Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 25 of 344
Found at i:8494033 original size:130 final size:130
Alignment explanation
Indices: 8493833--8494115 Score: 349
Period size: 130 Copynumber: 2.2 Consensus size: 130
8493823 ACGGAGTATT
* * * * * * * *
8493833 GCCTTCATTTTAAAGGATTTTTAGAAGATACGAGCGAAATTTTGAGGAGATATTTGATTATTTTA
1 GCCTTCGTTTTAAAGGA-TTTTAAAAGACATGAGTGAAA-TTTGAAGTGATATTCGATTATTTTA
* *
8493898 AGCAAACGAGAAATTCGCCAA-CCAACACGTTAGGGCACGATTCCAC-GAGTTGCCAAATATCGC
64 AGCAAACGAGAAATT--ACAACCCAACACGTTAGGGCACGATTCCACGGA-TTGCCAAATATCGA
8493961 A-CATC
126 ATC-TC
* **
8493966 GCCTTCG-TTTAAGGGATTTTAAAAGACATGAGTGAAATTTGAAGTGATATTCGATTATTTTGGG
1 GCCTTCGTTTTAAAGGATTTTAAAAGACATGAGTGAAATTTGAAGTGATATTCGATTATTTTAAG
*
8494030 CAAACGTGAAATTACAACCCAACACGTTAGGGCACGATTCCACGGATTGCCAAATATCGAATCTC
66 CAAACGAGAAATTACAACCCAACACGTTAGGGCACGATTCCACGGATTGCCAAATATCGAATCTC
*
8494095 GTCTTCGTTTTAAAGGATTTT
1 GCCTTCGTTTTAAAGGATTTT
8494116 TTTTTAAAAA
Statistics
Matches: 130, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
128 3 0.02
129 47 0.36
130 49 0.38
131 17 0.13
132 8 0.06
133 6 0.05
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (130 bp):
GCCTTCGTTTTAAAGGATTTTAAAAGACATGAGTGAAATTTGAAGTGATATTCGATTATTTTAAG
CAAACGAGAAATTACAACCCAACACGTTAGGGCACGATTCCACGGATTGCCAAATATCGAATCTC
Found at i:8494082 original size:129 final size:130
Alignment explanation
Indices: 8493833--8494115 Score: 349
Period size: 129 Copynumber: 2.2 Consensus size: 130
8493823 ACGGAGTATT
* * * * * * * *
8493833 GCCTTCATTTTAAAGGATTTTTAGAAGATACGAGCGAAATTTTGAGGAGATATTTGATTATTTTA
1 GCCTTCGTTTTAAAGGA-TTTTAAAAGACATGAGTGAAA-TTTGAAGTGATATTCGATTATTTTA
* *
8493898 AGCAAACGAGAAATTCGCCAACCAACACGTTAGGGCACGATTCCACGAGTTGCCAAATATCGCA-
64 AGCAAACGAGAAATTC-ACAACCAACACGTTAGGGCACGATTCCACGAGTTGCCAAATATCGAAT
8493962 CATC
128 C-TC
* **
8493966 GCCTTCG-TTTAAGGGATTTTAAAAGACATGAGTGAAATTTGAAGTGATATTCGATTATTTTGGG
1 GCCTTCGTTTTAAAGGATTTTAAAAGACATGAGTGAAATTTGAAGTGATATTCGATTATTTTAAG
*
8494030 CAAACGTGAAATT-ACAACCCAACACGTTAGGGCACGATTCCACG-GATTGCCAAATATCGAATC
66 CAAACGAGAAATTCACAA-CCAACACGTTAGGGCACGATTCCACGAG-TTGCCAAATATCGAATC
8494093 TC
129 TC
*
8494095 GTCTTCGTTTTAAAGGATTTT
1 GCCTTCGTTTTAAAGGATTTT
8494116 TTTTTAAAAA
Statistics
Matches: 130, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
128 4 0.03
129 48 0.37
130 47 0.36
131 17 0.13
132 8 0.06
133 6 0.05
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (130 bp):
GCCTTCGTTTTAAAGGATTTTAAAAGACATGAGTGAAATTTGAAGTGATATTCGATTATTTTAAG
CAAACGAGAAATTCACAACCAACACGTTAGGGCACGATTCCACGAGTTGCCAAATATCGAATCTC
Found at i:8496269 original size:21 final size:23
Alignment explanation
Indices: 8496223--8496271 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
8496213 GGCGCGAAGC
*
8496223 GTAC-GGGGCTGTGCTGGCGCGG
1 GTACGGGGGCTGTGCTGGCGAGG
8496245 GTACGGGGGCTGTGCT-G-GAGG
1 GTACGGGGGCTGTGCTGGCGAGG
8496266 GTACGG
1 GTACGG
8496272 AGGTAGCTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 9 0.36
22 5 0.20
23 11 0.44
ACGTcount: A:0.08, C:0.18, G:0.55, T:0.18
Consensus pattern (23 bp):
GTACGGGGGCTGTGCTGGCGAGG
Found at i:8503395 original size:43 final size:43
Alignment explanation
Indices: 8503325--8503482 Score: 123
Period size: 43 Copynumber: 3.7 Consensus size: 43
8503315 GAAAAGCTCG
*
8503325 TACAATGCCAAC-GTCCCAGA-TGTGGTCTTACATGTAAATAAA
1 TACAATGCCAACTGTCCCAGACAG-GGTCTTACATGTAAATAAA
*
8503367 TATCAATGCC-ACTGTCCCAGACAGGGTCTTACATG-AAACCAAA
1 TA-CAATGCCAACTGTCCCAGACAGGGTCTTACATGTAAA-TAAA
* * ** *
8503410 TACGATGCCGA-TGTCCCAGACATAGTCTTACACGTAAATCATAA
1 TACAATGCCAACTGTCCCAGACAGGGTCTTACATGTAAAT-A-AA
* * *
8503454 GT-CGATGCCAAC-ATCCCAGACATGGTCTT
1 -TACAATGCCAACTGTCCCAGACAGGGTCTT
8503483 TCACGATAAC
Statistics
Matches: 96, Mismatches: 10, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
42 33 0.34
43 36 0.38
44 26 0.27
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
TACAATGCCAACTGTCCCAGACAGGGTCTTACATGTAAATAAA
Found at i:8507171 original size:38 final size:39
Alignment explanation
Indices: 8507093--8507180 Score: 90
Period size: 38 Copynumber: 2.3 Consensus size: 39
8507083 AAATTTTATA
* * *
8507093 TTTAATACAATAAAACATTTACCATGTTTATTTGT-GTT
1 TTTAATATAATAAAACATTTACCATGTTTATTGGTATTT
***
8507131 TTTAATATAATAAAACATTTATTGTGTTTA-TGGTAATTTT
1 TTTAATATAATAAAACATTTACCATGTTTATTGGT-A-TTT
8507171 TTTAATATAA
1 TTTAATATAA
8507181 ATACTTTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
37 3 0.07
38 26 0.63
40 12 0.29
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (39 bp):
TTTAATATAATAAAACATTTACCATGTTTATTGGTATTT
Found at i:8507937 original size:14 final size:14
Alignment explanation
Indices: 8507918--8507944 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8507908 AAACATTCAC
8507918 AATTAAAATATAAA
1 AATTAAAATATAAA
8507932 AATTAAAATATAA
1 AATTAAAATATAA
8507945 TAAAAAAAAT
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATTAAAATATAAA
Found at i:8512447 original size:39 final size:40
Alignment explanation
Indices: 8512393--8512474 Score: 148
Period size: 39 Copynumber: 2.0 Consensus size: 40
8512383 TACATGTTAC
8512393 ATAATTTTATTTTTTTACATGAAATTATTATTTAAAACACA
1 ATAATTTTA-TTTTTTACATGAAATTATTATTTAAAACACA
8512434 ATAATTTTA-TTTTTACATGAAATTATTATTTAAAACACA
1 ATAATTTTATTTTTTACATGAAATTATTATTTAAAACACA
8512473 AT
1 AT
8512475 TTGTAAATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 32 0.78
41 9 0.22
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (40 bp):
ATAATTTTATTTTTTACATGAAATTATTATTTAAAACACA
Found at i:8513780 original size:54 final size:54
Alignment explanation
Indices: 8513716--8513826 Score: 170
Period size: 54 Copynumber: 2.1 Consensus size: 54
8513706 CCTTCATCTT
* * * *
8513716 TCTTGCCAAACTTAAATTCTCTTT-CCCCTATTCTACAATCACTTCGGCCACCCA
1 TCTTGCCAAACTTAAATTCCCTTTCCCCCT-TTCTACAACCACTCCGACCACCCA
8513770 TCTTGCCAAACTTAAATTCCCTTTCCCCCTTTCTACAACCACTCCGACCACCCA
1 TCTTGCCAAACTTAAATTCCCTTTCCCCCTTTCTACAACCACTCCGACCACCCA
8513824 TCT
1 TCT
8513827 CACTATTTCT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 47 0.90
55 5 0.10
ACGTcount: A:0.23, C:0.41, G:0.05, T:0.32
Consensus pattern (54 bp):
TCTTGCCAAACTTAAATTCCCTTTCCCCCTTTCTACAACCACTCCGACCACCCA
Found at i:8519213 original size:29 final size:30
Alignment explanation
Indices: 8519167--8519223 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
8519157 GTTCGATTGC
*
8519167 TTTTGGTTGAGTCTTGTTAGTGTAATTAGT
1 TTTTGGTTGAATCTTGTTAGTGTAATTAGT
*
8519197 TTTTGGTTGAAT-TTGTTAGTTTAATTA
1 TTTTGGTTGAATCTTGTTAGTGTAATTA
8519224 TATTCGTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.19, C:0.02, G:0.23, T:0.56
Consensus pattern (30 bp):
TTTTGGTTGAATCTTGTTAGTGTAATTAGT
Found at i:8522702 original size:60 final size:61
Alignment explanation
Indices: 8522584--8522714 Score: 183
Period size: 60 Copynumber: 2.2 Consensus size: 61
8522574 TTGGGAAATC
*
8522584 AACACGGCCTGGACTTCCTCATACGGGTAGACCACACACCCGTGTCTATTTAGCAGACTCT
1 AACACGGCCTGGACTTCCTCATACGGCTAGACCACACACCCGTGTCTATTTAGCAGACTCT
* ** * * **
8522645 AACACGGCCTGGACTTCCTCA-ATGGCTAGACTGCACGCTCGTGTCTATTTATTAGACTCT
1 AACACGGCCTGGACTTCCTCATACGGCTAGACCACACACCCGTGTCTATTTAGCAGACTCT
8522705 AACACGGCCT
1 AACACGGCCT
8522715 AAGCCACCCC
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
60 41 0.66
61 21 0.34
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (61 bp):
AACACGGCCTGGACTTCCTCATACGGCTAGACCACACACCCGTGTCTATTTAGCAGACTCT
Found at i:8524813 original size:25 final size:25
Alignment explanation
Indices: 8524779--8524833 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
8524769 GAGCTCATAC
8524779 GGCCAAGTTACATGCCCATGTGCTA
1 GGCCAAGTTACATGCCCATGTGCTA
*
8524804 GGCCAAGTTACATGCCCGTGTGCTA
1 GGCCAAGTTACATGCCCATGTGCTA
*
8524829 AGCCA
1 GGCCA
8524834 TGTGGAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (25 bp):
GGCCAAGTTACATGCCCATGTGCTA
Found at i:8527772 original size:22 final size:23
Alignment explanation
Indices: 8527734--8527786 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
8527724 TATTTATATG
8527734 ACTCTT-AACAAGCACGTGCTCC
1 ACTCTTCAACAAGCACGTGCTCC
* **
8527756 ACTCTTCAA-AAGTACGTTTTCC
1 ACTCTTCAACAAGCACGTGCTCC
*
8527778 ACTCCTCAA
1 ACTCTTCAA
8527787 TAGCGCATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.28, C:0.34, G:0.09, T:0.28
Consensus pattern (23 bp):
ACTCTTCAACAAGCACGTGCTCC
Found at i:8531935 original size:12 final size:12
Alignment explanation
Indices: 8531918--8531944 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8531908 CTGTTGTCTT
8531918 CCATAAAAGTAC
1 CCATAAAAGTAC
8531930 CCATAAAAGTAC
1 CCATAAAAGTAC
8531942 CCA
1 CCA
8531945 AACCAAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.30, G:0.07, T:0.15
Consensus pattern (12 bp):
CCATAAAAGTAC
Found at i:8537519 original size:18 final size:18
Alignment explanation
Indices: 8537496--8537530 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8537486 TTTTAAAAGC
8537496 TTGAAAATTTAAAAATAT
1 TTGAAAATTTAAAAATAT
*
8537514 TTGAAAATTTTAAAATA
1 TTGAAAATTTAAAAATA
8537531 AATGTTAATT
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:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
TTGAAAATTTAAAAATAT
Found at i:8541102 original size:16 final size:18
Alignment explanation
Indices: 8541064--8541111 Score: 87
Period size: 18 Copynumber: 2.6 Consensus size: 18
8541054 ATGAGTTAAT
8541064 TATATTTATTAGTTAAAA
1 TATATTTATTAGTTAAAA
8541082 TATATTTATTAGTTAAAA
1 TATATTTATTAGTTAAAA
8541100 TATATTTTATTA
1 TATA-TTTATTA
8541112 ATGTTGATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 22 0.76
19 7 0.24
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (18 bp):
TATATTTATTAGTTAAAA
Found at i:8541304 original size:21 final size:21
Alignment explanation
Indices: 8541270--8541312 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
8541260 TGTTACGTAA
8541270 ATTTAATTTAAAAAT-TAAAT
1 ATTTAATTTAAAAATATAAAT
*
8541290 ATTTACATTTGAAAATATAAAT
1 ATTTA-ATTTAAAAATATAAAT
8541312 A
1 A
8541313 AAATTATTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 9 0.45
22 6 0.30
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
ATTTAATTTAAAAATATAAAT
Found at i:8543417 original size:22 final size:23
Alignment explanation
Indices: 8543375--8543417 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
8543365 TTTTAACTTA
*
8543375 ATTTTACAGTTAATATATTAATG
1 ATTTTAAAGTTAATATATTAATG
*
8543398 ATTTTAAAG-TAATATTTTAA
1 ATTTTAAAGTTAATATATTAA
8543418 GTACAAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (23 bp):
ATTTTAAAGTTAATATATTAATG
Found at i:8545384 original size:5 final size:5
Alignment explanation
Indices: 8545374--8545405 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
8545364 TTGTGTGTTC
8545374 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
8545406 TCACACCGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:8545388 original size:9 final size:9
Alignment explanation
Indices: 8545374--8545404 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
8545364 TTGTGTGTTC
8545374 TTTATTTTA
1 TTTATTTTA
8545383 TTTATTTTA
1 TTTATTTTA
8545392 TTTTATTTTA
1 -TTTATTTTA
8545402 TTT
1 TTT
8545405 TTCACACCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:8547275 original size:2 final size:2
Alignment explanation
Indices: 8547268--8547301 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8547258 TTGAGCGAGC
8547268 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
8547302 AAAGAAATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8551586 original size:41 final size:41
Alignment explanation
Indices: 8551533--8551615 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
8551523 TCCTTATAAA
*
8551533 TAGATGGTACCAATAGGGTTAAATACAAAACCTAAAAATAT
1 TAGATGGCACCAATAGGGTTAAATACAAAACCTAAAAATAT
**
8551574 TAGATGGCACCAATAGGGTTAAATACAAAATTTAAAAATAT
1 TAGATGGCACCAATAGGGTTAAATACAAAACCTAAAAATAT
8551615 T
1 T
8551616 TTTACTCTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (41 bp):
TAGATGGCACCAATAGGGTTAAATACAAAACCTAAAAATAT
Found at i:8554212 original size:20 final size:21
Alignment explanation
Indices: 8554164--8554205 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
8554154 GCAAGGAAAG
8554164 AAAGAAAGAAAGAAAAGGAGA
1 AAAGAAAGAAAGAAAAGGAGA
8554185 AAAGAAAG-AAG-AAAGG-GA
1 AAAGAAAGAAAGAAAAGGAGA
8554203 AAA
1 AAA
8554206 TTGAAAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 5 0.24
20 3 0.14
21 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (21 bp):
AAAGAAAGAAAGAAAAGGAGA
Found at i:8555368 original size:21 final size:19
Alignment explanation
Indices: 8555329--8555368 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
8555319 TGAACATGTG
*
8555329 TTTATTGTGAAATTGAATA
1 TTTATTGTGAAAGTGAATA
8555348 TTTATTAGTGAAAAGTGAATA
1 TTTATT-GTG-AAAGTGAATA
8555369 GAATTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.42
Consensus pattern (19 bp):
TTTATTGTGAAAGTGAATA
Found at i:8555403 original size:20 final size:21
Alignment explanation
Indices: 8555380--8555428 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
8555370 AATTATATTG
8555380 AATTGAAAAAAAATAT-AATT
1 AATTGAAAAAAAATATGAATT
**
8555400 AATT-AATTAAAATATGAATT
1 AATTGAAAAAAAATATGAATT
8555420 AATTGAAAA
1 AATTGAAAA
8555429 CTGAAAAGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 9 0.39
20 12 0.52
21 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (21 bp):
AATTGAAAAAAAATATGAATT
Found at i:8555616 original size:6 final size:6
Alignment explanation
Indices: 8555605--8555638 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
8555595 TGTCGGATAT
* *
8555605 TGTTAC TGTTAC CGTTAC CGTTAC TGTTAC TGTT
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TGTT
8555639 TCGGATTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.47
Consensus pattern (6 bp):
TGTTAC
Found at i:8555865 original size:18 final size:18
Alignment explanation
Indices: 8555807--8555997 Score: 104
Period size: 18 Copynumber: 10.6 Consensus size: 18
8555797 ATAACTGAAA
*
8555807 TTACTGAATAATTGACTG
1 TTACTGGATAATTGACTG
**
8555825 TTACCAGATAATTGACTG
1 TTACTGGATAATTGACTG
8555843 TTACTGGAT-ATTAGACTG
1 TTACTGGATAATT-GACTG
* * * *
8555861 TTACTGAATAACTGAATA
1 TTACTGGATAATTGACTG
* *
8555879 TTACTGAATAATTGA-TCA
1 TTACTGGATAATTGACT-G
* * *
8555897 TTACTGAATAACTGATTG
1 TTACTGGATAATTGACTG
* *
8555915 TCACTGAATGAA-TGACTG
1 TTACTGGAT-AATTGACTG
* * * *
8555933 CTACTGAATAACTTAATTG
1 TTACTGGATAA-TTGACTG
* *
8555952 TTACTGAAT-ATATGA-TT
1 TTACTGGATAAT-TGACTG
* *
8555969 TTACTGAATAATTTACTG
1 TTACTGGATAATTGACTG
8555987 TTACTGGATAA
1 TTACTGGATAA
8555998 CCGATTAATT
Statistics
Matches: 139, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
17 19 0.14
18 103 0.74
19 17 0.12
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
TTACTGGATAATTGACTG
Found at i:8555883 original size:36 final size:36
Alignment explanation
Indices: 8555796--8555979 Score: 148
Period size: 36 Copynumber: 5.1 Consensus size: 36
8555786 AAAGGTATAA
*
8555796 AATAACTGAA-ATTACTGAATAATTGACTGTTAC-C
1 AATAACTGAATATTACTGAATAATTGACTGTTACTG
* * * *
8555830 AGATAATTGACTGTTACTGGAT-ATTAGACTGTTACTG
1 A-ATAACTGAATATTACTGAATAATT-GACTGTTACTG
*
8555867 AATAACTGAATATTACTGAATAATTGA-TCATTACTG
1 AATAACTGAATATTACTGAATAATTGACT-GTTACTG
* * * *
8555903 AATAACTGATTGTCACTGAATGAA-TGACTGCTACTG
1 AATAACTGAATATTACTGAAT-AATTGACTGTTACTG
* * *
8555939 AATAACTTAATTGTTACTGAAT-ATATGA-TTTTACTG
1 AATAACTGAA-TATTACTGAATAAT-TGACTGTTACTG
8555975 AATAA
1 AATAA
8555980 TTTACTGTTA
Statistics
Matches: 119, Mismatches: 20, Indels: 20
0.75 0.13 0.13
Matches are distributed among these distances:
34 1 0.01
35 12 0.10
36 86 0.72
37 20 0.17
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.36
Consensus pattern (36 bp):
AATAACTGAATATTACTGAATAATTGACTGTTACTG
Found at i:8555932 original size:72 final size:72
Alignment explanation
Indices: 8555796--8555997 Score: 182
Period size: 72 Copynumber: 2.8 Consensus size: 72
8555786 AAAGGTATAA
* * * * * *
8555796 AATAACTGAA-ATTACTGAATAATTGA-CTGTTAC-CAGATAATTGACTGTTACTGGATATTAGA
1 AATAACTGAATATTACTGAATAATTGATC-ATTACTGA-ATAACTGACTGTCACTGAATAATAGA
*
8555858 CTGTTACTG
64 CTGCTACTG
*
8555867 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGATTGTCACTGAATGAAT-GAC
1 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAAT-AATAGAC
8555931 TGCTACTG
65 TGCTACTG
* * * * * * *
8555939 AATAACTTAATTGTTACTGAAT-ATATGAT-TTTACTGAATAATTTACTGTTACTGGATAA
1 AATAACTGAA-TATTACTGAATAAT-TGATCATTACTGAATAACTGACTGTCACTGAATAA
8555998 CCGATTAATT
Statistics
Matches: 109, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
71 12 0.11
72 79 0.72
73 18 0.17
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (72 bp):
AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAATAATAGACT
GCTACTG
Found at i:8555998 original size:54 final size:53
Alignment explanation
Indices: 8555807--8555997 Score: 165
Period size: 54 Copynumber: 3.5 Consensus size: 53
8555797 ATAACTGAAA
* * * *
8555807 TTACTGAATAATTGACTGTTAC-CAGATAATTGACTGTTACTGGATAT-TAGACTG
1 TTACTGAATAATTGACTGTTACTGA-ATAATTGATTGTTACTGAATATAT-GA-TT
* * * **
8555861 TTACTGAATAACTGAATATTACTGAATAATTGATCATTACTGAATA-ACTGATT
1 TTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTGAATATA-TGATT
* * *
8555914 GTCACTGAATGAA-TGACTGCTACTGAATAACTTAATTGTTACTGAATATATGATT
1 -TTACTGAAT-AATTGACTGTTACTGAATAA-TTGATTGTTACTGAATATATGATT
* *
8555969 TTACTGAATAATTTACTGTTACTGGATAA
1 TTACTGAATAATTGACTGTTACTGAATAA
8555998 CCGATTAATT
Statistics
Matches: 109, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
53 3 0.03
54 82 0.75
55 23 0.21
56 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (53 bp):
TTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTGAATATATGATT
Found at i:8556057 original size:18 final size:18
Alignment explanation
Indices: 8556036--8556070 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8556026 AGTTATTATT
* *
8556036 GAATAATTGATTGTTACC
1 GAATAACTGACTGTTACC
8556054 GAATAACTGACTGTTAC
1 GAATAACTGACTGTTAC
8556071 TAAATAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (18 bp):
GAATAACTGACTGTTACC
Found at i:8558011 original size:25 final size:24
Alignment explanation
Indices: 8557966--8558038 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 24
8557956 TTAGATCCAC
** *
8557966 AGAGCATACCGATTTTTAGCTCGCG
1 AGAGCATACCGA-TTACAGCTCGAG
*
8557991 AGAGCATACCGATCTACAGCTTGAG
1 AGAGCATACCGAT-TACAGCTCGAG
*
8558016 TGAGCATACCGATTCACAGCTCG
1 AGAGCATACCGATT-ACAGCTCG
8558039 TATGAACATA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 2 0.05
25 38 0.95
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (24 bp):
AGAGCATACCGATTACAGCTCGAG
Found at i:8558048 original size:25 final size:25
Alignment explanation
Indices: 8557995--8558049 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
8557985 CTCGCGAGAG
* *
8557995 CATACCGATCTACAGCTTGAGTGAG
1 CATACCGATCTACAGCTCGAGTGAA
8558020 CATACCGAT-TCACAGCTCGTA-TGAA
1 CATACCGATCT-ACAGCTCG-AGTGAA
8558045 CATAC
1 CATAC
8558050 ATGTACATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 1 0.04
25 24 0.92
26 1 0.04
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (25 bp):
CATACCGATCTACAGCTCGAGTGAA
Found at i:8561053 original size:226 final size:226
Alignment explanation
Indices: 8560656--8561084 Score: 680
Period size: 226 Copynumber: 1.9 Consensus size: 226
8560646 TTGCATAGAT
* * *
8560656 GTGAATATTGAGATATTATGGTGATGAGTTTATTTGAAATACCAAAATTTTGAATTGGTATTCAA
1 GTGAATATTGAGATATTATGGCGATGAGTTGATTTGAAATACCAAAATTTTGAATTGCTATTCAA
*
8560721 TTGTGATCATTCTATGAGTTGATATTTTGTACAACTTGTCTATTGTTTGCACTGGTTTTCCAGTG
66 TTGTGATCATTCTATAAGTTGATATTTTGTACAACTTGTCTATTGTTTGCACTGGTTTTCCAGTG
* *
8560786 ATTGAACTTACACTGAGCTCTATAAGCGCACTCCCCCTCTTATTTCCATATTTACAAATAACCCA
131 ATTGAACTCACACTGAGCTCCATAAGCGCACTCCCCCTCTTATTTCCATATTTACAAATAACCCA
*
8560851 CCAGGTTATGACGCGGACTCGGTATACAGAG
196 CCAAGTTATGACGCGGACTCGGTATACAGAG
*
8560882 GTGAATATTGAGATATTATGGCGATGAGTTGATTTGAAATACCAAAATTTT-AGATTTCTATTCA
1 GTGAATATTGAGATATTATGGCGATGAGTTGATTTGAAATACCAAAATTTTGA-ATTGCTATTCA
* * **
8560946 ATTGTGATCATTCTATAAGTTGATATTTTGTACGATTTGTCTATTGTTTGCACTGGTTTTCTTGT
65 ATTGTGATCATTCTATAAGTTGATATTTTGTACAACTTGTCTATTGTTTGCACTGGTTTTCCAGT
* * * * * *
8561011 GATTGAACTCATACTGAGCTCCGTAAGTGCACTCCTCCTCTTATTTCCATCTTTACAGATAACCC
130 GATTGAACTCACACTGAGCTCCATAAGCGCACTCCCCCTCTTATTTCCATATTTACAAATAACCC
8561076 ACCAAGTTA
195 ACCAAGTTA
8561085 GGATGCAGAT
Statistics
Matches: 184, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
225 1 0.01
226 183 0.99
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (226 bp):
GTGAATATTGAGATATTATGGCGATGAGTTGATTTGAAATACCAAAATTTTGAATTGCTATTCAA
TTGTGATCATTCTATAAGTTGATATTTTGTACAACTTGTCTATTGTTTGCACTGGTTTTCCAGTG
ATTGAACTCACACTGAGCTCCATAAGCGCACTCCCCCTCTTATTTCCATATTTACAAATAACCCA
CCAAGTTATGACGCGGACTCGGTATACAGAG
Found at i:8574383 original size:21 final size:21
Alignment explanation
Indices: 8574357--8574400 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
8574347 GGCAACCCAA
* *
8574357 TAGGATGTTCAAATTCACACC
1 TAGGATGCTCAAAATCACACC
8574378 TAGGATGCTCAAAATCACACC
1 TAGGATGCTCAAAATCACACC
8574399 TA
1 TA
8574401 ATCATAAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (21 bp):
TAGGATGCTCAAAATCACACC
Found at i:8576808 original size:21 final size:20
Alignment explanation
Indices: 8576784--8576827 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
8576774 AACATAAAGC
*
8576784 AAATAAAAATGAATAGAATAT
1 AAATAAAAATAAATA-AATAT
* *
8576805 AAATAATAATAAATAAATTT
1 AAATAAAAATAAATAAATAT
8576825 AAA
1 AAA
8576828 ACAAATAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (20 bp):
AAATAAAAATAAATAAATAT
Found at i:8577188 original size:27 final size:26
Alignment explanation
Indices: 8577103--8577194 Score: 94
Period size: 27 Copynumber: 3.5 Consensus size: 26
8577093 ATAAGCTACC
* * *
8577103 TAATACATGAAAAGAATCTAAAATAAA
1 TAATATAT-AAAAAAATTTAAAATAAA
* * *
8577130 TAATATATATAAAAGTTTAGAATAAA
1 TAATATATAAAAAAATTTAAAATAAA
*
8577156 TAATATATAAAAATAATTTAAAATGAA
1 TAATATATAAAAA-AATTTAAAATAAA
*
8577183 TGATATATAAAA
1 TAATATATAAAA
8577195 TATTTTTTTA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 25 0.47
27 28 0.53
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (26 bp):
TAATATATAAAAAAATTTAAAATAAA
Found at i:8582890 original size:18 final size:17
Alignment explanation
Indices: 8582837--8582897 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 17
8582827 TTTTAATGAT
* *
8582837 TTTTTTTTAATTTTTAA
1 TTTTTTTAAATTTATAA
* * *
8582854 TGTTTTTAATTTTTCTAA
1 TTTTTTTAA-ATTTATAA
8582872 TATTTTTTAAATTTATAA
1 T-TTTTTTAAATTTATAA
8582890 TTTCTTTT
1 TTT-TTTT
8582898 TTACTTTTGT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
17 9 0.26
18 18 0.53
19 7 0.21
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70
Consensus pattern (17 bp):
TTTTTTTAAATTTATAA
Found at i:8584192 original size:246 final size:247
Alignment explanation
Indices: 8583750--8584228 Score: 759
Period size: 246 Copynumber: 1.9 Consensus size: 247
8583740 TTGAATGGCA
* **
8583750 GACCTCTCATCTATGTCAAGTAAGTAGTTTTGATTGTTCAAGCTTGTAAGATCTCGGGCTCTCAA
1 GACCTCTCATCTATATCAAGTAAGTAGTTTTGATCATTCAAGCTTGTAAGATCTCGGGCTCTCAA
* * * *
8583815 GTGTCTTAGCTCACAACGTGATCTTGGTCAAAAGAGCTAACCTACAAGGCATGAGCTCGCAAGGT
66 GTGTCTTAGCTCACAACATGATCTTAGTAAAAAGAGCTAACCAACAAGGCATGAGCTCGCAAGGT
* ** *
8583880 GGCTCACAATTATAACAACTCAATTTTTAGTAGTACTGAAAAAGGCAGTTTTTAAACCCTATTTT
131 GGCTCACAATTATAACAACTCAATTTTCAGTAGTACTGAAAAAGGCAGTTTCGAAACCCCATTTT
8583945 TGTAA-CTGAG-TCTGTAAATA-TAAATATGAATATTTACGGGGTTAATATAAG
196 TGTAATC-GAGTTC-GTAAATATTAAATATGAATATTTACGGGGTTAATATAAG
* *
8583996 GACCTCTCATCTATATCAAGTAAGTGGTTTTGATCATTCAAGCTTGTAAGGTCTCGGGCTCTCAA
1 GACCTCTCATCTATATCAAGTAAGTAGTTTTGATCATTCAAGCTTGTAAGATCTCGGGCTCTCAA
8584061 GTGTCTTAGCTCACAACATGATCTTAGTAAAAAGAGCTAACCAACAAGGCATGAGCTCGCAAGGT
66 GTGTCTTAGCTCACAACATGATCTTAGTAAAAAGAGCTAACCAACAAGGCATGAGCTCGCAAGGT
* * *
8584126 GGCTCACAATTGTAACAACTCGATTTTCAGTAGTACCT-AAAAAGGCAGTTTCGGAACCCCATTT
131 GGCTCACAATTATAACAACTCAATTTTCAGTAGTA-CTGAAAAAGGCAGTTTCGAAACCCCATTT
8584190 TTGTAATCGAGTTCGTAAATATTAAATATGAATATTTAC
195 TTGTAATCGAGTTCGTAAATATTAAATATGAATATTTAC
8584229 AAGATTAATA
Statistics
Matches: 213, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
246 191 0.90
247 22 0.10
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (247 bp):
GACCTCTCATCTATATCAAGTAAGTAGTTTTGATCATTCAAGCTTGTAAGATCTCGGGCTCTCAA
GTGTCTTAGCTCACAACATGATCTTAGTAAAAAGAGCTAACCAACAAGGCATGAGCTCGCAAGGT
GGCTCACAATTATAACAACTCAATTTTCAGTAGTACTGAAAAAGGCAGTTTCGAAACCCCATTTT
TGTAATCGAGTTCGTAAATATTAAATATGAATATTTACGGGGTTAATATAAG
Found at i:8589713 original size:46 final size:46
Alignment explanation
Indices: 8589661--8589836 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
8589651 TATTTTGGCA
8589661 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
8589707 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
8589752 CATCCGAGCTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
8589800 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
8589837 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:8589758 original size:93 final size:93
Alignment explanation
Indices: 8589657--8589829 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
8589647 AGGATATTTT
* * *
8589657 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
8589722 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
8589750 GGCATCCGAGCTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
8589815 TTGAGTCTGAGTTCG
66 TTGAGTCCGAGTTCG
8589830 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:8592839 original size:30 final size:29
Alignment explanation
Indices: 8592805--8592861 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
8592795 ATAGTATCGT
8592805 ATCTTGGATTTCTTTATTCTGGGTTTCTCA
1 ATCTTGGATTTCTTTATTC-GGGTTTCTCA
* *
8592835 ATCTTGGATTTTTTTATTCGGTTTTCT
1 ATCTTGGATTTCTTTATTCGGGTTTCT
8592862 TGTTATCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.12, C:0.14, G:0.16, T:0.58
Consensus pattern (29 bp):
ATCTTGGATTTCTTTATTCGGGTTTCTCA
Found at i:8595649 original size:46 final size:45
Alignment explanation
Indices: 8595597--8595769 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
8595587 TTGGGCATCT
8595597 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACGTCC
* * *
8595643 GAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAC---G--TCC
* *
8595690 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGG-AACGTCC
* * *
8595736 GAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
8595770 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 60 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACGTCC
Found at i:8595749 original size:93 final size:93
Alignment explanation
Indices: 8595590--8595761 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
8595580 AGGATATTTG
* *
8595590 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
8595655 TTGAGTCCGAGTTCATGAGATGTAACTA
66 TTGAGTCCGAGTTCATGAGATGTAACTA
* *
8595683 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAAACGCCCGAGCTCATTGA
1 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AACGCCCGAACTCATTGA
8595747 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
8595762 GCTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCATGAGATGTAACTA
Found at i:8601936 original size:52 final size:53
Alignment explanation
Indices: 8601880--8601989 Score: 213
Period size: 53 Copynumber: 2.1 Consensus size: 53
8601870 GTTAATTTCT
8601880 TTCATAAAAAAAAA-CTTTATAGACAAGTTAATTCTTAATATTGGAATCAATC
1 TTCATAAAAAAAAACCTTTATAGACAAGTTAATTCTTAATATTGGAATCAATC
8601932 TTCATAAAAAAAAACCTTTATAGACAAGTTAATTCTTAATATTGGAATCAATC
1 TTCATAAAAAAAAACCTTTATAGACAAGTTAATTCTTAATATTGGAATCAATC
8601985 TTCAT
1 TTCAT
8601990 CGAAAAGTAA
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 14 0.25
53 43 0.75
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (53 bp):
TTCATAAAAAAAAACCTTTATAGACAAGTTAATTCTTAATATTGGAATCAATC
Found at i:8604495 original size:99 final size:99
Alignment explanation
Indices: 8604324--8604547 Score: 270
Period size: 99 Copynumber: 2.3 Consensus size: 99
8604314 CTTATAGTCC
* * * * *
8604324 GCTGATTTACGATCACAACTGTCATTTTTCAAGCTCGCTGATTTACAAACATGGCTTAAGTTCAT
1 GCTGATTTACGATCACAACTATCATTTTTAAAGCTCGCTAATTTACAAACAAGGCTTAAGTTAAT
*
8604389 TGATTTACGATCATAAATAGTACATTAAAAGTTT
66 TGATTTACAATCATAAATAGTACATTAAAAGTTT
* * * * *
8604423 GCTGATTTACTATCACAACTATCATTTTTAAAGCTTGCTAATTTACGATCAAGGCTTCAGTTAAT
1 GCTGATTTACGATCACAACTATCATTTTTAAAGCTCGCTAATTTACAAACAAGGCTTAAGTTAAT
* * * * *
8604488 TGATTTACAATCATAAAAACTTCATTAAGAGTTC
66 TGATTTACAATCATAAATAGTACATTAAAAGTTT
* **
8604522 ACCAATTTACGATCACAACT-TCATTT
1 GCTGATTTACGATCACAACTATCATTT
8604548 AAATAATTTG
Statistics
Matches: 105, Mismatches: 20, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
98 6 0.06
99 99 0.94
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (99 bp):
GCTGATTTACGATCACAACTATCATTTTTAAAGCTCGCTAATTTACAAACAAGGCTTAAGTTAAT
TGATTTACAATCATAAATAGTACATTAAAAGTTT
Found at i:8605049 original size:11 final size:11
Alignment explanation
Indices: 8605035--8605079 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
8605025 AGATAAATAT
8605035 TATTTTATTAA
1 TATTTTATTAA
*
8605046 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
8605059 TATTTTATTAT
1 TATTTTATTAA
8605070 TATTTTATTA
1 TATTTTATTA
8605080 GTAGATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:8606930 original size:46 final size:46
Alignment explanation
Indices: 8606863--8607315 Score: 631
Period size: 46 Copynumber: 9.8 Consensus size: 46
8606853 GCTCTCTGAA
** * * *
8606863 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATTAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
** *
8606909 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
*
8606955 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
*
8607001 GA-GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 -ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
** *
8607047 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* *
8607093 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAATGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
** * *
8607139 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGACAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
*
8607185 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* *
8607231 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* * * * *
8607277 A-GAAAATGAGTAAAACCATAGTTGAAAGACACTATGGCA
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
8607316 TCATGTCAAA
Statistics
Matches: 371, Mismatches: 33, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
45 2 0.01
46 368 0.99
47 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
Found at i:8607113 original size:138 final size:138
Alignment explanation
Indices: 8606873--8607315 Score: 717
Period size: 138 Copynumber: 3.2 Consensus size: 138
8606863 ATGAAATGTG
* * * *
8606873 TAAGACCATGGTTGAAAGATACCATGGCAACATTATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGTGTAAGACCATGGTTGAAAGA
8606938 TACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACGA
66 TACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACGA
8607003 GAAATGAA
131 GAAATGAA
8607011 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGTGTAAGACCATGGTTGAAAGA
** * *
8607076 TACCATGGCAATGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAATGTGACGG
66 TACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACGA
8607141 GAAATGAA
131 GAAATGAA
* **
8607149 TAAGACCATGGTTGAAAGATACCATGACAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGTGTAAGACCATGGTTGAAAGA
*
8607214 TACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC-A
66 TACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACGA
*
8607278 GAAAATGAG
131 G-AAATGAA
* * * *
8607287 TAAAACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
8607316 TCATGTCAAA
Statistics
Matches: 282, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
137 1 0.00
138 281 1.00
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.20
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGTGTAAGACCATGGTTGAAAGA
TACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACGA
GAAATGAA
Found at i:8612589 original size:39 final size:39
Alignment explanation
Indices: 8612465--8612569 Score: 174
Period size: 39 Copynumber: 2.7 Consensus size: 39
8612455 GAGATTGGAA
*
8612465 ATATCTGGACATGAGATCCGCAGGCTATATGCTAGAAAT
1 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
*
8612504 ATATCCGGACATGAGATCCGCAGGCTATATGCTTGAAAT
1 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
* *
8612543 ATATCCGGACTTGAGGTCCGCAGGCTA
1 ATATCCGGACATGAGATCCGCAGGCTA
8612570 CGTGCTGGGA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 62 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (39 bp):
ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
Found at i:8614401 original size:39 final size:38
Alignment explanation
Indices: 8614317--8614404 Score: 104
Period size: 39 Copynumber: 2.3 Consensus size: 38
8614307 ATGAGATTGG
* *
8614317 AAATATCCGGACATGAGATCCGCAGGTTATATGCTAGA
1 AAATATCCGGACATGAGATCCGCAGGCTACATGCTAGA
* * * *
8614355 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGGA
1 AA-ATATCCGGACATGAGATCCGCAGGCTACATGCT-AGA
8614395 AAATATCCGG
1 AAATATCCGG
8614405 GTTAAAGACC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
38 2 0.05
39 36 0.86
40 4 0.10
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (38 bp):
AAATATCCGGACATGAGATCCGCAGGCTACATGCTAGA
Found at i:8622495 original size:39 final size:39
Alignment explanation
Indices: 8622450--8622574 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
8622440 GAGATTGGAA
8622450 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
1 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
8622489 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
1 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
* * * **
8622528 ATATCCGGACTTGAGGTCCGTAGGCTACGTGCTAGGAAAT
1 ATATCCGGACATGAGATCCGCAGGCTATATGCTA-GAAAT
8622568 -TATCCGG
1 ATATCCGG
8622575 GTTAAAGACC
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 75 0.94
40 5 0.06
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.24
Consensus pattern (39 bp):
ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
Found at i:8625741 original size:47 final size:47
Alignment explanation
Indices: 8625684--8625987 Score: 437
Period size: 47 Copynumber: 6.4 Consensus size: 47
8625674 ATTGATGTAC
* * *
8625684 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * *
8625731 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * * *
8625780 AAGTGTATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
8625827 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
8625874 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
8625921 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
8625968 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
8625988 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 192 0.81
49 46 0.19
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:8633240 original size:27 final size:27
Alignment explanation
Indices: 8633198--8633253 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
8633188 AAGCCTCATT
8633198 TAATTAGTTGACCTCCATGAGACGTTC
1 TAATTAGTTGACCTCCATGAGACGTTC
* *
8633225 TAATTAGTTGATCTCCATGAGATGTTC
1 TAATTAGTTGACCTCCATGAGACGTTC
8633252 TA
1 TA
8633254 TGTGCAATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (27 bp):
TAATTAGTTGACCTCCATGAGACGTTC
Found at i:8641946 original size:13 final size:13
Alignment explanation
Indices: 8641928--8641953 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8641918 TTAGTTACAA
8641928 GAAGATGAAATGT
1 GAAGATGAAATGT
8641941 GAAGATGAAATGT
1 GAAGATGAAATGT
8641954 TTAAGGTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (13 bp):
GAAGATGAAATGT
Found at i:8645098 original size:26 final size:27
Alignment explanation
Indices: 8644955--8645119 Score: 126
Period size: 26 Copynumber: 6.3 Consensus size: 27
8644945 ATGTGATATC
*
8644955 TAGCAGGCC-ATGAGCCGATGATTAAT
1 TAGCAGGCCTATGAGCCGATGATTATT
* * *
8644981 TAGTAGG-CTATAAGCCGATGATTAAT
1 TAGCAGGCCTATGAGCCGATGATTATT
* * *
8645007 TAGTA-GACTATGAGCCGGTGATTATT
1 TAGCAGGCCTATGAGCCGATGATTATT
* * * * *
8645033 TAGCAAGCCT-TAAGCAGGTAATTATT
1 TAGCAGGCCTATGAGCCGATGATTATT
* *
8645059 TAGCAAG-ATATGAGCCGATGATTATT
1 TAGCAGGCCTATGAGCCGATGATTATT
* * * *
8645085 TAACAGGCCT-TGAGCTGGTGGTTATT
1 TAGCAGGCCTATGAGCCGATGATTATT
8645111 TAGCAGGCC
1 TAGCAGGCC
8645120 ATAAGTCGGT
Statistics
Matches: 112, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
25 3 0.03
26 105 0.94
27 4 0.04
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (27 bp):
TAGCAGGCCTATGAGCCGATGATTATT
Found at i:8645110 original size:52 final size:52
Alignment explanation
Indices: 8645015--8645115 Score: 139
Period size: 52 Copynumber: 1.9 Consensus size: 52
8645005 ATTAGTAGAC
* *
8645015 TATGAGCCGGTGATTATTTAGCAAGCCTTAAGCAGGTAATTATTTAGCAAGA
1 TATGAGCCGATGATTATTTAACAAGCCTTAAGCAGGTAATTATTTAGCAAGA
* * * **
8645067 TATGAGCCGATGATTATTTAACAGGCCTTGAGCTGGTGGTTATTTAGCA
1 TATGAGCCGATGATTATTTAACAAGCCTTAAGCAGGTAATTATTTAGCA
8645116 GGCCATAAGT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.33
Consensus pattern (52 bp):
TATGAGCCGATGATTATTTAACAAGCCTTAAGCAGGTAATTATTTAGCAAGA
Found at i:8659371 original size:536 final size:537
Alignment explanation
Indices: 8658388--8659420 Score: 1338
Period size: 536 Copynumber: 1.9 Consensus size: 537
8658378 ATGACTTTAG
* * * * * * *
8658388 TTCATTGATTTACGATCTTGAACGCTTCTTGTTTCACAAGGAATGTAAATTCACTAAACTCGTTC
1 TTCATTCATTTACGATCATGAACACTACTTGATTCACAAGGAATGTAAATTCACTAAACTAGATC
* * * * *
8658453 TAAGCATGGCTAGAGATAATTTTCAACTAGCTACTTCTAACCTCTCTACCCTTCAGTCCAAGTTA
66 TAAGCAAGGCTAAAGATAATTTTCAACTAGCTAATTCTAACCTCTCTACCCTTCAGACCAAATTA
*
8658518 GATGCTAGAGATGATGAATATAGGCGTGTTGAGGAATAACTCAAAACTGACCTTAAAAAAAGGAG
131 GATGCTAGAGATGATGAATATAGACGTGTTGAGGAATAACTCAAAACTGACCTTAAAAAAAGGAG
* * * *
8658583 GATAGAGTAATCAATTTTGTTACATTGTCTTTGTGAGGCTGAATCTACTTCTTTTCACCTTATGC
196 GATAGAGTAATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTATTCACCATAAGC
* * * * * * *
8658648 CTTAAATGAGGTTTGAAGTGGATCGATTTACTCAAAAAATAAGGAACATTCTGAAAAGCTTCAGT
261 CTAAAACGAGGCTTGAAATGGATCGATCTACTCAAAAAACAAGGAACATTCTAAAAAGCTTCAGT
* ** * * ** * *
8658713 AGATTTCCGATCACGACCTTCTACTTGCAGGATTTTACAAAATTTCACCGTCCTTTGATTTATGA
326 AGATTTCCGATCACAACCTTCTACTTAAAAGATTTTACAAAATCTCACCGTCCACTAATTTACGA
*** * *
8658778 TCACAACTGTCATTTTTAAAGCTTGTTGATTTACAAACACGACATCAGTTTATTGATTTAC-GAT
391 TCACAACTGTCATTTTTAAAGCTCACTAATTTACAAACACGACATCAGTTCATTGATTTACAG-T
** * **
8658842 AATAAAAGCTACATTAAGAATTCACCAATTTATGATCGCAACTATCATTTTTAAAGCTCATCGAT
455 AATAAAAAATAAATTAAGAATTCACCAATTTACAATCGCAACTATCATTTTTAAAGCTCATCGAT
8658907 TTACTATCACAGCTTCAA
520 TTACTATCACAGCTTCAA
* ** *
8658925 TTCATTCATTTATGATCATGAACACTACTT-ATTCACAAGGAATGTAAATTTGCTGAACTAGATC
1 TTCATTCATTTACGATCATGAACACTACTTGATTCACAAGGAATGTAAATTCACTAAACTAGATC
* * * * *
8658989 TAAGCAAGG-TCAAAGATGATTTTCAACTAGTTAATTCTGACCTCTCTGCCCTTCAGAGCAAATT
66 TAAGCAAGGCT-AAAGATAATTTTCAACTAGCTAATTCTAACCTCTCTACCCTTCAGACCAAATT
* * *
8659053 AGATGCTAGAGATGATGAATATAGACTTGTTGAGGAATAACTCAAAACTGACCTTGAAAGAAGGA
130 AGATGCTAGAGATGATGAATATAGACGTGTTGAGGAATAACTCAAAACTGACCTTAAAAAAAGGA
* *
8659118 GGATAGA-TAAATCAATTTTGTTACATTGTCTTTGTGAGGTTGAAGCTACTTCTATTCGCCATAA
195 GGATAGAGT-AATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTATTCACCATAA
* * * * *
8659182 GTCTAAAACGAGGCTTGAAATGGATTGATCTGCTTAAAAATACAATGAACATTCTAAAAAGCTTC
259 GCCTAAAACGAGGCTTGAAATGGATCGATCTACTCAAAAA-ACAAGGAACATTCTAAAAAGCTTC
* * *
8659247 AGTAGATTTCTGATCACAACCTTCTATTTAAAAGATTTTAC-AAATCTCACGGTCCACTAATTTA
323 AGTAGATTTCCGATCACAACCTTCTACTTAAAAGATTTTACAAAATCTCACCGTCCACTAATTTA
* * * * *
8659311 CGATCACAACTGTTATTTTTAAAGCTCACTAATTTACGAACACGGCTTCCGTTCATTGATTTACA
388 CGATCACAACTGTCATTTTTAAAGCTCACTAATTTACAAACACGACATCAGTTCATTGATTTACA
* * *
8659376 GTCATAAAAAATAAATTAAGAGTTCACCGATTTACAATCGCAACT
453 GTAATAAAAAATAAATTAAGAATTCACCAATTTACAATCGCAACT
8659421 CCACTTAAAC
Statistics
Matches: 419, Mismatches: 73, Indels: 9
0.84 0.15 0.02
Matches are distributed among these distances:
535 2 0.00
536 335 0.80
537 82 0.20
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (537 bp):
TTCATTCATTTACGATCATGAACACTACTTGATTCACAAGGAATGTAAATTCACTAAACTAGATC
TAAGCAAGGCTAAAGATAATTTTCAACTAGCTAATTCTAACCTCTCTACCCTTCAGACCAAATTA
GATGCTAGAGATGATGAATATAGACGTGTTGAGGAATAACTCAAAACTGACCTTAAAAAAAGGAG
GATAGAGTAATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTATTCACCATAAGC
CTAAAACGAGGCTTGAAATGGATCGATCTACTCAAAAAACAAGGAACATTCTAAAAAGCTTCAGT
AGATTTCCGATCACAACCTTCTACTTAAAAGATTTTACAAAATCTCACCGTCCACTAATTTACGA
TCACAACTGTCATTTTTAAAGCTCACTAATTTACAAACACGACATCAGTTCATTGATTTACAGTA
ATAAAAAATAAATTAAGAATTCACCAATTTACAATCGCAACTATCATTTTTAAAGCTCATCGATT
TACTATCACAGCTTCAA
Found at i:8662005 original size:134 final size:134
Alignment explanation
Indices: 8661765--8662083 Score: 431
Period size: 134 Copynumber: 2.4 Consensus size: 134
8661755 TGATCATGTG
* ** * * *
8661765 TCATTTTTAAACCTTGCTGATTTACGATCATGGTTTCAGTTTATTGATTTACAATCATGAACAAT
1 TCATTTTTAAAGCTCACTGATTTACGATCATGGCTTCAGTTAATTGATTTACAATAATGAACAAT
* * *
8661830 TCATTAAGAGTTTGTCAATTTACGGTCACAACTCCACTTAAACAGTTCGCTAATTTACAATCACA
66 TCATTAAGAGTTCGTCAATTTACGATCACAACTCCACTTAAACAGTTCACTAATTTACAATCACA
8661895 ACTA
131 ACTA
* * *
8661899 TCATTTTTAAAGCTCACCGATTTACGATCATGGCTTCAGTTAATTGATTTACGATAATGAACACT
1 TCATTTTTAAAGCTCACTGATTTACGATCATGGCTTCAGTTAATTGATTTACAATAATGAACAAT
* * * * *
8661964 TCATTAAGAGTTCGTCAATTTACGATCGCAACTCCACTTAAACAGTTCATTGATTTACGATCGCA
66 TCATTAAGAGTTCGTCAATTTACGATCACAACTCCACTTAAACAGTTCACTAATTTACAATCACA
8662029 ACTA
131 ACTA
* * * * * *
8662033 TCATTTTTAGAGCTCATTGATTTCCAATCACGGCTTTAGTTAATTGATTTA
1 TCATTTTTAAAGCTCACTGATTTACGATCATGGCTTCAGTTAATTGATTTA
8662084 TGATCTTGAA
Statistics
Matches: 161, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
134 161 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (134 bp):
TCATTTTTAAAGCTCACTGATTTACGATCATGGCTTCAGTTAATTGATTTACAATAATGAACAAT
TCATTAAGAGTTCGTCAATTTACGATCACAACTCCACTTAAACAGTTCACTAATTTACAATCACA
ACTA
Found at i:8664541 original size:10 final size:10
Alignment explanation
Indices: 8664516--8664566 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
8664506 CTGTTTTAAT
8664516 ATAATTTTTA
1 ATAATTTTTA
8664526 AT-ATTTTTA
1 ATAATTTTTA
*
8664535 ATAATTTATA
1 ATAATTTTTA
* *
8664545 TTTATTTTTA
1 ATAATTTTTA
* *
8664555 AGATTTTTTA
1 ATAATTTTTA
8664565 AT
1 AT
8664567 TTTTAGAATT
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
9 9 0.29
10 22 0.71
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:8671741 original size:42 final size:42
Alignment explanation
Indices: 8671682--8671802 Score: 170
Period size: 43 Copynumber: 2.9 Consensus size: 42
8671672 AATGTGACAT
* *
8671682 TCGGGCTTTGAGCCTAGCAGGCGTAATGCCGGTGAAATGATG
1 TCGGGCTTCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATA
* *
8671724 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGC-GTAATGCCGGTGAAATGATA
* * *
8671767 TCAGTCTTCGAGCCTAGCAGGCGAAATGCCGGTGAA
1 TCGGGCTTCGAGCCTAGCAGGCGTAATGCCGGTGAA
8671803 TGAGTTCAGA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 32 0.46
43 37 0.54
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.22
Consensus pattern (42 bp):
TCGGGCTTCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATA
Found at i:8671838 original size:41 final size:41
Alignment explanation
Indices: 8671694--8671882 Score: 132
Period size: 43 Copynumber: 4.6 Consensus size: 41
8671684 GGGCTTTGAG
* * * ** *
8671694 CCTAGCAGGCGTAATGCCGGTGAAATG-ATGTCGGGCTTCGAG
1 CCTAGCAGGCTTAATGCCGGTG-AATGAAT-TCAGACTTAAAA
* ** *
8671736 CCTAGCAGGCTATAATGCCGGTGAGATG-ATATCAGTCTTCGAG
1 CCTAGCAGGCT-TAATGCCGGTGA-ATGAAT-TCAGACTTAAAA
** * *
8671779 CCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAAG
1 CCTAGCAGGCTTAATGCCGGTGAATGAATTCAGACTTAAAA
* * ** * *
8671820 TCTAGCAGTCTTTGTGCCGGTG-ATGAATTCGGGCTTAAAA
1 CCTAGCAGGCTTAATGCCGGTGAATGAATTCAGACTTAAAA
8671860 CCTAGCAGGCTTAATGCCGGTGA
1 CCTAGCAGGCTTAATGCCGGTGA
8671883 TTTGATAAAA
Statistics
Matches: 119, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
40 32 0.27
41 28 0.24
42 23 0.19
43 36 0.30
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (41 bp):
CCTAGCAGGCTTAATGCCGGTGAATGAATTCAGACTTAAAA
Found at i:8672396 original size:16 final size:18
Alignment explanation
Indices: 8672365--8672397 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
8672355 AACTCGTCAC
8672365 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
8672383 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
8672398 ATCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:8676529 original size:60 final size:59
Alignment explanation
Indices: 8676405--8676545 Score: 171
Period size: 60 Copynumber: 2.4 Consensus size: 59
8676395 CCTAACTGTG
* *
8676405 TTGATATGGGCAAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAGATTGATA
1 TTGATATGGGCTAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAGATTAATA
* * *
8676464 CTGATATGGGCTAGGCCCAGTATA-CTCTGTTAC-TGTA-AGGGGCTATGGCCCAGATTAATA
1 TTGATATGGGCTAGGCCCAATATATCTC-G--ACTTGTATA-GGGCTACGGCCCAGATTAATA
8676524 TTGATATGGGCTAAGGCCCAAT
1 TTGATATGGGCT-AGGCCCAAT
8676546 TAACCCTAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
58 3 0.04
59 23 0.33
60 34 0.49
61 10 0.14
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (59 bp):
TTGATATGGGCTAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAGATTAATA
Found at i:8682897 original size:42 final size:42
Alignment explanation
Indices: 8682838--8682958 Score: 143
Period size: 43 Copynumber: 2.9 Consensus size: 42
8682828 AATGTGACAT
*
8682838 TCGGGCTTTGAGCCTAGCAGGTGTAATGCCGGTGAAACGATA
1 TCGGGCTTCGAGCCTAGCAGGTGTAATGCCGGTGAAACGATA
* * * * *
8682880 TCGGGCTTCGGGCCTAGCAGGCTATAATACCGGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGG-TGTAATGCCGGTGAAACGATA
* * * *
8682923 TCAGGCTTCGAGCCTAGCAGGCGAAATGGCGGTGAA
1 TCGGGCTTCGAGCCTAGCAGGTGTAATGCCGGTGAA
8682959 TGAGTTTAGA
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 28 0.44
43 36 0.56
ACGTcount: A:0.24, C:0.21, G:0.34, T:0.21
Consensus pattern (42 bp):
TCGGGCTTCGAGCCTAGCAGGTGTAATGCCGGTGAAACGATA
Found at i:8683552 original size:16 final size:18
Alignment explanation
Indices: 8683521--8683553 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
8683511 AACTCGTCAC
8683521 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
8683539 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
8683554 ATCTAGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:8684289 original size:22 final size:21
Alignment explanation
Indices: 8684254--8684294 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
8684244 CCCTTATACT
8684254 TTTATCCTATATAACATAAATA
1 TTTATCCTATATAA-ATAAATA
8684276 TTTATCACTA-ATAAATAAA
1 TTTATC-CTATATAAATAAA
8684295 ACTTATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 10 0.56
23 3 0.17
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (21 bp):
TTTATCCTATATAAATAAATA
Found at i:8687767 original size:11 final size:11
Alignment explanation
Indices: 8687710--8687784 Score: 69
Period size: 11 Copynumber: 6.8 Consensus size: 11
8687700 CCTAGCTCAC
*
8687710 TGCTGTTTTGC
1 TGCTGTTTTGG
* *
8687721 TGCAGTTTCGG
1 TGCTGTTTTGG
*
8687732 TGTTGTTTTGG
1 TGCTGTTTTGG
* *
8687743 TGTTGTTTGGG
1 TGCTGTTTTGG
8687754 TGCTGTTTTGG
1 TGCTGTTTTGG
* *
8687765 TGCTATTTTGT
1 TGCTGTTTTGG
*
8687776 TGCTATTTT
1 TGCTGTTTT
8687785 TTGTCGTGTT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 53 1.00
ACGTcount: A:0.04, C:0.09, G:0.31, T:0.56
Consensus pattern (11 bp):
TGCTGTTTTGG
Found at i:8690013 original size:18 final size:18
Alignment explanation
Indices: 8689990--8690039 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
8689980 TAAAGTTTAT
8689990 TTTAAAATTCTTGAAGAA
1 TTTAAAATTCTTGAAGAA
* * *
8690008 TTTAAAATACTAGAAGCA
1 TTTAAAATTCTTGAAGAA
8690026 TATTAAAATTCTTG
1 T-TTAAAATTCTTG
8690040 GGAAATTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (18 bp):
TTTAAAATTCTTGAAGAA
Found at i:8693847 original size:21 final size:21
Alignment explanation
Indices: 8693821--8693865 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
8693811 TTCTATAAAT
* *
8693821 GCACACAACATTTAGACTCGA
1 GCACACAACATTTACACTCAA
8693842 GCACACAACATTTACACTCAA
1 GCACACAACATTTACACTCAA
8693863 GCA
1 GCA
8693866 TGGTATTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.31, G:0.11, T:0.18
Consensus pattern (21 bp):
GCACACAACATTTACACTCAA
Found at i:8704123 original size:60 final size:61
Alignment explanation
Indices: 8704049--8704174 Score: 143
Period size: 60 Copynumber: 2.1 Consensus size: 61
8704039 AATCAAATTC
*
8704049 AGGTATCAATTTGAAC-CAAGAAGCCAAGTTC-AGATACCTAATTGGACCAAA-ATAAACT-TT
1 AGGTATCAAATTGAACTCAA-AAGCCAAGTTCAAG-TACCTAATTGGACCAAAGA-AAACTCTT
* ** * *
8704109 AGGTATTAAATTGAACTTTAAAGTCAAGTTCAAGTACCTAATTGGACTAAAGAAAACTCTT
1 AGGTATCAAATTGAACTCAAAAGCCAAGTTCAAGTACCTAATTGGACCAAAGAAAACTCTT
8704170 AGGTA
1 AGGTA
8704175 CCAATATGCA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
60 45 0.80
61 11 0.20
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (61 bp):
AGGTATCAAATTGAACTCAAAAGCCAAGTTCAAGTACCTAATTGGACCAAAGAAAACTCTT
Found at i:8704667 original size:30 final size:30
Alignment explanation
Indices: 8704633--8704695 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
8704623 ATTTATTTTA
8704633 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
8704663 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
8704693 TTG
1 TTG
8704696 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:8706795 original size:76 final size:77
Alignment explanation
Indices: 8706678--8706833 Score: 296
Period size: 77 Copynumber: 2.0 Consensus size: 77
8706668 ATTTTGTTTT
8706678 ACAACATAAATGTGATTTTCATTTCTTCTAAGCCAAG-AAAAAAAGTATTTCCGTATTGGATACA
1 ACAACATAAATGTGATTTTCATTTCTTCTAAGCCAAGAAAAAAAAGTATTTCCGTATTGGATACA
8706742 TATTTGTATTCA
66 TATTTGTATTCA
*
8706754 ACAACATAAATGTGATTTTCATTTCTTCTAAGCCAAGAAAAAAAAGTATTTCCGTATTGGATATA
1 ACAACATAAATGTGATTTTCATTTCTTCTAAGCCAAGAAAAAAAAGTATTTCCGTATTGGATACA
8706819 TATTTGTATTCA
66 TATTTGTATTCA
8706831 ACA
1 ACA
8706834 TTCACTTGGG
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
76 37 0.47
77 41 0.53
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.37
Consensus pattern (77 bp):
ACAACATAAATGTGATTTTCATTTCTTCTAAGCCAAGAAAAAAAAGTATTTCCGTATTGGATACA
TATTTGTATTCA
Found at i:8712681 original size:3 final size:3
Alignment explanation
Indices: 8712673--8712701 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8712663 TTTATCCGTA
8712673 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8712702 AGTAACATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8714614 original size:3 final size:3
Alignment explanation
Indices: 8714606--8714631 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8714596 CAAATATCTT
8714606 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
8714632 TTGCTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8718456 original size:14 final size:14
Alignment explanation
Indices: 8718439--8718468 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8718429 TGATTGAGAG
8718439 AATTGAAAGAATAA
1 AATTGAAAGAATAA
*
8718453 AATTGAATGAATAA
1 AATTGAAAGAATAA
8718467 AA
1 AA
8718469 AAGAAAATAA
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:0.63, C:0.00, G:0.13, T:0.23
Consensus pattern (14 bp):
AATTGAAAGAATAA
Found at i:8725504 original size:46 final size:46
Alignment explanation
Indices: 8725451--8725941 Score: 671
Period size: 46 Copynumber: 10.7 Consensus size: 46
8725441 GCTTTCTGAA
*
8725451 ATGAAATGTGTAAGGCCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
8725497 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
8725543 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
8725589 ATAAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
8725635 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
8725681 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * ** *
8725727 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGACAATGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* ** *
8725773 ATGAAAAGAATAAGACCATGGTTTAAAGATACCATGGCAACATGA-
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * ** ** * *
8725818 CGGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * *
8725864 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
8725910 A-GAAAATAAGTAAGACCATAGTTGAAAGATAC
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATAC
8725942 TATAGCATCA
Statistics
Matches: 402, Mismatches: 41, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
45 38 0.09
46 364 0.91
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:8732258 original size:11 final size:11
Alignment explanation
Indices: 8732242--8732272 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8732232 ATACCCATAC
8732242 CCCATACCTTG
1 CCCATACCTTG
*
8732253 CCCATACCTTT
1 CCCATACCTTG
8732264 CCCATACCT
1 CCCATACCT
8732273 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:8732846 original size:18 final size:18
Alignment explanation
Indices: 8732817--8732909 Score: 125
Period size: 18 Copynumber: 5.2 Consensus size: 18
8732807 TACGACCGTT
*
8732817 TACGGTACTATTCACGTA
1 TACGGAACTATTCACGTA
* *
8732835 TACGGCATTATTCACGTA
1 TACGGAACTATTCACGTA
*
8732853 TACGGTACTATTCACGTA
1 TACGGAACTATTCACGTA
8732871 TACGGAACTATTCACGTA
1 TACGGAACTATTCACGTA
*
8732889 TAC-GATACTGTTCACGTA
1 TACGGA-ACTATTCACGTA
8732907 TAC
1 TAC
8732910 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
17 2 0.03
18 66 0.97
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGAACTATTCACGTA
Found at i:8732864 original size:36 final size:36
Alignment explanation
Indices: 8732817--8732909 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
8732807 TACGACCGTT
* *
8732817 TACGGTACTATTCACGTATACGGCATTATTCACGTA
1 TACGGTACTATTCACGTATACGGAACTATTCACGTA
8732853 TACGGTACTATTCACGTATACGGAACTATTCACGTA
1 TACGGTACTATTCACGTATACGGAACTATTCACGTA
* *
8732889 TACGATACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
8732910 AGTAGTTGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGAACTATTCACGTA
Found at i:8736978 original size:11 final size:11
Alignment explanation
Indices: 8736962--8736992 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8736952 ATACCCATAC
8736962 CCCATACCTTG
1 CCCATACCTTG
*
8736973 CCCATACCTTT
1 CCCATACCTTG
8736984 CCCATACCT
1 CCCATACCT
8736993 ACTCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:8738009 original size:41 final size:38
Alignment explanation
Indices: 8737918--8738015 Score: 117
Period size: 38 Copynumber: 2.5 Consensus size: 38
8737908 TAGAATTTGT
*
8737918 AAAAATTATTAAAAATTATAAAAATTTAAAAAGTTTCA
1 AAAAATTATTAAAAATTGTAAAAATTTAAAAAGTTTCA
* * *
8737956 AATAATTATTAAAAATTGTAAGTAATTATTAAAAA-TTTTA
1 AAAAATTATTAAAAATTGTAA--AAAT-TTAAAAAGTTTCA
8737996 AAAAATTATTTAAAAATTGT
1 AAAAATTA-TTAAAAATTGT
8738016 GAATATGTGG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
38 19 0.37
40 14 0.27
41 18 0.35
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (38 bp):
AAAAATTATTAAAAATTGTAAAAATTTAAAAAGTTTCA
Found at i:8738010 original size:10 final size:10
Alignment explanation
Indices: 8737844--8738013 Score: 97
Period size: 10 Copynumber: 16.8 Consensus size: 10
8737834 ATAAATATTG
8737844 TAAATAATTAT
1 TAAA-AATTAT
* *
8737855 TAAATATTGT
1 TAAAAATTAT
8737865 TAAAAA-TATT
1 TAAAAATTA-T
*
8737875 TTAAAATTAT
1 TAAAAATTAT
*
8737885 AAAAAAAATTA-
1 --TAAAAATTAT
8737896 TAAAACATTAT
1 TAAAA-ATTAT
* *
8737907 TTAGAATT-T
1 TAAAAATTAT
8737916 GTAAAAATTAT
1 -TAAAAATTAT
8737927 TAAAAATTA-
1 TAAAAATTAT
8737936 TAAAAA-T-T
1 TAAAAATTAT
8737944 TAAAAAGTT-T
1 TAAAAA-TTAT
*
8737954 CAAATAATTAT
1 TAAA-AATTAT
*
8737965 TAAAAATT-G
1 TAAAAATTAT
*
8737974 TAAGTAATTAT
1 TAA-AAATTAT
8737985 TAAAAATT-T
1 TAAAAATTAT
8737994 TAAAAAATTATT
1 T-AAAAATTA-T
8738006 TAAAAATT
1 TAAAAATT
8738014 GTGAATATGT
Statistics
Matches: 123, Mismatches: 18, Indels: 36
0.69 0.10 0.20
Matches are distributed among these distances:
8 7 0.06
9 17 0.14
10 64 0.52
11 26 0.21
12 9 0.07
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:8738275 original size:21 final size:20
Alignment explanation
Indices: 8738242--8738281 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8738232 AGCTTATTAC
8738242 TTATTTACAATTTTTTAATAA
1 TTATTTACAA-TTTTTAATAA
**
8738263 TTATTTATGATTTTTAATA
1 TTATTTACAATTTTTAATA
8738282 TTTTTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (20 bp):
TTATTTACAATTTTTAATAA
Found at i:8757631 original size:19 final size:19
Alignment explanation
Indices: 8757586--8757632 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
8757576 TTTAAAGTTA
*
8757586 AATTTTTTT-CAAATTTCC
1 AATTTTTTTAAAAATTTCC
***
8757604 AAGAATTTTAAAAATTTCC
1 AATTTTTTTAAAAATTTCC
8757623 AATTTTTTTA
1 AATTTTTTTA
8757633 TATTTTATAA
Statistics
Matches: 21, Mismatches: 7, Indels: 1
0.72 0.24 0.03
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (19 bp):
AATTTTTTTAAAAATTTCC
Found at i:8758321 original size:13 final size:13
Alignment explanation
Indices: 8758305--8758370 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
8758295 TTTAAATTAA
8758305 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
8758318 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
* *
8758331 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
8758344 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
8758357 ACTTATT-AAAAGC
1 ACTT-TTCAAAAGC
8758370 A
1 A
8758371 TTGCCAAACT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
13 40 0.95
14 2 0.05
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:8758334 original size:26 final size:26
Alignment explanation
Indices: 8758305--8758370 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
8758295 TTTAAATTAA
8758305 ACTTTTCAAAAGCACTTCTCAAAAGT
1 ACTTTTCAAAAGCACTTCTCAAAAGT
* * *
8758331 ACTTTTCCACAGCACTTTTCAAAAGT
1 ACTTTTCAAAAGCACTTCTCAAAAGT
8758357 ACTTATT-AAAAGCA
1 ACTT-TTCAAAAGCA
8758371 TTGCCAAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 32 0.94
27 2 0.06
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.32
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCTCAAAAGT
Found at i:8759105 original size:26 final size:25
Alignment explanation
Indices: 8759066--8759115 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
8759056 AAACGAAAAC
*
8759066 AAAAAAAACTTTTTTTTACTATTTA
1 AAAAAAAACTTTTTCTTACTATTTA
* *
8759091 AAAAAAAATTATTTTCTTGCTATTT
1 AAAAAAAACT-TTTTCTTACTATTT
8759116 TCTTTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (25 bp):
AAAAAAAACTTTTTCTTACTATTTA
Found at i:8764577 original size:26 final size:28
Alignment explanation
Indices: 8764539--8764602 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 28
8764529 AAGGTTCAGA
* **
8764539 CAAAATTGTAAAATTTG-AAAATAGGGG
1 CAAAACTGTAAAAAATGAAAAATAGGGG
8764566 -AAAA-TGTAAAAAATGAAAAATAGGGG
1 CAAAACTGTAAAAAATGAAAAATAGGGG
8764592 CAAAACTGTAA
1 CAAAACTGTAA
8764603 TAGCCCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 9 0.28
26 14 0.44
27 4 0.12
28 5 0.16
ACGTcount: A:0.55, C:0.05, G:0.20, T:0.20
Consensus pattern (28 bp):
CAAAACTGTAAAAAATGAAAAATAGGGG
Found at i:8766287 original size:64 final size:63
Alignment explanation
Indices: 8766206--8766389 Score: 199
Period size: 67 Copynumber: 2.9 Consensus size: 63
8766196 AGACATTATG
*
8766206 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
8766269 TATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 -ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
8766334 TA
62 TA
** * * * *
8766336 AACTAGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
8766390 CGAACTATAT
Statistics
Matches: 98, Mismatches: 18, Indels: 9
0.78 0.14 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 19 0.19
67 30 0.31
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:8767620 original size:29 final size:27
Alignment explanation
Indices: 8767578--8767660 Score: 103
Period size: 28 Copynumber: 3.0 Consensus size: 27
8767568 GGGTGTTACA
8767578 AAAACTGTAAAATTTTAAAAAATAGGGAT
1 AAAACTGTAAAA-TTTAAAAAATAGGG-T
*
8767607 AAAATTGTAAAATTTAAAAAATAAGGGT
1 AAAACTGTAAAATTTAAAAAAT-AGGGT
* * *
8767635 AAAACTATAAAATCTGAAAAATAGGG
1 AAAACTGTAAAATTTAAAAAATAGGG
8767661 GACACACGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 4 0.08
28 29 0.60
29 15 0.31
ACGTcount: A:0.57, C:0.04, G:0.14, T:0.25
Consensus pattern (27 bp):
AAAACTGTAAAATTTAAAAAATAGGGT
Found at i:8775837 original size:16 final size:16
Alignment explanation
Indices: 8775813--8775845 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8775803 GTTTCCATAT
*
8775813 TTCACAATTTAATCCC
1 TTCAAAATTTAATCCC
8775829 TTCAAAATTTAATCCC
1 TTCAAAATTTAATCCC
8775845 T
1 T
8775846 AATTTACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.39
Consensus pattern (16 bp):
TTCAAAATTTAATCCC
Found at i:8777430 original size:47 final size:48
Alignment explanation
Indices: 8777370--8777482 Score: 167
Period size: 48 Copynumber: 2.4 Consensus size: 48
8777360 GGTGCGAATA
* **
8777370 TTACCTTGATTTGGCTAC-GGGACATGATATAGGTATTTTGAGA-AGAG
1 TTACCTTGATTTGGCTACGGGGACATGATATAGGTACTCCGAGATA-AG
*
8777417 TTACCTTGATTTGGCTACGGGGACATGGTATAGGTACTCCGAGATAAG
1 TTACCTTGATTTGGCTACGGGGACATGATATAGGTACTCCGAGATAAG
8777465 TTACCTTGATTTGGCTAC
1 TTACCTTGATTTGGCTAC
8777483 TGTAATGGCC
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
47 18 0.30
48 41 0.68
49 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.34
Consensus pattern (48 bp):
TTACCTTGATTTGGCTACGGGGACATGATATAGGTACTCCGAGATAAG
Found at i:8782186 original size:46 final size:46
Alignment explanation
Indices: 8782051--8782223 Score: 178
Period size: 46 Copynumber: 3.7 Consensus size: 46
8782041 GTTATTCTGA
*
8782051 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAC-A--
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC--GA-GACAAGT
* * * * *
8782097 GCCATTGTAAGACCATGTTTGGAACATGTCATCGG-CATTGAGACAAGT
1 GCTAGTGTAAGA-CATGTCTGGGACATG-CATCGGCCA-CGAGACAAGT
8782145 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACGTAAGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGAC--AAGT
8782193 -C-AGTGTAAGACATGTCTGGGACATGCATCGG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG
8782224 TTACAAGATG
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
45 3 0.03
46 53 0.50
47 31 0.29
48 20 0.19
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACAAGT
Found at i:8782322 original size:50 final size:45
Alignment explanation
Indices: 8782054--8782322 Score: 147
Period size: 46 Copynumber: 5.8 Consensus size: 45
8782044 ATTCTGAGCT
** * *
8782054 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGACAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACAAGATG--TGAC
* * * * * * *
8782100 ATTGTAAGACCATGTTTGGAACATGTCATCGGCATTGAGACAAGTG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA--CA-AGATGTGAC
* * *
8782147 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAGACGTAAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACAAGATGT--GAC
* *
8782194 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGTTACAAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACAAGATGTGAC
* * * * *
8782238 AGTGAAAGGCCATGTTTGGGACATGGCGTTGGCACAAGTATGCTAGAAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAAG-ATG-T-G-AC
*
8782287 TTGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
8782323 CTTACCCCAT
Statistics
Matches: 172, Mismatches: 34, Indels: 30
0.73 0.14 0.13
Matches are distributed among these distances:
44 14 0.08
45 18 0.10
46 60 0.35
47 31 0.18
48 16 0.09
49 2 0.01
50 31 0.18
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAAGATGTGAC
Found at i:8787478 original size:15 final size:15
Alignment explanation
Indices: 8787460--8787503 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
8787450 GAAGCCCAGA
8787460 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
8787475 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
*
8787490 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
8787504 TTTACAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:8798816 original size:132 final size:134
Alignment explanation
Indices: 8798515--8798893 Score: 435
Period size: 132 Copynumber: 2.9 Consensus size: 134
8798505 GTAGGCTCCC
* * * ** * * * **
8798515 CCATAGGCAAGCTATGGTCTTACACACCATACCCCATGCTTAATGTCCTGGC-AACTTTTTATGT
1 CCATAGTCAAGCTATAGTCTTATACAATATACCCCATGTTTAATGTCCTGACGAACTCTCCATGT
* * *
8798579 TGCCATAGCCGAGCTATAGTCTTACACAATATACCCCATGTTTAATGT-TCTGGCAGACTTTCAA
66 TGCCATAGCCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCTCTGGCAGAC-TTCAA
8798643 TGTTT
130 TGTTT
* * * *
8798648 CCATAGTCGAGCTATCGTCTTATATAATATACCCCATGTTTAATGTCCTGACGGACTCTCCATGT
1 CCATAGTCAAGCTATAGTCTTATACAATATACCCCATGTTTAATGTCCTGACGAACTCTCCATGT
* * * * * *
8798713 TGTCATGGTCGAGTTATGGTCTTACACATTTTTCCCCATGTTTAATGTCT-TGG-AGGAC-TCTA
66 TGCCATAGCCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCTCTGGCA-GACTTCAA
8798775 TGTTT
130 TGTTT
* * * * * * *
8798780 CTATAGTTAAGCTATAGTCTTATACATTTTATCCCATGTTTAATGTCCTGATGAACTCTCTATGT
1 CCATAGTCAAGCTATAGTCTTATACAATATACCCCATGTTTAATGTCCTGACGAACTCTCCATGT
8798845 TGCCATAGCCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTC
66 TGCCATAGCCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTC
8798894 CTGACGGGCT
Statistics
Matches: 205, Mismatches: 38, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
132 106 0.52
133 44 0.21
134 54 0.26
135 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (134 bp):
CCATAGTCAAGCTATAGTCTTATACAATATACCCCATGTTTAATGTCCTGACGAACTCTCCATGT
TGCCATAGCCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCTCTGGCAGACTTCAAT
GTTT
Found at i:8798931 original size:67 final size:67
Alignment explanation
Indices: 8798515--8798946 Score: 388
Period size: 67 Copynumber: 6.5 Consensus size: 67
8798505 GTAGGCTCCC
* * *** * * * *
8798515 CCATAGGCAAGCTATGGTCTTACACACCATACCCCATGCTTAATGTCCTGGC-AACTTTTTATGT
1 CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGACTTTCTATGT
*
8798579 TG
66 TT
* * * * * * * *
8798581 CCATAGCCGAGCTATAGTCTTACACAATATACCCCATGTTTAATGTTCTGGCAGACTTTCAATGT
1 CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGACTTTCTATGT
8798646 TT
66 TT
* * * * * * *
8798648 CCATAGTCGAGCTATCGTCTTATATAATATACCCCATGTTTAATGTCCTGACGGACTCTCCATGT
1 CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGACTTTCTATGT
8798713 TGT
66 T-T
* * * *
8798716 -CATGGTCGAGTTATGGTCTTACACATTTTTCCCCATGTTTAATGTCTTGGA-GGAC--TCTATG
1 CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCT-GACGGACTTTCTATG
8798777 TTT
65 TTT
* ** * * * * * *
8798780 CTATAGTTAAGCTATAGTCTTATACATTTTATCCCATGTTTAATGTCCTGATGAACTCTCTATGT
1 CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGACTTTCTATGT
*
8798845 TG
66 TT
* * *
8798847 CCATAGCCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGGCTTTTTATGT
1 CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGACTTTCTATGT
8798912 TT
66 TT
** * * *
8798914 CCATAGTTAAGCCATGGTCTTAGACACTTTACC
1 CCATAGTCGAGCTATGGTCTTACACATTTTACC
8798947 TCATTATAGA
Statistics
Matches: 298, Mismatches: 61, Indels: 13
0.80 0.16 0.03
Matches are distributed among these distances:
64 3 0.01
65 48 0.16
66 45 0.15
67 199 0.67
68 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.37
Consensus pattern (67 bp):
CCATAGTCGAGCTATGGTCTTACACATTTTACCCCATGTTTAATGTCCTGACGGACTTTCTATGT
TT
Found at i:8803901 original size:27 final size:27
Alignment explanation
Indices: 8803871--8804048 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
8803861 ATATTGAGTC
* * * *
8803871 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
8803898 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
8803925 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
8803953 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
8803980 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
8804007 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
8804034 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
8804049 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:8804010 original size:82 final size:81
Alignment explanation
Indices: 8803892--8804047 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
8803882 TGCTATATAA
* *
8803892 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
8803957 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
8803974 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
8804038 CACTTAGTGC
65 CACTTAGTGC
8804048 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:8811605 original size:27 final size:27
Alignment explanation
Indices: 8811575--8811752 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
8811565 ATATTGAGTC
* * * *
8811575 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
8811602 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
8811629 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
8811657 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
8811684 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
8811711 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
8811738 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
8811753 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:8811714 original size:82 final size:81
Alignment explanation
Indices: 8811596--8811751 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
8811586 TGCTATATAA
* *
8811596 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
8811661 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
8811678 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
8811742 CACTTAGTGC
65 CACTTAGTGC
8811752 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:8814051 original size:43 final size:44
Alignment explanation
Indices: 8813984--8814111 Score: 136
Period size: 43 Copynumber: 3.0 Consensus size: 44
8813974 ATAAAGCTCG
* * *
8813984 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATA
* * * * **
8814027 T-CGATGCCACTGTCCCATACATGGTCTTAGACATAATCACA-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATA
* *
8814069 TACAATGCCAATGTCCCAGACATGCTCCTACATGTAATCACAT
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
8814112 CTCGGTAACC
Statistics
Matches: 65, Mismatches: 17, Indels: 5
0.75 0.20 0.06
Matches are distributed among these distances:
42 8 0.12
43 57 0.88
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (44 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATA
Found at i:8822209 original size:58 final size:57
Alignment explanation
Indices: 8822092--8822234 Score: 157
Period size: 58 Copynumber: 2.5 Consensus size: 57
8822082 TTCCTTGTTC
* * * * *
8822092 ATTTCTAAATGAATT-CATTTCTC-ATTTTCATTTTCATTTTGAGAAAACCACATTC
1 ATTTCCAAATGAATTCCATTTCTCTATTTTCATTTTAATTTGGAGAAAACCACAATA
*
8822147 ATTTCCAAATG-ATTCCATTTTCTCTATTTTCATTTTAATTTAGGAGAAAACCATAATA
1 ATTTCCAAATGAATTCCA-TTTCTCTATTTTCATTTTAATTT-GGAGAAAACCACAATA
* **
8822205 ATTTCCTGAATGTTTTCCATTTCTCTATTT
1 ATTTCC-AAATGAATTCCATTTCTCTATTT
8822235 CAATTCATTC
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
54 3 0.04
55 12 0.16
56 6 0.08
57 15 0.20
58 18 0.24
59 15 0.20
60 5 0.07
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.47
Consensus pattern (57 bp):
ATTTCCAAATGAATTCCATTTCTCTATTTTCATTTTAATTTGGAGAAAACCACAATA
Found at i:8824767 original size:21 final size:21
Alignment explanation
Indices: 8824722--8824767 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
8824712 TATAAATTTG
* *
8824722 AAAAATATTATTAAAATTTAT
1 AAAAATATTAATAAAATTCAT
8824743 AAAAATATTAAATAAAATTCA-
1 AAAAATATT-AATAAAATTCAT
8824764 AAAA
1 AAAA
8824768 GTTAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAATATTAATAAAATTCAT
Found at i:8829929 original size:16 final size:16
Alignment explanation
Indices: 8829900--8829941 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
8829890 TTCTCCCCTA
**
8829900 CCTCTTCTTTTCTCTTC
1 CCTCTTCTCCTCTC-TC
8829917 CCT-TTCTCCTCTCTC
1 CCTCTTCTCCTCTCTC
8829932 CCTCTTCTCC
1 CCTCTTCTCC
8829942 CCCTAAGCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 5 0.23
16 14 0.64
17 3 0.14
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (16 bp):
CCTCTTCTCCTCTCTC
Found at i:8830176 original size:6 final size:6
Alignment explanation
Indices: 8830165--8830191 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8830155 AGTCCCTTTA
8830165 TTTTCT TTTTCT TTTTCT TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTT
8830192 ATTTTCTCTT
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:8830201 original size:18 final size:18
Alignment explanation
Indices: 8830165--8830211 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
8830155 AGTCCCTTTA
*
8830165 TTTTCTTTTTCTTTTTCT
1 TTTTCTTTTTCTTTCTCT
8830183 TTTTCTTTTAT-TTTCTCT
1 TTTTCTTTT-TCTTTCTCT
*
8830201 TATTTATTTTT
1 T-TTTCTTTTT
8830212 GAAGATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTCTTTTTCTTTCTCT
Found at i:8840999 original size:46 final size:49
Alignment explanation
Indices: 8840893--8841014 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 49
8840883 TGTCTTCGAC
** * *
8840893 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATCTAAT
* *
8840943 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATAT-T-TGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATCTAAT
*
8840989 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
8841015 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 27 0.42
47 1 0.02
48 6 0.09
50 30 0.47
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (49 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATCTAAT
Found at i:8841020 original size:5 final size:5
Alignment explanation
Indices: 8841010--8841039 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
8841000 TGGCTCATTT
8841010 CTGTC CTGTC CTGTC CTGTC CTGTC CTGTC
1 CTGTC CTGTC CTGTC CTGTC CTGTC CTGTC
8841040 AACCCCAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.40, G:0.20, T:0.40
Consensus pattern (5 bp):
CTGTC
Found at i:8850649 original size:29 final size:28
Alignment explanation
Indices: 8850607--8850661 Score: 101
Period size: 29 Copynumber: 1.9 Consensus size: 28
8850597 GAGTTATACC
8850607 GATTTGGCTTCGGGCCATGAATATCAGCT
1 GATTTGGCTTCGGGCCAT-AATATCAGCT
8850636 GATTTGGCTTCGGGCCATAATATCAG
1 GATTTGGCTTCGGGCCATAATATCAG
8850662 TATATCGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (28 bp):
GATTTGGCTTCGGGCCATAATATCAGCT
Found at i:8853361 original size:6 final size:6
Alignment explanation
Indices: 8853350--8853378 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8853340 CTTTTCTGCA
8853350 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
8853379 GATTTCAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:8855917 original size:16 final size:17
Alignment explanation
Indices: 8855882--8855915 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
8855872 TTGTTTTCAA
8855882 TTATCCTAATTACATTT
1 TTATCCTAATTACATTT
8855899 TTATCCT-ATTA-ATTT
1 TTATCCTAATTACATTT
8855914 TT
1 TT
8855916 TACATGAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 4 0.24
17 7 0.41
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATCCTAATTACATTT
Found at i:8856994 original size:13 final size:13
Alignment explanation
Indices: 8856976--8857001 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8856966 AGATGGGAAC
8856976 CTTCTTTTATATA
1 CTTCTTTTATATA
8856989 CTTCTTTTATATA
1 CTTCTTTTATATA
8857002 TTATATATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (13 bp):
CTTCTTTTATATA
Found at i:8858761 original size:33 final size:33
Alignment explanation
Indices: 8858723--8858789 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
8858713 ATTCAAGCCA
8858723 CATTTAAAACAATGAACGTCCGTAATCATCAAG
1 CATTTAAAACAATGAACGTCCGTAATCATCAAG
* *
8858756 CATTTAGAACAATGAACGTCCGTAATTATCAAG
1 CATTTAAAACAATGAACGTCCGTAATCATCAAG
8858789 C
1 C
8858790 GATGGAGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.25
Consensus pattern (33 bp):
CATTTAAAACAATGAACGTCCGTAATCATCAAG
Found at i:8859703 original size:7 final size:7
Alignment explanation
Indices: 8859687--8859723 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
8859677 GTCAAATTTG
8859687 AATA-TA
1 AATATTA
8859693 AATATTA
1 AATATTA
8859700 AATATTA
1 AATATTA
8859707 AATATTA
1 AATATTA
*
8859714 AAAATTA
1 AATATTA
8859721 AAT
1 AAT
8859724 GTGAGCATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AATATTA
Found at i:8861834 original size:23 final size:24
Alignment explanation
Indices: 8861808--8861854 Score: 87
Period size: 23 Copynumber: 2.0 Consensus size: 24
8861798 TTTTTAAAAA
8861808 ATCACAAATAGAG-TTTTTTCTAT
1 ATCACAAATAGAGTTTTTTTCTAT
8861831 ATCACAAATAGAGTTTTTTTCTAT
1 ATCACAAATAGAGTTTTTTTCTAT
8861855 CATTATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.45
Consensus pattern (24 bp):
ATCACAAATAGAGTTTTTTTCTAT
Found at i:8866084 original size:21 final size:21
Alignment explanation
Indices: 8866058--8866106 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
8866048 GTGCTTGCAA
8866058 TGGATGTGTTATCCAGGTTAT
1 TGGATGTGTTATCCAGGTTAT
8866079 TGGATGTGTTATCCAGGTTAT
1 TGGATGTGTTATCCAGGTTAT
8866100 TGGATGT
1 TGGATGT
8866107 TGCTGCCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.18, C:0.08, G:0.31, T:0.43
Consensus pattern (21 bp):
TGGATGTGTTATCCAGGTTAT
Found at i:8867351 original size:12 final size:12
Alignment explanation
Indices: 8867315--8867353 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
8867305 AATTTGTTGG
8867315 TTTTTTACTGTT
1 TTTTTTACTGTT
**
8867327 TTTTGTTGTTGTT
1 TTTT-TTACTGTT
8867340 TTTTTTACTGTT
1 TTTTTTACTGTT
8867352 TT
1 TT
8867354 GTTGCTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.05, C:0.05, G:0.13, T:0.77
Consensus pattern (12 bp):
TTTTTTACTGTT
Found at i:8867364 original size:23 final size:23
Alignment explanation
Indices: 8867315--8867386 Score: 65
Period size: 22 Copynumber: 3.1 Consensus size: 23
8867305 AATTTGTTGG
* *
8867315 TTTTTTACTGTTTTTTGTTGTTGTT
1 TTTTTTACTG--TTTTGTTGCTATT
8867340 TTTTTTACTGTTTTGTTGCTA-T
1 TTTTTTACTGTTTTGTTGCTATT
* * * *
8867362 TTTCTTATTGTTTTTTTACTATT
1 TTTTTTACTGTTTTGTTGCTATT
8867385 TT
1 TT
8867387 GCTACCATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
22 18 0.45
23 12 0.30
25 10 0.25
ACGTcount: A:0.08, C:0.07, G:0.11, T:0.74
Consensus pattern (23 bp):
TTTTTTACTGTTTTGTTGCTATT
Found at i:8868994 original size:19 final size:19
Alignment explanation
Indices: 8868970--8869014 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8868960 TTTGATCAAG
8868970 TAAAATTAAATT-AAATTAA
1 TAAAA-TAAATTAAAATTAA
*
8868989 TAAAATCAATTAAAATTAA
1 TAAAATAAATTAAAATTAA
*
8869008 TATAATA
1 TAAAATA
8869015 TTTTTGGAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAATAAATTAAAATTAA
Done.