 bp):
TAAAAAAATGCAATCAAA
Found at i:78409809 original size:16 final size:17
Alignment explanation
Indices: 78409777--78409815 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
78409767 AAATATTTAA
78409777 AATTAATATATAATATT
1 AATTAATATATAATATT
*
78409794 AATTAATTTA-AATATT
1 AATTAATATATAATATT
*
78409810 ATTTAA
1 AATTAA
78409816 ATACATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTAATATATAATATT
Found at i:78409940 original size:26 final size:25
Alignment explanation
Indices: 78409905--78409971 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
78409895 AACACTTAAA
78409905 ATTTTT-AAAAGTATTTCTCAAAAGT
1 ATTTTTCAAAAGTATTT-TCAAAAGT
* ** *
78409930 ATTTTTCAAAAATACTTTTTTACAGT
1 ATTTTTCAAAAGTA-TTTTCAAAAGT
*
78409956 ACTTTTCAAAAGTATT
1 ATTTTTCAAAAGTATT
78409972 GACAAACACA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 8 0.24
26 23 0.68
27 3 0.09
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.46
Consensus pattern (25 bp):
ATTTTTCAAAAGTATTTTCAAAAGT
Found at i:78409969 original size:13 final size:13
Alignment explanation
Indices: 78409906--78409969 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
78409896 ACACTTAAAA
*
78409906 TTTTTAAAAGTA-
1 TTTTCAAAAGTAC
*
78409918 TTTCTCAAAAGTAT
1 TTT-TCAAAAGTAC
*
78409932 TTTTCAAAAATAC
1 TTTTCAAAAGTAC
** *
78409945 TTTTTTACAGTAC
1 TTTTCAAAAGTAC
78409958 TTTTCAAAAGTA
1 TTTTCAAAAGTA
78409970 TTGACAAACA
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
12 3 0.08
13 34 0.85
14 3 0.08
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (13 bp):
TTTTCAAAAGTAC
Found at i:78417681 original size:19 final size:19
Alignment explanation
Indices: 78417637--78417686 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
78417627 TTTTATTTAT
*
78417637 TTATTTTATTTTGTTAGTTA
1 TTATTTTA-TTTCTTAGTTA
* *
78417657 TTATTTTATTTCTTATTTG
1 TTATTTTATTTCTTAGTTA
*
78417676 TTATTTCATTT
1 TTATTTTATTT
78417687 TAAGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.18, C:0.04, G:0.06, T:0.72
Consensus pattern (19 bp):
TTATTTTATTTCTTAGTTA
Found at i:78422819 original size:40 final size:40
Alignment explanation
Indices: 78422775--78422855 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
78422765 TATTTGACTG
78422775 TGAAAGATCTATTCATGAGCAATAGAATATAATAATTCTA
1 TGAAAGATCTATTCATGAGCAATAGAATATAATAATTCTA
78422815 TGAAAGATCTATTCATGAGCAATAGAATATAATAATTCTA
1 TGAAAGATCTATTCATGAGCAATAGAATATAATAATTCTA
78422855 T
1 T
78422856 CTAAAGCTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.33
Consensus pattern (40 bp):
TGAAAGATCTATTCATGAGCAATAGAATATAATAATTCTA
Found at i:78431364 original size:18 final size:18
Alignment explanation
Indices: 78431341--78431378 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
78431331 ATGTCGGAAG
78431341 TTAGGTTTCAAAATATGT
1 TTAGGTTTCAAAATATGT
78431359 TTAGGTTTCAAAATATGT
1 TTAGGTTTCAAAATATGT
78431377 TT
1 TT
78431379 TTATTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (18 bp):
TTAGGTTTCAAAATATGT
Found at i:78432127 original size:14 final size:16
Alignment explanation
Indices: 78432108--78432139 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
78432098 TTAGGCAACA
78432108 TTAAAATG-T-ATATT
1 TTAAAATGCTAATATT
78432122 TTAAAATGCTAATATT
1 TTAAAATGCTAATATT
78432138 TT
1 TT
78432140 CACAAGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
TTAAAATGCTAATATT
Found at i:78432473 original size:15 final size:16
Alignment explanation
Indices: 78432448--78432481 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
78432438 TAAAAATTAT
78432448 TTTATTATTTTAATAA
1 TTTATTATTTTAATAA
*
78432464 TTTA-TATTTTTATAA
1 TTTATTATTTTAATAA
78432479 TTT
1 TTT
78432482 TTAAAGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTATTTTAATAA
Found at i:78436749 original size:64 final size:65
Alignment explanation
Indices: 78436643--78436770 Score: 179
Period size: 64 Copynumber: 2.0 Consensus size: 65
78436633 ACAAACTTAT
* * *
78436643 TAATAATATAACGACTTTGGATATAGTTTATCTTTAATATTACTATTATGGCACAACTAGATTAC
1 TAATAACATAACGACTTTGGATATAATTTATCTTTAATATTACTATTATAGCACAACTAGATTAC
* * *
78436708 TAATAACATAGCGAC-TTGGATGTAATTTA-CTTTTAGTATTACTATTATAGCACAACTAGATTA
1 TAATAACATAACGACTTTGGATATAATTTATC-TTTAATATTACTATTATAGCACAACTAGATTA
78436771 ATATCTGAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
63 1 0.02
64 42 0.75
65 13 0.23
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (65 bp):
TAATAACATAACGACTTTGGATATAATTTATCTTTAATATTACTATTATAGCACAACTAGATTAC
Found at i:78438473 original size:17 final size:17
Alignment explanation
Indices: 78438451--78438493 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
78438441 TATAATAATA
*
78438451 TCTATTTTTTGTAATTT
1 TCTATTATTTGTAATTT
78438468 TCTATTATTTGTAATTT
1 TCTATTATTTGTAATTT
78438485 TCTA-TATTT
1 TCTATTATTT
78438494 CTATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (17 bp):
TCTATTATTTGTAATTT
Found at i:78438501 original size:16 final size:17
Alignment explanation
Indices: 78438451--78438500 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
78438441 TATAATAATA
* *
78438451 TCTATTTTTTGTAATTT
1 TCTATTATTTCTAATTT
*
78438468 TCTATTATTTGTAATTT
1 TCTATTATTTCTAATTT
78438485 TCTA-TATTTCT-ATTT
1 TCTATTATTTCTAATTT
78438500 T
1 T
78438501 TTTTAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.16
16 6 0.19
17 20 0.65
ACGTcount: A:0.20, C:0.08, G:0.04, T:0.68
Consensus pattern (17 bp):
TCTATTATTTCTAATTT
Found at i:78462440 original size:22 final size:23
Alignment explanation
Indices: 78462415--78462460 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
78462405 CAACCAAATC
78462415 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
78462437 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
78462460 A
1 A
78462461 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:78462466 original size:23 final size:23
Alignment explanation
Indices: 78462422--78462466 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
78462412 ATCAATTCAA
*
78462422 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
78462445 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
78462467 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:78468145 original size:13 final size:13
Alignment explanation
Indices: 78468127--78468153 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
78468117 GATTACCGAG
78468127 GACACAAGGCATA
1 GACACAAGGCATA
78468140 GACACAAGGCATA
1 GACACAAGGCATA
78468153 G
1 G
78468154 TCTGGTTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.22, G:0.26, T:0.07
Consensus pattern (13 bp):
GACACAAGGCATA
Found at i:78469969 original size:16 final size:16
Alignment explanation
Indices: 78469948--78469980 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
78469938 AAGCTTTTCC
78469948 TGTGTA-TATATTACTT
1 TGTGTATTAT-TTACTT
78469964 TGTGTATTATTTACTT
1 TGTGTATTATTTACTT
78469980 T
1 T
78469981 TAATCATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.61
Consensus pattern (16 bp):
TGTGTATTATTTACTT
Found at i:78473497 original size:25 final size:25
Alignment explanation
Indices: 78473459--78473519 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
78473449 TTAAGAGGAA
78473459 AATAAT-AG-ATAAAAATAATA-AA-
1 AATAATAAGAATAAAAATAA-ACAAG
*
78473481 AATGATAAGAATAAAAATAAACAAG
1 AATAATAAGAATAAAAATAAACAAG
78473506 AATAATAAGAATAA
1 AATAATAAGAATAA
78473520 GTAAAAAGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 5 0.15
23 3 0.09
24 12 0.36
25 13 0.39
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (25 bp):
AATAATAAGAATAAAAATAAACAAG
Found at i:78473713 original size:20 final size:21
Alignment explanation
Indices: 78473675--78473713 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
78473665 TAATGATAAT
*
78473675 AATAATAGTTGTAAAAGTAGA
1 AATAATAGTAGTAAAAGTAGA
*
78473696 AATAAT-GTAGTAATAGTA
1 AATAATAGTAGTAAAAGTA
78473714 ATAAAAAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.31
Consensus pattern (21 bp):
AATAATAGTAGTAAAAGTAGA
Found at i:78473927 original size:3 final size:3
Alignment explanation
Indices: 78473849--78473912 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
78473839 CAATGCTAAG
78473849 ATA AT- 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
78473896 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
78473913 GCAAAATGAT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 58 0.97
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:78474054 original size:18 final size:18
Alignment explanation
Indices: 78473997--78474055 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
78473987 TACGTAAATG
*
78473997 TAAATATAAATATAATACA
1 TAAATATAAATA-AATAAA
78474016 TAAA-ATAAAGT-AATAACA
1 TAAATATAAA-TAAATAA-A
*
78474034 TAAATTTAAATAAATAAA
1 TAAATATAAATAAATAAA
78474052 TAAA
1 TAAA
78474056 GTTAGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
17 4 0.12
18 16 0.47
19 14 0.41
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (18 bp):
TAAATATAAATAAATAAA
Done.