Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 115 of 143
Found at i:35124111 original size:3 final size:3
Alignment explanation
Indices: 35124103--35124136 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
35124093 TCATGATTGA
35124103 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
35124137 GATAAAGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:35124276 original size:24 final size:22
Alignment explanation
Indices: 35124249--35124298 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
35124239 ACCTTTATAT
35124249 TATTTTAT-TTTAAATTATATAAAA
1 TATTTTATATTTAAA--ATA-AAAA
35124273 TA-TTTATATTTAAAATAAAAA
1 TATTTTATATTTAAAATAAAAA
35124294 TATTT
1 TATTT
35124299 ATTGAGACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
21 6 0.25
22 5 0.21
23 5 0.21
24 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TATTTTATATTTAAAATAAAAA
Found at i:35134827 original size:34 final size:34
Alignment explanation
Indices: 35134789--35134856 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
35134779 ACTTTGAAAA
* * *
35134789 AAGTTGCCCATTCATGCGTTTTTTGTTTTGGAGG
1 AAGTTGCCAATTCATGCGTTTTTTATTCTGGAGG
35134823 AAGTTGCCAATTCATGCGTTTTTTATTCTGGAGG
1 AAGTTGCCAATTCATGCGTTTTTTATTCTGGAGG
35134857 TTTTAGCTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.18, C:0.15, G:0.25, T:0.43
Consensus pattern (34 bp):
AAGTTGCCAATTCATGCGTTTTTTATTCTGGAGG
Found at i:35135277 original size:15 final size:14
Alignment explanation
Indices: 35135257--35135309 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
35135247 ACGTGTTCAT
35135257 ATTTATAATATAAAA
1 ATTTATAA-ATAAAA
*
35135272 ATTTATAACTAAAA
1 ATTTATAAATAAAA
35135286 ATTGTATAAA-AAATA
1 ATT-TATAAATAAA-A
*
35135301 ATTTTTAAA
1 ATTTATAAA
35135310 AATTGAATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
14 16 0.48
15 17 0.52
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (14 bp):
ATTTATAAATAAAA
Found at i:35144307 original size:199 final size:199
Alignment explanation
Indices: 35143967--35144362 Score: 693
Period size: 199 Copynumber: 2.0 Consensus size: 199
35143957 TATTTAGATT
35143967 ATAAAAGCTATTTAATTCTAGCATTTGAGTACACCAAAACTTGCATACTAGTTAAATGATTACTT
1 ATAAAAGCTATTTAATTCTAGCATTTGAGTACACCAAAACTTGCATACTAGTTAAATGATTACTT
* *
35144032 AAATGGTAGTGTCTAGAGAAGTGCATGTTGGTTCTTTTACAGAAGCAACTTCACTTGCCGTTTCT
66 AAATGGTAGTGTCTAGAGAAGGGCATGTTGGTTCTTTTACAGAAGCAACTTCACTTGCCGGTTCT
* *
35144097 TAAGCAGCTCCTGACCCTGAGCATTACCTGCACTTGGGTGTTTAAAACTGCAGATGGCCAAATTC
131 TAAGCAGCTCCTGACCCTGAGCATTAACTGCACTTGGGTGTTTAAAACTCCAGATGGCCAAATTC
35144162 AGTG
196 AGTG
*
35144166 ATAAAAGCTATTTAATTCTAGCATTTGAGTACACCAAAACTTGCATACTAGTTAAATGCTTACTT
1 ATAAAAGCTATTTAATTCTAGCATTTGAGTACACCAAAACTTGCATACTAGTTAAATGATTACTT
* * *
35144231 AAATGGTAGTGTCTTGAGAAGGGCATGTTGTTTCTTTTACAGAAGCAACTTCACTTGCTGGTTCT
66 AAATGGTAGTGTCTAGAGAAGGGCATGTTGGTTCTTTTACAGAAGCAACTTCACTTGCCGGTTCT
* * *
35144296 TAAGCAGCTCCTGACCCTGAGCATTAAGTGCACTTGGGTGTTTAAAATTCCAGATGGCCAATTTC
131 TAAGCAGCTCCTGACCCTGAGCATTAACTGCACTTGGGTGTTTAAAACTCCAGATGGCCAAATTC
35144361 AG
196 AG
35144363 GGATTCCCAT
Statistics
Matches: 186, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
199 186 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (199 bp):
ATAAAAGCTATTTAATTCTAGCATTTGAGTACACCAAAACTTGCATACTAGTTAAATGATTACTT
AAATGGTAGTGTCTAGAGAAGGGCATGTTGGTTCTTTTACAGAAGCAACTTCACTTGCCGGTTCT
TAAGCAGCTCCTGACCCTGAGCATTAACTGCACTTGGGTGTTTAAAACTCCAGATGGCCAAATTC
AGTG
Found at i:35153918 original size:30 final size:31
Alignment explanation
Indices: 35153839--35153918 Score: 74
Period size: 30 Copynumber: 2.6 Consensus size: 31
35153829 TTAACAATCC
* *
35153839 AGTGACCAAAATAAAAACTTTTGAATAGTTC
1 AGTGACCAAAATAGAAACTTTTGAATAGTTA
* * * **
35153870 AGTGATC-AAATTGTAACTTTT-TCTAGTTA
1 AGTGACCAAAATAGAAACTTTTGAATAGTTA
*
35153899 AGTGACCAAAATGGAAACTT
1 AGTGACCAAAATAGAAACTT
35153919 ACTTATAGTT
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
29 11 0.29
30 21 0.55
31 6 0.16
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (31 bp):
AGTGACCAAAATAGAAACTTTTGAATAGTTA
Found at i:35157136 original size:24 final size:25
Alignment explanation
Indices: 35157091--35157137 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
35157081 CTTTTAATTA
* *
35157091 TTTTCTTTTTATTTCTTCATTTTGC
1 TTTTCTTTTTACTCCTTCATTTTGC
*
35157116 TTTTCTTTTT-CTCCTTTATTTT
1 TTTTCTTTTTACTCCTTCATTTT
35157138 TCTCCCTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.74
Consensus pattern (25 bp):
TTTTCTTTTTACTCCTTCATTTTGC
Found at i:35158344 original size:16 final size:17
Alignment explanation
Indices: 35158314--35158346 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
35158304 TATTATCATT
*
35158314 ATATTATTATGAAATAA
1 ATATTATTATAAAATAA
35158331 ATATT-TTATAAAATAA
1 ATATTATTATAAAATAA
35158347 TTTTAATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
ATATTATTATAAAATAA
Found at i:35159141 original size:26 final size:26
Alignment explanation
Indices: 35159111--35159164 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
35159101 AAATGGATAG
** *
35159111 AGTTAATTTAATTTTATATTTAAATA
1 AGTTAATAAAATTATATATTTAAATA
35159137 AGTTAATAAAATTATATATTTAAATA
1 AGTTAATAAAATTATATATTTAAATA
35159163 AG
1 AG
35159165 ATGACTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (26 bp):
AGTTAATAAAATTATATATTTAAATA
Found at i:35159542 original size:17 final size:17
Alignment explanation
Indices: 35159512--35159545 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35159502 TTAATTACAG
**
35159512 AAATTAAATTATATAAA
1 AAATTAAAGCATATAAA
35159529 AAATTAAAGCATATAAA
1 AAATTAAAGCATATAAA
35159546 TTAACTCTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATTAAAGCATATAAA
Found at i:35169621 original size:32 final size:32
Alignment explanation
Indices: 35169581--35169646 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
35169571 CAAATGTTAC
* *
35169581 ATAATAGTATCTTAGGCTGATATGATGGGCCA
1 ATAATAGTATCGTAGGCTGATATAATGGGCCA
35169613 ATAATAGTATCGTAGGCTGATATAATGGGCCA
1 ATAATAGTATCGTAGGCTGATATAATGGGCCA
35169645 AT
1 AT
35169647 GCAATCAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (32 bp):
ATAATAGTATCGTAGGCTGATATAATGGGCCA
Found at i:35170681 original size:28 final size:28
Alignment explanation
Indices: 35170650--35170704 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
35170640 TTTTCGTTTA
* *
35170650 ATTTAGAGTTAAA-TTGATTTTTAATTTT
1 ATTTAAAGTTAAACTT-ATTTTAAATTTT
*
35170678 ATTTAAATTTAAACTTATTTTAAATTT
1 ATTTAAAGTTAAACTTATTTTAAATTT
35170705 AAATTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.56
Consensus pattern (28 bp):
ATTTAAAGTTAAACTTATTTTAAATTTT
Found at i:35170687 original size:6 final size:6
Alignment explanation
Indices: 35170678--35170768 Score: 69
Period size: 6 Copynumber: 15.0 Consensus size: 6
35170668 TTTTAATTTT
* *
35170678 ATTTAA ATTTAA ACTT-A TTTTAA ATTTAA ATTTAA TTATTTAA ATTT-A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA --ATTTAA ATTTAA
* * ** * *
35170726 CTTTGA ATTTAA ATTTAA ATAAAA ATTAAA ACATTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A-TTTAA ATTTAA
35170769 CATTAAAAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 10
0.74 0.14 0.11
Matches are distributed among these distances:
5 7 0.10
6 50 0.75
7 4 0.06
8 6 0.09
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.47
Consensus pattern (6 bp):
ATTTAA
Found at i:35170735 original size:31 final size:31
Alignment explanation
Indices: 35170684--35170743 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
35170674 TTTTATTTAA
*
35170684 ATTTAAACTTATTTTAAATTTAAATTTAATT
1 ATTTAAACTTACTTTAAATTTAAATTTAATT
* *
35170715 ATTTAAATTTACTTTGAATTTAAATTTAA
1 ATTTAAACTTACTTTAAATTTAAATTTAA
35170744 ATAAAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (31 bp):
ATTTAAACTTACTTTAAATTTAAATTTAATT
Found at i:35170737 original size:17 final size:16
Alignment explanation
Indices: 35170669--35170742 Score: 80
Period size: 17 Copynumber: 4.6 Consensus size: 16
35170659 TAAATTGATT
*
35170669 TTTAATTTTATTTAAA
1 TTTAAATTTATTTAAA
*
35170685 TTTAAACTTATTTTAAA
1 TTTAAATTTA-TTTAAA
*
35170702 TTTAAATTTAATT--A
1 TTTAAATTTATTTAAA
*
35170716 TTTAAATTTACTTTGAA
1 TTTAAATTTA-TTTAAA
35170733 TTTAAATTTA
1 TTTAAATTTA
35170743 AATAAAAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
14 11 0.22
15 2 0.04
16 10 0.20
17 26 0.53
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:35171809 original size:25 final size:23
Alignment explanation
Indices: 35171781--35171837 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 23
35171771 AGCAAAAAGG
35171781 AAAACAAAAGG-TTTGAAAATCAA
1 AAAACAAAAGGTTTTGAAAAT-AA
35171804 TAAAA-AGGAAAGGTTTTGAAAATAA
1 -AAAACA--AAAGGTTTTGAAAATAA
35171829 AAAACAAAA
1 AAAACAAAA
35171838 AATGAAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
23 4 0.14
24 8 0.28
25 8 0.28
26 9 0.31
ACGTcount: A:0.63, C:0.05, G:0.14, T:0.18
Consensus pattern (23 bp):
AAAACAAAAGGTTTTGAAAATAA
Found at i:35171848 original size:21 final size:22
Alignment explanation
Indices: 35171820--35171867 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
35171810 GGAAAGGTTT
35171820 TGAA-AATAAAA-AACAAAAAA
1 TGAAGAATAAAAGAACAAAAAA
*
35171840 TGAAGAATAAAAGAACAAAATA
1 TGAAGAATAAAAGAACAAAAAA
35171862 -GAAGAA
1 TGAAGAA
35171868 AAAGAATAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 4 0.16
21 13 0.52
22 8 0.32
ACGTcount: A:0.73, C:0.04, G:0.12, T:0.10
Consensus pattern (22 bp):
TGAAGAATAAAAGAACAAAAAA
Found at i:35172467 original size:161 final size:162
Alignment explanation
Indices: 35172286--35172597 Score: 468
Period size: 162 Copynumber: 1.9 Consensus size: 162
35172276 TCTTTTCAAT
*
35172286 TTAGTCCTTTGACTGTTTGACTGTACCA-GAGGCTGCCACGTGTCATTTTTT-GATTATTTATGC
1 TTAGTCCTTTGACCGTTTGACTGTACCAGGA-GCTGCCACGTGTCATTTTTTGGATTATTTATGC
* *
35172349 ATTTAGTCCCTGACATTTTTTATTTATTTTAATTTAATCC-TCAAATCAACTTTTATTTAATTAT
65 ATTTAGTCCCTGACATTTTTAATTTATTTTAATTTAATCCAT-AAATCAACTTTTATTTAATTAC
* * *
35172413 GAAATTGGCCCAAGAATTTTTCATGGTTTATAAA
129 AAAATTGGCCCAAAAATGTTTCATGGTTTATAAA
*
35172447 TTAGTCCTTTGACCGTTTGACTGTACCAGGAGCTGCCACGTGTCATTTTTTGGCTTATTTATGCA
1 TTAGTCCTTTGACCGTTTGACTGTACCAGGAGCTGCCACGTGTCATTTTTTGGATTATTTATGCA
* *** *
35172512 TTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCATAAATCAACTTTTATTTAATTACAA
66 TTTAGTCCCTGACATTTTTAATTTATTTTAATTTAATCCATAAATCAACTTTTATTTAATTACAA
*
35172577 AATTGGTCCAAAAATGTTTCA
131 AATTGGCCCAAAAATGTTTCA
35172598 AGATTTTCAA
Statistics
Matches: 135, Mismatches: 13, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
161 47 0.35
162 87 0.64
163 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.46
Consensus pattern (162 bp):
TTAGTCCTTTGACCGTTTGACTGTACCAGGAGCTGCCACGTGTCATTTTTTGGATTATTTATGCA
TTTAGTCCCTGACATTTTTAATTTATTTTAATTTAATCCATAAATCAACTTTTATTTAATTACAA
AATTGGCCCAAAAATGTTTCATGGTTTATAAA
Found at i:35172789 original size:60 final size:59
Alignment explanation
Indices: 35172694--35172841 Score: 233
Period size: 60 Copynumber: 2.5 Consensus size: 59
35172684 CTAAATTGTC
* * * *
35172694 CAAAAATTACATTTTGACCCTAAAACTTTTCCAAAATTACATTTTGACCTCGAAACTTTT
1 CAAAAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCTCAAAAC-TTA
* *
35172754 CTAAAATTACATTTTAACCCCAAAACTTTTCCAAAATTATATTTTGACCTCAAAACTTA
1 CAAAAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCTCAAAACTTA
35172813 CAAAAATTACATTTTAACCCCAAAACTTT
1 CAAAAATTACATTTTAACCCCAAAACTTT
35172842 CCTAAATCCC
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 30 0.37
60 51 0.63
ACGTcount: A:0.40, C:0.22, G:0.03, T:0.35
Consensus pattern (59 bp):
CAAAAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACCTCAAAACTTA
Found at i:35172854 original size:29 final size:29
Alignment explanation
Indices: 35172696--35172863 Score: 174
Period size: 30 Copynumber: 5.7 Consensus size: 29
35172686 AAATTGTCCA
* *
35172696 AAAATTACATTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTAACCCCAAAAC-TTTCC
* * * *
35172726 AAAATTACATTTTGACCTCGAAACTTTTCT
1 AAAATTACATTTTAACCCCAAAAC-TTTCC
35172756 AAAATTACATTTTAACCCCAAAACTTTTCC
1 AAAATTACATTTTAACCCCAAAAC-TTTCC
* * * * *
35172786 AAAATTATATTTTGACCTCAAAACTTACA
1 AAAATTACATTTTAACCCCAAAACTTTCC
35172815 AAAATTACATTTTAACCCCAAAACTTTCC
1 AAAATTACATTTTAACCCCAAAACTTTCC
* **
35172844 TAAATCCCATTTTTAACCCC
1 AAAATTACA-TTTTAACCCC
35172864 GATTTCACCA
Statistics
Matches: 116, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
29 33 0.28
30 83 0.72
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAATTACATTTTAACCCCAAAACTTTCC
Found at i:35172876 original size:59 final size:59
Alignment explanation
Indices: 35172813--35172945 Score: 182
Period size: 59 Copynumber: 2.3 Consensus size: 59
35172803 TCAAAACTTA
35172813 CAAAAATTA-CATTTTAACCCCAAAACTTTCCT-AAATCCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTAACCCCAAAACTTT--TAAAATCCCATTTTTAACCCCGATTTCAC
* * * * *
35172872 CAAAATTTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTAACCCCAAAACTTTTAAAATCCCATTTTTAACCCCGATTTCAC
35172931 C-AAAATTACCATTTT
1 CAAAAATTACCATTTT
35172946 GCCCTCGGGT
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
58 14 0.21
59 35 0.53
60 17 0.26
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (59 bp):
CAAAAATTACCATTTTAACCCCAAAACTTTTAAAATCCCATTTTTAACCCCGATTTCAC
Found at i:35172877 original size:29 final size:30
Alignment explanation
Indices: 35172850--35172945 Score: 110
Period size: 30 Copynumber: 3.2 Consensus size: 30
35172840 TTCCTAAATC
35172850 CCATTTTTAACCCCGATTTCACCAAAATTTA
1 CCATTTTTAACCCCGATTTCACCAAAA-TTA
* **
35172881 CCA-TTTTACCCCCGAATCTT--TTAAAATT-
1 CCATTTTTAACCCCG-AT-TTCACCAAAATTA
35172909 CCATTTTTAACCCCGATTTCACCAAAATTA
1 CCATTTTTAACCCCGATTTCACCAAAATTA
35172939 CCATTTT
1 CCATTTT
35172946 GCCCTCGGGT
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
27 2 0.04
28 5 0.09
29 18 0.34
30 21 0.40
31 5 0.09
32 2 0.04
ACGTcount: A:0.30, C:0.29, G:0.03, T:0.38
Consensus pattern (30 bp):
CCATTTTTAACCCCGATTTCACCAAAATTA
Found at i:35172888 original size:30 final size:29
Alignment explanation
Indices: 35172854--35172945 Score: 100
Period size: 29 Copynumber: 3.1 Consensus size: 29
35172844 TAAATCCCAT
35172854 TTTTAACCCCGATTTCACCAAAATTTACCA
1 TTTTAACCCCGATTTCACCAAAA-TTACCA
* **
35172884 TTTTACCCCCGAATCTT--TTAAAATT-CCA
1 TTTTAACCCCG-AT-TTCACCAAAATTACCA
35172912 TTTTTAACCCCGATTTCACCAAAATTACCA
1 -TTTTAACCCCGATTTCACCAAAATTACCA
35172942 TTTT
1 TTTT
35172946 GCCCTCGGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
27 2 0.04
28 5 0.10
29 22 0.44
30 17 0.34
31 2 0.04
32 2 0.04
ACGTcount: A:0.30, C:0.28, G:0.03, T:0.38
Consensus pattern (29 bp):
TTTTAACCCCGATTTCACCAAAATTACCA
Found at i:35185211 original size:69 final size:68
Alignment explanation
Indices: 35185096--35185752 Score: 942
Period size: 68 Copynumber: 9.8 Consensus size: 68
35185086 ATCGTTTCCT
* * * *
35185096 ATCCGCTTGAAATTGAAGTAGAGTGGATATCACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAT
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
*
35185161 GCC
66 GTC
** *
35185164 AATCTGCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 -ATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
35185229 CGTC
65 CGTC
* * * *
35185233 ATCCCCTTGAAATTGAAATAGAGTGGATATCACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAT
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
*
35185298 GCC
66 GTC
* *
35185301 AATCCGCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 -ATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
35185366 CGTC
65 CGTC
* * *
35185370 ATCCCCTTGAAATTGAAGTAGAGTGGATATCACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAT
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
35185435 GTC
66 GTC
* * * *
35185438 AATCCGCTTGAAATTGAAGTAGAGTGGATAACGCGCCTTTATCTTTGAAATTGAAGTAAGAGCAA
1 -ATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
*
35185503 CGTT
65 CGTC
*
35185507 ATCCCCTTGAAATTGAAGTAGAGTGGATAA--------CA---C-GAAACTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
35185560 GTC
66 GTC
35185563 ATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
35185628 GTC
66 GTC
*
35185631 ATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
35185696 GTC
66 GTC
* * * *
35185699 ATCCCCTTGAGATTGAAGTAGAGTGGATAACACGTCTCCATCTCGGAAATTGAA
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAA
35185753 AAAATGAAGT
Statistics
Matches: 528, Mismatches: 46, Indels: 29
0.88 0.08 0.05
Matches are distributed among these distances:
56 51 0.10
60 1 0.00
64 2 0.00
67 1 0.00
68 290 0.55
69 183 0.35
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.27
Consensus pattern (68 bp):
ATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
GTC
Found at i:35185347 original size:137 final size:137
Alignment explanation
Indices: 35185096--35185752 Score: 1018
Period size: 137 Copynumber: 4.9 Consensus size: 137
35185086 ATCGTTTCCT
*
35185096 ATCCGCTTGAAATTGAAGTAGAGTGGATATCACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAT
1 ATCCCCTTGAAATTGAAGTAGAGTGGATATCACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAT
* *
35185161 GCCAATCTGCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTTATCTCTGAAATTGAAGTAAGAG
66 GTCAATCCGCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTTATCTCTGAAATTGAAGTAAGAG
35185226 CAACGTC
131 CAACGTC
*
35185233 ATCCCCTTGAAATTGAAATAGAGTGGATATCACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAT
1 ATCCCCTTGAAATTGAAGTAGAGTGGATATCACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAT
*
35185298 GCCAATCCGCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTTATCTCTGAAATTGAAGTAAGAG
66 GTCAATCCGCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTTATCTCTGAAATTGAAGTAAGAG
35185363 CAACGTC
131 CAACGTC
35185370 ATCCCCTTGAAATTGAAGTAGAGTGGATATCACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAT
1 ATCCCCTTGAAATTGAAGTAGAGTGGATATCACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAT
* *
35185435 GTCAATCCGCTTGAAATTGAAGTAGAGTGGATAACGCGCCTTTATCTTTGAAATTGAAGTAAGAG
66 GTCAATCCGCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTTATCTCTGAAATTGAAGTAAGAG
*
35185500 CAACGTT
131 CAACGTC
* *
35185507 ATCCCCTTGAAATTGAAGTAGAGTGGATA--A------CA---C-GAAACTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATATCACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAT
* *
35185560 GTC-ATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAG
66 GTCAATCCGCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTTATCTCTGAAATTGAAGTAAGAG
35185624 CAACGTC
131 CAACGTC
* * * *
35185631 ATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATATCACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAT
* * * ** *
35185696 GTC-ATCCCCTTGAGATTGAAGTAGAGTGGATAACACGTCTCCATCTCGGAAATTGAA
66 GTCAATCCGCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTTATCTCTGAAATTGAA
35185753 AAAATGAAGT
Statistics
Matches: 486, Mismatches: 22, Indels: 25
0.91 0.04 0.05
Matches are distributed among these distances:
124 92 0.19
125 21 0.04
126 1 0.00
129 2 0.00
132 1 0.00
135 2 0.00
136 72 0.15
137 295 0.61
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.27
Consensus pattern (137 bp):
ATCCCCTTGAAATTGAAGTAGAGTGGATATCACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAT
GTCAATCCGCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTTATCTCTGAAATTGAAGTAAGAG
CAACGTC
Found at i:35185613 original size:37 final size:36
Alignment explanation
Indices: 35185570--35185752 Score: 143
Period size: 37 Copynumber: 5.3 Consensus size: 36
35185560 GTCATCCCCT
35185570 TGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTC
1 TGAAATTGAAGTAGAGTGGATAAC-CGTCTTCATCTC
* * * **
35185607 TGAAATTGAAGTA-AG-AG-CAA-CGTCATCCCCT-
1 TGAAATTGAAGTAGAGTGGATAACCGTCTTCATCTC
*
35185638 TGAAATTGAAGTAGAGTGGATAACGCGTCTTTATCTC
1 TGAAATTGAAGTAGAGTGGATAAC-CGTCTTCATCTC
* * * **
35185675 TGAAATTGAAGTA-AG-AG-CAA-CGTCATCCCCT-
1 TGAAATTGAAGTAGAGTGGATAACCGTCTTCATCTC
* *
35185706 TGAGATTGAAGTAGAGTGGATAACACGTCTCCATCTC
1 TGAAATTGAAGTAGAGTGGATAAC-CGTCTTCATCTC
*
35185743 GGAAATTGAA
1 TGAAATTGAA
35185753 AAAATGAAGT
Statistics
Matches: 108, Mismatches: 26, Indels: 24
0.68 0.16 0.15
Matches are distributed among these distances:
31 25 0.23
32 19 0.18
33 2 0.02
34 8 0.07
35 2 0.02
36 18 0.17
37 34 0.31
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (36 bp):
TGAAATTGAAGTAGAGTGGATAACCGTCTTCATCTC
Found at i:35185718 original size:192 final size:193
Alignment explanation
Indices: 35185347--35185732 Score: 684
Period size: 192 Copynumber: 2.0 Consensus size: 193
35185337 CTTTATCTCT
* *
35185347 GAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATATCACGTCTTCATC
1 GAAACTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATC
* *
35185412 TCTGAAATTGAAGTAAGAGCAATGTCAATCCGCTTGAAATTGAAGTAGAGTGGATAACGCGCCTT
66 TCTGAAATTGAAGTAAGAGCAACGTCAATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGCCTT
* *
35185477 TATCTTTGAAATTGAAGTAAGAGCAACGTTATCCCCTTGAAATTGAAGTAGAGTGGATAACAC
131 TATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAC
*
35185540 GAAACTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATC
1 GAAACTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATC
*
35185605 TCTGAAATTGAAGTAAGAGCAACGTC-ATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTT
66 TCTGAAATTGAAGTAAGAGCAACGTCAATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGCCTT
*
35185669 TATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAGATTGAAGTAGAGTGGATAACAC
131 TATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAC
35185732 G
1 G
35185733 TCTCCATCTC
Statistics
Matches: 184, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
192 97 0.53
193 87 0.47
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (193 bp):
GAAACTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATC
TCTGAAATTGAAGTAAGAGCAACGTCAATCCCCTTGAAATTGAAGTAGAGTGGATAACGCGCCTT
TATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACAC
Found at i:35186124 original size:6 final size:6
Alignment explanation
Indices: 35186095--35186185 Score: 60
Period size: 6 Copynumber: 15.0 Consensus size: 6
35186085 TTTTAATTTT
* * *
35186095 ATTTAA ATTCAA ACTT-A TTTTAA ATTTAA ATTTAA TTATTTAA ATTT-A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA --ATTTAA ATTTAA
* * ** * *
35186143 CTTTGA ATTTAA ATTTAA ATAAAA ATTAAA ACATTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A-TTTAA ATTTAA
35186186 CATTAAAAAA
Statistics
Matches: 65, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
5 7 0.11
6 48 0.74
7 4 0.06
8 6 0.09
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (6 bp):
ATTTAA
Found at i:35186154 original size:17 final size:16
Alignment explanation
Indices: 35186086--35186159 Score: 71
Period size: 17 Copynumber: 4.6 Consensus size: 16
35186076 TAAATTGATT
*
35186086 TTTAATTTTATTTAAA
1 TTTAAATTTATTTAAA
* *
35186102 TTCAAACTTATTTTAAA
1 TTTAAATTTA-TTTAAA
*
35186119 TTTAAATTTAATT--A
1 TTTAAATTTATTTAAA
*
35186133 TTTAAATTTACTTTGAA
1 TTTAAATTTA-TTTAAA
35186150 TTTAAATTTA
1 TTTAAATTTA
35186160 AATAAAAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
14 11 0.23
15 2 0.04
16 9 0.19
17 25 0.53
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:35187240 original size:25 final size:23
Alignment explanation
Indices: 35187212--35187268 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 23
35187202 AGCAAAAAGG
35187212 AAAACAAAAGG-TTTGAAAATCAA
1 AAAACAAAAGGTTTTGAAAAT-AA
35187235 TAAAA-AGGAAAGGTTTTGAAAATAA
1 -AAAACA--AAAGGTTTTGAAAATAA
35187260 AAAACAAAA
1 AAAACAAAA
35187269 AATGAAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
23 4 0.14
24 8 0.28
25 8 0.28
26 9 0.31
ACGTcount: A:0.63, C:0.05, G:0.14, T:0.18
Consensus pattern (23 bp):
AAAACAAAAGGTTTTGAAAATAA
Found at i:35187279 original size:21 final size:22
Alignment explanation
Indices: 35187251--35187298 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
35187241 GGAAAGGTTT
35187251 TGAA-AATAAAA-AACAAAAAA
1 TGAAGAATAAAAGAACAAAAAA
*
35187271 TGAAGAATAAAAGAACAAAATA
1 TGAAGAATAAAAGAACAAAAAA
35187293 -GAAGAA
1 TGAAGAA
35187299 AAGAATAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 4 0.16
21 13 0.52
22 8 0.32
ACGTcount: A:0.73, C:0.04, G:0.12, T:0.10
Consensus pattern (22 bp):
TGAAGAATAAAAGAACAAAAAA
Found at i:35188007 original size:161 final size:162
Alignment explanation
Indices: 35187724--35188020 Score: 454
Period size: 161 Copynumber: 1.8 Consensus size: 162
35187714 TATTTTCAAT
* *
35187724 TTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACGTGTCATTTTTTTGATTATTTATGCA
1 TTAGTCCTTTGACCGTTTGACTGTACCAGAGGCTGCCACGTGTCATTTTTTGGATTATTTATGCA
** * *
35187789 TTTAATCCCTGACATTTTTGATTTATTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACGA
66 TTTAATCCCTGACATTTTAAATTTATTTTAATTTAATCCACAAATCAACTTTTATTTAATTACAA
35187854 AATTGGCCCAAGAATTTTTCATGGTTTATAAA
131 AATTGGCCCAAGAATTTTTCATGGTTTATAAA
*
35187886 TTAGTCCTTTGACCGTTTGACTGTACCAG-GAGCTGCCACGTGTCA-TTTTTGGCTTATTTATGC
1 TTAGTCCTTTGACCGTTTGACTGTACCAGAG-GCTGCCACGTGTCATTTTTTGGATTATTTATGC
* * *** *
35187949 ATTTAGTCCTTTTTATTTTAAATTTGTTTTAATTTAATCCACAAATCAACTTTTATTTAATTACA
65 ATTTAATCCCTGACATTTTAAATTTATTTTAATTTAATCCACAAATCAACTTTTATTTAATTACA
35188014 AAATTGG
130 AAATTGG
35188021 TCTAAAAATG
Statistics
Matches: 121, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
161 79 0.65
162 42 0.35
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (162 bp):
TTAGTCCTTTGACCGTTTGACTGTACCAGAGGCTGCCACGTGTCATTTTTTGGATTATTTATGCA
TTTAATCCCTGACATTTTAAATTTATTTTAATTTAATCCACAAATCAACTTTTATTTAATTACAA
AATTGGCCCAAGAATTTTTCATGGTTTATAAA
Found at i:35188171 original size:30 final size:30
Alignment explanation
Indices: 35188130--35188370 Score: 324
Period size: 30 Copynumber: 8.0 Consensus size: 30
35188120 CCCTAAATTA
*
35188130 TCCAGAAATTACATTTTGACCCTAAAACTTT
1 TCCA-AAATTACATTTTAACCCTAAAACTTT
* *
35188161 TCCAAAATTACATTTTGA-CCTCGAAACTTT
1 TCCAAAATTACATTTTAACCCT-AAAACTTT
* * *
35188191 TCTAAAATTACATTTTGACCCTACAACTTT
1 TCCAAAATTACATTTTAACCCTAAAACTTT
*
35188221 TCTAAAATTACATTTTAACCCTAAAACTTT
1 TCCAAAATTACATTTTAACCCTAAAACTTT
* *
35188251 TCTAAAATTATATTTTAACCCTAAAACTTT
1 TCCAAAATTACATTTTAACCCTAAAACTTT
35188281 TCCAAAATTACATTTTAACCCTAAAACTTT
1 TCCAAAATTACATTTTAACCCTAAAACTTT
*
35188311 TCCAAAATTACATTTTAACCCCAAAAC-TT
1 TCCAAAATTACATTTTAACCCTAAAACTTT
* * *
35188340 ACAGAAAATTACATTTTAACCCCAAAACTTT
1 TC-CAAAATTACATTTTAACCCTAAAACTTT
35188371 CCTAAATCCC
Statistics
Matches: 194, Mismatches: 12, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
29 6 0.03
30 179 0.92
31 9 0.05
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (30 bp):
TCCAAAATTACATTTTAACCCTAAAACTTT
Found at i:35188387 original size:60 final size:58
Alignment explanation
Indices: 35188143--35188417 Score: 202
Period size: 60 Copynumber: 4.6 Consensus size: 58
35188133 AGAAATTACA
* * * * * *
35188143 TTTTGACCCTAAAACTTTTCCAAAATTACATTTTGA-CCTCGAAACTTTTCTAAAATTACA-
1 TTTTAACCCCAAAACTTTACCAAAATTACATTTTAACCCT-AAAACTTTCCT-AAA-T-CAT
* * * * * * *
35188203 TTTTGACCCTACAACTTTTCTAAAATTACATTTTAACCCTAAAACTTTTCTAAAATTAT
1 TTTTAACCCCAAAACTTTACCAAAATTACATTTTAACCCTAAAACTTTCCT-AAATCAT
* * *
35188262 ATTTTAACCCTAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTTTTCCAAAATTACA-
1 -TTTTAACCCCAAAACTTTACCAAAATTACATTTTAACCCTAAAAC-TTTCCTAAA-T-CAT
* *
35188323 TTTTAACCCCAAAAC-TTACAGAAAATTACATTTTAACCCCAAAACTTTCCTAAATCCCAT
1 TTTTAACCCCAAAACTTTAC-CAAAATTACATTTTAACCCTAAAACTTTCCTAAAT--CAT
* *
35188383 TTTTAACCCC--GATTTTACCAAAATTTACCATTTTA
1 TTTTAACCCCAAAACTTTACCAAAA-TTA-CATTTTA
35188418 CCGCCGAATC
Statistics
Matches: 183, Mismatches: 20, Indels: 24
0.81 0.09 0.11
Matches are distributed among these distances:
58 7 0.04
59 21 0.11
60 146 0.80
61 8 0.04
62 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.37
Consensus pattern (58 bp):
TTTTAACCCCAAAACTTTACCAAAATTACATTTTAACCCTAAAACTTTCCTAAATCAT
Found at i:35188406 original size:29 final size:30
Alignment explanation
Indices: 35188379--35188474 Score: 103
Period size: 30 Copynumber: 3.2 Consensus size: 30
35188369 TTCCTAAATC
35188379 CCATTTTTAACCCCGATTTTACCAAAATTTA
1 CCATTTTTAACCCCGATTTTACCAAAA-TTA
*
35188410 CCA-TTTT-ACCGCCGAATCTTT--TAAAATT-
1 CCATTTTTAACC-CCG-AT-TTTACCAAAATTA
*
35188438 CCATTTTTAACCCCGATTTCACCAAAATTA
1 CCATTTTTAACCCCGATTTTACCAAAATTA
35188468 CCATTTT
1 CCATTTT
35188475 GCCCCCGGGT
Statistics
Matches: 54, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
27 2 0.04
28 5 0.09
29 18 0.33
30 21 0.39
31 5 0.09
32 3 0.06
ACGTcount: A:0.30, C:0.27, G:0.04, T:0.39
Consensus pattern (30 bp):
CCATTTTTAACCCCGATTTTACCAAAATTA
Found at i:35188417 original size:30 final size:29
Alignment explanation
Indices: 35188383--35188474 Score: 93
Period size: 29 Copynumber: 3.1 Consensus size: 29
35188373 TAAATCCCAT
35188383 TTTTAACCCCGATTTTACCAAAATTTACCA
1 TTTTAACCCCGATTTTACCAAAA-TTACCA
*
35188413 TTTT-ACCGCCGAATCTTT--TAAAATT-CCA
1 TTTTAACC-CCG-AT-TTTACCAAAATTACCA
*
35188441 TTTTTAACCCCGATTTCACCAAAATTACCA
1 -TTTTAACCCCGATTTTACCAAAATTACCA
35188471 TTTT
1 TTTT
35188475 GCCCCCGGGT
Statistics
Matches: 51, Mismatches: 3, Indels: 17
0.72 0.04 0.24
Matches are distributed among these distances:
27 2 0.04
28 5 0.10
29 22 0.43
30 17 0.33
31 2 0.04
32 3 0.06
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.39
Consensus pattern (29 bp):
TTTTAACCCCGATTTTACCAAAATTACCA
Found at i:35190832 original size:17 final size:17
Alignment explanation
Indices: 35190812--35190876 Score: 73
Period size: 17 Copynumber: 4.0 Consensus size: 17
35190802 TTAATATTAT
* *
35190812 TTTAAATTAAGTTTAAA
1 TTTAAAATAAATTTAAA
35190829 TTTAAAATAAATTTAAA
1 TTTAAAATAAATTTAAA
*
35190846 --T-AAGTAAATTTAAA
1 TTTAAAATAAATTTAAA
*
35190860 TTTAAGATAAATTTAAA
1 TTTAAAATAAATTTAAA
35190877 AATGAATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 12 0.30
15 1 0.03
16 1 0.03
17 26 0.65
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.42
Consensus pattern (17 bp):
TTTAAAATAAATTTAAA
Found at i:35190839 original size:11 final size:11
Alignment explanation
Indices: 35190825--35190895 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
35190815 AAATTAAGTT
35190825 TAAATTTAAAA
1 TAAATTTAAAA
35190836 TAAATTT-AAA
1 TAAATTTAAAA
* *
35190846 T-AA-GTAAATT
1 TAAATTTAAA-A
*
35190856 TAAATTTAAGA
1 TAAATTTAAAA
35190867 TAAATTTAAAAA
1 TAAATTT-AAAA
*
35190879 TGAATTTAAAA
1 TAAATTTAAAA
*
35190890 TTAATT
1 TAAATT
35190896 CAAACATTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
8 1 0.02
9 4 0.09
10 5 0.11
11 25 0.53
12 12 0.26
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:35190861 original size:31 final size:29
Alignment explanation
Indices: 35190823--35190893 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 29
35190813 TTAAATTAAG
35190823 TTTAAATTTAAAATAAATTTAAATAAGTAAA
1 TTTAAATTTAAAATAAATTTAAA-AA-TAAA
* *
35190854 TTTAAATTTAAGATAAATTTAAAAATGAA
1 TTTAAATTTAAAATAAATTTAAAAATAAA
*
35190883 TTTAAAATTAA
1 TTTAAATTTAA
35190894 TTCAAACATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 13 0.35
30 2 0.05
31 22 0.59
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.39
Consensus pattern (29 bp):
TTTAAATTTAAAATAAATTTAAAAATAAA
Found at i:35191246 original size:38 final size:38
Alignment explanation
Indices: 35191132--35191253 Score: 108
Period size: 38 Copynumber: 3.2 Consensus size: 38
35191122 TTTGCCTTGC
* *
35191132 TCAATTTCGGAGATAAAGACTTGATACCCAATTCTACT
1 TCAATTTCGGAGATAAAGACTTGATATCCAACTCTACT
* * ** * *
35191170 TCAATTTCGAACGGAT-AGGAAATGACGT-TGC-TCT-TACT
1 TCAATTTCGGA--GATAAAGACTTGA--TATCCAACTCTACT
35191208 TCAATTTCGGAGATAAAGACTTGATATCCAACTCTACT
1 TCAATTTCGGAGATAAAGACTTGATATCCAACTCTACT
35191246 TCAATTTC
1 TCAATTTC
35191254 AAGGGGATGA
Statistics
Matches: 62, Mismatches: 14, Indels: 16
0.67 0.15 0.17
Matches are distributed among these distances:
35 1 0.02
36 5 0.08
37 8 0.13
38 36 0.58
39 7 0.11
40 4 0.06
41 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (38 bp):
TCAATTTCGGAGATAAAGACTTGATATCCAACTCTACT
Found at i:35191337 original size:68 final size:68
Alignment explanation
Indices: 35191191--35191664 Score: 799
Period size: 68 Copynumber: 6.9 Consensus size: 68
35191181 CGGATAGGAA
* *
35191191 ATGACGTTGCTCTTACTTCAATTTCGGAGATAAAGACTTGA-TATCCAACTCTACTTCAATTTCA
1 ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGT-ATTATCC-ACTCTACTTCAATTTCA
35191255 AGGGG
64 AGGGG
* * *
35191260 ATGACGTTGCTCTCACTTTAATTTCAGAGGTAAAGACGTATTATCCACTCTACTTCAATTTCAAG
1 ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAG
35191325 GGG
66 GGG
*
35191328 ATGACGTTGCTCTTACTTCAATTTCAGAGGTAAAGACGTATTATCCACTCTACTTCAATTTCAAG
1 ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAG
35191393 GGG
66 GGG
35191396 ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAG
1 ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAG
35191461 GGG
66 GGG
*
35191464 ATGACGTTGCTTTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAG
1 ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAG
*
35191529 TGG
66 GGG
35191532 ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAG
1 ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAG
35191597 GGG
66 GGG
* * *
35191600 ATGACGTTGCTCTTACTTCAATTTCAGAGGTAAAGACGTGA-TATCCAGCTTTACTTTAATTTCA
1 ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGT-ATTATCCA-CTCTACTTCAATTTCA
35191664 A
64 A
35191665 AAGGATAGGA
Statistics
Matches: 387, Mismatches: 15, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
68 332 0.86
69 55 0.14
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (68 bp):
ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAG
GGG
Found at i:35201985 original size:59 final size:59
Alignment explanation
Indices: 35201885--35202168 Score: 439
Period size: 59 Copynumber: 4.8 Consensus size: 59
35201875 TATGGATACC
* * *
35201885 CGGGGGCAAAATGGTAA-TTTTGGTGAAATCGGAGTTAAAAATAGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
* *
35201943 CGGGGGGTAAAATGGTAATCTTCGGTGAAATCGGGGTT-AAAATGGAATTTTAAAAGATT
1 C-GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
* *
35202002 TGGGGGTAAAATGGTAATTTTTTGTGAAATCGGGGTT-AAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
*
35202060 CGGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
* * *
35202119 CGAGGGTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGGAATTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTT
35202169 AGGGAAGTTT
Statistics
Matches: 209, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
58 89 0.43
59 104 0.50
60 16 0.08
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.31
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
Found at i:35202021 original size:117 final size:117
Alignment explanation
Indices: 35201885--35202168 Score: 437
Period size: 117 Copynumber: 2.4 Consensus size: 117
35201875 TATGGATACC
* * *
35201885 CGGGGGCAAAATGGTAATTTTGGTGAAATCGGAGTTAAAAATAGAATTTTAAAAGATTCGGGGGG
1 CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTC-GGGGG
*
35201950 TAAAATGGTAATCTTCGGTGAAATCGGGGTT-AAAATGGAATTTTAAAAGATT
65 TAAAATGGTAATCTTCGATGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
* *
35202002 TGGGGGTAAAATGGTAATTTTTTGTGAAATCGGGGTT-AAAATGGAATTTTAAAAGATTCGGGGG
1 CGGGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGG
* *
35202066 TAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
65 TAAAATGGTAATCTTCGATGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
* *
35202119 CGAGGGTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGGAATTT
1 CGGGGGTAAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTT
35202169 AGGGAAGTTT
Statistics
Matches: 151, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
116 37 0.25
117 85 0.56
118 29 0.19
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.31
Consensus pattern (117 bp):
CGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
AAAATGGTAATCTTCGATGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
Found at i:35202154 original size:29 final size:29
Alignment explanation
Indices: 35201892--35202168 Score: 181
Period size: 30 Copynumber: 9.4 Consensus size: 29
35201882 ACCCGGGGGC
* *
35201892 AAAATGGTAATTTT-GGTGAAATCGGAGTT
1 AAAATGG-AATTTTAGATGAAATCGGGGTT
* * * * *
35201921 AAAAATAGAATTTTAAAAG-ATTCGGGGGGT
1 -AAAATGGAATTTTAGATGAAATC-GGGGTT
* * *
35201951 AAAATGGTAATCTTCGGTGAAATCGGGGTT
1 AAAATGG-AATTTTAGATGAAATCGGGGTT
* * * * *
35201981 AAAATGGAATTTTAAAAG-ATTTGGGGGT
1 AAAATGGAATTTTAGATGAAATCGGGGTT
*
35202009 AAAATGGTAATTTTTTG-TGAAATCGGGGTT
1 AAAATGG-AA-TTTTAGATGAAATCGGGGTT
* * * *
35202039 AAAATGGAATTTTAAAAG-ATTCGGGGGT
1 AAAATGGAATTTTAGATGAAATCGGGGTT
*
35202067 AAAATGGTAATTTTTGATGAAATCGGGGTT
1 AAAATGG-AATTTTAGATGAAATCGGGGTT
* * *
35202097 AAAAATGGAATTTTAAAAG-ATTCGAGGG-T
1 -AAAATGGAATTTTAGATGAAATCG-GGGTT
*
35202126 AAAATGGTAATTTTCGATGAAATCGGGGTT
1 AAAATGG-AATTTTAGATGAAATCGGGGTT
35202156 AAAAATGGAATTT
1 -AAAATGGAATTT
35202169 AGGGAAGTTT
Statistics
Matches: 184, Mismatches: 47, Indels: 32
0.70 0.18 0.12
Matches are distributed among these distances:
28 40 0.22
29 51 0.28
30 76 0.41
31 17 0.09
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (29 bp):
AAAATGGAATTTTAGATGAAATCGGGGTT
Found at i:35202497 original size:30 final size:30
Alignment explanation
Indices: 35202173--35202489 Score: 467
Period size: 30 Copynumber: 10.6 Consensus size: 30
35202163 GAATTTAGGG
* * *
35202173 AAGTTTGGGGGT-AAGATGATAATTTTTG-A
1 AAGTTTTGGGGTCAAAATG-TAATTTTGGAA
35202202 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
35202232 AAGTTTTGGGGTTAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
35202262 AAGTTTTGGGGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
35202292 AAGTTTTAGGGTTAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
35202322 AAGTTTTGGGGTTAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
35202352 AAGTTTTAGGGTCAAAATGTAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
35202382 AAGTTTTGGGGTTAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
35202412 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
35202442 AAGTTTTAGGGTCAAAATGTAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
35202472 AAGTTCTGGGGTCAAAAT
1 AAGTTTTGGGGTCAAAAT
35202490 ATGATTTTTG
Statistics
Matches: 261, Mismatches: 25, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
29 19 0.07
30 242 0.93
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.38
Consensus pattern (30 bp):
AAGTTTTGGGGTCAAAATGTAATTTTGGAA
Found at i:35203348 original size:15 final size:15
Alignment explanation
Indices: 35203328--35203360 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
35203318 TTGTCTTTTC
35203328 AAAATCCAGATCTGG
1 AAAATCCAGATCTGG
35203343 AAAATCCAGATCTGG
1 AAAATCCAGATCTGG
35203358 AAA
1 AAA
35203361 CATTTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.18
Consensus pattern (15 bp):
AAAATCCAGATCTGG
Found at i:35204407 original size:17 final size:17
Alignment explanation
Indices: 35204387--35204451 Score: 73
Period size: 17 Copynumber: 4.0 Consensus size: 17
35204377 TTAATATTAT
* *
35204387 TTTAAATTAAGTTTAAA
1 TTTAAAATAAATTTAAA
35204404 TTTAAAATAAATTTAAA
1 TTTAAAATAAATTTAAA
*
35204421 --T-AAGTAAATTTAAA
1 TTTAAAATAAATTTAAA
*
35204435 TTTAAGATAAATTTAAA
1 TTTAAAATAAATTTAAA
35204452 AATGAATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 12 0.30
15 1 0.03
16 1 0.03
17 26 0.65
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.42
Consensus pattern (17 bp):
TTTAAAATAAATTTAAA
Found at i:35204414 original size:11 final size:11
Alignment explanation
Indices: 35204400--35204470 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
35204390 AAATTAAGTT
35204400 TAAATTTAAAA
1 TAAATTTAAAA
35204411 TAAATTT-AAA
1 TAAATTTAAAA
* *
35204421 T-AA-GTAAATT
1 TAAATTTAAA-A
*
35204431 TAAATTTAAGA
1 TAAATTTAAAA
35204442 TAAATTTAAAAA
1 TAAATTT-AAAA
*
35204454 TGAATTTAAAA
1 TAAATTTAAAA
*
35204465 TTAATT
1 TAAATT
35204471 CAAACTTTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
8 1 0.02
9 4 0.09
10 5 0.11
11 25 0.53
12 12 0.26
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:35204436 original size:31 final size:29
Alignment explanation
Indices: 35204398--35204468 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 29
35204388 TTAAATTAAG
35204398 TTTAAATTTAAAATAAATTTAAATAAGTAAA
1 TTTAAATTTAAAATAAATTTAAA-AA-TAAA
* *
35204429 TTTAAATTTAAGATAAATTTAAAAATGAA
1 TTTAAATTTAAAATAAATTTAAAAATAAA
*
35204458 TTTAAAATTAA
1 TTTAAATTTAA
35204469 TTCAAACTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 13 0.35
30 2 0.05
31 22 0.59
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.39
Consensus pattern (29 bp):
TTTAAATTTAAAATAAATTTAAAAATAAA
Found at i:35211834 original size:106 final size:100
Alignment explanation
Indices: 35211634--35211845 Score: 298
Period size: 106 Copynumber: 2.1 Consensus size: 100
35211624 TAATATTGTA
* *
35211634 ATCCTGCAGTTCATTTTAGAGGAATTGATGTCTAACATCCATCTCATATGCTCTTCATCATGATT
1 ATCCTGCAGTTCATTTTAGAGGAATTGATATCTAACATCCATCACATATGCTCTTCATCATGATT
35211699 GAGATGCTTGATCATATCATTATGGAAGTGACATC
66 GAGATGCTTGATCATATCATTATGGAAGTGACATC
* * * ** *
35211734 ATCCTGCAGTTCATTTGTAGAGTAATTGATATCTAACATCCATCACATATGTTTTTTTTTTTTTT
1 ATCCTGCAGTTCATTT-TAGAGGAATTGATATCTAACATCCATCACATATG-----CTCTTCATC
35211799 ATGATTGAGATGCTTGATCATATCATTATGGAAGTGACATC
60 ATGATTGAGATGCTTGATCATATCATTATGGAAGTGACATC
35211840 ATCCTG
1 ATCCTG
35211846 GTAGGCTGTA
Statistics
Matches: 98, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
100 16 0.16
101 31 0.32
106 51 0.52
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (100 bp):
ATCCTGCAGTTCATTTTAGAGGAATTGATATCTAACATCCATCACATATGCTCTTCATCATGATT
GAGATGCTTGATCATATCATTATGGAAGTGACATC
Found at i:35220045 original size:23 final size:23
Alignment explanation
Indices: 35220013--35220056 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
35220003 ACTACCATTT
35220013 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
35220036 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
35220057 ATAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:35220049 original size:13 final size:11
Alignment explanation
Indices: 35220017--35220059 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
35220007 CCATTTTCTA
*
35220017 AATAAAATAAT
1 AATAAAATATT
35220028 AAT-AAATATCT
1 AATAAAATAT-T
35220039 AAGTAAAATATT
1 AA-TAAAATATT
35220051 AATAAAATA
1 AATAAAATA
35220060 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:35220062 original size:27 final size:27
Alignment explanation
Indices: 35220014--35220091 Score: 74
Period size: 27 Copynumber: 2.9 Consensus size: 27
35220004 CTACCATTTT
35220014 CTAAATAA--AATAATAATAAATATCTAA
1 CTAAATAATTAATAA-AAT-AATATCTAA
* *
35220041 GTAAA-ATATTAATAAAATAATATTTAA
1 CTAAATA-ATTAATAAAATAATATCTAA
*
35220068 CTAATTAATTAATAAAA-AATATCT
1 CTAAATAATTAATAAAATAATATCT
35220092 CCAAAATACC
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
26 7 0.17
27 26 0.62
28 4 0.10
29 5 0.12
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.35
Consensus pattern (27 bp):
CTAAATAATTAATAAAATAATATCTAA
Found at i:35220590 original size:25 final size:28
Alignment explanation
Indices: 35220562--35220619 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
35220552 GGGATGTTAC
*
35220562 ATATAAAT-TATT-AAATATT-AAAATA
1 ATATAAATATATTAAAAAATTAAAAATA
35220587 ATAT-AATATATTAAAAAAATTAAAAATA
1 ATATAAATATATT-AAAAAATTAAAAATA
35220615 ATATA
1 ATATA
35220620 GACAGATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 3 0.11
25 8 0.30
27 6 0.22
28 10 0.37
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
ATATAAATATATTAAAAAATTAAAAATA
Found at i:35222168 original size:22 final size:23
Alignment explanation
Indices: 35222129--35222171 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
35222119 CTTTTATGGC
35222129 ACGCTTTTCCTCTACCTTGTGAT
1 ACGCTTTTCCTCTACCTTGTGAT
*
35222152 ACGCTTTT-CTCTGCCTTGTG
1 ACGCTTTTCCTCTACCTTGTG
35222172 GCACTCTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.09, C:0.30, G:0.16, T:0.44
Consensus pattern (23 bp):
ACGCTTTTCCTCTACCTTGTGAT
Found at i:35224980 original size:29 final size:30
Alignment explanation
Indices: 35224948--35225022 Score: 111
Period size: 29 Copynumber: 2.6 Consensus size: 30
35224938 CATACCTTGT
*
35224948 AAATTAATT-TAAATATTGGTTAATAATAA
1 AAATTAATTGGAAATATTGGTTAATAATAA
*
35224977 AAATT-ATTGGAAATATTTGTTAATAATAA
1 AAATTAATTGGAAATATTGGTTAATAATAA
35225006 AAATT-ATTGGAAATATT
1 AAATTAATTGGAAATATT
35225023 AAAATAAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 3 0.07
29 40 0.93
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.41
Consensus pattern (30 bp):
AAATTAATTGGAAATATTGGTTAATAATAA
Found at i:35233053 original size:22 final size:19
Alignment explanation
Indices: 35233028--35233078 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
35233018 AAATTGTATG
35233028 ATAATTTTGGTTAGATAATTAT
1 ATAATTTT--TTAGAT-ATTAT
*
35233050 ATAATTTTTTATATATTAT
1 ATAATTTTTTAGATATTAT
35233069 ATGAATTTTT
1 AT-AATTTTT
35233079 AACACATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 7 0.26
20 12 0.44
22 8 0.30
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (19 bp):
ATAATTTTTTAGATATTAT
Found at i:35233087 original size:20 final size:19
Alignment explanation
Indices: 35233045--35233087 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
35233035 TGGTTAGATA
* * *
35233045 ATTATATAATTTTTTATAT
1 ATTATATAATTTTTAACAC
35233064 ATTATATGAATTTTTAACAC
1 ATTATAT-AATTTTTAACAC
35233084 ATTA
1 ATTA
35233088 ATTGATTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (19 bp):
ATTATATAATTTTTAACAC
Found at i:35233894 original size:30 final size:29
Alignment explanation
Indices: 35233858--35233916 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
35233848 TTTCATCCTT
*
35233858 AAAAATTATAAA-ATTTTAATTTAAGTTTTA
1 AAAAATTATAAATA-TATAATTTAA-TTTTA
35233888 AAAAATTATAAATATATAATTTAATTTTA
1 AAAAATTATAAATATATAATTTAATTTTA
35233917 TCTTTAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 5 0.19
30 21 0.78
31 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (29 bp):
AAAAATTATAAATATATAATTTAATTTTA
Found at i:35234437 original size:26 final size:26
Alignment explanation
Indices: 35234385--35234452 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
35234375 AAATCCATTT
* *
35234385 TTAATTTTTAATATTTATACATGTTAC
1 TTAAATTTTAAT-TTTATACATATTAC
35234412 TTAAATTTTAATTTTATACATATTAC
1 TTAAATTTTAATTTTATACATATTAC
35234438 TTAAATTTTAATTTT
1 TTAAATTTTAATTTT
35234453 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 28 0.72
27 11 0.28
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.57
Consensus pattern (26 bp):
TTAAATTTTAATTTTATACATATTAC
Found at i:35236097 original size:30 final size:31
Alignment explanation
Indices: 35236061--35236123 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
35236051 GTTTATATTG
35236061 CAGTCCCTCAAC-TTTGAAAATGAGACAAAA
1 CAGTCCCTCAACTTTTGAAAATGAGACAAAA
*
35236091 CAGTCCCTCAACTTTTGAAAATGTGACAAAA
1 CAGTCCCTCAACTTTTGAAAATGAGACAAAA
35236122 CA
1 CA
35236124 ATCATTTTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.22
Consensus pattern (31 bp):
CAGTCCCTCAACTTTTGAAAATGAGACAAAA
Found at i:35240154 original size:13 final size:13
Alignment explanation
Indices: 35240136--35240163 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
35240126 ATAATAATAA
35240136 TAATTATTATTAT
1 TAATTATTATTAT
35240149 TAATTATTATTAT
1 TAATTATTATTAT
35240162 TA
1 TA
35240164 TAACAAGATT
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TAATTATTATTAT
Found at i:35240157 original size:16 final size:16
Alignment explanation
Indices: 35240133--35240164 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35240123 ATAATAATAA
35240133 TAATAATTATTATTAT
1 TAATAATTATTATTAT
*
35240149 TAATTATTATTATTAT
1 TAATAATTATTATTAT
35240165 AACAAGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATAATTATTATTAT
Found at i:35242285 original size:31 final size:31
Alignment explanation
Indices: 35242250--35242312 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
35242240 TACAATTTGA
* *
35242250 TCACTGAATTATTCGAAAGTTTTCATTTAAG
1 TCACTGAACTATTCAAAAGTTTTCATTTAAG
* *
35242281 TCACTGAGCTATTCAAAAGTTTTTATTTAAG
1 TCACTGAACTATTCAAAAGTTTTCATTTAAG
35242312 T
1 T
35242313 TATTGGGTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (31 bp):
TCACTGAACTATTCAAAAGTTTTCATTTAAG
Found at i:35247413 original size:3 final size:3
Alignment explanation
Indices: 35247405--35247434 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
35247395 TTAGAGGCCT
35247405 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
35247435 TTCGTCATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:35248632 original size:17 final size:17
Alignment explanation
Indices: 35248610--35248643 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35248600 ATCCTTGTAT
*
35248610 AAGAAAATAAGCAAATA
1 AAGAAAATAAGAAAATA
*
35248627 AAGAAACTAAGAAAATA
1 AAGAAAATAAGAAAATA
35248644 GAAATATGCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.06, G:0.12, T:0.12
Consensus pattern (17 bp):
AAGAAAATAAGAAAATA
Found at i:35253755 original size:134 final size:136
Alignment explanation
Indices: 35253498--35253773 Score: 385
Period size: 134 Copynumber: 2.0 Consensus size: 136
35253488 TGGAATTTTC
* * *
35253498 ATTAGTTCTGAAATTTCAATTTTTGCGTAGTCCTATAATATTATGGTATCTATGTATCTATATCC
1 ATTAATTCTGAAATTTCAATTTTTGCATAGTCCTATAATATTATGGTATCCATG----T-TATCC
* * * *
35253563 AGCTCTCATACTCTTCATAGCCTACTCTACTAGTCCAAGAGTTGAGATGAAAGAAGTCAACCTGG
61 AGCTCTCAGACTCTTCATAGCCTACTCTACCAGTCCAAAAGTTGAGATGAAAGAAGTCAACCTAG
35253628 GATCAAATCTA
126 GATCAAATCTA
*
35253639 ATTAATTCTGAAATTTCAA-TTTTGTATAGTCCTATAATATTATGGTATCCATG-TATCCAGCTC
1 ATTAATTCTGAAATTTCAATTTTTGCATAGTCCTATAATATTATGGTATCCATGTTATCCAGCTC
* * * *
35253702 TCAGACTTTTCATAGCCTTCTCTACCAGTCCAAAAGTTTAGATGAAAGGAGTCAACCTAGGATCA
66 TCAGACTCTTCATAGCCTACTCTACCAGTCCAAAAGTTGAGATGAAAGAAGTCAACCTAGGATCA
35253767 AATCTA
131 AATCTA
35253773 A
1 A
35253774 ACCAGAACCC
Statistics
Matches: 123, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
134 74 0.60
140 31 0.25
141 18 0.15
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (136 bp):
ATTAATTCTGAAATTTCAATTTTTGCATAGTCCTATAATATTATGGTATCCATGTTATCCAGCTC
TCAGACTCTTCATAGCCTACTCTACCAGTCCAAAAGTTGAGATGAAAGAAGTCAACCTAGGATCA
AATCTA
Found at i:35263149 original size:4 final size:4
Alignment explanation
Indices: 35263136--35263185 Score: 68
Period size: 4 Copynumber: 12.8 Consensus size: 4
35263126 AAAATTGAAG
*
35263136 GAAA -AAA GAAA GAAA AAAGA GAAA GAAA GAAA GAAA GAAA G-AA GAAA
1 GAAA GAAA GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAAA GAAA
35263183 GAA
1 GAA
35263186 GAATGAAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
3 6 0.15
4 32 0.78
5 3 0.07
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:35263193 original size:7 final size:7
Alignment explanation
Indices: 35263136--35263195 Score: 68
Period size: 7 Copynumber: 8.4 Consensus size: 7
35263126 AAAATTGAAG
*
35263136 GAAAAAA
1 GAAAGAA
35263143 GAAAGAA
1 GAAAGAA
*
35263150 AAAAG-A
1 GAAAGAA
35263156 GAAAGAAA
1 GAAAG-AA
35263164 GAAAGAAA
1 GAAAG-AA
35263172 GAAAGAA
1 GAAAGAA
35263179 GAAAGAA
1 GAAAGAA
*
35263186 GAATGAA
1 GAAAGAA
35263193 GAA
1 GAA
35263196 GGAGAAGAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.11
7 28 0.60
8 14 0.30
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (7 bp):
GAAAGAA
Found at i:35263194 original size:29 final size:28
Alignment explanation
Indices: 35263131--35263204 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 28
35263121 CAACGAAAAT
35263131 TGAAGGAAA-AAAGAAAGAAAAAAGAGAA
1 TGAA-GAAAGAAAGAAAGAAAAAAGAGAA
* *
35263159 AGAAAGAAAGAAAGAAAGAAGAAAGAAGAA
1 TG-AAGAAAGAAAGAAAGAAAAAAG-AGAA
*
35263189 TGAAGAAGGAGAAGAA
1 TGAAGAAAGA-AAGAA
35263205 GGAGAAGGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
28 5 0.13
29 23 0.61
30 10 0.26
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (28 bp):
TGAAGAAAGAAAGAAAGAAAAAAGAGAA
Found at i:35263409 original size:13 final size:13
Alignment explanation
Indices: 35263391--35263416 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35263381 TTAAGTTTGG
35263391 TTAATTTTAAAAT
1 TTAATTTTAAAAT
35263404 TTAATTTTAAAAT
1 TTAATTTTAAAAT
35263417 ATTTTAATTT
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:0.00, T:0.54
Consensus pattern (13 bp):
TTAATTTTAAAAT
Found at i:35263612 original size:20 final size:21
Alignment explanation
Indices: 35263571--35263613 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
35263561 TAATTTACTT
35263571 TAATTTAATTTTGCTAGTTAG
1 TAATTTAATTTTGCTAGTTAG
* *
35263592 TAATTTTATTTTG-TTGTTAG
1 TAATTTAATTTTGCTAGTTAG
35263612 TA
1 TA
35263614 GTAGTAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (21 bp):
TAATTTAATTTTGCTAGTTAG
Found at i:35265818 original size:20 final size:21
Alignment explanation
Indices: 35265777--35265818 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
35265767 GCGAGCCACT
35265777 GCAATACTCTACTCCTTCCGG
1 GCAATACTCTACTCCTTCCGG
35265798 GCAATACTCTACTCC-TCCGG
1 GCAATACTCTACTCCTTCCGG
35265818 G
1 G
35265819 GAAAAAAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.19, C:0.38, G:0.17, T:0.26
Consensus pattern (21 bp):
GCAATACTCTACTCCTTCCGG
Found at i:35266075 original size:14 final size:14
Alignment explanation
Indices: 35266058--35266133 Score: 61
Period size: 14 Copynumber: 5.4 Consensus size: 14
35266048 CCCTAAATCC
*
35266058 TAAACCTTAAACCT
1 TAAATCTTAAACCT
35266072 TAAATC-T-AACACT
1 TAAATCTTAAAC-CT
* *
35266085 TAAAATCATAAACCG
1 T-AAATCTTAAACCT
35266100 TAAA-CTCTAAA-CT
1 TAAATCT-TAAACCT
35266113 TCAAATCTTAAACCT
1 T-AAATCTTAAACCT
35266128 TAAATC
1 TAAATC
35266134 CTATACATGA
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
12 3 0.06
13 7 0.14
14 29 0.58
15 8 0.16
16 3 0.06
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.29
Consensus pattern (14 bp):
TAAATCTTAAACCT
Found at i:35266096 original size:28 final size:27
Alignment explanation
Indices: 35266065--35266133 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 27
35266055 TCCTAAACCT
35266065 TAAACCTTAAATCTAACACTTAAAATCA
1 TAAACCTTAAATCTAA-ACTTAAAATCA
* * *
35266093 TAAACCGTAAACTCTAAACTTCAAATCT
1 TAAACCTTAAA-TCTAAACTTAAAATCA
35266121 TAAACCTTAAATC
1 TAAACCTTAAATC
35266134 CTATACATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.06
28 29 0.81
29 5 0.14
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.29
Consensus pattern (27 bp):
TAAACCTTAAATCTAAACTTAAAATCA
Found at i:35269131 original size:4 final size:4
Alignment explanation
Indices: 35269124--35269168 Score: 54
Period size: 4 Copynumber: 10.8 Consensus size: 4
35269114 TTTTTCCTTC
* *
35269124 TTCT TTCT TTCCT CTCC TTCT TTCT TTCT TTCTT TTCT TTCT TTC
1 TTCT TTCT TT-CT TTCT TTCT TTCT TTCT TTC-T TTCT TTCT TTC
35269169 CCGTTTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
4 28 0.80
5 7 0.20
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TTCT
Found at i:35269145 original size:17 final size:18
Alignment explanation
Indices: 35269122--35269169 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
35269112 TTTTTTTCCT
35269122 TCTTCTTTCTTTCCTCTC
1 TCTTCTTTCTTTCCTCTC
*
35269140 -CTTCTTTCTTT-CTTTC
1 TCTTCTTTCTTTCCTCTC
*
35269156 TTTTCTTTCTTTCC
1 TCTTCTTTCTTTCC
35269170 CGTTTATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 4 0.15
17 21 0.81
18 1 0.04
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TCTTCTTTCTTTCCTCTC
Found at i:35269488 original size:9 final size:8
Alignment explanation
Indices: 35269471--35269499 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
35269461 TTTATTTTTT
35269471 AAAAT-AA
1 AAAATAAA
35269478 AAAATAAA
1 AAAATAAA
35269486 AAAATAAA
1 AAAATAAA
35269494 AAAATA
1 AAAATA
35269500 CGTATCAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 5 0.24
8 16 0.76
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
AAAATAAA
Found at i:35269987 original size:26 final size:28
Alignment explanation
Indices: 35269939--35269992 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
35269929 AAATTAATAA
*
35269939 AAAAATTATATTTTACTTCTTTAAAAAT
1 AAAAATTATATTTTAATTCTTTAAAAAT
*
35269967 AAAAATT-TA-TTTAATTTTTTAAAAAT
1 AAAAATTATATTTTAATTCTTTAAAAAT
35269993 TATAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 15 0.62
27 2 0.08
28 7 0.29
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (28 bp):
AAAAATTATATTTTAATTCTTTAAAAAT
Found at i:35270009 original size:16 final size:17
Alignment explanation
Indices: 35269988--35270030 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
35269978 TAATTTTTTA
35269988 AAAATTATAATAAT-AT
1 AAAATTATAATAATAAT
*
35270004 AAAATTTTAA-AATAAT
1 AAAATTATAATAATAAT
35270020 AAAATTATAAT
1 AAAATTATAAT
35270031 TTAATTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 3 0.13
16 20 0.87
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATTATAATAATAAT
Found at i:35270021 original size:24 final size:25
Alignment explanation
Indices: 35269983--35270029 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
35269973 TTATTTAATT
*
35269983 TTTTAAAAATTATAATAA-TATAAAA
1 TTTTAAAAATAATAA-AATTATAAAA
35270008 TTTT-AAAATAATAAAATTATAA
1 TTTTAAAAATAATAAAATTATAA
35270030 TTTAATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 14 0.70
25 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
TTTTAAAAATAATAAAATTATAAAA
Found at i:35270022 original size:8 final size:8
Alignment explanation
Indices: 35269988--35270029 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
35269978 TAATTTTTTA
35269988 AAAATTAT
1 AAAATTAT
35269996 AATAA-TAT
1 AA-AATTAT
*
35270004 AAAATTTT
1 AAAATTAT
*
35270012 AAAATAAT
1 AAAATTAT
35270020 AAAATTAT
1 AAAATTAT
35270028 AA
1 AA
35270030 TTTAATTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 2 0.07
8 24 0.86
9 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AAAATTAT
Found at i:35270222 original size:21 final size:21
Alignment explanation
Indices: 35270198--35270240 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
35270188 ATAAAAATAT
* *
35270198 AATATATAAAAAATTACAAAA
1 AATATAAAAAAAACTACAAAA
*
35270219 AATATAAAAAAAACTATAAAA
1 AATATAAAAAAAACTACAAAA
35270240 A
1 A
35270241 GGTTATTACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (21 bp):
AATATAAAAAAAACTACAAAA
Found at i:35270229 original size:11 final size:11
Alignment explanation
Indices: 35270188--35270240 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
35270178 AATTTTTAAA
35270188 ATAAAAATATAAT
1 ATAAAAA-A-AAT
*
35270201 ATATAAAAAAT
1 ATAAAAAAAAT
*
35270212 -TACAAAAAAT
1 ATAAAAAAAAT
35270222 ATAAAAAAAACT
1 ATAAAAAAAA-T
35270234 ATAAAAA
1 ATAAAAA
35270241 GGTTATTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 9 0.26
11 11 0.31
12 9 0.26
13 6 0.17
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.23
Consensus pattern (11 bp):
ATAAAAAAAAT
Found at i:35277425 original size:11 final size:11
Alignment explanation
Indices: 35277406--35277522 Score: 53
Period size: 11 Copynumber: 10.7 Consensus size: 11
35277396 AGTACAACAA
35277406 CAACAAAAATAG
1 CAAC-AAAATAG
* *
35277418 CAACAAAAAAA
1 CAACAAAATAG
* *
35277429 CAACAAAAAAA
1 CAACAAAATAG
*
35277440 CAACAGAAATAA
1 CAACA-AAATAG
* *
35277452 CACCAAAACAG
1 CAACAAAATAG
*
35277463 -TA-AAAA-AG
1 CAACAAAATAG
*
35277471 CACCAAAATAG
1 CAACAAAATAG
*
35277482 CAACCAAAACAG
1 CAA-CAAAATAG
* * *
35277494 TAAAAAAATAA
1 CAACAAAATAG
*
35277505 CACCAAAATAG
1 CAACAAAATAG
35277516 CAA-AAAA
1 CAACAAAA
35277523 CAATAATATA
Statistics
Matches: 79, Mismatches: 21, Indels: 12
0.71 0.19 0.11
Matches are distributed among these distances:
8 2 0.03
9 4 0.05
10 8 0.10
11 43 0.54
12 22 0.28
ACGTcount: A:0.68, C:0.20, G:0.06, T:0.06
Consensus pattern (11 bp):
CAACAAAATAG
Found at i:35277430 original size:23 final size:23
Alignment explanation
Indices: 35277404--35277459 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
35277394 ACAGTACAAC
*
35277404 AACAACAAAAATAGCAACA-AAAA
1 AACAACAAAAA-AACAACAGAAAA
*
35277427 AACAACAAAAAAACAACAGAAAT
1 AACAACAAAAAAACAACAGAAAA
*
35277450 AACACCAAAA
1 AACAACAAAA
35277460 CAGTAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 6 0.21
23 23 0.79
ACGTcount: A:0.73, C:0.20, G:0.04, T:0.04
Consensus pattern (23 bp):
AACAACAAAAAAACAACAGAAAA
Found at i:35277460 original size:31 final size:31
Alignment explanation
Indices: 35277433--35277506 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
35277423 AAAAAACAAC
35277433 AAAAAAACAACAGAAATAAC-ACCAAAACAGT
1 AAAAAAACAACA-AAATAACAACCAAAACAGT
* * *
35277464 AAAAAAGCACCAAAATAGCAACCAAAACAGT
1 AAAAAAACAACAAAATAACAACCAAAACAGT
*
35277495 AAAAAAATAACA
1 AAAAAAACAACA
35277507 CCAAAATAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
30 6 0.17
31 30 0.83
ACGTcount: A:0.68, C:0.19, G:0.07, T:0.07
Consensus pattern (31 bp):
AAAAAAACAACAAAATAACAACCAAAACAGT
Found at i:35277501 original size:23 final size:22
Alignment explanation
Indices: 35277475--35277522 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
35277465 AAAAAGCACC
* *
35277475 AAAATAGCAACCAAAACAGTAAA
1 AAAATAAC-ACCAAAACAGCAAA
*
35277498 AAAATAACACCAAAATAGCAAA
1 AAAATAACACCAAAACAGCAAA
35277520 AAA
1 AAA
35277523 CAATAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.69, C:0.17, G:0.06, T:0.08
Consensus pattern (22 bp):
AAAATAACACCAAAACAGCAAA
Found at i:35277838 original size:22 final size:22
Alignment explanation
Indices: 35277813--35277856 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
35277803 TCTTAAGCTT
35277813 ATATATACCGAATGACTAAGAA
1 ATATATACCGAATGACTAAGAA
35277835 ATATATACCGAATGACTAAGAA
1 ATATATACCGAATGACTAAGAA
35277857 CCTTATCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.23
Consensus pattern (22 bp):
ATATATACCGAATGACTAAGAA
Found at i:35293646 original size:19 final size:19
Alignment explanation
Indices: 35293622--35293665 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
35293612 TATTTTTAAA
*
35293622 ATTAAA-TATTTTGCTTTTT
1 ATTAAACTAATTTG-TTTTT
35293641 ATTAAACTTAATTTGTTTTT
1 ATTAAAC-TAATTTGTTTTT
35293661 ATTAA
1 ATTAA
35293666 GCTTTAAGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 10 0.45
21 6 0.27
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (19 bp):
ATTAAACTAATTTGTTTTT
Found at i:35294303 original size:9 final size:9
Alignment explanation
Indices: 35294289--35294341 Score: 52
Period size: 10 Copynumber: 5.6 Consensus size: 9
35294279 ATGATTTTTC
35294289 AAAAAATAT
1 AAAAAATAT
35294298 AAAAAATTAT
1 AAAAAA-TAT
*
35294308 TAAAAATAT
1 AAAAAATAT
35294317 AAAAAACTAT
1 AAAAAA-TAT
* *
35294327 TAAAATTAAT
1 AAAAAAT-AT
35294337 AAAAA
1 AAAAA
35294342 TATTTAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
9 15 0.42
10 21 0.58
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (9 bp):
AAAAAATAT
Found at i:35294314 original size:19 final size:19
Alignment explanation
Indices: 35294290--35294341 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
35294280 TGATTTTTCA
*
35294290 AAAAATATAAAAAATTATT
1 AAAAATATAAAAAACTATT
35294309 AAAAATATAAAAAACTATT
1 AAAAATATAAAAAACTATT
*
35294328 AAAATTAATAAAAA
1 AAAAAT-ATAAAAA
35294342 TATTTAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 23 0.77
20 7 0.23
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAATATAAAAAACTATT
Found at i:35294348 original size:19 final size:19
Alignment explanation
Indices: 35294291--35294349 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
35294281 GATTTTTCAA
* *
35294291 AAAATATAAAAAATTATTA
1 AAAATATAAAAAAATATTT
*
35294310 AAAATATAAAAAACTA-TT
1 AAAATATAAAAAAATATTT
35294328 AAAAT-TAATAAAAATATTT
1 AAAATATAA-AAAAATATTT
35294347 AAA
1 AAA
35294350 TTTATGATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.09
18 12 0.34
19 20 0.57
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATATAAAAAAATATTT
Found at i:35294349 original size:10 final size:9
Alignment explanation
Indices: 35294290--35294345 Score: 58
Period size: 9 Copynumber: 6.0 Consensus size: 9
35294280 TGATTTTTCA
*
35294290 AAAAATATA
1 AAAAATATT
35294299 AAAAATTATT
1 AAAAA-TATT
*
35294309 AAAAATATA
1 AAAAATATT
35294318 AAAAACTATT
1 AAAAA-TATT
* *
35294328 AAAATTAAT
1 AAAAATATT
35294337 AAAAATATT
1 AAAAATATT
35294346 TAAATTTATG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
9 23 0.61
10 15 0.39
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAAATATT
Found at i:35294732 original size:31 final size:31
Alignment explanation
Indices: 35294695--35294779 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 31
35294685 ATGAGGAGTG
*
35294695 CTTAATTAATTTTTAAATTATTTTATGAGGA
1 CTTAATTAATTTTTAAATTATTTTATAAGGA
** * *
35294726 CTTAATTGTTTTTTTAATT-TTTTATAAGGG
1 CTTAATTAATTTTTAAATTATTTTATAAGGA
*
35294756 TTTAATTAATTTTTTAAATTATTT
1 CTTAATTAA-TTTTTAAATTATTT
35294780 AAGTGTAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
30 15 0.35
31 25 0.58
32 3 0.07
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (31 bp):
CTTAATTAATTTTTAAATTATTTTATAAGGA
Found at i:35294761 original size:30 final size:31
Alignment explanation
Indices: 35294695--35294779 Score: 100
Period size: 30 Copynumber: 2.7 Consensus size: 31
35294685 ATGAGGAGTG
* *
35294695 CTTAATTAATTTTTAAATTATTTTATGAGGA
1 CTTAATTAATTTTTTAATTATTTTATAAGGA
** *
35294726 CTTAATTGTTTTTTTAATT-TTTTATAAGGG
1 CTTAATTAATTTTTTAATTATTTTATAAGGA
*
35294756 TTTAATTAATTTTTTAAATTATTT
1 CTTAATTAATTTTTT-AATTATTT
35294780 AAGTGTAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
30 21 0.48
31 20 0.45
32 3 0.07
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (31 bp):
CTTAATTAATTTTTTAATTATTTTATAAGGA
Found at i:35303299 original size:20 final size:19
Alignment explanation
Indices: 35303272--35303313 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
35303262 TTCTTTATGT
*
35303272 TTATATATAT-ATTTTTAA
1 TTATACATATAATTTTTAA
*
35303290 TTATACATATAATTTTTAG
1 TTATACATATAATTTTTAA
35303309 TTATA
1 TTATA
35303314 GATCCAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
TTATACATATAATTTTTAA
Found at i:35306320 original size:22 final size:20
Alignment explanation
Indices: 35306280--35306322 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
35306270 TTTTTCTAGA
*
35306280 TTTTATATATTTCTTAATTT
1 TTTTATATATTTCTCAATTT
35306300 TTTTATATATTTATCTCAATTT
1 TTTTATATA-TT-TCTCAATTT
35306322 T
1 T
35306323 AAAATGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 9 0.45
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTATATATTTCTCAATTT
Found at i:35306623 original size:24 final size:25
Alignment explanation
Indices: 35306583--35306633 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
35306573 AATCCCTCTG
35306583 TTCGGATCCCTCGGTTTCTCCCACT
1 TTCGGATCCCTCGGTTTCTCCCACT
* *
35306608 TTCGGAT-CCTCTGTTTCTCCCTCT
1 TTCGGATCCCTCGGTTTCTCCCACT
35306632 TT
1 TT
35306634 TTCGCCAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.06, C:0.37, G:0.14, T:0.43
Consensus pattern (25 bp):
TTCGGATCCCTCGGTTTCTCCCACT
Found at i:35317552 original size:55 final size:55
Alignment explanation
Indices: 35317485--35317594 Score: 193
Period size: 55 Copynumber: 2.0 Consensus size: 55
35317475 TTTATTTCTA
* *
35317485 GATTAGTTACATTATTATTCAATTAGTCTCTATTTCACCATTTTAAAAGTCAAAT
1 GATTAGTTACATTATTAATCAAATAGTCTCTATTTCACCATTTTAAAAGTCAAAT
*
35317540 GATTTGTTACATTATTAATCAAATAGTCTCTATTTCACCATTTTAAAAGTCAAAT
1 GATTAGTTACATTATTAATCAAATAGTCTCTATTTCACCATTTTAAAAGTCAAAT
35317595 TTAGTTGATT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (55 bp):
GATTAGTTACATTATTAATCAAATAGTCTCTATTTCACCATTTTAAAAGTCAAAT
Found at i:35318171 original size:60 final size:60
Alignment explanation
Indices: 35318067--35318226 Score: 166
Period size: 60 Copynumber: 2.6 Consensus size: 60
35318057 GCCTAATAAC
* * *
35318067 AAATTTAGCCCTTCAATATTT-TCACATTCTATCAATTTGATTTTAAATT-TAA-AATTTCAAT
1 AAATTTAG-CCTTCAATATTTATAAAATT-TGTCAATTTGATTTT-AATTATAATAA-TTCAAT
* *
35318128 AAATTTAGCCTTCAATATTTATAAAATTTGTC-ATTTTAGTTTTAATTATAATAATTCGAT
1 AAATTTAGCCTTCAATATTTATAAAATTTGTCAATTTGA-TTTTAATTATAATAATTCAAT
* * *
35318188 AAATTTAGCCCTCAACATTTACAAAATTTGTCAAATTTG
1 AAATTTAGCCTTCAATATTTATAAAATTTGTC-AATTTG
35318227 TGCTAATTCT
Statistics
Matches: 84, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
59 9 0.11
60 56 0.67
61 15 0.18
62 4 0.05
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (60 bp):
AAATTTAGCCTTCAATATTTATAAAATTTGTCAATTTGATTTTAATTATAATAATTCAAT
Found at i:35320255 original size:24 final size:24
Alignment explanation
Indices: 35320206--35320256 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
35320196 AGTTTGTCTC
*
35320206 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAACTG
35320230 AAACAAATAAACAGAGTTTAACTG
1 AAACAAATAAACAGAGTTTAACTG
35320254 AAA
1 AAA
35320257 GATTATTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.22
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAACTG
Found at i:35322216 original size:24 final size:24
Alignment explanation
Indices: 35322188--35322245 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
35322178 TAAAGTAATA
*
35322188 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
* *
35322212 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
35322236 AGAGTTTAAC
1 AGAGTTTAAC
35322246 GGAAAGATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.50, C:0.12, G:0.14, T:0.24
Consensus pattern (24 bp):
AGAGTTTAACTCAAACAAATAAAC
Found at i:35323613 original size:14 final size:15
Alignment explanation
Indices: 35323590--35323618 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
35323580 AGTTTAATCT
35323590 AAACTAATAAATATA
1 AAACTAATAAATATA
35323605 AAACT-ATAAATATA
1 AAACTAATAAATATA
35323619 TTAGTATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (15 bp):
AAACTAATAAATATA
Found at i:35324045 original size:62 final size:61
Alignment explanation
Indices: 35323943--35324061 Score: 143
Period size: 62 Copynumber: 1.9 Consensus size: 61
35323933 TTAGCCTAAT
*
35323943 AACAAATTTAACCCTCAAATATTTACATATTCTATCAATTTGATCATAAATCTAAAAAAATC
1 AACAAATTTAACCCTCAAATATTTACAAATTCTATCAATTTGATC-TAAATCTAAAAAAATC
* * * * *
35324005 AACAAATTTAGCCCTC-AATGTTTACAAAATT-TGTCAAATTTGTTCTAATTCTAAAAA
1 AACAAATTTAACCCTCAAATATTTAC-AAATTCTATC-AATTTGATCTAAATCTAAAAA
35324062 TTTCAAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
61 22 0.45
62 27 0.55
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.35
Consensus pattern (61 bp):
AACAAATTTAACCCTCAAATATTTACAAATTCTATCAATTTGATCTAAATCTAAAAAAATC
Found at i:35326484 original size:59 final size:60
Alignment explanation
Indices: 35326381--35326643 Score: 291
Period size: 60 Copynumber: 4.4 Consensus size: 60
35326371 TGTTTTAACT
* * *
35326381 CCTAAATTTTTTTAAAATTATATTTTAA-CCCTAAAC-TTTCCCAAATCACATTTTGACC
1 CCTAAACTTTTTTAAAATTACATTTTAACCCCTAAACTTTTCCAAAATCACATTTTGACC
* * * *
35326439 CCAAAACTTTTTTAAAATTATATTTTAACCCCTAAACTTTTCCAAAATTACATTTT-AAC
1 CCTAAACTTTTTTAAAATTACATTTTAACCCCTAAACTTTTCCAAAATCACATTTTGACC
** * * * * * *
35326498 CCTAAACTTTTCCAAAATTACATTTTGACCTCTAAGCTTTTCTATAATTACATTTTGACC
1 CCTAAACTTTTTTAAAATTACATTTTAACCCCTAAACTTTTCCAAAATCACATTTTGACC
** * * *
35326558 CCTAAACTTTCCTAAAATTACATTTTAACCCTTCAACTTTTCCAAAATCATATTTTGA-C
1 CCTAAACTTTTTTAAAATTACATTTTAACCCCTAAACTTTTCCAAAATCACATTTTGACC
* *
35326617 CCTCGAACTTTTTTAAAATTTCATTTT
1 CCT-AAACTTTTTTAAAATTACATTTT
35326644 CATCCCGAGT
Statistics
Matches: 171, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
58 26 0.15
59 61 0.36
60 84 0.49
ACGTcount: A:0.33, C:0.22, G:0.02, T:0.42
Consensus pattern (60 bp):
CCTAAACTTTTTTAAAATTACATTTTAACCCCTAAACTTTTCCAAAATCACATTTTGACC
Found at i:35326635 original size:30 final size:30
Alignment explanation
Indices: 35326353--35326643 Score: 231
Period size: 30 Copynumber: 9.8 Consensus size: 30
35326343 AAGAGATCCC
* **
35326353 CAAACCTTTCTAAAATTATGTTTTAACTCCT
1 CAAACTTTTCTAAAATTACATTTTAAC-CCT
* * *
35326384 -AAATTTTTTTAAAATTATATTTTAACCCT
1 CAAACTTTTCTAAAATTACATTTTAACCCT
** * *
35326413 -AAAC-TTTCCCAAATCACATTTTGACCC-
1 CAAACTTTTCTAAAATTACATTTTAACCCT
* *
35326440 CAAAACTTTTTTAAAATTATATTTTAACCC-
1 C-AAACTTTTCTAAAATTACATTTTAACCCT
*
35326470 CTAAACTTTTCCAAAATTACATTTTAACCCT
1 C-AAACTTTTCTAAAATTACATTTTAACCCT
* *
35326501 -AAACTTTTCCAAAATTACATTTTGA-CCT
1 CAAACTTTTCTAAAATTACATTTTAACCCT
* * *
35326529 CTAAGCTTTTCTATAATTACATTTTGACCC-
1 C-AAACTTTTCTAAAATTACATTTTAACCCT
*
35326559 CTAAACTTTCCTAAAATTACATTTTAACCCTT
1 C-AAACTTTTCTAAAATTACATTTTAACCC-T
* * * *
35326591 C-AACTTTTCCAAAATCATATTTTGACCCT
1 CAAACTTTTCTAAAATTACATTTTAACCCT
* * *
35326620 CGAACTTTTTTAAAATTTCATTTT
1 CAAACTTTTCTAAAATTACATTTT
35326644 CATCCCGAGT
Statistics
Matches: 211, Mismatches: 39, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
28 20 0.09
29 36 0.17
30 152 0.72
31 2 0.01
32 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.02, T:0.42
Consensus pattern (30 bp):
CAAACTTTTCTAAAATTACATTTTAACCCT
Found at i:35330126 original size:18 final size:18
Alignment explanation
Indices: 35330103--35330140 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
35330093 AAATTTGTTC
35330103 CATTGAAATCAATGGAAT
1 CATTGAAATCAATGGAAT
35330121 CATTGAAATCAATGGAAT
1 CATTGAAATCAATGGAAT
35330139 CA
1 CA
35330141 ATGGAACTAT
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:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (18 bp):
CATTGAAATCAATGGAAT
Found at i:35330139 original size:9 final size:9
Alignment explanation
Indices: 35330109--35330146 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
35330099 GTTCCATTGA
35330109 AATCAATGG
1 AATCAATGG
* *
35330118 AATCATTGA
1 AATCAATGG
35330127 AATCAATGG
1 AATCAATGG
35330136 AATCAATGG
1 AATCAATGG
35330145 AA
1 AA
35330147 CTATAGAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (9 bp):
AATCAATGG
Found at i:35331130 original size:11 final size:11
Alignment explanation
Indices: 35331114--35331143 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
35331104 AAATTAGTAT
35331114 CTTTTATTTTA
1 CTTTTATTTTA
35331125 CTTTTATTTTA
1 CTTTTATTTTA
*
35331136 TTTTTATT
1 CTTTTATT
35331144 AGAATAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (11 bp):
CTTTTATTTTA
Found at i:35334059 original size:22 final size:22
Alignment explanation
Indices: 35334016--35334059 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
35334006 CTTTCAAAAT
* *
35334016 TTTTTATGCATATTTAAGATTC
1 TTTTTATACATATTTAAAATTC
35334038 TTTTTATACAT-TTTAACAATTC
1 TTTTTATACATATTTAA-AATTC
35334060 AAATACCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.30, C:0.11, G:0.05, T:0.55
Consensus pattern (22 bp):
TTTTTATACATATTTAAAATTC
Found at i:35337242 original size:6 final size:6
Alignment explanation
Indices: 35337221--35337310 Score: 62
Period size: 6 Copynumber: 15.0 Consensus size: 6
35337211 TTAAATTGAT
*
35337221 TTTAAA TTT-TA TTTAAA TTTAAA TTT--A TCTTAAA TTTAAA TTTAATTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAA--A
* * * * *
35337269 TTTAAA CTT-AC CTTAAA TTTAAA TTAAAA TTAAAA TTATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA
35337311 ACAAATTTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
4 2 0.03
5 10 0.15
6 45 0.66
7 5 0.07
8 6 0.09
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:35337264 original size:17 final size:17
Alignment explanation
Indices: 35337221--35337293 Score: 82
Period size: 17 Copynumber: 4.5 Consensus size: 17
35337211 TTAAATTGAT
35337221 TTTAAATTTTAT-TTAAA
1 TTTAAA-TTTATCTTAAA
35337238 TTTAAATTTATCTTAAA
1 TTTAAATTTATCTTAAA
*
35337255 TTTAAATTTA-ATT--A
1 TTTAAATTTATCTTAAA
* *
35337269 TTTAAACTTACCTTAAA
1 TTTAAATTTATCTTAAA
35337286 TTTAAATT
1 TTTAAATT
35337294 AAAATTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
14 10 0.21
15 2 0.04
16 7 0.15
17 29 0.60
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATCTTAAA
Found at i:35337295 original size:11 final size:11
Alignment explanation
Indices: 35337211--35337302 Score: 53
Period size: 11 Copynumber: 8.5 Consensus size: 11
35337201 AATTTAGAGG
* *
35337211 TTAAATTGATT
1 TTAAATTAAAT
**
35337222 TTAAATTTTAT
1 TTAAATTAAAT
35337233 TTAAATTTAAAT
1 TTAAA-TTAAAT
**
35337245 TTATCTTAAAT
1 TTAAATTAAAT
*
35337256 TTAAATTTAA-
1 TTAAATTAAAT
* *
35337266 TT-ATTTAAAC
1 TTAAATTAAAT
**
35337276 TTACCTTAAAT
1 TTAAATTAAAT
*
35337287 TTAAATTAAAA
1 TTAAATTAAAT
35337298 TTAAA
1 TTAAA
35337303 ATTATAAAAC
Statistics
Matches: 60, Mismatches: 18, Indels: 6
0.71 0.21 0.07
Matches are distributed among these distances:
9 5 0.08
10 4 0.07
11 44 0.73
12 7 0.12
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:35337301 original size:17 final size:17
Alignment explanation
Indices: 35337233--35337333 Score: 50
Period size: 17 Copynumber: 6.1 Consensus size: 17
35337223 TAAATTTTAT
* **
35337233 TTAAATTTAAATTTATC
1 TTAAATTTAAATTAAAA
*
35337250 TTAAATTTAAATT-TAA
1 TTAAATTTAAATTAAAA
**
35337266 TT--ATTTAAACTT-ACC
1 TTAAATTTAAA-TTAAAA
35337281 TTAAATTTAAATTAAAA
1 TTAAATTTAAATTAAAA
** *
35337298 TTAAAATTATAAAACAAAT
1 TT-AAATT-TAAATTAAAA
*
35337317 TTAAACTT-AATTAAAA
1 TTAAATTTAAATTAAAA
35337333 T
1 T
35337334 AAAAATCTAA
Statistics
Matches: 63, Mismatches: 15, Indels: 13
0.69 0.16 0.14
Matches are distributed among these distances:
14 7 0.11
15 4 0.06
16 10 0.16
17 24 0.38
18 9 0.14
19 9 0.14
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATTTAAATTAAAA
Found at i:35337422 original size:27 final size:27
Alignment explanation
Indices: 35337392--35337460 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
35337382 ATTTACAAGG
35337392 GCCCAAAAGGCCCAATTACATTCAAAA
1 GCCCAAAAGGCCCAATTACATTCAAAA
*
35337419 GCCCAAAAGACCCAATTACATTCAAAA
1 GCCCAAAAGGCCCAATTACATTCAAAA
* *
35337446 -CCCGAATGGCCCAAT
1 GCCCAAAAGGCCCAAT
35337461 ATCTACCCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
26 12 0.32
27 26 0.68
ACGTcount: A:0.42, C:0.32, G:0.12, T:0.14
Consensus pattern (27 bp):
GCCCAAAAGGCCCAATTACATTCAAAA
Found at i:35339155 original size:59 final size:58
Alignment explanation
Indices: 35339088--35339866 Score: 939
Period size: 59 Copynumber: 13.3 Consensus size: 58
35339078 CCTGAACTAT
*
35339088 CCAAAAATTACCATTTTAGCCCCGAACTTTCCAAAATTCCATTTTTAACCACGATTTCA
1 CCAAAAATTACCATTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * *
35339147 CCAAAAATTACCATTTTAGCCCTGAACTTTCCAAAATTCCA-TTTTAACCCTGATTTTA
1 CCAAAAATTACCATTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
*
35339205 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAA-TCTCGTTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTA-CCCCGAACTTTCCAAAATTC-CATTTTTAACCCCGATTTCA
* * * *
35339264 CCGAAAATAACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCC-GAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * *
35339323 CCAAAATTTACCGTTTTAGCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* *
35339382 CCAAAAATTACCATTTTACCCTCGAACTTTCTAAAATTCCA-TTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCC-CGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* *
35339440 TCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCC-CGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * * *
35339499 TCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCTCGATTTTA
1 CCAAAAATTACCATTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
** * *
35339558 CCAAAAATTACCATTTTACACCTAAACTTTCCAAAA-TCTCATTTTTAACCCTGATTTTA
1 CCAAAAATTACCATTTTAC-CCCGAACTTTCCAAAATTC-CATTTTTAACCCCGATTTCA
* * ** * *
35339617 TCTAAAATTACCGGTTTATCCCTGAACTTTCCAAAATTCCCTTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
** *
35339676 CTGAAAATTACCATTTTAGCCCCGAACTTTCCAAAATTCCATTTTTAATCCCGATTTCA
1 CCAAAAATTACCATTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* ** **
35339735 TC-AAAATTACCATTTTACCCTTAAACTTTTGAAAATTCCA-TTTTAACCCCGA-TTCTA
1 CCAAAAATTACCATTTTACCC-CGAACTTTCCAAAATTCCATTTTTAACCCCGATTTC-A
* * *
35339792 CCAAAAATTACCATTTTATCCCCAAACTTTCCAAAATTCCCTTTTTAACCCTGAATTTTC-
1 CCAAAAATTACCATTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCCCG-A-TTTCA
35339852 CC-AAAATTA-CATTTT
1 CCAAAAATTACCATTTT
35339867 TGCCCCTCGA
Statistics
Matches: 628, Mismatches: 72, Indels: 41
0.85 0.10 0.06
Matches are distributed among these distances:
56 3 0.00
57 18 0.03
58 178 0.28
59 413 0.66
60 13 0.02
62 3 0.00
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:35339429 original size:176 final size:176
Alignment explanation
Indices: 35339088--35339872 Score: 989
Period size: 176 Copynumber: 4.5 Consensus size: 176
35339078 CCTGAACTAT
*
35339088 CCAAAAATTACCATTTTAGCCCC-GAACTTTCCAAAATTCCATTTTTAACCACGATTTCACCAAA
1 CCAAAAATTACCATTTTA-CCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAA
* * *
35339152 AATTACCATTTTAGCCCTGAACTTTCCAAAATTCCA-TTTTAACCCTGATTTTACCAAAAATTAC
65 AATTACCATTTTAGCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTAC
* * **
35339216 CATTTTACCCCCGAACTTTCCAAAATCTCGTTTTTAACCCCGATTTCA
130 CATTTTACCCTCAAACTTTCCAAAAT-TCCATTTTAACCCCGATTTCA
* * * *
35339264 CCGAAAATAACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTTAACCCCGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
* * * *
35339329 TTTACCGTTTTAGCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACC
66 ATTACCATTTTAGCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACC
* * *
35339394 ATTTTACCCTCGAACTTTCTAAAATTCCATTTTAACCCCAATTTCA
131 ATTTTACCCTCAAACTTTCCAAAATTCCATTTTAACCCCGATTTCA
* * *
35339440 TCAAAAATTACCATTTTA-CCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCATCAAA
1 CCAAAAATTACCATTTTACCCCT-GAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAA
* * * * *
35339504 AATTACCATTTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCTCGATTTTACCAAAAATTAC
65 AATTACCATTTTAGCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTAC
* *
35339569 CATTTTACACCT-AAACTTTCCAAAA-TCTCATTTTTAACCCTGATTTTA
130 CATTTTAC-CCTCAAACTTTCCAAAATTC-CA-TTTTAACCCCGATTTCA
* * ** * * **
35339617 TCTAAAATTACCGGTTTATCCCTGAACTTTCCAAAATTCCCTTTTTAACCCCGATTTCACTGAAA
1 CCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
* *
35339682 ATTACCATTTTAGCCCCGAACTTTCCAAAATTCCATTTTTAATCCCGATTTCATC-AAAATTACC
66 ATTACCATTTTAGCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACC
* **
35339746 ATTTTACCCTTAAACTTTTGAAAATTCCATTTTAACCCCGA-TTCTA
131 ATTTTACCCTCAAACTTTCCAAAATTCCATTTTAACCCCGATTTC-A
* * *
35339792 CCAAAAATTACCATTTTATCCCC-AAACTTTCCAAAATTCCCTTTTTAACCCTGAATTTTC-CC-
1 CCAAAAATTACCATTTTA-CCCCTGAACTTTCCAAAATTCCATTTTTAACCCCG-A-TTTCACCA
*
35339854 AAAATTA-CATTTTTGCCCC
63 AAAATTACCATTTTAGCCCC
35339873 TCGAGAGTCA
Statistics
Matches: 530, Mismatches: 66, Indels: 28
0.85 0.11 0.04
Matches are distributed among these distances:
174 13 0.02
175 74 0.14
176 266 0.50
177 173 0.33
178 4 0.01
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.35
Consensus pattern (176 bp):
CCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
ATTACCATTTTAGCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACC
ATTTTACCCTCAAACTTTCCAAAATTCCATTTTAACCCCGATTTCA
Found at i:35339514 original size:235 final size:232
Alignment explanation
Indices: 35339088--35339871 Score: 1019
Period size: 235 Copynumber: 3.3 Consensus size: 232
35339078 CCTGAACTAT
* * *
35339088 CCAAAAATTACCATTTTAGCCCCGAACTTTCCAAAATTCCATTTTTAACCACGATTTCACCAAAA
1 CCAAAAATTACCATTTTAGCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAA
* *
35339153 ATTACCATTTTAGCCCTGAACTTTCCAAAATTCCATTTTAACCCTGATTTTACCAAAAATTACCA
66 ATTACCATTTTAGCCCTGAACTTTCCAAAATTCCATTTTAACCCCGATTTCA-CAAAAATTACCA
* * * *
35339218 TTTTACCCCCGAACTTTCCAAAATCTCGTTTTTAACCCCGATTTCACCGAAAATAACCATTTTAC
130 TTTTA-CCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCATC-AAAATTACCATTTTAC
35339283 CCCTAAACTTTCCAAAATTTCATTTTTAACCCCGATTTCA
193 CCCTAAACTTTCCAAAATTTCATTTTTAACCCCGATTTCA
* * * *
35339323 CCAAAATTTACCGTTTTAGCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAA
1 CCAAAAATTACCATTTTAGCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAA
* *
35339388 ATTACCATTTTA-CCCTCGAACTTTCTAAAATTCCATTTTAACCCCAATTTCATCAAAAATTACC
66 ATTACCATTTTAGCCCT-GAACTTTCCAAAATTCCATTTTAACCCCGATTTCA-CAAAAATTACC
35339452 ATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCATCAAAAATTACCATTTTA
129 ATTTTACCC-CGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCATC-AAAATTACCATTTTA
* * *
35339517 CCCCCAAACTTTCCAAAA-TTCTATTTTTAACCTCGATTTTA
192 CCCCTAAACTTTCCAAAATTTC-ATTTTTAACCCCGATTTCA
* * * * * *
35339558 CCAAAAATTACCATTTTA-CACCTAAACTTTCCAAAATCTCATTTTTAACCCTGATTTTATCTAA
1 CCAAAAATTACCATTTTAGC-CCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAA
** * * *
35339622 AATTACCGGTTTATCCCTGAACTTTCCAAAATTCCCTTTTTAACCCCGATTTCACTGAAAATTAC
65 AATTACCATTTTAGCCCTGAACTTTCCAAAATT-CCATTTTAACCCCGATTTCAC-AAAAATTAC
* *
35339687 CATTTTAGCCCCGAACTTTCCAAAATTCCATTTTTAATCCCGATTTCATCAAAATTACCATTTTA
128 CATTTTA-CCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCATCAAAATTACCATTTTA
* ** *
35339752 CCCTTAAACTTTTGAAAATTCCA-TTTTAACCCCGA-TTCTA
192 CCCCTAAACTTTCCAAAATTTCATTTTTAACCCCGATTTC-A
* *
35339792 CCAAAAATTACCATTTTATCCCCAAACTTTCCAAAATTCCC-TTTTTAACCCTGAATTTTC-CC-
1 CCAAAAATTACCATTTTAGCCCCAAACTTTCCAAAA-TCCCATTTTTAACCCCG-A-TTTCACCA
*
35339854 AAAATTA-CATTTTTGCCC
63 AAAATTACCATTTTAGCCC
35339872 CTCGAGAGTC
Statistics
Matches: 484, Mismatches: 51, Indels: 30
0.86 0.09 0.05
Matches are distributed among these distances:
233 9 0.02
234 75 0.15
235 318 0.66
236 79 0.16
237 3 0.01
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.35
Consensus pattern (232 bp):
CCAAAAATTACCATTTTAGCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAA
ATTACCATTTTAGCCCTGAACTTTCCAAAATTCCATTTTAACCCCGATTTCACAAAAATTACCAT
TTTACCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCATCAAAATTACCATTTTACCCC
TAAACTTTCCAAAATTTCATTTTTAACCCCGATTTCA
Found at i:35339646 original size:294 final size:292
Alignment explanation
Indices: 35339088--35339866 Score: 1092
Period size: 294 Copynumber: 2.7 Consensus size: 292
35339078 CCTGAACTAT
* *
35339088 CCAAAAATTACCATTTTAGCCCCGAACTTTCCAAAATTCCATTTTTAACCACGATTTCACCAAAA
1 CCAAAAATTACCATTTTAGCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAA
* *
35339153 ATTACCATTTTAGCCCTGAACTTTCCAAAATTCCATTTTAACCCTGATTTTACCAAAAATTACCA
66 ATTACCATTTTA-CCCTGAACTTTCCAAAATTCCATTTTAACCCCGATTTCACCAAAAATTACCA
* * * * *
35339218 TTTTACCCCCGAACTTTCCAAAA-TCTCGTTTTTAACCCCGATTTCACCGAAAATAACCATTTTA
130 TTTTACCCCCAAACTTTCCAAAATTCT-ATTTTTAA-CCCGATTTTACCAAAAATTACCATTTTA
* * * *
35339282 CCCCTAAACTTTCCAAAATTTCATTTTTAACCCCGATTTCACCAAAATTTACCGTTTTAGCCTCG
193 CACCTAAACTTTCCAAAATCTCATTTTTAACCCCGATTTCACCAAAATTTACCGGTTTACCCTCG
35339347 AACTTTCCAAAA-TCCCATTTTTAACCCCGATTTCA
258 AACTTTCCAAAATTCCC-TTTTTAACCCCGATTTCA
* *
35339382 CCAAAAATTACCATTTTA-CCCTCGAACTTTCTAAAATTCCA-TTTTAACCCCAATTTCATCAAA
1 CCAAAAATTACCATTTTAGCCC-CGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCAAA
* *
35339445 AATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCATCAAAAATTAC
65 AATTACCATTTTACCCT-GAACTTTCCAAAATTCCA-TTTTAACCCCGATTTCACCAAAAATTAC
35339510 CATTTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCTCGATTTTACCAAAAATTACCATTTT
128 CATTTTACCCCCAAACTTTCCAAAATTCTATTTTTAACC-CGATTTTACCAAAAATTACCATTTT
* * *
35339575 ACACCTAAACTTTCCAAAATCTCATTTTTAACCCTGATTTTATCTAAAA-TTACCGGTTTATCCC
192 ACACCTAAACTTTCCAAAATCTCATTTTTAACCCCGATTTCA-CCAAAATTTACCGGTTTA-CCC
35339639 T-GAACTTTCCAAAATTCCCTTTTTAACCCCGATTTCA
255 TCGAACTTTCCAAAATTCCCTTTTTAACCCCGATTTCA
** *
35339676 CTGAAAATTACCATTTTAGCCCCGAACTTTCCAAAATTCCATTTTTAATCCCGATTTCATC-AAA
1 CCAAAAATTACCATTTTAGCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAA
* **
35339740 ATTACCATTTTACCCTTAAACTTTTGAAAATTCCATTTTAACCCCGA-TTCTACCAAAAATTACC
66 ATTACCATTTTACCC-TGAACTTTCCAAAATTCCATTTTAACCCCGATTTC-ACCAAAAATTACC
* ** *
35339804 ATTTTATCCCCAAACTTTCCAAAATTCCCTTTTTAACCCTGAATTTT-CCCAAAATTA-CATTTT
129 ATTTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCC-G-ATTTTACCAAAAATTACCATTTT
35339867 TGCCCCTCGA
Statistics
Matches: 437, Mismatches: 34, Indels: 30
0.87 0.07 0.06
Matches are distributed among these distances:
292 14 0.03
293 123 0.28
294 264 0.60
295 36 0.08
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (292 bp):
CCAAAAATTACCATTTTAGCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAA
ATTACCATTTTACCCTGAACTTTCCAAAATTCCATTTTAACCCCGATTTCACCAAAAATTACCAT
TTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCCGATTTTACCAAAAATTACCATTTTACAC
CTAAACTTTCCAAAATCTCATTTTTAACCCCGATTTCACCAAAATTTACCGGTTTACCCTCGAAC
TTTCCAAAATTCCCTTTTTAACCCCGATTTCA
Done.